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1UXS
Asym. Unit
Info
Asym.Unit (171 KB)
Biol.Unit 1 (163 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HLA-B*2705 COMPLEXED WITH THE LATENT MEMBRANE PROTEIN 2 PEPTIDE (LMP2)OF EPSTEIN-BARR VIRUS
Authors
:
M. Hulsmeyer, C. Kozerski, M. T. Fiorillo, R. Sorrentino, W. Saenger, A. Ziegler, B. Uchanska-Ziegler
Date
:
01 Mar 04 (Deposition) - 09 Nov 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Immune System/Peptide, Complex (Hla/Peptide), Immune System, Mhc (Major Histocompatibility Complex), Hla- B*2705, Epstein-Barr Virus,
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. T. Fiorillo, C. Ruckert, M. Hulsmeyer, R. Sorrentino, W. Saenger, A. Ziegler, B. Uchanska-Ziegler
Allele-Dependent Similarity Between Viral And Self-Peptide Presentation By Hla-B27 Subtypes
J. Biol. Chem. V. 280 2962 2005
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
4
Ligand/Ion
GLYCEROL
[
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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:29 , ASP A:30 , HOH A:2483 , HOH A:2484 , HOH A:2486 , HOH A:2487 , TYR B:63 , HOH B:2154
BINDING SITE FOR RESIDUE GOL A1277
2
AC2
SOFTWARE
GLU A:166 , TRP A:167 , ARG A:170 , HOH A:2354 , HOH A:2488 , HOH A:2489
BINDING SITE FOR RESIDUE GOL A1278
3
AC3
SOFTWARE
ARG A:62 , GLY A:252 , HOH A:2458 , HOH A:2490 , ARG C:1 , TRP C:4
BINDING SITE FOR RESIDUE GOL A1279
4
AC4
SOFTWARE
ASP B:76 , GLU B:77 , TRP B:95 , ASP B:96 , ARG B:97 , HOH B:2200 , HOH B:2201 , HOH B:2202
BINDING SITE FOR RESIDUE GOL B1100
[
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]
SAPs(SNPs)/Variants
(12, 12)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_056341 (A41T, chain A, )
02: VAR_016379 (Y59H, chain A, )
03: VAR_016380 (D77N, chain A, )
04: VAR_016381 (D77S, chain A, )
05: VAR_016383 (T80N, chain A, )
06: VAR_016385 (N97S, chain A, )
07: VAR_016387 (H114D, chain A, )
08: VAR_016388 (D116H, chain A, )
09: VAR_016389 (D116Y, chain A, )
10: VAR_016390 (S131R, chain A, )
11: VAR_016391 (V152E, chain A, )
12: VAR_016392 (A211G, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_056341
A
65
T
1B27_HUMAN
Polymorphism
1050529
A
A
41
T
02
UniProt
VAR_016379
Y
83
H
1B27_HUMAN
Polymorphism
---
A
Y
59
H
03
UniProt
VAR_016380
D
101
N
1B27_HUMAN
Polymorphism
---
A
D
77
N
04
UniProt
VAR_016381
D
101
S
1B27_HUMAN
Polymorphism
---
A
D
77
S
05
UniProt
VAR_016383
T
104
N
1B27_HUMAN
Polymorphism
---
A
T
80
N
06
UniProt
VAR_016385
N
121
S
1B27_HUMAN
Polymorphism
---
A
N
97
S
07
UniProt
VAR_016387
H
138
D
1B27_HUMAN
Polymorphism
---
A
H
114
D
08
UniProt
VAR_016388
D
140
H
1B27_HUMAN
Polymorphism
---
A
D
116
H
09
UniProt
VAR_016389
D
140
Y
1B27_HUMAN
Polymorphism
---
A
D
116
Y
10
UniProt
VAR_016390
S
155
R
1B27_HUMAN
Polymorphism
---
A
S
131
R
11
UniProt
VAR_016391
V
176
E
1B27_HUMAN
Polymorphism
---
A
V
152
E
12
UniProt
VAR_016392
A
235
G
1B27_HUMAN
Polymorphism
---
A
A
211
G
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (B:78-84,B:78-84,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_GORGO
98-104
1
B:78-84
B2MG_HUMAN
98-104
1
B:78-84
B2MG_PANTR
98-104
1
B:78-84
1B27_HUMAN
281-287
1
A:257-263
[
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]
Exons
(3, 3)
Info
All Exons
Exon 1.1a (B:0-3)
Exon 1.2a (B:3-96)
Exon 1.4 (B:96-99)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2a
3: Boundary 1.2a/1.4
4: Boundary 1.4/1.5
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
1.1a
ENSPTRT00000012956
1a
ENSPTRE00000370636
chr15:
41860468-41860604
137
B2MG_PANTR
1-23
23
1
B:0-3
4
1.2a
ENSPTRT00000012956
2a
ENSPTRE00000238527
chr15:
41864413-41864691
279
B2MG_PANTR
23-116
94
1
B:3-96
94
1.4
ENSPTRT00000012956
4
ENSPTRE00000238528
chr15:
41865318-41865345
28
B2MG_PANTR
116-119
4
1
B:96-99
4
1.5
ENSPTRT00000012956
5
ENSPTRE00000070423
chr15:
41866598-41867140
543
B2MG_PANTR
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1uxsb_ (B:)
2a: SCOP_d1uxsa1 (A:182-276)
3a: SCOP_d1uxsa2 (A:1-181)
View:
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Classes
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(
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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)
Human (Homo sapiens) [TaxId: 9606]
(350)
1a
d1uxsb_
B:
Protein domain
:
Class I MHC, alpha-3 domain
(293)
Human (Homo sapiens) [TaxId: 9606]
(187)
2a
d1uxsa1
A:182-276
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-B27 [TaxId: 9606]
(9)
3a
d1uxsa2
A:1-181
[
close SCOP info
]
CATH Domains
(2, 3)
Info
all CATH domains
1a: CATH_1uxsA01 (A:1-181)
2a: CATH_1uxsB00 (B:0-99)
2b: CATH_1uxsA02 (A:182-276)
View:
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Classes
(
)
(
)
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)
Human (Homo sapiens)
(249)
1a
1uxsA01
A:1-181
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
1uxsB00
B:0-99
2b
1uxsA02
A:182-276
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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Atom Selection
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Protein & NOT Site
Protein & NOT PROSITE
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Chain B
Chain C
Asymmetric Unit 1
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