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1WGI
Asym. Unit
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Asym.Unit (99 KB)
Biol.Unit 1 (95 KB)
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(1)
Title
:
STRUCTURE OF INORGANIC PYROPHOSPHATASE
Authors
:
P. Heikinheimo, A. Goldman
Date
:
24 Oct 96 (Deposition) - 19 Nov 97 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Pyrophosphate Phosphohydrolase, Hydrolase, Manganese
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Heikinheimo, J. Lehtonen, A. Baykov, R. Lahti, B. S. Cooperman, A. Goldman
The Structural Basis For Pyrophosphatase Catalysis.
Structure V. 4 1491 1996
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
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No.
Name
Count
Type
Full Name
1
MN
4
Ligand/Ion
MANGANESE (II) ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: ASA (UNKNOWN)
6: ASB (UNKNOWN)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:115 , ASP A:120 , ASP A:152 , HOH A:289 , HOH A:290 , HOH A:291
BINDING SITE FOR RESIDUE MN A 287
2
AC2
SOFTWARE
ASP A:120 , HOH A:292 , HOH A:293 , HOH A:294 , HOH A:295 , HOH A:296
BINDING SITE FOR RESIDUE MN A 288
3
AC3
SOFTWARE
ASP B:115 , ASP B:120 , ASP B:152 , HOH B:289 , HOH B:290 , HOH B:291
BINDING SITE FOR RESIDUE MN B 287
4
AC4
SOFTWARE
ASP B:120 , HOH B:292 , HOH B:293 , HOH B:294 , HOH B:295 , HOH B:296
BINDING SITE FOR RESIDUE MN B 288
5
ASA
UNKNOWN
GLU A:48 , LYS A:56 , GLU A:58 , ARG A:78 , TYR A:89 , TYR A:93 , ASP A:115 , ASP A:117 , ASP A:120 , ASP A:147 , ASP A:152 , LYS A:154 , TYR A:192 , LYS A:193
ACTIVE SITE A.
6
ASB
UNKNOWN
GLU B:48 , LYS B:56 , GLU B:58 , ARG B:78 , TYR B:89 , TYR B:93 , ASP B:115 , ASP B:117 , ASP B:120 , ASP B:147 , ASP B:152 , LYS B:154 , TYR B:192 , LYS B:193
ACTIVE SITE B.
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PPASE (A:115-121,B:115-121)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PPASE
PS00387
Inorganic pyrophosphatase signature.
IPYR_YEAST
116-122
2
A:115-121
B:115-121
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Exons
(1, 2)
Info
All Exons
Exon 1.1 (A:1-283 | B:1-282 (gaps))
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YBR011C
1
YBR011C.1
II:257973-257110
864
IPYR_YEAST
1-287
287
2
A:1-283
B:1-282 (gaps)
283
282
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1wgia_ (A:)
1b: SCOP_d1wgib_ (B:)
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Protein Domains
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)
(
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Organisms
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)
(
)
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Inorganic pyrophosphatase
(69)
Family
:
Inorganic pyrophosphatase
(56)
Protein domain
:
Inorganic pyrophosphatase
(41)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(19)
1a
d1wgia_
A:
1b
d1wgib_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1wgiB00 (B:1-282)
1b: CATH_1wgiA00 (A:1-283)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Inorganic Pyrophosphatase
(59)
Homologous Superfamily
:
Inorganic Pyrophosphatase
(59)
Baker's yeast (Saccharomyces cerevisiae)
(17)
1a
1wgiB00
B:1-282
1b
1wgiA00
A:1-283
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Pyrophosphatase_1wgiB01 (B:44-228)
1b: PFAM_Pyrophosphatase_1wgiB02 (B:44-228)
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Clans
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(
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(
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(
)
Clan
:
no clan defined [family: Pyrophosphatase]
(19)
Family
:
Pyrophosphatase
(19)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(5)
1a
Pyrophosphatase-1wgiB01
B:44-228
1b
Pyrophosphatase-1wgiB02
B:44-228
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