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2J0F
Asym. Unit
Info
Asym.Unit (275 KB)
Biol.Unit 1 (138 KB)
Biol.Unit 2 (135 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR NON-COMPETITIVE PRODUCT INHIBITION IN HUMAN THYMIDINE PHOSPHORYLASE: IMPLICATION FOR DRUG DESIGN
Authors
:
K. El Omari, A. Bronckaers, S. Liekens, M. J. Perez-Perez, J. Balzarini, D. K. Stammers
Date
:
02 Aug 06 (Deposition) - 11 Oct 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.31
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Htp, Chemotaxis, Transferase, Polymorphism, Disease Mutation, Glycosyltransferase, Angiogenesis, Growth Factor, Differentiation, Developmental Protein, Human Thymidine Phosphorylase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. El Omari, A. Bronckaers, S. Liekens, M. Perez-Perez, J. Balzarini, D. K. Stammers
Structural Basis For Non-Competitive Product Inhibition In Human Thymidine Phosphorylase: Implications For Drug Design.
Biochem. J. V. 399 199 2006
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: THYMINE (TDRa)
1b: THYMINE (TDRb)
1c: THYMINE (TDRc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
TDR
3
Ligand/Ion
THYMINE
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:116 , SER A:117 , THR A:118 , LEU A:148 , TYR A:199 , ARG A:202 , ILE A:214 , SER A:217 , ILE A:218 , LYS A:221
BINDING SITE FOR RESIDUE TDR A1480
2
AC2
SOFTWARE
HIS B:116 , SER B:117 , THR B:118 , LEU B:148 , TYR B:199 , ARG B:202 , ILE B:214 , SER B:217 , ILE B:218 , LYS B:221
BINDING SITE FOR RESIDUE TDR B1480
3
AC3
SOFTWARE
HIS C:116 , SER C:117 , THR C:118 , LEU C:148 , TYR C:199 , ARG C:202 , ILE C:214 , SER C:217 , LYS C:221 , HOH C:2036
BINDING SITE FOR RESIDUE TDR C1480
[
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SAPs(SNPs)/Variants
(6, 24)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_016777 (R44Q, chain A/B/C/D, )
2: VAR_007643 (G145R, chain A/B/C/D, )
3: VAR_007644 (G153S, chain A/B/C/D, )
4: VAR_007645 (K222R, chain A/B/C/D, )
5: VAR_007646 (E289A, chain A/B/C/D, )
6: VAR_007648 (L471L, chain A/B/C/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)
---
A/B/C/D
R
44
Q
2
UniProt
VAR_007643
G
145
R
TYPH_HUMAN
Disease (MTDPS1)
---
A/B/C/D
G
145
R
3
UniProt
VAR_007644
G
153
S
TYPH_HUMAN
Disease (MTDPS1)
---
A/B/C/D
G
153
S
4
UniProt
VAR_007645
K
222
R
TYPH_HUMAN
Disease (MTDPS1)
---
A/B/C/D
K
222
R
5
UniProt
VAR_007646
E
289
A
TYPH_HUMAN
Disease (MTDPS1)
---
A/B/C/D
E
289
A
6
UniProt
VAR_007648
S
471
L
TYPH_HUMAN
Polymorphism
11479
A/B/C/D
L
471
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: THYMID_PHOSPHORYLASE (A:144-159,B:144-159,C:144-159,D:14...)
;
View:
Select:
Label:
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
4
A:144-159
B:144-159
C:144-159
D:144-159
[
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Exons
(9, 36)
Info
All Exons
Exon 1.1j (A:34-72 | B:34-72 | C:34-72 | D:34...)
Exon 1.1o (A:72-139 | B:72-139 | C:72-139 | D...)
Exon 1.1p (A:140-172 | B:140-172 | C:140-172 ...)
Exon 1.2a (A:173-216 | B:173-216 | C:173-216 ...)
Exon 1.3 (A:216-255 | B:216-255 | C:216-255 ...)
Exon 1.4 (A:256-310 | B:256-310 | C:256-310 ...)
Exon 1.5a (A:310-387 | B:310-387 | C:310-387 ...)
