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3R8B
Biol. Unit 3
Info
Asym.Unit (447 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (63 KB)
Biol.Unit 3 (62 KB)
Biol.Unit 4 (62 KB)
Biol.Unit 5 (63 KB)
Biol.Unit 6 (62 KB)
Biol.Unit 7 (62 KB)
Biol.Unit 8 (62 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF STAPHYLOCOCCAL ENTEROTOXIN B IN COMPLEX WITH AN AFFINITY MATURED MOUSE TCR VBETA8.2 PROTEIN, G5-8
Authors
:
D. A. Bonsor, E. J. Sundberg
Date
:
23 Mar 11 (Deposition) - 06 Apr 11 (Release) - 10 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.95
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Biol. Unit 5: I,J (1x)
Biol. Unit 6: K,L (1x)
Biol. Unit 7: M,N (1x)
Biol. Unit 8: O,P (1x)
Keywords
:
Immunoglobulin-Like, Ob-Fold, Toxin-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. A. Bonsor, S. Postel, B. G. Pierce, N. Wang, P. Zhu, R. A. Buonpane, Z. Weng, D. M. Kranz, E. J. Sundberg
Molecular Basis Of A Million-Fold Affinity Maturation Process In A Protein-Protein Interaction.
J. Mol. Biol. V. 411 321 2011
[
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
2a: SULFATE ION (SO4a)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
3i: ZINC ION (ZNi)
3j: ZINC ION (ZNj)
3k: ZINC ION (ZNk)
3l: ZINC ION (ZNl)
3m: ZINC ION (ZNm)
3n: ZINC ION (ZNn)
3o: ZINC ION (ZNo)
3p: ZINC ION (ZNp)
3q: ZINC ION (ZNq)
3r: ZINC ION (ZNr)
3s: ZINC ION (ZNs)
3t: ZINC ION (ZNt)
3u: ZINC ION (ZNu)
3v: ZINC ION (ZNv)
3w: ZINC ION (ZNw)
3x: ZINC ION (ZNx)
View:
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Label:
Sorry, no Info available
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC6 (SOFTWARE)
06: AC8 (SOFTWARE)
07: BC2 (SOFTWARE)
08: CC1 (SOFTWARE)
09: CC8 (SOFTWARE)
10: CC9 (SOFTWARE)
11: DC2 (SOFTWARE)
12: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU B:42 , ARG B:44 , ASP D:59 , CL D:123 , CL D:124 , ASP F:59 , ZN P:121
BINDING SITE FOR RESIDUE ZN B 121
02
AC2
SOFTWARE
ZN B:121 , ASP D:59 , CL D:123 , CL D:124 , ASP F:59 , GLU P:42 , ARG P:44
BINDING SITE FOR RESIDUE ZN P 121
03
AC3
SOFTWARE
ASP B:59 , CL B:123 , CL B:124 , ZN D:121 , GLU F:42 , ARG F:44 , ASP P:59
BINDING SITE FOR RESIDUE ZN F 121
04
AC4
SOFTWARE
ASP B:59 , CL B:123 , CL B:124 , GLU D:42 , ARG D:44 , ZN F:121 , ASP P:59
BINDING SITE FOR RESIDUE ZN D 121
05
AC6
SOFTWARE
HIS B:41 , MET D:48 , HIS D:50 , GLU D:56 , ASP E:206
BINDING SITE FOR RESIDUE ZN D 122
06
AC8
SOFTWARE
ASP C:206 , MET F:48 , HIS F:50 , GLU F:56 , HIS P:41
BINDING SITE FOR RESIDUE ZN F 122
07
BC2
SOFTWARE
ASP A:206 , HIS F:41 , MET P:48 , HIS P:50 , GLU P:56
BINDING SITE FOR RESIDUE ZN P 122
08
CC1
SOFTWARE
HIS E:121 , GLU J:1
BINDING SITE FOR RESIDUE ZN E 240
09
CC8
SOFTWARE
GLU B:42 , ZN B:121 , ASP D:59 , ASP F:59 , ZN P:121
BINDING SITE FOR RESIDUE CL D 123
10
CC9
SOFTWARE
ASP B:59 , ZN D:121 , GLU F:42 , ZN F:121 , ASP P:59
BINDING SITE FOR RESIDUE CL B 123
11
DC2
SOFTWARE
ZN B:121 , CL B:124 , ASP D:59 , ASP F:59 , ZN P:121
BINDING SITE FOR RESIDUE CL D 124
12
DC4
SOFTWARE
ASP B:59 , ZN D:121 , CL D:124 , ZN F:121 , ASP P:59
BINDING SITE FOR RESIDUE CL B 124
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: STAPH_STREP_TOXIN_1 (E:115-124)
2: STAPH_STREP_TOXIN_2 (E:152-175)
;
View:
Select:
Label:
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.
ETXB_STAAU
142-151
1
-
-
E:115-124
-
-
-
-
-
2
STAPH_STREP_TOXIN_2
PS00278
Staphyloccocal enterotoxin/Streptococcal pyrogenic exotoxin signature 2.
