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reference predict_h348 (Feb 18, 2004 09:49:26) reference pred_h348 (Feb 18, 2004 09:50:02) PPhdr from: arojas@cnb.uam.es PPhdr resp: MAIL PPhdr orig: HTML PPhdr want: HTML PPhdr password(###) prediction of: - default prediction of: - PHDsec PHDacc PHDhtm ProSite SEG ProDom return msf format ret html ret store # default: single protein sequence description=target-thr MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAV DFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTP IKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFV VDGRTLDRKKQMRSKLLGIF
------------------------------------------------------------- Pattern-ID: ASN_GLYCOSYLATION PS00001 PDOC00001 Pattern-DE: N-glycosylation site Pattern: N[^P][ST][^P] 4 NTSS 74 NFSY Pattern-ID: PKC_PHOSPHO_SITE PS00005 PDOC00005 Pattern-DE: Protein kinase C phosphorylation site Pattern: [ST].[RK] 63 TPK 76 SYK 106 SGK 110 TDK 115 TFR 163 TSR Pattern-ID: CK2_PHOSPHO_SITE PS00006 PDOC00006 Pattern-DE: Casein kinase II phosphorylation site Pattern: [ST].{2}[DE] 7 SNLD 31 TLIE 106 SGKD 164 SRKE Pattern-ID: MYRISTYL PS00008 PDOC00008 Pattern-DE: N-myristoylation site Pattern: G[^EDRKHPFYW].{2}[STAGCN][^P] 46 GGTNNV 101 GVGTCS
prot (#) default: single protein sequence description=target-thr /home/ppuser/server/work/predict_h348 from: 1 to: 200 prot (#) default: single protein sequence description=target-thr /home/ppuser/server/work/predict_h348 /home/ppuser/server/work/predict_h348.segNormGcg Length: 200 11-Jul-99 Check: 2818 .. 1 MLKNTSSNLD APVARSCDFA MKKMDLRKAF TLIEPGPVTL VTTSAGGTNN 51 VMTISWTMAV DFTPKLAITT GPWNFSYKAL TKSRECVIAI PTVDLLDKVV 101 GVGTCSGKDT DKFDTFRLTP IKGKYVEAPL IKECVANIEC xxxxxxxxxx 151 xxxLEGVAAY FDTSRKEKRT LHAVGDGTFV VDGRTLDRKK QMRSKLLGIF
Identities computed with respect to: (query) prot Colored by: consensus/70% and property
HSP processing: ranked
35 [ . : . . . . 1 . . . . : . . ] 175 prot (#) default: single protein... score P(N) N 100.0% PGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVG 1 PD002643 p2000.1 (34) // PROTEIN MON... 118 9.2e-07 1 24.8% PTGVTVVTTEegGRPHGMTASWFTSVSFEPPLVMVCINKSSSTHSLIksGKFAVNVLSAEQQEEVAKFFSMTRKEGDKFFGMSWWQVTSKKTGAPVLEeaLAWLECRVESVVEahTIFIGEVVSVSVEEEGKPAPLLYRRG 2 PD110067 p2000.1 (1) P96682_BACSU //... 105 0.00029 1 30.3% -----LTTLNEDGTTNISPMSSSWALGHYIILGVGLG--GKAIDNLERHKECVINLPGPDLWENVERISSYSGKKseKYEAAGLTPLQSKTVSPTRIKECPIQIEAEVKHilPEYefAIVETQALHF-------------- consensus/100% .....lsThptsGpsph.shS..hulsa...Lshshh..s.uhcsL.+ptchslsl.ss-..-pV.th.ohotKcs-Ka.shthh.lpuKhstsshlcEs.h.lEscV.pll.taphhlhEs.uh.h.............. consensus/90% .....lsThptsGpsph.shS..hulsa...Lshshh..s.uhcsL.+ptchslsl.ss-..-pV.th.ohotKcs-Ka.shthh.lpuKhstsshlcEs.h.lEscV.pll.taphhlhEs.uh.h.............. consensus/80% .....lsThptsGpsph.shS..hulsa...Lshshh..s.uhcsL.+ptchslsl.ss-..-pV.th.ohotKcs-Ka.shthh.lpuKhstsshlcEs.h.lEscV.pll.taphhlhEs.uh.h.............. consensus/70% .....lsThptsGpsph.shS..hulsa...Lshshh..s.uhcsL.+ptchslsl.ss-..-pV.th.ohotKcs-Ka.shthh.lpuKhstsshlcEs.h.lEscV.pll.taphhlhEs.uh.h.............. |
--- ------------------------------------------------------------ --- --- 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=PD002643 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD002643 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD002643 ==> graphical output of all proteins having domain PD002643 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD110067 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD110067 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD110067 ==> graphical output of all proteins having domain PD110067 --- --- NOTE: if you want to use the link, make sure the entire line --- is pasted as URL into your browser! --- --- END of PRODOM --- ------------------------------------------------------------
--- ------------------------------------------------------------ --- PSI-BLAST multiple sequence alignment --- ------------------------------------------------------------ --- --- PSI-BLAST ALIGNMENT HEADER: ABBREVIATIONS FOR SUMMARY --- SEQLENGTH : 200 --- ID : identifier of aligned (homologous) protein --- LSEQ2 : length of aligned sequence --- IDE : percentage of pairwise sequence identity --- SIM : percentage of similarity --- LALI : number of residues aligned --- LGAP : number of residues in all indels --- BSCORE : blast score (bits) --- BEXPECT : blast expectation value --- OMIM : OMIM (Online Mendelian Inheritance in Man) ID --- PROTEIN : one-line description of aligned protein --- '!' : indicates lower scoring alignment that is combined --- with the higher scoring adjacent one --- --- PSI-BLAST ALIGNMENT HEADER: SUMMARY ID LSEQ2 IDE SIM LALI LGAP BSCORE BEXPECT PROTEIN trembl|Q930M1|Q930M1 182 41 58 172 3 197 7e-50 Hypothetical protein RA01 trembl|CAE27709|CAE27709 186 38 52 168 3 196 1e-49 Flavin