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3CHB
Asym. Unit
Info
Asym.Unit (220 KB)
Biol.Unit 1 (212 KB)
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(1)
Title
:
CHOLERA TOXIN B-PENTAMER COMPLEXED WITH GM1 PENTASACCHARIDE
Authors
:
E. A. Merritt, W. G. J. Hol
Date
:
24 Mar 98 (Deposition) - 12 Aug 98 (Release) - 28 Jul 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.25
Chains
:
Asym. Unit : D,E,F,G,H
Biol. Unit 1: D,E,F,G,H (1x)
Keywords
:
Toxin, Toxin/Receptor Complex, Pentasaccharide
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. A. Merritt, P. Kuhn, S. Sarfaty, J. L. Erbe, R. K. Holmes, W. G. Hol
The 1. 25 A Resolution Refinement Of The Cholera Toxin B-Pentamer: Evidence Of Peptide Backbone Strain At The Receptor-Binding Site.
J. Mol. Biol. V. 282 1043 1998
(for further references see the
PDB file header
)
[
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]
Hetero Components
(7, 32)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
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)
3a: ALPHA-D-GLUCOSE (GLCa)
3b: ALPHA-D-GLUCOSE (GLCb)
4a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
4b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
5a: N-ACETYL-D-GALACTOSAMINE (NGAa)
5b: N-ACETYL-D-GALACTOSAMINE (NGAb)
5c: N-ACETYL-D-GALACTOSAMINE (NGAc)
5d: N-ACETYL-D-GALACTOSAMINE (NGAd)
5e: N-ACETYL-D-GALACTOSAMINE (NGAe)
6a: O-SIALIC ACID (SIAa)
6b: O-SIALIC ACID (SIAb)
6c: O-SIALIC ACID (SIAc)
6d: O-SIALIC ACID (SIAd)
6e: O-SIALIC ACID (SIAe)
7a: UNKNOWN ATOM OR ION (UNXa)
7b: UNKNOWN ATOM OR ION (UNXb)
7c: UNKNOWN ATOM OR ION (UNXc)
7d: UNKNOWN ATOM OR ION (UNXd)
7e: UNKNOWN ATOM OR ION (UNXe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
3
Ligand/Ion
BETA-D-GLUCOSE
2
GAL
10
Ligand/Ion
BETA-D-GALACTOSE
3
GLC
2
Ligand/Ion
ALPHA-D-GLUCOSE
4
MES
2
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
5
NGA
5
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
6
SIA
5
Ligand/Ion
O-SIALIC ACID
7
UNX
5
Ligand/Ion
UNKNOWN ATOM OR ION
[
close Hetero Component info
]
Sites
(27, 27)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU D:51 , GLN D:56 , HIS D:57 , GLN D:61 , TRP D:88 , ASN D:90 , LYS D:91 , NGA D:105 , HOH D:7002 , HOH D:7007
BINDING SITE FOR RESIDUE GAL D 104
02
AC2
SOFTWARE
GLN D:56 , ILE D:58 , GAL D:104 , GAL D:106 , SIA D:108 , HOH D:7001 , HOH D:7005 , HOH D:7007 , HOH D:7008 , HOH D:9318 , HOH H:9436
BINDING SITE FOR RESIDUE NGA D 105
03
AC3
SOFTWARE
LYS D:34 , NGA D:105 , GLC D:107 , SIA D:108 , ILE H:58 , NGA H:105 , HOH H:9436 , HOH H:9799
BINDING SITE FOR RESIDUE GAL D 106
04
AC4
