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3ITH
Asym. Unit
Info
Asym.Unit (329 KB)
Biol.Unit 1 (165 KB)
Biol.Unit 2 (164 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HIV-1 REVERSE TRANSCRIPTASE BOUND TO A 6-VINYLPYRIMIDINE INHIBITOR
Authors
:
S. Freisz, G. Bec, P. Wolff, P. Dumas, M. Radi, M. Botta
Date
:
28 Aug 09 (Deposition) - 16 Mar 10 (Release) - 16 Mar 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Hiv-1, Inhibitor, Rt, Transferase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Freisz, G. Bec, M. Radi, P. Wolff, E. Crespan, L. Angeli, P. Dumas, G. Maga, M. Botta, E. Ennifar
Crystal Structure Of Hiv-1 Reverse Transcriptase Bound To A Non-Nucleoside Inhibitor With A Novel Mechanism Of Action
Angew. Chem. Int. Ed. Engl. V. 49 1805 2010
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: 6-ETHENYL-N,N-DIMETHYL-2-(METHYLSU... (EDMa)
1b: 6-ETHENYL-N,N-DIMETHYL-2-(METHYLSU... (EDMb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDM
2
Ligand/Ion
6-ETHENYL-N,N-DIMETHYL-2-(METHYLSULFONYL)PYRIMIDIN-4-AMINE
[
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
MET C:230 , GLY C:231 , LYS C:263 , TRP C:266
BINDING SITE FOR RESIDUE EDM C 561
2
AC2
SOFTWARE
TYR A:183 , MET A:184 , MET A:230 , GLN A:242 , GLY A:262 , LYS A:263 , TRP A:266
BINDING SITE FOR RESIDUE EDM A 561
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SAPs(SNPs)/Variants
(5, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_POL_HV1B1_003 (K172R, chain A/B/C/D, )
2: VAR_POL_HV1B1_004 (K451R, chain A/C, )
3: VAR_POL_HV1B1_005 (V458L, chain A/C, )
4: VAR_POL_HV1B1_006 (K512Q, chain A/C, )
5: VAR_POL_HV1B1_007 (E529Q, chain A/C, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POL_HV1B1_003
*
K
771
R
POL_HV1B1
---
---
A/B/C/D
K
172
R
2
UniProt
VAR_POL_HV1B1_004
*
K
1050
R
POL_HV1B1
---
---
A/C
K
451
R
3
UniProt
VAR_POL_HV1B1_005
*
V
1057
L
POL_HV1B1
---
---
A/C
V
458
L
4
UniProt
VAR_POL_HV1B1_006
*
K
1111
Q
POL_HV1B1
---
---
A/C
K
512
Q
5
UniProt
VAR_POL_HV1B1_007
*
E
1128
Q
POL_HV1B1
---
---
A/C
E
529
Q
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: RT_POL (A:44-234,B:44-234,C:44-234,D:44-23...)
2: RNASE_H (A:434-556,C:434-556)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RT_POL
PS50878
Reverse transcriptase (RT) catalytic domain profile.
POL_HV1B1
643-833
4
A:44-234
B:44-234
C:44-234
D:44-234
2
RNASE_H
PS50879
RNase H domain profile.
POL_HV1B1
1033-1156
2
A:434-556
C:434-556
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d3itha2 (A:430-556)
1b: SCOP_d3ithc2 (C:430-556)
2a: SCOP_d3itha1 (A:1-429)
2b: SCOP_d3ithb_ (B:)
2c: SCOP_d3ithc1 (C:1-429)
2d: SCOP_d3ithd_ (D:)
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(
)
Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Ribonuclease H-like
(775)
Family
:
Ribonuclease H
(190)
Protein domain
:
HIV RNase H (Domain of reverse transcriptase)
(110)
Human immunodeficiency virus type 1 [TaxId: 11676]
(101)
1a
d3itha2
A:430-556
1b
d3ithc2
C:430-556
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
DNA/RNA polymerases
(850)
Superfamily
:
DNA/RNA polymerases
(850)
Family
:
Reverse transcriptase
(217)
Protein domain
:
HIV-1 reverse transcriptase
(161)
Human immunodeficiency virus type 1 [TaxId: 11676]
(138)
2a
d3itha1
A:1-429
2b
d3ithb_
B:
2c
d3ithc1
C:1-429
2d
d3ithd_
D:
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CATH Domains
(3, 18)
Info
all CATH domains
1a: CATH_3ithD02 (D:94-115,D:157-239)
1b: CATH_3ithD03 (D:240-319)
1c: CATH_3ithB04 (B:320-424)
1d: CATH_3ithD04 (D:320-424)
1e: CATH_3ithA04 (A:320-426)
1f: CATH_3ithC04 (C:320-426)
1g: CATH_3ithB02 (B:92-115,B:157-239)
1h: CATH_3ithA02 (A:91-115,A:157-225)
1i: CATH_3ithC02 (C:91-115,C:157-225)
1j: CATH_3ithA03 (A:226-319)
1k: CATH_3ithC03 (C:226-319)
1l: CATH_3ithB03 (B:240-319)
2a: CATH_3ithA05 (A:427-556)
2b: CATH_3ithC05 (C:427-555)
3a: CATH_3ithB01 (B:1-91,B:116-156)
3b: CATH_3ithD01 (D:1-93,D:116-156)
3c: CATH_3ithA01 (A:1-90,A:116-156)
3d: CATH_3ithC01 (C:1-90,C:116-156)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Alpha-Beta Plaits
(1688)
Homologous Superfamily
:
[code=3.30.70.270, no name defined]
(278)
Hiv-1 (Human immunodeficiency virus)
(2)
1a
3ithD02
D:94-115,D:157-239
1b
3ithD03
D:240-319
1c
3ithB04
B:320-424
1d
3ithD04
D:320-424
1e
3ithA04
A:320-426
1f
3ithC04
C:320-426
1g
3ithB02
B:92-115,B:157-239
1h
3ithA02
A:91-115,A:157-225
1i
3ithC02
C:91-115,C:157-225
1j
3ithA03
A:226-319
1k
3ithC03
C:226-319
1l
3ithB03
B:240-319
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.10, no name defined]
(372)
Hiv-1 (Human immunodeficiency virus)
(2)
2a
3ithA05
A:427-556
2b
3ithC05
C:427-555
Architecture
:
Roll
(3276)
Topology
:
HIV Type 1 Reverse Transcriptase; Chain A, domain 1
(164)
Homologous Superfamily
:
HIV Type 1 Reverse Transcriptase, subunit A, domain 1
(164)
Hiv-1 (Human immunodeficiency virus)
(2)
3a
3ithB01
B:1-91,B:116-156
3b
3ithD01
D:1-93,D:116-156
3c
3ithA01
A:1-90,A:116-156
3d
3ithC01
C:1-90,C:116-156
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asym.Unit (329 KB)
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