reductase-like. trembl|Q8P5Y0|Q8P5Y0 193 33 52 170 3 185 4e-46 Hypothetical protein XCC3 trembl|Q7NTI1|Q7NTI1 184 30 46 160 15 172 3e-42 Hypothetical protein. trembl|Q8PYB7|Q8PYB7 222 27 48 137 6 162 2e-39 Putative NADPH-flavin oxi swiss|P76121|YDDH_ECOLI 189 27 45 164 17 157 1e-37 Hypothetical protein yddH trembl|Q8FHI7|Q8FHI7 189 25 45 167 17 156 2e-37 Hypothetical protein yddH trembl|Q882G9|Q882G9 194 27 42 166 17 150 1e-35 NAD(P)H-flavin oxidoreduc trembl|Q8RDP3|Q8RDP3 197 26 42 156 4 147 7e-35 Flavoredoxin. trembl|CAE29853|CAE29853 205 21 43 109 2 142 4e-33 Hypothetical protein. trembl|Q89SH5|Q89SH5 236 22 43 109 2 141 6e-33 Blr2425 protein. trembl|Q8TNJ0|Q8TNJ0 188 28 48 112 2 141 7e-33 Flavoredoxin Flr. trembl|Q92YH5|Q92YH5 241 21 38 123 11 138 5e-32 Hypothetical protein RA09 trembl|Q7MX56|Q7MX56 195 28 42 136 4 135 3e-31 Flavin reductase domain p trembl|Q8PT07|Q8PT07 188 28 49 112 2 135 4e-31 Flavoredoxin. swiss|Q9UZA8|YC46_PYRAB 172 30 49 111 3 134 6e-31 Hypothetical protein PYRA trembl|Q8UJR1|Q8UJR1 235 20 41 121 13 134 9e-31 Hypothetical protein Atu5 trembl|Q8U370|Q8U370 172 34 49 111 3 132 2e-30 Hypothetical protein PF06 trembl|Q97GD1|Q97GD1 199 31 46 119 3 132 3e-30 Uncharacterized conserved pdb|pdb|1eje_A 192 23 41 122 7 132 3e-30 swiss|O58586|Y856_PYRHO 172 32 49 111 3 132 3e-30 Hypothetical protein PH08 trembl|Q8TR43|Q8TR43 217 27 44 115 3 131 7e-30 Fmn-binding protein. trembl|Q8XYD8|Q8XYD8 207 22 43 109 2 130 1e-29 Hypothetical protein RSc1 trembl|Q8EJH3|Q8EJH3 209 24 42 106 2 129 2e-29 Conserved hypothetical pr swiss|O26255|P152_METTH 186 23 41 120 7 129 2e-29 Protein MTH152. trembl|Q8PQ49|Q8PQ49 210 19 37 106 2 129 3e-29 Hypothetical protein XAC0 trembl|Q8PS00|Q8PS00 195 24 41 116 5 129 3e-29 Conserved protein. trembl|Q8TJ24|Q8TJ24 202 29 49 110 3 129 4e-29 Flavoredoxin. swiss|O67071|Y928_AQUAE 196 23 47 123 11 129 4e-29 Hypothetical protein AQ_9 trembl|Q8PD72|Q8PD72 210 16 38 106 2 129 4e-29 Hypothetical protein XCC0 swiss|O26674|Y574_METTH 212 27 45 115 3 128 4e-29 Hypothetical protein MTH5 trembl|Q8U6V3|Q8U6V3 212 20 40 123 11 128 4e-29 Hypothetical protein Atu4 trembl|Q87X90|Q87X90 207 22 41 106 2 128 6e-29 Conserved hypothetical pr trembl|Q92ML2|Q92ML2 208 18 41 123 11 128 7e-29 Hypothetical protein R026 trembl|Q88N18|Q88N18 201 18 38 106 2 127 7e-29 Conserved hypothetical pr trembl|Q8TKS4|Q8TKS4 200 26 43 116 5 127 8e-29 Hypothetical protein MA33 trembl|Q8A9S5|Q8A9S5 179 28 43 133 4 127 1e-28 Flavoredoxin. swiss|O28488|YH86_ARCFU 177 33 54 107 2 127 1e-28 Hypothetical protein AF17 trembl|Q89PT2|Q89PT2 205 16 32 144 16 126 2e-28 Blr3398 protein. trembl|Q7NZL0|Q7NZL0 201 18 38 123 11 125 3e-28 Hypothetical protein. trembl|CAE29606|CAE29606 231 16 30 155 17 125 4e-28 Hypothetical protein. swiss|Q9KIT1|FLR_DESGI 194 28 46 112 2 125 5e-28 Flavoredoxin. trembl|AAR33593|AAR33593 189 28 48 112 2 125 5e-28 Flavoredoxin. trembl|Q8ZVY7|Q8ZVY7 180 26 46 112 2 123 2e-27 Hypothetical protein PAE2 trembl|Q7WND0|Q7WND0 200 23 37 113 11 123 2e-27 Hypothetical protein. trembl|Q8UEL4|Q8UEL4 205 21 45 112 2 123 2e-27 Hypothetical protein Atu1 trembl|Q8X9X9|Q8X9X9 147 25 44 129 15 122 4e-27 Hypothetical protein z225 swiss|O05220|YWRF_BACSU 205 22 40 122 10 120 9e-27 Hypothetical protein ywrF trembl|Q89PZ9|Q89PZ9 225 18 33 117 13 118 4e-26 Blr3331 protein. trembl|Q92QA7|Q92QA7 200 23 45 112 2 117 8e-26 Hypothetical protein R014 trembl|Q8TTU7|Q8TTU7 190 28 47 107 3 117 1e-25 Flavoredoxin. trembl|Q8YH85|Q8YH85 203 22 43 112 2 115 4e-25 Nitrilotriacetate monooxy trembl|Q8G0M1|Q8G0M1 203 22 43 112 2 115 4e-25 Conserved hypothetical pr trembl|Q8CRD3|Q8CRD3 203 22 37 120 15 114 6e-25 Conserved hypothetical pr swiss|Q9Y8Q3|YP80_AERPE 263 26 43 119 2 114 7e-25 Hypothetical protein APE2 trembl|Q9CJB9|Q9CJB9 196 19 40 120 6 113 1e-24 Hypothetical protein yaiB swiss|Q9KAK9|YM78_BACHD 209 18 36 114 11 113 2e-24 Hypothetical protein BH22 trembl|Q7UYR8|Q7UYR8 216 23 38 109 7 112 3e-24 Hypothetical protein. trembl|Q814U7|Q814U7 203 18 38 119 10 112 3e-24 Nitrilotriacetate monooxy trembl|Q89V20|Q89V20 206 19 35 118 10 112 4e-24 Blr1238 protein. trembl|Q99QX9|Q99QX9 203 18 37 122 10 112 5e-24 Hypothetical protein SAV2 trembl|Q8NUJ0|Q8NUJ0 203 18 37 122 10 110 1e-23 Hypothetical protein MW25 trembl|Q896G0|Q896G0 164 28 44 114 4 109 3e-23 Conserved protein. trembl|Q81JX8|Q81JX8 203 18 38 119 10 108 4e-23 Hypothetical protein. trembl|Q9HI97|Q9HI97 214 23 43 106 16 107 2e-22 Hypothetical protein Ta14 trembl|Q9I381|Q9I381 202 14 33 121 11 104 6e-22 Hypothetical protein PA16 trembl|Q99QY3|Q99QY3 230 20 37 105 13 104 9e-22 Hypothetical protein SAV2 trembl|Q9K5V3|Q9K5V3 208 22 42 109 17 103 2e-21 Hypothetical protein BH39 trembl|Q9WY04|Q9WY04 149 25 49 100 4 102 2e-21 Actinorhodin polyketide d trembl|Q8NUJ2|Q8NUJ2 230 21 38 105 13 102 2e-21 Hypothetical protein MW25 trembl|Q8RGH5|Q8RGH5 180 28 39 102 3 102 