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1G5I
Asym. Unit
Info
Asym.Unit (286 KB)
Biol.Unit 1 (142 KB)
Biol.Unit 2 (143 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE ACCESSORY SUBUNIT OF MURINE MITOCHONDRIAL POLYMERASE GAMMA
Authors
:
J. A. Carrodeguas, K. Theis, D. F. Bogenhagen, C. Kisker
Date
:
01 Nov 00 (Deposition) - 14 Mar 01 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Intermolecular Four Helix Bundle, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. A. Carrodeguas, K. Theis, D. F. Bogenhagen, C. Kisker
Crystal Structure And Deletion Analysis Show That The Accessory Subunit Of Mammalian Dna Polymerase Gamma, Pol Gamma B, Functions As A Homodimer.
Mol. Cell V. 7 43 2001
(for further references see the
PDB file header
)
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
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No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
NA
4
Ligand/Ion
SODIUM ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:93 , ARG A:96 , VAL A:99 , HOH A:911 , HOH A:920 , HOH A:978
BINDING SITE FOR RESIDUE NA A 901
2
AC2
SOFTWARE
VAL C:93 , ARG C:96 , VAL C:99 , HOH C:982 , HOH D:968
BINDING SITE FOR RESIDUE NA C 902
3
AC3
SOFTWARE
HOH A:1009 , VAL B:93 , ARG B:96 , VAL B:99 , HOH B:942 , HOH B:992
BINDING SITE FOR RESIDUE NA B 903
4
AC4
SOFTWARE
VAL D:93 , ARG D:96 , VAL D:99
BINDING SITE FOR RESIDUE NA D 904
5
AC5
SOFTWARE
ASP C:103 , HIS C:106 , ARG D:81 , GLU D:207 , LYS D:208 , THR D:209 , ASP D:317 , HOH D:919 , HOH D:1018
BINDING SITE FOR RESIDUE GOL D 5
6
AC6
SOFTWARE
ASP A:103 , HIS A:106 , ARG B:81 , GLU B:207 , LYS B:208 , THR B:209 , ASP B:317 , HOH B:910 , HOH B:982
BINDING SITE FOR RESIDUE GOL B 6
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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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Note:
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_d1g5ia2 (A:41-330)
1b: SCOP_d1g5ib2 (B:40-332)
1c: SCOP_d1g5ic2 (C:41-330)
1d: SCOP_d1g5id2 (D:40-337)
2a: SCOP_d1g5ia1 (A:343-469)
2b: SCOP_d1g5ib1 (B:343-460)
2c: SCOP_d1g5ic1 (C:343-469)
2d: SCOP_d1g5id1 (D:338-468)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Class II aaRS and biotin synthetases
(165)
Superfamily
:
Class II aaRS and biotin synthetases
(165)
Family
:
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
(103)
Protein domain
:
The aaRS-like accessory subunit of mitochondrial polymerase gamma, N-terminal domain
(3)
Mouse (Mus musculus) [TaxId: 10090]
(2)
1a
d1g5ia2
A:41-330
1b
d1g5ib2
B:40-332
1c
d1g5ic2
C:41-330
1d
d1g5id2
D:40-337
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Anticodon-binding domain-like
(97)
Superfamily
:
Class II aaRS ABD-related
(40)
Family
:
Anticodon-binding domain of Class II aaRS
(33)
Protein domain
:
The aaRS-like accessory subunit of mitochondrial polymerase gamma, C-terminal domain
(4)
Mouse (Mus musculus) [TaxId: 10090]
(2)
2a
d1g5ia1
A:343-469
2b
d1g5ib1
B:343-460
2c
d1g5ic1
C:343-469
2d
d1g5id1
D:338-468
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1g5iA01 (A:41-353)
1b: CATH_1g5iC01 (C:41-353)
1c: CATH_1g5iB01 (B:40-353)
1d: CATH_1g5iD01 (D:40-353)
2a: CATH_1g5iB02 (B:354-460)
2b: CATH_1g5iD02 (D:354-468)
2c: CATH_1g5iA02 (A:354-469)
2d: CATH_1g5iC02 (C:354-469)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
BirA Bifunctional Protein; domain 2
(111)
Homologous Superfamily
:
Bira Bifunctional Protein; Domain 2
(111)
House mouse (Mus musculus)
(2)
1a
1g5iA01
A:41-353
1b
1g5iC01
C:41-353
1c
1g5iB01
B:40-353
1d
1g5iD01
D:40-353
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.800, no name defined]
(40)
House mouse (Mus musculus)
(2)
2a
1g5iB02
B:354-460
2b
1g5iD02
D:354-468
2c
1g5iA02
A:354-469
2d
1g5iC02
C:354-469
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (286 KB)
Header - Asym.Unit
Biol.Unit 1 (142 KB)
Header - Biol.Unit 1
Biol.Unit 2 (143 KB)
Header - Biol.Unit 2
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