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reference predict_h11814 (Jan 22, 2001 06:49:59) reference pred_h11814 (Jan 22, 2001 06:50:05) PPhdr from: pagomez@cnb.uam.es PPhdr resp: MAIL PPhdr orig: HTML PPhdr want: HTML PPhdr password(###) prediction of: - threading (TOPITS)- return msf format ret topits hssp ret topits strip ret topits own ret html ret html perline=60 # default: single protein sequence description=curso1 RLSWYDPDFQARLTRSNSKCQGQLEV YLKDGWHMVC SQSWGRSSKQWEDPSQASKVCQRLNCGVPLSLGPFLV TYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE
-------------------------------------------------------------
Pattern-ID: ASN_GLYCOSYLATION PS00001 PDOC00001
Pattern-DE: N-glycosylation site
Pattern: N[^P][ST][^P]
92 NCSH
Pattern-ID: PKC_PHOSPHO_SITE PS00005 PDOC00005
Pattern-DE: Protein kinase C phosphorylation site
Pattern: [ST].[RK]
43 SSK
Pattern-ID: CK2_PHOSPHO_SITE PS00006 PDOC00006
Pattern-DE: Casein kinase II phosphorylation site
Pattern: [ST].{2}[DE]
3 SWYD
96 SRND
107 TCLE
Pattern-ID: MYRISTYL PS00008 PDOC00008
Pattern-DE: N-myristoylation site
Pattern: G[^EDRKHPFYW].{2}[STAGCN][^P]
63 GVPLSL
85 GQLGSF
Identities computed with respect to: (query) prot Colored by: consensus/70% and property
HSP processing: ranked
1 [ . . . . : . 60
prot RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL
1 PD012755 QLSWEDPGLQMRLSGSGCRCQGQLEVQMSSRWHPVCSQSWGGVSPYWKNPRQAGKVCQQL
2 PD002499 ------PKGQIRLVGGSSPCEGRVEVHMRGQWGTVCDSNWTRSEAQWE--AQWEVVCREL
consensus/100% ......PthQhRLstuss.CpGplEV.hpstWt.VCspsWstsp..Wc..tQhthVCppL
consensus/90% ......PthQhRLstuss.CpGplEV.hpstWt.VCspsWstsp..Wc..tQhthVCppL
consensus/80% ......PthQhRLstuss.CpGplEV.hpstWt.VCspsWstsp..Wc..tQhthVCppL
consensus/70% ......PthQhRLstuss.CpGplEV.hpstWt.VCspsWstsp..Wc..tQhthVCppL
61 . . . 1 ] 110
prot NCGVPLSLGPFLVTYTPQSSIICYGQXXSFSNCSHSRNDMCHSLGLTCLE
1 PD012755 GCRPPLKLGSAPPDYEPQWAIICHGQ--SFSNCNHSRNDQCHSLGLICLE
2 PD002499 GCGDAVSV------------------------------------------
consensus/100% sCtsslpl.................. ......................
consensus/90% sCtsslpl.................. ......................
consensus/80% sCtsslpl.................. ......................
consensus/70% sCtsslpl.................. ......................
|
--- ------------------------------------------------------------ --- --- Again: these results were obtained based on the domain data- --- base collected by Daniel Kahn and his coworkers in Toulouse. --- --- PLEASE quote: --- F Corpet, J Gouzy, D Kahn (1998). The ProDom database --- of protein domain families. Nucleic Ac Res 26:323-326. --- --- The general WWW page is on: ---- --------------------------------------- --- http://www.toulouse.inra.fr/prodom.html ---- --------------------------------------- --- --- For WWW graphic interfaces to PRODOM, in particular for your --- protein family, follow the following links (each line is ONE --- single link for your protein!!): --- http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD012755 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD012755 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD012755 ==> graphical output of all proteins having domain PD012755 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD002499 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD002499 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD002499 ==> graphical output of all proteins having domain PD002499 --- --- NOTE: if you want to use the link, make sure the entire line --- is pasted as URL into your browser! --- --- END of PRODOM --- ------------------------------------------------------------
--- ------------------------------------------------------------ --- MAXHOM multiple sequence alignment --- ------------------------------------------------------------ --- --- MAXHOM ALIGNMENT HEADER: ABBREVIATIONS FOR SUMMARY --- ID : identifier of aligned (homologous) protein --- STRID : PDB identifier (only for known structures) --- IDE : percentage of pairwise sequence identity --- WSIM : percentage of weighted similarity --- LALI : number of residues aligned --- NGAP : number of insertions and deletions (indels) --- LGAP : number of residues in all indels --- LSEQ2 : length of aligned sequence --- ACCNUM : SwissProt accession number --- OMIM : OMIM (Online Mendelian Inheritance in Man) ID --- NAME : one-line description of aligned protein --- --- MAXHOM ALIGNMENT HEADER: SUMMARY ID STRID IDE WSIM LALI NGAP LGAP LSEQ2 ACCNUM OMIM NAME cd5_human 100 100 110 0 0 495 P06127 153340 T1/LEU-1) (LYMPHOCYTE ANT cd5_rat 48 60 100 1 1 491 P51882 1) (LYT-1) (LYMPHOCYTE AN cd5_mouse 48 60 103 1 1 494 P13379 1) (LYT-1) (LYMPHOCYTE AN cd5_bovin 46 54 109 1 2 495 P19238 T1/LEU-1) (LYMPHOCYTE ANT cd6_human 34 39 90 3 12 468 P30203 186720 T-CELL DIFFERENTIATION AN wc11_bovin 34 42 76 2 13 1436 P30205 ANTIGEN WC1.1. netr_mouse 28 31 98 2 11 761 O08762 PROTEASE 3) (BSSP-3). netr_human 25 26 105 3 12 875 P56730 NEUROTRYPSIN PRECURSOR (E --- --- MAXHOM ALIGNMENT: IN MSF FORMAT
--- --- Version of database searched for alignment: --- SWISS-PROT release 39.0 (5/00) with 85 249 proteins ---
Identities computed with respect to: (1) predict_h1180 Colored by: consensus/70% and property
1 [ . . . . : . 60
1 predict_h1180 RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL
2 cd5_human RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL
3 cd5_rat ---------QVMLSGSNSKCQGLVEVQM-NGMKTVCSSSWRLSQDLWKNANEASTVCQQL
4 cd5_mouse -------DIQVMLSGSNSKCQGQVEIQMENKWKTVCSSSWRLSQDHSKNAQQASAVCKQL
5 cd5_bovin -LKVEVQGLTMRLSGSGSRCQGRLEVSNGTEWYAVHSQSWGQLSLYQVAPRQFLKLCQEL
6 cd6_human -----------RLTGGADRCEGQVEVHFRGVWNTVCDSEWY--------PSEAKVLCQSL
7 wc11_bovin ---------KLRLRGGDSECSGRVEVWHNGSWGTVCDDSWSLA--------EAEVVCQQL
8 netr_mouse -------DGVIRLAGGKSTHEGRLEVYYKGQWGTVCDDGWTEMNTYVakYGKQSSVNHFD
9 netr_human RLSL---GFPVRLMDGENKKEGRVEVFINGQWGTICDDGWTDKDAayKGPARARTMAYFG
consensus/100% ...........hL.tutspppG.lEl...s.h.hlpsptW...........p...hs...
consensus/90% ...........hL.tutspppG.lEl...s.h.hlpsptW...........p...hs...
consensus/80% ..........hhLttutscppGplEV.htstWthVCspuWt.........tptphlsp.h
consensus/70% ..........hRLssusS+CpGplEV.hpstWtsVCspuWt..p....tstpAptlCppL
61 . . . 1 ] 110
1 predict_h1180 NCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE
2 cd5_human NCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE
3 cd5_rat GCGNPLALGHLTLWNRPKNQILCQGPPWSFSNCSTSSLGQCLPLSLVCLE
4 cd5_mouse RCGDPLALGPFPSLNRPQNQVFCQGSPWSISNCNnsSQDQCLPLSLICLE
5 cd5_bovin QCRDPLLLSsyFKEVQFQKLIICHGQLGSFSNCSLNRGRQVDSLALICLE
6 cd6_human GCGTAVERPKGLpsLSGRMYYSCNGEELTLSNCSWRFNncSQSLAARVL-
7 wc11_bovin GCGQALEAVRSAAFGPGNGSiqCGGRESSLWDC-----------------
8 netr_mouse GSNRPIWLDDVSCSGKEVSFIQCSRRQWGRHDCSHRED-----VGLTCYP
9 netr_human EGKGPIHVDNVKCTGNERSLADCIKQDIGRHNCRHSEDaiCDYFG-----
consensus/100% tst.sl.hs...........h.C.t...sh.sC.................
consensus/90% tst.sl.hs...........h.C.t...sh.sC.................
consensus/80% tst.sl.hs.h....p.pt.h.C.tp.huhpsCp.p.......hu.....
consensus/70% tCssPltls.hhs.hp.ps.l.C.Gp.hohpNCshpptt.s..luhhsh.