4e-21 Hypothetical cytosolic pr trembl|Q9KFT5|Q9KFT5 202 28 43 110 17 101 9e-21 Hypothetical protein BH03 trembl|Q7P288|Q7P288 180 28 39 102 3 100 1e-20 Hypothetical cytosolic pr trembl|P96682|P96682 207 27 43 118 22 100 2e-20 YDFE protein. trembl|Q8ZXG6|Q8ZXG6 256 20 38 120 2 97 8e-20 Hypothetical protein PAE1 trembl|Q838S6|Q838S6 206 21 37 118 11 97 1e-19 Hypothetical protein. trembl|Q98LR6|Q98LR6 202 17 34 129 11 97 1e-19 Hypothetical protein mll0 trembl|Q7RZX5|Q7RZX5 315 25 42 111 15 95 3e-19 Hypothetical protein. trembl|Q7V7L8|Q7V7L8 168 15 30 142 10 93 2e-18 Hypothetical protein. swiss|P74373|DFA3_SYNY3 597 18 30 135 5 90 1e-17 Putative diflavin flavopr trembl|Q55660|Q55660 160 21 34 142 10 90 2e-17 Hypothetical protein slr0 trembl|Q9WZ34|Q9WZ34 159 24 42 101 3 88 4e-17 Hypothetical protein TM05 trembl|Q7P4J3|Q7P4J3 88 26 44 86 1 88 7e-17 FLAVOREDOXIN. trembl|Q8UK94|Q8UK94 323 24 38 113 11 86 2e-16 Nitrilotriacetate monooxy trembl|Q83VC4|Q83VC4 174 20 37 111 9 85 3e-16 Putative oxidoreductase M trembl|Q89PP1|Q89PP1 194 19 39 118 10 85 4e-16 Bll3439 protein. trembl|Q9JN75|Q9JN75 174 20 37 111 9 85 4e-16 Hypothetical protein (Put trembl|Q8AA80|Q8AA80 169 26 39 82 2 85 5e-16 Conserved hypothetical pr trembl|Q92CX9|Q92CX9 183 25 39 113 7 85 6e-16 Hypothetical protein lin1 trembl|Q92DQ8|Q92DQ8 206 17 35 120 11 85 6e-16 Hypothetical protein lin0 swiss|Q9RRA9|YP85_DEIRA 227 15 32 121 17 84 9e-16 Hypothetical protein DR25 trembl|Q7WT19|Q7WT19 167 18 32 109 8 84 1e-15 NADH:FMN oxidoreductase. trembl|Q8Y8Y1|Q8Y8Y1 206 17 36 112 11 82 4e-15 Hypothetical protein lmo0 trembl|Q8Y867|Q8Y867 184 16 33 112 10 82 5e-15 Hypothetical protein lmo1 trembl|Q7P2F4|Q7P2F4 186 24 42 107 9 81 9e-15 Hypothetical cytosolic pr trembl|Q89ER5|Q89ER5 193 21 39 113 8 79 2e-14 Bll7007 protein. swiss|Q9FDN6|HRB_MOOTH 229 19 39 111 8 77 2e-13 High molecular weight rub trembl|Q7U6T9|Q7U6T9 160 17 29 147 11 75 4e-13 Hypothetical protein. trembl|Q7V1I8|Q7V1I8 162 16 28 141 14 74 8e-13 Hypothetical protein. trembl|Q7VBY9|Q7VBY9 160 14 29 145 8 72 3e-12 DIM6/NTAB family protein. trembl|Q07948|Q07948 160 23 36 116 8 72 3e-12 ORF1. pdb|pdb|1usc_A 178 20 35 103 5 72 3e-12 pdb|pdb|1usf_A 178 20 35 103 5 72 3e-12 trembl|Q8CQX0|Q8CQX0 177 17 32 78 7 71 7e-12 Conserved hypothetical pr trembl|O69360|O69360 194 16 40 111 9 71 8e-12 Orf61 protein. trembl|P96849|P96849 187 17 37 112 9 68 6e-11 Hypothetical protein (Oxi trembl|Q7TW67|Q7TW67 187 17 37 112 9 68 6e-11 Possible oxidoreductase ( trembl|Q7NJQ6|Q7NJQ6 579 18 29 138 6 68 7e-11 Glr1776 protein. swiss|Q8YQD8|DFA3_ANASP 574 14 29 142 6 67 2e-10 Putative diflavin flavopr trembl|O68914|O68914 171 19 35 111 6 66 2e-10 ActVB homolog. trembl|Q7TUJ5|Q7TUJ5 591 16 29 159 12 66 2e-10 Metallo-beta-lactamase su trembl|Q8XKI9|Q8XKI9 68 28 46 61 3 66 2e-10 Hypothetical protein CPE1 trembl|Q7U3R2|Q7U3R2 582 14 28 143 9 66 3e-10 Flavoprotein. trembl|Q92ZM6|Q92ZM6 320 18 33 114 7 66 3e-10 Hypothetical protein RA04 trembl|Q7V3N2|Q7V3N2 600 13 27 133 6 65 3e-10 Flavoprotein. trembl|Q7VEG8|Q7VEG8 590 15 32 143 9 65 4e-10 Diflavin flavoprotein. trembl|Q82GR7|Q82GR7 199 15 33 118 8 65 4e-10 Hypothetical protein. swiss|Q8YQE2|DFA6_ANASP 570 14 29 138 6 65 7e-10 Putative diflavin flavopr trembl|Q7WG76|Q7WG76 172 17 33 101 5 64 1e-09 Putative monooxygenase co trembl|Q7W4Q0|Q7W4Q0 172 17 33 101 5 64 1e-09 Putative monooxygenase co swiss|Q55393|DFA1_SYNY3 573 12 24 141 8 64 1e-09 Diflavin flavoprotein A 1 trembl|Q83VZ7|Q83VZ7 325 19 33 119 7 64 1e-09 TesA protein. swiss|P54994|SNAC_STRPR 175 14 29 116 6 63 1e-09 NADH:riboflavin 5'-phosph swiss|Q8Z0C1|DFA5_ANASP 570 14 26 166 24 63 2e-09 Putative diflavin flavopr trembl|Q8XKI8|Q8XKI8 117 23 32 82 3 62 3e-09 Hypothetical protein CPE1 trembl|Q8UAE9|Q8UAE9 181 19 38 125 11 62 3e-09 Hypothetical protein Atu3 trembl|Q82KT4|Q82KT4 184 15 28 117 4 62 4e-09 Putative NADPH-flavin oxi trembl|Q7VF70|Q7VF70 208 14 34 113 11 62 4e-09 Hypothetical protein. trembl|Q8U860|Q8U860 312 19 29 151 9 62 5e-09 Flavoprotein oxidoreducta trembl|Q7VU71|Q7VU71 172 17 33 101 5 62 5e-09 Putative monooxygenase co trembl|Q92ZP7|Q92ZP7 230 16 28 114 7 61 7e-09 Hypothetical protein RA04 swiss|P72723|DFA2_SYNY3 578 17 32 99 5 61 7e-09 Putative diflavin flavopr trembl|Q7U3R1|Q7U3R1 600 18 32 97 5 61 8e-09 Putative flavoprotein. trembl|Q7TUJ4|Q7TUJ4 615 14 27 124 6 61 8e-09 Flavodoxin:flavin reducta trembl|Q93LZ6|Q93LZ6 167 19 31 114 10 61 1e-08 Oxygenase-like protein. swiss|P54990|NTAB_CHEHE 322 22 34 110 9 60 1e-08 Nitrilotriacetate monooxy trembl|Q8Y1C7|Q8Y1C7 191 21 35 110 14 60 2e-08 Putative monooxygenase ox trembl|Q7NJQ7|Q7NJQ7 584 12 27 142 6 60 2e-08 Glr1775 protein. swiss|Q8DJY2|DFA1_SYNEL 571 14 28 156 11 60 2e-08 Putative diflavin flavopr trembl|Q92ZP5|Q92ZP5 200 15 28 97 7 60 2e-08 Hypothetical protein RA04 swiss|Q8YNW5|DFA1_ANASP 576 13 25 138 8 59 2e-08 Putative