PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1RXS
Asym. Unit
Info
Asym.Unit (1.1 MB)
Biol.Unit 1 (244 KB)
Biol.Unit 2 (246 KB)
Biol.Unit 3 (243 KB)
Biol.Unit 4 (244 KB)
Biol.Unit 5 (246 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
E. COLI URIDINE PHOSPHORYLASE: 2'-DEOXYURIDINE PHOSPHATE COMPLEX
Authors
:
T. T. Caradoc-Davies, S. M. Cutfield, I. L. Lamont, J. F. Cutfield
Date
:
18 Dec 03 (Deposition) - 13 Apr 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,a,b,c,d,e,h,i,j,k,l,m,o
Biol. Unit 1: A,B,C,a,b,c (1x)
Biol. Unit 2: D,E,F,R,d,e (1x)
Biol. Unit 3: G,H,I,P,h,i (1x)
Biol. Unit 4: J,K,L,j,k,l (1x)
Biol. Unit 5: M,N,O,Q,m,o (1x)
Keywords
:
Pentosyltransferase, Uridine Phosphorylase, 2'-Deoxyuridine, Induced Fit, Specificity, Potassium, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. T. Caradoc-Davies, S. M. Cutfield, I. L. Lamont, J. F. Cutfield
Crystal Structures Of Escherichia Coli Uridine Phosphorylas In Two Native And Three Complexed Forms Reveal Basis Of Substrate Specificity, Induced Conformational Changes And Influence Of Potassium
J. Mol. Biol. V. 337 337 2004
[
close entry info
]
Hetero Components
(4, 85)
Info
All Hetero Components
1a: 2'-DEOXYURIDINE (DURa)
1b: 2'-DEOXYURIDINE (DURb)
1c: 2'-DEOXYURIDINE (DURc)
1d: 2'-DEOXYURIDINE (DURd)
1e: 2'-DEOXYURIDINE (DURe)
1f: 2'-DEOXYURIDINE (DURf)
1g: 2'-DEOXYURIDINE (DURg)
1h: 2'-DEOXYURIDINE (DURh)
1i: 2'-DEOXYURIDINE (DURi)
1j: 2'-DEOXYURIDINE (DURj)
1k: 2'-DEOXYURIDINE (DURk)
1l: 2'-DEOXYURIDINE (DURl)
1m: 2'-DEOXYURIDINE (DURm)
1n: 2'-DEOXYURIDINE (DURn)
1o: 2'-DEOXYURIDINE (DURo)
1p: 2'-DEOXYURIDINE (DURp)
1q: 2'-DEOXYURIDINE (DURq)
1r: 2'-DEOXYURIDINE (DURr)
1s: 2'-DEOXYURIDINE (DURs)
1t: 2'-DEOXYURIDINE (DURt)
1u: 2'-DEOXYURIDINE (DURu)
1v: 2'-DEOXYURIDINE (DURv)
1w: 2'-DEOXYURIDINE (DURw)
1x: 2'-DEOXYURIDINE (DURx)
1y: 2'-DEOXYURIDINE (DURy)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
2c: POTASSIUM ION (Kc)
2d: POTASSIUM ION (Kd)
2e: POTASSIUM ION (Ke)
2f: POTASSIUM ION (Kf)
2g: POTASSIUM ION (Kg)
2h: POTASSIUM ION (Kh)
2i: POTASSIUM ION (Ki)
2j: POTASSIUM ION (Kj)
2k: POTASSIUM ION (Kk)
2l: POTASSIUM ION (Kl)
2m: POTASSIUM ION (Km)
2n: POTASSIUM ION (Kn)
2o: POTASSIUM ION (Ko)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
3d: PHOSPHATE ION (PO4d)
3e: PHOSPHATE ION (PO4e)
3f: PHOSPHATE ION (PO4f)
3g: PHOSPHATE ION (PO4g)
3h: PHOSPHATE ION (PO4h)
3i: PHOSPHATE ION (PO4i)
3j: PHOSPHATE ION (PO4j)
3k: PHOSPHATE ION (PO4k)
3l: PHOSPHATE ION (PO4l)
3m: PHOSPHATE ION (PO4m)
3n: PHOSPHATE ION (PO4n)
3o: PHOSPHATE ION (PO4o)
3p: PHOSPHATE ION (PO4p)
3q: PHOSPHATE ION (PO4q)
3r: PHOSPHATE ION (PO4r)
3s: PHOSPHATE ION (PO4s)
3t: PHOSPHATE ION (PO4t)
3u: PHOSPHATE ION (PO4u)
3v: PHOSPHATE ION (PO4v)
3w: PHOSPHATE ION (PO4w)
3x: PHOSPHATE ION (PO4x)
3y: PHOSPHATE ION (PO4y)
4a: META VANADATE (V7Oa)
4b: META VANADATE (V7Ob)
4c: META VANADATE (V7Oc)
