0.027382
0.000000
0.000000
0.000000
0.027382
0.000000
0.000000
0.000000
0.007279
0.00000
0.00000
0.00000
Berghuis, A.M.
Brayer, G.D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
36.520
36.520
137.390
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 H32 Fe N4 O4
616.487
PROTOPORPHYRIN IX CONTAINING FE
HEME
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
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
C9 H21 N2 O2 1
189.275
n
N-TRIMETHYLLYSINE
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
O4 S -2
96.063
SULFATE ION
non-polymer
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
35
10784
10792
10.1021/bi960430v
8718869
Mechanistic and structural contributions of critical surface and internal residues to cytochrome c electron transfer reactivity.
1996
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
236
786
The Role of a Conserved Internal Water Molecule and its Associated Hydrogen Bond Network in Cytochrome C
1994
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
235
1326
Mutation of Tyrosine-67 to Phenylalanine in Cytochrome C Significantly Alters the Local Heme Environment
1994
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
223
959
Oxidation State-Dependent Conformational Changes in Cytochrome C
1992
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
214
527
High-Resolution Refinement of Yeast Iso-1-Cytochrome C and Comparisons with Other Eukaryotic Cytochromes C
1990
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
206
783
Crystallization of Yeast Iso-2-Cytochrome C Using a Novel Hair Seeding Technique
1989
10.2210/pdb1irw/pdb
pdb_00001irw
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
DIFFRACTOMETER
1992
ENRAF-NONIUS FAST
M
x-ray
1
1.5418
1.0
1.5418
ISOZYME 1, REDUCED
12070.851
CYTOCHROME C
N52A, C102T
1
man
polymer
96.063
SULFATE ION
1
syn
non-polymer
616.487
PROTOPORPHYRIN IX CONTAINING FE
1
syn
non-polymer
18.015
water
48
nat
water
no
yes
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDAAIKKNVLWDENNMSEYLTNP
(M3L)KYIPGTKMAFGGLKKEKDRNDLITYLKKATE
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDAAIKKNVLWDENNMSEYLTNPKKYI
PGTKMAFGGLKKEKDRNDLITYLKKATE
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
sample
4932
Saccharomyces cerevisiae
1.90
35.16
pdbx_database_status
struct_conf
struct_conf_type
diffrn_detector
database_2
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Derived calculations
Other
Data collection
Database references
Derived calculations
1
0
1997-01-11
1
1
2008-03-24
1
2
2011-07-13
1
3
2017-11-29
1
4
2018-04-18
1
5
2021-11-03
_pdbx_database_status.process_site
_diffrn_detector.detector
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1996-06-27
REL
REL
SO4
SULFATE ION
HEM
PROTOPORPHYRIN IX CONTAINING FE
HOH
water
SO4
117
2
SO4
SO4
117
A
HEM
104
3
HEM
HEM
104
A
HOH
106
4
HOH
HOH
106
A
HOH
107
4
HOH
HOH
107
A
HOH
110
4
HOH
HOH
110
A
HOH
111
4
HOH
HOH
111
A
HOH
112
4
HOH
HOH
112
A
HOH
113
4
HOH
HOH
113
A
HOH
119
4
HOH
HOH
119
A
HOH
121
4
HOH
HOH
121
A
HOH
122
4
HOH
HOH
122
A
HOH
128
4
HOH
HOH
128
A
HOH
129
4
HOH
HOH
129
A
HOH
131
4
HOH
HOH
131
A
HOH
133
4
HOH
HOH
133
A
HOH
140
4
HOH
HOH
140
A
HOH
141
4
HOH
HOH
141
A
HOH
144
4
HOH
HOH
144
A
HOH
148
4
HOH
HOH
148
A
HOH
149
4
HOH
HOH
149
A
HOH
150
4
HOH
HOH
150
A
HOH
153
4
HOH
HOH
153
A
HOH
156
4
HOH
HOH
156
A
HOH
158
4
HOH
HOH
158
A
HOH
160
4
HOH
HOH
160
A
HOH
163
4
HOH
HOH
163
A
HOH
164
4
HOH
HOH
164
A
HOH
166
4
HOH
HOH
166
A
HOH
167
4
HOH
HOH
167
A
HOH
168
4
HOH
HOH
