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SMTL ID : 1it1.1
Solution structures of ferrocytochrome c3 from Desulfovibrio vulgaris Miyazaki F
Coordinates
PDB Format
Method
SOLUTION NMR
Oligo State
monomer
Ligands
4 x
HEC
:
HEME C
(Covalent)
HEC.1:
24 residues within 4Å:
Chain A:
P.2
,
K.3
,
A.4
,
P.5
,
L.9
,
K.10
,
M.11
,
F.20
,
H.22
,
H.25
,
K.26
,
V.28
,
K.29
,
C.30
,
C.33
,
H.34
,
Y.43
,
Q.44
,
K.45
,
C.46
,
A.47
,
M.69
Ligands:
HEC.2
,
HEC.3
16
PLIP interactions
:
16 interactions with chain A
,
Hydrophobic interactions:
A:P.2
,
A:A.4
,
A:P.5
,
A:L.9
,
A:L.9
,
A:F.20
,
A:F.20
,
A:F.20
,
A:F.20
,
A:H.25
Hydrogen bonds:
A:L.9
pi-Stacking:
A:H.22
,
A:H.22
,
A:H.34
Metal complexes:
A:H.22
,
A:H.34
HEC.2:
27 residues within 4Å:
Chain A:
M.11
,
C.33
,
H.34
,
H.35
,
V.37
,
D.42
,
Q.44
,
K.45
,
C.46
,
T.48
,
C.51
,
H.52
,
K.60
,
S.61
,
A.62
,
H.67
,
A.68
,
M.69
,
D.71
,
T.74
,
K.75
,
F.76
,
K.77
,
S.78
,
C.79
Ligands:
HEC.1
,
HEC.3
14
PLIP interactions
:
14 interactions with chain A
,
Hydrophobic interactions:
A:V.37
,
A:Q.44
,
A:A.62
,
A:A.68
,
A:K.75
Hydrogen bonds:
A:S.61
,
A:K.75
Salt bridges:
A:H.67
,
A:K.75
pi-Stacking:
A:H.35
,
A:H.52
,
A:H.52
Metal complexes:
A:H.35
,
A:H.52
HEC.3:
27 residues within 4Å:
Chain A:
M.11
,
V.18
,
V.19
,
F.20
,
N.21
,
T.24
,
H.25
,
V.28
,
K.29
,
D.32
,
C.33
,
C.46
,
M.69
,
K.77
,
S.78
,
C.79
,
C.82
,
H.83
,
T.86
,
K.93
,
E.96
,
L.97
,
K.104
,
C.105
Ligands:
HEC.1
,
HEC.2
,
HEC.4
11
PLIP interactions
:
11 interactions with chain A
,
Hydrophobic interactions:
A:V.18
,
A:V.28
,
A:K.77
,
A:T.86
,
A:K.104
Salt bridges:
A:K.93
,
A:K.104
pi-Stacking:
A:F.20
,
A:H.25
Metal complexes:
A:H.25
,
A:H.83
HEC.4:
26 residues within 4Å:
Chain A:
M.11
,
D.12
,
K.13
,
T.14
,
K.15
,
Q.16
,
P.17
,
V.18
,
M.55
,
K.57
,
Y.65
,
Y.66
,
M.69
,
H.70
,
C.79
,
V.80
,
H.83
,
E.96
,
L.97
,
T.98
,
G.99
,
C.100
,
S.103
,
C.105
,
H.106
Ligands:
HEC.3
20
PLIP interactions
:
20 interactions with chain A
,
Hydrophobic interactions:
A:M.11
,
A:T.14
,
A:Q.16
,
A:V.18
,
A:K.57
,
A:Y.65
,
A:V.80
Hydrogen bonds:
A:T.14
,
A:T.14
,
A:K.15
,
A:V.18
,
A:Y.65
,
A:Y.65
Salt bridges:
A:K.57
pi-Stacking:
A:Y.66
,
A:H.106
pi-Cation interactions:
A:H.70
,
A:H.106
Metal complexes:
A:H.70
,
A:H.106
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Harada, E. et al., Redox-coupled conformational alternations in cytochrome c(3) from D. vulgaris Miyazaki F on the basis of its reduced solution structure. J.Mol.Biol. (2002)
Release Date
2002-07-10
Peptides
cytochrome c3:
A
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
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cytochrome c3
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1j0o.1
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Spacefill
Outline
Fog
Background
Transparent
Resolution
Low
Medium
High
Extreme