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2DYP
Asym. Unit
Info
Asym.Unit (101 KB)
Biol.Unit 1 (97 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LILRB2(LIR2/ILT4/CD85D) COMPLEXED WITH HLA-G
Authors
:
M. Shiroishi, K. Kuroki, L. Rasubala, D. Kohda, K. Maenaka
Date
:
15 Sep 06 (Deposition) - 07 Nov 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Immunoglobulin-Like, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Shiroishi, K. Kuroki, L. Rasubala, K. Tsumoto, I. Kumagai, E. Kurimoto, K. Kato, D. Kohda, K. Maenaka
Structural Basis For Recognition Of The Nonclassical Mhc Molecule Hla-G By The Leukocyte Ig-Like Receptor B2 (Lilrb2/Lir2/Ilt4/Cd85D)
Proc. Natl. Acad. Sci. Usa V. 103 16412 2006
(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
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_076691 (D76N, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_076691
D
96
N
B2MG_HUMAN
Disease (AMYL8)
398122820
B
D
76
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (B:78-84,A:257-263)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
B2MG_HUMAN
98-104
1
B:78-84
HLAG_HUMAN
281-287
1
A:257-263
[
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Exons
(7, 7)
Info
All Exons
Exon 1.1b (C:1-9)
Exon 2.10x (A:2-91)
Exon 2.10ac (A:91-183)
Exon 2.11h (A:183-275)
Exon 2.11p (A:275-276)
Exon 3.5b (D:3-96)
Exon 3.6 (D:96-195 (gaps))
View:
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All Exon Boundaries
01: Boundary -/1.1b
02: Boundary 1.1b/1.1c
03: Boundary 2.10q/2.10x
04: Boundary 2.10x/2.10ac
05: Boundary 2.10ac/2.11h
06: Boundary 2.11h/2.11p
07: Boundary 2.11p/2.14e
08: Boundary 3.4b/3.5b
09: Boundary 3.5b/3.6
10: Boundary 3.6/3.7
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
ENST00000375167
1b
ENSE00001465957
chr11:
118966159-118965170
990
H2AX_HUMAN
1-162
162
1
C:1-9
9
1.1c
ENST00000375167
1c
ENSE00001465955
chr11:
118964971-118964589
383
H2AX_HUMAN
-
0
0
-
-
2.10q
ENST00000383621
10q
ENSE00001879878
HSCHR6_MHC_QBL:29792786-29792882
97
HLAG_HUMAN
1-25
25
0
-
-
2.10x
ENST00000383621
10x
ENSE00001604643
HSCHR6_MHC_QBL:29793012-29793281
270
HLAG_HUMAN
25-115
91
1
A:2-91
90
2.10ac
ENST00000383621
10ac
ENSE00001699371
HSCHR6_MHC_QBL:29793508-29793783
276
HLAG_HUMAN
115-207
93
1
A:91-183
93
2.11h
ENST00000383621
11h
ENSE00001683952
HSCHR6_MHC_QBL:29794383-29794658
276
HLAG_HUMAN
207-299
93
1
A:183-275
93
2.11p
ENST00000383621
11p
ENSE00001612508
HSCHR6_MHC_QBL:29794781-29794897
117
HLAG_HUMAN
299-338
40
1
A:275-276
2
2.14e
ENST00000383621
14e
ENSE00001622793
HSCHR6_MHC_QBL:29795343-29795375
33
HLAG_HUMAN
338-338
1
0
-
-
2.14q
ENST00000383621
14q
ENSE00001497869
HSCHR6_MHC_QBL:29795733-29796106
374
HLAG_HUMAN
-
0
0
-
-
3.1a
ENST00000391749
1a
ENSE00001932163
chr19:
54785039-54784816
224
LIRB2_HUMAN
-
0
0
-
-
3.3a
ENST00000391749
3a
ENSE00002181459
chr19:
54784399-54784318
82
LIRB2_HUMAN
1-12
12
0
-
-
3.4b
ENST00000391749
4b
ENSE00001756910
chr19:
54784154-54784119
36
LIRB2_HUMAN
