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1G1Y
Asym. Unit
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Asym.Unit (213 KB)
Biol.Unit 1 (206 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ALPHA-AMYLASE II (TVAII) FROM THERMOACTINOMYCES VULGARIS R-47 AND BETA-CYCLODEXTRIN COMPLEX
Authors
:
S. Kondo, A. Ohtaki, T. Tonozuka, Y. Sakano, S. Kamitori
Date
:
16 Oct 00 (Deposition) - 14 Mar 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
S. Kondo, A. Ohtaki, T. Tonozuka, Y. Sakano, S. Kamitori
Studies On The Hydrolyzing Mechanism For Cyclodextrins Of Thermoactinomyces Vulgaris R-47 Alpha-Amylase 2 (Tvaii). X-Ray Structure Of The Mutant E354A Complexed With Beta-Cyclodextrin, And Kinetic Analyses On Cyclodextrins.
J. Biochem. (Tokyo) V. 129 423 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: BETA-CYCLODEXTRIN (BCDa)
1b: BETA-CYCLODEXTRIN (BCDb)
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No.
Name
Count
Type
Full Name
1
BCD
2
Ligand/Ion
BETA-CYCLODEXTRIN
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:202 , TYR A:204 , PHE A:286 , MET A:293 , VAL A:326 , TRP A:356 , HIS A:420 , ASP A:421 , ASP A:465 , ARG A:469 , TYR B:45
BINDING SITE FOR RESIDUE BCD A 601
2
AC2
SOFTWARE
TYR B:204 , PHE B:286 , VAL B:290 , VAL B:326 , TRP B:356 , HIS B:420 , ASP B:421 , ASP B:465 , ARG B:469 , HOH B:1054 , HOH B:1347 , HOH B:1485
BINDING SITE FOR RESIDUE BCD B 701
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1g1ya2 (A:503-585)
1b: SCOP_d1g1yb2 (B:503-585)
2a: SCOP_d1g1ya1 (A:1-120)
2b: SCOP_d1g1yb1 (B:1-120)
3a: SCOP_d1g1ya3 (A:121-502)
3b: SCOP_d1g1yb3 (B:121-502)
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Protein Domains
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Organisms
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Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
alpha-Amylases, C-terminal beta-sheet domain
(272)
Protein domain
:
Maltogenic amylase
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
1a
d1g1ya2
A:503-585
1b
d1g1yb2
B:503-585
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
E set domains
(509)
Family
:
E-set domains of sugar-utilizing enzymes
(147)
Protein domain
:
Maltogenic amylase, N-terminal domain N
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
2a
d1g1ya1
A:1-120
2b
d1g1yb1
B:1-120
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
:
Maltogenic amylase, central domain
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
3a
d1g1ya3
A:121-502
3b
d1g1yb3
B:121-502
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1g1yA02 (A:122-242,A:298-502)
1b: CATH_1g1yB02 (B:122-242,B:298-502)
2a: CATH_1g1yA04 (A:503-585)
2b: CATH_1g1yB04 (B:503-585)
3a: CATH_1g1yA01 (A:1-121)
3b: CATH_1g1yB01 (B:1-121)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
1a
1g1yA02
A:122-242,A:298-502
1b
1g1yB02
B:122-242,B:298-502
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
2a
1g1yA04
A:503-585
2b
1g1yB04
B:503-585
Homologous Superfamily
:
Immunoglobulins
(2282)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
3a
1g1yA01
A:1-121
3b
1g1yB01
B:1-121
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Pfam Domains
(0, 0)
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