diflavin flavopr trembl|Q9LAG2|Q9LAG2 161 22 41 98 11 59 3e-08 Phenol 2-hydroxylase comp trembl|Q9ZE13|Q9ZE13 161 20 36 102 6 59 3e-08 Hypothetical protein RP14 trembl|Q8RLG2|Q8RLG2 204 17 34 117 6 58 4e-08 HpaC. swiss|Q02058|DIM6_STRCO 177 23 36 101 8 58 4e-08 Actinorhodin polyketide d trembl|O06835|O06835 170 14 36 99 12 58 4e-08 StyB protein. trembl|Q8F271|Q8F271 159 20 36 116 6 58 4e-08 Flavin reductase like pro trembl|Q8U773|Q8U773 187 16 32 124 6 58 5e-08 Hypothetical protein Atu4 trembl|O34138|O34138 194 15 35 113 5 58 5e-08 NADPH-flavin oxidoreducta trembl|Q7PAU0|Q7PAU0 159 24 37 102 6 58 5e-08 Hypothetical protein. trembl|Q88GS1|Q88GS1 161 20 34 101 7 58 6e-08 Oxidoreductase, putative. trembl|Q89DZ7|Q89DZ7 184 19 34 113 5 58 7e-08 HpaC protein. trembl|AAQ87163|AAQ87163 310 15 31 113 7 57 9e-08 Nitrilotriacetate monooxy trembl|CAE28050|CAE28050 189 20 36 114 6 57 1e-07 Possible monooxygenase. pdb|pdb|1i0r_A 160 16 37 112 14 57 1e-07 pdb|pdb|1i0r_B 168 16 37 112 14 57 1e-07 pdb|pdb|1i0s_A 160 16 37 112 14 57 1e-07 pdb|pdb|1i0s_B 168 16 37 112 14 57 1e-07 trembl|O29428|O29428 169 16 37 112 14 57 1e-07 Hypothetical protein AF08 trembl|Q845S6|Q845S6 155 20 36 109 11 57 1e-07 Flavin reductase. trembl|O50215|O50215 170 17 35 112 11 57 2e-07 Styrene monooxygenase sma trembl|O33495|O33495 170 17 35 112 11 57 2e-07 Styrene monooxygenase com trembl|Q9A620|Q9A620 174 21 38 99 7 56 2e-07 NADH:riboflavin 5'-phosph swiss|Q8Z0C0|DFA2_ANASP 579 13 26 139 6 56 2e-07 Putative diflavin flavopr trembl|Q92J78|Q92J78 159 19 30 134 8 56 3e-07 Hypothetical protein RC01 trembl|Q88JF2|Q88JF2 193 13 36 114 8 55 4e-07 Flavin reductase domain p trembl|Q8GME2|Q8GME2 182 24 38 104 5 55 5e-07 Oxidoreductase. trembl|Q89H99|Q89H99 187 19 32 150 14 55 6e-07 Nitrilotriacetate monooxy trembl|Q88GS5|Q88GS5 161 17 32 101 7 54 9e-07 Oxidoreductase, putative. trembl|AAQ17112|AAQ17112 183 20 32 119 7 54 1e-06 Putative oxidoreductase. trembl|Q9KXW1|Q9KXW1 202 17 35 114 14 53 1e-06 Putative reductase. trembl|Q8YHT7|Q8YHT7 173 15 28 112 2 53 2e-06 4-HYDROXYPHENYLACETATE 3- trembl|Q8G024|Q8G024 173 15 28 112 2 53 2e-06 Monooxygenase, putative. trembl|Q7VEG9|Q7VEG9 614 13 26 130 6 52 3e-06 Diflavin flavoprotein. trembl|Q7V3N1|Q7V3N1 591 15 29 154 27 52 4e-06 Flavoprotein. trembl|Q882F6|Q882F6 161 19 34 101 7 52 5e-06 NAD(P)H-flavin oxidoreduc trembl|Q9K3F9|Q9K3F9 192 12 32 103 6 51 6e-06 Putative oxidoreductase. trembl|Q84HA3|Q84HA3 182 19 38 104 5 51 7e-06 Monooxygenase. trembl|Q98G86|Q98G86 167 16 36 118 8 51 8e-06 Hypothetical protein mll3 trembl|O53254|O53254 236 14 33 99 4 50 2e-05 Hypothetical protein (Oxi trembl|Q7TXG4|Q7TXG4 204 14 33 99 4 50 2e-05 Possible oxidoreductase ( trembl|AAQ62382|AAQ62382 144 14 32 96 7 49 2e-05 'Potential flavoprotein o trembl|Q82N21|Q82N21 168 16 36 98 6 49 3e-05 Putative flavin-dependent trembl|Q974C9|Q974C9 156 17 35 99 8 48 4e-05 Putative NADH-dependent F trembl|Q89Q06|Q89Q06 180 14 31 117 4 48 5e-05 Flavoprotein oxidoreducta trembl|Q97WR2|Q97WR2 155 13 32 99 10 48 7e-05 Hypothetical protein SSO2 trembl|Q8EMH3|Q8EMH3 157 19 39 108 13 48 8e-05 Phenol 2-hydroxylase comp trembl|Q98NL6|Q98NL6 175 14 28 120 2 48 9e-05 Monooxygenase. trembl|Q93NA5|Q93NA5 177 14 31 111 10 47 9e-05 Putative NADH:FMN oxidore trembl|Q7TZ93|Q7TZ93 244 15 30 119 14 47 9e-05 Probable oxidoreductase ( trembl|P95275|P95275 171 15 30 119 14 47 1e-04 Hypothetical protein (Dim trembl|Q92PJ7|Q92PJ7 175 18 33 98 5 47 2e-04 Putative monooxygenase pr trembl|Q97S48|Q97S48 149 9 36 72 4 47 2e-04 Conserved domain protein. trembl|Q52976|Q52976 183 16 29 73 6 47 2e-04 Belongs to stac operon (F trembl|Q9RRM9|Q9RRM9 186 15 32 95 11 47 2e-04 Oxidoreductase, putative. trembl|O53667|O53667 162 16 30 100 7 47 2e-04 Hypothetical protein (Oxi trembl|Q7U2G9|Q7U2G9 162 16 30 100 7 47 2e-04 Putative oxidoreductase ( trembl|Q9K416|Q9K416 169 16 37 98 6 46 3e-04 Putative flavin-dependent trembl|Q8NQZ1|Q8NQZ1 162 16 43 99 7 46 3e-04 Conserved protein/domain trembl|Q7VMJ0|Q7VMJ0 169 10 30 112 4 46 3e-04 4-hydroxyphenylacetic aci trembl|Q8CZ39|Q8CZ39 149 9 36 72 4 46 3e-04 Hypothetical protein. trembl|Q9ZA25|Q9ZA25 179 20 36 113 10 45 4e-04 Putative FMN:NADH oxidore trembl|Q82GF2|Q82GF2 192 16 37 114 11 45 7e-04 Putative reductase. trembl|Q9EWU5|Q9EWU5 162 17 35 96 4 44 0.001 Putative oxidoreductase. swiss|P72721|DFA4_SYNY3 594 15 28 137 6 44 0.001 Putative diflavin flavopr trembl|Q8VQV3|Q8VQV3 195 19 35 112 11 43 0.001 NimA protein. trembl|Q8XYC2|Q8XYC2 183 19 29 102 7 43 0.002 Hypothetical protein RSc1 trembl|Q8RQP9|Q8RQP9 176 17 37 94 14 43 0.002 4-nitrophenol hydroxylase trembl|Q9UTQ4|Q9UTQ4 244 18 37 75 6 43 0.002 Puatative oxidoreductase. trembl|Q7ML53|Q7ML53 168 15 36 114 4 43 0.002 Putative 4-hydroxyphenyla trembl|Q887X7|Q887X7 180 11 27 114 4 43 0.002 NAD(P)H-flavin oxidoreduc trembl|Q8FPW6|Q8FPW6 166 21 37 99 7 42 0.004 Putative