SOFTWARE
GAL D:106 , NGA H:105 , GAL H:106 , HOH H:9799
BINDING SITE FOR RESIDUE GLC D 107
05
AC5
SOFTWARE
GLU D:11 , TYR D:12 , HIS D:13 , ILE D:58 , NGA D:105 , GAL D:106 , HOH D:7002 , HOH D:7003 , HOH D:7005 , HOH D:9617 , GLY E:33
BINDING SITE FOR RESIDUE SIA D 108
06
AC6
SOFTWARE
GLU E:51 , GLN E:56 , GLN E:61 , TRP E:88 , ASN E:90 , LYS E:91 , NGA E:105 , HOH E:7101 , HOH E:7102 , HOH E:7105 , HOH E:7107
BINDING SITE FOR RESIDUE GAL E 104
07
AC7
SOFTWARE
GLN E:56 , ILE E:58 , GAL E:104 , GAL E:106 , SIA E:108 , HOH E:7108 , HOH E:9787 , HOH E:9815 , HOH F:9661
BINDING SITE FOR RESIDUE NGA E 105
08
AC8
SOFTWARE
NGA E:105 , BGC E:107 , SIA E:108 , HOH E:9334 , HOH E:9451 , HOH E:9618 , HOH F:9232 , HOH G:9410
BINDING SITE FOR RESIDUE GAL E 106
09
AC9
SOFTWARE
ASP D:7 , HOH D:9402 , GAL E:106 , HOH E:9351 , HOH E:9451 , HOH F:9777 , GLY G:54 , SER G:55 , GLN G:56 , HOH G:9295 , HOH G:9410
BINDING SITE FOR RESIDUE BGC E 107
10
BC1
SOFTWARE
GLU E:11 , TYR E:12 , HIS E:13 , ILE E:58 , NGA E:105 , GAL E:106 , HOH E:7102 , HOH E:7103 , HOH E:7105 , HOH E:9437 , HOH E:9729 , HOH E:9815 , GLY F:33
BINDING SITE FOR RESIDUE SIA E 108
11
BC2
SOFTWARE
GLU F:51 , GLN F:56 , HIS F:57 , GLN F:61 , TRP F:88 , ASN F:90 , LYS F:91 , NGA F:105 , HOH F:7201 , HOH F:7202 , HOH F:7205 , HOH F:7207
BINDING SITE FOR RESIDUE GAL F 104
12
BC3
SOFTWARE
ASN F:14 , GLN F:56 , HIS F:57 , ILE F:58 , GAL F:104 , GAL F:106 , SIA F:108 , HOH F:7201 , HOH F:7205 , HOH F:7207 , HOH F:7208
BINDING SITE FOR RESIDUE NGA F 105
13
BC4
SOFTWARE
HIS F:13 , NGA F:105 , GLC F:107 , SIA F:108
BINDING SITE FOR RESIDUE GAL F 106
14
BC5
SOFTWARE
GAL F:106
BINDING SITE FOR RESIDUE GLC F 107
15
BC6
SOFTWARE
GLU F:11 , TYR F:12 , HIS F:13 , ILE F:58 , NGA F:105 , GAL F:106 , HOH F:7202 , HOH F:7203 , HOH F:7205 , GLY G:33
BINDING SITE FOR RESIDUE SIA F 108
16
BC7
SOFTWARE
GLU G:51 , GLN G:56 , HIS G:57 , GLN G:61 , TRP G:88 , ASN G:90 , LYS G:91 , NGA G:105 , HOH G:7301 , HOH G:7302 , HOH G:7305 , HOH G:7307
BINDING SITE FOR RESIDUE GAL G 104
17
BC8
SOFTWARE
HIS D:18 , HOH D:9194 , HOH D:9306 , GLN G:56 , ILE G:58 , GAL G:104 , GAL G:106 , SIA G:108 , HOH G:7301 , HOH G:7305 , HOH G:7307 , HOH G:7308
BINDING SITE FOR RESIDUE NGA G 105
18
BC9
SOFTWARE
GLN D:16 , HIS D:18 , HOH D:9251 , HIS G:13 , NGA G:105 , BGC G:107 , SIA G:108 , HOH G:9720
BINDING SITE FOR RESIDUE GAL G 106
19
CC1
SOFTWARE
HIS D:18 , ALA D:46 , THR D:47 , HOH D:9132 , GAL G:106 , HOH G:9581 , HOH G:9713 , HOH G:9733 , HOH H:9375
BINDING SITE FOR RESIDUE BGC G 107
20
CC2
SOFTWARE
