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2C5C
Biol. Unit 2
Info
Asym.Unit (141 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (66 KB)
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(1)
Title
:
SHIGA-LIKE TOXIN 1 B SUBUNIT COMPLEXED WITH A BIVALENT INHIBITOR
Authors
:
R. B. Dodd, R. J. Read
Date
:
26 Oct 05 (Deposition) - 27 Nov 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.94
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: F,G,H,I,J (1x)
Keywords
:
Bacterial Exotoxin, Gb3 Binding Activity, Bivalent Ligand, Protein-Carbohydrate Recognition, Ob Fold, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. B. Dodd, R. J. Read
Extensive Cross-Linking Of The Shiga-Like Toxin 1 B Subunit By A Bivalent Ligand
To Be Published
[
close entry info
]
Hetero Components
(6, 26)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
2a: BETA-D-GALACTOSE (GALa)
2b: BETA-D-GALACTOSE (GALb)
2c: BETA-D-GALACTOSE (GALc)
2d: BETA-D-GALACTOSE (GALd)
2e: BETA-D-GALACTOSE (GALe)
2f: BETA-D-GALACTOSE (GALf)
2g: BETA-D-GALACTOSE (GALg)
2h: BETA-D-GALACTOSE (GALh)
2i: BETA-D-GALACTOSE (GALi)
2j: BETA-D-GALACTOSE (GALj)
2k: BETA-D-GALACTOSE (GALk)
2l: BETA-D-GALACTOSE (GALl)
3a: ALPHA D-GALACTOSE (GLAa)
3aa: ALPHA D-GALACTOSE (GLAaa)
3ab: ALPHA D-GALACTOSE (GLAab)
3ac: ALPHA D-GALACTOSE (GLAac)
3b: ALPHA D-GALACTOSE (GLAb)
3c: ALPHA D-GALACTOSE (GLAc)
3d: ALPHA D-GALACTOSE (GLAd)
3e: ALPHA D-GALACTOSE (GLAe)
3f: ALPHA D-GALACTOSE (GLAf)
3g: ALPHA D-GALACTOSE (GLAg)
3h: ALPHA D-GALACTOSE (GLAh)
3i: ALPHA D-GALACTOSE (GLAi)
3j: ALPHA D-GALACTOSE (GLAj)
3k: ALPHA D-GALACTOSE (GLAk)
3l: ALPHA D-GALACTOSE (GLAl)
3m: ALPHA D-GALACTOSE (GLAm)
3n: ALPHA D-GALACTOSE (GLAn)
3o: ALPHA D-GALACTOSE (GLAo)
3p: ALPHA D-GALACTOSE (GLAp)
3q: ALPHA D-GALACTOSE (GLAq)
3r: ALPHA D-GALACTOSE (GLAr)
3s: ALPHA D-GALACTOSE (GLAs)
3t: ALPHA D-GALACTOSE (GLAt)
3u: ALPHA D-GALACTOSE (GLAu)
3v: ALPHA D-GALACTOSE (GLAv)
3w: ALPHA D-GALACTOSE (GLAw)
3x: ALPHA D-GALACTOSE (GLAx)
3y: ALPHA D-GALACTOSE (GLAy)
3z: ALPHA D-GALACTOSE (GLAz)
4a: ALPHA-D-GLUCOSE (GLCa)
4b: ALPHA-D-GLUCOSE (GLCb)
4c: ALPHA-D-GLUCOSE (GLCc)
4d: ALPHA-D-GLUCOSE (GLCd)
4e: ALPHA-D-GLUCOSE (GLCe)
4f: ALPHA-D-GLUCOSE (GLCf)
4g: ALPHA-D-GLUCOSE (GLCg)
4h: ALPHA-D-GLUCOSE (GLCh)
4i: ALPHA-D-GLUCOSE (GLCi)
4j: ALPHA-D-GLUCOSE (GLCj)
5a: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10a)
5b: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10b)
5c: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10c)
5d: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10d)
5e: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10e)
5f: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10f)