|
**************************************************************************** * * * PHD: Profile fed neural network systems from HeiDelberg * * ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ * * * * Prediction of: * * secondary structure, by PHDsec * * solvent accessibility, by PHDacc * * and helical transmembrane regions, by PHDhtm * * * * Author: * * Burkhard Rost * * EMBL, 69012 Heidelberg, Germany * * Internet: Rost@EMBL-Heidelberg.DE * * * * All rights reserved. * * * **************************************************************************** * * * The network systems are described in: * * * * PHDsec: B Rost & C Sander: JMB, 1993, 232, 584-599. * * B Rost & C Sander: Proteins, 1994, 19, 55-72. * * PHDacc: B Rost & C Sander: Proteins, 1994, 20, 216-226. * * PHDhtm: B Rost et al.: Prot. Science, 1995, 4, 521-533. * * * ****************************************************************************
| %H: 14.6 | %E: 33.6 | %L: 51.8 |
| %A: 1.8 | %C: 7.3 | %D: 4.5 | %E: 2.7 | %F: 2.7 |
| %G: 7.3 | %H: 2.7 | %I: 1.8 | %K: 3.6 | %L: 10.9 |
| %M: 1.8 | %N: 3.6 | %P: 4.5 | %Q: 8.2 | %R: 5.5 |
| %S: 15.4 | %T: 3.6 | %V: 4.5 | %W: 3.6 | %Y: 3.6 |
| AA : | amino acid sequence | |
| PHD_sec: | PHD predicted secondary structure: H=helix, E=extended (sheet), blank=other (loop) PHD = PHD: Profile network prediction HeiDelberg | |
| Rel_sec: | reliability index for PHDsec prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' | |
| SUB_sec: | subset of the PHDsec prediction, for all residues with an expected average accuracy > 82% (tables in header) NOTE: for this subset the following symbols are used: L: is loop (for which above ' ' is used) .: means that no prediction is made for this residue, as the reliability is: Rel < 5 | |
| pH_sec: | 'probability' for assigning helix (1=high, 0=low) | |
| pE_sec: | 'probability' for assigning strand (1=high, 0=low) | |
| pL_sec: | 'probability' for assigning neither helix, nor strand (1=high, 0=low) | |
| P_3_acc: | PHD predicted relative solvent accessibility (acc) in 3 states: b = 0-9%, i = 9-36%, e = 36-100%. | |
| Rel_acc: | reliability index for PHDacc prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' | |
| SUB_acc: | subset of the PHDacc prediction, for all residues with an expected average correlation > 0.69 (tables in header) NOTE: for this subset the following symbols are used: I: is intermediate (for which above ' ' is used) .: means that no prediction is made for this residue, as the reliability is: Rel < 4 | |
| PHD_acc: | PHD predicted relative solvent accessibility (acc) in 10 states: a value of n (=0-9) corresponds to a relative acc. of between n*n % and (n+1)*(n+1) % (e.g. for n=5: 16-25%). |
PHD results (brief)....,....1....,....2....,....3....,....4....,....5....,....6 AA RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL PHD_sec EEEEE EEEE EEEEEEE EEEEEE HHHHHH HHHHHHHHHH Rel_sec * *** ** **** ******* ****** * ***** *** * ******* P_3_acc ebebeeeebebbbeeeebebebebbbbbeeebebbbbebbeebeeeeeeeeebeebbeeb Rel_acc * * * * * *** * ** ....,....11...,....12...,....13...,....14...,....15 AA NCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE PHD_sec EEE EEEEEE EE EEEE Rel_sec **** *** *** ***** **** *********** ** * P_3_acc ebe bbebeebeeeeeeebbbbbebee bbbbbeeeeeeebebbbbbbbe Rel_acc * * * *** * *
PHD results (normal) ....,....1....,....2....,....3....,....4....,....5....,....6 AA RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL PHD_sec EEEEE EEEE EEEEEEE EEEEEE HHHHHH HHHHHHHHHH Rel_sec 905673682798616998786289999517477897423121347860614699998543 SUB_sec L.EEE.LL.EEEE.LLLLLLL.EEEEEE.L.EEEEE........HHH.L..HHHHHHH.. P_3_acc ebebeeeebebbbeeeebebebebbbbbeeebebbbbebbeebeeeeeeeeebeebbeeb Rel_acc 031010101180610110211618090221021485000210013103203251066011 SUB_acc ..........b.b........b.b.b.......bbb................b..bb... ....,....11...,....12...,....13...,....14...,....15 AA NCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE PHD_sec EEE EEEEEE EE EEEE Rel_sec 77883432586334598459998165553113788899875774145639 SUB_sec LLLL....LLL...LLL.EEEEE.LLLL....LLLLLLLLLLL...EE.L P_3_acc ebe bbebeebeeeeeeebbbbbebee bbbbbeeeeeeebebbbbbbbe Rel_acc 12102302020001022100607101202001600111103016560514 SUB_acc ....................b.b.........b..........bbb.b.e
--- --- GLOBE: prediction of protein globularity --- --- nexp = 60 (number of predicted exposed residues) --- nfit = 55 (number of expected exposed residues --- diff = 5.00 (difference nexp-nfit) --- =====> your protein appears as compact, as a globular domain --- --- --- GLOBE: further explanations preliminaryily in: --- http://www.columbia.edu/~rost/Papers/98globe.html --- --- END of GLOBE
---
--- ------------------------------------------------------------
--- TOPITS prediction-based threading
--- ------------------------------------------------------------
---
--- TOPITS ALIGNMENTS HEADER: PARAMETERS
--- str:seq= 50 : structure (sec str, acc)= 50%, sequence= 50%
--- str:seq = 50 : weight structure/sequence,i.e. str= 50%, seq= 50%
--- smin = -1.00 : minimal value of alignment metric
--- smax = 2.00 : maximal value of alignment metric
--- go = 2 : gap open penalty
--- ge = 0.2 : gap elongation penalty
--- len1 = 110 : length of search sequence, i.e., your protein
---
--- TOPITS ALIGNMENTS HEADER: ABBREVIATIONS
--- RANK : rank in alignment list, sorted according to z-score
--- EALI : alignment score
--- LALI : length of alignment
--- IDEL : number of residues inserted
--- NDEL : number of insertions
--- ZALI : alignment zcore; note: hits with z>3 more reliable
--- PIDE : percentage of pairwise sequence identity
--- LEN2 : length of aligned protein structure
--- ID2 : PDB identifier of aligned structure
--- NAME2 : name of aligned protein structure
--- IFIR : position of first residue of search sequence
--- ILAS : position of last residue of search sequence
--- JFIR : PDB position of first residue of remote homologue
--- JLAS : PDB position of last residue of remote homologue
---
--- TOPITS ALIGNMENTS HEADER: ACCURACY
--- : Tested on 80 proteins, TOPITS found the
--- : correct remote homologue in about 30% of
--- : the cases, detection accuracy was higher
--- : for higher z-scores (ZALI):
--- ZALI>0 : 1st hit correct in 33% of cases
--- ZALI>3 : 1st hit correct in 50% of cases
--- ZALI>3.5 : 1st hit correct in 60% of cases
---
--- TOPITS ALIGNMENTS HEADER: SUMMARY
RANK EALI LALI IDEL NDEL ZALI PIDE LEN2 ID2 NAME2
1 42.73 105 27 9 2.74 31 339 1qr7_A OL_ID: 1;
2 42.53 91 32 8 2.71 37 113 1by2 _ID: 1;
3 39.07 105 28 10 2.25 27 452 1ivy_A OL_ID: 1;
4 38.80 102 45 9 2.22 28 202 1tcr_A OL_ID: 1;
5 37.67 93 23 8 2.07 32 618 1qsa_A OL_ID: 1;
6 37.53 109 68 14 2.05 37 364 1a6q _ID: 1;
7 37.47 105 43 12 2.04 34 444 1igt_B OL_ID: 1;
8 36.40 95 49 11 1.90 36 483 1ac5 _ID: 1;
9 36.33 99 23 8 1.89 30 160 1ext_A OL_ID: 1;
10 36.27 107 54 12 1.88 33 228 1nfp XF GENE PRODUCT (NONFLUOR
11 36.27 105 69 17 1.88 40 308 4pah L_ID: 1;
12 35.80 103 67 16 1.82 40 757 1kit L_ID: 1;
13 35.47 98 38 12 1.77 37 650 1lox L_ID: 1;
14 35.40 93 24 11 1.77 31 289 1d5y_A MOL_ID: 1;
15 35.33 108 55 15 1.76 34 639 1cx8_B MOL_ID: 1;
16 35.27 102 27 10 1.75 32 446 1be3_A MOL_ID: 1;
17 35.20 99 16 7 1.74 23 502 1gpm_A MOL_ID: 1;
18 35.20 102 23 4 1.74 20 414 1ajs_A MOL_ID: 1;
19 35.00 104 40 10 1.71 28 746 1lvk L_ID: 1;
20 34.93 94 26 9 1.70 31 267 1abr_B ABRIN-A COMPLEXED WITH TW
---
--- TOPITS ALIGNMENTS HEADER: PDB_POSITIONS FOR ALIGNED PAIR
RANK PIDE IFIR ILAS JFIR JLAS LALI LEN2 ID2
---
--- TOPITS ALIGNMENTS: SYMBOLS AND EXPLANATIONS
--- BLOCK 1 : your protein and its predicted 1D structure,
--- : i.e., secondary structure and solvent accessibility
--- line 1 : amino acid sequence (one-letter-code)
--- line 2 : predicted secondary structure:
--- H : helix
--- E : strand (extended)
--- L : other (no regular secondary structure)
--- line 3 : predicted residue relative solvent accessibility
--- B : buried, i.e., relative accessibility < 15%
--- O : exposed (outside), i.e., relative accessibility >= 15%
--- :
--- BLOCKS 1-20 : 20 best hits of the prediction-based threading
--- ATTENTION : We chose to include all first 20 hit. However,
--- ATTENTION : most of them will not constitute true remote
--- ATTENTION : homologues. Instead, all hits with a zscore
--- ATTENTION : (ZALI) < 3.5 are, at best, rather speculative!
--- : for each aligned protein:
--- line 1 : amino acids conserved between guide (yours) and the
--- : aligned protein (putative homologue)
--- line 1 : sequence of aligned protein
--- line 3 : secondary structure, taken from DSSP (assignment
--- : of secondary structure based on experimental coordinates)
--- line 4 : relative solvent accessibility, taken from DSSP
---
--- TOPITS ALIGNMENTS
1 - 51 ....:....1....:....2....:....3....:....4....:....5
pred RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPS
EEEEE EEEE EEEEEEE EEEEEE HHHHHH HH
OBOBOOOOBOBBBOOOOBOBOBOBBBBBOOOBOBBBBOBBOOBOOOOOOOO
1. 1qr7_A 42.73 RlsIHDpeYATRLLALREELKDELevYFEkgWKGLINDPHMDNSFQINDGL
LELLLLHHHHHHHHHHHHHHLLLEELLLLLLLLLLLLLLLLLLLLLHHHHH
D D RL QG E W VC W D
2. 1by2 42.53 DGDM..RLADGGATNQGRVEIFYRGQWGTVCDNLW........DLT
LLLE..EEELLLLLLEEEEEEEELLEEEEEELLLL........LHH
S D F A T Q E L D K E P
3. 1ivy_A 39.07 FSYSDDKFYA..TNDTEVAQSNFEA.LQDFFRLF..PEY.KNNKLfespT
LLEELLLLLL..LEHHHHHHHHHHH.HHHHHHHL..HHH.LLLLEEELHH
L Y DF A SNS V D C S G K DPS
4. 1tcr_A 38.80 LKYYSGdfEAEFSKSNSshLRKASVHWSDSAVYFCAVsfGSGTkaLKDps
EEELLLLEEEEEELLLLEEEEELLLLHHHLEEEEEEEEELLLEEEEELLL
L D ARL S SK Q QL Y Q W S
5. 1qsa_A 37.67 LMYWNLDNTArlVKSKSKtqAQLARY...AFN...NQWWDLS....VQAT
HHHLLLHHHHHHHLLLLHHHHHHHHH...HHH...LLLHHHH....HHHH
R D R RS S G L C S GR KQ PS
6. 1a6q 37.53 RTGFLEIDEHMRvdRSGSTAVGVL.ISPQHTYFINCGDSRgrNRkqDHKPS
HHHHHHHHHHHHHLLLEELEEEEE.ELLLEEEEEEELLLEEELLELLLLLL
RL WY PD R TR N K L LKD C WG SS PS
7. 1igt_B 37.47 RLEwyYPdvKGRFtrDNAKNTLYLQMslkdTAMYYCAryWGqsSAKTTAPs
LEEEELLHHLLLEEEELLLLEEEEEELLLHLEEEEEEEEEELLLLLLELLE
S Y P F A L SK G L L GW QS S
8. 1ac5 36.40 SyyIPFfnAILNHNksKIDgdLKALlgNGWIDPNTQsiDESNPNFKHLT
ELHHHHHHHHHHHHHLLLLLEEEEEEEEELLLHHHHHLLLLLLLHHHHH
S R S SKC GQ E D VC G Q
9. 1ext_A 36.33 SFTASENHLRHCLSCSKCrgQVEIstVD.RDTVC....GCRKNQYRH.Y
EELLLLELLLLLEELLLLLLLEEEEELL.ELLEE....ELLLLEEEE.E
S YD F L V L H K W D
10. 1nfp 36.27 SIYdvAFSEHHIDKSYNDETKLavSLGKQIHVLAteTVVKAAkkWDDSQ
LLEEEEEELLLLLLELLLLLELLEEELLEEEEELLHHHHHHHHLLLLLH
DP AR N GQ E Y K W VC KQ ED S
11. 4pah 36.27 HPGFKDPVYRARRKqyNYR.HGqvE.YmkKTWGTvcnHIFPLLEkqLEDVS
LLLLLLHHHHHHHHHHHLL.LLLLL.LLHHHHHHHLHHHHHHHHHLHHHHH
S Y P LTR S QG L Y D V S WG SS E PS
12. 1kit 35.80 MSLygPGHGITLTRQqsGSqgRL.IyvLDRFFlvMssNwgkSSSILeePS
EEEELLLLLEELLLLLLLLLLLE.EEEELLLLEEEELLLEEELLEEELEE
S Y D RL S QG Y KD QSW R
13. 1lox 35.47 SFYAQD.ALRLWEIISrvQGIMGLYYkdDLEL...QSWCREITEIGL.Q
LHHHHH.HHHHHHHHHHHHHHHLLLLLLLHHH...HHHHHHHHLLLL.L
RLS RLT L L Q R KQ P
14. 1d5y_A 35.40 RLSKSAVAL..RLTA.....RPILDIALQ..YRFDSQQTFTRakKQfqTPa
HHHHHHHHH..HHLL.....LLHHHHHHH..LLLLLHHHHHHHHHHHLLHH
LSW D FQ NSK G L VYL G V G K EDP
15. 1cx8_B 35.33 KLswRDQHfqVKDSAQNsk.NGRL.VYLVegykLVHA.NFG.TKKDFEdpV
LLLLEEEEEEEELLLLLEL.LLLL.LLLLELLLEEEL.LLL.LLLLLLLLL
LS YD D L S C G DG W P
16. 1be3_A 35.27 LstYDEDAVPTL....SPCrgSQICHREDGLPLA.HVAIAVEGPGWAHPD
LLLLLLLLLLLL....LLLLLEEEEEEELLLLLE.EEEEELLLLLLLLLH
Y F T LE D C W K D
17. 1gpm_A 35.20 RFYGVQFHPEVTHTRQGMR.MLERFVRD..ICQCEALW.TPAKIIDDae
LEEEELELLLLLLLLLHHH.HHHHHHHL..LLLLLLLL.LHHHHHHHHH
D Q K G C QS S
18. 1ajs_A 35.20 FPFFDSAYQGFASGNLEKDAWAIRYFVSEGFELFCAQSFSKNFGLYNErs
EEEEEELLLLLLLLLHHHHLHHHHHHHHLLLLEEEEEELLLLLLLHHHLH
R WY PD R C G D S R K D
19. 1lvk 35.00 RYIWYNPD...PKERDSYEC.GEIVSETSDSFTFKTSDGQDRQVKK.DDAN
LEEEELLL...LLLLLLLEE.EEEEEELLLEEEEELLLLLEEEEEH.HHLE
P L S G L VYL GW S S D
20. 1abr_B 34.93 TIINPKSALVLSAESSSMGGTLTvylrQGWRTGNNTsfVTSISGYSdqA
LEEELLLLEEEELLLLLLLLELEELLHHLLEELLLLLEEELEELHHHEE
---
--- TOPITS ALIGNMENTS CONTINUED
---
1. 1qr7_A 42.73 LraRKLLLDInsGLP.AAGEFLDMITPqaDLMSWGAIGARTTESQVHREL.
