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1CQF
Asym. Unit
Info
Asym.Unit (68 KB)
Biol.Unit 1 (62 KB)
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(1)
Title
:
THE COMPLEX OF THE MUTATED SHIGA TOXIN B SUBUNIT AND GB3 TRISACCHARIDE
Authors
:
H. Ling, D. Bast, J. L. Brunton, R. J. Read
Date
:
06 Aug 99 (Deposition) - 07 Aug 00 (Release) - 01 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Keywords
:
Bacterial Toxin, Sugar Receptor Binding Domain, Protein- Carbohydrate Recognition, Ob-Fold
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Ling, D. Bast, J. L. Brunton, R. J. Read
The Complex Of The Mutated Shiga Toxin B Subunit And Gb3 Trisaccharide
To Be Published
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 18)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
1e: BETA-D-GLUCOSE (BGCe)
1f: BETA-D-GLUCOSE (BGCf)
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)
3a: ALPHA D-GALACTOSE (GLAa)
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)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
6
Ligand/Ion
BETA-D-GLUCOSE
2
GAL
6
Ligand/Ion
BETA-D-GALACTOSE
3
GLA
6
Ligand/Ion
ALPHA D-GALACTOSE
[
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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
ASN A:132 , ARG A:133 , TRP A:134 , ASN A:135 , GAL A:181 , HOH A:672 , ASP B:218 , TRP B:234
BINDING SITE FOR RESIDUE GLA A 180
02
AC2
SOFTWARE
TRP A:134 , GLA A:180 , BGC A:182 , HOH A:672
BINDING SITE FOR RESIDUE GAL A 181
03
AC3
SOFTWARE
GAL A:181 , HOH A:703
BINDING SITE FOR RESIDUE BGC A 182
04
AC4
SOFTWARE
ASN B:232 , ARG B:233 , TRP B:234 , ASN B:235 , GAL B:281 , ASP C:318 , TRP C:334 , LYS E:508
BINDING SITE FOR RESIDUE GLA B 280
05
AC5
SOFTWARE
TRP B:234 , GLA B:280 , BGC B:282 , BGC C:382
BINDING SITE FOR RESIDUE GAL B 281
06
AC6
SOFTWARE
GAL B:281 , BGC C:382
BINDING SITE FOR RESIDUE BGC B 282
07
AC7
SOFTWARE
LYS B:213 , ASN B:215 , THR B:221 , GLU B:228 , PHE B:230 , GLY B:260 , GAL B:271 , HOH B:610 , HOH B:639
BINDING SITE FOR RESIDUE GLA B 270
08
AC8
SOFTWARE
ASP B:217 , THR B:219 , PHE B:230 , GLY B:260 , GLA B:270 , BGC B:272 , HOH B:610
BINDING SITE FOR RESIDUE GAL B 271
09
AC9
SOFTWARE
LYS B:253 , GAL B:271 , HOH B:610 , HOH B:615 , HOH B:659
BINDING SITE FOR RESIDUE BGC B 272
10
BC1
SOFTWARE
ARG C:333 , TRP C:334 , ASN C:335 , GAL C:381 , HOH C:690 , TYR D:414 , ASP D:418
BINDING SITE FOR RESIDUE GLA C 380
11
BC2
SOFTWARE
TRP C:334 , GLA C:380 , BGC C:382 , HOH C:635 , HOH C:662 , HOH C:690
BINDING SITE FOR RESIDUE GAL C 381
12
BC3
SOFTWARE
GAL B:281 , BGC B:282 , GAL C:381 , BGC D:482 , THR E:546
BINDING SITE FOR RESIDUE BGC C 382
13
BC4
SOFTWARE
ASN D:432 , ARG D:433 , TRP D:434 , ASN D:435 , GAL D:481 , TYR E:514 , ASP E:518 , TRP E:534
BINDING SITE FOR RESIDUE GLA D 480
14
BC5
SOFTWARE
LYS A:108 , TRP D:434 , GLA D:480 , BGC D:482
BINDING SITE FOR RESIDUE GAL D 481
15
BC6
SOFTWARE
THR A:146 , BGC C:382 , GAL D:481 , HOH D:683
BINDING SITE FOR RESIDUE BGC D 482
16
BC7
SOFTWARE
TYR A:114 , ASP A:118 , ASN E:532 , ARG E:533 , TRP E:534 , ASN E:535 , GAL E:581
BINDING SITE FOR RESIDUE GLA E 580
17
BC8
SOFTWARE
TRP E:534 , GLA E:580 , BGC E:582
BINDING SITE FOR RESIDUE GAL E 581
18
BC9
SOFTWARE
HOH A:703 , GAL E:581 , HOH E:700
BINDING SITE FOR RESIDUE BGC E 582
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
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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
(1, 5)
Info
All SCOP Domains
1a: SCOP_d1cqfa_ (A:)
1b: SCOP_d1cqfb_ (B:)
1c: SCOP_d1cqfc_ (C:)
1d: SCOP_d1cqfd_ (D:)
1e: SCOP_d1cqfe_ (E:)
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(
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(
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(
)
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
d1cqfa_
A:
1b
d1cqfb_
B:
1c
d1cqfc_
C:
1d
d1cqfd_
D:
1e
d1cqfe_
E:
[
close SCOP info
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CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_1cqfA00 (A:101-169)
1b: CATH_1cqfB00 (B:201-269)
1c: CATH_1cqfC00 (C:301-369)
1d: CATH_1cqfD00 (D:401-469)
1e: CATH_1cqfE00 (E:501-569)
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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)
Escherichia coli. Organism_taxid: 562.
(6)
1a
1cqfA00
A:101-169
1b
1cqfB00
B:201-269
1c
1cqfC00
C:301-369
1d
1cqfD00
D:401-469
1e
1cqfE00
E:501-569
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain C
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Chain E
Asymmetric Unit 1
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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)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Asym.Unit (68 KB)
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