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3EFX
Biol. Unit 1
Info
Asym.Unit (191 KB)
Biol.Unit 1 (95 KB)
Biol.Unit 2 (92 KB)
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(1)
Title
:
NOVEL BINDING SITE IDENTIFIED IN A HYBRID BETWEEN CHOLERA TOXIN AND HEAT-LABILE ENTEROTOXIN, 1.9A CRYSTAL STRUCTURE REVEALS THE DETAILS
Authors
:
A. Holmner, M. Lebens, S. Teneberg, J. Angstrom, M. Okvist, U. Krengel
Date
:
10 Sep 08 (Deposition) - 23 Sep 08 (Release) - 02 Sep 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.94
Chains
:
Asym. Unit : D,E,F,G,H,I,J,K,L,M
Biol. Unit 1: D,E,F,G,H (1x)
Biol. Unit 2: I,J,K,L,M (1x)
Keywords
:
Protein-Carbohydrate Complex, Cholera Toxin, Heat-Labile Enterotoxin, Blood Group Antigen, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Holmner, M. Lebens, S. Teneberg, J. Angstrom, M. Okvist, U. Krengel
Novel Binding Site Identified In A Hybrid Between Cholera Toxin And Heat-Labile Enterotoxin: 1. 9 A Crystal Structure Reveals The Details
Structure V. 12 1655 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(4, 25)
Info
All Hetero Components
1a: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ga)
1b: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gb)
1c: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gc)
1d: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gd)
1e: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ge)
1f: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gf)
1g: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gg)
1h: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gh)
1i: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gi)
1j: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gj)
2a: BETA-D-GLUCOSE (BGCa)
2b: BETA-D-GLUCOSE (BGCb)
2c: BETA-D-GLUCOSE (BGCc)
2d: BETA-D-GLUCOSE (BGCd)
2e: BETA-D-GLUCOSE (BGCe)
2f: BETA-D-GLUCOSE (BGCf)
2g: BETA-D-GLUCOSE (BGCg)
2h: BETA-D-GLUCOSE (BGCh)
2i: BETA-D-GLUCOSE (BGCi)
2j: BETA-D-GLUCOSE (BGCj)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
3d: ALPHA-L-FUCOSE (FUCd)
3e: ALPHA-L-FUCOSE (FUCe)
3f: ALPHA-L-FUCOSE (FUCf)
3g: ALPHA-L-FUCOSE (FUCg)
3h: ALPHA-L-FUCOSE (FUCh)
3i: ALPHA-L-FUCOSE (FUCi)
3j: ALPHA-L-FUCOSE (FUCj)
3k: ALPHA-L-FUCOSE (FUCk)
3l: ALPHA-L-FUCOSE (FUCl)
3m: ALPHA-L-FUCOSE (FUCm)
3n: ALPHA-L-FUCOSE (FUCn)
3o: ALPHA-L-FUCOSE (FUCo)
3p: ALPHA-L-FUCOSE (FUCp)
3q: ALPHA-L-FUCOSE (FUCq)
3r: ALPHA-L-FUCOSE (FUCr)
3s: ALPHA-L-FUCOSE (FUCs)
3t: ALPHA-L-FUCOSE (FUCt)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
4c: BETA-D-GALACTOSE (GALc)
4d: BETA-D-GALACTOSE (GALd)
4e: BETA-D-GALACTOSE (GALe)
4f: BETA-D-GALACTOSE (GALf)
4g: BETA-D-GALACTOSE (GALg)
4h: BETA-D-GALACTOSE (GALh)
4i: BETA-D-GALACTOSE (GALi)
4j: BETA-D-GALACTOSE (GALj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
A2G
5
Ligand/Ion
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2
BGC
5
Ligand/Ion
BETA-D-GLUCOSE
3
FUC
10
Ligand/Ion
ALPHA-L-FUCOSE
4
GAL
5
Ligand/Ion
BETA-D-GALACTOSE
[
close Hetero Component info
]
Sites
(32, 32)
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)
28: DC1 (SOFTWARE)
29: DC3 (SOFTWARE)
30: DC5 (SOFTWARE)
31: DC6 (SOFTWARE)
32: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR D:18 , GAL D:202 , FUC D:203 , FUC D:205 , HOH D:228 , HOH D:301
BINDING SITE FOR RESIDUE BGC D 204
02
AC2
SOFTWARE
GLY D:45 , A2G D:201 , FUC D:203 , BGC D:204 , FUC D:205
