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2BCK
Asym. Unit
Info
Asym.Unit (142 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (70 KB)
Biol.Unit 3 (135 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HLA-A*2402 COMPLEXED WITH A TELOMERASE PEPTIDE
Authors
:
P. J. Rizkallah, B. K. Jakobsen, D. K. Cole, G. F. Gao
Date
:
19 Oct 05 (Deposition) - 10 Jan 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Biol. Unit 3: A,B,C,D,E,F (1x)
Keywords
:
Immunoglobulin Domains, Beta Barrels, Mhc Fold, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. K. Cole, P. J. Rizkallah, F. Gao, N. I. Watson, J. M. Boulter, J. I. Bell, M. Sami, G. F. Gao, B. K. Jakobsen
Crystal Structure Of Hla-A*2402 Complexed With A Telomerase Peptide.
Eur. J. Immunol. V. 36 170 2006
[
close entry info
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
4
Ligand/Ion
GLYCEROL
2
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:79 , ARG A:83 , ARG D:79 , ARG D:83
BINDING SITE FOR RESIDUE SO4 A 301
02
AC2
SOFTWARE
ARG B:45 , GLU B:47 , THR D:225
BINDING SITE FOR RESIDUE SO4 B 302
03
AC3
SOFTWARE
ARG A:21 , HIS B:51
BINDING SITE FOR RESIDUE SO4 B 303
04
AC4
SOFTWARE
ARG E:45 , GLU E:47 , LYS E:48
BINDING SITE FOR RESIDUE SO4 E 304
05
AC5
SOFTWARE
ARG D:21 , HIS E:51
BINDING SITE FOR RESIDUE SO4 E 305
06
AC6
SOFTWARE
MET B:0 , PRO D:276 , GLY D:277 , SER D:278 , GLY D:279 , GLY D:280 , GLY D:281
BINDING SITE FOR RESIDUE SO4 D 306
07
AC7
SOFTWARE
GLU A:275 , PRO A:276 , GLY A:277 , SER A:278 , GLY A:279 , GLY A:280 , GLY A:281
BINDING SITE FOR RESIDUE SO4 A 307
08
AC8
SOFTWARE
TRP A:147 , ALA A:150 , CYS C:8 , ASN D:86
BINDING SITE FOR RESIDUE SO4 A 308
09
AC9
SOFTWARE
PHE A:8 , ASP A:29 , ASP A:30 , PHE B:56 , TYR B:63
BINDING SITE FOR RESIDUE GOL A 309
10
BC1
SOFTWARE
TYR D:27 , PHE E:56 , TYR E:63
BINDING SITE FOR RESIDUE GOL D 307
11
BC2
SOFTWARE
TRP D:204 , ARG D:234 , SER E:11 , ARG E:12 , HIS E:13 , PRO E:14
BINDING SITE FOR RESIDUE GOL E 203
12
BC3
SOFTWARE
TRP A:204 , GLN A:242 , TYR B:10 , SER B:11
BINDING SITE FOR RESIDUE GOL B 204
[
close Site info
]
SAPs(SNPs)/Variants
(12, 24)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_004355 (H3Q, chain A/D, )
02: VAR_004356 (E62G, chain A/D, )
03: VAR_004357 (G65R, chain A/D, )
04: VAR_015765 (L95V, chain A/D, )
05: VAR_015766 (M97R, chain A/D, )
06: VAR_015767 (F99Y, chain A/D, )
07: VAR_015768 (G107W, chain A/D, )
08: VAR_015769 (Q156L, chain A/D, )
09: VAR_004358 (Q156W, chain A/D, )
10: VAR_015770 (T163R, chain A/D, )
11: VAR_056263 (R181H, chain A/D, )
12: VAR_004360 (T182A, chain A/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_004355
H
27
Q
1A24_HUMAN
Polymorphism
41541319
A/D
H
3
Q
02
UniProt
VAR_004356
E
86
G
1A24_HUMAN
Polymorphism
---
A/D
E
62
G
03
UniProt
VAR_004357
G
89
R
1A24_HUMAN
Polymorphism
---
A/D
G
65
R
04
UniProt
VAR_015765
L
119
V
1A24_HUMAN
Polymorphism
---
A/D
L
95
V
05
UniProt
VAR_015766
M
121
R
1A24_HUMAN
Polymorphism
---
A/D
M
97
R
06
UniProt
VAR_015767
F
123
Y
1A24_HUMAN
Polymorphism
---
A/D
F
99
Y
07
UniProt
VAR_015768
G
131
W
1A24_HUMAN
Polymorphism
---
A/D
G
107
W
08
UniProt
VAR_015769
Q
180
L
1A24_HUMAN
Polymorphism
---
A/D
Q
156
L
09
UniProt
VAR_004358
Q
180
W
1A24_HUMAN
Polymorphism
---
A/D
Q
156
W
10
UniProt
VAR_015770
T
187
R
1A24_HUMAN
Polymorphism
---
A/D
T
163
R
11
UniProt
VAR_056263
R
205
H
1A24_HUMAN
Polymorphism
17185861
A/D
R
181
H
12
UniProt
VAR_004360
T
206
A
1A24_HUMAN
Polymorphism
---
A/D
T
182
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (B:78-84,E:78-84,A:257-263,D:257-26...)
