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1JI1
Biol. Unit 1
Info
Asym.Unit (235 KB)
Biol.Unit 1 (117 KB)
Biol.Unit 2 (119 KB)
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(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF THERMOACTINOMYCES VULGARIS R-47 ALPHA-AMYLASE 1
Authors
:
S. Kamitori, A. Abe, A. Ohtaki, A. Kaji, T. Tonozuka, Y. Sakano
Date
:
28 Jun 01 (Deposition) - 05 Jun 02 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Beta/Alpha Barrel, Hydrolase
(Keyword Search:
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Reference
:
S. Kamitori, A. Abe, A. Ohtaki, A. Kaji, T. Tonozuka, Y. Sakano
Crystal Structures And Structural Comparison Of Thermoactinomyces Vulgaris R-47 Alpha-Amylase 1 (Tvai) At 1. 6 A Resolution And Alpha-Amylase 2 (Tvaii) At 2. 3 A Resolution.
J. Mol. Biol. V. 318 443 2002
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:2 , ASP A:4 , ASN A:6 , ASP A:42 , ASP A:96 , HOH A:2487
BINDING SITE FOR RESIDUE CA A 2001
2
AC2
SOFTWARE
ASN A:145 , ASP A:147 , ASN A:150 , ASP A:151 , GLY A:187 , ASP A:189 , HOH A:2145
BINDING SITE FOR RESIDUE CA A 2002
3
AC3
SOFTWARE
ASP A:276 , ASN A:279 , PHE A:281 , SER A:283 , GLU A:288 , HOH A:2478
BINDING SITE FOR RESIDUE CA A 2003
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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_d1ji1a2 (A:555-637)
1b: SCOP_d1ji1b2 (B:555-637)
2a: SCOP_d1ji1a1 (A:1-122)
2b: SCOP_d1ji1b1 (B:1-122)
3a: SCOP_d1ji1a3 (A:123-554)
3b: SCOP_d1ji1b3 (B:123-554)
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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, TVAI [TaxId: 2026]
(8)
1a
d1ji1a2
A:555-637
1b
d1ji1b2
B:555-637
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, TVAI [TaxId: 2026]
(8)
2a
d1ji1a1
A:1-122
2b
d1ji1b1
B:1-122
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, TVAI [TaxId: 2026]
(8)
3a
d1ji1a3
A:123-554
3b
d1ji1b3
B:123-554
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1ji1A02 (A:125-547)
1b: CATH_1ji1B02 (B:125-547)
2a: CATH_1ji1A03 (A:548-637)
2b: CATH_1ji1B03 (B:548-637)
3a: CATH_1ji1A01 (A:1-124)
3b: CATH_1ji1B01 (B:1-124)
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)
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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
1ji1A02
A:125-547
1b
1ji1B02
B:125-547
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
1ji1A03
A:548-637
2b
1ji1B03
B:548-637
Homologous Superfamily
:
Immunoglobulins
(2282)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
3a
1ji1A01
A:1-124
3b
1ji1B01
B:1-124
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Alpha_amylase_1ji1B01 (B:188-517)
1b: PFAM_Alpha_amylase_1ji1B02 (B:188-517)
2a: PFAM_Alpha_amylase_N_1ji1B03 (B:11-125)
2b: PFAM_Alpha_amylase_N_1ji1B04 (B:11-125)
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Clan
:
Glyco_hydro_tim
(488)
Family
:
Alpha-amylase
(138)
Thermoactinomyces vulgaris
(15)
1a
Alpha-amylase-1ji1B01
B:188-517
1b
Alpha-amylase-1ji1B02
B:188-517
Clan
:
no clan defined [family: Alpha-amylase_N]
(16)
Family
:
Alpha-amylase_N
(16)
Thermoactinomyces vulgaris
(15)
2a
Alpha-amylase_N-1ji1B03
B:11-125
2b
Alpha-amylase_N-1ji1B04
B:11-125
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Asymmetric Unit 1
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Asym.Unit (235 KB)
Header - Asym.Unit
Biol.Unit 1 (117 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
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