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3ARN
Asym. Unit
Info
Asym.Unit (76 KB)
Biol.Unit 1 (70 KB)
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(1)
Title
:
HUMAN DUTPASE IN COMPLEX WITH NOVEL URACIL DERIVATIVE
Authors
:
K. T. Chong, S. Miyahara, H. Miyakoshi, M. Fukuoka
Date
:
03 Dec 10 (Deposition) - 15 Dec 10 (Release) - 30 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Hydrolase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Miyahara, H. Miyakoshi, T. Yokogawa, K. T. Chong, J. Taguchi, T. Muto, K. Endoh, W. Yano, T. Wakasa, H. Ueno, Y. Takao, A. Fujioka, A. Hashimoto, K. Itou, K. Yamamura, M. Nomura, H. Nagasawa, S. Shuto, M. Fukuoka
Discovery Of A Novel Class Of Potent Human Deoxyuridine Triphosphatase Inhibitors Remarkably Enhancing The Antitumo Activity Of Thymidylate Synthase Inhibitors
J. Med. Chem. V. 55 2970 2012
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 9)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
1f: MAGNESIUM ION (MGf)
2a: N-{5-[(2,4-DIOXO-3,4-DIHYDROPYRIMI... (MSJa)
2b: N-{5-[(2,4-DIOXO-3,4-DIHYDROPYRIMI... (MSJb)
2c: N-{5-[(2,4-DIOXO-3,4-DIHYDROPYRIMI... (MSJc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
6
Ligand/Ion
MAGNESIUM ION
2
MSJ
3
Ligand/Ion
N-{5-[(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)METHOXY]-2-METHYLPENTAN-2-YL}BENZENESULFONAMIDE
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:98 , GLY A:99 , VAL A:100 , TYR A:105 , VAL A:109 , GLY A:110 , VAL A:112 , HOH A:171 , HOH A:230 , HOH A:259 , SER C:86 , GLY C:87 , ALA C:90 , LYS C:91
BINDING SITE FOR RESIDUE MSJ A 165
2
AC2
SOFTWARE
ASP A:95 , HOH A:250 , HOH A:251 , ASP B:95 , HOH B:252 , HOH B:255 , ASP C:95 , HOH C:253
BINDING SITE FOR RESIDUE MG A 166
3
AC3
SOFTWARE
HIS A:92
BINDING SITE FOR RESIDUE MG A 167
4
AC4
SOFTWARE
GLU A:135 , GLU B:135 , HOH B:413 , GLU C:135
BINDING SITE FOR RESIDUE MG A 168
5
AC5
SOFTWARE
SER A:86 , GLY A:87 , ALA A:90 , LYS A:91 , ALA B:98 , GLY B:99 , VAL B:100 , TYR B:105 , VAL B:109 , GLY B:110 , VAL B:112 , HOH B:186 , HOH B:193 , HOH B:197
BINDING SITE FOR RESIDUE MSJ B 165
6
AC6
SOFTWARE
HIS A:34 , HOH A:401 , HIS B:34 , HIS C:34
BINDING SITE FOR RESIDUE MG B 166
7
AC7
SOFTWARE
HIS B:92
BINDING SITE FOR RESIDUE MG B 167
8
AC8
SOFTWARE
SER B:86 , GLY B:87 , ALA B:90 , LYS B:91 , VAL C:65 , ALA C:98 , GLY C:99 , VAL C:100 , TYR C:105 , VAL C:109 , GLY C:110 , VAL C:112 , HOH C:171 , HOH C:183 , HOH C:340
BINDING SITE FOR RESIDUE MSJ C 165
9
AC9
SOFTWARE
HIS C:92
BINDING SITE FOR RESIDUE MG C 166
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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Exons
(6, 18)
Info
All Exons
Exon 1.2b (A:24-52 | B:24-52 | C:24-52)
Exon 1.3 (A:52-83 | B:52-83 | C:52-83)
Exon 1.4 (A:83-98 | B:83-98 | C:83-98)
Exon 1.5 (A:98-123 | B:98-123 | C:98-123)
Exon 1.6 (A:123-146 | B:123-146 | C:123-146)
Exon 1.7b (A:147-148 | B:147-148 | C:147-148)
View:
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All Exon Boundaries
1: Boundary 1.1b/1.2b
2: Boundary 1.2b/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
6: Boundary 1.6/1.7b
7: Boundary 1.7b/-
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
1.1b
ENST00000331200
1b
ENSE00001487133
chr15:
48623621-48623992
372
DUT_HUMAN
1-94
94
0
-
-
1.2b
ENST00000331200
2b
ENSE00001789447
chr15:
48624465-48624603
139
DUT_HUMAN
94-140
47
3
A:24-52
B:24-52
C:24-52
29
29
29
1.3
ENST00000331200
3
ENSE00000686853
chr15:
48626614-48626705
92
DUT_HUMAN
140-171
32
3
A:52-83
B:52-83
C:52-83
32
32
32
1.4
ENST00000331200
4
ENSE00000686856
chr15:
48628243-48628287
45
DUT_HUMAN
171-186
16
3
A:83-98
B:83-98
C:83-98
16
16
16
1.5
ENST00000331200
5
ENSE00000686860
chr15:
48633486-48633560
75
DUT_HUMAN
186-211
26
3
A:98-123
B:98-123
C:98-123
26
26
26
1.6
ENST00000331200
6
ENSE00000884477
chr15:
48633712-48633782
71
DUT_HUMAN
211-234
24
3
A:123-146
B:123-146
C:123-146
24
24
24
1.7b
ENST00000331200
7b
ENSE00001030201
chr15:
48634219-48635570
1352
DUT_HUMAN
235-252
18
3
A:147-148
B:147-148
C:147-148
2
2
2
[
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SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d3arna_ (A:)
1b: SCOP_d3arnb_ (B:)
1c: SCOP_d3arnc_ (C:)
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)
Class
:
All beta proteins
(24004)
Fold
:
beta-clip
(280)
Superfamily
:
dUTPase-like
(122)
Family
:
automated matches
(51)
Protein domain
:
automated matches
(51)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d3arna_
A:
1b
d3arnb_
B:
1c
d3arnc_
C:
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
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Chain A
Chain B
Chain C
Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Asym.Unit (76 KB)
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