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1HMV
Asym. Unit
Info
Asym.Unit (610 KB)
Biol.Unit 1 (156 KB)
Biol.Unit 2 (156 KB)
Biol.Unit 3 (156 KB)
Biol.Unit 4 (156 KB)
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(1)
Title
:
THE STRUCTURE OF UNLIGANDED REVERSE TRANSCRIPTASE FROM THE HUMAN IMMUNODEFICIENCY VIRUS TYPE 1
Authors
:
D. W. Rodgers, S. J. Gamblin, B. A. Harris, S. Ray, J. S. Culp, B. Hellmig, D. J. Woolf, C. Debouck, S. C. Harrison
Date
:
15 Dec 94 (Deposition) - 31 Mar 95 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Nucleotidyltransferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Rodgers, S. J. Gamblin, B. A. Harris, S. Ray, J. S. Culp, B. Hellmig, D. J. Woolf, C. Debouck, S. C. Harrison
The Structure Of Unliganded Reverse Transcriptase From The Human Immunodeficiency Virus Type 1.
Proc. Natl. Acad. Sci. Usa V. 92 1222 1995
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
4
Ligand/Ion
MAGNESIUM ION
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:443 , GLU A:478 , ASP A:498
BINDING SITE FOR RESIDUE MG B 501
2
AC2
SOFTWARE
ASP C:443 , GLU C:478 , ASP C:498
BINDING SITE FOR RESIDUE MG D 501
3
AC3
SOFTWARE
ASP E:443 , GLU E:478 , ASP E:498
BINDING SITE FOR RESIDUE MG F 501
4
AC4
SOFTWARE
ASP G:443 , GLU G:478 , ASP G:498
BINDING SITE FOR RESIDUE MG H 501
[
close Site info
]
SAPs(SNPs)/Variants
(5, 24)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_POL_HV1B1_003 (K172R, chain A/B/C/D/E/F/G/H, )
2: VAR_POL_HV1B1_004 (K451R, chain A/C/E/G, )
3: VAR_POL_HV1B1_005 (V458L, chain A/C/E/G, )
4: VAR_POL_HV1B1_006 (K512Q, chain A/C/E/G, )
5: VAR_POL_HV1B1_007 (E529Q, chain A/C/E/G, )
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/C/D/E/F/G/H
K
172
R
2
UniProt
VAR_POL_HV1B1_004
*
K
1050
R
POL_HV1B1
---
---
A/C/E/G
K
451
R
3
UniProt
VAR_POL_HV1B1_005
*
V
1057
L
POL_HV1B1
---
---
A/C/E/G
V
458
L
4
UniProt
VAR_POL_HV1B1_006
*
K
1111
Q
POL_HV1B1
---
---
A/C/E/G
K
512
Q
5
UniProt
VAR_POL_HV1B1_007
*
E
1128
Q
POL_HV1B1
---
---
A/C/E/G
E
529
Q
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: RT_POL (A:44-234,B:44-211,C:44-234,D:44-21...)
2: RNASE_H (A:434-554,C:434-554,E:434-554,G:43...)
;
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
8
A:44-234
B:44-211
C:44-234
D:44-211
E:44-234
F:44-211
G:44-234
H:44-211
2
RNASE_H
PS50879
RNase H domain profile.