;
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
2
B:78-84
E:78-84
1A24_HUMAN
281-287
2
A:257-263
D:257-263
[
close PROSITE info
]
Exons
(1, 2)
Info
All Exons
Exon 1.2b (C:1-9 | F:1-9)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1b/1.2b
2: Boundary 1.2b/1.3b
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
ENST00000310581
1b
ENSE00001340231
chr5:
1295162-1294886
277
TERT_HUMAN
1-73
73
0
-
-
1.2b
ENST00000310581
2b
ENSE00001197112
chr5:
1294781-1293428
1354
TERT_HUMAN
74-525
452
2
C:1-9
F:1-9
9
9
1.3b
ENST00000310581
3b
ENSE00001197095
chr5:
1282739-1282544
196
TERT_HUMAN
525-590
66
0
-
-
1.4
ENST00000310581
4
ENSE00001083853
chr5:
1280453-1280273
181
TERT_HUMAN
590-650
61
0
-
-
1.5
ENST00000310581
5
ENSE00001083857
chr5:
1279585-1279406
180
TERT_HUMAN
651-710
60
0
-
-
1.6a
ENST00000310581
6a
ENSE00001320874
chr5:
1278911-1278756
156
TERT_HUMAN
711-762
52
0
-
-
1.7
ENST00000310581
7
ENSE00001196926
chr5:
1272395-1272300
96
TERT_HUMAN
763-794
32
0
-
-
1.8
ENST00000310581
8
ENSE00001196912
chr5:
1271319-1271234
86
TERT_HUMAN
795-823
29
0
-
-
1.9
ENST00000310581
9
ENSE00001730462
chr5:
1268748-1268635
114
TERT_HUMAN
823-861
39
0
-
-
1.10a
ENST00000310581
10a
ENSE00001721404
chr5:
1266650-1266579
72
TERT_HUMAN
861-885
25
0
-
-
1.11a
ENST00000310581
11a
ENSE00001799173
chr5:
1264707-1264519
189
TERT_HUMAN
885-948
64
0
-
-
1.12
ENST00000310581
12
ENSE00001663883
chr5:
1260715-1260589
127
TERT_HUMAN
948-990
43
0
-
-
1.13
ENST00000310581
13
ENSE00001666436
chr5:
1258774-1258713
62
TERT_HUMAN
991-1011
21
0
-
-
1.14
ENST00000310581
14
ENSE00001669116
chr5:
1255526-1255402
125
TERT_HUMAN
1011-1053
43
0
-
-
1.15
ENST00000310581
15
ENSE00001694644
chr5:
1254620-1254483
138
TERT_HUMAN
1053-1099
47
0
-
-
1.16c
ENST00000310581
16c
ENSE00001863787
chr5:
1253946-1253282
665
TERT_HUMAN
1099-1132
34
0
-
-
[
close EXON info
]
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d2bckb_ (B:)
1b: SCOP_d2bcke_ (E:)
2a: SCOP_d2bcka1 (A:182-276)
2b: SCOP_d2bckd1 (D:182-276)
3a: SCOP_d2bcka2 (A:1-181)
3b: SCOP_d2bckd2 (D:1-181)
View:
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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)
Human (Homo sapiens) [TaxId: 9606]
(350)
1a
d2bckb_
B:
1b
d2bcke_
E:
Protein domain
:
Class I MHC, alpha-3 domain
(293)
Human (Homo sapiens) [TaxId: 9606]
(187)
2a
d2bcka1
A:182-276
2b
d2bckd1
D: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-A2.1 [TaxId: 9606]
(92)
3a
d2bcka2
A:1-181
3b
d2bckd2
D:1-181
[
close SCOP info
]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2bckA01 (A:1-181)
1b: CATH_2bckD01 (D:1-181)
2a: CATH_2bckB00 (B:0-99)
2b: CATH_2bckE00 (E:0-99)
2c: CATH_2bckA02 (A:182-272)
2d: CATH_2bckD02 (D:182-272)
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
2bckA01
A:1-181
1b
2bckD01
D:1-181
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
2bckB00
B:0-99
2b
2bckE00
E:0-99
2c
2bckA02
A:182-272
2d
2bckD02
D:182-272
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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Asym.Unit (142 KB)
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