ETXB_STAAU
179-202
1
-
-
E:152-175
-
-
-
-
-
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
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
(3, 24)
Info
All SCOP Domains
1a: SCOP_d3r8bb_ (B:)
1b: SCOP_d3r8bh_ (H:)
1c: SCOP_d3r8bj_ (J:)
1d: SCOP_d3r8bl_ (L:)
1e: SCOP_d3r8bn_ (N:)
1f: SCOP_d3r8bp_ (P:)
1g: SCOP_d3r8bd_ (D:)
1h: SCOP_d3r8bf_ (F:)
2a: SCOP_d3r8ba1 (A:2-121)
2b: SCOP_d3r8bc1 (C:2-121)
2c: SCOP_d3r8be1 (E:2-121)
2d: SCOP_d3r8bg1 (G:2-121)
2e: SCOP_d3r8bi1 (I:2-121)
2f: SCOP_d3r8bk1 (K:2-121)
2g: SCOP_d3r8bm1 (M:2-121)
2h: SCOP_d3r8bo1 (O:2-121)
3a: SCOP_d3r8ba2 (A:122-237)
3b: SCOP_d3r8bc2 (C:122-237)
3c: SCOP_d3r8be2 (E:122-237)
3d: SCOP_d3r8bg2 (G:122-237)
3e: SCOP_d3r8bi2 (I:122-239)
3f: SCOP_d3r8bk2 (K:122-237)
3g: SCOP_d3r8bm2 (M:122-239)
3h: SCOP_d3r8bo2 (O:122-239)
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
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
automated matches
(311)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(7)
1a
d3r8bb_
B:
1b
d3r8bh_
H:
1c
d3r8bj_
J:
1d
d3r8bl_
L:
1e
d3r8bn_
N:
1f
d3r8bp_
P:
1g
d3r8bd_
D:
1h
d3r8bf_
F:
Fold
:
OB-fold
(1179)
Superfamily
:
Bacterial enterotoxins
(188)
Family
:
Superantigen toxins, N-terminal domain
(91)
Protein domain
:
Staphylococcal enterotoxin B, SEB
(14)
Staphylococcus aureus [TaxId: 1280]
(14)
2a
d3r8ba1
A:2-121
2b
d3r8bc1
C:2-121
2c
d3r8be1
E:2-121
2d
d3r8bg1
G:2-121
2e
d3r8bi1
I:2-121
2f
d3r8bk1
K:2-121
2g
d3r8bm1
M:2-121
2h
d3r8bo1
O:2-121
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
:
Staphylococcal enterotoxin B, SEB
(14)
Staphylococcus aureus [TaxId: 1280]
(14)
3a
d3r8ba2
A:122-237
3b
d3r8bc2
C:122-237
3c
d3r8be2
E:122-237
3d
d3r8bg2
G:122-237
3e
d3r8bi2
I:122-239
3f
d3r8bk2
K:122-237
3g
d3r8bm2
M:122-239
3h
d3r8bo2
O:122-239
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
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Pfam Domains
(2, 16)
Info
all PFAM domains
1a: PFAM_Stap_Strp_tox_C_3r8bO01 (O:130-235)
1b: PFAM_Stap_Strp_tox_C_3r8bO02 (O:130-235)
1c: PFAM_Stap_Strp_tox_C_3r8bO03 (O:130-235)
1d: PFAM_Stap_Strp_tox_C_3r8bO04 (O:130-235)
1e: PFAM_Stap_Strp_tox_C_3r8bO05 (O:130-235)
1f: PFAM_Stap_Strp_tox_C_3r8bO06 (O:130-235)
1g: PFAM_Stap_Strp_tox_C_3r8bO07 (O:130-235)
1h: PFAM_Stap_Strp_tox_C_3r8bO08 (O:130-235)
2a: PFAM_Stap_Strp_toxin_3r8bO09 (O:23-121)
2b: PFAM_Stap_Strp_toxin_3r8bO10 (O:23-121)
2c: PFAM_Stap_Strp_toxin_3r8bO11 (O:23-121)
2d: PFAM_Stap_Strp_toxin_3r8bO12 (O:23-121)
2e: PFAM_Stap_Strp_toxin_3r8bO13 (O:23-121)
2f: PFAM_Stap_Strp_toxin_3r8bO14 (O:23-121)
2g: PFAM_Stap_Strp_toxin_3r8bO15 (O:23-121)
2h: PFAM_Stap_Strp_toxin_3r8bO16 (O:23-121)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ant-toxin_C
(48)
Family
:
Stap_Strp_tox_C
(48)
Staphylococcus aureus
(41)
1a
Stap_Strp_tox_C-3r8bO01
O:130-235
1b
Stap_Strp_tox_C-3r8bO02
O:130-235
1c
Stap_Strp_tox_C-3r8bO03
O:130-235
1d
Stap_Strp_tox_C-3r8bO04
O:130-235
1e
Stap_Strp_tox_C-3r8bO05
O:130-235
1f
Stap_Strp_tox_C-3r8bO06
O:130-235
1g
Stap_Strp_tox_C-3r8bO07
O:130-235
1h
Stap_Strp_tox_C-3r8bO08
O:130-235
Clan
:
no clan defined [family: Stap_Strp_toxin]
(39)
Family
:
Stap_Strp_toxin
(39)
Staphylococcus aureus
(33)
2a
Stap_Strp_toxin-3r8bO09
O:23-121
2b
Stap_Strp_toxin-3r8bO10
O:23-121
2c
Stap_Strp_toxin-3r8bO11
O:23-121
2d
Stap_Strp_toxin-3r8bO12
O:23-121
2e
Stap_Strp_toxin-3r8bO13
O:23-121
2f
Stap_Strp_toxin-3r8bO14
O:23-121
2g
Stap_Strp_toxin-3r8bO15
O:23-121
2h
Stap_Strp_toxin-3r8bO16
O:23-121
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Asym.Unit (447 KB)
Header - Asym.Unit
Biol.Unit 1 (62 KB)
Header - Biol.Unit 1
Biol.Unit 2 (63 KB)
Header - Biol.Unit 2
Biol.Unit 3 (62 KB)
Header - Biol.Unit 3
Biol.Unit 4 (62 KB)
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Biol.Unit 5 (63 KB)
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