POL_HV1B1
1033-1156
4
A:434-554
C:434-554
E:434-554
G:434-554
[
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]
Exons
(0, 0)
Info
All Exons
View:
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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, 12)
Info
All SCOP Domains
1a: SCOP_d1hmva1 (A:430-554)
1b: SCOP_d1hmvc1 (C:430-554)
1c: SCOP_d1hmve1 (E:430-554)
1d: SCOP_d1hmvg1 (G:430-554)
2a: SCOP_d1hmva2 (A:1-429)
2b: SCOP_d1hmvb_ (B:)
2c: SCOP_d1hmvc2 (C:1-429)
2d: SCOP_d1hmvd_ (D:)
2e: SCOP_d1hmve2 (E:1-429)
2f: SCOP_d1hmvf_ (F:)
2g: SCOP_d1hmvg2 (G:1-429)
2h: SCOP_d1hmvh_ (H:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
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
d1hmva1
A:430-554
1b
d1hmvc1
C:430-554
1c
d1hmve1
E:430-554
1d
d1hmvg1
G:430-554
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
d1hmva2
A:1-429
2b
d1hmvb_
B:
2c
d1hmvc2
C:1-429
2d
d1hmvd_
D:
2e
d1hmve2
E:1-429
2f
d1hmvf_
F:
2g
d1hmvg2
G:1-429
2h
d1hmvh_
H:
[
close SCOP info
]
CATH Domains
(3, 36)
Info
all CATH domains
1a: CATH_1hmvA02 (A:91-115,A:157-225)
1b: CATH_1hmvB04 (B:320-425)
1c: CATH_1hmvD04 (D:320-425)
1d: CATH_1hmvF04 (F:320-425)
1e: CATH_1hmvH04 (H:320-425)
1f: CATH_1hmvA04 (A:320-426)
1g: CATH_1hmvC04 (C:320-426)
1h: CATH_1hmvE04 (E:320-426)
1i: CATH_1hmvG04 (G:320-426)
1j: CATH_1hmvB03 (B:189-319)
1k: CATH_1hmvD03 (D:189-319)
1l: CATH_1hmvF03 (F:189-319)
1m: CATH_1hmvH03 (H:189-319)
1n: CATH_1hmvB02 (B:99-115,B:157-188)
1o: CATH_1hmvD02 (D:99-115,D:157-188)
1p: CATH_1hmvF02 (F:99-115,F:157-188)
1q: CATH_1hmvH02 (H:99-115,H:157-188)
1r: CATH_1hmvC02 (C:91-115,C:157-225)
1s: CATH_1hmvE02 (E:91-115,E:157-225)
1t: CATH_1hmvG02 (G:91-115,G:157-225)
1u: CATH_1hmvA03 (A:226-319)
1v: CATH_1hmvC03 (C:226-319)
1w: CATH_1hmvE03 (E:226-319)
1x: CATH_1hmvG03 (G:226-319)
2a: CATH_1hmvA05 (A:427-554)
2b: CATH_1hmvC05 (C:427-554)
2c: CATH_1hmvE05 (E:427-554)
2d: CATH_1hmvG05 (G:427-554)
3a: CATH_1hmvB01 (B:5-92,B:116-156)
3b: CATH_1hmvD01 (D:5-92,D:116-156)
3c: CATH_1hmvF01 (F:5-92,F:116-156)
3d: CATH_1hmvH01 (H:5-92,H:116-156)
3e: CATH_1hmvA01 (A:1-90,A:116-156)
3f: CATH_1hmvC01 (C:1-90,C:116-156)
3g: CATH_1hmvE01 (E:1-90,E:116-156)
3h: CATH_1hmvG01 (G:1-90,G:116-156)
View:
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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.
(27)
1a
1hmvA02
A:91-115,A:157-225
1b
1hmvB04
B:320-425
1c
1hmvD04
D:320-425
1d
1hmvF04
F:320-425
1e
1hmvH04
H:320-425
1f
1hmvA04
A:320-426
1g
1hmvC04
C:320-426
1h
1hmvE04
E:320-426
1i
1hmvG04
G:320-426
1j
1hmvB03
B:189-319
1k
1hmvD03
D:189-319
1l
1hmvF03
F:189-319
1m
1hmvH03
H:189-319
1n
1hmvB02
B:99-115,B:157-188
1o
1hmvD02
D:99-115,D:157-188
1p
1hmvF02
F:99-115,F:157-188
1q
1hmvH02
H:99-115,H:157-188
1r
1hmvC02
C:91-115,C:157-225
1s
1hmvE02
E:91-115,E:157-225
1t
1hmvG02
G:91-115,G:157-225
1u
1hmvA03
A:226-319
1v
1hmvC03
C:226-319
1w
1hmvE03
E:226-319
1x
1hmvG03
G:226-319
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.10, no name defined]
(372)
Human immunodeficiency virus 1. Organism_taxid: 11676.
(29)
2a
1hmvA05
A:427-554
2b
1hmvC05
C:427-554
2c
1hmvE05
E:427-554
2d
1hmvG05
G:427-554
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.
(27)
3a
1hmvB01
B:5-92,B:116-156
3b
1hmvD01
D:5-92,D:116-156
3c
1hmvF01
F:5-92,F:116-156
3d
1hmvH01
H:5-92,H:116-156
3e
1hmvA01
A:1-90,A:116-156
3f
1hmvC01
C:1-90,C:116-156
3g
1hmvE01
E:1-90,E:116-156
3h
1hmvG01
G:1-90,G:116-156
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
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Asym.Unit (610 KB)
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