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2R05
Asym. Unit
Info
Asym.Unit (245 KB)
Biol.Unit 1 (239 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ALIX/AIP1 IN COMPLEX WITH THE HIV-1 YPLASL LATE DOMAIN
Authors
:
C. P. Hill, Q. Zhai, R. D. Fisher
Date
:
17 Aug 07 (Deposition) - 18 Dec 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Peptide, Coiled-Coil, Apoptosis, Cytoplasm, Host-Virus Interaction, Polymorphism, Protein Transport, Transport, Aids, Capsid Protein, Lipoprotein, Membrane, Metal-Binding, Myristate, Nucleus, Phosphorylation, Rna-Binding, Viral Nucleoprotein, Virion, Zinc, Zinc-Finger
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Q. Zhai, R. D. Fisher, H. Y. Chung, D. G. Myszka, W. I. Sundquist, C. P. Hill
Structural And Functional Studies Of Alix Interactions With Ypx(N)L Late Domains Of Hiv-1 And Eiav.
Nat. Struct. Mol. Biol. V. 15 43 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(0, 0)
Info
All Hetero Components
View:
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Label:
Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
View:
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Label:
Sorry, no Info available
[
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]
SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_068975 (V7M, chain A, )
2: VAR_053017 (A309T, chain A, )
3: VAR_053018 (V378I, chain A, )
4: VAR_069765 (G429S, chain A, )
5: VAR_053019 (N550S, chain A, )
6: VAR_053020 (K638E, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_068975
V
7
M
PDC6I_HUMAN
Polymorphism
11554560
A
V
7
M
2
UniProt
VAR_053017
A
309
T
PDC6I_HUMAN
Polymorphism
3792594
A
A
309
T
3
UniProt
VAR_053018
V
378
I
PDC6I_HUMAN
Polymorphism
3203777
A
V
378
I
4
UniProt
VAR_069765
G
429
S
PDC6I_HUMAN
Polymorphism
148256302
A
G
429
S
5
UniProt
VAR_053019
N
550
S
PDC6I_HUMAN
Polymorphism
9813017
A
N
550
S
6
UniProt
VAR_053020
K
638
E
PDC6I_HUMAN
Polymorphism
3183982
A
K
638
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: BRO1 (A:3-392)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BRO1
PS51180
BRO1 domain profile.
PDC6I_HUMAN
3-392
1
A:3-392
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Exons
(15, 15)
Info
All Exons
Exon 1.1b (A:2-70)
Exon 1.4 (A:70-88)
Exon 1.5b (A:89-112)
Exon 1.6c (A:112-154)
Exon 1.7d (A:155-206)
Exon 1.8b (A:206-239)
Exon 1.10c (A:240-278)
Exon 1.12b (A:279-353)
Exon 1.13b (A:353-394)
Exon 1.14 (A:394-453)
Exon 1.15b (A:454-491)
Exon 1.16 (A:491-547)
Exon 1.18a (A:548-630)
Exon 1.19b (A:631-675)
Exon 1.20b (A:676-698)
View:
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All Exon Boundaries
01: Boundary -/1.1b
02: Boundary 1.1b/1.4
03: Boundary 1.4/1.5b
04: Boundary 1.5b/1.6c
05: Boundary 1.6c/1.7d
06: Boundary 1.7d/1.8b
07: Boundary 1.8b/1.10c
08: Boundary 1.10c/1.12b
09: Boundary 1.12b/1.13b
10: Boundary 1.13b/1.14
11: Boundary 1.14/1.15b
12: Boundary 1.15b/1.16
13: Boundary 1.16/1.18a
14: Boundary 1.18a/1.19b
15: Boundary 1.19b/1.20b
16: Boundary 1.20b/1.21c
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1b
ENST00000307296
1b
ENSE00001884181
chr3:
33839844-33840429
586
PDC6I_HUMAN
1-70
70
1
A:2-70
69
1.4
ENST00000307296
4
ENSE00001770534
chr3:
33853564-33853618
55
PDC6I_HUMAN
70-88
19
1
A:70-88
19
1.5b
ENST00000307296
5b
ENSE00001632925
chr3:
33855051-33855120