4d: META VANADATE (V7Od)
4e: META VANADATE (V7Oe)
4f: META VANADATE (V7Of)
4g: META VANADATE (V7Og)
4h: META VANADATE (V7Oh)
4i: META VANADATE (V7Oi)
4j: META VANADATE (V7Oj)
4k: META VANADATE (V7Ok)
4l: META VANADATE (V7Ol)
4m: META VANADATE (V7Om)
4n: META VANADATE (V7On)
4o: META VANADATE (V7Oo)
4p: META VANADATE (V7Op)
4q: META VANADATE (V7Oq)
4r: META VANADATE (V7Or)
4s: META VANADATE (V7Os)
4t: META VANADATE (V7Ot)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DUR
25
Ligand/Ion
2'-DEOXYURIDINE
2
K
15
Ligand/Ion
POTASSIUM ION
3
PO4
25
Ligand/Ion
PHOSPHATE ION
4
V7O
20
Ligand/Ion
META VANADATE
[
close Hetero Component info
]
Sites
(85, 85)
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)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
63: GC9 (SOFTWARE)
64: HC1 (SOFTWARE)
65: HC2 (SOFTWARE)
66: HC3 (SOFTWARE)
67: HC4 (SOFTWARE)
68: HC5 (SOFTWARE)
69: HC6 (SOFTWARE)
70: HC7 (SOFTWARE)
71: HC8 (SOFTWARE)
72: HC9 (SOFTWARE)
73: IC1 (SOFTWARE)
74: IC2 (SOFTWARE)
75: IC3 (SOFTWARE)
76: IC4 (SOFTWARE)
77: IC5 (SOFTWARE)
78: IC6 (SOFTWARE)
79: IC7 (SOFTWARE)
80: IC8 (SOFTWARE)
81: IC9 (SOFTWARE)
82: JC1 (SOFTWARE)
83: JC2 (SOFTWARE)
84: JC3 (SOFTWARE)
85: JC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY B:1026 , ARG B:1030 , ARG B:1091 , ILE B:1092 , GLY B:1093 , THR B:1094 , DUR B:2012 , ARG b:2048
BINDING SITE FOR RESIDUE PO4 B 2011
02
AC2
SOFTWARE
GLY C:1026 , ARG C:1030 , ARG C:1091 , ILE C:1092 , GLY C:1093 , THR C:1094 , GLU C:1198 , DUR C:2022 , ARG c:2048
BINDING SITE FOR RESIDUE PO4 C 2021
03
AC3
SOFTWARE
GLY D:1026 , ARG D:1030 , ARG D:1091 , THR D:1094 , DUR D:2032 , ARG d:3048
BINDING SITE FOR RESIDUE PO4 D 2031
04
AC4
SOFTWARE
GLY E:1026 , ARG E:1030 , ARG E:1091 , ILE E:1092 , GLY E:1093 , THR E:1094 , GLU E:1198 , DUR E:2042 , ARG e:2048
BINDING SITE FOR RESIDUE PO4 E 2041
05
AC5
SOFTWARE
GLY F:1026 , ARG F:1030 , ARG F:1091 , GLY F:1093 , THR F:1094 , DUR F:2052 , ARG R:1048
BINDING SITE FOR RESIDUE PO4 F 2051
06
AC6
SOFTWARE
GLY H:1026 , ARG H:1030 , ARG H:1091 , ILE H:1092 , GLY H:1093 , THR H:1094 , DUR H:2062 , ARG h:2048
BINDING SITE FOR RESIDUE PO4 H 2061
07
AC7
SOFTWARE
ARG I:2048 , GLY i:1026 , ARG i:1030 , ARG i:1091 , ILE i:1092 , GLY i:1093 , THR i:1094 , DUR i:2072
BINDING SITE FOR RESIDUE PO4 i 2071
08
AC8
SOFTWARE
GLY J:1026 , ARG J:1030 , ARG J:1091 , GLY J:1093 , THR J:1094 , DUR J:2082 , ARG j:2048
BINDING SITE FOR RESIDUE PO4 J 2081
09
AC9
SOFTWARE
GLY K:1026 , ARG K:1030 , ARG K:1091 , THR K:1094 , GLU K:1198 , DUR K:2092 , ARG k:2048
BINDING SITE FOR RESIDUE PO4 K 2091
10
BC1
SOFTWARE
GLY N:1026 , ARG N:1030 , ARG N:1091 , ILE N:1092 , GLY N:1093 , THR N:1094 , DUR N:2102 , ARG Q:1048
BINDING SITE FOR RESIDUE PO4 N 2101
11
BC2
SOFTWARE
GLY O:1026 , ARG O:1030 , ARG O:1091 , GLY O:1093 , THR O:1094 , DUR O:2112 , ARG o:3048
BINDING SITE FOR RESIDUE PO4 O 2111
12
BC3
SOFTWARE