Exon 1.5d (A:387-434 | B:387-434 | C:387-434 ...)
Exon 1.6e (A:434-479 | B:434-479 | C:434-479 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1g/1.1j
02: Boundary 1.1j/1.1o
03: Boundary 1.1o/1.1p
04: Boundary 1.1p/1.2a
05: Boundary 1.2a/1.3
06: Boundary 1.3/1.4
07: Boundary 1.4/1.5a
08: Boundary 1.5a/1.5d
09: Boundary 1.5d/1.6e
10: Boundary 1.6e/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1g
ENST00000395680
1g
ENSE00001522468
chr22:
50968428-50968333
96
TYPH_HUMAN
-
0
0
-
-
1.1j
ENST00000395680
1j
ENSE00001522466
chr22:
50968183-50967925
259
TYPH_HUMAN
1-72
72
4
A:34-72
B:34-72
C:34-72
D:34-72
39
39
39
39
1.1o
ENST00000395680
1o
ENSE00000657761
chr22:
50967767-50967565
203
TYPH_HUMAN
72-139
68
4
A:72-139
B:72-139
C:72-139
D:72-139
68
68
68
68
1.1p
ENST00000395680
1p
ENSE00000657760
chr22:
50967039-50966941
99
TYPH_HUMAN
140-172
33
4
A:140-172
B:140-172
C:140-172
D:140-172
33
33
33
33
1.2a
ENST00000395680
2a
ENSE00000657759
chr22:
50966146-50966017
130
TYPH_HUMAN
173-216
44
4
A:173-216
B:173-216
C:173-216
D:173-216
44
44
44
44
1.3
ENST00000395680
3
ENSE00000878932
chr22:
50965712-50965594
119
TYPH_HUMAN
216-255
40
4
A:216-255
B:216-255
C:216-255
D:216-255
40
40
40
40
1.4
ENST00000395680
4
ENSE00000657757
chr22:
50965167-50965005
163
TYPH_HUMAN
256-310
55
4
A:256-310
B:256-310
C:256-310
D:256-310
55
55
55
55
1.5a
ENST00000395680
5a
ENSE00000657756
chr22:
50964905-50964675
231
TYPH_HUMAN
310-387
78
4
A:310-387
B:310-387
C:310-387
D:310-387
78
78
78
78
1.5d
ENST00000395680
5d
ENSE00000657754
chr22:
50964570-50964430
141
TYPH_HUMAN
387-434
48
4
A:387-434
B:387-434
C:387-434
D:387-434
48
48
48
48
1.6e
ENST00000395680
6e
ENSE00000878931
chr22:
50964347-50964181
167
TYPH_HUMAN
434-482
49
4
A:434-479
B:434-479
C:434-479
D:434-479
46
46
46
46
[
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]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
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CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_2j0fA02 (A:101-371,A:469-479)
1b: CATH_2j0fB02 (B:101-371,B:469-479)
1c: CATH_2j0fC02 (C:101-371,C:469-479)
1d: CATH_2j0fD02 (D:101-371,D:469-479)
2a: CATH_2j0fA03 (A:372-468)
2b: CATH_2j0fB03 (B:372-468)
2c: CATH_2j0fC03 (C:372-468)
2d: CATH_2j0fD03 (D:372-468)
3a: CATH_2j0fA01 (A:34-100)
3b: CATH_2j0fB01 (B:34-100)
3c: CATH_2j0fC01 (C:34-100)
3d: CATH_2j0fD01 (D:34-100)
View:
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Classes
(
)
(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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
2j0fA02
A:101-371,A:469-479
1b
2j0fB02
B:101-371,B:469-479
1c
2j0fC02
C:101-371,C:469-479
1d
2j0fD02
D:101-371,D:469-479
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
2j0fA03
A:372-468
2b
2j0fB03
B:372-468
2c
2j0fC03
C:372-468
2d
2j0fD03
D:372-468
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
2j0fA01
A:34-100
3b
2j0fB01
B:34-100
3c
2j0fC01
C:34-100
3d
2j0fD01
D:34-100
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Pfam Domains
(0, 0)
Info
all PFAM domains
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