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(-) Description

Title :  CRYSTAL STRUCTURE OF FAB13B5 AGAINST HIV-1 CAPSID PROTEIN P24
 
Authors :  S. Monaco-Malbet, C. Berthet-Colominas, A. Novelli, N. Battai, N. Piga, F. Mallet, S. Cusack
Date :  21 Aug 00  (Deposition) - 27 Nov 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin, Fab, Antibody, Antigen, Hiv-1, P24, Ca (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Monaco-Malbet, C. Berthet-Colominas, A. Novelli, N. Battai, N. Piga, V. Cheynet, F. Mallet, S. Cusack
Mutual Conformational Adaptations In Antigen And Antibody Upon Complex Formation Between An Fab And Hiv-1 Capsid Protein P24
Structure V. 8 1069 2000
PubMed-ID: 11080628  |  Reference-DOI: 10.1016/S0969-2126(00)00507-4

(-) Compounds

Molecule 1 - IMMUNOGLOBULIN LIGHT CHAIN
    Chains: L
    Fragment: LIGHT CHAIN 1-210
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: OBTAINED BY PEPSIN CLEAVAGE (FAB')
 
Molecule 2 - IMMUNOGLOBULIN HEAVY CHAIN
    Chains: H
    Fragment: HEAVY CHAIN 1-219
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: OBTAINED BY PEPSIN CLEAVAGE (FAB')

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1E6O)

(-) Sites  (0, 0)

(no "Site" information available for 1E6O)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:147 -H:202
3L:23 -L:87
4L:132 -L:192

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Phe H:153 -Pro H:154
2Glu H:155 -Pro H:156
3Trp H:195 -Pro H:196
4Ser L:7 -Pro L:8
5Tyr L:92 -Pro L:93
6Tyr L:138 -Pro L:139

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1E6O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1E6O)

(-) Exons   (0, 0)

(no "Exon" information available for 1E6O)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain H from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains d1e6oh1 H:1-120 Immunoglobulin heavy chain variable domain, VH                                                          d1e6oh2 H:121-219 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                     SCOP domains
               CATH domains 1e6oH01 H:1-120 Immunoglobulins                                                                                         1e6oH02 H:121-219 Immunoglobulins                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhheeeeeee.....eeeeeeee....eeee.hhh...eeeeee....eeeeee...hhhhheeeeee................eeeee........eeeee....hhhhh.eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e6o H   1 EVQLQQSGAELARPGASVKMSCKASGYTFTSYTMHWVKQRPGQGLEWIGYINPSSGYSNYNQKFKDKATLTADKSSSTAYMQLSSLTSEDSAVYYCSRPVVRLGYNFDYWGQGSTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVP 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         


Chain L from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                  
               SCOP domains d1e6ol1 L:1-105 Immunoglobulin light chain kappa variable domain, VL-kappa                               d1e6ol2 L:106-210 Immunoglobulin light chain kappa constant domain, CL-kappa                              SCOP domains
               CATH domains 1e6oL01 L:1-106 Immunoglobulins                                                                           1e6oL02 L:107-209 Immunoglobulins                                                                      - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee......eeeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeee..........eeeee.......eeeee..hhhhhhh.eeeeeeeee.......eeeeee........eeeee...........eeeeeeeehhhhhhh.eeeeeee.......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1e6o L   1 EIVLTQSPAITAASLGQKVTITCSASSSVSYMHWYQQKSGTSPKPWIYEISKLASGVPARFSGSGSGTSYSLTISSMEAEDAAIYYCQQWNYPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 210
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (4, 4)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1E6O)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1E6O)

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  Sites
(no "Sites" information available for 1e6o)
 
  Cis Peptide Bonds
    Glu H:155 - Pro H:156   [ RasMol ]  
    Phe H:153 - Pro H:154   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Trp H:195 - Pro H:196   [ RasMol ]  
    Tyr L:138 - Pro L:139   [ RasMol ]  
    Tyr L:92 - Pro L:93   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

1a80 HIV CAPSID C-TERMINAL DOMAIN
1afv HIV-1 CAPSID PROTEIN C-TERMINAL FRAGMENT PLUS GAG P2 DOMAIN
1e6j CRYSTAL STRUCTURE OF HIV-1 CAPSID PROTEIN (P24) IN COMPLEX WITH FAB13B5
1esk SOLUTION STRUCTURE OF NCP7 FROM HIV-1
1tam HUMAN IMMUNODEFICIENCY VIRUS, NMR, MINIMIZED AVERAGE STRUCTURE