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4E1V
Asym. Unit
Info
Asym.Unit (719 KB)
Biol.Unit 1 (469 KB)
Biol.Unit 2 (472 KB)
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(1)
Title
:
X-RAY STRUCTURE OF THE URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM IN COMPLEX WITH 5-FLUOROURACIL AT 2.15 A RESOLUTION
Authors
:
A. A. Lashkov, S. E. Sotnichenko, I. I. Prokofev, A. G. Gabdoulkhakov, A. M. Mikhailov
Date
:
07 Mar 12 (Deposition) - 06 Mar 13 (Release) - 06 Mar 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I (2x)
Keywords
:
Rossmann Fold, Drug Metabolism, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Lashkov, S. E. Sotnichenko, I. I. Prokofiev, A. G. Gabdulkhakov, I. I. Agapov, A. A. Shtil, C. Betzel, A. S. Mironov, A. M. Mikhailov
X-Ray Structure Of Salmonella Typhimurium Uridine Phosphorylase Complexed With 5-Fluorouracil And Molecular Modelling Of The Complex Of 5-Fluorouracil With Uridine Phosphorylase From Vibrio Cholerae.
Acta Crystallogr. , Sect. D V. 68 968 2012
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 17)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
3c: POTASSIUM ION (Kc)
4a: 5-FLUOROURACIL (URFa)
4b: 5-FLUOROURACIL (URFb)
4c: 5-FLUOROURACIL (URFc)
4d: 5-FLUOROURACIL (URFd)
4e: 5-FLUOROURACIL (URFe)
4f: 5-FLUOROURACIL (URFf)
4g: 5-FLUOROURACIL (URFg)
4h: 5-FLUOROURACIL (URFh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
5
Ligand/Ion
GLYCEROL
3
K
3
Ligand/Ion
POTASSIUM ION
4
URF
8
Ligand/Ion
5-FLUOROURACIL
[
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]
Sites
(17, 17)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:1095 , GLY A:1096 , PHE A:1162 , GLN A:1166 , ARG A:1168 , GLU A:1196 , MET A:1197 , ILE A:1220 , VAL A:1221 , GOL A:1302 , HOH A:1410
BINDING SITE FOR RESIDUE URF A 1301
02
AC2
SOFTWARE
THR A:1094 , GLU A:1196 , MET A:1197 , GLU A:1198 , URF A:1301 , HOH A:1454
BINDING SITE FOR RESIDUE GOL A 1302
03
AC3
SOFTWARE
GLU A:1049 , ILE A:1069 , SER A:1073 , GLU B:1049 , ILE B:1069 , SER B:1073
BINDING SITE FOR RESIDUE K A 1303
04
AC4
SOFTWARE
THR E:1094 , THR E:1095 , GLY E:1096 , PHE E:1162 , GLN E:1166 , ARG E:1168 , GLU E:1196 , MET E:1197 , ILE E:1220 , VAL E:1221 , PRO E:1229 , GOL E:1302 , HOH E:1411
BINDING SITE FOR RESIDUE URF E 1301
05
AC5
SOFTWARE
THR E:1094 , GLU E:1196 , MET E:1197 , GLU E:1198 , URF E:1301 , HOH E:1456
BINDING SITE FOR RESIDUE GOL E 1302
06
AC6
SOFTWARE
GLU E:1049 , ILE E:1069 , SER E:1073 , GLU F:1049 , ILE F:1069 , SER F:1073
BINDING SITE FOR RESIDUE K E 1303
07
AC7
SOFTWARE
THR F:1095 , GLY F:1096 , GLN F:1166 , ARG F:1168 , TYR F:1195 , GLU F:1196 , MET F:1197 , ILE F:1220 , VAL F:1221 , GOL F:1302 , HOH F:1409
BINDING SITE FOR RESIDUE URF F 1301
08
AC8
SOFTWARE
THR F:1094 , GLU F:1196 , MET F:1197 , GLU F:1198 , URF F:1301 , HOH F:1461
