1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Assfalg, M.
Bertini, I.
Dolfi, A.
Turano, P.
Mauk, A.G.
Rosell, F.I.
Gray, H.B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
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
C9 H11 N O2
165.189
y
PHENYLALANINE
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
J.Am.Chem.Soc.
JACSAT
0004
0002-7863
125
2913
2922
10.1021/ja027180s
12617658
Structural model for an alkaline form of ferricytochrome c
2003
10.2210/pdb1lms/pdb
pdb_00001lms
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
11955.591
Cytochrome c, iso-1
K72A,K79A,C102T
1
man
polymer
618.503
HEME C
1
syn
non-polymer
no
no
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPAKYI
PGTAMAFGGLKKEKDRNDLITYLKKATE
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPAKYI
PGTAMAFGGLKKEKDRNDLITYLKKATE
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
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
baker's yeast
Saccharomyces
Escherichia
sample
4932
Saccharomyces cerevisiae
562
Escherichia coli
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_conn_type
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-03-18
1
1
2008-04-28
1
2
2011-07-13
1
3
2021-10-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_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_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_label_atom_id
_struct_conn_type.id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Contains the solution structure of the native yeast iso-1-ferricytochrome c
RCSB
Y
RCSB
2002-05-02
REL
REL
HEC
HEME C
The coordinates of residues -5 to 8 are not included, although present in the sequence, because no constraints were available
1
2D NOESY
2D TOCSY
3D_15N-separated_NOESY
50 mM phosphate
11.1
1
atm
298
K
simulated annealing in torsion angle space
minimized average structure
2mM protein
50 mM phosphate buffer; 90% H2O, 10% D2O; pH 11.1
Guentert
structure solution
DYANA
1.5
iterative matrix relaxation
CORMA
CASE AND KOLLMAN
refinement
Amber
6.0
800
Bruker
DRX
HEC
118
2
HEC
HEC
118
A
n
1
-4
A
n
2
-3
A
n
3
-2
A
n
4
-1
A
n
5
0
A
n
6
1
A
n
7
2
A
n
8
3
A
n
9
4
A
n
10
5
A
n
11
6
A
n
12
7
A
n
13
8
A
LEU
9
n
14
LEU
9
A
PHE
10
n
15
PHE
10
A
LYS
11
n
16
LYS
11
A
THR
12
n
17
THR
12
A
ARG
13
n
18
ARG
13
A
CYS
14
n
19
CYS
14
A
LEU
15
n
20
LEU
15
A
GLN
16
n
21
GLN
16
A
CYS
17
n
22
CYS
17
A
HIS
18
n
23
HIS
18
A
THR
19
n
24
THR
19
A
VAL
20
n
25
VAL
20
A
GLU
21
n
26
GLU
21
A
LYS
22
n
27
LYS
22
A
GLY
23
n
28
GLY
23
A
GLY
24
n
29
GLY
24
A
PRO
25
n
30
PRO
25
A
HIS
26
n
31
HIS
26
A
LYS
27
n
32
LYS
27
A
VAL
28
n
33
VAL
28
A
GLY
29
n
34
GLY
29
A
PRO
30
n
35
PRO
30
A
ASN
31
n
36
ASN
31
A
LEU
32
n
37
LEU
32
A
HIS
33
n
38
HIS
33
A
GLY
34
n
39
GLY
34
A
ILE
35
n
40
ILE
35
A
PHE
36
n
41
PHE
36
A
GLY
37
n
42
GLY
37
A
ARG
38
n
43
ARG
38
A
HIS
39
n
44
HIS
39
A
SER
40
n
45
SER
40
A
GLY
41
n
46
GLY
41
A
GLN
42
n
47
GLN