5g: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10g)
5h: DIETHYL PROPANE-1,3-DIYLBISCARBAMA... (S10h)
6a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
GAL
3
Ligand/Ion
BETA-D-GALACTOSE
3
GLA
13
Ligand/Ion
ALPHA D-GALACTOSE
4
GLC
3
Ligand/Ion
ALPHA-D-GLUCOSE
5
S10
4
Ligand/Ion
DIETHYL PROPANE-1,3-DIYLBISCARBAMATE
6
SO4
1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(42, 42)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: BC4 (SOFTWARE)
10: BC5 (SOFTWARE)
11: BC6 (SOFTWARE)
12: CC1 (SOFTWARE)
13: CC2 (SOFTWARE)
14: CC3 (SOFTWARE)
15: DC3 (SOFTWARE)
16: DC7 (SOFTWARE)
17: DC8 (SOFTWARE)
18: DC9 (SOFTWARE)
19: EC1 (SOFTWARE)
20: EC2 (SOFTWARE)
21: EC3 (SOFTWARE)
22: EC4 (SOFTWARE)
23: EC5 (SOFTWARE)
24: EC6 (SOFTWARE)
25: EC7 (SOFTWARE)
26: EC8 (SOFTWARE)
27: EC9 (SOFTWARE)
28: FC1 (SOFTWARE)
29: FC2 (SOFTWARE)
30: FC3 (SOFTWARE)
31: FC4 (SOFTWARE)
32: FC5 (SOFTWARE)
33: FC6 (SOFTWARE)
34: FC7 (SOFTWARE)
35: FC8 (SOFTWARE)
36: FC9 (SOFTWARE)
37: GC1 (SOFTWARE)
38: GC2 (SOFTWARE)
39: GC6 (SOFTWARE)
40: GC8 (SOFTWARE)
41: GC9 (SOFTWARE)
42: HC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:32 , ARG A:33 , TRP A:34 , ASN A:35 , GAL A:1071 , ASP B:18 , ASP F:16 , ARG J:33 , GLA J:1073
BINDING SITE FOR RESIDUE GLA A1070
02
AC2
SOFTWARE
TRP A:34 , GLA A:1070 , GLC A:1072 , S10 A:1076 , ASP F:16 , GAL J:1074 , GLC J:1075
BINDING SITE FOR RESIDUE GAL A1071
03
AC3
SOFTWARE
GAL A:1071 , S10 A:1076 , ASP F:16 , THR J:1 , GLU J:65
BINDING SITE FOR RESIDUE GLC A1072
04
AC4
SOFTWARE
PHE A:30 , THR A:31 , ASN A:32 , ARG A:33 , GLY A:62 , PHE A:63 , GAL A:1074 , ASP B:16 , ASN J:32 , GLA J:1070 , GAL J:1071
BINDING SITE FOR RESIDUE GLA A1073
05
AC5
SOFTWARE
THR A:1 , THR A:54 , ASN A:55 , GLY A:62 , GLA A:1073 , GLC A:1075 , GAL J:1071 , S10 J:1076
BINDING SITE FOR RESIDUE GAL A1074
06
AC6
SOFTWARE
ASN A:55 , GAL A:1074 , GLA I:1070 , ASP J:18 , TRP J:34 , GAL J:1071 , S10 J:1076
BINDING SITE FOR RESIDUE GLC A1075
07
AC8
SOFTWARE
S10 A:1076 , TRP B:34 , GLA B:70 , GLC B:72 , ASP F:17
BINDING SITE FOR RESIDUE GAL B 71
08
AC9
SOFTWARE
S10 A:1076 , GAL B:71 , ASN F:15 , ASP F:17 , THR F:19 , PHE F:30
BINDING SITE FOR RESIDUE GLC B 72
09
BC4
SOFTWARE
ASN B:15 , ASP B:17 , THR B:19 , PHE B:30 , GAL B:1077 , S10 F:1073
BINDING SITE FOR RESIDUE GLC B1075
10
BC5
SOFTWARE
GAL B:1077 , ARG F:33 , TRP F:34 , ASN F:35 , TYR G:14 , ASP G:18
BINDING SITE FOR RESIDUE GLA B1076
11
BC6
SOFTWARE
ASP B:17 , GLC B:1075 , GLA B:1076 , TRP F:34 , S10 F:1073
BINDING SITE FOR RESIDUE GAL B1077
12
CC1
SOFTWARE
GAL C:1075 , PHE F:30 , THR F:31 , ASN F:32 , ARG F:33 , GLY F:62 , PHE F:63 , SER F:64 , ASP G:16
BINDING SITE FOR RESIDUE GLA C1074
13
CC2
SOFTWARE