HHHHHHHHHHHLLLL.EEEELLLLLLHHHHHLLEEEELHHHLLLHHHHHH.
AS VC LN L GP T T S C LG SNC H R
2. 1by2 42.53 TDASVVCRAlnATQAlgSGPIMltGTEASLADC.KSLGWlsNCRHERDA..
HHHHHHHHHLLEEEEELLLLEEELLLLLLHHHL.ELLLLLLLLLHHHEL..
A V Q L G L Y YG LG S CS
3. 1ivy_A 39.07 TLAVLVMQDPSMNlgLAVGNGLSSYEQNDNSLVygLLGnwSscSQNKCNFY
HHHHHHLLLLLLLEEEEEELLLLEHHHHHHHHHHLLLLHHHHEELLEELLL
SQ S C N VP T S SN
4. 1tcr_A 38.80 sQDSTLcsQIN..VPKTMES..GTFITDATVLDMKAMDSKSNGAIAWSN..
LLLLEEELLLL..LLLLLLL..LEEELLLEEEELLLLLLEEEEEEEEEL..
A K L PL YTPQS S N
5. 1qsa_A 37.67 TIAGKLWDHLEERFPLAYNDLFKRYtpQSYAMAIARQESAWN.PKVKSPVG
HHHLLLLLLHHHHLLLLLHHHHHHHHLHHHHHHHHHHHHLLL.LLLELLLL
S S QR N SLG FLV P SIIC G C SR D C
6. 1a6q 37.53 SNpsVMIQRVNGSLAVslGDflVSPEpeRsiicwDVMGNEELCdrSrdDlc
LLHLEELLEELLLELLLEELHLLELLLELLEELHLLLLHHHHHHHHHLLHH
S VC G LG Y P GS S H D
7. 1igt_B 37.47 spLAPVC.GDTTGSSVTLGCLVKGYFPEPVTLTWNS.GSLSSGVHtqSdlS
EEELLLL.LLLLLLLEEEEEEEEEEELLLLEEEEHH.HLELLLEEEELLEE
A CQ L C L L L YT SS Q G C D
8. 1ac5 36.40 TNAHENCQNleCENILNL...LLSYTRESS.....QKGT.ADcnFNLKDSY
HHHHHHHHHHHHHLHHHH...HHHHLLLLL.....LLLL.LLEEEEEEELL
Q NC L G C G FSNC S C
9. 1ext_A 36.33 YWSENLFQCFNCSLCLN.GTVHLSCQEKQNTVCTCHAGFfsNCKKSLE..C
EEELLEEEEEELLLLLL.EEEEELLELLELLEEEELLLEEHHLLLLLL..L
QA KV RL LSL L YT SII G F C H M
10. 1nfp 36.27 QqaAkvRHRlqAKAELslEDYL.SYtaETsiINSNAAGNFDTCLHHVAEMA
HHHHHLLEEEHHHHHHHHHHHH.HHHLLLLHHHLLEEELHHHHHHHHHHHH
SQ C RL V LSLG F V YTP IC LG FS S
11. 4pah 36.27 SQFLQTCtrLR.PValslgaFRvmYTPEPD.ICHELLGhfSDRSFAQ..FS
HHHHHHHHEEE.ELLLLHHLLLELLLLLLL.HHHHHHHLHLLHHHHH..HH
S A V L G L L LV Y P I L FSN S D
12. 1kit 35.80 SEADMV..ELQNG.DLLLTARlvNYSPRQQfiTWSLLEafSNIsfEQSDGS
EEEEEE..ELLLL.LEEEEEEEEELLLEEEELLLEEEEELLLLLEELLLLL
A K Q G P SL VT T Q S I GQL F NC D
13. 1lox 35.47 QGAQK..Q....GFPTSLQshFVTmtGQHSSIHLGQLDWFtnctpTTKDAT
LLHHH..H....LLLLLLLLHHHHHLHHHHHHHLLHHHHLLHLLLLLLLLL
S PL LG F VT I G S S CS D
14. 1d5y_A 35.40 arRSPEWSAFGIRPPLRLGEffVT.LEDTPLI..GVTQSYS.CSLEqsDFR
HHHLLLEELLLLLLLLLLLLLEEE.ELLEEEE..EEEEELL.LLHHHHHHH
S V R V SL Y Q S LG F H
15. 1cx8_B 35.33 VNGSIVIVrfAEKvaESLNAivLIYMDQtsFFGHAHLGtfPSFNHTQFPPS
LLLLEEEEEHHHHHHHHLLLLEEEELLLLLELELLLLLLLLLLLLLLLLLL
A CG LSL T Q ICYG LG C HS DM
16. 1be3_A 35.27 DnaNAIIGHYDcgAHLslASIAATnsFQTFNICygLLGAHFVCDhsIDDMM
HHHHHHHLEEELHHHLLHHHHHHHLEEEEEEEELEEEEEEEEELLLHHHHH
Q KV L GV S L C G L
17. 1gpm_A 35.20 eqdDKVILGLSGGVDSSVTAMLLHRAIGKNLTCvgLL.RLNEAEQVLDMFG
HHLLEEEEELLLLHHHHHHHHHHHHHHHHHEEEELLL.LLLHHHHHHHHHL
SQ K R P G V TP G SR
18. 1ajs_A 35.20 sQMQKI.VRVTWSNPPAQGARIVARtpELFHEWTGNVKTMADRILsrSELR
HHHHHH.HHLLLLLLLLHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q GV LS G FLV P I Y Q F RN
19. 1lvk 35.00 NQRNPI..KFD.GveLSygLFLVAVNPFKRIPIYTqvDIFK..GRRRNEVa
EELLLH..HHL.LLHLLLLLEEEEELLLLLLLLLLHHHHLL..LLLHHHLL
Q S VC L YT SI NC S
20. 1abr_B 34.93 AQGSNvcDSNKKEQQWAL......YT.DGSI...RSVQNTNNCLTSKD...
EELLEELLLLLHHHLEEE......LL.LLLE...EELLEEEEEEEELL...
---
--- TOPITS ALIGNMENTS CONTINUED
---
1. 1qr7_A 42.73 ..ASGLSC
..HLLLLL
G C
2. 1by2 42.53 ....GVVCTN
....EEEELL
L C
3. 1ivy_A 39.07 YDNKDLECVT
LLLLLHHHHH
TC
4. 1tcr_A 38.80 ..QTSFTCQD
..LLLLLHHH
S GL
5. 1qsa_A 37.67 GAS.GL
LLE.LL
C TCL
6. 1a6q 37.53 cNEVVDTCL
HHHHHHHHH
S T
7. 1igt_B 37.47 SSSVTVT
EEEEEEL
S G
8. 1ac5 36.40 YPSCGM
LLLLLL
C L L E
9. 1ext_A 36.33 CTKLCLPQIE
LHHHHLLLLL
L L C E
10. 1nfp 36.27 AQGLnlFCFE
HHHLLEEELL
GL L
11. 4pah 36.27 SQEIGLASL
HHHHHHHHL
H L T
12. 1kit 35.80 SHFLLFT
LEEEEEE
L
13. 1lox 35.47 TLETVMATLP
LHHHHHHHLL
H
14. 1d5y_A 35.40 RHEM
HHHH
S GL
15. 1cx8_B 35.33 SRSSGLPNIP
LLLLLLLLLL
L
16. 1be3_A 35.27 MFVL
HHHH
GL
17. 1gpm_A 35.20 GDHFGL
LLLLLL
L
18. 1ajs_A 35.20 RARL
HHHH
H
19. 1lvk 35.00 ahIFAISDVA
LLHHHHHHHH
H G T L
20. 1abr_B 34.93 .HKQGSTIL
.LLLLLEEE
---
--- TOPITS ALIGNMENTS END
---
Identities computed with respect to: (1) predict_h1180 Colored by: consensus/70% and property
1 [ . . . . : . 60
1 predict_h1180 RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPSQASKVCQRL
2 1qr7_A RlsIHDpeYATRLLALREELKDELevYFEkgWKGLINDPHMDNSFQINDGLraRKLLLDI
3 1by2 -----DGDM--RLADGGATNQGRVEIFYRGQWGTVCDNLW--------DLTDASVVCRAl
4 1ivy_A -FSYSDDKFYA--TNDTEVAQSNFEA-LQDFFRLF--PEY-KNNKLfespTLAVLVMQDP
5 1tcr_A -LKYYSGdfEAEFSKSNSshLRKASVHWSDSAVYFCAVsfGSGTkaLKDpsQDSTLcsQI
6 1qsa_A -LMYWNLDNTArlVKSKSKtqAQLARY---AFN---NQWWDLS----VQATIAGKLWDHL
7 1a6q RTGFLEIDEHMRvdRSGSTAVGVL-ISPQHTYFINCGDSRgrNRkqDHKPSNpsVMIQRV
8 1igt_B RLEwyYPdvKGRFtrDNAKNTLYLQMslkdTAMYYCAryWGqsSAKTTAPspLAPVC-GD
9 1ac5 --SyyIPFfnAILNHNksKIDgdLKALlgNGWIDPNTQsiDESNPNFKHLTNAHENCQNl
10 1ext_A --SFTASENHLRHCLSCSKCrgQVEIstVD-RDTVC----GCRKNQYRH-YWSENLFQCF
11 1nfp --SIYdvAFSEHHIDKSYNDETKLavSLGKQIHVLAteTVVKAAkkWDDSQqaAkvRHRl
12 4pah HPGFKDPVYRARRKqyNYR-HGqvE-YmkKTWGTvcnHIFPLLEkqLEDVSQFLQTCtrL
13 1kit -MSLygPGHGITLTRQqsGSqgRL-IyvLDRFFlvMssNwgkSSSILeePSEADMV--EL
14 1lox --SFYAQD-ALRLWEIISrvQGIMGLYYkdDLEL---QSWCREITEIGL-QGAQK--Q--
15 1d5y_A RLSKSAVAL--RLTA-----RPILDIALQ--YRFDSQQTFTRakKQfqTParRSPEWSAF
16 1cx8_B KLswRDQHfqVKDSAQNsk-NGRL-VYLVegykLVHA-NFG-TKKDFEdpVNGSIVIVrf
17 1be3_A -LstYDEDAVPTL----SPCrgSQICHREDGLPLA-HVAIAVEGPGWAHPDnaNAIIGHY
18 1gpm_A --RFYGVQFHPEVTHTRQGMR-MLERFVRD--ICQCEALW-TPAKIIDDaeqdDKVILGL
19 1ajs_A -FPFFDSAYQGFASGNLEKDAWAIRYFVSEGFELFCAQSFSKNFGLYNErsQMQKI-VRV
20 1lvk RYIWYNPD---PKERDSYEC-GEIVSETSDSFTFKTSDGQDRQVKK-DDANQRNPI--KF
21 1abr_B --TIINPKSALVLSAESSSMGGTLTvylrQGWRTGNNTsfVTSISGYSdqAQGSNvcDSN
consensus/100% ............................................................
consensus/90% ...h.t.t....h.t........h.h.h.t.h.h.....h.......tp....t....t.
