1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Bartalesi, I.
Bertini, I.
Rosato, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C34 H34 Fe N4 O4
618.503
HEME C
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Biochemistry
BICHAW
0033
0006-2960
42
739
745
10.1021/bi0266028
12534286
Structure and dynamics of reduced Bacillus pasteurii cytochrome c: oxidation state dependent properties and implications for electron transfer processes
2003
GE
Chembiochem
1439-4227
3
299
310
10.1002/1439-7633(20020402)3:4<299::AID-CBIC299>3.0.CO;2-0
NMR solution structure, backbone mobility and homology modeling of c-type cytochromes from gram-positive bacteria
2002
10.2210/pdb1n9c/pdb
pdb_00001n9c
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
7115.937
Cytochrome c-553
soluble part of membrane-anchored cytochrome c
1
man
polymer
618.503
HEME C
1
syn
non-polymer
C553
no
no
VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK
VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Sporosarcina
Escherichia
sample
1474
Sporosarcina pasteurii
562
Escherichia coli
C41(DE3)
database_2
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-02-04
1
1
2008-04-28
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_conn.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Solution structure of the oxidized protein
RCSB
Y
RCSB
2002-11-23
REL
REL
HEC
HEME C
structures with the least restraint violations
130
30
2D NOESY
2D TOCSY
3D_15N-separated_NOESY
HNHA
HNHB
3D-15N-separated_TOCSY
100 mM Pi
7.0
ambient
296
K
restrained energy minimization
2 mM cytochrome, 100mM phosphate buffer, pH 7.0
90% H2O/10% D2O
1 mM cytochrome U-15N, 100mM phosphate buffer, pH 7.0
90% H2O/10% D2O
Guentert
structure solution
DYANA
1.5
Bruker
collection
XwinNMR
Guentert
refinement
DYANA
1.5
800
Bruker
AVANCE
500
Bruker
AVANCE
HEC
93
2
HEC
HEC
93
A
VAL
22
n
1
VAL
22
A
ASP
23
n
2
ASP
23
A
ALA
24
n
3
ALA
24
A
GLU
25
n
4
GLU
25
A
ALA
26
n
5
ALA
26
A
VAL
27
n
6
VAL
27
A
VAL
28
n
7
VAL
28
A
GLN
29
n
8
GLN
29
A
GLN
30
n
9
GLN
30
A
LYS
31
n
10
LYS
31
A
CYS
32
n
11
CYS
32
A
ILE
33
n
12
ILE
33
A
SER
34
n
13
SER
34
A
CYS
35
n
14
CYS
35
A
HIS
36
n
15
HIS
36
A
GLY
37
n
16
GLY
37
A
GLY
38
n
17
GLY
38
A
ASP
39
n
18
ASP
39
A
LEU
40
n
19
LEU
40
A
THR
41
n
20
THR
41
A
GLY
42
n
21
GLY
42
A
ALA
43
n
22
ALA
43
A
SER
44
n
23
SER
44
A
ALA
45
n
24
ALA
45
A
PRO
46
n
25
PRO
46
A
ALA
47
n
26
ALA
47
A
ILE
48
n
27
ILE
48
A
ASP
49
n
28
ASP
49
A
LYS
50
n
29
LYS
50
A
ALA
51
n
30
ALA
51
A
GLY
52
n
31
GLY
52
A
ALA
53
n
32
ALA
53
A
ASN
54
n
33
ASN
54
A
TYR
55
n
34
TYR
55
A
SER
56
n
35
SER
56
A
GLU
57
n
36
GLU
57
A
GLU
58
n
37
GLU
58
A
GLU
59
n
38
GLU
59
A
ILE
60
n
39
ILE
60
A
LEU
61
n
40
LEU
61
A
ASP
62
n
41
ASP
62
A
ILE
63
n
42
ILE
63
A
ILE
64
n
43
ILE
64
A
LEU
65
n
44
LEU
65
A
ASN
66
n
45
ASN
66
A
GLY
67
n
46
GLY
67
A
GLN
68
n
47
GLN
68
A
GLY
69
n
48
GLY
69
A
GLY
70
n
49
GLY
70
A
MET
71
n
50
MET
71
A
PRO
72
n
51
PRO
72
A
GLY