42
A
ALA
43
n
48
ALA
43
A
GLU
44
n
49
GLU
44
A
GLY
45
n
50
GLY
45
A
TYR
46
n
51
TYR
46
A
SER
47
n
52
SER
47
A
TYR
48
n
53
TYR
48
A
THR
49
n
54
THR
49
A
ASP
50
n
55
ASP
50
A
ALA
51
n
56
ALA
51
A
ASN
52
n
57
ASN
52
A
ILE
53
n
58
ILE
53
A
LYS
54
n
59
LYS
54
A
LYS
55
n
60
LYS
55
A
ASN
56
n
61
ASN
56
A
VAL
57
n
62
VAL
57
A
LEU
58
n
63
LEU
58
A
TRP
59
n
64
TRP
59
A
ASP
60
n
65
ASP
60
A
GLU
61
n
66
GLU
61
A
ASN
62
n
67
ASN
62
A
ASN
63
n
68
ASN
63
A
MET
64
n
69
MET
64
A
SER
65
n
70
SER
65
A
GLU
66
n
71
GLU
66
A
TYR
67
n
72
TYR
67
A
LEU
68
n
73
LEU
68
A
THR
69
n
74
THR
69
A
ASN
70
n
75
ASN
70
A
PRO
71
n
76
PRO
71
A
ALA
72
n
77
ALA
72
A
LYS
73
n
78
LYS
73
A
TYR
74
n
79
TYR
74
A
ILE
75
n
80
ILE
75
A
PRO
76
n
81
PRO
76
A
GLY
77
n
82
GLY
77
A
THR
78
n
83
THR
78
A
ALA
79
n
84
ALA
79
A
MET
80
n
85
MET
80
A
ALA
81
n
86
ALA
81
A
PHE
82
n
87
PHE
82
A
GLY
83
n
88
GLY
83
A
GLY
84
n
89
GLY
84
A
LEU
85
n
90
LEU
85
A
LYS
86
n
91
LYS
86
A
LYS
87
n
92
LYS
87
A
GLU
88
n
93
GLU
88
A
LYS
89
n
94
LYS
89
A
ASP
90
n
95
ASP
90
A
ARG
91
n
96
ARG
91
A
ASN
92
n
97
ASN
92
A
ASP
93
n
98
ASP
93
A
LEU
94
n
99
LEU
94
A
ILE
95
n
100
ILE
95
A
THR
96
n
101
THR
96
A
TYR
97
n
102
TYR
97
A
LEU
98
n
103
LEU
98
A
LYS
99
n
104
LYS
99
A
LYS
100
n
105
LYS
100
A
ALA
101
n
106
ALA
101
A
THR
102
n
107
THR
102
A
GLU
103
n
108
GLU
103
A
author_defined_assembly
1
monomeric
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NA
HEC
1_555
90.4
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NB
HEC
1_555
91.9
A
HEC
118
B
NA
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NB
HEC
1_555
90.6
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NC
HEC
1_555
88.4
A
HEC
118
B
NA
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NC
HEC
1_555
178.3
A
HEC
118
B
NB
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
NC
HEC
1_555
90.7
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
ND
HEC
1_555
83.3
A
HEC
118
B
NA
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
ND
HEC
1_555
90.3
A
HEC
118
B
NB
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
ND
HEC
1_555
175.2
A
HEC
118
B
NC
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
HEC
118
B
ND
HEC
1_555
88.4
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
A
LYS
73
A
NZ
LYS
78
1_555
169.6
A
HEC
118
B
NA
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
LYS
73
A
NZ
LYS
78
1_555
93.1
A
HEC
118
B
NB
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
LYS
73
A
NZ
LYS
78
1_555
97.8
A
HEC
118
B
NC
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
LYS
73
A
NZ
LYS
78
1_555
87.9
A
HEC
118
B
ND
HEC
1_555
A
HEC
118
B
FE
HEC
1_555
A
LYS
73
A
NZ
LYS
78
1_555
86.9
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
ARG
38
A
N
ARG
43
A
O
TRP
59
A
O
TRP
64
1
A
THR
-4
A
THR
1
1
Y
1
A
GLU
-3
A
GLU
2
1
Y
1
A
PHE
-2
A
PHE
3
1
Y
1
A
LYS
-1
A
LYS
4
1
Y
1
A
ALA
0
A
ALA
5
1
Y
1
A
GLY
1
A
GLY
6
1
Y
1
A
SER
2
A
SER
7
1
Y
1
A