oxidoreductase. trembl|Q8KL32|Q8KL32 208 14 33 109 13 42 0.004 Probable swiss|Q48441|HPAC_KLEOX 170 14 34 112 10 42 0.004 4-hydroxyphenylacetate 3- trembl|Q8NRN7|Q8NRN7 163 16 34 99 10 41 0.006 Conserved protein/domain trembl|Q8ZVT5|Q8ZVT5 140 12 31 96 8 41 0.006 Hypothetical protein PAE2 trembl|Q8UCF6|Q8UCF6 179 13 30 113 6 41 0.007 Actinorhodin polyketide d trembl|Q8KI76|Q8KI76 170 15 30 95 8 41 0.008 Flavin dependent oxidored trembl|Q8UCI9|Q8UCI9 174 13 32 97 5 41 0.010 Flavoprotein oxidoreducta trembl|Q8FJ45|Q8FJ45 184 13 30 115 6 40 0.015 Putative flavin:NADH redu trembl|O68503|O68503 192 16 32 98 8 40 0.016 NADH-dependent FMN OXYDOR swiss|P75893|YCDH_ECOLI 164 14 31 115 6 40 0.018 Putative flavin:NADH redu trembl|Q8F2D6|Q8F2D6 134 24 49 60 1 39 0.033 Hypothetical protein. trembl|Q9CKT4|Q9CKT4 168 13 31 113 0 39 0.036 Hypothetical protein PM15 trembl|Q83LK9|Q83LK9 184 13 30 115 6 38 0.044 4-hydroxyphenylacetate 3- swiss|Q8YNW7|DFA4_ANASP 575 12 25 149 28 38 0.047 Putative diflavin flavopr swiss|Q8XAV0|YCDH_ECO57 164 13 30 115 6 38 0.049 Putative flavin:NADH redu trembl|O87008|O87008 179 14 30 102 5 38 0.067 Chlorophenol-4-monooxygen trembl|Q8CQW9|Q8CQW9 57 25 43 31 1 38 0.073 Conserved hypothetical pr trembl|Q9HWT6|Q9HWT6 170 9 28 115 2 38 0.081 4-hydroxyphenylacetate 3- trembl|Q7UD00|Q7UD00 152 13 31 97 5 37 0.091 Hypothetical protein. trembl|Q9R594|Q9R594 38 34 43 31 1 36 0.17 FLAVOREDOXIN (Fragment). trembl|Q8UAU0|Q8UAU0 175 17 35 97 9 36 0.17 Nitrilotriacetate monooxy swiss|Q8DJ55|DFA2_SYNEL 578 15 31 82 6 36 0.21 Putative diflavin flavopr trembl|Q9C2E6|Q9C2E6 248 23 39 49 2 35 0.43 (AL513463) conserved hypo trembl|Q7N7X7|Q7N7X7 172 14 32 98 3 35 0.63 4-hydroxyphenylacetic aci trembl|Q8PVV4|Q8PVV4 212 14 32 83 13 34 0.84 Conserved protein. trembl|Q8TSV0|Q8TSV0 212 16 31 90 14 34 0.98 Hypothetical protein MA06 --- --- PSI-BLAST ALIGNMENT
--- ------------------------------------------------------------ --- 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 NAME yh86_arcfu 31 44 150 2 13 177 O28488 Hypothetical protein AF17 yddh_ecoli 30 39 161 5 21 205 P76121 HYPOTHETICAL 22.8 KDA PRO y856_pyrho 28 31 161 4 12 172 O58586 Hypothetical protein PH08 yc46_pyrab 28 31 151 3 12 172 Q9UZA8 Hypothetical protein PYRA --- --- MAXHOM ALIGNMENT: IN MSF FORMAT
--- --- Version of database searched for alignment: --- SWISS-PROT release 41 (02/2003) with 122 564 proteins ---
Identities computed with respect to: (1) predict_h3480 Colored by: consensus/70% and property
1 [ . . . . : . . . . 1 . . . . : . . . . ] 200 1 predict_h3480 100.0% MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFVVDGRTLDRKKQMRSKLLGIF 2 yh86_arcfu 28.4% --------------------------------------TYLIVSGVEKPNVMTADWVVPLSFSPqlGVAIGHSRYTHSLIKECGEFVVAVPTIELLKDVWKAGTLSGAKENKMEKLSLTLVESKKVKVPSIKECQANLECRVVKEVETGDHTLFVGE------------ILHVTHGDAFKDGKPDINYKFVMHASFGKNF 3 yddh_ecoli 28.2% -----------------------IELHHASRLLNHGPTVLITSFDEQsrNIMAAAWSMPVEFepRVAIVVDKSTWTRELIEHNGKFGIVIPGVAATNWTWAVGSVSGRDEDKFNCYGIPVVRGPVFGLPLVEecLAWMECRLLPATSaaDARVFVEGRWQFDDDKLN--TLHHLGAGTFVTSGKRV-------------- 4 y856_pyrho 28.2% ---------------------------EGYRLLYPMRTYLIVSGHGEETNVMAADWVTVVSFDPfvGVAVAPKRTTHKLIKKYGEFVISVPSLDVLRDVWIAGTKKGP--SKLKEMSVTLIPSKKVKVPSIEEALANIECRVIDARSYGDHTFFVGEVvaFEKGKPNlkFLAHVSWSEFVTFSEKVHKAE---------- 5 yc46_pyrab 28.1% ---------------------------EGYRLLYPMRTYLVVSGHGDEANVMAADWVTVLSFDPFMVGviAPKRTTHKLIKKYNEFVISVPSLEMLRDVWIAGTKKGP--SKLKDMGITLVPSRKVKVPSIKEALANIECEVYDTKDYGDHTLFVGKVLAYTYKEEAfnFLAHVSWSEFV-------------------- consensus/100% ......................................hhlhs.t.tp.NlMshsWshslpFpP.hshshs..phohphlpc.tchslslPslthhp.shhsGohpG...sKhpphtls.l.u.hhthP.lcEs.A.hECclh..hphtDhhhh.t.............hLthht.stFh.................... consensus/90% ......................................hhlhs.t.tp.NlMshsWshslpFpP.hshshs..phohphlpc.tchslslPslthhp.shhsGohpG...sKhpphtls.l.u.hhthP.lcEs.A.hECclh..hphtDhhhh.t.............hLthht.stFh.................... consensus/80% ....cu.pLl..h.shLlsoutsppsNVMsAsWshslsFsPhlulslu.pphT+cLIc+.sEFVIulPol-hLccVWhsGThpG...sKhcphulTll.u+hVclP.IcEslANlEC+VlcthphuDtslFVGthh.ap.tc.t..hLttluhupFVs.t.pl.............. consensus/70% ....cu.pLl..h.shLlsoutsppsNVMsAsWshslsFsPhlulslu.pphT+cLIc+.sEFVIulPol-hLccVWhsGThpG...sKhcphulTll.u+hVclP.IcEslANlEC+VlcthphuDtslFVGthh.ap.tc.t..hLttluhupFVs.t.pl.............. |
