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3G9R
Asym. Unit
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Asym.Unit (104 KB)
Biol.Unit 1 (50 KB)
Biol.Unit 2 (50 KB)
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(1)
Title
:
STRUCTURE OF THE HIV-1 GP41 MEMBRANE-PROXIMAL ECTODOMAIN REGION IN A PUTATIVE PREFUSION CONFORMATION
Authors
:
J. Liu, M. Lu
Date
:
13 Feb 09 (Deposition) - 12 May 09 (Release) - 12 May 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Gp41, Mper, Hiv-1, Membrane Fusion, Aids, Apoptosis, Cell Membrane, Coiled Coil, Envelope Protein, Fusion Protein, Host-Virus Interaction, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Liu, Y. Deng, A. Dey, J. Moore, M. Lu
Structure Of The Hiv-1 Gp41 Membrane-Proximal Ectodomain Region In A Putative Prefusion Conformation.
Biochemistry V. 48 2915 2009
(for further references see the
PDB file header
)
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Hetero Components
(2, 13)
Info
All Hetero Components
1a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
1b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
1c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
1d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
1e: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDe)
1f: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDf)
1g: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDg)
1h: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDh)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
2e: PHOSPHATE ION (PO4e)
View:
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Label:
No.
Name
Count
Type
Full Name
1
MPD
8
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
2
PO4
5
Ligand/Ion
PHOSPHATE ION
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Sites
(13, 13)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:32
BINDING SITE FOR RESIDUE PO4 A 43
02
AC2
SOFTWARE
ARG A:39 , LYS A:42
BINDING SITE FOR RESIDUE PO4 A 44
03
AC3
SOFTWARE
ASN A:10
BINDING SITE FOR RESIDUE MPD A 45
04
AC4
SOFTWARE
PHE A:12 , THR A:15 , ASN A:16 , ASN B:16 , PHE C:12 , THR C:15 , ASN C:16 , TRP C:19
BINDING SITE FOR RESIDUE MPD A 46
05
AC5
SOFTWARE
LYS A:27 , LYS A:31 , LYS E:27
BINDING SITE FOR RESIDUE MPD A 47
06
AC6
SOFTWARE
GLU A:1
BINDING SITE FOR RESIDUE MPD A 48
07
AC7
SOFTWARE
ARG B:39
BINDING SITE FOR RESIDUE PO4 B 43
08
AC8
SOFTWARE
LYS A:22 , LYS B:27 , LYS E:22 , LYS F:27
BINDING SITE FOR RESIDUE MPD B 44
09
AC9
SOFTWARE
ARG C:39 , LYS C:42
BINDING SITE FOR RESIDUE PO4 C 43
10
BC1
SOFTWARE
TRP D:11
BINDING SITE FOR RESIDUE MPD C 44
11
BC2
SOFTWARE
TRP A:9 , SER C:7 , TRP C:11
BINDING SITE FOR RESIDUE PO4 D 43
12
BC3
SOFTWARE
PHE D:12 , THR D:15 , ASN D:16 , TRP D:19 , PHE E:12 , ASN E:16 , TRP E:19 , TRP F:11 , THR F:15 , ASN F:16 , TRP F:19
BINDING SITE FOR RESIDUE MPD E 43
13
BC4
SOFTWARE
TRP C:17 , TRP D:11 , ASN E:13
BINDING SITE FOR RESIDUE MPD E 44
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SAPs(SNPs)/Variants
(2, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_GCN4_YEAST_005 (N10A, chain A/B/C/D/E/F, )
2: VAR_ENV_HV1BR_007 (I23L, chain A/B/C/D/E/F, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_GCN4_YEAST_005
*
D
125
A
GCN4_YEAST
---
---
A/B/C/D/E/F
N
10
A
2
UniProt
VAR_ENV_HV1BR_007
*
I
689
L
ENV_HV1BR
---
---
A/B/C/D/E/F
I
23
L
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: BZIP (A:22-42,B:22-42,C:22-42,D:22-42,E:...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BZIP
PS50217
Basic-leucine zipper (bZIP) domain profile.
GCN4_YEAST
231-276
6
A:22-42
B:22-42
C:22-42
D:22-42
E:22-42
F:22-42
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Exons
(0, 0)
Info
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Pfam Domains
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Asym.Unit (104 KB)
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