BINDING SITE FOR RESIDUE GAL D 202
03
AC3
SOFTWARE
GLY D:45 , THR D:47 , GAL D:202 , FUC D:203 , HOH D:290 , GLN H:3 , HOH H:361 , HOH H:387
BINDING SITE FOR RESIDUE A2G D 201
04
AC4
SOFTWARE
TYR D:18 , ALA D:46 , THR D:47 , PHE D:48 , THR D:92 , PRO D:93 , ASN D:94 , A2G D:201 , GAL D:202 , BGC D:204 , HOH D:265 , HOH D:299 , GLN H:3
BINDING SITE FOR RESIDUE FUC D 203
05
AC5
SOFTWARE
ASN D:44 , ALA D:46 , GAL D:202 , BGC D:204 , HOH D:283 , HOH D:301
BINDING SITE FOR RESIDUE FUC D 205
06
AC6
SOFTWARE
TYR E:18 , GAL E:202 , FUC E:203 , FUC E:205 , HOH E:247 , THR I:19 , LYS I:84
BINDING SITE FOR RESIDUE BGC E 204
07
AC7
SOFTWARE
GLY E:45 , A2G E:201 , FUC E:203 , BGC E:204 , FUC E:205 , HOH E:243 , HOH E:252
BINDING SITE FOR RESIDUE GAL E 202
08
AC8
SOFTWARE
GLN D:3 , HOH D:230 , HOH D:271 , GLY E:45 , THR E:47 , GAL E:202 , FUC E:203 , HOH E:242 , HOH E:292
BINDING SITE FOR RESIDUE A2G E 201
09
AC9
SOFTWARE
GLN D:3 , TYR E:18 , ALA E:46 , THR E:47 , PHE E:48 , THR E:92 , PRO E:93 , ASN E:94 , A2G E:201 , GAL E:202 , BGC E:204 , HOH E:258 , HOH E:297
BINDING SITE FOR RESIDUE FUC E 203
10
BC1
SOFTWARE
ASN E:44 , GLY E:45 , ALA E:46 , GAL E:202 , BGC E:204 , HOH E:228 , HOH E:231 , HOH E:249 , HOH E:305 , ILE I:17
BINDING SITE FOR RESIDUE FUC E 205
11
BC2
SOFTWARE
TYR F:18 , GAL F:202 , FUC F:203 , FUC F:205 , HOH F:260 , A2G I:201 , ASN M:4
BINDING SITE FOR RESIDUE BGC F 204
12
BC3
SOFTWARE
GLY F:45 , A2G F:201 , FUC F:203 , BGC F:204 , FUC F:205
BINDING SITE FOR RESIDUE GAL F 202
13
BC4
SOFTWARE
GLN E:3 , HOH E:267 , GLY F:45 , THR F:47 , GAL F:202 , HOH F:226 , FUC J:205
BINDING SITE FOR RESIDUE A2G F 201
14
BC5
SOFTWARE
GLN E:3 , TYR F:18 , THR F:47 , PHE F:48 , THR F:92 , PRO F:93 , ASN F:94 , GAL F:202 , BGC F:204 , HOH F:250 , HOH F:270
BINDING SITE FOR RESIDUE FUC F 203
15
BC6
SOFTWARE
ASN F:44 , ALA F:46 , GAL F:202 , BGC F:204 , HOH F:252 , ASN M:4 , GLU M:7
BINDING SITE FOR RESIDUE FUC F 205
16
BC7
SOFTWARE
THR D:19 , LYS D:84 , HOH D:257 , TYR G:18 , GAL G:202 , FUC G:203 , FUC G:205 , HOH G:217 , HOH G:227 , HOH G:249 , HOH G:304 , HOH G:309
BINDING SITE FOR RESIDUE BGC G 204
17
BC8
SOFTWARE
GLY G:45 , A2G G:201 , FUC G:203 , BGC G:204 , FUC G:205 , HOH G:309 , HOH G:310
BINDING SITE FOR RESIDUE GAL G 202
18
BC9
SOFTWARE
GLN F:3 , HOH F:213 , GLY G:45 , ALA G:46 , THR G:47 , GAL G:202 , FUC G:203 , HOH G:242 , HOH G:279 , HOH G:285
BINDING SITE FOR RESIDUE A2G G 201
19
CC1
SOFTWARE
GLN F:3 , TYR G:18 , THR G:47 , PHE G:48 , THR G:92 , PRO G:93 , ASN G:94 , A2G G:201 , GAL G:202 , BGC G:204 , HOH G:239 , HOH G:242
BINDING SITE FOR RESIDUE FUC G 203
20
CC2
SOFTWARE
TYR G:18 , ASN G:44 , ALA G:46 , GAL G:202 , BGC G:204 , HOH G:237
BINDING SITE FOR RESIDUE FUC G 205
21
CC3
SOFTWARE
ASN H:14 , TYR H:18 , GAL H:202 , FUC H:203 , FUC H:205 , HOH H:321 , HOH H:323 , HOH H:348
BINDING SITE FOR RESIDUE BGC H 204
22
CC4
SOFTWARE
GLY H:45 , A2G H:201 , FUC H:203 , BGC H:204 , FUC H:205
BINDING SITE FOR RESIDUE GAL H 202
23
CC5
SOFTWARE
HIS E:13 , GLN G:3 , HOH G:233 , HOH G:246 , GLY H:45 , THR H:47 , GAL H:202 , HOH H:326 , HOH H:358 , HOH H:373 , HOH H:403
BINDING SITE FOR RESIDUE A2G H 201
24
CC6
SOFTWARE
GLN G:3 , TYR H:18 , THR H:47 , PHE H:48 , THR H:92 , PRO H:93 , ASN H:94 , GAL H:202 , BGC H:204 , HOH H:321 , HOH H:326
BINDING SITE FOR RESIDUE FUC H 203
25
CC7
SOFTWARE
ASN E:14 , ASN E:90 , TYR H:18 , ASN H:44 , ALA H:46 , GAL H:202 , BGC H:204