ALA
3
A
ALA
8
1
Y
1
A
LYS
4
A
LYS
9
1
Y
1
A
LYS
5
A
LYS
10
1
Y
1
A
GLY
6
A
GLY
11
1
Y
1
A
ALA
7
A
ALA
12
1
Y
1
A
THR
8
A
THR
13
1
Y
1
A
A
HIS
THR
18
19
147.82
1
A
A
GLU
LYS
21
22
139.75
1
A
A
PRO
HIS
25
26
-142.13
1
A
A
HIS
LYS
26
27
149.07
1
A
A
LYS
VAL
27
28
-115.64
1
A
A
TYR
SER
46
47
-121.93
1
A
A
ASP
GLU
60
61
-143.14
1
A
A
GLY
THR
77
78
-138.49
1
A
A
ALA
MET
79
80
-129.26
1
A
A
ALA
PHE
81
82
148.54
1
A
A
PHE
GLY
82
83
118.74
1
A
A
GLY
LEU
84
85
120.39
1
A
A
LEU
LYS
85
86
-144.55
1
A
A
LYS
LYS
86
87
-121.45
1
A
A
LYS
GLU
87
88
149.94
1
A
A
GLU
LYS
88
89
-138.91
1
A
ARG
38
0.141
SIDE CHAIN
1
A
TYR
46
0.111
SIDE CHAIN
1
A
PHE
82
0.170
SIDE CHAIN
1
A
ARG
91
0.130
SIDE CHAIN
1
-4.21
0.60
121.00
116.79
A
A
A
CB
CG
CD2
TYR
TYR
TYR
74
74
74
N
1
12.67
2.00
110.90
123.57
A
A
A
CA
CB
CG2
ILE
ILE
ILE
75
75
75
N
1
A
LYS
11
-26.14
-41.73
1
A
CYS
14
-144.93
51.22
1
A
VAL
20
-136.44
-34.83
1
A
LYS
22
70.09
114.74
1
A
LYS
27
27.05
-86.44
1
A
VAL
28
-101.15
-124.04
1
A
HIS
33
61.59
-19.63
1
A
SER
40
56.01
-178.17
1
A
GLU
44
-63.79
9.43
1
A
TYR
48
-58.64
7.72
1
A
THR
49
-37.95
10.70
1
A
ASP
50
-178.98
44.49
1
A
ALA
51
179.74
-96.50
1
A
ASP
60
-176.57
82.23
1
A
GLU
61
-169.81
-153.33
1
A
ASN
62
-149.03
-56.96
1
A
PRO
71
-69.18
71.51
1
A
ALA
72
-141.64
-40.14
1
A
TYR
74
-169.05
90.43
1
A
ALA
79
67.19
-164.68
1
A
MET
80
-172.55
-61.71
1
A
ALA
81
-72.68
29.12
1
A
LYS
86
-155.54
-43.92
1
A
GLU
88
35.77
-100.24
1
A
LYS
89
-172.89
38.38
minimized average
Structural model for an alkaline form of ferricytochrome c
1
N
N
2
N
N
A
LEU
9
A
LEU
14
HELX_P
A
CYS
14
A
CYS
19
1
1
6
A
ALA
51
A
ALA
56
HELX_P
A
ASN
56
A
ASN
61
1
2
6
A
ASN
62
A
ASN
67
HELX_P
A
ASN
70
A
ASN
75
1
3
9
A
LYS
89
A
LYS
94
HELX_P
A
GLU
103
A
GLU
108
1
4
15
covale
1.829
none
A
CYS
14
A
SG
CYS
19
1_555
A
HEC
118
B
CAB
HEC
1_555
covale
1.812
none
A
CYS
17
A
SG
CYS
22
1_555
A
HEC
118
B
CAC
HEC
1_555
metalc
1.961
A
HIS
18
A
NE2
HIS
23
1_555
A
HEC
118
B
FE
HEC
1_555
metalc
2.037
A
LYS
73
A
NZ
LYS
78
1_555
A
HEC
118
B
FE
HEC
1_555
ELECTRON TRANSPORT
alkaline transition; cytochrome c; NMR structure, ELECTRON TRANSPORT
CYC1_YEAST
UNP
1
1
P00044
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI
PGTKMAFGGLKKEKDRNDLITYLKKACE
1
108
1LMS
-4
103
P00044
A
1
1
108
1
LYS
engineered mutation
ALA
72
1LMS
A
P00044
UNP
77
77
1
LYS
engineered mutation
ALA
79
1LMS
A
P00044
UNP
84
84
1
CYS
engineered mutation
THR
102
1LMS
A
P00044
UNP
107
107
2
anti-parallel
A
ARG
38
A
ARG
43
A
HIS
39
A
HIS
44
A
LEU
58
A
LEU
63
A
TRP
59
A
TRP
64
BINDING SITE FOR RESIDUE HEC A 118
A
HEC
118
Software
12
A
CYS
14
A
CYS
19
12
1_555
A
GLN
16
A
GLN
21
12
1_555
A
CYS
17
A
CYS
22
12
1_555
A
HIS
18
A
HIS
23
12
1_555
A
VAL
28
A
VAL
33
12
1_555
A
LEU
32
A
LEU
37
12
1_555
A
GLY
41
A
GLY
46
12
1_555
A
TYR
48
A
TYR
53
12
1_555
A
ASN
52
A
ASN
57
12
1_555
A
TRP
59
A
TRP
64
12
1_555
A
LYS
73
A
LYS
78
12
1_555
A
PHE
82
A
PHE
87
12
1_555