PREDICTION OF BONDING STATE OF CYSTEINES Network N. 1 Conservation+ Entropy N.cys Prob.SS Prob.SH 17 0.063152 0.936849 86 0.172651 0.827348 105 0.139590 0.860410 134 0.013818 0.986182 140 0.589704 0.410297 ################### Network N. 2 Conservation+ Entropy + Charges N.cys Prob.SS Prob.SH 17 0.056250 0.603368 86 0.140452 0.364905 105 0.084989 0.615075 134 0.035703 0.775042 140 0.569967 0.097433 ################### Network N. 3 Charge N.cys Prob.SS Prob.SH 17 0.182775 0.817209 86 0.077382 0.922617 105 0.031596 0.968402 134 0.041876 0.958124 ################### Network N. 4 Conservation+ Entropy+Hydrophobicity N.cys Prob.SS Prob.SH 17 0.032125 0.967874 86 0.095396 0.904606 105 0.060646 0.939354 134 0.021265 0.978734 140 0.554396 0.445600 ################### Network N. 5 Conservation+ Entropy + Charges + Hydrophobicity N.cys Prob.SS Prob.SH 17 0.056526 0.943477 86 0.113916 0.886084 105 0.075339 0.924661 134 0.037543 0.962456 140 0.609607 0.390399 ################### JURY AMONG THE DIFFERENT NETWORKS Prob.SS Prob.SH N.cys BONDED NON-BONDED DISULFIDE 17 0.078 0.854 NO 86 0.120 0.781 NO 105 0.078 0.862 NO 134 0.030 0.932 NO 140 0.465 0.269 YES #==============================================#
**************************************************************************** * * * 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. * * * ****************************************************************************
sec str type | H | E | L | % in protein | 22.00 | 28.50 | 49.50 |
accessib type | b | e |
% in protein | 56.50 | 43.50 |
%A: 7.0 | %C: 2.5 | %D: 7.5 | %E: 3.5 | %F: 4.5 |
%G: 6.5 | %H: 1.0 | %I: 6.0 | %K: 10.5 | %L: 8.0 |
%M: 3.0 | %N: 3.0 | %P: 4.0 | %Q: 0.5 | %R: 4.5 |
%S: 5.0 | %T: 10.5 | %V: 10.0 | %W: 1.0 | %Y: 1.5 |
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 |
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%). |
pT_htm: | 'probability' for assigning transmembrane helix |
pN_htm: | 'probability' for assigning globular region |
phd_skip: | note: sequence stretches with less than 9 are not predicted, the symbol '*' is used! |
PHD results (brief)....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....1 AA MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVV PHD_sec HHHHHHHH HHHH HHHHHHHH EEEEEE EEEEEEEE EEEEEE HHHHHHH EEEEEE HHHHHHHH Rel_sec **** **** * ****** **** **** ******* * ********* *** **** ** **** ** ****** P_3_acc ebeeb ebbe bbe bb bbeeb beebb bbbb bbbbbbb eee bbbbbbbbbbbe bbbbbbbbeeeeb ebbeebe bbbbbbbeebeebb Rel_acc * * ***** * ***** * *** ** * ....,....11...,....12...,....13...,....14...,....15...,....16...,....17...,....18...,....19...,....20 AA GVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFVVDGRTLDRKKQMRSKLLGIF PHD_sec HHH HHH HHH EEEEEEEEEEE EEEEEEEE EEEEEE EEEE EE Rel_sec ** **** * ** **** ********* *** ******* ***** * ** ** *** ** * P_3_acc bbee eeb b ebbb b ebeebbbbbbeebbb b b b b bebb bbbbbbbb bee eeebbbbbb ebb bbbbbe b eeb b bbbbb Rel_acc * * * * * * * ** ** ** * * **
PHD results (normal) ....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....1 AA MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVV PHD_sec HHHHHHHH HHHH HHHHHHHH EEEEEE EEEEEEEE EEEEEE HHHHHHH EEEEEE HHHHHHHH Rel_sec 9867222314577642045211322678875226996499983689977622464433213986699998267523566641571788625523589999 SUB_sec LLLL......HHHH....H......HHHHHH..LLLL.EEEE.LLLLLLL...E.......LLLEEEEEE.LLL..HHHH..LL.EEEE.LL..HHHHHH P_3_acc ebeeb ebbe bbe bb bbeeb beebb bbbb bbbbbbb eee bbbbbbbbbbbe bbbbbbbbeeeeb ebbeebe bbbbbbbeebeebb Rel_acc 1222102042022113210021101011201250003458651112010022232340220001165754021010011511001678274010001241 SUB_acc ........b.......................b....bbbbb..............b........bbbbb.........b.....bbb.bb.......b. ....,....11...,....12...,....13...,....14...,....15...,....16...,....17...,....18...,....19...,....20 AA GVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFVVDGRTLDRKKQMRSKLLGIF PHD_sec HHH HHH HHH EEEEEEEEEEE EEEEEEEE EEEEEE EEEE EE Rel_sec 9744379751122114522136646897422113337899986652269736999986202247899535466337748871761014334342303429 SUB_sec HH...LLLL.......L....LL.LLLL........EEEEEEEEE..LLL.EEEEEEE.....LLLLL.E.EE..LL.EEE.LL...............L P_3_acc bbee eeb b ebbb b ebeebbbbbbeebbb b b b b bebb bbbbbbbb bee eeebbbbbb ebb bbbbbe b eeb b bbbbb Rel_acc 0231100210125001121000011012216005150909161002100002680752101111230005404010313030412200121311274100 SUB_acc ............b.................b..b.b.b.b.b..........bb.bb............bb.b.........b............bb...
--- --- GLOBE: prediction of protein globularity --- --- nexp = 87 (number of predicted exposed residues) --- nfit = 90 (number of expected exposed residues --- diff = -3.00 (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