S10 C:1073 , GLA C:1074 , GLC C:1076 , THR F:1 , THR F:54 , ASN F:55
BINDING SITE FOR RESIDUE GAL C1075
14
CC3
SOFTWARE
S10 C:1073 , GAL C:1075 , ASN F:55
BINDING SITE FOR RESIDUE GLC C1076
15
DC3
SOFTWARE
ASP A:18 , ASN E:32 , ARG E:33 , TRP E:34 , ASN E:35 , GLA E:1071 , GLC J:1075
BINDING SITE FOR RESIDUE GLA E1070
16
DC7
SOFTWARE
ASN E:55 , GAL E:1073 , THR I:46 , HOH I:2001 , ILE J:45
BINDING SITE FOR RESIDUE GLC E1074
17
DC8
SOFTWARE
ASN G:32 , ARG G:33 , TRP G:34 , ASN G:35 , GLA G:1071 , TYR H:14 , ASP H:18 , TRP H:34
BINDING SITE FOR RESIDUE GLA G1070
18
DC9
SOFTWARE
GLA G:1070
BINDING SITE FOR RESIDUE GLA G1071
19
EC1
SOFTWARE
ASN H:32 , ARG H:33 , TRP H:34 , ASN H:35 , GLA H:1071
BINDING SITE FOR RESIDUE GLA H1070
20
EC2
SOFTWARE
TRP H:34 , GLA H:1070
BINDING SITE FOR RESIDUE GLA H1071
21
EC3
SOFTWARE
ASN H:32 , ARG H:33 , PHE H:63 , SER H:64 , GAL H:1073 , ASP I:16
BINDING SITE FOR RESIDUE GLA H1072
22
EC4
SOFTWARE
THR H:54 , ASN H:55 , GLY H:62 , GLA H:1072 , GLC H:1074
BINDING SITE FOR RESIDUE GAL H1073
23
EC5
SOFTWARE
GAL H:1073
BINDING SITE FOR RESIDUE GLC H1074
24
EC6
SOFTWARE
GLC A:1075 , ASN I:32 , ARG I:33 , TRP I:34 , ASN I:35 , GLA I:1071 , ASP J:18 , TRP J:34
BINDING SITE FOR RESIDUE GLA I1070
25
EC7
SOFTWARE
TRP I:34 , GLA I:1070
BINDING SITE FOR RESIDUE GLA I1071
26
EC8
SOFTWARE
PHE I:30 , THR I:31 , ASN I:32 , ARG I:33 , GLY I:62 , PHE I:63 , GLA I:1073 , GLA I:1077 , GLA I:1078 , ASP J:16
BINDING SITE FOR RESIDUE GLA I1072
27
EC9
SOFTWARE
THR I:54 , ASN I:55 , GLY I:62 , GLA I:1072 , BGC I:1074 , S10 I:1075 , GLA I:1077 , GLA I:1078 , BGC I:1079
BINDING SITE FOR RESIDUE GLA I1073
28
FC1
SOFTWARE
ASN I:55 , GLA I:1073 , S10 I:1075 , GLA I:1078 , BGC I:1079
BINDING SITE FOR RESIDUE BGC I1074
29
FC2
SOFTWARE
PHE I:30 , THR I:31 , ASN I:32 , ARG I:33 , GLY I:62 , PHE I:63 , GLA I:1072 , GLA I:1073 , GLA I:1078 , ASP J:16
BINDING SITE FOR RESIDUE GLA I1077
30
FC3
SOFTWARE
THR I:54 , ASN I:55 , GLY I:62 , GLA I:1072 , GLA I:1073 , BGC I:1074 , S10 I:1075 , GLA I:1077 , BGC I:1079
BINDING SITE FOR RESIDUE GLA I1078
31
FC4
SOFTWARE
ASN I:55 , GLA I:1073 , BGC I:1074 , S10 I:1075 , GLA I:1078
BINDING SITE FOR RESIDUE BGC I1079
32
FC5
SOFTWARE
ARG A:33 , GLA A:1073 , ASP B:16 , ASP F:18 , TRP F:34 , ARG J:33 , TRP J:34 , ASN J:35 , GAL J:1071
BINDING SITE FOR RESIDUE GLA J1070
33
FC6
SOFTWARE
GLA A:1073 , GAL A:1074 , GLC A:1075 , ASP B:16 , TRP J:34 , GLA J:1070 , GLC J:1072 , S10 J:1077
BINDING SITE FOR RESIDUE GAL J1071
34
FC7
SOFTWARE
THR A:1 , GLU A:65 , ASP B:16 , HOH B:2001 , GAL J:1071 , S10 J:1077
BINDING SITE FOR RESIDUE GLC J1072
35
FC8
SOFTWARE
ASN A:32 , GLA A:1070 , ASP F:16 , THR J:31 , ASN J:32 , ARG J:33 , GLY J:62 , PHE J:63 , SER J:64 , GAL J:1074 , S10 J:1076 , HOH J:2003