168
A
HOH
181
4
HOH
HOH
181
A
HOH
182
4
HOH
HOH
182
A
HOH
183
4
HOH
HOH
183
A
HOH
195
4
HOH
HOH
195
A
HOH
197
4
HOH
HOH
197
A
HOH
204
4
HOH
HOH
204
A
HOH
209
4
HOH
HOH
209
A
HOH
214
4
HOH
HOH
214
A
HOH
300
4
HOH
HOH
300
A
HOH
301
4
HOH
HOH
301
A
HOH
302
4
HOH
HOH
302
A
HOH
303
4
HOH
HOH
303
A
HOH
304
4
HOH
HOH
304
A
HOH
305
4
HOH
HOH
305
A
HOH
306
4
HOH
HOH
306
A
HOH
307
4
HOH
HOH
307
A
HOH
308
4
HOH
HOH
308
A
HOH
309
4
HOH
HOH
309
A
HOH
310
4
HOH
HOH
310
A
HOH
311
4
HOH
HOH
311
A
THR
-5
n
1
THR
-5
A
GLU
-4
n
2
GLU
-4
A
PHE
-3
n
3
PHE
-3
A
LYS
-2
n
4
LYS
-2
A
ALA
-1
n
5
ALA
-1
A
GLY
1
n
6
GLY
1
A
SER
2
n
7
SER
2
A
ALA
3
n
8
ALA
3
A
LYS
4
n
9
LYS
4
A
LYS
5
n
10
LYS
5
A
GLY
6
n
11
GLY
6
A
ALA
7
n
12
ALA
7
A
THR
8
n
13
THR
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
ALA
52
n
57
ALA
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
M3L
72
n
77
M3L
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
LYS
79
n
84
LYS
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
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NA
HEM
1_555
86.1
A
HIS
18
A
NE2
HIS
23
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NB
HEM
1_555
89.3
A
HEM
104
C
NA
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NB
HEM
1_555
91.6
A
HIS
18
A
NE2
HIS
23
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NC
HEM
1_555
85.6
A
HEM
104
C
NA
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NC
HEM
1_555
171.7
A
HEM
104
C
NB
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
NC
HEM
1_555
89.3
A
HIS
18
A
NE2
HIS
23
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
ND
HEM
1_555
86.2
A
HEM
104
C
NA
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
ND
HEM
1_555
89.2
A
HEM
104
C
NB
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
ND
HEM
1_555
175.3
A
HEM
104
C
NC
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
HEM
104
C
ND
HEM
1_555
89.2
A
HIS
18
A
NE2
HIS
23
1_555
A
HEM
104
C
FE
HEM
1_555
A
MET
80
A
SD
MET
85
1_555
178.7
A
HEM
104
C
NA
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
MET
80
A
SD
MET
85
1_555
94.4
A
HEM
104
C
NB
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
MET
80
A
SD
MET
85
1_555
91.8
A
HEM
104
C
NC
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
MET
80
A
SD
MET
85
1_555
93.8
A
HEM
104
C
ND
HEM
1_555
A
HEM
104
C
FE
HEM
1_555
A
MET
80
A
SD
MET
85
1_555
92.7
A
M3L
72
N-TRIMETHYLLYSINE
A
M3L
77
LYS
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
A
N
SER
40
A
N
SER
45
A
O
VAL
57
A
O
VAL
62
1
9.15
1.50
110.90
120.05
A
A
A
CA
CB
CG1
VAL
VAL
VAL
20
20
20
N
1
6.67
0.50
120.30
126.97
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
38
38
38
N
1
15.37
2.20
113.40
128.77
A
A
A
CA
CB
CG
GLU
GLU
GLU
44
44
44
N
1
-4.07
0.60
121.00
116.93
A
A
A
CB
CG
CD1
TYR
TYR
TYR
74
74
74
N
1
10.67
1.60
122.70
133.37
A
A
A
O
C
N
MET
MET
ALA
80
80
81
Y
1
-6.61
0.90
118.30
111.69
A
A
A
CB
CG
OD2
ASP
ASP
ASP
90
90
90
N
1
3.66
0.50
120.30
123.96
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
91
91
91
N
1
A
GLU
-4
-162.33
0.91
1
A
LYS
27
-123.84
-119.99
1
A
ASN
70
-167.73
88.66
17.9
PROLSQ STANDARD SET OF IDEAL BOND LENGTHS ETC. (I.E. VERY SIMILAR TO ENGH & HUBER) ESTIMATED COORD. ERROR 0.18 ANGSTROMS FINAL RMS COORD. SHIFT 0.27 ANGSTROMS
0.1830000
2.0
6.0
4146
1
2.0
0.20
2.0
6.0
48
944
48
0
848
0.020
0.020
0.044
0.030
0.052
0.050
1.630
1.500
2.422
2.500
2.383
2.000
3.617
3.000
0.016
0.020
0.196
0.150
0.219
0.250
0.207
0.250
0.245
0.250
2.6
2.5
25.9
19.0
19.1
15.0
2.0
1IRW
6933
0.0
1
1.
