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(-) Description

Title :  CRYSTAL STRUCTURE OF THE D10-P1/IQN17 COMPLEX: A D-PEPTIDE INHIBITOR OF HIV-1 ENTRY BOUND TO THE GP41 COILED-COIL POCKET.
 
Authors :  D. M. Eckert, V. N. Malashkevich, L. H. Hong, P. A. Carr, P. S. Kim
Date :  06 Sep 99  (Deposition) - 13 Oct 99  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,D
Biol. Unit 1:  A,D  (3x)
Keywords :  Envelope Glycoprotein, Viral Protein-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. M. Eckert, V. N. Malashkevich, L. H. Hong, P. A. Carr, P. S. Kim
Inhibiting Hiv-1 Entry: Discovery Of D-Peptide Inhibitors That Target The Gp41 Coiled-Coil Pocket.
Cell(Cambridge, Mass. ) V. 99 103 1999
PubMed-ID: 10520998  |  Reference-DOI: 10.1016/S0092-8674(00)80066-5
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FUSION PROTEIN BETWEEN THE HYDROPHOBIC POCKET OF HIV GP41 AND GCN4-PIQI
    Chains: A
    Engineered: YES
    Fragment: HYDROPHOBIC POCKET
    Organism Common: BAKER'S YEAST,
    Organism Scientific: SACCHAROMYCES CEREVISIAE, HUMAN IMMUNODEFICIENCY VIRUS
    Organism Taxid: 4932,12721
    Strain: ,
    Synonym: IQN17
 
Molecule 2 - D-PEPTIDE INHIBITOR
    Chains: D
    Engineered: YES
    Other Details: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED
    Synonym: D10-P1
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AD
Biological Unit 1 (3x): AD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (9, 18)

Asymmetric Unit (9, 18)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CL1Ligand/IonCHLORIDE ION
3DAL5Mod. Amino AcidD-ALANINE
4DAR2Mod. Amino AcidD-ARGININE
5DCY2Mod. Amino AcidD-CYSTEINE
6DGL2Mod. Amino AcidD-GLUTAMIC ACID
7DHI1Mod. Amino AcidD-HISTIDINE
8DLE1Mod. Amino AcidD-LEUCINE
9DTR2Mod. Amino AcidD-TRYPTOPHAN
Biological Unit 1 (8, 51)
No.NameCountTypeFull Name
1ACE6Mod. Amino AcidACETYL GROUP
2CL-1Ligand/IonCHLORIDE ION
3DAL15Mod. Amino AcidD-ALANINE
4DAR6Mod. Amino AcidD-ARGININE
5DCY6Mod. Amino AcidD-CYSTEINE
6DGL6Mod. Amino AcidD-GLUTAMIC ACID
7DHI3Mod. Amino AcidD-HISTIDINE
8DLE3Mod. Amino AcidD-LEUCINE
9DTR6Mod. Amino AcidD-TRYPTOPHAN

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:16BINDING SITE FOR RESIDUE CL A 1001
2AC2SOFTWARELEU A:32 , VAL A:34 , TRP A:35 , LYS A:38 , GLN A:41 , ARG A:43 , ILE A:44 , LEU A:45 , HOH A:1057 , HOH A:1065 , HOH A:1077 , HOH A:1083 , HOH A:1086 , HOH A:1106 , HOH A:1114 , HOH D:47 , HOH D:52 , HOH D:65 , HOH D:67 , HOH D:71 , HOH D:72 , HOH D:73 , HOH D:74 , HOH D:79 , HOH D:83 , HOH D:85 , HOH D:86 , HOH D:87 , HOH D:88 , HOH D:111 , HOH D:140 , HOH D:142 , HOH D:143BINDING SITE FOR CHAIN D OF D-PEPTIDE INHIBITOR

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1D:3 -D:14

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1CZQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1CZQ)

(-) 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:46
                                                                             
               SCOP domains d1czqa_ A:                                     SCOP domains
               CATH domains -1czqA00 A:1-45                                CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1czq A  0 xRMKQIEDKIEEIESKQKKIENEIARIKKLLQLTVWGIKQLQARIL 45
                            |        9        19        29        39      
                            |                                             
                            0-ACE                                         


Chain D from PDB  Type:PROTEIN  Length:17
                                                
               SCOP domains ----------------- SCOP domains
               CATH domains ----------------- CATH domains
               Pfam domains ----------------- Pfam domains
         Sec.struct. author ................. Sec.struct. author
                 SAPs(SNPs) ----------------- SAPs(SNPs)
                    PROSITE ----------------- PROSITE
                 Transcript ----------------- Transcript
                  1czq D  0 xGxxxxxxxxxxxxxxx 16
                            | |||||||9|||||||
                            0-ACE||||10-DTR||
                              2-DAL|||11-DAL|
                               3-DCY|| 12-DTR
                                4-DGL|  13-DLE
                                 5-DAL   14-DCY
                                  6-DAR   15-DAL
                                   7-DHI   16-DAL
                                    8-DAR    
                                     9-DGL
   Legend:   → Mismatch (orange background)
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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 Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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  1czq
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