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1PKH
Biol. Unit 3
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Asym.Unit (73 KB)
Biol.Unit 1 (199 KB)
Biol.Unit 2 (36 KB)
Biol.Unit 3 (35 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR RECOGNITION AND CATALYSIS BY THE BIFUNCTIONAL DCTP DEAMINASE AND DUTPASE FROM METHANOCOCCUS JANNASCHII
Authors
:
J. L. Huffman, H. Li, R. H. White, J. A. Tainer
Date
:
05 Jun 03 (Deposition) - 19 Aug 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.42
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (3x)
Biol. Unit 2: A (1x)
Biol. Unit 3: B (1x)
Keywords
:
Dctp Deaminase, Dutpase, Dcd-Dut, Mj0430, Dctp, Dutp, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. L. Huffman, H. Li, R. H. White, J. A. Tainer
Structural Basis For Recognition And Catalysis By The Bifunctional Dctp Deaminase And Dutpase From Methanococcus Jannaschii
J. Mol. Biol. V. 331 885 2003
(for further references see the
PDB file header
)
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
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No.
Name
Count
Type
Full Name
1
EDO
6
Ligand/Ion
1,2-ETHANEDIOL
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC8 (SOFTWARE)
8: AC9 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:139 , GLU B:76 , ILE B:79 , ASN B:80 , LYS B:83 , HOH B:415
BINDING SITE FOR RESIDUE EDO B 205
2
AC2
SOFTWARE
ASP B:25 , PHE B:26 , VAL B:27 , GLY B:28 , ASP B:33 , ARG B:160
BINDING SITE FOR RESIDUE EDO B 206
3
AC3
SOFTWARE
ASP A:25 , PHE A:26 , VAL A:27 , ASP A:33 , ARG A:160 , ASN B:87 , HOH B:504
BINDING SITE FOR RESIDUE EDO A 205
4
AC4
SOFTWARE
GLU B:39 , ILE B:41 , LEU B:97 , GLY B:98 , THR B:99
BINDING SITE FOR RESIDUE EDO B 207
5
AC5
SOFTWARE
ASP A:174 , TYR A:177 , SER A:178 , HOH A:433 , LYS B:60 , LYS B:62 , HOH B:338
BINDING SITE FOR RESIDUE EDO A 206
6
AC6
SOFTWARE
ARG B:16 , GLU B:105 , LEU B:106 , PRO B:107 , HOH B:286 , HOH B:453
BINDING SITE FOR RESIDUE EDO B 208
7
AC8
SOFTWARE
GLY B:37 , ASP B:38 , ASN B:101 , LYS B:157 , ASN B:158
BINDING SITE FOR RESIDUE EDO B 209
8
AC9
SOFTWARE
THR B:35 , HOH B:501
BINDING SITE FOR RESIDUE EDO B 210
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1pkha_ (A:)
1b: SCOP_d1pkhb_ (B:)
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Protein Domains
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(
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Class
:
All beta proteins
(24004)
Fold
:
beta-clip
(280)
Superfamily
:
dUTPase-like
(122)
Family
:
dUTPase-like
(71)
Protein domain
:
Bifunctional dCTP deaminase/dUTPase
(6)
Methanococcus jannaschii [TaxId: 2190]
(6)
1a
d1pkha_
A:
1b
d1pkhb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1pkhB00 (B:1-175)
1b: CATH_1pkhA00 (A:1-182)
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Organisms
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(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A
(52)
Homologous Superfamily
:
[code=2.70.40.10, no name defined]
(51)
Methanocaldococcus jannaschii. Organism_taxid: 2190.
(4)
1a
1pkhB00
B:1-175
1b
1pkhA00
A:1-182
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_dUTPase_1pkhB01 (B:85-175)
1b: PFAM_dUTPase_1pkhB02 (B:85-175)
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)
Clan
:
dUTPase
(38)
Family
:
dUTPase
(38)
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Meth
(4)
1a
dUTPase-1pkhB01
B:85-175
1b
dUTPase-1pkhB02
B:85-175
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Chain B
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (73 KB)
Header - Asym.Unit
Biol.Unit 1 (199 KB)
Header - Biol.Unit 1
Biol.Unit 2 (36 KB)
Header - Biol.Unit 2
Biol.Unit 3 (35 KB)
Header - Biol.Unit 3
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