100.
refinement
PROLSQ
data reduction
IN-HOUSE
SOFTWARE
CYTOCHROME C ISOZYME 1, REDUCED, MUTANT WITH ASN 52 REPLACED BY ALA AND CYS 102 REPLACED BY THR
1
N
N
2
N
N
3
N
N
4
N
N
A
ALA
3
A
ALA
8
HELX_P
A
ARG
13
A
ARG
18
1
1
11
A
ASP
50
A
ASP
55
HELX_P
A
LYS
55
A
LYS
60
1
2
6
A
GLU
61
A
GLU
66
HELX_P
A
THR
69
A
THR
74
1
3
9
A
PRO
71
A
PRO
76
HELX_P
A
TYR
74
A
TYR
79
5
4
4
A
GLU
88
A
GLU
93
HELX_P
A
ALA
101
A
ALA
106
1
5
14
covale
1.744
none
A
CYS
14
A
SG
CYS
19
1_555
A
HEM
104
C
CAB
HEM
1_555
covale
1.833
none
A
CYS
17
A
SG
CYS
22
1_555
A
HEM
104
C
CAC
HEM
1_555
covale
1.331
both
A
PRO
71
A
C
PRO
76
1_555
A
M3L
72
A
N
M3L
77
1_555
covale
1.284
both
A
M3L
72
A
C
M3L
77
1_555
A
LYS
73
A
N
LYS
78
1_555
metalc
2.001
A
HIS
18
A
NE2
HIS
23
1_555
A
HEM
104
C
FE
HEM
1_555
metalc
2.286
A
MET
80
A
SD
MET
85
1_555
A
HEM
104
C
FE
HEM
1_555
ELECTRON TRANSPORT
HEME PROTEIN, MITOCHONDRION, ELECTRON TRANSPORT
CYC1_YEAST
UNP
1
1
P00044
TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI
PGTKMAFGGLKKEKDRNDLITYLKKACE
1
108
1IRW
-5
103
P00044
A
1
1
108
1
ASN
engineered mutation
ALA
52
1IRW
A
P00044
UNP
57
57
1
LYS
modified residue
M3L
72
1IRW
A
P00044
UNP
77
77
1
CYS
engineered mutation
THR
102
1IRW
A
P00044
UNP
107
107
2
anti-parallel
A
GLY
37
A
GLY
42
A
SER
40
A
SER
45
A
VAL
57
A
VAL
62
A
TRP
59
A
TRP
64
BINDING SITE FOR RESIDUE SO4 A 117
A
SO4
117
Software
4
BINDING SITE FOR RESIDUE HEM A 104
A
HEM
104
Software
19
A
SER
2
A
SER
7
4
1_555
A
ALA
3
A
ALA
8
4
1_555
A
LYS
4
A
LYS
9
4
1_555
A
SER
47
A
SER
52
4
3_554
A
ARG
13
A
ARG
18
19
1_555
A
CYS
14
A
CYS
19
19
1_555
A
CYS
17
A
CYS
22
19
1_555
A
HIS
18
A
HIS
23
19
1_555
A
GLY
23
A
GLY
28
19
6_465
A
VAL
28
A
VAL
33
19
1_555
A
ILE
35
A
ILE
40
19
1_555
A
SER
40
A
SER
45
19
1_555
A
GLY
41
A
GLY
46
19
1_555
A
TYR
46
A
TYR
51
19
1_555
A
TYR
48
A
TYR
53
19
1_555
A
THR
49
A
THR
54
19
1_555
A
TRP
59
A
TRP
64
19
1_555
A
MET
64
A
MET
69
19
1_555
A
THR
78
A
THR
83
19
1_555
A
LYS
79
A
LYS
84
19
1_555
A
MET
80
A
MET
85
19
1_555
A
PHE
82
A
PHE
87
19
1_555
A
HOH
121
D
HOH
19
1_555
96
P 43 21 2