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SMTL ID : 4dbe.1
Crystal structure of orotidine 5'-monophosphate decarboxylase from Sulfolobus solfataricus complexed with inhibitor BMP
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.79 Å
Oligo State
homo-dimer
Ligands
2 x
BMP
:
6-HYDROXYURIDINE-5'-PHOSPHATE
(Non-covalent)
BMP.1:
17 residues within 4Å:
Chain A:
A.9
,
D.11
,
K.30
,
D.59
,
K.61
,
M.114
,
S.115
,
P.164
,
M.166
,
Q.169
,
I.185
,
I.186
,
G.187
,
R.188
Chain B:
D.64
,
I.65
,
I.68
19
PLIP interactions
:
19 interactions with chain A
Hydrophobic interactions:
A:P.164
Hydrogen bonds:
A:D.11
,
A:K.30
,
A:D.59
,
A:K.61
,
A:S.115
,
A:S.115
,
A:S.115
,
A:M.166
,
A:Q.169
,
A:G.187
,
A:R.188
Water bridges:
A:G.165
,
A:G.165
,
A:G.165
,
A:G.165
,
A:S.168
,
A:S.189
Salt bridges:
A:R.188
BMP.5:
17 residues within 4Å:
Chain A:
D.64
,
I.65
,
I.68
Chain B:
A.9
,
D.11
,
K.30
,
D.59
,
K.61
,
M.114
,
S.115
,
P.164
,
M.166
,
Q.169
,
I.185
,
I.186
,
G.187
,
R.188
19
PLIP interactions
:
19 interactions with chain B
Hydrophobic interactions:
B:P.164
Hydrogen bonds:
B:D.11
,
B:K.30
,
B:D.59
,
B:K.61
,
B:S.115
,
B:S.115
,
B:S.115
,
B:M.166
,
B:Q.169
,
B:G.187
,
B:R.188
Water bridges:
B:G.165
,
B:G.165
,
B:G.165
,
B:G.165
,
B:S.168
,
B:S.189
Salt bridges:
B:R.188
3 x
GOL
:
GLYCEROL
(Non-functional Binders)
GOL.2:
6 residues within 4Å:
Chain A:
G.40
,
V.41
,
D.42
Chain B:
D.38
,
L.39
,
G.40
4
PLIP interactions
:
4 interactions with chain A
Hydrogen bonds:
A:V.41
,
A:D.42
,
A:D.42
Water bridges:
A:K.43
GOL.3:
3 residues within 4Å:
Chain A:
R.99
,
D.102
,
A.103
3
PLIP interactions
:
3 interactions with chain A
Hydrogen bonds:
A:R.99
,
A:A.103
Water bridges:
A:D.102
GOL.4:
5 residues within 4Å:
Chain A:
A.193
,
G.194
,
N.195
,
T.198
,
A.199
2
PLIP interactions
:
2 interactions with chain A
Hydrogen bonds:
A:G.194
,
A:N.195
1 x
SO4
:
SULFATE ION
(Non-functional Binders)
SO4.6:
1 residues within 4Å:
Chain B:
R.99
4
PLIP interactions
:
4 interactions with chain B
Water bridges:
B:K.70
,
B:K.70
Salt bridges:
B:K.70
,
B:R.99
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Fedorov, A.A. et al., Crystal structure of orotidine 5'-monophosphate decarboxylase from Sulfolobus solfataricus complexed with inhibitor BMP. To be Published
Release Date
2013-01-16
Peptides
Orotidine 5'-phosphate decarboxylase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Secondary Structure
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Orotidine 5'-phosphate decarboxylase
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4dbd.1
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Ball+Stick
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Hyperball
Rope
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Outline
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