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SMTL ID : 3e39.1
Crystal structure of a putative nitroreductase in complex with fmn (dde_0787) from desulfovibrio desulfuricans subsp. at 1.70 A resolution
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.70 Å
Oligo State
homo-dimer
Ligands
3 x
ACT
:
ACETATE ION
(Non-functional Binders)
ACT.1:
7 residues within 4Å:
Chain A:
L.45
,
Y.92
,
K.96
Chain B:
G.123
,
E.124
Ligands:
ACT.2
,
FMN.5
4
PLIP interactions
:
3 interactions with chain A
,
1 interactions with chain B
Hydrophobic interactions:
A:L.45
Hydrogen bonds:
A:Y.92
Salt bridges:
A:K.96
Water bridges:
B:N.127
ACT.2:
5 residues within 4Å:
Chain A:
G.44
,
L.45
Chain B:
Y.71
Ligands:
ACT.1
,
FMN.5
1
PLIP interactions
:
1 interactions with chain B
Water bridges:
B:Y.71
ACT.4:
7 residues within 4Å:
Chain A:
G.123
,
E.124
Chain B:
G.44
,
L.45
,
Y.92
,
K.96
Ligands:
FMN.3
4
PLIP interactions
:
4 interactions with chain B
Hydrophobic interactions:
B:L.45
Hydrogen bonds:
B:Y.92
Water bridges:
B:K.96
Salt bridges:
B:K.96
2 x
FMN
:
FLAVIN MONONUCLEOTIDE
(Non-covalent)
FMN.3:
21 residues within 4Å:
Chain A:
R.15
,
R.16
,
S.17
,
R.19
,
Y.71
,
I.74
,
V.120
,
W.121
,
L.122
,
G.123
,
E.124
,
S.160
,
R.162
Chain B:
P.42
,
S.43
,
G.44
,
N.46
,
Y.92
,
K.96
,
Q.99
Ligands:
ACT.4
22
PLIP interactions
:
20 interactions with chain A
,
2 interactions with chain B
Hydrophobic interactions:
A:W.121
,
A:W.121
,
A:W.121
,
B:K.96
Hydrogen bonds:
A:S.17
,
A:S.17
,
A:S.17
,
A:S.17
,
A:R.19
,
A:R.19
,
A:Y.71
,
A:G.123
,
A:E.124
,
A:S.160
,
B:G.44
Water bridges:
A:R.19
,
A:I.125
Salt bridges:
A:R.15
,
A:R.16
,
A:R.162
pi-Stacking:
A:Y.71
,
A:W.121
FMN.5:
21 residues within 4Å:
Chain A:
P.42
,
S.43
,
G.44
,
N.46
,
Y.92
,
K.96
Chain B:
R.15
,
R.16
,
S.17
,
R.19
,
Y.71
,
I.74
,
V.120
,
W.121
,
L.122
,
G.123
,
E.124
,
S.160
,
R.162
Ligands:
ACT.1
,
ACT.2
21
PLIP interactions
:
19 interactions with chain B
,
2 interactions with chain A
Hydrophobic interactions:
B:W.121
,
B:W.121
,
A:K.96
Hydrogen bonds:
B:S.17
,
B:S.17
,
B:S.17
,
B:S.17
,
B:R.19
,
B:R.19
,
B:G.123
,
B:E.124
,
B:S.160
,
B:S.160
,
A:S.43
Water bridges:
B:R.19
,
B:I.125
Salt bridges:
B:R.15
,
B:R.16
,
B:R.162
pi-Stacking:
B:Y.71
,
B:W.121
1 x
PGE
:
TRIETHYLENE GLYCOL
(Non-functional Binders)
PGE.6:
4 residues within 4Å:
Chain A:
N.46
Chain B:
S.159
,
S.160
,
S.161
2
PLIP interactions
:
1 interactions with chain A
,
1 interactions with chain B
Hydrogen bonds:
A:N.46
,
B:S.161
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Joint Center for Structural Genomics (JCSG), Crystal structure of Putative Nitroreductase in Complex with FMN (YP_387283.1) from DESULFOVIBRIO DESULFURICANS G20 at 1.70 A resolution. To be published
Release Date
2008-08-19
Peptides
Putative Nitroreductase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Secondary Structure
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2° Structure
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Putative Nitroreductase
Cartoon
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