12-24
13
0
-
-
3.5b
ENST00000391749
5b
ENSE00000897438
chr19:
54783930-54783646
285
LIRB2_HUMAN
24-119
96
1
D:3-96
94
3.6
ENST00000391749
6
ENSE00001707191
chr19:
54783502-54783200
303
LIRB2_HUMAN
119-220
102
1
D:96-195 (gaps)
100
3.7
ENST00000391749
7
ENSE00001758109
chr19:
54782963-54782667
297
LIRB2_HUMAN
220-319
100
0
-
-
3.8a
ENST00000391749
8a
ENSE00001754977
chr19:
54782416-54782114
303
LIRB2_HUMAN
319-420
102
0
-
-
3.9
ENST00000391749
9
ENSE00000856180
chr19:
54781793-54781743
51
LIRB2_HUMAN
420-437
18
0
-
-
3.10a
ENST00000391749
10a
ENSE00001747652
chr19:
54781454-54781404
51
LIRB2_HUMAN
437-454
18
0
-
-
3.10e
ENST00000391749
10e
ENSE00001749680
chr19:
54780783-54780661
123
LIRB2_HUMAN
454-495
42
0
-
-
3.11
ENST00000391749
11
ENSE00001639064
chr19:
54780310-54780235
76
LIRB2_HUMAN
495-520
26
0
-
-
3.12a
ENST00000391749
12a
ENSE00001780015
chr19:
54780155-54780118
38
LIRB2_HUMAN
520-533
14
0
-
-
3.13
ENST00000391749
13
ENSE00001639335
chr19:
54779857-54779805
53
LIRB2_HUMAN
533-550
18
0
-
-
3.14c
ENST00000391749
14c
ENSE00001817749
chr19:
54778683-54778320
364
LIRB2_HUMAN
551-598
48
0
-
-
[
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]
SCOP Domains
(4, 5)
Info
All SCOP Domains
1a: SCOP_d2dypb_ (B:)
2a: SCOP_d2dypa1 (A:182-276)
3a: SCOP_d2dypd1 (D:3-96)
3b: SCOP_d2dypd2 (D:97-195)
4a: SCOP_d2dypa2 (A:2-181)
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)
(
)
Folds
(
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(
)
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(
)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
beta2-microglobulin
(530)
Human (Homo sapiens) [TaxId: 9606]
(350)
1a
d2dypb_
B:
Protein domain
:
Class I MHC, alpha-3 domain
(293)
Human (Homo sapiens) [TaxId: 9606]
(187)
2a
d2dypa1
A:182-276
Family
:
I set domains
(152)
Protein domain
:
Ligand binding domain of lir-2 (ilt4)
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
3a
d2dypd1
D:3-96
3b
d2dypd2
D:97-195
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
MHC antigen-recognition domain
(585)
Superfamily
:
MHC antigen-recognition domain
(585)
Family
:
MHC antigen-recognition domain
(533)
Protein domain
:
Class I MHC, alpha-1 and alpha-2 domains
(294)
Human (Homo sapiens), HLA-G [TaxId: 9606]
(3)
4a
d2dypa2
A:2-181
[
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CATH Domains
(2, 5)
Info
all CATH domains
1a: CATH_2dypA01 (A:2-181)
2a: CATH_2dypB00 (B:0-99)
2b: CATH_2dypA02 (A:182-272)
2c: CATH_2dypD02 (D:96-195)
2d: CATH_2dypD01 (D:3-95)
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1
(402)
Homologous Superfamily
:
Murine Class I Major Histocompatibility Complex, H2-DB, subunit A, domain 1
(400)
Human (Homo sapiens)
(249)
1a
2dypA01
A:2-181
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
2dypB00
B:0-99
2b
2dypA02
A:182-272
2c
2dypD02
D:96-195
2d
2dypD01
D:3-95
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sidechain
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