consensus/80% ..thhs.t...hh.t.ttt.ts.l.h.htpth.h..t..hs.t...hpp.tttt.hh.th
consensus/70% ..shhssphthphstpppp.psplthhhpcthhhhtsp.aspsttthpcsspss.lh.ph
61 . . . 1 ] 110
1 predict_h1180 NCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMCHSLGLTCLE
2 1qr7_A nsGLP-AAGEFLDMITPqaDLMSWGAIGARTTESQVHREL--ASGLSC--
3 1by2 nATQAlgSGPIMltGTEASLADC-KSLGWlsNCRHERDA-----GVVCTN
4 1ivy_A SMNlgLAVGNGLSSYEQNDNSLVygLLGnwSscSQNKCNFYDNKDLECVT
5 1tcr_A N--VPKTMES--GTFITDATVLDMKAMDSKSNGAIAWSN---QTSFTCQD
6 1qsa_A EERFPLAYNDLFKRYtpQSYAMAIARQESAWN-PKVKSPVGAS-GL----
7 1a6q NGSLAVslGDflVSPEpeRsiicwDVMGNEELCdrSrdDlcNEVVDTCL-
8 1igt_B TTGSSVTLGCLVKGYFPEPVTLTWNS-GSLSSGVHtqSdlSSSVTVT---
9 1ac5 eCENILNL---LLSYTRESS-----QKGT-ADcnFNLKDSYPSCGM----
10 1ext_A NCSLCLN-GTVHLSCQEKQNTVCTCHAGFfsNCKKSLE--CTKLCLPQIE
11 1nfp qAKAELslEDYL-SYtaETsiINSNAAGNFDTCLHHVAEMAQGLnlFCFE
12 4pah R-PValslgaFRvmYTPEPD-ICHELLGhfSDRSFAQ--FSQEIGLASL-
13 1kit QNG-DLLLTARlvNYSPRQQfiTWSLLEafSNIsfEQSDGSHFLLFT---
14 1lox --GFPTSLQshFVTmtGQHSSIHLGQLDWFtnctpTTKDATLETVMATLP
15 1d5y_A GIRPPLRLGEffVT-LEDTPLI--GVTQSYS-CSLEqsDFRHEM------
16 1cx8_B AEKvaESLNAivLIYMDQtsFFGHAHLGtfPSFNHTQFPPSRSSGLPNIP
17 1be3_A DcgAHLslASIAATnsFQTFNICygLLGAHFVCDhsIDDMMFVL------
18 1gpm_A SGGVDSSVTAMLLHRAIGKNLTCvgLL-RLNEAEQVLDMFGDHFGL----
19 1ajs_A TWSNPPAQGARIVARtpELFHEWTGNVKTMADRILsrSELRARL------
20 1lvk D-GveLSygLFLVAVNPFKRIPIYTqvDIFK--GRRRNEVahIFAISDVA
21 1abr_B KKEQQWAL------YT-DGSI---RSVQNTNNCLTSKD---HKQGSTIL-
consensus/100% ..................................................
consensus/90% t.t...s.t..h.....t......t.ht.h.......t............
consensus/80% p.t..hsht.hhhtht.pt.....t.htthsst.ht.p....t.s.....
consensus/70% p.t.shuhsshhhshp.ppshhshs.hsshsstshspsth.tphsh....
|
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 1.0 1991
PDBID predict_h11814
DATE file generated on 22-Jan-01
SEQBASE RELEASE 38.0 OF EMBL/SWISS-PROT WITH 80000 SEQUENCES
PARAMETER SMIN: -1.0 SMAX: 2.0
PARAMETER gap-open: 2.0 gap-elongation: 0.2
PARAMETER conservation weights: NO
PARAMETER InDels in secondary structure allowed: YES
PARAMETER alignments sorted according to :ZSCORE
THRESHOLD according to: ALL
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT e-mail (INTERNET) Schneider@EMBL-Heidelberg.DE or Sander@EMBL-Heidelberg.DE / fax +49-6221-387306
AVAILABLE Free academic use. Commercial users must apply for license.
AVAILABLE No inclusion in other databanks without permission.
HEADER predict_h11814.phdRdb
COMPND
SOURCE
AUTHOR
SEQLENGTH 110
NCHAIN 1 chain(s) in predict_h11814 data set
KCHAIN 1 chain(s) used here ; chain(s) : A
NALIGN 20
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM): (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCESSION: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of INSERTION IN THIS sequence
NOTATION : dots (....) in the alignend SEQUENCE INDICATE POINTS of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e. entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight
## PROTEINS : EMBL/SWISSPROT identifier and alignment statistics
NR. ID STRID %IDE %SIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCESSION PROTEIN
1 : 1qr7_A 0.31 0.00 1 108 46 174 105 9 27 339 MOL_ID: 1;
2 : 1by2 0.37 0.00 6 110 4 108 91 8 32 113 MOL_ID: 1;
3 : 1ivy_A 0.27 0.00 2 110 106 230 105 10 28 452 MOL_ID: 1;
4 : 1tcr_A 0.28 0.00 2 110 47 186 102 9 45 202 MOL_ID: 1;
5 : 1qsa_A 0.32 0.00 2 106 391 494 93 8 23 618 MOL_ID: 1;
6 : 1a6q 0.37 0.00 1 109 101 275 109 14 68 364 MOL_ID: 1;
7 : 1igt_B 0.34 0.00 1 107 44 189 105 12 43 444 MOL_ID: 1;
8 : 1ac5 0.36 0.00 3 106 176 310 95 11 49 483 MOL_ID: 1;
9 : 1ext_A 0.30 0.00 3 110 47 159 99 8 23 160 MOL_ID: 1;
10 : 1nfp 0.33 0.00 3 110 40 199 107 12 54 228 LUXF GENE PRODUCT (NONFLUORESCENT FLAVOPR
11 : 4pah 0.40 0.00 1 109 30 195 105 17 69 308 MOL_ID: 1;
12 : 1kit 0.40 0.00 2 107 512 676 103 16 67 757 MOL_ID: 1;
13 : 1lox 0.37 0.00 3 110 447 570 98 12 38 650 MOL_ID: 1;
14 : 1d5y_A 0.31 0.00 1 104 56 157 93 11 24 289 MOL_ID: 1;
15 : 1cx8_B 0.34 0.00 1 110 56 212 108 15 55 639 MOL_ID: 1;
16 : 1be3_A 0.32 0.00 2 104 219 338 102 10 27 446 MOL_ID: 1;
17 : 1gpm_A 0.23 0.00 3 106 172 281 99 7 16 502 MOL_ID: 1;
18 : 1ajs_A 0.20 0.00 2 104 218 341 102 4 23 414 MOL_ID: 1;
19 : 1lvk 0.29 0.00 1 110 32 161 104 10 40 746 MOL_ID: 1;
20 : 1abr_B 0.31 0.00 3 109 102 208 94 9 26 267 ABRIN-A COMPLEXED WITH TWO SUGAR CHAINS
## ALIGNMENTS 1 - 20
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 R 0 0 200 8 15 R RR H RK R
2 2 L E 0 0 0 14 26 l FLLTL PM LLL FY
3 3 S E 0 0 63 20 35 s SKMGESSSGSSSssRPIT
4 4 W E 0 0 0 20 29 I YYYFwyFIFLFKwtFFWI
5 5 Y E 0 0 79 20 40 H SYWLyyTYKyYSRYYFYI
6 6 D E 0 0 58 21 35 DDDSNEYIAdDgAADDGDNN
7 7 P 0 0 66 21 42 pGDGLIPPSvPPQVQEVSPP
8 8 D 0 0 79 21 38 eDKdDDdFEAVGDAHDQADK
9 9 F 0 0 0 19 42 YMFfNEvfNFYH.LfAFY.S
10 10 Q E 0 0 71 18 48 A.YETHKnHSRGA.qVHQ.A
11 11 A E 0 0 0 18 42 T.AAAMGALEAIL.VPPG.L
12 12 R E 0 0 0 20 42 RR.ErRRIRHRTRRKTEFPV
13 13 L E 0 0 0 20 38 LL.FlvFLHHRLLLDLVAKL
14 14 T 0 0 69 20 46 LATSVdtNCIKTWTS.TSES
15 15 R 0 0 121 20 45 ADNKKRrHLDqREAA.HGRA
16 16 S 0 0 63 19 46 LGDSSSDNSKyQI.Q.TNDE
17 17 N 0 0 76 19 47 RGTNKGNkCSNqI.N.RLSS
18 18 S 0 0 0 20 38 EAESSSAsSYYsS.sSQEYS
19 19 K 0 0 73 20 41 ETVsKTKKKNRGr.kPGKES
20 20 C 0 0 0 18 52 LNAhtANICD.Sv..CMDCM
21 21 Q 0 0 71 20 43 KQQLqVTDrEHqQRNrRA.G
22 22 G 0 0 0 20 35 DGSRAGLggTGgGPGg.WGG
23 23 Q E 0 0 71 21 49 ERNKQVYdQKqRIIRSMAET
24 24 L E 0 0 0 21 22 LVFALLLLVLvLMLLQLIIL
25 25 E E 0 0 0 18 41 eEESA.QKEaE.GD.IERVT
26 26 V E 0 0 0 20 40 vIAVRIMAIv.ILIVCRYSv
27 27 Y E 0 0 0 20 42 YF.HYSsLsSYyYAYHFFEy
28 28 L E 0 0 0 20 38 FYLW.PlltLmvYLLRVVTl
29 29 K E 0 0 100 20 46 ERQS.QkgVGkLkQVERSSr
30 30 D 0 0 79 19 26 kGDD.HdNDKKDd.eDDEDQ
31 31 G 0 0 41 18 40 gQFSATTG.QTRD.gG.GSG
32 32 W E 0 0 0 20 30 WWFAFYAWRIWFLYyL.FFW
33 33 H E 0 0 66 21 52 KGRVNFMIDHGFERkPIETR
34 34 M E 0 0 0 20 44 GTLY.IYDTVTlLFLLCLFT
35 35 V E 0 0 0 19 48 LVFF.NYPVLvv.DVAQFKG
36 36 C E 0 0 0 17 40 IC.C.CCNCAcM.SH.CCTN
37 37 S E 0 0 0 18 40 ND.ANGAT.tns.QAHEASN
38 38 Q 0 0 97 19 42 DNPVQDrQ.eHsQQ.VAQDT
39 39 S 0 0 0 20 47 PLEsWSys.TINSTNALSGs
40 40 W 0 0 0 20 32 HWYfWRWi.VFwWFFIWFQf
41 41 G 0 0 41 18 39 M..GDgGDGVPgCTGA.SDV
42 42 R 0 0 89 19 47 D.KSLrqECKLkRR.VTKRT
43 43 S H 0 0 0 20 42 N.NGSNsSRALSEaTEPNQS
44 44 S H 0 0 63 19 49 S.NT.RSNKAESIkKGAFVI
45 45 K H 0 0 100 19 39 F.Kk.kAPNkkSTKKPKGKS
46 46 Q H 0 0 71 19 45 Q.La.qKNQkqIEQDGILKG
47 47 W H 0 0 111 18 34 I.fL.DTFYWLLIfFWIY.Y
48 48 E H 0 0 95 20 40 N.eKVHTKRDEeGqEADNDS
49 49 D 0 0 79 21 34 DDsDQKAHHDDeLTdHDEDd
50 50 P H 0 0 66 19 38 GLppAPPL.SVP.PpParAq
51 51 S H 0 0 63 21 45 LTTsTSsTYQSSQaVDesNA
52 52 Q H 0 0 97 21 41 rDLQINpNWqQEGrNnqQQQ
53 53 A H 0 0 0 21 41 aAADApLASaFAARGadMRG
54 54 S H 0 0 46 21 43 RSVSGsAHEALDQSSNDQNS
55 55 K H 0 0 100 21 45 KVLTKVPENkQMKPIAKKPN
56 56 V H 0 0 0 20 28 LVVLLMVNLvTV.EVIVIIv
57 57 C H 0 0 0 17 48 LCMcWICCFRC..WIII..c
58 58 Q H 0 0 71 18 46 LRQsDQ.QQHt.QSVGLV.D
59 59 R H 0 0 89 20 45 DADQHRGNCRrE.ArHGRKS
60 60 L 0 0 0 20 33 IlPILVDlFlLL.FfYLVFN
61 61 N 0 0 76 20 39 nnSNENTeNqRQ.GADSTDK
62 62 C 0 0 0 17 53 sAM.EGTCCA.N.IEcGW.K
63 63 G 0 0 41 20 38 GTN.RSGESKPGGRKgGSGE
64 64 V 0 0 35 20 45 LQlVFLSNLAV.FPvAVNvQ
65 65 P 0 0 0 21 40 PAgPPASICEaDPPaHDPeQ
66 66 L E 0 0 0 20 35 .lLKLVVLLLlLTLELSPLW
67 67 S E 0 0 46 21 36 AgATAsTNNssLSRSsSASA
68 68 L E 0 0 0 20 30 ASVMYlLL.llLLLLlVQyL
69 69 G 0 0 41 19 27 GGGENGG.GEgTQGNATGg.
70 70 P 0 0 66 19 42 EPNSDDC.TDaAsEASAAL.
71 71 F 0 0 0 18 40 FIG.LfL.VYFRhfiIMRF.
72 72 L 0 0 59 19 29 LML.FlVLHLRlFfvALIL.