73
n
52
GLY
73
A
GLY
74
n
53
GLY
74
A
ILE
75
n
54
ILE
75
A
ALA
76
n
55
ALA
76
A
LYS
77
n
56
LYS
77
A
GLY
78
n
57
GLY
78
A
ALA
79
n
58
ALA
79
A
GLU
80
n
59
GLU
80
A
ALA
81
n
60
ALA
81
A
GLU
82
n
61
GLU
82
A
ALA
83
n
62
ALA
83
A
VAL
84
n
63
VAL
84
A
ALA
85
n
64
ALA
85
A
ALA
86
n
65
ALA
86
A
TRP
87
n
66
TRP
87
A
LEU
88
n
67
LEU
88
A
ALA
89
n
68
ALA
89
A
GLU
90
n
69
GLU
90
A
LYS
91
n
70
LYS
91
A
LYS
92
n
71
LYS
92
A
author_defined_assembly
1
monomeric
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NA
HEC
1_555
94.8
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NB
HEC
1_555
91.9
A
HEC
93
B
NA
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NB
HEC
1_555
90.6
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NC
HEC
1_555
89.9
A
HEC
93
B
NA
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NC
HEC
1_555
174.4
A
HEC
93
B
NB
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
NC
HEC
1_555
92.3
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
ND
HEC
1_555
88.8
A
HEC
93
B
NA
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
ND
HEC
1_555
90.3
A
HEC
93
B
NB
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
ND
HEC
1_555
178.8
A
HEC
93
B
NC
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
HEC
93
B
ND
HEC
1_555
86.8
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
A
MET
71
A
SD
MET
50
1_555
169.6
A
HEC
93
B
NA
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
MET
71
A
SD
MET
50
1_555
80.6
A
HEC
93
B
NB
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
MET
71
A
SD
MET
50
1_555
97.4
A
HEC
93
B
NC
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
MET
71
A
SD
MET
50
1_555
94.2
A
HEC
93
B
ND
HEC
1_555
A
HEC
93
B
FE
HEC
1_555
A
MET
71
A
SD
MET
50
1_555
82.0
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
2
A
A
VAL
ASP
22
23
-138.55
4
A
A
LYS
LYS
91
92
-125.59
7
A
A
LYS
LYS
91
92
-149.81
8
A
A
LYS
LYS
91
92
-143.35
11
A
A
LYS
LYS
91
92
-146.19
12
A
A
LYS
LYS
91
92
-131.73
13
A
A
LYS
LYS
91
92
-128.47
15
A
A
LYS
LYS
91
92
-145.45
16
A
A
LYS
LYS
91
92
-124.92
17
A
A
LYS
LYS
91
92
-126.37
23
A
A
LYS
LYS
91
92
-148.44
29
A
A
VAL
ASP
22
23
-146.42
29
A
A
GLU
LYS
90
91
-149.98
29
A
A
LYS
LYS
91
92
-107.28
8
A
TYR
55
0.081
SIDE CHAIN
1
A
GLN
29
-62.37
1.33
1
A
GLN
30
-142.73
-8.13
1
A
SER
34
-39.40
-38.52
1
A
ALA
43
-81.49
-85.31
1
A
GLN
68
-170.59
122.16
2
A
GLN
29
-61.23
0.76
2
A
ALA
43
-76.96
-78.43
3
A
GLN
29
-61.04
0.19
3
A
ALA
43
-86.68
-84.09
4
A
GLN
29
-61.29
0.40
4
A
GLN
30
-140.81
-13.43
4
A
ALA
43
-81.57
-81.74
4
A
ASN
66
-102.50
-60.17
4
A
LYS
91
-64.51
4.09
5
A
ASP
23
-68.61
97.71
5
A
LYS
31
-125.01
-54.61
5
A
ALA
43
-82.66
-78.92
5
A
ALA
79
-55.10
-6.73
6
A
GLN
29
-56.02
-2.32
6
A
LYS
31
-129.33
-53.06
6
A
ALA
43
-113.56
-72.55
7
A
GLN
29
-60.34
1.05
7
A
ALA
43
-80.08
-80.37
7
A
ASN
66
-94.81
-61.24
7
A
LYS
91
-62.64
9.40
8
A
GLN
29
-63.93
0.86
8
A
ALA
43
-100.73
-76.50
8
A
ALA
79
-39.84
-38.94
8
A
LYS
91
