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(-) Description

Title :  CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF HIV-1 CAPSID IN COMPLEX WITH BENZODIAZEPINE INHIBITOR
 
Authors :  R. Coulombe
Date :  04 Jan 13  (Deposition) - 27 Feb 13  (Release) - 13 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Structural Protein, Capsid, Viral Protein, Viral Protein-Viral Protein Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Goudreau, R. Coulombe, A. M. Faucher, C. Grand-Maitre, J. E. Lacoste, C. T. Lemke, E. Malenfant, Y. Bousquet, L. Fader, B. Simoneau, J. F. Mercier, S. Titolo, S. W. Mason
Monitoring Binding Of Hiv-1 Capsid Assembly Inhibitors Usin (19) F Ligand-And (15) N Protein-Based Nmr And X-Ray Crystallography: Early Hit Validation Of A Benzodiazepine Series.
Chemmedchem V. 8 405 2013
PubMed-ID: 23401268  |  Reference-DOI: 10.1002/CMDC.201200580

(-) Compounds

Molecule 1 - GAG PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 133-278
    Gene: GAG
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
11F61Ligand/Ion(3Z)-3-{[(2-METHOXYETHYL)AMINO]METHYLIDENE}-1-METHYL-5-PHENYL-7-(TRIFLUOROMETHYL)-1H-1,5-BENZODIAZEPINE-2,4(3H,5H)-DIONE
2NA1Ligand/IonSODIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
11F62Ligand/Ion(3Z)-3-{[(2-METHOXYETHYL)AMINO]METHYLIDENE}-1-METHYL-5-PHENYL-7-(TRIFLUOROMETHYL)-1H-1,5-BENZODIAZEPINE-2,4(3H,5H)-DIONE
2NA-1Ligand/IonSODIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:23 , VAL A:27 , GLU A:28 , ALA A:31 , PHE A:32 , SER A:33 , VAL A:36 , PHE A:40 , LEU A:56 , VAL A:59 , GLY A:60 , GLY A:61 , HIS A:62 , ALA A:65 , MET A:66 , LEU A:138 , ILE A:141 , VAL A:142BINDING SITE FOR RESIDUE 1F6 A 201
2AC2SOFTWAREGLY A:106 , SER A:109 , HOH A:1012 , HOH A:1014BINDING SITE FOR RESIDUE NA A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4INB)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asn A:121 -Pro A:122

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4INB)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains d4inba_ A: HIV-1 capsid protein                                                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.....eee...hhhhhhhhhhhhhhh....hhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...............hhhhhh....hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4inb A   1 PIVQNLQGQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYS 146
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4INB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4INB)

(-) Gene Ontology  (14, 17)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

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        Q79791_9HIV1 | Q79791: 4e91 4e92
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        A9PKC6_9HIV1 | A9PKC6: 2pwo 4b4n 5hgk
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(-) Related Entries Specified in the PDB File

4e91 CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF HIV-1 CAPSID IN COMPLEX WITH INHIBITOR BD3
4e92 CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF HIV-1 CAPSID IN COMPLEX WITH INHIBITOR BM4