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(-) Description

Title :  BOUND WATER MOLECULES AND CONFORMATIONAL STABILIZATION HELP MEDIATE AN ANTIGEN-ANTIBODY ASSOCIATION
 
Authors :  T. N. Bhat, R. J. Poljak
Date :  03 Dec 93  (Deposition) - 31 May 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. N. Bhat, G. A. Bentley, G. Boulot, M. I. Greene, D. Tello, W. Dall'Acqua, H. Souchon, F. P. Schwarz, R. A. Mariuzza, R. J. Poljak
Bound Water Molecules And Conformational Stabilization Help Mediate An Antigen-Antibody Association.
Proc. Natl. Acad. Sci. Usa V. 91 1089 1994
PubMed-ID: 8302837  |  Reference-DOI: 10.1073/PNAS.91.3.1089
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG1-KAPPA D1.3 FV (LIGHT CHAIN)
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - IGG1-KAPPA D1.3 FV (HEAVY CHAIN)
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1VFA)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:23 -A:88
2B:22 -B:95

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:7 -Pro A:8
2Thr A:94 -Pro A:95

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1VFA)

(-) 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 A from PDB  Type:PROTEIN  Length:108
 aligned with KV5A3_MOUSE | P01635 from UniProtKB/Swiss-Prot  Length:115

    Alignment length:108
                                                                                                                        115             
                                    30        40        50        60        70        80        90       100       110    |    -        
          KV5A3_MOUSE    21 DIQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTP-------------   -
               SCOP domains d1vfaa_ A: Immunoglobulin light chain kappa variable domain, VL-kappa                                        SCOP domains
               CATH domains 1vfaA00 A:1-108 Immunoglobulins                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 1vfa A   1 DIVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIKR 108
                                    10        20        30        40        50        60        70        80        90       100        


Chain B from PDB  Type:PROTEIN  Length:116
 aligned with HVM44_MOUSE | P01820 from UniProtKB/Swiss-Prot  Length:115

    Alignment length:116
                                                                                                                         115                    
                                    29        39        49        59        69        79        89        99       109     |   -         -      
          HVM44_MOUSE    20 QVQLKESGPGLVAPSQSLSITCTVSGFSLTGYGVNWVRQPPGKGLEWLGMIWGDGSTDYNSALKSRLSISKDNSKSQVFLKMNSLQTDDTARYYCA--------------------   -
               SCOP domains d1vfab_ B: Immunoglobulin heavy chain variable domain, VH                                                            SCOP domains
               CATH domains 1vfaB00 B:1-116 Immunoglobulins                                                                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee.......eeeeeee......eeeeee.....eee.......eeeeee....eeeeee...hhhhheeeeeeee....eeee...eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 1vfa B   1 QVQLQESGPGLVAPSQSLSITCTVSGFSLTGYGVNWVRQPPGKGLEWLGMIWGDGNTDYNSALKSRLSISKDNSKSQVFLKMNSLHTDDTARYYCARERDYRLDYWGQGTTLTVSS 116
                                    10        20        30        40        50        60        70        80        90       100       110
   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  (2, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (KV5A3_MOUSE | P01635)
molecular function
    GO:0003823    antigen binding    Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.

Chain B   (HVM44_MOUSE | P01820)
molecular function
    GO:0003823    antigen binding    Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.

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  Cis Peptide Bonds
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  KV5A3_MOUSE | P01635
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 Related Entries

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

UniProtKB/Swiss-Prot
        HVM44_MOUSE | P01820: 1a2y 1a7n 1a7o 1a7p 1a7q 1a7r 1dl7 1dvf 1g7h 1g7i 1g7j 1g7l 1g7m 1kir 1p4b 1p4i 1vfb 43c9 43ca
        KV5A3_MOUSE | P01635: 1a2y 1a7n 1a7o 1a7p 1a7q 1a7r 1dvf 1kip 1kiq 1qbl 1qbm 1vfb 1wej

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1VFA)