73 73 V 0 0 69 19 38 DlSGKVKLL.vvVVLALVV.
74 74 T 0 0 69 20 44 MtSTRSGSSSmNTTITHAA.
75 75 Y 0 0 179 20 44 IGYFYPYYCYYYm.YnRRVY
76 76 T 0 0 69 21 41 TTEItEFTQtTStLMsAtNT
77 77 P 0 0 66 20 41 PEQTppPREaPPGEDFIpP.
78 78 Q 0 0 97 21 35 qANDQeEEKEERQDQQGEFD
79 79 S E 0 0 0 21 46 aSDASRPSQTPQHTtTKLKG
80 80 S E 0 0 0 21 49 DLNTYsVSNsDQSPsFNFRS
81 81 I E 0 0 0 19 44 LASVAiT.Ti.fSLFNLHII
82 82 I E 0 0 0 19 35 MDLLMiL.VIIiIIFITEP.
83 83 C E 0 0 0 18 48 SCVDAcT.CNCTH.GCCWI.
84 84 Y E 0 0 108 17 47 W.yMIwW.TSHWL.HyvTY.
85 85 G 0 0 0 20 38 GKgKADN.CNESGGAggGTR
86 86 Q 0 0 71 21 49 ASLARVSQHALLQVHLLNqS
87 87 L 0 0 80 20 33 ILLMQM.KAALLLTLLLVvV
88 88 G 0 0 13 20 24 GGGDEGGGGGGEDQGG.KDQ
89 89 S 0 0 0 21 47 AWnSSNSTFNhaWStARTIN
90 90 F E 0 0 0 20 40 RlwKAEL.fFffFYfHLMFT
91 91 S E 0 0 0 21 41 TsSSWESAsDSStSPFNAKN
92 92 N 0 0 0 19 38 TNsNNLSDNTDNn.SVED.N
93 93 C 0 0 0 19 39 ECcG.CGcCCRIcCFCAR.C
94 94 S 0 0 46 21 47 SRSAPdVnKLSstSNDEIGL
95 95 H 0 0 66 21 47 QHQIKrHFKHFfpLHhQLRT
96 96 S 0 0 63 21 44 VENAVStNSHAETETsVsRS
97 97 R 0 0 121 21 44 HRKWKrqLLVQQTqQILrRK
98 98 N 0 0 100 20 43 RDCSSdSKEA.SKsFDDSND
99 99 D 0 0 79 18 31 EANNPDdD.E.DDDPDMEE.
100 100 M 0 0 92 17 38 L.F.VllS.MFGAFPMFLV.
101 101 C 0 0 0 17 47 ..Y.GcSYCASSTRSMGRa.
102 102 H 0 0 66 18 47 ..D.ANSPTQQHLHRFDAhH
103 103 S 0 0 0 20 47 A.NQSESSKGEFEESVHRIK
104 104 L 0 0 0 19 44 S.KT.VVCLLILTMSLFLFQ
105 105 G 0 0 0 18 35 GGDSGVTGCnGLV G G AG
106 106 L E 0 0 0 18 26 LVLFLDVMLlLFM L L IS
107 107 T E 0 0 0 15 41 SVET TT PFATA P ST
108 108 C E 0 0 0 13 41 CCCC C QCS T N DI
109 109 L E 0 0 0 12 31 TVQ L IFL L I VL
110 110 E 0 0 157 9 39 NTD EE P P A
## SEQUENCE PROFILE AND ENTROPY
SeqNo PDBNo V L I M F W Y G A P S T C H R K Q E N D NOCC NDEL NINS ENTROPY RELENT WEIGHT
1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 13 75 13 0 0 0 0 8 0 0 0.736 35 1.47
2 2 0 57 0 7 14 0 7 0 0 7 0 7 0 0 0 0 0 0 0 0 14 0 1 1.352 51 1.27
3 3 0 0 5 5 0 0 0 10 0 5 55 5 0 0 5 5 0 5 0 0 20 0 2 1.608 54 1.10
4 4 0 5 15 0 30 20 20 0 0 0 0 5 0 0 0 5 0 0 0 0 20 0 2 1.739 58 1.21
5 5 0 5 5 0 5 5 50 0 0 0 10 5 0 5 5 5 0 0 0 0 20 0 1 1.775 59 1.01
6 6 0 0 5 0 0 0 5 10 14 0 5 0 0 0 0 0 0 5 14 43 21 0 1 1.723 58 1.10
7 7 14 5 5 0 0 0 0 10 0 38 10 0 0 0 0 0 10 5 0 5 21 0 1 1.897 63 0.96
8 8 5 0 0 0 5 0 0 5 14 0 0 0 0 5 0 10 5 10 0 43 21 0 2 1.814 61 1.05
9 9 5 5 0 5 37 0 16 0 5 0 5 0 0 5 0 0 0 5 11 0 19 2 2 1.981 67 0.96
10 10 6 0 0 0 0 0 6 6 17 0 6 6 0 17 6 6 17 6 6 0 18 3 0 2.341 81 0.85
11 11 6 17 6 6 0 0 0 11 33 11 0 6 0 0 0 0 0 6 0 0 18 3 0 1.956 68 0.96
12 12 5 0 5 0 5 0 0 0 0 5 0 10 0 5 50 5 0 10 0 0 20 1 1 1.706 57 0.97
13 13 10 50 0 0 10 0 0 0 5 0 0 0 0 10 5 5 0 0 0 5 20 1 1 1.636 55 1.03
14 14 5 5 5 0 0 5 0 0 5 0 20 30 5 0 0 5 0 5 5 5 20 1 1 2.181 73 0.88
15 15 0 5 0 0 0 0 0 5 20 0 0 0 0 10 25 10 5 5 5 10 20 1 1 2.108 70 0.91
16 16 0 5 5 0 0 0 5 5 0 0 26 5 0 0 0 5 11 5 11 16 19 2 0 2.202 75 0.88
17 17 0 5 5 0 0 0 0 11 0 0 16 5 5 0 11 11 5 0 26 0 19 2 2 2.129 72 0.87
18 18 0 0 0 0 0 0 15 0 10 0 55 0 0 0 0 0 5 15 0 0 20 1 1 1.278 43 1.03
19 19 5 0 0 0 0 0 0 10 0 5 10 10 0 0 10 35 0 10 5 0 20 1 2 1.968 66 0.97
20 20 6 6 6 11 0 0 0 0 11 0 6 6 22 6 0 0 0 0 11 11 18 3 1 2.274 79 0.78
21 21 5 5 0 0 0 0 0 5 5 0 0 5 0 5 20 5 30 5 5 5 20 1 3 2.181 73 0.94
22 22 0 5 0 0 0 5 0 60 5 5 5 5 0 0 5 0 0 0 0 5 20 1 1 1.505 50 1.10
23 23 5 0 10 5 0 0 5 0 5 0 5 5 0 0 14 10 19 10 5 5 21 0 1 2.425 81 0.83
24 24 14 57 10 5 5 0 0 0 5 0 0 0 0 0 0 0 5 0 0 0 21 0 0 1.402 47 1.34
25 25 6 0 6 0 0 0 0 6 11 0 6 6 0 0 6 6 6 39 0 6 18 3 2 2.057 71 0.99
26 26 30 5 25 5 0 0 5 0 10 0 5 0 5 0 10 0 0 0 0 0 20 1 1 1.917 64 1.01
27 27 0 5 0 0 15 0 40 0 5 0 20 0 0 10 0 0 0 5 0 0 20 1 3 1.653 55 0.97
28 28 15 40 0 5 5 5 10 0 0 5 0 10 0 0 5 0 0 0 0 0 20 1 3 1.861 62 1.04
29 29 10 5 0 0 0 0 0 10 0 0 15 0 0 0 15 20 15 10 0 0 20 1 2 2.016 67 0.89
30 30 0 0 0 0 0 0 0 5 0 0 0 0 0 5 0 16 5 11 5 53 19 2 2 1.486 50 1.28
31 31 0 0 0 0 6 0 0 39 6 0 11 17 0 0 6 0 11 0 0 6 18 3 0 1.796 62 0.99
32 32 0 10 5 0 25 30 15 0 10 0 0 0 0 0 5 0 0 0 0 0 20 1 1 1.752 58 1.19
33 33 5 0 10 5 10 0 0 10 0 5 0 5 0 10 14 10 0 10 5 5 21 0 0 2.491 83 0.78
34 34 5 30 5 5 10 0 10 5 0 0 0 20 5 0 0 0 0 0 0 5 20 1 1 2.042 68 0.93
35 35 32 11 0 0 16 0 5 5 5 5 0 0 0 0 0 5 5 0 5 5 19 2 1 2.132 72 0.84
36 36 0 0 6 6 0 0 0 0 6 0 6 6 53 6 0 0 0 0 12 0 17 4 0 1.588 56 1.00
37 37 0 0 0 0 0 0 0 6 22 0 17 11 0 6 0 0 6 6 22 6 18 3 3 2.014 70 1.01
38 38 11 0 0 0 0 0 0 0 5 5 5 5 0 5 5 0 32 5 5 16 19 2 1 2.132 72 0.97
39 39 0 10 5 0 0 5 5 5 5 5 35 10 0 0 0 0 0 5 10 0 20 1 3 2.107 70 0.87
40 40 5 0 10 0 30 35 5 0 0 0 0 0 0 5 5 0 5 0 0 0 20 1 1 1.708 57 1.15
41 41 11 0 0 6 0 0 0 39 6 6 6 6 6 0 0 0 0 0 0 17 18 3 1 1.874 65 1.03
42 42 5 11 0 0 0 0 0 0 0 0 5 11 5 0 26 21 5 5 0 5 19 2 2 2.083 71 0.86
43 43 0 5 0 0 0 0 0 5 10 5 30 5 0 0 5 0 5 10 20 0 20 1 1 2.042 68 0.96
44 44 5 0 11 0 5 0 0 5 11 0 21 5 0 0 5 16 0 5 11 0 19 2 0 2.260 77 0.84
45 45 0 0 0 0 5 0 0 5 5 11 11 5 0 0 0 53 0 0 5 0 19 2 4 1.587 54 1.03
46 46 0 11 11 0 0 0 0 11 5 0 0 0 0 0 0 16 32 5 5 5 19 2 0 1.986 67 0.91
47 47 0 17 17 0 22 17 17 0 0 0 0 6 0 0 0 0 0 0 0 6 18 3 2 1.850 64 1.12
48 48 5 0 0 0 0 0 0 5 5 0 5 5 0 5 5 10 5 25 10 15 20 1 1 2.290 76 1.00
49 49 0 5 0 0 0 0 0 0 5 0 5 5 0 14 0 5 5 10 0 48 21 0 3 1.725 58 1.12
50 50 5 11 0 0 0 0 0 5 16 47 5 0 0 0 5 0 5 0 0 0 19 2 3 1.657 56 1.04
51 51 5 5 0 0 0 0 5 0 10 0 33 19 0 0 0 0 10 5 5 5 21 0 2 2.000 67 0.91
52 52 0 5 5 0 0 5 0 5 0 5 0 0 0 0 10 0 38 5 19 5 21 0 4 1.922 64 0.98
53 53 0 5 0 5 5 0 0 10 48 5 5 0 0 0 10 0 0 0 0 10 21 0 1 1.750 58 0.99
54 54 5 5 0 0 0 0 0 5 10 0 33 0 0 5 5 0 10 5 10 10 21 0 0 2.132 71 0.94
55 55 10 5 5 5 0 0 0 0 5 14 0 5 0 0 0 33 5 5 10 0 21 0 1 2.107 70 0.90
56 56 45 20 15 5 0 0 0 0 0 0 0 5 0 0 0 0 0 5 5 0 20 1 1 1.565 52 1.23
57 57 0 6 24 6 6 12 0 0 0 0 0 0 41 0 6 0 0 0 0 0 17 4 1 1.624 57 0.85
58 58 11 11 0 0 0 0 0 6 0 0 11 6 0 6 6 0 33 0 0 11 18 3 1 1.985 69 0.88
59 59 0 0 0 0 0 0 0 10 10 0 5 0 5 10 30 5 5 5 5 10 20 1 1 2.181 73 0.91
60 60 10 40 10 0 20 0 5 0 0 5 0 0 0 0 0 0 0 0 5 5 20 1 3 1.748 58 1.13
61 61 0 0 0 0 0 0 0 5 5 0 10 10 0 0 5 5 10 10 30 10 20 1 1 2.112 70 1.03
62 62 0 0 6 6 0 6 0 12 12 0 6 6 24 0 0 6 0 12 6 0 17 4 1 2.262 80 0.78
63 63 0 0 0 0 0 0 0 40 0 5 15 5 0 0 10 10 0 10 5 0 20 1 0 1.791 60 1.04
64 64 30 20 0 0 10 0 0 0 10 5 5 0 0 0 0 0 10 0 10 0 20 1 3 1.904 64 0.91
65 65 0 0 5 0 0 0 0 5 19 33 5 0 5 5 0 0 5 10 0 10 21 0 1 2.000 67 1.00
66 66 10 60 0 0 0 5 0 0 0 5 5 5 0 0 0 5 0 5 0 0 20 1 1 1.435 48 1.09
67 67 0 5 0 0 0 0 0 5 24 0 43 10 0 0 5 0 0 0 10 0 21 0 4 1.588 53 1.08
68 68 10 60 0 5 0 0 10 0 5 0 5 0 0 0 0 0 5 0 0 0 20 1 1 1.366 46 1.20
