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Asym. Unit
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Asym.Unit (49 KB)
Biol.Unit 1 (88 KB)
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Title
:
CRYSTAL STRUCTURE OF CYTIDINE DEAMINASE FROM BACILLUS SUBTILIS IN COMPLEX WITH THE INHIBITOR TETRAHYDRODEOXYURIDINE
Authors
:
E. Johansson, N. Mejlhede, J. Neuhard, S. Larsen
Date
:
21 Aug 01 (Deposition) - 10 Apr 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.04
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Cytidine Deaminase, Cda, Pyrimidine Salvage Pathway, Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
E. Johansson, N. Mejlhede, J. Neuhard, S. Larsen
Crystal Structure Of The Tetrameric Cytidine Deaminase From Bacillus Subtilis At 2. 0 A Resolution.
Biochemistry V. 41 2563 2002
(for further references see the
PDB file header
)
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: TETRAHYDRODEOXYURIDINE (THUa)
1b: TETRAHYDRODEOXYURIDINE (THUb)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
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No.
Name
Count
Type
Full Name
1
THU
2
Ligand/Ion
TETRAHYDRODEOXYURIDINE
2
ZN
2
Ligand/Ion
ZINC ION
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:53 , CYS A:86 , CYS A:89 , THU A:138
BINDING SITE FOR RESIDUE ZN A 137
2
AC2
SOFTWARE
CYS B:53 , CYS B:86 , CYS B:89 , THU B:1138
BINDING SITE FOR RESIDUE ZN B 137
3
AC3
SOFTWARE
PHE A:24 , VAL A:26 , ASN A:42 , GLU A:44 , CYS A:53 , ALA A:54 , GLU A:55 , PRO A:85 , CYS A:86 , CYS A:89 , ZN A:137 , ALA B:46 , ALA B:47 , TYR B:48
BINDING SITE FOR RESIDUE THU A 138
4
AC4
SOFTWARE
ALA A:46 , ALA A:47 , TYR A:48 , PHE B:24 , VAL B:26 , ASN B:42 , GLU B:44 , CYS B:53 , ALA B:54 , GLU B:55 , PRO B:85 , CYS B:86 , CYS B:89 , ZN B:137
BINDING SITE FOR RESIDUE THU B 1138
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: CYT_DCMP_DEAMINASES_2 (A:1-128,B:1-128)
2: CYT_DCMP_DEAMINASES_1 (A:53-93,B:53-93)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYT_DCMP_DEAMINASES_2
PS51747
Cytidine and deoxycytidylate deaminases domain profile.
CDD_BACSU
1-128
2
A:1-128
B:1-128
2
CYT_DCMP_DEAMINASES_1
PS00903
Cytidine and deoxycytidylate deaminases zinc-binding region signature.
CDD_BACSU
53-93
2
A:53-93
B:53-93
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Exons
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1jtka_ (A:)
1b: SCOP_d1jtkb_ (B:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Cytidine deaminase-like
(78)
Superfamily
:
Cytidine deaminase-like
(76)
Family
:
Cytidine deaminase
(22)
Protein domain
:
mono-domain cytidine deaminase
(8)
Bacillus subtilis [TaxId: 1423]
(4)
1a
d1jtka_
A:
1b
d1jtkb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1jtkA00 (A:1-131)
1b: CATH_1jtkB00 (B:1-131)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Cytidine Deaminase; domain 2
(44)
Homologous Superfamily
:
Cytidine Deaminase, domain 2
(32)
Bacillus subtilis. Organism_taxid: 1423.
(3)
1a
1jtkA00
A:1-131
1b
1jtkB00
B:1-131
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_dCMP_cyt_deam_1_1jtkB01 (B:1-105)
1b: PFAM_dCMP_cyt_deam_1_1jtkB02 (B:1-105)
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Clan
:
CDA
(39)
Family
:
dCMP_cyt_deam_1
(28)
Bacillus subtilis
(5)
1a
dCMP_cyt_deam_1-1jtkB01
B:1-105
1b
dCMP_cyt_deam_1-1jtkB02
B:1-105
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