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1SUQ
Asym. Unit
Info
Asym.Unit (173 KB)
Biol.Unit 1 (166 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HIV-1 REVERSE TRANSCRIPTASE (RT) IN COMPLEX WITH JANSSEN-R185545
Authors
:
K. Das, E. Arnold
Date
:
26 Mar 04 (Deposition) - 11 May 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Aids, Hiv, Drug Design, Reverse Transcriptase, Rt, Protein- Inhibitor Complex, Drug Resistance, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Das, A. D. Clark Jr. , P. J. Lewi, J. Heeres, M. R. De Jonge, L. M. Koymans, H. M. Vinkers, F. Daeyaert, D. W. Ludovici, M. J. Kukla, B. De Corte, R. W. Kavash, C. Y. Ho, H. Ye, M. A. Lichtenstein, K. Andries, R. Pauwles, M. -P. Debethune, P. L. Boyer, P. Clark, S. H. Hughes, P. A. Janssen, E. Arnold
Roles Of Conformational And Positional Adaptability In Structure-Based Design Of Tmc125-R165335 (Etravirine) And Related Non-Nucleoside Reverse Transcriptase Inhibitors That Are Highly Potent And Effective Against Wild-Type And Drug-Resistant Hiv-1 Variants
J. Med. Chem. V. 47 2550 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 2)
Info
All Hetero Components
1a: (6-[4-(AMINOMETHYL)-2,6-DIMETHYLPH... (185a)
2a: MAGNESIUM ION (MGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
185
1
Ligand/Ion
(6-[4-(AMINOMETHYL)-2,6-DIMETHYLPHENOXY]-2-{[4-(AMINOMETHYL)PHENYL]AMINO}-5-BROMOPYRIMIDIN-4-YL)METHANOL
2
MG
1
Ligand/Ion
MAGNESIUM ION
[
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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
ASP A:443 , ASP A:498 , ASN A:545
BINDING SITE FOR RESIDUE MG A 601
2
AC2
SOFTWARE
LEU A:100 , LYS A:101 , LYS A:103 , VAL A:106 , VAL A:179 , TYR A:188 , GLY A:190 , PHE A:227 , LEU A:234 , HIS A:235 , PRO A:236 , TYR A:318
BINDING SITE FOR RESIDUE 185 A 600
[
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]
SAPs(SNPs)/Variants
(5, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_POL_HV1B1_003 (K172R, chain A/B, )
2: VAR_POL_HV1B1_004 (K451R, chain A, )
3: VAR_POL_HV1B1_005 (V458L, chain A, )
4: VAR_POL_HV1B1_006 (K512Q, chain A, )
5: VAR_POL_HV1B1_007 (E529Q, chain A, )
View:
Select:
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
K
172
R
2
UniProt
VAR_POL_HV1B1_004
*
K
1050
R
POL_HV1B1
---
---
A
K
451
R
3
UniProt
VAR_POL_HV1B1_005
*
V
1057
L
POL_HV1B1
---
---
A
V
458
L
4
UniProt
VAR_POL_HV1B1_006
*
K
1111
Q
POL_HV1B1
---
---
A
K
512
Q
5
UniProt
VAR_POL_HV1B1_007
*
E
1128
Q
POL_HV1B1
---
---
A
E
529
Q
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: RT_POL (A:44-234,B:44-234)
2: RNASE_H (A:434-552)
;
View:
Select:
Label:
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
2
A:44-234
B:44-234
2
RNASE_H
PS50879
RNase H domain profile.
POL_HV1B1
1033-1156
1
A:434-552
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 3)
Info
All SCOP Domains
1a: SCOP_d1suqa1 (A:430-552)
2a: SCOP_d1suqa2 (A:1-429)
2b: SCOP_d1suqb_ (B:)
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(
)
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)
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)
(
)
Superfamilies
(
)
(
)
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
d1suqa1
A:430-552
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
d1suqa2
A:1-429
2b
d1suqb_
B:
[
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]
CATH Domains
(3, 9)
Info
all CATH domains
1a: CATH_1suqB02 (B:99-123,B:165-233)
1b: CATH_1suqA03 (A:226-319)
1c: CATH_1suqB03 (B:234-319)
1d: CATH_1suqA04 (A:320-426)
1e: CATH_1suqB04 (B:320-426)
1f: CATH_1suqA02 (A:91-115,A:157-225)
2a: CATH_1suqA05 (A:427-552)
3a: CATH_1suqA01 (A:1-90,A:116-156)
3b: CATH_1suqB01 (B:9-98,B:124-164)
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(
)
(
)
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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)
Human immunodeficiency virus 1. Organism_taxid: 11676. Strain: bh10 isolate.
(4)
1a
1suqB02
B:99-123,B:165-233
1b
1suqA03
A:226-319
1c
1suqB03
B:234-319
1d
1suqA04
A:320-426
1e
1suqB04
B:320-426
1f
1suqA02
A:91-115,A:157-225
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.10, no name defined]
(372)
Human immunodeficiency virus 1. Organism_taxid: 11676. Strain: bh10 isolate.
(4)
2a
1suqA05
A:427-552
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)
Human immunodeficiency virus 1. Organism_taxid: 11676. Strain: bh10 isolate.
(4)
3a
1suqA01
A:1-90,A:116-156
3b
1suqB01
B:9-98,B:124-164
[
close CATH info
]
Pfam Domains
(4, 7)
Info
all PFAM domains
1a: PFAM_RNase_H_1suqA01 (A:435-552)
2a: PFAM_RVT_1_1suqB01 (B:63-234)
2b: PFAM_RVT_1_1suqB02 (B:63-234)
3a: PFAM_RVT_connect_1suqB03 (B:317-419)
3b: PFAM_RVT_connect_1suqB04 (B:317-419)
4a: PFAM_RVT_thumb_1suqB05 (B:238-307)
4b: PFAM_RVT_thumb_1suqB06 (B:238-307)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
RNase_H
(288)
Family
:
RNase_H
(128)
Human immunodeficiency virus type 1 group M subtype B (isolate BH10) (HIV-1)
(28)
1a
RNase_H-1suqA01
A:435-552
Clan
:
RdRP
(210)
Family
:
RVT_1
(95)
Human immunodeficiency virus type 1 group M subtype B (isolate BH10) (HIV-1)
(27)
2a
RVT_1-1suqB01
B:63-234
2b
RVT_1-1suqB02
B:63-234
Clan
:
no clan defined [family: RVT_connect]
(84)
Family
:
RVT_connect
(84)
Human immunodeficiency virus type 1 group M subtype B (isolate BH10) (HIV-1)
(27)
3a
RVT_connect-1suqB03
B:317-419
3b
RVT_connect-1suqB04
B:317-419
Clan
:
no clan defined [family: RVT_thumb]
(84)
Family
:
RVT_thumb
(84)
Human immunodeficiency virus type 1 group M subtype B (isolate BH10) (HIV-1)
(27)
4a
RVT_thumb-1suqB05
B:238-307
4b
RVT_thumb-1suqB06
B:238-307
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