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Asym. Unit
Info
Asym.Unit (215 KB)
Biol.Unit 1 (207 KB)
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(1)
Title
:
THE X-RAY CRYSTAL STRUCTURE OF CEL9G FROM CLOSTRIDIUM CELLULOLYTICUM COMPLEXED WITH A THIO-OLIGOSACCHARIDE INHIBITOR
Authors
:
D. Mandelman, A. Belaich, J. -P. Belaich, H. Driguez, R. Haser
Date
:
20 Nov 01 (Deposition) - 15 Jul 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Endoglucanase, Family 9, Thio-Oligosaccharide, Cellulose Binding Domain, (Alpha-Alpha)6-Barrel, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Mandelman, A. Belaich, J. -P. Belaich, N. Aghajari, H. Driguez, R. Haser
The X-Ray Crystal Structure Of The Multidomain Endoglucanas Cel9G From Clostridium Cellulolyticum Complexed With Natura And Synthetic Cello-Olligosaccharides
J. Bacteriol. V. 185 4127 2003
[
close entry info
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Hetero Components
(8, 23)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
4a: 1-THIO-BETA-D-GLUCOPYRANOSE (GS1a)
4b: 1-THIO-BETA-D-GLUCOPYRANOSE (GS1b)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
5e: MAGNESIUM ION (MGe)
6a: NICKEL (II) ION (NIa)
7a: 4-DEOXY-4-THIO-BETA-D-GLUCOPYRANOS... (SGCa)
7b: 4-DEOXY-4-THIO-BETA-D-GLUCOPYRANOS... (SGCb)
7c: 4-DEOXY-4-THIO-BETA-D-GLUCOPYRANOS... (SGCc)
7d: 4-DEOXY-4-THIO-BETA-D-GLUCOPYRANOS... (SGCd)
8a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
CA
4
Ligand/Ion
CALCIUM ION
3
GOL
4
Ligand/Ion
GLYCEROL
4
GS1
2
Ligand/Ion
1-THIO-BETA-D-GLUCOPYRANOSE
5
MG
5
Ligand/Ion
MAGNESIUM ION
6
NI
1
Ligand/Ion
NICKEL (II) ION
7
SGC
4
Ligand/Ion
4-DEOXY-4-THIO-BETA-D-GLUCOPYRANOSE
8
TRS
1
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
[
close Hetero Component info
]
Sites
(23, 23)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:208 , TRP A:254 , ASP A:259 , ASP A:260 , BGC A:616 , HOH A:9087 , LYS B:123 , GLU B:137
BINDING SITE FOR RESIDUE SGC A 615
02
AC2
SOFTWARE
TRP A:254 , CYS A:257 , ASP A:259 , SGC A:615 , SGC A:617 , TRS A:5013
BINDING SITE FOR RESIDUE BGC A 616
03
AC3
SOFTWARE
TYR A:204 , TRP A:258 , PHE A:309 , TRP A:311 , ARG A:315 , BGC A:616 , GS1 A:618 , TRS A:5013 , HOH A:9034
BINDING SITE FOR RESIDUE SGC A 617
04
AC4
SOFTWARE
HIS A:125 , TYR A:204 , TYR A:205 , GLU A:420 , TYR A:425 , SGC A:617 , HOH A:9034 , HOH A:9052 , HOH A:9213
BINDING SITE FOR RESIDUE GS1 A 618
05
AC5
SOFTWARE
ASP A:500 , GLU A:503 , ASN A:578 , ASN A:581 , ASP A:582 , HOH A:9071
BINDING SITE FOR RESIDUE CA A 9015
06
AC6
SOFTWARE
SER A:209 , ASP A:212 , ASP A:213 , ASP A:259 , HOH A:9023 , HOH A:9030
BINDING SITE FOR RESIDUE CA A 9017
07
AC7
SOFTWARE
HIS A:371
BINDING SITE FOR RESIDUE MG A 9019
08
AC8
SOFTWARE
ASP A:500 , HOH A:9155 , HOH A:9190 , HOH A:9326 , HOH A:9328
BINDING SITE FOR RESIDUE MG A 9020
09
AC9
SOFTWARE
ASP A:24 , HOH A:9108 , HOH A:9331 , HOH A:9332 , HOH A:9333
BINDING SITE FOR RESIDUE MG A 9022
10
BC1
SOFTWARE
GLY A:203 , TYR A:204 , TYR A:205 , SER A:206 , TRP A:258 , BGC A:616 , SGC A:617 , HOH A:9049 , SER B:126 , HOH B:9056
BINDING SITE FOR RESIDUE TRS A 5013
11
BC2
SOFTWARE
HIS A:371 , THR A:386 , THR A:389 , GLU A:412 , ILE A:413 , HOH A:9225 , SER B:336
BINDING SITE FOR RESIDUE GOL A 5010
12
BC3
SOFTWARE
ASP A:195 , TYR A:198 , SER A:206 , SER A:207 , HOH A:9066 , HIS B:125
BINDING SITE FOR RESIDUE GOL A 5011
13
BC4
SOFTWARE
TRP B:254 , ASP B:259 , ASP B:260 , BGC B:616 , HOH B:9095
BINDING SITE FOR RESIDUE SGC B 615
14
BC5
SOFTWARE
TRP B:254 , CYS B:257 , ASP B:259 , SGC B:615 , SGC B:617
BINDING SITE FOR RESIDUE BGC B 616
15
BC6
SOFTWARE
TYR B:204 , TRP B:258 , ARG B:315 , BGC B:616 , GS1 B:618 , HOH B:9055
BINDING SITE FOR RESIDUE SGC B 617
16
BC7
SOFTWARE
HIS B:125 , TYR B:204 , TYR B:205 , TYR B:425 , SGC B:617 , HOH B:9055 , HOH B:9080 , HOH B:9158 , HOH B:9182
BINDING SITE FOR RESIDUE GS1 B 618
17
BC8
SOFTWARE
ASP B:500 , GLU B:503 , ASN B:578 , ASN B:581 , ASP B:582 , HOH B:9101