ARG N:1048 , GLY Q:1026 , ARG Q:1030 , ARG Q:1091 , ILE Q:1092 , GLY Q:1093 , THR Q:1094 , DUR Q:2122
BINDING SITE FOR RESIDUE PO4 Q 2121
13
BC4
SOFTWARE
ARG F:1048 , GLY R:1026 , ARG R:1030 , ARG R:1091 , THR R:1094 , DUR R:2132
BINDING SITE FOR RESIDUE PO4 R 2131
14
BC5
SOFTWARE
ARG A:3048 , GLY a:2026 , ARG a:2030 , ARG a:2091 , ILE a:2092 , GLY a:2093 , THR a:2094 , DUR a:3012
BINDING SITE FOR RESIDUE PO4 a 3011
15
BC6
SOFTWARE
ARG B:1048 , GLY b:2026 , ARG b:2030 , ARG b:2091 , ILE b:2092 , GLY b:2093 , THR b:2094 , DUR b:3022
BINDING SITE FOR RESIDUE PO4 b 3021
16
BC7
SOFTWARE
ARG C:1048 , GLY c:2026 , ARG c:2030 , ARG c:2091 , ILE c:2092 , GLY c:2093 , THR c:2094 , DUR c:3032
BINDING SITE FOR RESIDUE PO4 c 3031
17
BC8
SOFTWARE
ARG E:1048 , GLY e:2026 , ARG e:2030 , ARG e:2091 , ILE e:2092 , GLY e:2093 , THR e:2094 , DUR e:3042
BINDING SITE FOR RESIDUE PO4 e 3041
18
BC9
SOFTWARE
GLY G:2026 , ARG G:2030 , ARG G:2091 , ILE G:2092 , GLY G:2093 , THR G:2094 , DUR G:3052 , ARG P:2048
BINDING SITE FOR RESIDUE PO4 G 3051
19
CC1
SOFTWARE
ARG H:1048 , GLY h:2026 , ARG h:2030 , ARG h:2091 , ILE h:2092 , GLY h:2093 , THR h:2094 , DUR h:3062
BINDING SITE FOR RESIDUE PO4 h 3061
20
CC2
SOFTWARE
GLY I:2026 , ARG I:2030 , ARG I:2091 , ILE I:2092 , GLY I:2093 , THR I:2094 , DUR I:3072 , ARG i:1048
BINDING SITE FOR RESIDUE PO4 I 3071
21
CC3
SOFTWARE
ARG J:1048 , GLY j:2026 , ARG j:2030 , ARG j:2091 , ILE j:2092 , GLY j:2093 , THR j:2094 , DUR j:3082
BINDING SITE FOR RESIDUE PO4 j 3081
22
CC4
SOFTWARE
ARG K:1048 , GLY k:2026 , ARG k:2030 , ARG k:2091 , ILE k:2092 , GLY k:2093 , THR k:2094 , DUR k:3092
BINDING SITE FOR RESIDUE PO4 k 3091
23
CC5
SOFTWARE
ARG L:3048 , GLY l:2026 , ARG l:2030 , ARG l:2091 , ILE l:2092 , GLY l:2093 , THR l:2094 , DUR l:3102
BINDING SITE FOR RESIDUE PO4 l 3101
24
CC6
SOFTWARE
GLY M:2026 , ARG M:2030 , ARG M:2091 , ILE M:2092 , GLY M:2093 , THR M:2094 , DUR M:3112 , ARG m:3048
BINDING SITE FOR RESIDUE PO4 M 3111
25
CC7
SOFTWARE
ARG G:2048 , GLY P:2026 , ARG P:2030 , ARG P:2091 , ILE P:2092 , GLY P:2093 , THR P:2094 , DUR P:3122
BINDING SITE FOR RESIDUE PO4 P 3121
26
CC8
SOFTWARE
GLU A:3049 , ILE A:3069 , SER A:3073 , GLU a:2049 , ILE a:2069 , SER a:2073
BINDING SITE FOR RESIDUE K A 4011
27
CC9
SOFTWARE
GLU B:1049 , ILE B:1069 , SER B:1073 , GLU b:2049 , ILE b:2069 , SER b:2073
BINDING SITE FOR RESIDUE K B 4021
28
DC1
SOFTWARE
GLU C:1049 , ILE C:1069 , SER C:1073 , GLU c:2049 , ILE c:2069 , SER c:2073
BINDING SITE FOR RESIDUE K C 4031
29
DC2
SOFTWARE
GLU D:1049 , ILE D:1069 , SER D:1073 , GLU d:3049 , ILE d:3069 , SER d:3073
BINDING SITE FOR RESIDUE K D 4041
30
DC3
SOFTWARE
GLU E:1049 , ILE E:1069 , SER E:1073 , GLU e:2049 , ILE e:2069 , SER e:2073
BINDING SITE FOR RESIDUE K E 4051
31
DC4
SOFTWARE
GLU F:1049 , ILE F:1069 , SER F:1073 , GLU R:1049 , ILE R:1069 , SER R:1073
BINDING SITE FOR RESIDUE K R 4061
32
DC5
SOFTWARE
GLU G:2049 , ILE G:2069 , SER G:2073 , GLU P:2049 , ILE P:2069 , SER P:2073
