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2PC9
Asym. Unit
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Asym.Unit (356 KB)
Biol.Unit 1 (92 KB)
Biol.Unit 2 (90 KB)
Biol.Unit 3 (93 KB)
Biol.Unit 4 (92 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ATP-DEPENDENT PHOSPHOENOLPYRUVATE CARBOXYKINASE FROM THERMUS THERMOPHILUS HB8
Authors
:
M. Sugahara, N. Kunishima, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
29 Mar 07 (Deposition) - 02 Oct 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
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
:
Phosphoenolpyruvate Carboxykinase, Adenosine Triphosphate, Thermus Thermophilus Hb8, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Lyase
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Reference
:
M. Sugahara, N. Kunishima
Crystal Structure Of Atp-Dependent Phosphoenolpyruvate Carboxykinase From Thermus Thermophilus Hb8
To Be Published
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
1c: ADENOSINE-5'-TRIPHOSPHATE (ATPc)
1d: ADENOSINE-5'-TRIPHOSPHATE (ATPd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
3d: PHOSPHATE ION (PO4d)
3e: PHOSPHATE ION (PO4e)
3f: PHOSPHATE ION (PO4f)
3g: PHOSPHATE ION (PO4g)
3h: PHOSPHATE ION (PO4h)
3i: PHOSPHATE ION (PO4i)
3j: PHOSPHATE ION (PO4j)
3k: PHOSPHATE ION (PO4k)
3l: PHOSPHATE ION (PO4l)
3m: PHOSPHATE ION (PO4m)
3n: PHOSPHATE ION (PO4n)
3o: PHOSPHATE ION (PO4o)
3p: PHOSPHATE ION (PO4p)
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Label:
No.
Name
Count
Type
Full Name
1
ATP
4
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
CA
4
Ligand/Ion
CALCIUM ION
3
PO4
16
Ligand/Ion
PHOSPHATE ION
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Sites
(0, 0)
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: PEPCK_ATP (A:249-264,B:249-264,C:249-264,D:24...)
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEPCK_ATP
PS00532
Phosphoenolpyruvate carboxykinase (ATP) signature.
PCKA_THET8
249-264
4
A:249-264
B:249-264
C:249-264
D:249-264
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Exons
(0, 0)
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2pc9a2 (A:1-211)
1b: SCOP_d2pc9b2 (B:2-211)
1c: SCOP_d2pc9c2 (C:3-211)
1d: SCOP_d2pc9d2 (D:2-211)
2a: SCOP_d2pc9a1 (A:212-527)
2b: SCOP_d2pc9b1 (B:212-528)
2c: SCOP_d2pc9c1 (C:212-529)
2d: SCOP_d2pc9d1 (D:212-528)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PEP carboxykinase N-terminal domain
(54)
Superfamily
:
PEP carboxykinase N-terminal domain
(54)
Family
:
PEP carboxykinase N-terminal domain
(48)
Protein domain
:
Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
(16)
Thermus thermophilus [TaxId: 274]
(3)
1a
d2pc9a2
A:1-211
1b
d2pc9b2
B:2-211
1c
d2pc9c2
C:3-211
1d
d2pc9d2
D:2-211
Fold
:
PEP carboxykinase-like
(61)
Superfamily
:
PEP carboxykinase-like
(61)
Family
:
PEP carboxykinase C-terminal domain
(48)
Protein domain
:
Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
(16)
Thermus thermophilus [TaxId: 274]
(3)
2a
d2pc9a1
A:212-527
2b
d2pc9b1
B:212-528
2c
d2pc9c1
C:212-529
2d
d2pc9d1
D:212-528
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CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_2pc9A01 (A:1-33,A:55-211)
1b: CATH_2pc9C01 (C:3-33,C:55-211)
1c: CATH_2pc9D01 (D:2-33,D:55-211)
1d: CATH_2pc9B01 (B:2-33,B:55-211)
2a: CATH_2pc9A03 (A:212-267,A:330-526)
2b: CATH_2pc9C03 (C:212-267,C:330-526)
2c: CATH_2pc9B03 (B:212-267,B:330-526)
2d: CATH_2pc9D03 (D:212-267,D:330-526)
3a: CATH_2pc9A02 (A:34-50,A:268-327)
3b: CATH_2pc9B02 (B:34-50,B:268-327)
3c: CATH_2pc9C02 (C:34-50,C:268-327)
3d: CATH_2pc9D02 (D:34-50,D:268-327)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Phosphoenolpyruvate Carboxykinase; domain 1
(42)
Homologous Superfamily
:
Phosphoenolpyruvate Carboxykinase, domain 1
(42)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(3)
1a
2pc9A01
A:1-33,A:55-211
1b
2pc9C01
C:3-33,C:55-211
1c
2pc9D01
D:2-33,D:55-211
1d
2pc9B01
B:2-33,B:55-211
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Phosphoenolpyruvate Carboxykinase; domain 3
(62)
Homologous Superfamily
:
[code=3.90.228.20, no name defined]
(42)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(3)
2a
2pc9A03
A:212-267,A:330-526
2b
2pc9C03
C:212-267,C:330-526
2c
2pc9B03
B:212-267,B:330-526
2d
2pc9D03
D:212-267,D:330-526
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Complex
(381)
Topology
:
Phosphoenolpyruvate Carboxykinase; domain 2
(42)
Homologous Superfamily
:
Phosphoenolpyruvate Carboxykinase, domain 2
(42)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(3)
3a
2pc9A02
A:34-50,A:268-327
3b
2pc9B02
B:34-50,B:268-327
3c
2pc9C02
C:34-50,C:268-327
3d
2pc9D02
D:34-50,D:268-327
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_PEPCK_ATP_2pc9D01 (D:11-482)
1b: PFAM_PEPCK_ATP_2pc9D02 (D:11-482)
1c: PFAM_PEPCK_ATP_2pc9D03 (D:11-482)
1d: PFAM_PEPCK_ATP_2pc9D04 (D:11-482)
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Clan
:
PEP-carboxyk
(36)
Family
:
PEPCK_ATP
(11)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
1a
PEPCK_ATP-2pc9D01
D:11-482
1b
PEPCK_ATP-2pc9D02
D:11-482
1c
PEPCK_ATP-2pc9D03
D:11-482
1d
PEPCK_ATP-2pc9D04
D:11-482
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Asym.Unit (356 KB)
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