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2WK5
Biol. Unit 4
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Asym.Unit (267 KB)
Biol.Unit 1 (68 KB)
Biol.Unit 2 (68 KB)
Biol.Unit 3 (69 KB)
Biol.Unit 4 (69 KB)
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(1)
Title
:
STRUCTURAL FEATURES OF NATIVE HUMAN THYMIDINE PHOSPHORYLASE AND IN COMPLEX WITH 5-IODOURACIL
Authors
:
E. Mitsiki, A. C. Papageorgiou, S. Iyer, N. Thiyagarajan, S. H. Prior, D. Sleep, C. Finnis, K. R. Acharya
Date
:
05 Jun 09 (Deposition) - 07 Jul 09 (Release) - 28 Jul 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.99
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
:
Glycosyltransferase, Developmental Protein, Angiogenesis, 5-Iodouracil, Growth Factor, Enzyme Kinetics, Differentiation, Disease Mutation, Thymidine Phosphorylase, Chemotaxis, Transferase, Mutagenesis, Polymorphism
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Mitsiki, A. C. Papageorgiou, S. Iyer, N. Thiyagarajan, S. H. Prior, D. Sleep, C. Finnis, K. R. Acharya
Structures Of Native Human Thymidine Phosphorylase And In Complex With 5-Iodouracil.
Biochem. Biophys. Res. Commun. V. 386 666 2009
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
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Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
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Sorry, no Info available
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SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_016777 (R44Q, chain D, )
2: VAR_007643 (G145R, chain D, )
3: VAR_007644 (G153S, chain D, )
4: VAR_007645 (K222R, chain D, )
5: VAR_007646 (E289A, chain D, )
6: VAR_007648 (S471L, chain D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016777
R
44
Q
TYPH_HUMAN
Disease (MTDPS1)
---
D
R
44
Q
2
UniProt
VAR_007643
G
145
R
TYPH_HUMAN
Disease (MTDPS1)
---
D
G
145
R
3
UniProt
VAR_007644
G
153
S
TYPH_HUMAN
Disease (MTDPS1)
---
D
G
153
S
4
UniProt
VAR_007645
K
222
R
TYPH_HUMAN
Disease (MTDPS1)
---
D
K
222
R
5
UniProt
VAR_007646
E
289
A
TYPH_HUMAN
Disease (MTDPS1)
---
D
E
289
A
6
UniProt
VAR_007648
S
471
L
TYPH_HUMAN
Polymorphism
11479
D
S
471
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: THYMID_PHOSPHORYLASE (D:144-159)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THYMID_PHOSPHORYLASE
PS00647
Thymidine and pyrimidine-nucleoside phosphorylases signature.
TYPH_HUMAN
144-159
1
-
-
-
D:144-159
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 12)
Info
All SCOP Domains
1a: SCOP_d2wk5a1 (A:32-100)
1b: SCOP_d2wk5b1 (B:32-100)
1c: SCOP_d2wk5c1 (C:33-100)
1d: SCOP_d2wk5d1 (D:34-100)
2a: SCOP_d2wk5a3 (A:374-480)
2b: SCOP_d2wk5b3 (B:374-481)
2c: SCOP_d2wk5c3 (C:374-480)
2d: SCOP_d2wk5d3 (D:374-480)
3a: SCOP_d2wk5a2 (A:101-373)
3b: SCOP_d2wk5b2 (B:101-373)
3c: SCOP_d2wk5c2 (C:101-373)
3d: SCOP_d2wk5d2 (D:101-373)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Methionine synthase domain-like
(29)
Superfamily
:
Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
(22)
Family
:
automated matches
(3)
Protein domain
:
automated matches
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2wk5a1
A:32-100
1b
d2wk5b1
B:32-100
1c
d2wk5c1
C:33-100
1d
d2wk5d1
D:34-100
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
alpha/beta-Hammerhead
(191)
Superfamily
:
Pyrimidine nucleoside phosphorylase C-terminal domain
(12)
Family
:
automated matches
(3)
Protein domain
:
automated matches
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d2wk5a3
A:374-480
2b
d2wk5b3
B:374-481
2c
d2wk5c3
C:374-480
2d
d2wk5d3
D:374-480
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain
(22)
Superfamily
:
Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain
(22)
Family
:
Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain
(21)
Protein domain
:
automated matches
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
3a
d2wk5a2
A:101-373
3b
d2wk5b2
B:101-373
3c
d2wk5c2
C:101-373
3d
d2wk5d2
D:101-373
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CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_2wk5D02 (D:101-371,D:468-480)
1b: CATH_2wk5A02 (A:101-371,A:468-480)
1c: CATH_2wk5B02 (B:101-371,B:468-481)
1d: CATH_2wk5C02 (C:101-371,C:469-480)
2a: CATH_2wk5A03 (A:372-467)
2b: CATH_2wk5C03 (C:372-465)
2c: CATH_2wk5B03 (B:372-467)
2d: CATH_2wk5D03 (D:372-467)
3a: CATH_2wk5A01 (A:32-100)
3b: CATH_2wk5D01 (D:34-100)
3c: CATH_2wk5B01 (B:32-100)
3d: CATH_2wk5C01 (C:33-100)
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(
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2
(23)
Homologous Superfamily
:
Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2
(23)
Human (Homo sapiens)
(4)
1a
2wk5D02
D:101-371,D:468-480
1b
2wk5A02
A:101-371,A:468-480
1c
2wk5B02
B:101-371,B:468-481
1d
2wk5C02
C:101-371,C:469-480
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aldehyde Oxidoreductase; domain 3
(111)
Homologous Superfamily
:
[code=3.90.1170.30, no name defined]
(10)
Human (Homo sapiens)
(4)
2a
2wk5A03
A:372-467
2b
2wk5C03
C:372-465
2c
2wk5B03
B:372-467
2d
2wk5D03
D:372-467
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3
(19)
Homologous Superfamily
:
Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C
(18)
Human (Homo sapiens)
(4)
3a
2wk5A01
A:32-100
3b
2wk5D01
D:34-100
3c
2wk5B01
B:32-100
3d
2wk5C01
C:33-100
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Protein
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Chain D
Asymmetric Unit 1
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Asym.Unit (267 KB)
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