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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BROADLY NEUTRALIZING LLAMA VHH D7 AND ITS MODE OF HIV-1 GP120 INTERACTION
 
Authors :  A. Hinz, D. Lutjehulsik, A. Forsman, W. Koh, H. Belrhali, A. Gorlani, H. Dehaard, R. A. Weiss, T. Verrips, W. Weissenhorn
Date :  29 Mar 10  (Deposition) - 26 May 10  (Release) - 26 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Hinz, D. Lutje Hulsik, A. Forsman, W. W. Koh, H. Belrhali, A. Gorlani, H. De Haard, R. A. Weiss, T. Verrips, W. Weissenhorn
Crystal Structure Of The Neutralizing Llama V(Hh) D7 And Its Mode Of Hiv-1 Gp120 Interaction.
Plos One V. 5 10482 2010
PubMed-ID: 20463957  |  Reference-DOI: 10.1371/JOURNAL.PONE.0010482
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LLAMA HEAVY CHAIN ANTIBODY D7
    Cell: LYMPHOCYTE
    Chains: A
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Strain: VWK18GAL1
    Expression System Taxid: 4932
    Organism Common: LLAMA
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844
    Other Details: VARIABLE DOMAIN OF A HEAVY CHAIN ANTIBODY
    Tissue: BLOOD

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:29 , LYS A:83 , TRP A:96 , HOH A:2165 , HOH A:2166 , HOH A:2167BINDING SITE FOR RESIDUE SO4 A1114
2AC2SOFTWAREGLY A:15 , ARG A:97 , PRO A:98 , HOH A:2020 , HOH A:2144 , HOH A:2168BINDING SITE FOR RESIDUE SO4 A1115
3AC3SOFTWAREPHE A:37 , ARG A:45 , SER A:100H , ASP A:100I , HOH A:2135 , HOH A:2169 , HOH A:2170BINDING SITE FOR RESIDUE SO4 A1116
4AC4SOFTWAREARG A:19 , LYS A:75 , TYR A:79 , GLY A:106 , HOH A:2157 , HOH A:2171 , HOH A:2172BINDING SITE FOR RESIDUE SO4 A1117

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:22 -A:92
2A:22 -A:92

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2XA3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2XA3)

(-) 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    
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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:127
                                                                                                                                                                
               SCOP domains d2xa3a_ A: automated matches                                                                                                    SCOP domains
               CATH domains 2xa3A00 A:1-113 Immunoglobulins                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee....eeeeeee.......eeeeeeee......eeeeeee.....eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeeeee...............ee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                2xa3 A    1 AVQLQESGGGLVQAGGSLRLSCTVSARTSSSHDMGWFRQAPGKEREFVAAISWSGGTTNYVDSVKGRFDISKDNAKNAVYLQMNSLKPEDTAVYYCAAKWRPLRYSDNPSNSDYNYWGQGTQVTVSS  113
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F||||   106       
                                                                              52A                            82A||               100A|||||100J             
                                                                                                              82B|                100B|||||||              
                                                                                                               82C                 100C||||||              
                                                                                                                                    100D|||||              
                                                                                                                                     100E||||              
                                                                                                                                      100F|||              
                                                                                                                                       100G||              
                                                                                                                                        100H|              
                                                                                                                                         100I
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2XA3)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2XA3)

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