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SMTL ID : 2qcn.1
Covalent complex of the orotidine-5'-monophosphate decarboxylase domain of human UMP synthase with 6-iodo-UMP
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.85 Å
Oligo State
homo-dimer
Ligands
1 x
SO4
:
SULFATE ION
(Non-functional Binders)
SO4.1:
3 residues within 4Å:
Chain A:
G.8
,
A.9
,
E.12
1
PLIP interactions
:
1 interactions with chain A
Hydrogen bonds:
A:E.12
2 x
U5P
:
URIDINE-5'-MONOPHOSPHATE
(Covalent)
U5P.2:
17 residues within 4Å:
Chain A:
S.37
,
D.39
,
K.61
,
H.63
,
D.92
,
K.94
,
M.151
,
S.152
,
P.197
,
Q.210
,
Y.212
,
V.229
,
G.230
,
R.231
Chain B:
D.97
,
I.98
,
T.101
17
PLIP interactions
:
15 interactions with chain A
,
2 interactions with chain B
Hydrophobic interactions:
A:P.197
Hydrogen bonds:
A:S.37
,
A:K.61
,
A:D.92
,
A:K.94
,
A:S.152
,
A:S.152
,
A:S.152
,
A:Q.210
,
A:G.230
,
A:R.231
,
B:D.97
,
B:T.101
Water bridges:
A:G.198
,
A:V.199
,
A:G.232
Salt bridges:
A:R.231
U5P.4:
16 residues within 4Å:
Chain A:
D.97
,
I.98
,
T.101
Chain B:
S.37
,
D.39
,
K.61
,
H.63
,
D.92
,
K.94
,
M.151
,
S.152
,
P.197
,
Q.210
,
Y.212
,
G.230
,
R.231
17
PLIP interactions
:
15 interactions with chain B
,
2 interactions with chain A
Hydrophobic interactions:
B:P.197
Hydrogen bonds:
B:S.37
,
B:K.61
,
B:D.92
,
B:K.94
,
B:S.152
,
B:S.152
,
B:S.152
,
B:Q.210
,
B:G.230
,
B:R.231
,
A:D.97
,
A:T.101
Water bridges:
B:G.198
,
B:V.199
,
B:G.232
Salt bridges:
B:R.231
2 x
GOL
:
GLYCEROL
(Non-functional Binders)
GOL.3:
6 residues within 4Å:
Chain A:
K.22
,
A.82
,
K.83
,
F.87
,
L.88
,
D.118
6
PLIP interactions
:
6 interactions with chain A
Hydrogen bonds:
A:K.22
,
A:A.82
,
A:K.83
,
A:K.83
,
A:F.87
Water bridges:
A:D.118
GOL.5:
6 residues within 4Å:
Chain B:
K.22
,
A.82
,
K.83
,
F.87
,
L.88
,
D.118
3
PLIP interactions
:
3 interactions with chain B
Hydrogen bonds:
B:K.22
,
B:A.82
,
B:D.118
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Wittmann, J.G. et al., Structures of the human orotidine-5'-monophosphate decarboxylase support a covalent mechanism and provide a framework for drug design. Structure (2008)
Release Date
2007-11-13
Peptides
Uridine 5'-monophosphate synthase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
Export Alignment
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Secondary Structure
None
DSSP
PSIPRED
SSpro
Colour Scheme
Fade Mismatches
Enhance Mismatches
Chain
Unique Chain
Rainbow
2° Structure
Bfactor
Bfactor Range
SOA
Entropy
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Charged
Polar
Proline
Ser/Thr
Cysteine
Aliphatic
Aromatic
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NGL
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Uridine 5'-monophosphate synthase
Toggle Identical (AB)
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|
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|
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|
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|
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|
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|
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|
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|
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|
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