Ambivalent Sequence Predictor (ASP v1.0) mmy Parameters: Window size : 5 Min mu dPr : 9 Z-score cutoff : -1.75 Mean dPr score=12.145, Standard deviation=2.741 ....,....1....,....2....,....3....,....4....,....5....,....6 AA |MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAV| prH sec |001134434677776546654434577887642100000000000001000000000000| prE sec |000000000000011100000000000000122100268998610000113567665554| prL sec |987755554321112342234565321111234799730001378887775432223345| ASP sec |............................................................| ....,....7....,....8....,....9....,....10...,....11...,....12 AA |DFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTP| prH sec |000000000000124667765420010001125568999987633101244544321111| prE sec |301179898842100001111111478875100000000000000001000011112334| prL sec |698720000157775321112467410013664321000001366887644333466444| ASP sec |....................................................S.....SS| ....,....13...,....14...,....15...,....16...,....17...,....18 AA |IKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFV| prH sec |111210012344432110000000000000000000001100000001000000000000| prE sec |210000001211112578888877654201379999875443310002566775311688| prL sec |567678985434455210000112245798510000113455678986322223587311| ASP sec |..........SSSS..............................................| ....,....19...,....20...,....21...,....22...,....23...,....24 AA |VDGRTLDRKKQMRSKLLGIF| prH sec |00000012222325542110| prE sec |84114442221001001230| prL sec |15774445455563345559| ASP sec |......SSSS..........| Please note: ASP was designed to identify the location of conformational switches in amino acid sequences. It is NOT designed to predict whether a given sequence does or does not contain a switch. For best results, ASP should be used on sequences of length >150 amino acids with >10 sequence homologues in the SWISS-PROT data bank. ASP has been validated against a set of globular proteins and may not be generally applicable. Please see Young et al., Protein Science 8(9):1852-64. 1999. for details and for how best to interpret this output. We consider ASP to be experimental at this time, and would appreciate any feedback from our users.
Bottom - Summary - Details - PredictProtein |
PROF predictions for query |
SYNOPSIS of prediction for query |
sec str type | H | E | L | % in protein | 16.00 | 31.50 | 52.50 |
accessib type | b | e |
% in protein | 41.00 | 59.00 |
HEADER information |
ali_orig | /home/ppuser/server/work/predict_h348.hsspPsiFil |
%A: 7.0 | %C: 2.5 | %D: 7.5 | %E: 3.5 | %F: 4.5 |
%G: 6.5 | %H: 1.0 | %I: 6.0 | %K: 10.5 | %L: 8.0 |
%M: 3.0 | %N: 3.0 | %P: 4.0 | %Q: 0.5 | %R: 4.5 |
%S: 5.0 | %T: 10.5 | %V: 10.0 | %W: 1.0 | %Y: 1.5 |
prof_fpar | acc=/home/ppuser/server/pub/prof/net/PROFboth_best.par |
prof_nnet | acc=6 |
AA : | amino acid sequence |
OBS_sec: | observed secondary structure: H=helix, E=extended (sheet), blank=other (loop) |
PROF_sec: | PROF predicted secondary structure: H=helix, E=extended (sheet), blank=other (loop) PROF = PROF: Profile network prediction HeiDelberg |
Rel_sec: | reliability index for PROFsec prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' |
SUB_sec: | subset of the PROFsec 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) |
O_2_acc: | observerd relative solvent accessibility (acc) in 2 states: b = 0-16%, e = 16-100%. |
P_2_acc: | PROF predicted relative solvent accessibility (acc) in 2 states: b = 0-16%, e = 16-100%. |
O_3_acc: | observerd relative solvent accessibility (acc) in 3 states: b = 0-9%, i = 9-36%, e = 36-100%. |
P_3_acc: | PROF predicted relative solvent accessibility (acc) in 3 states: b = 0-9%, i = 9-36%, e = 36-100%. |
OBS_acc: | observed 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%). |
PROF_acc: | PROF 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%). |
Rel_acc: | reliability index for PROFacc prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' |
SUB_acc: | subset of the PROFacc 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 |
ali_orig: | input file |
prof_fpar: | name of parameter file, used [w] |
prof_nnet: | number of networks used for prediction [d] |
prof_skip: | note: sequence stretches with less than 9 are not predicted, the symbol '*' is used! |
BODY with predictions for query |
PROF results (normal)....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....10.1.,....11.1.,....12.1.,....13.1.,....14.1.,....15.1.,....16.1.,....17.1.,....18.1.,....19.1.,....2 AA MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFVVDGRTLDRKKQMRSKLLGIF OBS_sec PROF_sec HHHHHHH HHHHHHH EEEEEE EEEEEEEEE EEEEEE HHHHH EEEEE HHHHHHHHHH HHH EEEEEEEEEEEE EEEEEEEEEEE EEEEEE EEEEE EEE Rel_sec 96555344340233100011342453353321268864888615677531135544432256541678734544221233205807887325226778876325678763300001120013644565301111035675776441047616888876532046765135563024416762426401213340003668 SUB_sec LLLLL...................L..H.....LLLL.EEEE.LLLLL....EE......LLL..EEEE..L..........LL.EEEE..L..HHHHHHH..LLLLLL.............L..LLL........EEEEEEE.....LL.EEEEEEEE....LLLL..EEE......EEE...E............LLL O_3_acc bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb P_3_acc e ee eeebeebbe bbe e ee ebeeb e b eebbbbbbb eeeee bbbbbbbb be eb bbbbb eee b e beee bbbbbb ebbe b ebbe eeee eebee ebe e ee e b beebbb b b b bee ebbbbbbbb e eeee bb b ee eb b b ebe eee eeb e e Rel_acc 61220132333012230311045220534232212214598622021011233432102021112648531102201526231124794622240243713013101640333132331123042120004111033517433231230211680630030101243222210020031332123112021042210406 SUB_acc e....................ee...e.b........bbbbb...........b...........bbbb........e.b.....bbbbb...e..e.b........ee..............e......b......b.bi...........bb.b.........e..........................i....e.e