GLU G:11 , TYR G:12 , HIS G:13 , ILE G:58 , NGA G:105 , GAL G:106 , HOH G:7302 , HOH G:7303 , HOH G:7305 , HOH G:9552 , HOH G:9634
BINDING SITE FOR RESIDUE SIA G 108
21
CC3
SOFTWARE
ASN D:21 , ASP D:22 , LYS D:43 , LYS D:81 , HOH D:9068 , HOH D:9397 , ASN G:89 , LYS G:91 , THR G:92 , ARG G:94 , LYS H:43 , HOH H:9781
BINDING SITE FOR RESIDUE MES G 6001
22
CC4
SOFTWARE
ASN E:21 , ASP E:22 , LYS E:81 , LYS G:43 , ASN H:89 , ASN H:90 , LYS H:91 , THR H:92 , ARG H:94 , HOH H:9257
BINDING SITE FOR RESIDUE MES G 6002
23
CC5
SOFTWARE
GLU H:51 , GLN H:56 , HIS H:57 , GLN H:61 , TRP H:88 , ASN H:90 , LYS H:91 , NGA H:105 , HOH H:7401 , HOH H:7402 , HOH H:7405 , HOH H:7407
BINDING SITE FOR RESIDUE GAL H 104
24
CC6
SOFTWARE
GAL D:106 , GLC D:107 , HIS E:18 , GLN H:56 , GAL H:104 , GAL H:106 , SIA H:108 , HOH H:7407 , HOH H:7408 , HOH H:9538 , HOH H:9799
BINDING SITE FOR RESIDUE NGA H 105
25
CC7
SOFTWARE
GLC D:107 , GLN E:16 , HIS H:13 , NGA H:105 , BGC H:107 , SIA H:108
BINDING SITE FOR RESIDUE GAL H 106
26
CC8
SOFTWARE
HIS E:18 , ALA E:46 , THR E:47 , ARG E:94 , HOH E:9269 , HIS H:13 , GAL H:106 , HOH H:9154 , HOH H:9361 , HOH H:9717
BINDING SITE FOR RESIDUE BGC H 107
27
CC9
SOFTWARE
GLU H:11 , TYR H:12 , HIS H:13 , ILE H:58 , NGA H:105 , GAL H:106 , HOH H:7402 , HOH H:7403 , HOH H:7405 , HOH H:9814
BINDING SITE FOR RESIDUE SIA H 108
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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.
SCOP Domains
(1, 5)
Info
All SCOP Domains
1a: SCOP_d3chbd_ (D:)
1b: SCOP_d3chbe_ (E:)
1c: SCOP_d3chbf_ (F:)
1d: SCOP_d3chbg_ (G:)
1e: SCOP_d3chbh_ (H:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
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
:
Cholera toxin
(24)
Vibrio cholerae [TaxId: 666]
(24)
1a
d3chbd_
D:
1b
d3chbe_
E:
1c
d3chbf_
F:
1d
d3chbg_
G:
1e
d3chbh_
H:
[
close SCOP info
]
CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_3chbD00 (D:1-103)
1b: CATH_3chbE00 (E:1-103)
1c: CATH_3chbF00 (F:1-103)
1d: CATH_3chbG00 (G:1-103)
1e: CATH_3chbH00 (H:1-103)
View:
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Classes
(
)
(
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Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
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)
Vibrio cholerae. Organism_taxid: 666. Strain: ogawa 41 (classical biotype).
(4)
1a
3chbD00
D:1-103
1b
3chbE00
E:1-103
1c
3chbF00
F:1-103
1d
3chbG00
G:1-103
1e
3chbH00
H:1-103
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Protein & NOT PROSITE
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Chain E
Chain F
Chain G
Chain H
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