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2G7C
Asym. Unit
Info
Asym.Unit (99 KB)
Biol.Unit 1 (48 KB)
Biol.Unit 2 (49 KB)
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(1)
Title
:
CLOSTRIDIUM DIFFICILE TOXIN A FRAGMENT BOUND TO AGAL(1,3)BGAL(1,4) BGLCNAC
Authors
:
A. Greco, J. G. S. Ho, S. J. Lin, M. M. Palcic, M. Rupnik, K. K. S. Ng
Date
:
28 Feb 06 (Deposition) - 18 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Linear B Trisaccharide, Protein-Carbohydrate Complex, Bacterial Toxin, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Greco, J. G. Ho, S. J. Lin, M. M. Palcic, M. Rupnik, K. K. Ng
Carbohydrate Recognition By Clostridium Difficile Toxin A.
Nat. Struct. Mol. Biol. V. 13 460 2006
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Hetero Components
(4, 18)
Info
All Hetero Components
1a: BETA-D-GALACTOSE (GALa)
1b: BETA-D-GALACTOSE (GALb)
1c: BETA-D-GALACTOSE (GALc)
1d: BETA-D-GALACTOSE (GALd)
2a: ALPHA D-GALACTOSE (GLAa)
2b: ALPHA D-GALACTOSE (GLAb)
2c: ALPHA D-GALACTOSE (GLAc)
2d: ALPHA D-GALACTOSE (GLAd)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GAL
4
Ligand/Ion
BETA-D-GALACTOSE
2
GLA
4
Ligand/Ion
ALPHA D-GALACTOSE
3
GOL
6
Ligand/Ion
GLYCEROL
4
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(18, 18)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GAL A:2 , ASP A:92 , GLN A:99 , ALA A:100 , ILE A:101 , ARG A:102 , HOH A:693
BINDING SITE FOR RESIDUE GLA A 1
02
AC2
SOFTWARE
GLA A:1 , NAG A:3 , GLU A:84 , ILE A:101 , ARG A:102 , SER A:121 , LYS A:122 , HOH A:691 , HOH A:693
BINDING SITE FOR RESIDUE GAL A 2
03
AC3
SOFTWARE
GAL A:2 , GLN A:104 , ASN A:119 , ASN A:120 , SER A:121 , LYS A:122
BINDING SITE FOR RESIDUE NAG A 3
04
AC4
SOFTWARE
ASN A:153 , ASP A:183 , GLN A:190 , ALA A:191 , ILE A:192 , ARG A:193 , GAL A:264 , HOH A:599 , HOH A:600 , HOH A:643 , HOH A:646
BINDING SITE FOR RESIDUE GLA A 263
05
AC5
SOFTWARE
ASN A:155 , GLU A:175 , ILE A:192 , ARG A:193 , SER A:212 , LYS A:213 , GLA A:263 , NAG A:265 , HOH A:597 , HOH A:600 , HOH A:648
BINDING SITE FOR RESIDUE GAL A 264
06
AC6
SOFTWARE
GLN A:195 , ASN A:210 , ASN A:211 , SER A:212 , LYS A:213 , GAL A:264 , HOH A:593 , HOH A:597
BINDING SITE FOR RESIDUE NAG A 265
07
AC7
SOFTWARE
GAL B:2 , LYS B:62 , ASP B:92 , GLN B:99 , ALA B:100 , ILE B:101 , ARG B:102 , HOH B:595 , HOH B:597
BINDING SITE FOR RESIDUE GLA B 1
08
AC8
SOFTWARE
GLA B:1 , NAG B:3 , GLU B:84 , ILE B:101 , ARG B:102 , SER B:121 , LYS B:122 , HOH B:592 , HOH B:594 , HOH B:595 , HOH B:597 , HOH B:598
BINDING SITE FOR RESIDUE GAL B 2
09
AC9
SOFTWARE
GAL B:2 , GLN B:104 , ASN B:119 , ASN B:120 , SER B:121 , LYS B:122 , HOH B:594
BINDING SITE FOR RESIDUE NAG B 3
10
BC1
SOFTWARE
ARG A:133 , ASN B:153 , ARG B:193 , GAL B:264 , HOH B:571 , HOH B:573
BINDING SITE FOR RESIDUE GLA B 263
11
BC2
SOFTWARE
ASN B:155 , GLU B:175 , ILE B:192 , ARG B:193 , SER B:212 , LYS B:213 , GLA B:263 , NAG B:265 , HOH B:573 , HOH B:574 , HOH B:577
BINDING SITE FOR RESIDUE GAL B 264
12
BC3
SOFTWARE
ARG B:193 , GLN B:195 , ASN B:210 , ASN B:211 , SER B:212 , LYS B:213 , GAL B:264 , HOH B:574 , HOH B:712
BINDING SITE FOR RESIDUE NAG B 265
13
BC4
SOFTWARE
HIS A:200 , ILE A:205 , TYR A:226 , ASP A:253
BINDING SITE FOR RESIDUE GOL A 501
14
BC5
SOFTWARE
PHE B:198 , HIS B:200 , TYR B:226 , ASP B:253 , HOH B:672
BINDING SITE FOR RESIDUE GOL B 502
15
BC6
SOFTWARE
MET A:225 , TYR A:248 , LYS A:256 , HOH A:509 , TRP B:218 , THR B:220 , HOH B:535
BINDING SITE FOR RESIDUE GOL A 503
16
BC7
SOFTWARE
TRP A:35 , LYS A:42 , GLU A:97
BINDING SITE FOR RESIDUE GOL A 504
17
BC8
SOFTWARE
TYR A:148 , ILE A:150 , ASN A:155 , ASN A:172 , HOH A:596 , HOH A:597 , HOH A:602
BINDING SITE FOR RESIDUE GOL A 505
18
BC9
SOFTWARE
LYS B:42 , GLU B:97
BINDING SITE FOR RESIDUE GOL B 506
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 17)
Info
All PROSITE Patterns/Profiles
1: CW (-|-|-|-|-|-|-|-|-|-|-|-|-|-|-|-|-|...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CW
PS51170
Cell wall-binding repeat profile.
TOXA_CLODI
1810-1829
1851-1870
1872-1891
1923-1942
1943-1962
1964-1983
1985-2004
2006-2025
2057-2076
2077-2096
2098-2117
2119-2138
2140-2159
2191-2210
2211-2230
2232-2251
2252-2271
2305-2324
2325-2344
2346-2365
2367-2386
2388-2407
2439-2458
2459-2478
2480-2499
2501-2520
2572-2591
2552-2571
2593-2612
2663-2682
2643-2662
2685-2704
17
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
B:11-29
A:33-51
B:33-51
A:53-72
B:53-72
A:124-142
B:124-142
A:104-123
B:104-123
A:145-164
B:145-164
A:215-234
B:215-234
A:195-214
B:195-214
A:237-256
B:237-256
[
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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.
SCOP Domains
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein
Nucleic
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
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Example Commands
Example Command
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
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Show PDB file:
Asym.Unit (99 KB)
Header - Asym.Unit
Biol.Unit 1 (48 KB)
Header - Biol.Unit 1
Biol.Unit 2 (49 KB)
Header - Biol.Unit 2
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