69 69 0 0 0 0 0 0 0 58 5 0 0 11 0 0 0 0 5 11 11 0 19 2 1 1.337 45 1.25
70 70 0 5 0 0 0 0 0 0 26 11 16 5 5 0 0 0 0 11 5 16 19 2 1 2.028 69 0.96
71 71 6 11 17 6 33 0 6 6 0 0 0 0 0 6 11 0 0 0 0 0 18 3 3 1.956 68 1.00
72 72 11 47 5 5 16 0 0 0 5 0 0 0 0 5 5 0 0 0 0 0 19 2 1 1.657 56 1.21
73 73 42 26 0 0 0 0 0 5 5 0 5 0 0 0 0 11 0 0 0 5 19 2 2 1.572 53 1.03
74 74 0 0 5 10 0 0 0 5 10 0 25 30 0 5 5 0 0 0 5 0 20 1 0 1.917 64 0.94
75 75 5 0 5 5 5 0 50 5 0 5 0 0 5 0 10 0 0 0 5 0 20 1 2 1.775 59 0.93
76 76 0 5 5 5 5 0 0 0 5 0 10 48 0 0 0 0 5 10 5 0 21 0 3 1.816 61 0.99
77 77 0 0 5 0 5 0 0 5 5 45 0 5 0 0 5 0 5 15 0 5 20 1 1 1.842 61 0.97
78 78 0 0 0 0 5 0 0 5 5 0 0 0 0 0 5 5 29 29 5 14 21 0 1 1.864 62 1.10
79 79 0 5 0 0 0 0 0 5 10 10 19 19 0 5 5 10 10 0 0 5 21 0 1 2.252 75 0.90
80 80 5 5 0 0 10 0 5 0 0 5 33 5 0 0 5 0 5 0 14 10 21 0 2 2.107 70 0.83
81 81 5 16 26 0 11 0 0 0 11 0 11 11 0 5 0 0 0 0 5 0 19 2 1 2.056 70 0.92
82 82 5 16 42 11 5 0 0 0 0 5 0 5 0 0 0 0 0 5 0 5 19 2 1 1.822 62 1.10
83 83 6 0 6 0 0 6 0 6 6 0 6 11 39 6 0 0 0 0 6 6 18 3 0 2.057 71 0.85
84 84 6 6 6 6 0 24 24 0 0 0 6 12 0 12 0 0 0 0 0 0 17 4 4 2.018 71 0.86
85 85 0 0 0 0 0 0 0 40 10 0 5 5 5 0 5 10 0 5 10 5 20 1 0 1.956 65 1.04
86 86 10 24 0 0 0 0 0 0 14 0 14 0 0 10 5 0 19 0 5 0 21 0 1 1.951 65 0.84
87 87 15 45 5 10 0 0 0 0 10 0 0 5 0 0 0 5 5 0 0 0 20 1 0 1.704 57 1.14
88 88 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 5 10 10 0 15 20 1 0 1.201 40 1.30
89 89 0 0 5 0 5 10 0 0 14 0 24 14 0 5 5 0 0 0 19 0 21 0 4 2.017 67 0.87
90 90 0 15 0 5 40 5 5 0 5 0 0 5 0 5 5 5 0 5 0 0 20 1 2 1.999 67 1.00
91 91 0 0 0 0 5 5 0 0 10 5 43 10 0 0 0 5 0 5 10 5 21 0 1 1.905 64 0.99
92 92 5 5 0 0 0 0 0 0 0 0 16 11 0 0 0 0 0 5 42 16 19 2 1 1.649 56 1.05
93 93 0 0 5 0 5 0 0 11 5 0 0 0 58 0 11 0 0 5 0 0 19 2 2 1.410 48 1.02
94 94 5 10 5 0 0 0 0 5 5 5 29 5 0 0 5 5 0 5 10 10 21 0 2 2.335 78 0.87
95 95 0 10 5 0 14 0 0 0 0 5 0 5 0 29 10 10 14 0 0 0 21 0 2 2.021 67 0.86
96 96 14 0 0 0 0 0 0 0 10 0 29 14 0 5 5 0 0 14 10 0 21 0 2 1.930 64 0.92
97 97 5 14 5 0 0 5 0 0 0 0 0 5 0 5 24 14 24 0 0 0 21 0 2 1.964 66 0.92
98 98 0 0 0 0 5 0 0 0 5 0 30 0 5 0 5 10 0 5 10 25 20 1 0 1.917 64 0.95
99 99 0 0 0 6 0 0 0 0 6 11 0 0 0 0 0 0 0 22 11 44 18 3 1 1.504 52 1.18
100 100 12 24 0 18 24 0 0 6 6 6 6 0 0 0 0 0 0 0 0 0 17 4 1 1.905 67 1.04
101 101 0 0 0 6 0 0 12 12 12 0 24 6 18 0 12 0 0 0 0 0 17 4 1 1.987 70 0.87
102 102 0 6 0 0 6 0 0 0 11 6 6 6 0 28 6 0 11 0 6 11 18 3 0 2.212 77 0.87
103 103 5 0 5 0 5 0 0 5 5 0 25 0 0 5 5 10 5 20 5 0 20 1 0 2.247 75 0.86
104 104 11 32 5 5 11 0 0 0 0 0 11 11 5 0 0 5 5 0 0 0 19 2 0 2.087 71 0.93
105 105 11 6 0 0 0 0 0 50 6 0 6 6 6 0 0 0 0 0 6 6 18 0 1 1.715 59 1.09
106 106 11 50 6 11 11 0 0 0 0 0 6 0 0 0 0 0 0 0 0 6 18 0 0 1.561 54 1.27
107 107 7 0 0 0 7 0 0 0 13 13 13 40 0 0 0 0 0 7 0 0 15 0 0 1.714 63 0.99
108 108 0 0 8 0 0 0 0 0 0 0 8 8 54 0 0 0 8 0 8 8 13 0 0 1.517 59 0.98
109 109 17 42 17 0 8 0 0 0 0 0 0 8 0 0 0 0 8 0 0 0 12 0 0 1.583 64 1.17
110 110 0 0 0 0 0 0 0 0 11 22 0 11 0 0 0 0 0 33 11 11 9 0 0 1.677 76 1.02
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
1 2 48 7 lLVVIGPCs
1 7 60 4 pVAAKe
1 25 82 4 eIVMRv
1 30 91 5 kPRTTVg
1 52 118 1 rIa
1 61 128 1 nDs
1 78 145 2 qYLa
2 60 49 3 lGFEn
2 66 58 7 lGRAAFGQg
2 73 72 5 lDEVQCt
2 90 93 1 lKs
3 47 146 3 fLTGe
3 49 151 6 sYAGIYIp
3 64 172 1 lQg
3 84 193 5 yFAYYHg
3 89 203 2 nRLw
3 92 208 5 sLQTHCc
4 8 54 8 dPVVQGVNGf
4 19 73 1 sFh
4 39 94 7 sGFASALTf
4 45 107 15 kVIVLPYIQNPEPAVYa
4 50 127 1 pRs
4 57 135 6 cLFTDFDs
5 12 402 5 rSEWANl
5 20 415 1 tEq
5 76 462 5 tSGKEIp
6 13 114 8 vMSEKKHGAd
6 41 149 3 gLLCr
6 45 156 5 kVHFFTq
6 53 169 11 pLEKERIQNAGGs
6 67 194 2 sRAl
6 71 200 13 fDYKCVHGKGPTEQl
6 77 219 5 pEVHDIe
6 80 227 6 sEEDDQFi
6 82 235 2 iLAc
6 83 238 3 cDGIw
6 94 252 2 dFVr
6 97 257 4 rLEVTd
6 100 264 3 lEKVc
7 4 48 11 wVAYISNGGGSTy
7 8 63 1 dTv
7 14 70 2 tISr
7 27 85 1 sRl
7 29 88 2 kSEd
7 38 99 8 rHGGYYAMDy
7 42 111 6 qGTTVTVs
7 51 126 2 sVYp
7 96 171 5 tFPAVLq
7 99 179 3 dLYTl
8 4 178 3 yAGQy
8 9 186 1 fAn
8 17 195 1 kFs
8 22 201 3 gDTYd
8 28 210 1 lIg
8 39 222 12 sLSYLPFAMEKKLi
8 60 255 15 lINSASTDEAAHFSYQe
8 93 294 4 cLNMYn
9 21 66 3 rKEMg
9 27 75 2 sSCt
9 90 133 9 fLRENECVSCs
10 6 44 1 dVv
10 25 64 2 aPFv
10 37 78 2 tSPe
10 45 88 7 kYGMPLLFk
10 52 102 12 qKRIELLNHYQAAa
10 55 117 7 kFNVDIANv
10 60 129 11 lMLFVNVNDNPTq
10 67 147 2 sIYl
10 76 157 1 tQa
10 80 162 3 sIDEi
10 105 190 5 nNKVDFl
11 15 45 5 qFADIAy
11 23 57 4 qPIPRv
11 28 65 3 mEEEk
11 35 75 12 vFKTLKSLYKTHAc
11 36 88 3 cYEYn
11 45 100 10 kYCGFHEDNIPq
11 58 123 2 tGFr
11 65 131 2 aGLl
11 67 135 4 sSRDFl
11 69 141 2 gGLa
11 73 147 13 vFHCTQYIRHGSKPm
11 89 175 3 hVPLf
12 5 516 7 yGNASVNPg
12 17 535 2 qNIs
12 21 541 1 qNg
12 27 547 3 yPAIv
12 34 557 1 lNv
12 37 561 7 sIYSDDGGs
12 40 571 2 wQTg
12 41 574 9 gSTLPIPFRWk
12 48 590 2 eTLe
12 72 613 8 lDFNQIVNGv
12 81 630 6 fLSKDGGi
12 89 644 5 aNNANVf
12 94 654 10 sTGTVDASITRf
13 19 463 1 rYv
13 29 474 6 kTDEAVRd
13 70 511 5 sVAQACh
13 75 521 5 mCIFTCt
13 91 542 3 tWVPn
13 92 546 2 nAPc
13 94 550 5 tMRLPPp
14 43 90 1 aFk
14 47 95 1 fAq
14 51 100 2 aLYr
14 71 122 6 fTMPEHKf
14 97 150 1 qIs
15 3 59 2 sKVw
15 9 67 3 fVKIq
15 18 79 5 sVIIVDk
15 30 94 3 eNPGg
15 32 99 11 yVAYSKAATVTGk
15 49 125 3 dLYTp
15 59 138 5 rAGKITf
15 64 148 2 vANa
15 71 157 1 iGv
15 79 166 9 tKFPIVNAELs
15 89 185 7 tGDPYTPGf
16 3 221 1 sGt
16 21 236 2 rFTg
16 52 268 5 nVALQVa
16 62 283 4 cTYGGg
16 67 292 2 sSPl
16 75 302 4 nKLCQs
16 84 315 3 yADTg
16 95 329 1 hMs
17 50 216 5 aVARIRe
17 52 223 2 qVGd
17 84 257 4 vFVDNg
18 50 267 18 rVGNLTVVAKEPDSILRVLs
18 76 310 3 tLSDp
18 96 333 1 sMr
19 64 88 4 vEDMSe
19 68 96 23 yLNEPAVFHNLRVRYNQDLIYTYSg
19 86 137 2 qEMv
19 101 152 1 aPh
20 26 126 4 vQTNEy
20 28 132 1 lMr
20 39 144 1 sPf
20 49 155 3 dLCMq
20 56 165 4 vWMADc
//
================================================== MAXHOM-STRIP =====================================================
test sequence : /home/phd/server/work/predict_h11814.phdDssp
list name : /home/phd/server/work/TOPITS_DB.list
last name was : /data/dssp/1lst.dssp
seq_length : 110
alignments : 2697
sort-mode : ZSCORE
weights 1 : NO
weights 2 : NO
smin : -1.00
smax : 2.00
maplow : 0.00
maphigh : 0.00
epsilon : 0.00
gamma : 0.00
gap_open : 2
gap_elongation : 0.2
INDEL in sec-struc of SEQ 1: YES
INDEL in sec-struc of SEQ 2: YES
NBEST alignments : 1
secondary structure alignment: NO
=================================================== SUMMARY ===========================================================
IAL VAL LEN IDEL NDEL ZSCORE %IDEN STRHOM LEN2 RMS SIGMA NAME
1 42.73 105 27 9 2.74 0.31 0.41 339 -1.00 0.000 1qr7_A MOL_ID: 1; .
