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1VBR
Asym. Unit
Info
Asym.Unit (127 KB)
Biol.Unit 1 (63 KB)
Biol.Unit 2 (63 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF COMPLEX XYLANASE 10B FROM THERMOTOGA MARITIMA WITH XYLOBIOSE
Authors
:
Ihsanawati, T. Kumasaka, T. Kaneko, S. Nakamura, N. Tanaka
Date
:
02 Mar 04 (Deposition) - 28 Jun 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Xylanase 10B, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Ihsanawati, T. Kumasaka, T. Kaneko, C. Morokuma, R. Yatsunami, T. Sato, S. Nakamura, N. Tanaka
Structural Basis Of The Substrate Subsite And The Highly Thermal Stability Of Xylanase 10B From Thermotoga Maritima Msb8
Proteins V. 61 999 2005
(for further references see the
PDB file header
)
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
1e: ACETIC ACID (ACYe)
1f: ACETIC ACID (ACYf)
2a: BETA-D-XYLOPYRANOSE (XYPa)
2b: BETA-D-XYLOPYRANOSE (XYPb)
3a: XYLOPYRANOSE (XYSa)
3b: XYLOPYRANOSE (XYSb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
6
Ligand/Ion
ACETIC ACID
2
XYP
2
Ligand/Ion
BETA-D-XYLOPYRANOSE
3
XYS
2
Ligand/Ion
XYLOPYRANOSE
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Sites
(10, 10)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
XYP A:2 , GLU A:561 , ASN A:562 , GLN A:605 , TRP A:794 , TRP A:802 , HOH A:1168 , HOH A:1171
BINDING SITE FOR RESIDUE XYS A 1
02
AC2
SOFTWARE
XYS A:1 , LYS A:565 , HIS A:598 , ASN A:646 , GLU A:647 , GLN A:722 , GLU A:753 , TRP A:794 , TRP A:802 , HOH A:984 , HOH A:1173
BINDING SITE FOR RESIDUE XYP A 2
03
AC3
SOFTWARE
XYP B:4 , GLU B:561 , ASN B:562 , GLN B:605 , TRP B:794 , TRP B:802
BINDING SITE FOR RESIDUE XYS B 3
04
AC4
SOFTWARE
ACY B:2 , XYS B:3 , LYS B:565 , HIS B:598 , ASN B:646 , GLU B:647 , GLN B:722 , GLU B:753 , TRP B:794 , TRP B:802
BINDING SITE FOR RESIDUE XYP B 4
05
AC5
SOFTWARE
ARG A:575 , ASN A:577 , HOH A:1087 , ARG B:575
BINDING SITE FOR RESIDUE ACY A 842
06
AC6
SOFTWARE
XYP B:4 , TYR B:690
BINDING SITE FOR RESIDUE ACY B 2
07
AC7
SOFTWARE
LYS A:744 , HOH A:1165 , GLY B:608
BINDING SITE FOR RESIDUE ACY A 3
08
AC8
SOFTWARE
HOH A:1108 , HOH B:875 , HOH B:876
BINDING SITE FOR RESIDUE ACY B 842
09
AC9
SOFTWARE
HOH A:1083 , ARG B:736 , LYS B:777 , HOH B:990
BINDING SITE FOR RESIDUE ACY A 5
10
BC1
SOFTWARE
SER A:542 , LYS A:799 , HOH A:963 , LYS B:712
BINDING SITE FOR RESIDUE ACY A 6
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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;
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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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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1vbrb_ (B:)
2a: SCOP_d1vbra1 (A:517-840)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
automated matches
(180)
Protein domain
:
automated matches
(180)
Thermotoga maritima [TaxId: 2336]
(4)
1a
d1vbrb_
B:
Family
:
beta-glycanases
(284)
Protein domain
:
Xylanase
(19)
Thermotoga maritima [TaxId: 2336]
(1)
2a
d1vbra1
A:517-840
[
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]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1vbrA00 (A:517-840)
1b: CATH_1vbrB00 (B:517-840)
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)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Thermotoga maritima. Organism_taxid: 2336.
(28)
1a
1vbrA00
A:517-840
1b
1vbrB00
B:517-840
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_10_1vbrB01 (B:518-833)
1b: PFAM_Glyco_hydro_10_1vbrB02 (B:518-833)
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Clan
:
Glyco_hydro_tim
(488)
Family
:
Glyco_hydro_10
(42)
Thermotoga maritima
(2)
1a
Glyco_hydro_10-1vbrB01
B:518-833
1b
Glyco_hydro_10-1vbrB02
B:518-833
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Asym.Unit (127 KB)
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