Protein Design Group.
Centro Nacional de Biotecnología (CNB - CSIC).
Campus Universidad Autónoma de Madrid.  Cantoblanco.
28049 Madrid. Spain.
Phone:+34-91-585 46 69
Fax:     +34-91-585 45 06		 Ana Rojas Mendoza
e-mail: arojas@cnb.uam.es

Last update: February, 2004

HERE THE PRESENTATION OF THE COURSE

MAIN STRUCTURAL COMPARISON DATABASES

DALI database FSSP database
CE SERVER COMBINATORIAL EXTENSION
FATCAT SERVER FLEXIBLE STRUCTURE ALIGNMENT
CONSURF SERVER NEEDS CHIME! Mapping evolutionary conserved patterns
STRUCLA SERVER Phylogenetic analysis using structures

Using the following targets:

  1. Find structural homologs
  2. compute a structural alignment using different methods
  3. Find the most conserved evolutionary patches
  4. Compute a phylogenetic tree based on structure
Target 1 >gi|13278023
MIDTLRPVPFASEMAICKTVSWLNEQLELGNERLLLMDCRPQELYESSHIESAINVAIPGIMLRRLQKGN
LPVRALFTRCEDRDRFTRRCGTDTVVLYDENSSDWNENTGGESVLGLLLKKLKDEGCRAFYLEGGFSKFQ
AEFALHCETNLDGSCSSSSPPLPVLGLGGLRISSDSSSDIESDLDRDPNSATDSDGSPLSNSQPSFPVEI
LPFLYLGCAKDSTNLDVLEEFGIKYILNVTPNLPNLFENAGEFKYKQIPISDHWSQNLSQFFPEAISFID
EARGKNCGVLVHCLAGISRSVTVTVAYLMQKLNLSMNDAYDIVKMKKSNISPNFNFMGQLLDFERTLGLS
SPCDNRVPTPQLYFTTPSNQNVYQVDSLQST
Target2 >gi|1907187
MKPQCILISLLVNLAYAEEYLVRFKNPTAFQQFTSNSNRSWRQFIDNKIEKKFSIGSFRGVTMNLSKNLV
NKLKKSPLVADIVPNFRFEAFEGDSVNSAESSYTFNATAKYSYEDVEEEQNITYQPDAPRHLARISRHYQ
LPFDVGDKDRYKSWFNYYYEHDYQGQDVNAYIMDTGIFADHPEFEDRVIQGIDLTKEGFGDQNGHGTHVA
GLVGSKTYGAAKRVNLVEVKVLGKDGSGEASNVLSGLEFIVEHCTKVSRPQGKKCVANLSLGSFRSPIIN
MAVEGAIEEGIVFVAAAGNFNLDAYWASPASAENVITVGAFDDHIDTIAKFSNWGPCVNIFAPGVEIESL
SHLNYNDTLILSGTSMSTPIVTGVAAILLSKGIEPEMIAQEIEYLSTRNVFHRRTLFFKPSTPNQILYNG
VDKLDDPYDDETFPRLNIEAIAKELEEYNATLQTPMSENLQSGSKLWGWNNDVTLPLGEIRLKRRDFMKN
L