-68.20
7.62
9
A
GLN
29
-57.89
0.46
9
A
ALA
43
-80.42
-78.27
10
A
GLN
29
-60.37
0.89
10
A
ALA
43
-80.16
-80.24
11
A
GLN
29
-56.63
-3.88
11
A
ALA
43
-101.80
-79.25
11
A
ASN
66
-103.40
-62.31
12
A
GLN
30
-140.27
-26.61
12
A
ALA
43
-79.31
-75.81
12
A
LYS
91
-66.93
8.75
13
A
GLN
29
-59.08
0.26
13
A
ALA
43
-85.24
-77.02
13
A
LYS
91
-68.82
7.67
14
A
ALA
24
-101.51
-69.86
14
A
GLN
29
-59.92
0.83
14
A
GLN
30
-140.47
-15.51
14
A
SER
34
-38.46
-39.67
14
A
ALA
43
-80.59
-82.53
14
A
ASN
66
-105.42
-60.77
15
A
SER
34
-38.64
-37.38
15
A
ALA
43
-108.40
-77.11
15
A
ASN
66
-101.78
-61.55
16
A
GLN
29
-55.94
-3.23
16
A
SER
34
-38.66
-39.22
16
A
ALA
43
-114.64
-77.15
17
A
GLN
29
-63.18
1.23
17
A
SER
34
-38.24
-36.88
17
A
ALA
43
-102.56
-77.47
18
A
GLN
29
-58.06
0.61
18
A
SER
34
-36.09
-38.68
18
A
ALA
43
-100.31
-79.78
19
A
ALA
43
-103.56
-76.75
20
A
GLN
29
-61.91
0.65
20
A
ALA
43
-113.07
-73.23
20
A
ASN
66
-103.46
-60.95
21
A
GLN
30
-144.33
-6.59
21
A
SER
34
-37.90
-36.71
21
A
ALA
43
-99.00
-80.21
21
A
GLN
68
-163.93
116.27
21
A
LYS
91
-65.02
13.53
22
A
GLN
29
-63.72
0.72
22
A
ALA
43
-77.58
-76.16
23
A
GLN
30
-142.35
-13.83
23
A
ALA
43
-87.46
-81.16
24
A
GLN
29
-56.58
-6.96
24
A
LYS
31
-129.16
-59.85
24
A
ALA
43
-83.12
-71.17
25
A
GLN
29
-62.15
0.37
25
A
ALA
43
-94.18
-77.66
25
A
ASN
66
-105.55
-60.29
26
A
ALA
43
-103.39
-70.66
26
A
ASN
66
-102.48
-65.46
27
A
ALA
43
-83.59
-79.41
28
A
GLN
29
-65.85
1.44
28
A
ALA
43
-78.66
-77.38
29
A
GLN
29
-59.97
0.17
29
A
ALA
43
-155.76
-82.00
30
A
GLN
30
-140.93
-11.54
30
A
ALA
43
-90.10
-76.87
Structure and dynamics of reduced Bacillus pasteurii cytochrome c: oxidation state dependent properties and implications for electron transfer processes
1
N
N
2
N
N
A
ASP
23
A
ASP
2
HELX_P
A
CYS
32
A
CYS
11
1
1
10
A
CYS
32
A
CYS
11
HELX_P
A
GLY
37
A
GLY
16
1
2
6
A
LYS
50
A
LYS
29
HELX_P
A
TYR
55
A
TYR
34
1
3
6
A
SER
56
A
SER
35
HELX_P
A
GLY
67
A
GLY
46
1
4
12
A
GLY
78
A
GLY
57
HELX_P
A
LYS
91
A
LYS
70
1
5
14
covale
1.794
none
A
CYS
32
A
SG
CYS
11
1_555
A
HEC
93
B
CAB
HEC
1_555
covale
1.804
none
A
CYS
35
A
SG
CYS
14
1_555
A
HEC
93
B
CAC
HEC
1_555
metalc
1.978
A
HIS
36
A
NE2
HIS
15
1_555
A
HEC
93
B
FE
HEC
1_555
metalc
2.391
A
MET
71
A
SD
MET
50
1_555
A
HEC
93
B
FE
HEC
1_555
ELECTRON TRANSPORT
cytochrome c, respiration, electron transfer, redox, ELECTRON TRANSPORT
CY553_BACPA
UNP
1
22
P82599
VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK
22
92
1N9C
22
92
P82599
A
1
1
71
BINDING SITE FOR RESIDUE HEC A 93
A
HEC
93
Software
16
A
LYS
31
A
LYS
10
16
1_555
A
CYS
32
A
CYS
11
16
1_555
A
CYS
35
A
CYS
14
16
1_555
A
HIS
36
A
HIS
15
16
1_555
A
ALA
45
A
ALA
24
16
1_555
A
PRO
46
A
PRO
25
16
1_555
A
ILE
48
A
ILE
27
16
1_555
A
TYR
55
A
TYR
34
16
1_555
A
ILE
60
A
ILE
39
16
1_555
A
ILE
63
A
ILE
42
16
1_555
A
GLN
68
A
GLN
47
16
1_555
A
GLY
70
A
GLY
49
16
1_555
A
MET
71
A
MET
50
16
1_555
A
PRO
72
A
PRO
51
16
1_555
A
VAL
84
A
VAL
63
16
1_555
A
LEU
88
A
LEU
67
16
1_555