BINDING SITE FOR RESIDUE FUC H 205
26
CC8
SOFTWARE
HOH F:232 , HOH F:239 , TYR I:18 , GAL I:202 , FUC I:203 , FUC I:205 , HOH I:235 , HOH I:241 , HOH I:251
BINDING SITE FOR RESIDUE BGC I 204
27
CC9
SOFTWARE
GLN F:16 , ILE F:17 , GLY I:45 , A2G I:201 , FUC I:203 , BGC I:204 , FUC I:205 , HOH I:240 , HOH I:262
BINDING SITE FOR RESIDUE GAL I 202
28
DC1
SOFTWARE
GLN F:16 , ILE F:17 , TYR F:18 , THR F:19 , BGC F:204 , HOH F:215 , THR I:41 , GLY I:45 , ALA I:46 , THR I:47 , GAL I:202 , HOH I:235 , HOH I:255 , GLN M:3 , HOH M:228
BINDING SITE FOR RESIDUE A2G I 201
29
DC3
SOFTWARE
THR F:6 , SER F:10 , HOH F:246 , TYR I:18 , ASN I:44 , ALA I:46 , GAL I:202 , BGC I:204 , HOH I:258
BINDING SITE FOR RESIDUE FUC I 205
30
DC5
SOFTWARE
ASN E:4 , HOH E:213 , GLY J:45 , A2G J:201 , FUC J:203 , BGC J:204 , FUC J:205 , HOH J:267
BINDING SITE FOR RESIDUE GAL J 202
31
DC6
SOFTWARE
LYS E:84 , HOH E:234 , GLN I:3 , GLY J:45 , THR J:47 , GAL J:202 , FUC J:203 , HOH J:225 , HOH J:236 , HOH J:243
BINDING SITE FOR RESIDUE A2G J 201
32
DC8
SOFTWARE
A2G F:201 , ASN J:44 , ALA J:46 , GAL J:202 , BGC J:204 , HOH J:214 , HOH J:262
BINDING SITE FOR RESIDUE FUC J 205
[
close Site info
]
SAPs(SNPs)/Variants
(2, 10)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_ELBH_ECOLX_001 (H13R, chain D/E/F/G/H, )
2: VAR_ELBH_ECOLX_002 (A75A, chain D/E/F/G/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_ELBH_ECOLX_001
*
H
34
R
ELBH_ECOLX
---
---
D/E/F/G/H
H
13
R
2
UniProt
VAR_ELBH_ECOLX_002
*
T
96
A
ELBH_ECOLX
---
---
D/E/F/G/H
A
75
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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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
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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
(2, 10)
Info
All SCOP Domains
1a: SCOP_d3efxe_ (E:)
1b: SCOP_d3efxf_ (F:)
1c: SCOP_d3efxg_ (G:)
1d: SCOP_d3efxh_ (H:)
1e: SCOP_d3efxi_ (I:)
1f: SCOP_d3efxj_ (J:)
1g: SCOP_d3efxk_ (K:)
1h: SCOP_d3efxl_ (L:)
1i: SCOP_d3efxm_ (M:)
2a: SCOP_d3efxd1 (D:1-102)
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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
:
automated matches
(9)
Vibrio cholerae [TaxId: 37965]
(1)
1a
d3efxe_
E:
1b
d3efxf_
F:
1c
d3efxg_
G:
1d
d3efxh_
H:
1e
d3efxi_
I:
1f
d3efxj_
J:
1g
d3efxk_
K:
1h
d3efxl_
L:
1i
d3efxm_
M:
Protein domain
:
Cholera toxin
(24)
Vibrio cholerae [TaxId: 666]
(24)
2a
d3efxd1
D:1-102
[
close SCOP info
]
CATH Domains
(1, 10)
Info
all CATH domains
1a: CATH_3efxF00 (F:1-102)
1b: CATH_3efxG00 (G:1-102)
1c: CATH_3efxI00 (I:1-102)
1d: CATH_3efxJ00 (J:1-102)
1e: CATH_3efxD00 (D:1-102)
1f: CATH_3efxE00 (E:1-102)
1g: CATH_3efxK00 (K:1-102)
1h: CATH_3efxL00 (L:1-102)
1i: CATH_3efxH00 (H:1-102)
1j: CATH_3efxM00 (M:1-102)
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Topologies
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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=2.40.50.110, no name defined]
(136)
Vibrio cholerae, escherichia coli. Organism_taxid: 37965. Strain: js1569(vibrio cholerae).
(1)
1a
3efxF00
F:1-102
1b
3efxG00
G:1-102
1c
3efxI00
I:1-102
1d
3efxJ00
J:1-102
1e
3efxD00
D:1-102
1f
3efxE00
E:1-102
1g
3efxK00
K:1-102
1h
3efxL00
L:1-102
1i
3efxH00
H:1-102
1j
3efxM00
M:1-102
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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