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(-) Description

Title :  EVOLUTIONARY BASIS OF HIV RESTRICTION BY THE ANTIRETROVIRAL TRIMCYP
 
Authors :  A. J. Price, L. C. James
Date :  05 Mar 10  (Deposition) - 15 Sep 10  (Release) - 29 Sep 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Trim, Viral Protein, Restriction Factor Immunity (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. M. Ylinen, A. J. Price, J. Rasaiyaah, S. Hue, N. J. Rose, F. Marzetta, L. C. James, G. J. Towers
Conformational Adaptation Of Asian Macaque Trimcyp Directs Lineage Specific Antiviral Activity.
Plos Pathog. V. 6 1062 2010
PubMed-ID: 20808866  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1001062

(-) Compounds

Molecule 1 - CAPSID PROTEIN P24
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINAL DOMAIN, RESIDUES 136-280
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS TYPE 2 (ISOLATE D194)
    Organism Taxid: 11713
    Synonym: CA

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2X82)

(-) Sites  (0, 0)

(no "Site" information available for 2X82)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2X82)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Gly A:89 -Pro A:90
2Ala B:88 -Gly B:89
3Leu B:91 -Pro B:92
4Ile D:86 -Pro D:87
5Ala D:88 -Gly D:89
6Gly D:89 -Pro D:90

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X82)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X82)

(-) Exons   (0, 0)

(no "Exon" information available for 2X82)

(-) Sequences/Alignments

Asymmetric 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:145
                                                                                                                                                                                 
               SCOP domains d2x82a_ A: automated matches                                                                                                                      SCOP domains
               CATH domains 2x82A00 A:2-146 Human Immunodeficiency Virus Type 1 Capsid Protein                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eee...hhhhhhhhhhhhhh.....hhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh................hhhhhh....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x82 A   2 PVQHVGGTYTHIPLSPRTLNAWVKLVEEKKFGAEVVPGFQALSEGCTPYDINQMLNCVGDHQAAMQIIREIINEEAAEWDVQHPIPAGPLPAGQLREPRGSDIAGTTSTVEEQIQWMFRPQNPVPVGNIYRRWIQIGLQKCVRMY 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     


Chain B from PDB  Type:PROTEIN  Length:145
                                                                                                                                                                                 
               SCOP domains d2x82b_ B: automated matches                                                                                                                      SCOP domains
               CATH domains 2x82B00 B:2-146 Human Immunodeficiency Virus Type 1 Capsid Protein                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eee...hhhhhhhhhhhhhhh....hhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...............hhhhhh....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x82 B   2 PVQHVGGTYTHIPLSPRTLNAWVKLVEEKKFGAEVVPGFQALSEGCTPYDINQMLNCVGDHQAAMQIIREIINEEAAEWDVQHPIPAGPLPAGQLREPRGSDIAGTTSTVEEQIQWMFRPQNPVPVGNIYRRWIQIGLQKCVRMY 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     


Chain C from PDB  Type:PROTEIN  Length:145
                                                                                                                                                                                 
               SCOP domains d2x82c_ C: automated matches                                                                                                                      SCOP domains
               CATH domains 2x82C00 C:2-146 Human Immunodeficiency Virus Type 1 Capsid Protein                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eee...hhhhhhhhhhhhhh.....hhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...............hhhhhh....hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x82 C   2 PVQHVGGTYTHIPLSPRTLNAWVKLVEEKKFGAEVVPGFQALSEGCTPYDINQMLNCVGDHQAAMQIIREIINEEAAEWDVQHPIPAGPLPAGQLREPRGSDIAGTTSTVEEQIQWMFRPQNPVPVGNIYRRWIQIGLQKCVRMY 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     


Chain D from PDB  Type:PROTEIN  Length:145
                                                                                                                                                                                 
               SCOP domains d2x82d_ D: automated matches                                                                                                                      SCOP domains
               CATH domains 2x82D00 D:2-146 Human Immunodeficiency Virus Type 1 Capsid Protein                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee...hhhhhhhhhhhhhhhh...hhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...............hhhhhh....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x82 D   2 PVQHVGGTYTHIPLSPRTLNAWVKLVEEKKFGAEVVPGFQALSEGCTPYDINQMLNCVGDHQAAMQIIREIINEEAAEWDVQHPIPAGPLPAGQLREPRGSDIAGTTSTVEEQIQWMFRPQNPVPVGNIYRRWIQIGLQKCVRMY 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 4)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2X82)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2X82)

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  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2x82)
 
  Sites
(no "Sites" information available for 2x82)
 
  Cis Peptide Bonds
    Ala B:88 - Gly B:89   [ RasMol ]  
    Ala D:88 - Gly D:89   [ RasMol ]  
    Gly A:89 - Pro A:90   [ RasMol ]  
    Gly D:89 - Pro D:90   [ RasMol ]  
    Ile D:86 - Pro D:87   [ RasMol ]  
    Leu B:91 - Pro B:92   [ RasMol ]  
 
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  2x82
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 Related Entries

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(-) Related Entries Specified in the PDB File

2x83 EVOLUTIONARY BASIS OF HIV RESTRICTION BY THE ANTIRETROVIRAL TRIMCYP