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3GNV
Biol. Unit 1
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Asym.Unit (187 KB)
Biol.Unit 1 (95 KB)
Biol.Unit 2 (91 KB)
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(1)
Title
:
HCV NS5B POLYMERASE IN COMPLEX WITH 1,5 BENZODIAZEPINE INHIBITOR 1B
Authors
:
H. De Bondt, O. Nyanguile
Date
:
18 Mar 09 (Deposition) - 20 Oct 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hepatitis C Virus, 1. 5-Benzodiazepine, Ns5B, Sulfone, Polymerase, Apoptosis, Atp-Binding, Capsid Protein, Cell Membrane, Endoplasmic Reticulum, Envelope Protein, Fusion Protein, Glycoprotein, Helicase, Host-Virus Interaction, Hydrolase, Interferon Antiviral System Evasion, Lipid Droplet, Lipoprotein, Membrane, Metal-Binding, Mitochondrion, Multifunctional Enzyme, Nucleotide-Binding, Nucleotidyltransferase, Nucleus, Oncogene, Palmitate, Phosphoprotein, Protease, Ribonucleoprotein, Rna Replication, Rna- Binding, Rna-Directed Rna Polymerase, Secreted, Serine Protease, Sh3-Binding, Thiol Protease, Transcription, Transcription Regulation, Transferase, Transmembrane, Viral Nucleoprotein, Virion
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Reference
:
K. Vandyck, M. D. Cummings, O. Nyanguile, C. W. Boutton, S. Vendeville D. Mcgowan, B. Devogelaere, K. Amssoms, S. Last, K. Rombauts, A. Tahri P. Lory, L. Hu, D. A. Beauchamp, K. Simmen, P. Raboisson
Structure-Based Design Of A Benzodiazepine Scaffold Yields Potent Allosteric Inhibitor Of Hepatitis C Ns5B Rna Polymerase.
J. Med. Chem. V. 52 4099 2009
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: (11R)-10-ACETYL-11-[4-(BENZYLOXY)-... (XNZa)
2b: (11R)-10-ACETYL-11-[4-(BENZYLOXY)-... (XNZb)
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No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
XNZ
1
Ligand/Ion
(11R)-10-ACETYL-11-[4-(BENZYLOXY)-2-CHLOROPHENYL]-6-HYDROXY-3,3-DIMETHYL-2,3,4,5,10,11-HEXAHYDRO-1H-DIBENZO[B,E][1,4]DIAZEPIN-1-ONE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:193 , PRO A:197 , ARG A:200 , CYS A:366 , SER A:367 , SER A:368 , LEU A:384 , ARG A:386 , ASN A:411 , MET A:414 , TYR A:415 , GLN A:446 , ILE A:447 , TYR A:448 , GLY A:449 , HOH A:660
BINDING SITE FOR RESIDUE XNZ A 579
2
AC2
SOFTWARE
GLU A:361 , ASN A:369 , SER A:371 , THR A:385 , SER A:478 , GLY A:480 , GLU A:481 , ARG A:484
BINDING SITE FOR RESIDUE GOL A 580
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_POLG_HCVJ4_028 (C366R, chain A, )
2: VAR_POLG_HCVJ4_029 (I405V, chain A, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POLG_HCVJ4_028
*
C
2785
R
POLG_HCVJ4
---
---
A
C
366
R
2
UniProt
VAR_POLG_HCVJ4_029
*
I
2824
V
POLG_HCVJ4
---
---
A
I
405
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
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All PROSITE Patterns/Profiles
1: RDRP_SSRNA_POS (A:214-332)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RDRP_SSRNA_POS
PS50507
RdRp of positive ssRNA viruses catalytic domain profile.
POLG_HCVJ4
2633-2751
1
A:214-332
-
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Exons
(0, 0)
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3gnva_ (A:)
1b: SCOP_d3gnvb_ (B:)
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Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
DNA/RNA polymerases
(850)
Superfamily
:
DNA/RNA polymerases
(850)
Family
:
RNA-dependent RNA-polymerase
(253)
Protein domain
:
Viral RNA polymerase
(148)
Hepatitis c virus isolate [TaxId: 420174]
(13)
1a
d3gnva_
A:
1b
d3gnvb_
B:
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CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (187 KB)
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