70
PDC6I_HUMAN
89-112
24
1
A:89-112
24
1.6c
ENST00000307296
6c
ENSE00001802994
chr3:
33863447-33863574
128
PDC6I_HUMAN
112-154
43
1
A:112-154
43
1.7d
ENST00000307296
7d
ENSE00001141015
chr3:
33866679-33866832
154
PDC6I_HUMAN
155-206
52
1
A:155-206
52
1.8b
ENST00000307296
8b
ENSE00001141009
chr3:
33867972-33868072
101
PDC6I_HUMAN
206-239
34
1
A:206-239
34
1.10c
ENST00000307296
10c
ENSE00001141002
chr3:
33870345-33870461
117
PDC6I_HUMAN
240-278
39
1
A:240-278
39
1.12b
ENST00000307296
12b
ENSE00001608471
chr3:
33877536-33877758
223
PDC6I_HUMAN
279-353
75
1
A:279-353
75
1.13b
ENST00000307296
13b
ENSE00001630102
chr3:
33879696-33879819
124
PDC6I_HUMAN
353-394
42
1
A:353-394
42
1.14
ENST00000307296
14
ENSE00001140976
chr3:
33883389-33883566
178
PDC6I_HUMAN
394-453
60
1
A:394-453
60
1.15b
ENST00000307296
15b
ENSE00001785905
chr3:
33885604-33885715
112
PDC6I_HUMAN
454-491
38
1
A:454-491
38
1.16
ENST00000307296
16
ENSE00001732288
chr3:
33886911-33887080
170
PDC6I_HUMAN
491-547
57
1
A:491-547
57
1.18a
ENST00000307296
18a
ENSE00001783635
chr3:
33893980-33894228
249
PDC6I_HUMAN
548-630
83
1
A:548-630
83
1.19b
ENST00000307296
19b
ENSE00001596979
chr3:
33895371-33895505
135
PDC6I_HUMAN
631-675
45
1
A:631-675
45
1.20b
ENST00000307296
20b
ENSE00001097440
chr3:
33896658-33896752
95
PDC6I_HUMAN
676-707
32
1
A:676-698
23
1.21c
ENST00000307296
21c
ENSE00001140939
chr3:
33905498-33905621
124
PDC6I_HUMAN
707-748
42
0
-
-
1.22b
ENST00000307296
22b
ENSE00001140934
chr3:
33906735-33906922
188
PDC6I_HUMAN
749-811
63
0
-
-
1.23b
ENST00000307296
23b
ENSE00001218677
chr3:
33907843-33911194
3352
PDC6I_HUMAN
811-868
58
0
-
-
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SCOP Domains
(0, 0)
Info
All SCOP Domains
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CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_2r05A01 (A:2-358)
2a: CATH_2r05A03 (A:406-538,A:642-697)
3a: CATH_2r05A02 (A:359-405,A:542-640)
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
alix/aip1 like domains
(4)
Human (Homo sapiens)
(4)
1a
2r05A01
A:2-358
Architecture
:
Up-down Bundle
(3216)
Topology
:
Butyryl-CoA Dehydrogenase, subunit A; domain 3
(76)
Homologous Superfamily
:
alix/aip1 like domains
(4)
Human (Homo sapiens)
(4)
2a
2r05A03
A:406-538,A:642-697
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
alix/aip1 in complex with the ypdl late domain
(4)
Human (Homo sapiens)
(4)
3a
2r05A02
A:359-405,A:542-640
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Pfam Domains
(3, 3)
Info
all PFAM domains
1a: PFAM_ALIX_LYPXL_bnd_2r05A01 (A:408-698)
2a: PFAM_BRO1_2r05A02 (A:3-382)
3a: PFAM_Gag_p6_2r05B01 (B:34-38)
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Clans
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(
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Families
(
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: ALIX_LYPXL_bnd]
(8)
Family
:
ALIX_LYPXL_bnd
(8)
Homo sapiens (Human)
(8)
1a
ALIX_LYPXL_bnd-2r05A01
A:408-698
Clan
:
no clan defined [family: BRO1]
(11)
Family
:
BRO1
(11)
Homo sapiens (Human)
(10)
2a
BRO1-2r05A02
A:3-382
Clan
:
no clan defined [family: Gag_p6]
(6)
Family
:
Gag_p6
(6)
Human immunodeficiency virus type 1 group M subtype B (isolate YU-2) (HIV-1)
(1)
3a
Gag_p6-2r05B01
B:34-38
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