BINDING SITE FOR RESIDUE K G 4071
33
DC6
SOFTWARE
GLU H:1049 , ILE H:1069 , SER H:1073 , GLU h:2049 , ILE h:2069 , SER h:2073
BINDING SITE FOR RESIDUE K h 4081
34
DC7
SOFTWARE
GLU I:2049 , ILE I:2069 , SER I:2073 , GLU i:1049 , ILE i:1069 , SER i:1073
BINDING SITE FOR RESIDUE K i 4091
35
DC8
SOFTWARE
GLU J:1049 , ILE J:1069 , SER J:1073 , GLU j:2049 , ILE j:2069 , SER j:2073
BINDING SITE FOR RESIDUE K J 4101
36
DC9
SOFTWARE
GLU K:1049 , ILE K:1069 , SER K:1073 , GLU k:2049 , ILE k:2069 , SER k:2073
BINDING SITE FOR RESIDUE K K 4111
37
EC1
SOFTWARE
GLU L:3049 , ILE L:3069 , SER L:3073 , GLU l:2049 , ILE l:2069 , SER l:2073
BINDING SITE FOR RESIDUE K L 4121
38
EC2
SOFTWARE
GLU M:2049 , ILE M:2069 , SER M:2073 , GLU m:3049 , ILE m:3069 , SER m:3073
BINDING SITE FOR RESIDUE K M 4131
39
EC3
SOFTWARE
GLU N:1049 , ILE N:1069 , SER N:1073 , GLU Q:1049 , ILE Q:1069 , SER Q:1073
BINDING SITE FOR RESIDUE K N 4141
40
EC4
SOFTWARE
GLU O:1049 , ILE O:1069 , SER O:1073 , GLU o:3049 , ILE o:3069 , SER o:3073
BINDING SITE FOR RESIDUE K o 4151
41
EC5
SOFTWARE
THR B:1094 , THR B:1095 , GLY B:1096 , PHE B:1162 , GLN B:1166 , ARG B:1168 , TYR B:1195 , GLU B:1196 , MET B:1197 , GLU B:1198 , PO4 B:2011 , HIS b:2008
BINDING SITE FOR RESIDUE DUR B 2012
42
EC6
SOFTWARE
ILE C:1069 , THR C:1094 , PHE C:1162 , GLN C:1166 , ARG C:1168 , GLU C:1196 , MET C:1197 , GLU C:1198 , PO4 C:2021 , HIS c:2008
BINDING SITE FOR RESIDUE DUR C 2022
43
EC7
SOFTWARE
HOH D:328 , ILE D:1069 , GLN D:1166 , ARG D:1168 , GLU D:1196 , MET D:1197 , GLU D:1198 , PO4 D:2031 , HIS d:3008
BINDING SITE FOR RESIDUE DUR D 2032
44
EC8
SOFTWARE
HOH E:437 , ILE E:1069 , THR E:1094 , THR E:1095 , GLY E:1096 , GLN E:1166 , ARG E:1168 , TYR E:1195 , GLU E:1196 , MET E:1197 , GLU E:1198 , PO4 E:2041 , HIS e:2008
BINDING SITE FOR RESIDUE DUR E 2042
45
EC9
SOFTWARE
HOH F:541 , ILE F:1069 , GLY F:1096 , PHE F:1162 , GLN F:1166 , ARG F:1168 , GLU F:1196 , MET F:1197 , GLU F:1198 , PO4 F:2051 , HIS R:1008
BINDING SITE FOR RESIDUE DUR F 2052
46
FC1
SOFTWARE
HOH H:749 , ILE H:1069 , THR H:1094 , GLY H:1096 , PHE H:1162 , GLN H:1166 , ARG H:1168 , GLU H:1196 , MET H:1197 , GLU H:1198 , PO4 H:2061 , HIS h:2008
BINDING SITE FOR RESIDUE DUR H 2062
47
FC2
SOFTWARE
HIS I:2008 , THR i:1094 , GLY i:1096 , GLN i:1166 , ARG i:1168 , GLU i:1196 , MET i:1197 , GLU i:1198 , PO4 i:2071
BINDING SITE FOR RESIDUE DUR i 2072
48
FC3
SOFTWARE
ILE J:1069 , THR J:1094 , GLY J:1096 , PHE J:1162 , GLN J:1166 , ARG J:1168 , GLU J:1196 , MET J:1197 , GLU J:1198 , PO4 J:2081 , HIS j:2008
BINDING SITE FOR RESIDUE DUR J 2082
49
FC4
SOFTWARE
ILE K:1069 , THR K:1094 , GLY K:1096 , PHE K:1162 , GLN K:1166 , ARG K:1168 , GLU K:1196 , MET K:1197 , GLU K:1198 , PO4 K:2091 , HIS k:2008
BINDING SITE FOR RESIDUE DUR K 2092
50
FC5
SOFTWARE
ILE N:1069 , THR N:1094 , GLY N:1096 , GLN N:1166 , ARG N:1168 , GLU N:1196 , MET N:1197 , GLU N:1198 , PO4 N:2101 , HIS Q:1008