2 42.53 91 32 8 2.71 0.37 0.55 113 -1.00 0.000 1by2 MOL_ID: 1; .
3 39.07 105 28 10 2.25 0.27 0.36 452 -1.00 0.000 1ivy_A MOL_ID: 1; .
4 38.80 102 45 9 2.22 0.28 0.44 202 -1.00 0.000 1tcr_A MOL_ID: 1; .
5 37.67 93 23 8 2.07 0.32 0.25 618 -1.00 0.000 1qsa_A MOL_ID: 1; .
6 37.53 109 68 14 2.05 0.37 0.32 364 -1.00 0.000 1a6q MOL_ID: 1; .
7 37.47 105 43 12 2.04 0.34 0.43 444 -1.00 0.000 1igt_B MOL_ID: 1; .
8 36.40 95 49 11 1.90 0.36 0.41 483 -1.00 0.000 1ac5 MOL_ID: 1; .
9 36.33 99 23 8 1.89 0.30 0.42 160 -1.00 0.000 1ext_A MOL_ID: 1; .
10 36.27 107 54 12 1.88 0.33 0.36 228 -1.00 0.000 1nfp LUXF GENE PRODUCT (NONFLUORESCENT FLAVOPROTEIN) COMPLEXED .
11 36.27 105 69 17 1.88 0.40 0.28 308 -1.00 0.000 4pah MOL_ID: 1; .
12 35.80 103 67 16 1.82 0.40 0.54 757 -1.00 0.000 1kit MOL_ID: 1; .
13 35.47 98 38 12 1.77 0.37 0.25 650 -1.00 0.000 1lox MOL_ID: 1; .
14 35.40 93 24 11 1.77 0.31 0.30 289 -1.00 0.000 1d5y_A MOL_ID: 1; .
15 35.33 108 55 15 1.76 0.34 0.45 639 -1.00 0.000 1cx8_B MOL_ID: 1; .
16 35.27 102 27 10 1.75 0.32 0.39 446 -1.00 0.000 1be3_A MOL_ID: 1; .
17 35.20 99 16 7 1.74 0.23 0.38 502 -1.00 0.000 1gpm_A MOL_ID: 1; .
18 35.20 102 23 4 1.74 0.20 0.35 414 -1.00 0.000 1ajs_A MOL_ID: 1; .
19 35.00 104 40 10 1.71 0.29 0.40 746 -1.00 0.000 1lvk MOL_ID: 1; .
20 34.93 94 26 9 1.70 0.31 0.47 267 -1.00 0.000 1abr_B ABRIN-A COMPLEXED WITH TWO SUGAR CHAINS .
==================================== ALIGNMENTS ===================================
1 - 51 ....:....1....:....2....:....3....:....4....:....5
pred RLSWYDPDFQARLTRSNSKCQGQLEVYLKDGWHMVCSQSWGRSSKQWEDPS
EEEEE EEEE EEEEEEE EEEEEE HHHHHH HH
OBOBOOOOBOBBBOOOOBOBOBOBBBBBOOOBOBBBBOBBOOBOOOOOOOO
LLLLLLLLHHHHHLLLLLLLLLHHHHHHLLLLLEELLLLLLLLLLLLLLLL
RLS DP RL LEVY GW S Q D
1. 1qr7_A 42.73 RlsIHDpeYATRLLALREELKDELevYFEkgWKGLINDPHMDNSFQINDGL
LELLLLHHHHHHHHHHHHHHLLLEELLLLLLLLLLLLLLLLLLLLLHHHHH
D D RL QG E W VC W D
2. 1by2 42.53 DGDM..RLADGGATNQGRVEIFYRGQWGTVCDNLW........DLT
LLLE..EEELLLLLLEEEEEEEELLEEEEEELLLL........LHH
S D F A T Q E L D K E P
3. 1ivy_A 39.07 FSYSDDKFYA..TNDTEVAQSNFEA.LQDFFRLF..PEY.KNNKLfespT
LLEELLLLLL..LEHHHHHHHHHHH.HHHHHHHL..HHH.LLLLEEELHH
L Y DF A SNS V D C S G K DPS
4. 1tcr_A 38.80 LKYYSGdfEAEFSKSNSshLRKASVHWSDSAVYFCAVsfGSGTkaLKDps
EEELLLLEEEEEELLLLEEEEELLLLHHHLEEEEEEEEELLLEEEEELLL
L D ARL S SK Q QL Y Q W S
5. 1qsa_A 37.67 LMYWNLDNTArlVKSKSKtqAQLARY...AFN...NQWWDLS....VQAT
HHHLLLHHHHHHHLLLLHHHHHHHHH...HHH...LLLHHHH....HHHH
R D R RS S G L C S GR KQ PS
6. 1a6q 37.53 RTGFLEIDEHMRvdRSGSTAVGVL.ISPQHTYFINCGDSRgrNRkqDHKPS
HHHHHHHHHHHHHLLLEELEEEEE.ELLLEEEEEEELLLEEELLELLLLLL
RL WY PD R TR N K L LKD C WG SS PS
7. 1igt_B 37.47 RLEwyYPdvKGRFtrDNAKNTLYLQMslkdTAMYYCAryWGqsSAKTTAPs
LEEEELLHHLLLEEEELLLLEEEEEELLLHLEEEEEEEEEELLLLLLELLE
S Y P F A L SK G L L GW QS S
8. 1ac5 36.40 SyyIPFfnAILNHNksKIDgdLKALlgNGWIDPNTQsiDESNPNFKHLT
ELHHHHHHHHHHHHHLLLLLEEEEEEEEELLLHHHHHLLLLLLLHHHHH
S R S SKC GQ E D VC G Q
9. 1ext_A 36.33 SFTASENHLRHCLSCSKCrgQVEIstVD.RDTVC....GCRKNQYRH.Y
EELLLLELLLLLEELLLLLLLEEEEELL.ELLEE....ELLLLEEEE.E
S YD F L V L H K W D
10. 1nfp 36.27 SIYdvAFSEHHIDKSYNDETKLavSLGKQIHVLAteTVVKAAkkWDDSQ
LLEEEEEELLLLLLELLLLLELLEEELLEEEEELLHHHHHHHHLLLLLH
DP AR N GQ E Y K W VC KQ ED S
11. 4pah 36.27 HPGFKDPVYRARRKqyNYR.HGqvE.YmkKTWGTvcnHIFPLLEkqLEDVS
LLLLLLHHHHHHHHHHHLL.LLLLL.LLHHHHHHHLHHHHHHHHHLHHHHH
S Y P LTR S QG L Y D V S WG SS E PS
12. 1kit 35.80 MSLygPGHGITLTRQqsGSqgRL.IyvLDRFFlvMssNwgkSSSILeePS
EEEELLLLLEELLLLLLLLLLLE.EEEELLLLEEEELLLEEELLEEELEE
S Y D RL S QG Y KD QSW R
13. 1lox 35.47 SFYAQD.ALRLWEIISrvQGIMGLYYkdDLEL...QSWCREITEIGL.Q
LHHHHH.HHHHHHHHHHHHHHHLLLLLLLHHH...HHHHHHHHLLLL.L
RLS RLT L L Q R KQ P
14. 1d5y_A 35.40 RLSKSAVAL..RLTA.....RPILDIALQ..YRFDSQQTFTRakKQfqTPa
HHHHHHHHH..HHLL.....LLHHHHHHH..LLLLLHHHHHHHHHHHLLHH
LSW D FQ NSK G L VYL G V G K EDP
15. 1cx8_B 35.33 KLswRDQHfqVKDSAQNsk.NGRL.VYLVegykLVHA.NFG.TKKDFEdpV
LLLLEEEEEEEELLLLLEL.LLLL.LLLLELLLEEEL.LLL.LLLLLLLLL
LS YD D L S C G DG W P
16. 1be3_A 35.27 LstYDEDAVPTL....SPCrgSQICHREDGLPLA.HVAIAVEGPGWAHPD
LLLLLLLLLLLL....LLLLLEEEEEEELLLLLE.EEEEELLLLLLLLLH
Y F T LE D C W K D
17. 1gpm_A 35.20 RFYGVQFHPEVTHTRQGMR.MLERFVRD..ICQCEALW.TPAKIIDDae
LEEEELELLLLLLLLLHHH.HHHHHHHL..LLLLLLLL.LHHHHHHHHH
D Q K G C QS S
18. 1ajs_A 35.20 FPFFDSAYQGFASGNLEKDAWAIRYFVSEGFELFCAQSFSKNFGLYNErs
EEEEEELLLLLLLLLHHHHLHHHHHHHHLLLLEEEEEELLLLLLLHHHLH
R WY PD R C G D S R K D
19. 1lvk 35.00 RYIWYNPD...PKERDSYEC.GEIVSETSDSFTFKTSDGQDRQVKK.DDAN
LEEEELLL...LLLLLLLEE.EEEEEELLLEEEEELLLLLEEEEEH.HHLE
P L S G L VYL GW S S D
20. 1abr_B 34.93 TIINPKSALVLSAESSSMGGTLTvylrQGWRTGNNTsfVTSISGYSdqA
LEEELLLLEEEELLLLLLLLELEELLHHLLEELLLLLEEELEELHHHEE
================================== ALIGNMENTS ==================================
51 - 101 ....:....1....:....2....:....3....:....4....:....5
pred SQASKVCQRLNCGVPLSLGPFLVTYTPQSSIICYGQLGSFSNCSHSRNDMC
HHHHHHHHH EEE EEEEEE EE
OOBOOBBOOBOBOOBBOBOOBOOOOOOOBBBBBOBOOOBBBBBOOOOOOOB
LLHHHHHHHHLLLLLLLLLLHHHLLLLLLLHEHHLLHLLHLLLLLLLLHHH
A K N G P G FL TPQ G G S
1. 1qr7_A 42.73 LraRKLLLDInsGLP.AAGEFLDMITPqaDLMSWGAIGARTTESQVHREL.
HHHHHHHHHHHLLLL.EEEELLLLLLHHHHHLLEEEELHHHLLLHHHHHH.
AS VC LN L GP T T S C LG SNC H R
2. 1by2 42.53 TDASVVCRAlnATQAlgSGPIMltGTEASLADC.KSLGWlsNCRHERDA..
HHHHHHHHHLLEEEEELLLLEEELLLLLLHHHL.ELLLLLLLLLHHHEL..
A V Q L G L Y YG LG S CS
3. 1ivy_A 39.07 TLAVLVMQDPSMNlgLAVGNGLSSYEQNDNSLVygLLGnwSscSQNKCNFY
HHHHHHLLLLLLLEEEEEELLLLEHHHHHHHHHHLLLLHHHHEELLEELLL
SQ S C N VP T S SN
4. 1tcr_A 38.80 sQDSTLcsQIN..VPKTMES..GTFITDATVLDMKAMDSKSNGAIAWSN..
LLLLEEELLLL..LLLLLLL..LEEELLLEEEELLLLLLEEEEEEEEEL..
