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3EDD
Biol. Unit 2
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Asym.Unit (198 KB)
Biol.Unit 1 (191 KB)
Biol.Unit 2 (194 KB)
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(1)
Title
:
STRUCTURAL BASE FOR CYCLODEXTRIN HYDROLYSIS
Authors
:
S. Buedenbender, G. E. Schulz
Date
:
03 Sep 08 (Deposition) - 03 Mar 09 (Release) - 03 Mar 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (2x)
Biol. Unit 2: B (2x)
Keywords
:
Alpha-Cyclodextrin Binding, Hydrolase, Glycosidase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Buedenbender, G. E. Schulz
Structural Base For Enzymatic Cyclodextrin Hydrolysis
J. Mol. Biol. V. 385 606 2009
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: ALPHA-CYCLODEXTRIN (CYCLOHEXA-AMYL... (ACXa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
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Label:
No.
Name
Count
Type
Full Name
1
ACX
2
Ligand/Ion
ALPHA-CYCLODEXTRIN (CYCLOHEXA-AMYLOSE)
2
CA
-1
Ligand/Ion
CALCIUM ION
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Sites
(3, 3)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
ASN B:119 , ASP B:121 , ASN B:124 , ASP B:125 , GLY B:144 , ASP B:146
BINDING SITE FOR RESIDUE CA B 700
2
AC4
SOFTWARE
SER B:222 , THR B:270 , ASP B:280 , LEU B:281 , GLN B:283 , TYR B:315 , HOH B:845
BINDING SITE FOR RESIDUE CA B 701
3
AC5
SOFTWARE
TYR B:178 , HIS B:181 , HIS B:251 , PHE B:274 , MET B:278 , ASP B:418 , ARG B:464 , ASP B:466 , ARG B:470 , HOH B:837
BINDING SITE FOR RESIDUE ACX B 802
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d3edda3 (A:518-599)
1b: SCOP_d3eddb3 (B:518-599)
2a: SCOP_d3edda1 (A:3-95)
2b: SCOP_d3eddb1 (B:3-95)
3a: SCOP_d3edda2 (A:96-517)
3b: SCOP_d3eddb2 (B:96-517)
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Protein Domains
(
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(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
automated matches
(85)
Protein domain
:
automated matches
(85)
Flavobacterium sp. [TaxId: 197856]
(5)
1a
d3edda3
A:518-599
1b
d3eddb3
B:518-599
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
E set domains
(509)
Family
:
automated matches
(93)
Protein domain
:
automated matches
(93)
Flavobacterium sp. [TaxId: 197856]
(5)
2a
d3edda1
A:3-95
2b
d3eddb1
B:3-95
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Amylase, catalytic domain
(385)
Protein domain
:
automated matches
(71)
Flavobacterium sp. [TaxId: 197856]
(5)
3a
d3edda2
A:96-517
3b
d3eddb2
B:96-517
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_3eddA02 (A:99-517)
1b: CATH_3eddB02 (B:99-517)
2a: CATH_3eddA03 (A:518-597)
2b: CATH_3eddB03 (B:518-597)
3a: CATH_3eddA01 (A:3-92)
3b: CATH_3eddB01 (B:3-92)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
92 (Flavobacterium sp)
(5)
1a
3eddA02
A:99-517
1b
3eddB02
B:99-517
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
92 (Flavobacterium sp)
(5)
2a
3eddA03
A:518-597
2b
3eddB03
B:518-597
Homologous Superfamily
:
Immunoglobulins
(2282)
92 (Flavobacterium sp)
(5)
3a
3eddA01
A:3-92
3b
3eddB01
B:3-92
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Pfam Domains
(0, 0)
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Show PDB file:
Asym.Unit (198 KB)
Header - Asym.Unit
Biol.Unit 1 (191 KB)
Header - Biol.Unit 1
Biol.Unit 2 (194 KB)
Header - Biol.Unit 2
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