BINDING SITE FOR RESIDUE DUR N 2102
51
FC6
SOFTWARE
THR O:1094 , GLY O:1096 , GLN O:1166 , ARG O:1168 , GLU O:1196 , MET O:1197 , GLU O:1198 , HOH O:1485 , PO4 O:2111 , HIS o:3008
BINDING SITE FOR RESIDUE DUR O 2112
52
FC7
SOFTWARE
HIS N:1008 , GLY Q:1096 , PHE Q:1162 , GLN Q:1166 , ARG Q:1168 , TYR Q:1195 , GLU Q:1196 , MET Q:1197 , GLU Q:1198 , HOH Q:1432 , PO4 Q:2121
BINDING SITE FOR RESIDUE DUR Q 2122
53
FC8
SOFTWARE
HIS F:1008 , ILE R:1069 , THR R:1094 , GLY R:1096 , PHE R:1162 , GLN R:1166 , ARG R:1168 , GLU R:1196 , MET R:1197 , GLU R:1198 , PO4 R:2131
BINDING SITE FOR RESIDUE DUR R 2132
54
FC9
SOFTWARE
HIS A:3008 , HOH a:67 , ILE a:2069 , THR a:2094 , THR a:2095 , GLY a:2096 , PHE a:2162 , GLN a:2166 , ARG a:2168 , GLU a:2196 , MET a:2197 , GLU a:2198 , VAL a:2221 , PO4 a:3011
BINDING SITE FOR RESIDUE DUR a 3012
55
GC1
SOFTWARE
HIS B:1008 , HOH b:171 , ILE b:2069 , THR b:2094 , THR b:2095 , GLY b:2096 , PHE b:2162 , GLN b:2166 , ARG b:2168 , GLU b:2196 , MET b:2197 , GLU b:2198 , VAL b:2221 , PO4 b:3021
BINDING SITE FOR RESIDUE DUR b 3022
56
GC2
SOFTWARE
HIS C:1008 , HOH c:275 , ILE c:2069 , THR c:2094 , THR c:2095 , GLY c:2096 , PHE c:2162 , GLN c:2166 , ARG c:2168 , TYR c:2195 , GLU c:2196 , MET c:2197 , GLU c:2198 , VAL c:2221 , PO4 c:3031
BINDING SITE FOR RESIDUE DUR c 3032
57
GC3
SOFTWARE
HIS E:1008 , HOH e:488 , ILE e:2069 , THR e:2094 , GLY e:2096 , PHE e:2162 , GLN e:2166 , ARG e:2168 , GLU e:2196 , MET e:2197 , GLU e:2198 , VAL e:2221 , PO4 e:3041
BINDING SITE FOR RESIDUE DUR e 3042
58
GC4
SOFTWARE
HOH G:645 , THR G:2094 , THR G:2095 , GLY G:2096 , PHE G:2162 , GLN G:2166 , ARG G:2168 , GLU G:2196 , MET G:2197 , GLU G:2198 , PO4 G:3051 , HIS P:2008
BINDING SITE FOR RESIDUE DUR G 3052
59
GC5
SOFTWARE
HIS H:1008 , HOH h:800 , THR h:2094 , THR h:2095 , GLY h:2096 , PHE h:2162 , GLN h:2166 , ARG h:2168 , GLU h:2196 , MET h:2197 , GLU h:2198 , VAL h:2221 , PO4 h:3061
BINDING SITE FOR RESIDUE DUR h 3062
60
GC6
SOFTWARE
HOH I:851 , ILE I:2069 , THR I:2094 , GLY I:2096 , PHE I:2162 , GLN I:2166 , ARG I:2168 , GLU I:2196 , MET I:2197 , GLU I:2198 , VAL I:2221 , PO4 I:3071 , HIS i:1008
BINDING SITE FOR RESIDUE DUR I 3072
61
GC7
SOFTWARE
HIS J:1008 , HOH j:1008 , ILE j:2069 , THR j:2094 , THR j:2095 , GLY j:2096 , PHE j:2162 , GLN j:2166 , ARG j:2168 , GLU j:2196 , MET j:2197 , GLU j:2198 , VAL j:2221 , PO4 j:3081
BINDING SITE FOR RESIDUE DUR j 3082
62
GC8
SOFTWARE
HIS K:1008 , HOH k:1112 , ILE k:2069 , THR k:2094 , THR k:2095 , GLY k:2096 , PHE k:2162 , GLN k:2166 , ARG k:2168 , GLU k:2196 , MET k:2197 , GLU k:2198 , VAL k:2221 , PO4 k:3091
BINDING SITE FOR RESIDUE DUR k 3092
63
GC9
SOFTWARE
HIS L:3008 , HOH l:1219 , THR l:2094 , THR l:2095 , GLY l:2096 , PHE l:2162 , GLN l:2166 , ARG l:2168 , GLU l:2196 , MET l:2197 , GLU l:2198 , PO4 l:3101
BINDING SITE FOR RESIDUE DUR l 3102
64
HC1
SOFTWARE
