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2BS9
Asym. Unit
Info
Asym.Unit (685 KB)
Biol.Unit 1 (345 KB)
Biol.Unit 2 (343 KB)
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(1)
Title
:
NATIVE CRYSTAL STRUCTURE OF A GH39 BETA-XYLOSIDASE XYNB1 FROM GEOBACILLUS STEAROTHERMOPHILUS
Authors
:
M. Czjzek, T. Bravman, B. Henrissat, Y. Shoham
Date
:
19 May 05 (Deposition) - 12 Oct 05 (Release) - 14 Nov 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Hydrolase, Beta-Xylosidase, Complex Of The Covalent Intermediate, Enzyme-Substrate Complex, Family Gh39, Thermophilic Enzyme
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Czjzek, A. B. David, T. Bravman, G. Shoham, B. Henrissat, Y. Shoham
Enzyme-Substrate Complex Structures Of A Gh39 Beta- Xylosidase From Geobacillus Stearothermophilus.
J. Mol. Biol. V. 353 838 2005
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 7)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CA
7
Ligand/Ion
CALCIUM ION
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:26 , TRP A:117 , GLU A:323 , GLU A:324
BINDING SITE FOR RESIDUE CA A1503
2
AC2
SOFTWARE
ARG C:26 , TRP C:117 , GLU C:323 , GLU C:324
BINDING SITE FOR RESIDUE CA C1503
3
AC3
SOFTWARE
ARG D:26 , TRP D:117 , GLU D:323 , HOH D:2119
BINDING SITE FOR RESIDUE CA D1503
4
AC4
SOFTWARE
ARG E:26 , LEU E:29 , TRP E:117 , GLU E:323 , GLU E:324
BINDING SITE FOR RESIDUE CA E1503
5
AC5
SOFTWARE
ARG F:26 , TRP F:117 , GLU F:323 , GLU F:324
BINDING SITE FOR RESIDUE CA F1503
6
AC6
SOFTWARE
ARG G:26 , TRP G:117 , GLU G:323 , GLU G:324
BINDING SITE FOR RESIDUE CA G1503
7
AC7
SOFTWARE
ARG H:26 , TRP H:117 , GLU H:323
BINDING SITE FOR RESIDUE CA H1503
[
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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
(1, 8)
Info
All PROSITE Patterns/Profiles
1: GLYCOSYL_HYDROL_F39 (A:153-162,B:153-162,C:153-162,D:15...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLYCOSYL_HYDROL_F39
PS01027
Glycosyl hydrolases family 39 active site.
XYNB_GEOSE
153-162
8
A:153-162
B:153-162
C:153-162
D:153-162
E:153-162
F:153-162
G:153-162
H:153-162
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Exons
(0, 0)
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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, 16)
Info
All SCOP Domains
1a: SCOP_d2bs9a1 (A:4-13,A:361-502)
1b: SCOP_d2bs9c1 (C:2-13,C:361-502)
1c: SCOP_d2bs9d1 (D:2-13,D:361-502)
1d: SCOP_d2bs9e1 (E:2-13,E:361-502)
1e: SCOP_d2bs9f1 (F:2-13,F:361-502)
1f: SCOP_d2bs9g1 (G:2-13,G:361-502)
1g: SCOP_d2bs9h1 (H:2-13,H:361-502)
1h: SCOP_d2bs9b1 (B:2-13,B:361-502)
2a: SCOP_d2bs9a2 (A:14-360)
2b: SCOP_d2bs9c2 (C:14-360)
2c: SCOP_d2bs9d2 (D:14-360)
2d: SCOP_d2bs9e2 (E:14-360)
2e: SCOP_d2bs9f2 (F:14-360)
2f: SCOP_d2bs9g2 (G:14-360)
2g: SCOP_d2bs9h2 (H:14-360)
2h: SCOP_d2bs9b2 (B:14-360)
View:
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Classes
(
)
(
)
Folds
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(
)
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
Composite domain of glycosyl hydrolase families 5, 30, 39 and 51
(30)
Protein domain
:
Beta-D-xylosidase
(5)
Bacillus stearothermophilus [TaxId: 1422]
(3)
1a
d2bs9a1
A:4-13,A:361-502
1b
d2bs9c1
C:2-13,C:361-502
1c
d2bs9d1
D:2-13,D:361-502
1d
d2bs9e1
E:2-13,E:361-502
1e
d2bs9f1
F:2-13,F:361-502
1f
d2bs9g1
G:2-13,G:361-502
1g
d2bs9h1
H:2-13,H:361-502
1h
d2bs9b1
B:2-13,B:361-502
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
beta-glycanases
(284)
Protein domain
:
Beta-D-xylosidase, catalytic domain
(5)
Bacillus stearothermophilus [TaxId: 1422]
(3)
2a
d2bs9a2
A:14-360
2b
d2bs9c2
C:14-360
2c
d2bs9d2
D:14-360
2d
d2bs9e2
E:14-360
2e
d2bs9f2
F:14-360
2f
d2bs9g2
G:14-360
2g
d2bs9h2
H:14-360
2h
d2bs9b2
B:14-360
[
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CATH Domains
(2, 16)
Info
all CATH domains
1a: CATH_2bs9A02 (A:15-359)
1b: CATH_2bs9B02 (B:15-359)
1c: CATH_2bs9C02 (C:15-359)
1d: CATH_2bs9D02 (D:15-359)
1e: CATH_2bs9E02 (E:15-359)
1f: CATH_2bs9F02 (F:15-359)
1g: CATH_2bs9G02 (G:15-359)
1h: CATH_2bs9H02 (H:15-359)
2a: CATH_2bs9A01 (A:2-14,A:360-482)
2b: CATH_2bs9B01 (B:2-14,B:360-482)
2c: CATH_2bs9C01 (C:2-14,C:360-482)
2d: CATH_2bs9D01 (D:2-14,D:360-482)
2e: CATH_2bs9E01 (E:2-14,E:360-482)
2f: CATH_2bs9F01 (F:2-14,F:360-482)
2g: CATH_2bs9G01 (G:2-14,G:360-482)
2h: CATH_2bs9H01 (H:2-14,H:360-482)
View:
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Bacillus stearothermophilus. Organism_taxid: 1422. Strain: t-6.
(2)
1a
2bs9A02
A:15-359
1b
2bs9B02
B:15-359
1c
2bs9C02
C:15-359
1d
2bs9D02
D:15-359
1e
2bs9E02
E:15-359
1f
2bs9F02
F:15-359
1g
2bs9G02
G:15-359
1h
2bs9H02
H:15-359
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Glycosyl hydrolase domain; family 39
(5)
Bacillus stearothermophilus. Organism_taxid: 1422. Strain: t-6.
(2)
2a
2bs9A01
A:2-14,A:360-482
2b
2bs9B01
B:2-14,B:360-482
2c
2bs9C01
C:2-14,C:360-482
2d
2bs9D01
D:2-14,D:360-482
2e
2bs9E01
E:2-14,E:360-482
2f
2bs9F01
F:2-14,F:360-482
2g
2bs9G01
G:2-14,G:360-482
2h
2bs9H01
H:2-14,H:360-482
[
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Pfam Domains
(0, 0)
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Asym.Unit (685 KB)
Header - Asym.Unit
Biol.Unit 1 (345 KB)
Header - Biol.Unit 1
Biol.Unit 2 (343 KB)
Header - Biol.Unit 2
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