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2WYS
Biol. Unit 1
Info
Asym.Unit (184 KB)
Biol.Unit 1 (89 KB)
Biol.Unit 2 (90 KB)
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(1)
Title
:
HIGH RESOLUTION CRYSTALLOGRAPHIC STRUCTURE OF THE CLOSTRIDIUM THERMOCELLUM N-TERMINAL ENDO-1,4-BETA-D-XYLANASE 10B (XYN10B) CBM22-1-GH10 MODULES COMPLEXED WITH XYLOHEXAOSE
Authors
:
S. Najmudin, B. A. Pinheiro, M. J. Romao, J. A. M. Prates, C. M. G. A. Font
Date
:
20 Nov 09 (Deposition) - 25 Aug 10 (Release) - 03 Nov 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hydrolase, Xylan Degradation, Cellulosome, Glycosidase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Najmudin, B. A. Pinheiro, J. A. M. Prates, H. J. Gilbert, M. J. Romao, C. M. G. A. Fontes
Putting An N-Terminal End To The Clostridium Thermocellum Xylanase Xyn10B Story: Crystal Structure Of The Cbm22-1-Gh10 Modules Complexed With Xylohexaose.
J. Struct. Biol. V. 172 353 2010
(for further references see the
PDB file header
)
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Hetero Components
(3, 13)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
4a: BETA-D-XYLOPYRANOSE (XYPa)
4b: BETA-D-XYLOPYRANOSE (XYPb)
4c: BETA-D-XYLOPYRANOSE (XYPc)
4d: BETA-D-XYLOPYRANOSE (XYPd)
4e: BETA-D-XYLOPYRANOSE (XYPe)
4f: BETA-D-XYLOPYRANOSE (XYPf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
MSE
9
Mod. Amino Acid
SELENOMETHIONINE
3
PO4
1
Ligand/Ion
PHOSPHATE ION
4
XYP
3
Ligand/Ion
BETA-D-XYLOPYRANOSE
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC5 (SOFTWARE)
5: AC6 (SOFTWARE)
6: AC7 (SOFTWARE)
7: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:43 , ASP A:46
BINDING SITE FOR RESIDUE CA A1552
2
AC2
SOFTWARE
ASP A:295
BINDING SITE FOR RESIDUE CA A1553
3
AC3
SOFTWARE
THR A:40 , GLU A:42 , THR A:68 , ARG A:69 , ASP A:173 , HOH A:2037
BINDING SITE FOR RESIDUE CA A1554
4
AC5
SOFTWARE
LYS A:237 , HIS A:276 , TRP A:280 , ASN A:336 , GLN A:426 , GLU A:460 , TRP A:504 , TRP A:512 , XYP A:1002
BINDING SITE FOR RESIDUE XYP A1001
5
AC6
SOFTWARE
GLU A:233 , ASN A:234 , LYS A:237 , GLN A:283 , TRP A:504 , TRP A:512 , XYP A:1001 , XYP A:1003 , HOH A:2150
BINDING SITE FOR RESIDUE XYP A1002
6
AC7
SOFTWARE
XYP A:1002 , HOH A:2151
BINDING SITE FOR RESIDUE XYP A1003
7
AC8
SOFTWARE
ASN A:430 , GLU A:466 , LYS A:469 , ASN B:430 , GLU B:466 , LYS B:469
BINDING SITE FOR RESIDUE PO4 A1555
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: GH10_2 (A:189-538)
2: GH10_1 (A:453-463)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GH10_2
PS51760
Glycosyl hydrolases family 10 (GH10) domain profile.
XYNY_CLOTM
189-538
1
A:189-538
-
2
GH10_1
PS00591
Glycosyl hydrolases family 10 (GH10) active site.
XYNY_CLOTM
453-463
1
A:453-463
-
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Exons
(0, 0)
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All Exons
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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
(0, 0)
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2wysA02 (A:191-551)
1b: CATH_2wysB02 (B:191-551)
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Classes
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Clostridium thermocellum. Organism_taxid: 1515. Strain: ys.
(3)
1a
2wysA02
A:191-551
1b
2wysB02
B:191-551
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_CBM_4_9_2wysB01 (B:35-168)
1b: PFAM_CBM_4_9_2wysB02 (B:35-168)
2a: PFAM_Glyco_hydro_10_2wysB03 (B:194-539)
2b: PFAM_Glyco_hydro_10_2wysB04 (B:194-539)
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Clans
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Organisms
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)
(
)
Clan
:
GBD
(153)
Family
:
CBM_4_9
(7)
Clostridium thermocellum
(3)
1a
CBM_4_9-2wysB01
B:35-168
1b
CBM_4_9-2wysB02
B:35-168
Clan
:
Glyco_hydro_tim
(488)
Family
:
Glyco_hydro_10
(42)
Clostridium thermocellum
(3)
2a
Glyco_hydro_10-2wysB03
B:194-539
2b
Glyco_hydro_10-2wysB04
B:194-539
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (184 KB)
Header - Asym.Unit
Biol.Unit 1 (89 KB)
Header - Biol.Unit 1
Biol.Unit 2 (90 KB)
Header - Biol.Unit 2
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