BINDING SITE FOR RESIDUE GOL F 1302
09
AC9
SOFTWARE
THR D:1095 , GLY D:1096 , PHE D:1162 , GLN D:1166 , ARG D:1168 , GLU D:1196 , MET D:1197 , ILE D:1220 , VAL D:1221 , HOH D:1447
BINDING SITE FOR RESIDUE URF D 1301
10
BC1
SOFTWARE
GLU C:1049 , ILE C:1069 , SER C:1073 , GLU D:1049 , ILE D:1069 , SER D:1073
BINDING SITE FOR RESIDUE K D 1302
11
BC2
SOFTWARE
THR C:1095 , GLY C:1096 , PHE C:1162 , GLN C:1166 , ARG C:1168 , GLU C:1196 , MET C:1197 , ILE C:1220 , VAL C:1221 , GOL C:1303 , HOH C:1414
BINDING SITE FOR RESIDUE URF C 1301
12
BC3
SOFTWARE
ARG C:1179 , HOH C:1409 , HOH C:1425 , LEU D:1121
BINDING SITE FOR RESIDUE EDO C 1302
13
BC4
SOFTWARE
THR C:1094 , GLU C:1196 , MET C:1197 , GLU C:1198 , URF C:1301 , HOH C:1448 , HIS D:1008
BINDING SITE FOR RESIDUE GOL C 1303
14
BC5
SOFTWARE
THR B:1095 , GLY B:1096 , GLN B:1166 , ARG B:1168 , TYR B:1195 , GLU B:1196 , MET B:1197 , ILE B:1220 , VAL B:1221 , PRO B:1229 , GOL B:1302 , HOH B:1415
BINDING SITE FOR RESIDUE URF B 1301
15
BC6
SOFTWARE
THR B:1094 , GLU B:1196 , MET B:1197 , GLU B:1198 , URF B:1301
BINDING SITE FOR RESIDUE GOL B 1302
16
BC7
SOFTWARE
THR H:1094 , THR H:1095 , GLY H:1096 , PHE H:1162 , GLN H:1166 , ARG H:1168 , GLU H:1196 , MET H:1197 , ILE H:1220 , VAL H:1221
BINDING SITE FOR RESIDUE URF H 1301
17
BC8
SOFTWARE
THR G:1095 , GLY G:1096 , PHE G:1162 , GLN G:1166 , ARG G:1168 , MET G:1197 , ILE G:1220 , VAL G:1221 , PRO G:1229
BINDING SITE FOR RESIDUE URF G 1301
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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
(1, 9)
Info
All PROSITE Patterns/Profiles
1: PNP_UDP_1 (A:1066-1081,B:1066-1081,C:1066-108...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PNP_UDP_1
PS01232
Purine and other phosphorylases family 1 signature.
UDP_SALTY
66-81
9
A:1066-1081
B:1066-1081
C:1066-1081
D:1066-1081
E:1066-1081
F:1066-1081
G:1066-1081
H:1066-1081
I:1066-1081
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 9)
Info
All SCOP Domains
1a: SCOP_d4e1va_ (A:)
1b: SCOP_d4e1vb_ (B:)
1c: SCOP_d4e1vc_ (C:)
1d: SCOP_d4e1vd_ (D:)
1e: SCOP_d4e1ve_ (E:)
1f: SCOP_d4e1vf_ (F:)
1g: SCOP_d4e1vg_ (G:)
1h: SCOP_d4e1vh_ (H:)
1i: SCOP_d4e1vi_ (I:)
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Protein Domains
(
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(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Phosphorylase/hydrolase-like
(558)
Superfamily
:
Purine and uridine phosphorylases
(283)
Family
:
Purine and uridine phosphorylases
(224)
Protein domain
:
Uridine phosphorylase
(42)
Salmonella typhimurium [TaxId: 90371]
(23)
1a
d4e1va_
A:
1b
d4e1vb_
B:
1c
d4e1vc_
C:
1d
d4e1vd_
D:
1e
d4e1ve_
E:
1f
d4e1vf_
F:
1g
d4e1vg_
G:
1h
d4e1vh_
H:
1i
d4e1vi_
I:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (719 KB)
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