HOH M:1270 , ILE M:2069 , THR M:2094 , THR M:2095 , GLY M:2096 , PHE M:2162 , GLN M:2166 , ARG M:2168 , GLU M:2196 , MET M:2197 , GLU M:2198 , VAL M:2221 , PO4 M:3111 , HIS m:3008
BINDING SITE FOR RESIDUE DUR M 3112
65
HC2
SOFTWARE
HIS G:2008 , HOH P:696 , ILE P:2069 , THR P:2094 , THR P:2095 , GLY P:2096 , PHE P:2162 , GLN P:2166 , ARG P:2168 , GLU P:2196 , MET P:2197 , GLU P:2198 , PO4 P:3121
BINDING SITE FOR RESIDUE DUR P 3122
66
HC3
SOFTWARE
HIS A:3179 , HIS B:1179 , V7O B:5012 , HIS C:1179
BINDING SITE FOR RESIDUE V7O A 5011
67
HC4
SOFTWARE
ARG A:3178 , V7O A:5011 , ARG B:1178 , HIS B:1179 , ARG C:1178 , HIS C:1179
BINDING SITE FOR RESIDUE V7O B 5012
68
HC5
SOFTWARE
ARG a:2178 , HIS a:2179 , ARG b:2178 , HIS b:2179 , ARG c:2178 , HIS c:2179 , V7O c:5014
BINDING SITE FOR RESIDUE V7O b 5013
69
HC6
SOFTWARE
HIS a:2179 , HIS b:2179 , V7O b:5013 , HIS c:2179
BINDING SITE FOR RESIDUE V7O c 5014
70
HC7
SOFTWARE
HIS D:1179 , V7O D:5022 , HIS E:1179 , HIS F:1179
BINDING SITE FOR RESIDUE V7O D 5021
71
HC8
SOFTWARE
ARG D:1178 , HIS D:1179 , V7O D:5021 , ARG E:1178 , HIS E:1179 , ARG F:1178 , HIS F:1179
BINDING SITE FOR RESIDUE V7O D 5022
72
HC9
SOFTWARE
ARG R:1178 , HIS R:1179 , V7O R:5024 , ARG d:3178 , HIS d:3179 , ARG e:2178 , HIS e:2179
BINDING SITE FOR RESIDUE V7O e 5023
73
IC1
SOFTWARE
HIS R:1179 , HIS d:3179 , V7O e:5023
BINDING SITE FOR RESIDUE V7O R 5024
74
IC2
SOFTWARE
ARG G:2178 , HIS G:2179 , HIS H:1179 , HIS I:2179 , V7O I:5032
BINDING SITE FOR RESIDUE V7O H 5031
75
IC3
SOFTWARE
ARG G:2178 , HIS G:2179 , ARG H:1178 , HIS H:1179 , V7O H:5031 , ARG I:2178 , HIS I:2179
BINDING SITE FOR RESIDUE V7O I 5032
76
IC4
SOFTWARE
ARG P:2178 , HIS P:2179 , ARG h:2178 , HIS h:2179 , ARG i:1178 , HIS i:1179 , V7O i:5034
BINDING SITE FOR RESIDUE V7O h 5033
77
IC5
SOFTWARE
HIS P:2179 , HIS h:2179 , V7O h:5033 , HIS i:1179
BINDING SITE FOR RESIDUE V7O i 5034
78
IC6
SOFTWARE
HIS J:1179 , V7O J:5042 , HIS K:1179 , HIS L:3179
BINDING SITE FOR RESIDUE V7O L 5041
79
IC7
SOFTWARE
ARG J:1178 , ARG K:1178 , HIS K:1179 , ARG L:3178 , V7O L:5041
BINDING SITE FOR RESIDUE V7O J 5042
80
IC8
SOFTWARE
HIS j:2179 , V7O j:5044 , ARG k:2178 , HIS k:2179 , ARG l:2178 , HIS l:2179
BINDING SITE FOR RESIDUE V7O k 5043
81
IC9
SOFTWARE
HIS j:2179 , HIS k:2179 , V7O k:5043 , HIS l:2179
BINDING SITE FOR RESIDUE V7O j 5044
82
JC1
SOFTWARE
HIS M:2179 , V7O M:5052 , HIS N:1179 , HIS O:1179
BINDING SITE FOR RESIDUE V7O M 5051
83
JC2
SOFTWARE
ARG M:2178 , HIS M:2179 , V7O M:5051 , ARG N:1178 , ARG O:1178 , HIS O:1179
BINDING SITE FOR RESIDUE V7O M 5052
84
JC3
SOFTWARE
ARG Q:1178 , HIS Q:1179 , ARG m:3178 , HIS m:3179 , ARG o:3178 , HIS o:3179 , V7O o:5054
BINDING SITE FOR RESIDUE V7O Q 5053
85
JC4
SOFTWARE
V7O Q:5053 , HIS m:3179 , HIS o:3179
BINDING SITE FOR RESIDUE V7O o 5054
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 30)
Info
All PROSITE Patterns/Profiles
1: PNP_UDP_1 (A:3066-3081,B:1066-1081,C:1066-108...)