A K L PL YTPQS S N
5. 1qsa_A 37.67 TIAGKLWDHLEERFPLAYNDLFKRYtpQSYAMAIARQESAWN.PKVKSPVG
HHHLLLLLLHHHHLLLLLHHHHHHHHLHHHHHHHHHHHHLLL.LLLELLLL
S S QR N SLG FLV P SIIC G C SR D C
6. 1a6q 37.53 SNpsVMIQRVNGSLAVslGDflVSPEpeRsiicwDVMGNEELCdrSrdDlc
LLHLEELLEELLLELLLEELHLLELLLELLEELHLLLLHHHHHHHHHLLHH
S VC G LG Y P GS S H D
7. 1igt_B 37.47 spLAPVC.GDTTGSSVTLGCLVKGYFPEPVTLTWNS.GSLSSGVHtqSdlS
EEELLLL.LLLLLLLEEEEEEEEEEELLLLEEEEHH.HLELLLEEEELLEE
A CQ L C L L L YT SS Q G C D
8. 1ac5 36.40 TNAHENCQNleCENILNL...LLSYTRESS.....QKGT.ADcnFNLKDSY
HHHHHHHHHHHHHLHHHH...HHHHLLLLL.....LLLL.LLEEEEEEELL
Q NC L G C G FSNC S C
9. 1ext_A 36.33 YWSENLFQCFNCSLCLN.GTVHLSCQEKQNTVCTCHAGFfsNCKKSLE..C
EEELLEEEEEELLLLLL.EEEEELLELLELLEEEELLLEEHHLLLLLL..L
QA KV RL LSL L YT SII G F C H M
10. 1nfp 36.27 QqaAkvRHRlqAKAELslEDYL.SYtaETsiINSNAAGNFDTCLHHVAEMA
HHHHHLLEEEHHHHHHHHHHHH.HHHLLLLHHHLLEEELHHHHHHHHHHHH
SQ C RL V LSLG F V YTP IC LG FS S
11. 4pah 36.27 SQFLQTCtrLR.PValslgaFRvmYTPEPD.ICHELLGhfSDRSFAQ..FS
HHHHHHHHEEE.ELLLLHHLLLELLLLLLL.HHHHHHHLHLLHHHHH..HH
S A V L G L L LV Y P I L FSN S D
12. 1kit 35.80 SEADMV..ELQNG.DLLLTARlvNYSPRQQfiTWSLLEafSNIsfEQSDGS
EEEEEE..ELLLL.LEEEEEEEEELLLEEEELLLEEEEELLLLLEELLLLL
A K Q G P SL VT T Q S I GQL F NC D
13. 1lox 35.47 QGAQK..Q....GFPTSLQshFVTmtGQHSSIHLGQLDWFtnctpTTKDAT
LLHHH..H....LLLLLLLLHHHHHLHHHHHHHLLHHHHLLHLLLLLLLLL
S PL LG F VT I G S S CS D
14. 1d5y_A 35.40 arRSPEWSAFGIRPPLRLGEffVT.LEDTPLI..GVTQSYS.CSLEqsDFR
HHHLLLEELLLLLLLLLLLLLEEE.ELLEEEE..EEEEELL.LLHHHHHHH
S V R V SL Y Q S LG F H
15. 1cx8_B 35.33 VNGSIVIVrfAEKvaESLNAivLIYMDQtsFFGHAHLGtfPSFNHTQFPPS
LLLLEEEEEHHHHHHHHLLLLEEEELLLLLELELLLLLLLLLLLLLLLLLL
A CG LSL T Q ICYG LG C HS DM
16. 1be3_A 35.27 DnaNAIIGHYDcgAHLslASIAATnsFQTFNICygLLGAHFVCDhsIDDMM
HHHHHHHLEEELHHHLLHHHHHHHLEEEEEEEELEEEEEEEEELLLHHHHH
Q KV L GV S L C G L
17. 1gpm_A 35.20 eqdDKVILGLSGGVDSSVTAMLLHRAIGKNLTCvgLL.RLNEAEQVLDMFG
HHLLEEEEELLLLHHHHHHHHHHHHHHHHHEEEELLL.LLLHHHHHHHHHL
SQ K R P G V TP G SR
18. 1ajs_A 35.20 sQMQKI.VRVTWSNPPAQGARIVARtpELFHEWTGNVKTMADRILsrSELR
HHHHHH.HHLLLLLLLLHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q GV LS G FLV P I Y Q F RN
19. 1lvk 35.00 NQRNPI..KFD.GveLSygLFLVAVNPFKRIPIYTqvDIFK..GRRRNEVa
EELLLH..HHL.LLHLLLLLEEEEELLLLLLLLLLHHHHLL..LLLHHHLL
Q S VC L YT SI NC S
20. 1abr_B 34.93 AQGSNvcDSNKKEQQWAL......YT.DGSI...RSVQNTNNCLTSKD...
EELLEELLLLLHHHLEEE......LL.LLLE...EELLEEEEEEEELL...
================================== ALIGNMENTS ==================================
101 - 110 ....:....1....:....2....:....3....:....4....:....5
pred CHSLGLTCLE
EEEE
BOBBBBBBBO
HHHHLLLHHH
GL C
1. 1qr7_A 42.73 ..ASGLSC
..HLLLLL
G C
2. 1by2 42.53 ....GVVCTN
....EEEELL
L C
3. 1ivy_A 39.07 YDNKDLECVT
LLLLLHHHHH
TC
4. 1tcr_A 38.80 ..QTSFTCQD
..LLLLLHHH
S GL
5. 1qsa_A 37.67 GAS.GL
LLE.LL
C TCL
6. 1a6q 37.53 cNEVVDTCL
HHHHHHHHH
S T
7. 1igt_B 37.47 SSSVTVT
EEEEEEL
S G
8. 1ac5 36.40 YPSCGM
LLLLLL
C L L E
9. 1ext_A 36.33 CTKLCLPQIE
LHHHHLLLLL
L L C E
10. 1nfp 36.27 AQGLnlFCFE
HHHLLEEELL
GL L
11. 4pah 36.27 SQEIGLASL
HHHHHHHHL
H L T
12. 1kit 35.80 SHFLLFT
LEEEEEE
L
13. 1lox 35.47 TLETVMATLP
LHHHHHHHLL
H
14. 1d5y_A 35.40 RHEM
HHHH
S GL
15. 1cx8_B 35.33 SRSSGLPNIP
LLLLLLLLLL
L
16. 1be3_A 35.27 MFVL
HHHH
GL
17. 1gpm_A 35.20 GDHFGL
LLLLLL
L
18. 1ajs_A 35.20 RARL
HHHH
H
19. 1lvk 35.00 ahIFAISDVA
LLHHHHHHHH
H G T L
20. 1abr_B 34.93 .HKQGSTIL
.LLLLLEEE
3 71 36
# TOPITS (Threading One-D Predictions Into Three-D Structures) # -------------------------------------------------------------------------------- # FORMAT begin # FORMAT general: - lines starting with hashes contain comments or PARAMETERS # FORMAT general: - columns are delimited by tabs # FORMAT general: - the data are given in BLOCKS, each introduced by a line # FORMAT general: beginning with a hash and a keyword # FORMAT parameters: '# PARA:tab keyword =tab value tab (further-information)' # FORMAT notation: '# NOTATION:tab keyword tab explanation' # FORMAT info: '# INFO:tab text' # FORMAT blocks 0: '# BLOCK keyword' # FORMAT blocks 1: column names (tab delimited) # FORMAT blocks n>1: column data (tab delimited) # FORMAT file end: '//' marks the end of a complete file # FORMAT end # -------------------------------------------------------------------------------- # PARA begin # PARA TOPITS HEADER: PARAMETERS # PARA: len1 = 110 # PARA: nali = 2697 # PARA: listName = /home/phd/server/work/TOPITS_DB.list # PARA: sortMode = ZSCORE # PARA: weight1 = NO # PARA: weight2 = NO # PARA: smin = -1.00 # PARA: smax = 2.00 # PARA: gapOpen = 2 # PARA: gapElon = 0.2 # PARA: indel1 = YES # PARA: indel2 = YES # PARA: threshold = ALL # PARA: str:seq = 50 (i.e. str= 50%, seq= 50%) # PARA end # -------------------------------------------------------------------------------- # NOTATION begin # NOTATION TOPITS HEADER: ABBREVIATIONS PARAMETERS # NOTATION: len1 : length of search sequence, i.e., your protein # NOTATION: nali : number of alignments in file # NOTATION: listName : fold library used for threading # NOTATION: sortMode : mode of ranking the hits # NOTATION: weight1 : YES if guide sequence weighted by residue conservation # NOTATION: weight2 : YES if aligned sequence weighted by residue conservation # NOTATION: smin : minimal value of alignment metric # NOTATION: smax : maximal value of alignment metric # NOTATION: gapOpen : gap open penalty # NOTATION: gapElon : gap elongation penalty # NOTATION: indel1 : YES if insertions in sec str regions allowed for guide seq # NOTATION: indel2 : YES if insertions in sec str regions allowed for aligned seq # NOTATION: threshold : hits above this threshold included (ALL means no threshold) # NOTATION: str:seq : weight structure:sequence # NOTATION TOPITS HEADER: ABBREVIATIONS SUMMARY # NOTATION: id2 : PDB identifier of aligned structure (1pdbC -> C = chain id) # NOTATION: pide : percentage of pairwise sequence identity # NOTATION: lali : length of alignment # NOTATION: ngap : number of insertions # NOTATION: lgap : number of residues inserted # NOTATION: len2 : length of aligned protein structure # NOTATION: Eali : alignment score # NOTATION: Zali : alignment zcore; note: hits with z>3 more reliable # NOTATION: strh : secondary str identity between guide and aligned protein # NOTATION: ifir : position of first residue of search sequence # NOTATION: ilas : position of last residue of search sequence # NOTATION: jfir : pos of first res of remote homologue (e.g. DSSP number) # NOTATION: jlas : pos of last res of remote homologue (e.g. DSSP number) # NOTATION: name : name of aligned protein structure # NOTATION end # -------------------------------------------------------------------------------- # INFO begin # INFO TOPITS HEADER: ACCURACY # INFO: Tested on 80 proteins, TOPITS found the correct remote homologue in about # INFO: 30%of the cases. Detection accuracy was higher for higher z-scores: # INFO: ZALI>0 => 1st hit correct in 33% of cases # INFO: ZALI>3 => 1st hit correct in 50% of cases # INFO: ZALI>3.5 => 1st hit correct in 60% of cases # INFO end # -------------------------------------------------------------------------------- # BLOCK TOPITS HEADER: SUMMARY rank id2 pide lali ngap lgap len2 Eali Zali strh ifir ilas jfir jlas name 1 1qr7A 31 105 9 27 339 42.73 2.74 41 1 108 46 174 1qr7_A MOL_ID: 1; . 2 1by2 37 91 8 32 113 42.53 2.71 55 6 110 4 108 1by2 MOL_ID: 1; . 3 1ivyA 27 105 10 28 452 39.07 2.25 36 2 110 106 230 1ivy_A MOL_ID: 1; . 4 1tcrA 28 102 9 45 202 38.80 2.22 44 2 110 47 186 1tcr_A MOL_ID: 1; . 5 1qsaA 32 93 8 23 618 37.67 2.07 25 2 106 391 494 1qsa_A MOL_ID: 1; . 6 1a6q 37 109 14 68 364 37.53 2.05 32 1 109 101 275 1a6q MOL_ID: 1; . 7 1igtB 34 105 12 43 444 37.47 2.04 43 1 107 44 189 1igt_B MOL_ID: 1; . 8 1ac5 36 95 11 49 483 36.40 1.90 41 3 106 176 310 1ac5 MOL_ID: 1; . 9 1extA 30 99 8 23 160 36.33 1.89 42 3 110 47 159 1ext_A MOL_ID: 1; . 10 1nfp 33 107 12 54 228 36.27 1.88 36 3 110 40 199 1nfp LUXF GENE PRODUCT (NONFLUORESCENT FLAVOPROTEIN) COMPLEXED . 11 4pah 40 105 17 69 308 36.27 1.88 28 1 109 30 195 4pah MOL_ID: 1; . 12 1kit 40 103 16 67 757 35.80 1.82 54 2 107 512 676 1kit MOL_ID: 1; . 13 1lox 37 98 12 38 650 35.47 1.77 25 3 110 447 570 1lox MOL_ID: 1; . 14 1d5yA 31 93 11 24 289 35.40 1.77 30 1 104 56 157 1d5y_A MOL_ID: 1; . 15 1cx8B 34 108 15 55 639 35.33 1.76 45 1 110 56 212 1cx8_B MOL_ID: 1; . 16 1be3A 32 102 10 27 446 35.27 1.75 39 2 104 219 338 1be3_A MOL_ID: 1; . 17 1gpmA 23 99 7 16 502 35.20 1.74 38 3 106 172 281 1gpm_A MOL_ID: 1; . 18 1ajsA 20 102 4 23 414 35.20 1.74 35 2 104 218 341 1ajs_A MOL_ID: 1; . 19 1lvk 29 104 10 40 746 35.00 1.71 40 1 110 32 161 1lvk MOL_ID: 1; . 20 1abrB 31 94 9 26 267 34.93 1.70 47 3 109 102 208 1abr_B ABRIN-A COMPLEXED WITH TWO SUGAR CHAINS . //
END of results for file predict_h11814
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