PROF results (detail) ....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....10.1.,....11.1.,....12.1.,....13.1.,....14.1.,....15.1.,....16.1.,....17.1.,....18.1.,....19.1.,....2 AA MLKNTSSNLDAPVARSCDFAMKKMDLRKAFTLIEPGPVTLVTTSAGGTNNVMTISWTMAVDFTPKLAITTGPWNFSYKALTKSRECVIAIPTVDLLDKVVGVGTCSGKDTDKFDTFRLTPIKGKYVEAPLIKECVANIECKVVDIIKKHDIVVLEGVAAYFDTSRKEKRTLHAVGDGTFVVDGRTLDRKKQMRSKLLGIF pH_sec .. 1.0 pH_sec ....... 0.9 pH_sec . ....... 0.8 pH_sec .. .... . ......... 0.7 pH_sec ..... ...... .... .......... 0.6 pH_sec ........ ....... ...... .......... . .. ... ... 0.5 pH_sec .......... . ....... ...... ........... .... .... . .... 0.4 pH_sec ............................ .......... ............ ....... ....... .......... 0.3 pH_sec .............................. ..... ............ .............. .......... ...... .......... .... ............ 0.2 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- pE_sec ... . .. .... 1.0 pE_sec .... ... .... . ... ....... ... 0.9 pE_sec ..... .. .... .... ....... . ........ ... ... . 0.8 pE_sec ..... ....... ..... ..... ......... ......... ..... .... .. 0.7 pE_sec ...... ......... ...... ..... ........... ........... ..... ..... ... 0.6 pE_sec ...... ......... ...... ...... .. ............. ............ ....... ..... .... 0.5 pE_sec ...... ........... ...... ....... ....... . .............. ............ ........ ..... .... 0.4 pE_sec ... ...... ............. ........ ... ....... .......... ................... ............. ..................... . . 0.3 pE_sec ..... .... ..... ..... ......... ................................... ....... ..................................................... ............................ ..... 0.2 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- pL_sec . . . 1.0 pL_sec .. .. ... . .... . .. ... . 0.9 pL_sec ..... . .... ..... .... . .. . ...... . .. .. .... . ... 0.8 pL_sec .......... . .. .... ...... .... ... .. . ........ ....... ... ..... .. . . ... 0.7 pL_sec .......... ..... ..... ....... ..... .... . ... .. ......... .. ......... ... ...... ... . . ... .... 0.6 pL_sec ........... ......... ..... ........ ...... ...... .... .. ......... .............. . ..... ....... ..... . ......... .... 0.5 pL_sec ............ ............ ..... ......... ....... ......... .... ..... ............. ............... ... ...... ......... ..... ... .............. 0.4 pL_sec ........................... .......... .......... .. ........ ................ ..... ................................... . ........ ........... ...... ... ............... 0.3 pL_sec ...................................... ......................... .................. ....... ..................................................... ........................................... 0.2 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- OBS_acc 100% OBS_acc 81% OBS_acc 64% OBS_acc 49% OBS_acc 36% OBS_acc 25% OBS_acc 16% OBS_acc 9% OBS_acc 4% -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROF_acc . . . . ... ... . . 100% PROF_acc . .. .. . . .. . . . . ... .. . . .... . . .. . . 81% PROF_acc . .. ... . . .. .. . . ... . . .. . . . . . ... .. . . . .. . . .... . . .. . . 64% PROF_acc . .. ... .. . . . .. . .. . .. ..... . . ... . ... . . . . .... .. .. . . . .. . .. .. . . .... .. . . . ... .. . . 49% PROF_acc ........ .. .. . . .. . .. .. ... ..... . ... ..... .. ..... ... .. . ......... .. . .. .... . .. . ... .... .. ........ .. . . .. ..... ... ... 36% PROF_acc ........ .. .. ... .. . .. ... ... ....... . ... . ..... .. ..... ... .. .. ......... .. . ....... . .. . . ... .... .. ........ . .. . . . .. ..... ... .... 25% PROF_acc ........ .. .. ........ .. ... ... ....... . ... . ..... ... ..... ... .. .. ......... .... .......... . .. . . . ... .... ........... . ..... . . .. ......... .... 16% PROF_acc ........... .. ........ .. ... ... ....... . ... . ..... ... ..... ... .. .. ......... ............... . .. . . . ... .... ........... . ..... . . .. ......... .... 9% PROF_acc ........... .. ......... .. ... ... ....... . ... . ..... ... ..... ... .. .. ......... ............... . .. . . . ... .... ........... . ..... . . .. ......... .... 4% --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Top - Summary - Details - PredictProtein |
--- --- GLOBE: prediction of protein globularity --- --- nexp = 118 (number of predicted exposed residues) --- nfit = 90 (number of expected exposed residues --- diff = 28.00 (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
END of results for file predict_h348
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