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2WYS
Asym. Unit
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
(4, 31)
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
4
Ligand/Ion
CALCIUM ION
2
MSE
19
Mod. Amino Acid
SELENOMETHIONINE
3
PO4
2
Ligand/Ion
PHOSPHATE ION
4
XYP
6
Ligand/Ion
BETA-D-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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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:43 , ASP A:46
BINDING SITE FOR RESIDUE CA A1552
02
AC2
SOFTWARE
ASP A:295
BINDING SITE FOR RESIDUE CA A1553
03
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
04
AC4
SOFTWARE
THR B:40 , GLU B:42 , THR B:68 , ARG B:69 , ASP B:173 , HOH B:2047
BINDING SITE FOR RESIDUE CA B1552
05
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
06
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
07
AC7
SOFTWARE
XYP A:1002 , HOH A:2151
BINDING SITE FOR RESIDUE XYP A1003
08
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
09
AC9
SOFTWARE
THR B:40 , PHE B:41 , GLU B:42 , VAL B:43 , ASN B:44 , ASP B:46 , HOH B:2228
BINDING SITE FOR RESIDUE PO4 B1553
10
BC1
SOFTWARE
GLU B:233 , ASN B:234 , LYS B:237 , HIS B:276 , TRP B:280 , GLN B:283 , ASN B:336 , GLN B:426 , GLU B:460 , TRP B:504 , TRP B:512 , HOH B:2227
BINDING SITE FOR CHAIN B OF POLYSACCHARIDE RESIDUES 1001 TO 1003
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: GH10_2 (A:189-538,B:189-538)
2: GH10_1 (A:453-463,B: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
2
A:189-538
B:189-538
2
GH10_1
PS00591
Glycosyl hydrolases family 10 (GH10) active site.
XYNY_CLOTM
453-463
2
A:453-463
B:453-463
[
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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
(0, 0)
Info
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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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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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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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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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Asym.Unit (184 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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