BINDING SITE FOR RESIDUE CA B 9014
18
BC9
SOFTWARE
SER B:209 , ASP B:212 , ASP B:213 , ASP B:259 , HOH B:9024 , HOH B:9040
BINDING SITE FOR RESIDUE CA B 9016
19
CC1
SOFTWARE
HIS B:371 , HOH B:9141 , HOH B:9151 , HOH B:9173 , HOH B:9340 , HOH B:9356
BINDING SITE FOR RESIDUE NI B 9018
20
CC2
SOFTWARE
ASP B:24 , HOH B:9136 , HOH B:9139 , HOH B:9365 , HOH B:9373 , HOH B:9374
BINDING SITE FOR RESIDUE MG B 9021
21
CC3
SOFTWARE
GLU B:79 , HOH B:9163 , HOH B:9168 , HOH B:9236
BINDING SITE FOR RESIDUE MG B 9023
22
CC4
SOFTWARE
THR A:334 , SER A:336 , HOH A:9068 , HIS B:371 , THR B:389 , GLU B:412 , ILE B:413 , HOH B:9029 , HOH B:9151 , HOH B:9357
BINDING SITE FOR RESIDUE GOL B 5009
23
CC5
SOFTWARE
LYS B:193 , TYR B:211 , SER B:236 , ASN B:240 , THR B:575 , TYR B:576 , TRP B:577 , HOH B:9067 , HOH B:9109
BINDING SITE FOR RESIDUE GOL B 5012
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: GLYCOSYL_HYDROL_F9_1 (A:359-375,B:359-375)
2: GLYCOSYL_HYDROL_F9_2 (A:409-427,B:409-427)
3: CBM3 (A:454-614,B:454-614)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLYCOSYL_HYDROL_F9_1
PS00592
Glycosyl hydrolases family 9 active sites signature 1.
GUNG_CLOCE
394-410
2
A:359-375
B:359-375
2
GLYCOSYL_HYDROL_F9_2
PS00698
Glycosyl hydrolases family 9 active sites signature 2.
GUNG_CLOCE
444-462
2
A:409-427
B:409-427
3
CBM3
PS51172
CBM3 (carbohydrate binding type-3) domain profile.
GUNG_CLOCE
489-650
2
A:454-614
B:454-614
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1kfga1 (A:3-456)
1b: SCOP_d1kfgb1 (B:2-456)
2a: SCOP_d1kfga2 (A:457-614)
2b: SCOP_d1kfgb2 (B:457-614)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha/alpha toroid
(324)
Superfamily
:
Six-hairpin glycosidases
(109)
Family
:
Cellulases catalytic domain
(51)
Protein domain
:
Endo/exocellulase:cellobiose E-4, N-terminal domain
(8)
Clostridium cellulolyticum, atcc 35319 [TaxId: 1521]
(4)
1a
d1kfga1
A:3-456
1b
d1kfgb1
B:2-456
Class
:
All beta proteins
(24004)
Fold
:
Common fold of diphtheria toxin/transcription factors/cytochrome f
(364)
Superfamily
:
Carbohydrate-binding domain
(66)
Family
:
Cellulose-binding domain family III
(37)
Protein domain
:
Endo/exocellulase:cellobiose E-4, C-terminal domain
(8)
Clostridium cellulolyticum, atcc 35319 [TaxId: 1521]
(4)
2a
d1kfga2
A:457-614
2b
d1kfgb2
B:457-614
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1kfgA01 (A:3-450)
1b: CATH_1kfgB01 (B:2-450)
2a: CATH_1kfgA02 (A:454-613)
2b: CATH_1kfgB02 (B:454-613)
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Homologous Superfamilies
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)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha/alpha barrel
(251)
Topology
:
Glycosyltransferase
(233)
Homologous Superfamily
:
[code=1.50.10.10, no name defined]
(67)
Clostridium cellulolyticum. Organism_taxid: 1521.
(6)
1a
1kfgA01
A:3-450
1b
1kfgB01
B:2-450
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
[code=2.60.40.710, no name defined]
(10)
Clostridium cellulolyticum. Organism_taxid: 1521.
(4)
2a
1kfgA02
A:454-613
2b
1kfgB02
B:454-613
[
close CATH info
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_9_1kfgB01 (B:5-434)
1b: PFAM_Glyco_hydro_9_1kfgB02 (B:5-434)
2a: PFAM_CBM_3_1kfgB03 (B:459-546)
2b: PFAM_CBM_3_1kfgB04 (B:459-546)
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Clans
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Families
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(
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Organisms
(
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(
)
Clan
:
6_Hairpin
(120)
Family
:
Glyco_hydro_9
(11)
Clostridium cellulolyticum (strain ATCC 35319 / DSM 5812 / JCM 6584 / H10)
(2)
1a
Glyco_hydro_9-1kfgB01
B:5-434
1b
Glyco_hydro_9-1kfgB02
B:5-434
Clan
:
CBD
(21)
Family
:
CBM_3
(10)
Clostridium cellulolyticum (strain ATCC 35319 / DSM 5812 / JCM 6584 / H10)
(2)
2a
CBM_3-1kfgB03
B:459-546
2b
CBM_3-1kfgB04
B:459-546
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