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1L0Y
Biol. Unit 2
Info
Asym.Unit (158 KB)
Biol.Unit 1 (78 KB)
Biol.Unit 2 (78 KB)
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(1)
Title
:
T CELL RECEPTOR BETA CHAIN COMPLEXED WITH SUPERANTIGEN SPEA SOAKED WITH ZINC
Authors
:
H. Li, E. J. Sundberg, R. A. Mariuzza
Date
:
14 Feb 02 (Deposition) - 03 Apr 02 (Release) - 25 Sep 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Tcr, Superantigen, Spea, Immune System
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
E. J. Sundberg, H. Li, A. S. Llera, J. K. Mccormick, J. Tormo, P. M. Schlievert, K. Karjalainen, R. A. Mariuzza
Structures Of Two Streptococcal Superantigens Bound To Tcr Beta Chains Reveal Diversity In The Architecture Of T Cell Signaling Complexes.
Structure V. 10 687 2002
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
2e: ZINC ION (ZNe)
2f: ZINC ION (ZNf)
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Sorry, no Info available
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Sites
(3, 3)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
GLU C:158 , GLN C:215 , HIS C:217 , HOH C:714 , HOH C:786
BINDING SITE FOR RESIDUE ZN C 703
2
AC4
SOFTWARE
GLU D:33 , ASP D:77 , HIS D:106 , HIS D:110
BINDING SITE FOR RESIDUE ZN D 704
3
AC5
SOFTWARE
HIS D:10 , GLU D:189 , HOH D:785 , HOH D:787 , HOH D:788
BINDING SITE FOR RESIDUE ZN D 705
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_TCB2_MOUSE_001 (K166R, chain C, )
2: VAR_TCB2_MOUSE_002 (Y190H, chain C, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_TCB2_MOUSE_001
*
K
50
R
TCB2_MOUSE
---
---
C
K
166
R
2
UniProt
VAR_TCB2_MOUSE_002
*
Y
70
H
TCB2_MOUSE
---
---
C
Y
190
H
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 5)
Info
All PROSITE Patterns/Profiles
1: STAPH_STREP_TOXIN_1 (D:100-109)
2: STAPH_STREP_TOXIN_2 (D:137-160)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
STAPH_STREP_TOXIN_1
PS00277
Staphylococcal enterotoxin/Streptococcal pyrogenic exotoxin signature 1.
SPEA_BPT12
130-139
1
-
D:100-109
SPEA_STRP8
130-139
1
-
D:100-109
SPEA_STRPY
130-139
1
-
D:100-109
2
STAPH_STREP_TOXIN_2
PS00278
Staphyloccocal enterotoxin/Streptococcal pyrogenic exotoxin signature 2.
SPEA_BPT12
167-190
1
-
D:137-160
SPEA_STRP8
167-190
1
-
D:137-160
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1l0ya2 (A:118-244)
1b: SCOP_d1l0yc2 (C:118-244)
2a: SCOP_d1l0ya1 (A:3-117)
2b: SCOP_d1l0yc1 (C:3-117)
3a: SCOP_d1l0yb1 (B:1-107)
3b: SCOP_d1l0yd1 (D:1-107)
4a: SCOP_d1l0yb2 (B:108-220)
4b: SCOP_d1l0yd2 (D:108-221)
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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
:
T-cell antigen receptor
(81)
Mouse (Mus musculus), beta-chain [TaxId: 10090]
(15)
1a
d1l0ya2
A:118-244
1b
d1l0yc2
C:118-244
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
T-cell antigen receptor
(105)
Mouse (Mus musculus), beta-chain [TaxId: 10090]
(28)
2a
d1l0ya1
A:3-117
2b
d1l0yc1
C:3-117
Fold
:
OB-fold
(1179)
Superfamily
:
Bacterial enterotoxins
(188)
Family
:
Superantigen toxins, N-terminal domain
(91)
Protein domain
:
Streptococcal pyrogenic exotoxin A1
(8)
Streptococcus pyogenes [TaxId: 1314]
(8)
3a
d1l0yb1
B:1-107
3b
d1l0yd1
D:1-107
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
Superantigen toxins, C-terminal domain
(103)
Family
:
Superantigen toxins, C-terminal domain
(94)
Protein domain
:
Streptococcal pyrogenic exotoxin A1
(8)
Streptococcus pyogenes [TaxId: 1314]
(8)
4a
d1l0yb2
B:108-220
4b
d1l0yd2
D:108-221
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CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_1l0yB01 (B:1-29,B:109-220)
1b: CATH_1l0yD01 (D:1-29,D:109-220)
2a: CATH_1l0yB02 (B:30-108)
2b: CATH_1l0yD02 (D:30-108)
3a: CATH_1l0yA01 (A:3-117)
3b: CATH_1l0yC01 (C:3-117)
3c: CATH_1l0yA02 (A:118-244)
3d: CATH_1l0yC02 (C:118-244)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
[code=3.10.20.120, no name defined]
(91)
House mouse (Mus musculus)
(7)
1a
1l0yB01
B:1-29,B:109-220
1b
1l0yD01
D:1-29,D:109-220
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.110, no name defined]
(136)
House mouse (Mus musculus)
(7)
2a
1l0yB02
B:30-108
2b
1l0yD02
D:30-108
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse (Mus musculus)
(616)
3a
1l0yA01
A:3-117
3b
1l0yC01
C:3-117
3c
1l0yA02
A:118-244
3d
1l0yC02
C:118-244
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Stap_Strp_tox_C_1l0yD01 (D:115-219)
1b: PFAM_Stap_Strp_tox_C_1l0yD02 (D:115-219)
2a: PFAM_Stap_Strp_toxin_1l0yD03 (D:19-106)
2b: PFAM_Stap_Strp_toxin_1l0yD04 (D:19-106)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ant-toxin_C
(48)
Family
:
Stap_Strp_tox_C
(48)
Streptococcus pyogenes serotype M18
(1)
1a
Stap_Strp_tox_C-1l0yD01
D:115-219
1b
Stap_Strp_tox_C-1l0yD02
D:115-219
Clan
:
no clan defined [family: Stap_Strp_toxin]
(39)
Family
:
Stap_Strp_toxin
(39)
Streptococcus pyogenes serotype M18
(1)
2a
Stap_Strp_toxin-1l0yD03
D:19-106
2b
Stap_Strp_toxin-1l0yD04
D:19-106
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Asymmetric Unit 1
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