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1QO3
Asym. Unit
Info
Asym.Unit (118 KB)
Biol.Unit 1 (113 KB)
Biol.Unit 2 (114 KB)
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(1)
Title
:
COMPLEX BETWEEN NK CELL RECEPTOR LY49A AND ITS MHC CLASS I LIGAND H-2DD
Authors
:
J. Tormo, R. A. Mariuzza
Date
:
01 Nov 99 (Deposition) - 02 Jan 00 (Release) - 15 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,P
Biol. Unit 1: A,B,C,D,P (1x)
Biol. Unit 2: A,B,C,D,P (1x)
Keywords
:
Receptor/Immune System, Complex (Nk Receptor/Mhc Class I), Nk Cell, Inhibitory Receptor, Mhc-I, C-Type Lectin-Like, Histocompatibility, B2M, Ly49, Ly-49
(Keyword Search:
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)
Reference
:
J. Tormo, K. Natarajan, D. H. Margulies, R. A. Mariuzza
Crystal Structure Of A Lectin-Like Natural Killer Cell Receptor Bound To Its Mhc Class I Ligand
Nature V. 402 623 1999
(for further references see the
PDB file header
)
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:170 , HOH C:2064
BINDING SITE FOR RESIDUE EDO A1276
2
AC2
SOFTWARE
TRP A:114 , TRP A:147 , ALA A:152 , ASP A:156 , HOH A:2157 , ARG P:5 , VAL P:8
BINDING SITE FOR RESIDUE EDO A1277
3
AC3
SOFTWARE
HIS A:188 , TRP A:204 , PRO B:14 , HOH B:2017
BINDING SITE FOR RESIDUE EDO A1278
[
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SAPs(SNPs)/Variants
(5, 5)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_B2MG_MOUSE_002 (H34Q, chain B, )
2: VAR_B2MG_MOUSE_003 (K44E, chain B, )
3: VAR_B2MG_MOUSE_004 (R81T, chain B, )
4: VAR_B2MG_MOUSE_005 (A85D, chain B, )
5: VAR_B2MG_MOUSE_006 (A85V, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_B2MG_MOUSE_002
*
H
54
Q
B2MG_MOUSE
---
---
B
H
34
Q
2
UniProt
VAR_B2MG_MOUSE_003
*
K
64
E
B2MG_MOUSE
---
---
B
K
44
E
3
UniProt
VAR_B2MG_MOUSE_004
*
R
101
T
B2MG_MOUSE
---
---
B
R
81
T
4
UniProt
VAR_B2MG_MOUSE_005
*
A
105
D
B2MG_MOUSE
---
---
B
A
85
D
5
UniProt
VAR_B2MG_MOUSE_006
*
A
105
V
B2MG_MOUSE
---
---
B
A
85
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (B:78-84,A:257-263)
2: C_TYPE_LECTIN_2 (C:146-254,D:146-254)
;
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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_MOUSE
98-104
1
B:78-84
HA12_MOUSE
281-287
1
A:257-263
2
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
KLRA1_MOUSE
146-254
2
C:146-254
D:146-254
[
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 5)
Info
All SCOP Domains
1a: SCOP_d1qo3b_ (B:)
2a: SCOP_d1qo3a1 (A:182-275)
3a: SCOP_d1qo3c_ (C:)
3b: SCOP_d1qo3d_ (D:)
4a: SCOP_d1qo3a2 (A:2-181)
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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)
Mouse (Mus musculus) [TaxId: 10090]
(166)
1a
d1qo3b_
B:
Protein domain
:
Class I MHC, alpha-3 domain
(293)
Mouse (Mus musculus) [TaxId: 10090]
(102)
2a
d1qo3a1
A:182-275
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
C-type lectin domain
(182)
Protein domain
:
NK cell receptor
(4)
Mouse (Mus musculus), ly49-a [TaxId: 10090]
(1)
3a
d1qo3c_
C:
3b
d1qo3d_
D:
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)
Mouse (Mus musculus), H-2DD [TaxId: 10090]
(20)
4a
d1qo3a2
A:2-181
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CATH Domains
(3, 5)
Info
all CATH domains
1a: CATH_1qo3A01 (A:2-181)
2a: CATH_1qo3C00 (C:126-258)
2b: CATH_1qo3D00 (D:139-259)
3a: CATH_1qo3B00 (B:0-99)
3b: CATH_1qo3A02 (A:182-272)
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(
)
(
)
Architectures
(
)
(
)
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)
Mouse (Mus musculus)
(40)
1a
1qo3A01
A:2-181
Architecture
:
Roll
(3276)
Topology
:
Mannose-Binding Protein A; Chain A
(180)
Homologous Superfamily
:
Mannose-Binding Protein A, subunit A
(180)
Mouse (Mus musculus)
(6)
2a
1qo3C00
C:126-258
2b
1qo3D00
D:139-259
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Mouse (Mus musculus)
(152)
3a
1qo3B00
B:0-99
3b
1qo3A02
A:182-272
[
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Pfam Domains
(4, 7)
Info
all PFAM domains
1a: PFAM_Lectin_C_1qo3D01 (D:156-255)
1b: PFAM_Lectin_C_1qo3D02 (D:156-255)
2a: PFAM_C1_set_1qo3B01 (B:11-92)
2b: PFAM_C1_set_1qo3A01 (A:188-271)
3a: PFAM_MHC_I_1qo3A02 (A:2-179)
4a: PFAM_Ly49_1qo3D03 (D:139-153)
4b: PFAM_Ly49_1qo3D04 (D:139-153)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
C_Lectin
(98)
Family
:
Lectin_C
(85)
Mus musculus (Mouse)
(4)
1a
Lectin_C-1qo3D01
D:156-255
1b
Lectin_C-1qo3D02
D:156-255
Clan
:
Ig
(577)
Family
:
C1-set
(338)
Mus musculus (Mouse)
(118)
2a
C1-set-1qo3B01
B:11-92
2b
C1-set-1qo3A01
A:188-271
Clan
:
MHC
(252)
Family
:
MHC_I
(210)
Mus musculus (Mouse)
(60)
3a
MHC_I-1qo3A02
A:2-179
Clan
:
no clan defined [family: Ly49]
(2)
Family
:
Ly49
(2)
Mus musculus (Mouse)
(2)
4a
Ly49-1qo3D03
D:139-153
4b
Ly49-1qo3D04
D:139-153
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Asym.Unit (118 KB)
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