;
View:
Select:
Label:
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_ECOLI
66-81
30
A:3066-3081
B:1066-1081
C:1066-1081
D:1066-1081
E:1066-1081
F:1066-1081
G:2066-2081
H:1066-1081
I:2066-2081
J:1066-1081
K:1066-1081
L:3066-3081
M:2066-2081
N:1066-1081
O:1066-1081
P:2066-2081
Q:1066-1081
R:1066-1081
a:2066-2081
b:2066-2081
c:2066-2081
d:3066-3081
e:2066-2081
h:2066-2081
i:1066-1081
j:2066-2081
k:2066-2081
l:2066-2081
m:3066-3081
o:3066-3081
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 18)
Info
All SCOP Domains
1a: SCOP_d1rxsa_ (A:)
1b: SCOP_d1rxsb_ (B:)
1c: SCOP_d1rxsc_ (C:)
1d: SCOP_d1rxsd_ (D:)
1e: SCOP_d1rxse_ (E:)
1f: SCOP_d1rxsf_ (F:)
1g: SCOP_d1rxsg_ (G:)
1h: SCOP_d1rxsh_ (H:)
1i: SCOP_d1rxsi_ (I:)
1j: SCOP_d1rxsj_ (J:)
1k: SCOP_d1rxsk_ (K:)
1l: SCOP_d1rxsl_ (L:)
1m: SCOP_d1rxsm_ (M:)
1n: SCOP_d1rxsn_ (N:)
1o: SCOP_d1rxso_ (O:)
1p: SCOP_d1rxsp_ (P:)
1q: SCOP_d1rxsq_ (Q:)
1r: SCOP_d1rxsr_ (R:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
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)
Escherichia coli [TaxId: 562]
(15)
1a
d1rxsa_
A:
1b
d1rxsb_
B:
1c
d1rxsc_
C:
1d
d1rxsd_
D:
1e
d1rxse_
E:
1f
d1rxsf_
F:
1g
d1rxsg_
G:
1h
d1rxsh_
H:
1i
d1rxsi_
I:
1j
d1rxsj_
J:
1k
d1rxsk_
K:
1l
d1rxsl_
L:
1m
d1rxsm_
M:
1n
d1rxsn_
N:
1o
d1rxso_
O:
1p
d1rxsp_
P:
1q
d1rxsq_
Q:
1r
d1rxsr_
R:
[
close SCOP info
]
CATH Domains
(1, 30)
Info
all CATH domains
1a: CATH_1rxsA00 (A:3004-3253)
1b: CATH_1rxsL00 (L:3004-3253)
1c: CATH_1rxsd00 (d:3004-3253)
1d: CATH_1rxsm00 (m:3004-3253)
1e: CATH_1rxso00 (o:3004-3253)
1f: CATH_1rxsB00 (B:1004-1253)
1g: CATH_1rxsC00 (C:1004-1253)
1h: CATH_1rxsD00 (D:1004-1253)
1i: CATH_1rxsE00 (E:1004-1253)
1j: CATH_1rxsF00 (F:1004-1253)
1k: CATH_1rxsH00 (H:1004-1253)
1l: CATH_1rxsJ00 (J:1004-1253)
1m: CATH_1rxsK00 (K:1004-1253)
1n: CATH_1rxsN00 (N:1004-1253)
1o: CATH_1rxsO00 (O:1004-1253)
1p: CATH_1rxsQ00 (Q:1004-1253)
1q: CATH_1rxsR00 (R:1004-1253)
1r: CATH_1rxsi00 (i:1004-1253)
1s: CATH_1rxsG00 (G:2004-2253)
1t: CATH_1rxsI00 (I:2004-2253)
1u: CATH_1rxsM00 (M:2004-2253)
1v: CATH_1rxsP00 (P:2004-2253)
1w: CATH_1rxsa00 (a:2004-2253)
1x: CATH_1rxsb00 (b:2004-2253)
1y: CATH_1rxsc00 (c:2004-2253)
1z: CATH_1rxse00 (e:2004-2253)
1aa: CATH_1rxsh00 (h:2004-2253)
1ab: CATH_1rxsj00 (j:2004-2253)
1ac: CATH_1rxsk00 (k:2004-2253)
1ad: CATH_1rxsl00 (l:2004-2253)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1580, no name defined]
(194)
Escherichia coli. Organism_taxid: 562.
(30)
1a
1rxsA00
A:3004-3253
1b
1rxsL00
L:3004-3253
1c
1rxsd00
d:3004-3253
1d
1rxsm00
m:3004-3253
1e
1rxso00
o:3004-3253
1f
1rxsB00
B:1004-1253
1g
1rxsC00
C:1004-1253
1h
1rxsD00
D:1004-1253
1i
1rxsE00
E:1004-1253
1j
1rxsF00
F:1004-1253
1k
1rxsH00
H:1004-1253
1l
1rxsJ00
J:1004-1253
1m
1rxsK00
K:1004-1253
1n
1rxsN00
N:1004-1253
1o
1rxsO00
O:1004-1253
1p
1rxsQ00
Q:1004-1253
1q
1rxsR00
R:1004-1253
1r
1rxsi00
i:1004-1253
1s
1rxsG00
G:2004-2253
1t
1rxsI00
I:2004-2253
1u
1rxsM00
M:2004-2253
1v
1rxsP00
P:2004-2253
1w
1rxsa00
a:2004-2253
1x
1rxsb00
b:2004-2253
1y
1rxsc00
c:2004-2253
1z
1rxse00
e:2004-2253
1aa
1rxsh00
h:2004-2253
1ab
1rxsj00
j:2004-2253
1ac
1rxsk00
