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SMTL ID : 2qgi.2
(1 other biounit)
The UDP complex structure of the sixth gene product of the F1-ATPase operon of Rhodobacter blasticus
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.65 Å
Oligo State
homo-tetramer
Ligands
4 x
MN
:
MANGANESE (II) ION
(Non-covalent)
MN.1:
4 residues within 4Å:
Chain A:
H.81
,
D.83
,
H.201
,
G.203
5
PLIP interactions
:
3 interactions with chain A
,
2 Ligand-Water interactions
Metal complexes:
A:H.81
,
A:D.83
,
A:H.201
,
H
2
O.5
,
H
2
O.6
MN.2:
5 residues within 4Å:
Chain B:
H.81
,
D.83
,
H.201
,
G.203
Ligands:
UDP.3
4
PLIP interactions
:
4 interactions with chain B
Metal complexes:
B:H.81
,
B:D.83
,
B:D.83
,
B:H.201
MN.4:
4 residues within 4Å:
Chain C:
H.81
,
D.83
,
H.201
,
G.203
5
PLIP interactions
:
3 interactions with chain C
,
2 Ligand-Water interactions
Metal complexes:
C:H.81
,
C:D.83
,
C:H.201
,
H
2
O.33
,
H
2
O.33
MN.5:
5 residues within 4Å:
Chain D:
H.81
,
D.83
,
H.201
,
G.203
Ligands:
UDP.6
4
PLIP interactions
:
4 interactions with chain D
Metal complexes:
D:H.81
,
D:D.83
,
D:D.83
,
D:H.201
2 x
UDP
:
URIDINE-5'-DIPHOSPHATE
(Non-covalent)
UDP.3:
12 residues within 4Å:
Chain B:
L.22
,
R.24
,
N.53
,
N.57
,
H.81
,
E.82
,
D.83
,
F.174
,
H.201
,
G.203
,
R.204
Ligands:
MN.2
18
PLIP interactions
:
18 interactions with chain B
Hydrogen bonds:
B:L.22
,
B:R.24
,
B:N.57
,
B:N.57
,
B:E.82
Water bridges:
B:R.24
,
B:K.28
,
B:K.28
,
B:E.82
,
B:D.83
,
B:R.204
,
B:R.204
,
B:I.206
Salt bridges:
B:H.81
,
B:H.81
,
B:H.201
pi-Stacking:
B:F.174
pi-Cation interactions:
B:R.24
UDP.6:
12 residues within 4Å:
Chain D:
L.22
,
R.24
,
N.53
,
N.57
,
H.81
,
E.82
,
D.83
,
F.174
,
H.201
,
G.203
,
R.204
Ligands:
MN.5
18
PLIP interactions
:
18 interactions with chain D
Hydrogen bonds:
D:L.22
,
D:R.24
,
D:N.57
,
D:N.57
,
D:E.82
Water bridges:
D:R.24
,
D:K.28
,
D:K.28
,
D:E.82
,
D:D.83
,
D:R.204
,
D:R.204
,
D:I.206
Salt bridges:
D:H.81
,
D:H.81
,
D:H.201
pi-Stacking:
D:F.174
pi-Cation interactions:
D:R.24
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Enroth, C. et al., Crystal structure of a protein, structurally related to glycosyltransferases, encoded in the Rhodobacter blasticus atp operon. Biochim.Biophys.Acta (2008)
Release Date
2008-01-22
Peptides
ATP synthase subunits region ORF 6:
A
B
C
D
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
C
A
D
B
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ATP synthase subunits region ORF 6
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