BINDING SITE FOR RESIDUE GLA J1073
36
FC9
SOFTWARE
GAL A:1071 , THR J:54 , ASN J:55 , GLY J:62 , GLA J:1073 , GLC J:1075 , S10 J:1076
BINDING SITE FOR RESIDUE GAL J1074
37
GC1
SOFTWARE
ASP A:18 , GAL A:1071 , GLA E:1070 , ASN J:55 , GAL J:1074 , S10 J:1076
BINDING SITE FOR RESIDUE GLC J1075
38
GC2
SOFTWARE
HIS I:58 , S10 I:1075
BINDING SITE FOR RESIDUE SO4 I1076
39
GC6
SOFTWARE
GAL E:1073 , ILE F:45
BINDING SITE FOR RESIDUE S10 E1075
40
GC8
SOFTWARE
GLA I:1073 , BGC I:1074 , SO4 I:1076 , GLA I:1078 , BGC I:1079
BINDING SITE FOR RESIDUE S10 I1075
41
GC9
SOFTWARE
ASN A:32 , GAL A:1074 , GLC A:1075 , ASP J:17 , THR J:19 , ASN J:32 , GLA J:1073 , GAL J:1074 , GLC J:1075
BINDING SITE FOR RESIDUE S10 J1076
42
HC1
SOFTWARE
GAL J:1071 , GLC J:1072
BINDING SITE FOR RESIDUE S10 J1077
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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[
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
[
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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
(1, 10)
Info
All SCOP Domains
1a: SCOP_d2c5ca_ (A:)
1b: SCOP_d2c5cb_ (B:)
1c: SCOP_d2c5cc_ (C:)
1d: SCOP_d2c5cd_ (D:)
1e: SCOP_d2c5ce_ (E:)
1f: SCOP_d2c5cf_ (F:)
1g: SCOP_d2c5cg_ (G:)
1h: SCOP_d2c5ch_ (H:)
1i: SCOP_d2c5ci_ (I:)
1j: SCOP_d2c5cj_ (J:)
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)
(
)
Folds
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(
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Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Bacterial enterotoxins
(188)
Family
:
Bacterial AB5 toxins, B-subunits
(85)
Protein domain
:
Verotoxin-1/shiga-toxin, B-pentamer
(19)
Escherichia coli [TaxId: 562]
(14)
1a
d2c5ca_
A:
1b
d2c5cb_
B:
1c
d2c5cc_
C:
1d
d2c5cd_
D:
1e
d2c5ce_
E:
1f
d2c5cf_
F:
1g
d2c5cg_
G:
1h
d2c5ch_
H:
1i
d2c5ci_
I:
1j
d2c5cj_
J:
[
close SCOP info
]
CATH Domains
(1, 10)
Info
all CATH domains
1a: CATH_2c5cA00 (A:1-69)
1b: CATH_2c5cB00 (B:1-69)
1c: CATH_2c5cC00 (C:1-69)
1d: CATH_2c5cD00 (D:1-69)
1e: CATH_2c5cE00 (E:1-69)
1f: CATH_2c5cF00 (F:1-69)
1g: CATH_2c5cG00 (G:1-69)
1h: CATH_2c5cH00 (H:1-69)
1i: CATH_2c5cI00 (I:1-69)
1j: CATH_2c5cJ00 (J:1-69)
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Topologies
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.70, no name defined]
(18)
Bacteriophage h30. Organism_taxid: 12371.
(1)
1a
2c5cA00
A:1-69
1b
2c5cB00
B:1-69
1c
2c5cC00
C:1-69
1d
2c5cD00
D:1-69
1e
2c5cE00
E:1-69
1f
2c5cF00
F:1-69
1g
2c5cG00
G:1-69
1h
2c5cH00
H:1-69
1i
2c5cI00
I:1-69
1j
2c5cJ00
J:1-69
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Asym.Unit (141 KB)
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