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1H4H
Asym. Unit
Info
Asym.Unit (151 KB)
Biol.Unit 1 (40 KB)
Biol.Unit 2 (40 KB)
Biol.Unit 3 (39 KB)
Biol.Unit 4 (39 KB)
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(1)
Title
:
OLIGOSACCHARIDE-BINDING TO FAMILY 11 XYLANASES: BOTH COVALENT INTERMEDIATE AND MUTANT-PRODUCT COMPLEXES DISPLAY 2,5B CONFORMATIONS AT THE ACTIVE-CENTRE
Authors
:
E. Sabini, K. S. Wilson, S. Danielsen, M. Schulein, G. J. Davies
Date
:
11 May 01 (Deposition) - 09 May 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Glycoside Hydrolase, Xylanase, Oligosaccharide, Transition-State, Intermediate, Mutant, Boat Conformation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Sabini, G. Sulzenbacher, M. Dauter, Z. Dauter, P. L. Jorgensen, M. Schulein, C. Dupont, G. J. Davies, K. S. Wilson
Catalysis And Specificity In Enzymatic Glycoside Hydrolysis: A 2, 5B Conformation For The Glycosyl- Enzyme Intermediate Revealed By The Structure Of The Bacillus Agaradhaerens Family 11 Xylanase.
Chem. Biol. V. 6 483 1999
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: PYROGLUTAMIC ACID (PCAa)
1b: PYROGLUTAMIC ACID (PCAb)
1c: PYROGLUTAMIC ACID (PCAc)
1d: PYROGLUTAMIC ACID (PCAd)
2a: BETA-D-XYLOPYRANOSE (XYPa)
2b: BETA-D-XYLOPYRANOSE (XYPb)
2c: BETA-D-XYLOPYRANOSE (XYPc)
2d: BETA-D-XYLOPYRANOSE (XYPd)
2e: BETA-D-XYLOPYRANOSE (XYPe)
2f: BETA-D-XYLOPYRANOSE (XYPf)
2g: BETA-D-XYLOPYRANOSE (XYPg)
2h: BETA-D-XYLOPYRANOSE (XYPh)
3a: XYLOPYRANOSE (XYSa)
3b: XYLOPYRANOSE (XYSb)
3c: XYLOPYRANOSE (XYSc)
3d: XYLOPYRANOSE (XYSd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PCA
4
Mod. Amino Acid
PYROGLUTAMIC ACID
2
XYP
8
Ligand/Ion
BETA-D-XYLOPYRANOSE
3
XYS
4
Ligand/Ion
XYLOPYRANOSE
[
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Sites
(12, 12)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:17 , TRP A:19 , ARG A:49 , TYR A:85 , PRO A:133 , SER A:134 , XYP A:1209 , XYS A:1210
BINDING SITE FOR RESIDUE XYP A1208
02
AC2
SOFTWARE
ILE A:8 , TRP A:19 , ILE A:135 , TYR A:177 , XYP A:1208 , HOH A:2129 , HOH A:2131
BINDING SITE FOR RESIDUE XYP A1209
03
AC3
SOFTWARE
TRP A:19 , ASN A:45 , LEU A:47 , TYR A:85 , TYR A:96 , ARG A:129 , PRO A:133 , PHE A:141 , GLN A:143 , XYP A:1208
BINDING SITE FOR RESIDUE XYS A1210
04
AC4
SOFTWARE
GLU B:17 , TRP B:19 , ARG B:49 , TYR B:85 , PRO B:133 , SER B:134 , XYP B:1211 , XYS B:1212
BINDING SITE FOR RESIDUE XYP B1210
05
AC5
SOFTWARE
ILE B:8 , ILE B:135 , XYP B:1210 , HOH B:2116 , HOH B:2142
BINDING SITE FOR RESIDUE XYP B1211
06
AC6
SOFTWARE
TRP B:19 , ASN B:45 , LEU B:47 , TYR B:85 , TRP B:87 , TYR B:96 , ARG B:129 , PRO B:133 , PHE B:141 , GLN B:143 , XYP B:1210
BINDING SITE FOR RESIDUE XYS B1212
07
AC7
SOFTWARE
GLU C:17 , TRP C:19 , ARG C:49 , TYR C:85 , PRO C:133 , SER C:134 , XYP C:1209 , XYS C:1210 , HOH C:2089
BINDING SITE FOR RESIDUE XYP C1208
08
AC8
SOFTWARE
ILE C:135 , XYP C:1208 , HOH C:2089 , HOH C:2105
BINDING SITE FOR RESIDUE XYP C1209
09
AC9
SOFTWARE
ASN C:45 , LEU C:47 , TYR C:85 , TRP C:87 , ALA C:94 , TYR C:96 , ARG C:129 , PRO C:133 , GLN C:143 , XYP C:1208
BINDING SITE FOR RESIDUE XYS C1210
10
BC1
SOFTWARE
GLU D:17 , TRP D:19 , ARG D:49 , TYR D:85 , PRO D:133 , SER D:134 , XYP D:1210 , XYS D:1211 , HOH D:2096
BINDING SITE FOR RESIDUE XYP D1209
11
BC2
SOFTWARE
ILE D:8 , ILE D:135 , XYP D:1209
BINDING SITE FOR RESIDUE XYP D1210
12
BC3
SOFTWARE
ASN D:45 , LEU D:47 , TYR D:85 , TRP D:87 , TYR D:96 , ARG D:129 , PRO D:133 , PHE D:141 , GLN D:143 , XYP D:1209
BINDING SITE FOR RESIDUE XYS D1211
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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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Exons
(0, 0)
Info
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1h4ha_ (A:)
1b: SCOP_d1h4hb_ (B:)
1c: SCOP_d1h4hc_ (C:)
1d: SCOP_d1h4hd_ (D:)
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(
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(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Xylanase/endoglucanase 11/12
(93)
Protein domain
:
Xylanase II
(65)
Bacillus agaradhaerens [TaxId: 76935]
(4)
1a
d1h4ha_
A:
1b
d1h4hb_
B:
1c
d1h4hc_
C:
1d
d1h4hd_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1h4hA00 (A:2-207)
1b: CATH_1h4hC00 (C:2-207)
1c: CATH_1h4hD00 (D:2-208)
1d: CATH_1h4hB00 (B:2-209)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.180, no name defined]
(77)
Bacillus agaradhaerens. Organism_taxid: 76935.
(4)
1a
1h4hA00
A:2-207
1b
1h4hC00
C:2-207
1c
1h4hD00
D:2-208
1d
1h4hB00
B:2-209
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Pfam Domains
(0, 0)
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all PFAM domains
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Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (151 KB)
Header - Asym.Unit
Biol.Unit 1 (40 KB)
Header - Biol.Unit 1
Biol.Unit 2 (40 KB)
Header - Biol.Unit 2
Biol.Unit 3 (39 KB)
Header - Biol.Unit 3
Biol.Unit 4 (39 KB)
Header - Biol.Unit 4
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