k:2004-2253
1ad
1rxsl00
l:2004-2253
[
close CATH info
]
Pfam Domains
(1, 30)
Info
all PFAM domains
1a: PFAM_PNP_UDP_1_1rxsR01 (R:1020-1253)
1b: PFAM_PNP_UDP_1_1rxsR02 (R:1020-1253)
1c: PFAM_PNP_UDP_1_1rxsR03 (R:1020-1253)
1d: PFAM_PNP_UDP_1_1rxsR04 (R:1020-1253)
1e: PFAM_PNP_UDP_1_1rxsR05 (R:1020-1253)
1f: PFAM_PNP_UDP_1_1rxsR06 (R:1020-1253)
1g: PFAM_PNP_UDP_1_1rxsR07 (R:1020-1253)
1h: PFAM_PNP_UDP_1_1rxsR08 (R:1020-1253)
1i: PFAM_PNP_UDP_1_1rxsR09 (R:1020-1253)
1j: PFAM_PNP_UDP_1_1rxsR10 (R:1020-1253)
1k: PFAM_PNP_UDP_1_1rxsR11 (R:1020-1253)
1l: PFAM_PNP_UDP_1_1rxsR12 (R:1020-1253)
1m: PFAM_PNP_UDP_1_1rxsR13 (R:1020-1253)
1n: PFAM_PNP_UDP_1_1rxsR14 (R:1020-1253)
1o: PFAM_PNP_UDP_1_1rxsR15 (R:1020-1253)
1p: PFAM_PNP_UDP_1_1rxsR16 (R:1020-1253)
1q: PFAM_PNP_UDP_1_1rxsR17 (R:1020-1253)
1r: PFAM_PNP_UDP_1_1rxsR18 (R:1020-1253)
1s: PFAM_PNP_UDP_1_1rxsR19 (R:1020-1253)
1t: PFAM_PNP_UDP_1_1rxsR20 (R:1020-1253)
1u: PFAM_PNP_UDP_1_1rxsR21 (R:1020-1253)
1v: PFAM_PNP_UDP_1_1rxsR22 (R:1020-1253)
1w: PFAM_PNP_UDP_1_1rxsR23 (R:1020-1253)
1x: PFAM_PNP_UDP_1_1rxsR24 (R:1020-1253)
1y: PFAM_PNP_UDP_1_1rxsR25 (R:1020-1253)
1z: PFAM_PNP_UDP_1_1rxsR26 (R:1020-1253)
1aa: PFAM_PNP_UDP_1_1rxsR27 (R:1020-1253)
1ab: PFAM_PNP_UDP_1_1rxsR28 (R:1020-1253)
1ac: PFAM_PNP_UDP_1_1rxsR29 (R:1020-1253)
1ad: PFAM_PNP_UDP_1_1rxsR30 (R:1020-1253)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
PUP
(121)
Family
:
PNP_UDP_1
(121)
Escherichia coli (strain K12)
(27)
1a
PNP_UDP_1-1rxsR01
R:1020-1253
1b
PNP_UDP_1-1rxsR02
R:1020-1253
1c
PNP_UDP_1-1rxsR03
R:1020-1253
1d
PNP_UDP_1-1rxsR04
R:1020-1253
1e
PNP_UDP_1-1rxsR05
R:1020-1253
1f
PNP_UDP_1-1rxsR06
R:1020-1253
1g
PNP_UDP_1-1rxsR07
R:1020-1253
1h
PNP_UDP_1-1rxsR08
R:1020-1253
1i
PNP_UDP_1-1rxsR09
R:1020-1253
1j
PNP_UDP_1-1rxsR10
R:1020-1253
1k
PNP_UDP_1-1rxsR11
R:1020-1253
1l
PNP_UDP_1-1rxsR12
R:1020-1253
1m
PNP_UDP_1-1rxsR13
R:1020-1253
1n
PNP_UDP_1-1rxsR14
R:1020-1253
1o
PNP_UDP_1-1rxsR15
R:1020-1253
1p
PNP_UDP_1-1rxsR16
R:1020-1253
1q
PNP_UDP_1-1rxsR17
R:1020-1253
1r
PNP_UDP_1-1rxsR18
R:1020-1253
1s
PNP_UDP_1-1rxsR19
R:1020-1253
1t
PNP_UDP_1-1rxsR20
R:1020-1253
1u
PNP_UDP_1-1rxsR21
R:1020-1253
1v
PNP_UDP_1-1rxsR22
R:1020-1253
1w
PNP_UDP_1-1rxsR23
R:1020-1253
1x
PNP_UDP_1-1rxsR24
R:1020-1253
1y
PNP_UDP_1-1rxsR25
R:1020-1253
1z
PNP_UDP_1-1rxsR26
R:1020-1253
1aa
PNP_UDP_1-1rxsR27
R:1020-1253
1ab
PNP_UDP_1-1rxsR28
R:1020-1253
1ac
PNP_UDP_1-1rxsR29
R:1020-1253
1ad
PNP_UDP_1-1rxsR30
R:1020-1253
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Chain a
Chain b
Chain c
Chain d
Chain e
Chain h
Chain i
Chain j
Chain k
Chain l
Chain m
Chain o
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
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)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (1.1 MB)
Header - Asym.Unit
Biol.Unit 1 (244 KB)
Header - Biol.Unit 1
Biol.Unit 2 (246 KB)
Header - Biol.Unit 2
Biol.Unit 3 (243 KB)
Header - Biol.Unit 3
Biol.Unit 4 (244 KB)
Header - Biol.Unit 4
Biol.Unit 5 (246 KB)
Header - Biol.Unit 5
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1RXS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help