1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Schweimer, K.
Hoffmann, S.
Wastl, J.
Maier, U.G.
Roesch, P.
Sticht, H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
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
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
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
Zn 2
65.409
ZINC ION
non-polymer
US
Protein Sci.
PRCIEI
0795
0961-8368
9
1474
1486
10.1110/ps.9.8.1474
10975569
Solution structure of a zinc substituted eukaryotic rubredoxin from the cryptomonad alga Guillardia theta.
2000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
7784.847
RUBREDOXIN
1
man
polymer
65.409
ZINC ION
1
syn
non-polymer
no
no
MEIDEGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFKSIKKVIAGFAENQKYG
MEIDEGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFKSIKKVIAGFAENQKYG
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
sample
THE RBX-GENE IS ENCODED ON THE G.THETA NUCLEOMORPH (CHROMOSOME II)
NCBI 55529
55529
NUCLEOMORPH
GUILLARDIA THETA
469008
ESCHERICHIA COLI
BL21(DE3)
PLASMID
PET28A
citation
repository
Initial release
Version format compliance
Version format compliance
Database references
1
0
2000-01-04
1
1
2011-05-07
1
2
2011-07-13
1
3
2018-01-17
_citation.page_last
_citation.pdbx_database_id_DOI
_citation.title
PDBE
Y
PDBE
1999-12-23
REL
ZN
ZINC ION
THE IRON-ATOM PRESENT IN THE NATIVE RUBREDOXIN WAS REPLACED
BY ZINC IN ORDER TO AVOID PARAMAGNETIC EFFECTS.
THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR SPECTROSCOPY ON 13C, 15N-LABELED, ZINC-SUBSTITUTED RUBREDOXIN
LEAST RESTRAINT VIOLATION, LOWEST ENERGY
60
21
1H-1H NOESY
1H-1H TOCSY 1H-15N HSQC
1H-13C CT-HSQC 15N-EDITED NOESY(3D)
13C-EDITED NOESY(3D) HNCO
HNCA
HNCACB
CBCA(CO)NH HBHA(CO)NH
HNHA
HCCH-COSY
10
mM
6.4
pH
1
atm
298
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE.
simulated annealing
10% WATER/90% D2O
BRUNGER
refinement
X-PLOR
structure solution
NMRVIEW
structure solution
NDEE
600
Bruker
DRX
ZN
71
2
ZN
ZN
71
A
MET
1
n
1
MET
1
A
GLU
2
n
2
GLU
2
A
ILE
3
n
3
ILE
3
A
ASP
4
n
4
ASP
4
A
GLU
5
n
5
GLU
5
A
GLY
6
n
6
GLY
6
A
LYS
7
n
7
LYS
7
A
TYR
8
n
8
TYR
8
A
GLU
9
n
9
GLU
9
A
CYS
10
n
10
CYS
10
A
GLU
11
n
11
GLU
11
A
ALA
12
n
12
ALA
12
A
CYS
13
n
13
CYS
13
A
GLY
14
n
14
GLY
14
A
TYR
15
n
15
TYR
15
A
ILE
16
n
16
ILE
16
A
TYR
17
n
17
TYR
17
A
GLU
18
n
18
GLU
18
A
PRO
19
n
19
PRO
19
A
GLU
20
n
20
GLU
20
A
LYS
21
n
21
LYS
21
A
GLY
22
n
22
GLY
22
A
ASP
23
n
23
ASP
23
A
LYS
24
n
24
LYS
24
A
PHE
25
n
25
PHE
25
A
ALA
26
n
26
ALA
26
A
GLY
27
n
27
GLY
27
A
ILE
28
n
28
ILE
28
A
PRO
29
n
29
PRO
29
A
PRO
30
n
30
PRO
30
A
GLY
31
n
31
GLY
31
A
THR
32
n
32
THR
32
A
PRO
33
n
33
PRO
33
A
PHE
34
n
34
PHE
34
A
VAL
35
n
35
VAL
35
A
ASP
36
n
36
ASP
36
A
LEU
37
n
37
LEU
37
A
SER
38
n
38
SER
38
A
ASP
39
n
39
ASP
39
A
SER
40
n
40
SER
40
A
PHE
41
n
41
PHE
41
A
MET
42
n
42
MET
42
A
CYS
43
n
43
CYS
43
A
PRO
44
n
44
PRO
44
A
ALA
45
n
45
ALA
45
A
CYS
46
n
46
CYS
46
A
ARG
47
n
47
ARG
47
A
SER
48
n
48
SER
48
A
PRO
49
n
49
PRO
49
A
LYS
50
n
50
LYS
50
A
ASN
51
n
51
ASN
51
A
GLN
52
n
52
GLN
52
A
PHE
53
n
53
PHE
53
A
LYS
54
n
54
LYS
54
A
SER
55
n
55
SER
55
A
ILE
56
n
56
ILE
56
A
LYS
57
n
57
LYS
57
A
LYS
58
n
58
LYS
58
A
VAL
59
n
59
VAL
59
A
ILE
60
n
60
ILE
60
A
ALA
61
n
61
ALA
61
A
GLY
62
n
62
GLY
62
A
PHE
63
n
63
PHE
63
A
ALA
64
n
64
ALA
64
A
GLU
65
n
65
GLU
65
A
ASN
66
n
66
ASN
66
A
GLN
67
n
67
GLN
67
A
LYS
68
n
68
LYS
68
A
TYR
69
n
69
TYR
69
A
GLY
70
n
70
GLY
70
A
author_defined_assembly
1
monomeric
A
CYS
43
A
SG
CYS
43
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
13
A
SG
CYS
13
1_555
109.6
A
CYS
43
A
SG
CYS
43
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
46
A
SG
CYS
46
1_555
108.9
A
CYS
13
A
SG
CYS
13
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
46
A
SG
CYS
46
1_555
110.6
A
CYS
43
A
SG
CYS
43
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
10
A
SG
CYS
10
1_555
108.7
A
CYS
13
A
SG
CYS
13
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
10
A
SG
CYS
10
1_555
109.5
A
CYS
46
A
SG
CYS
46
1_555
A
ZN
71
B
ZN
ZN
1_555
A
CYS
10
A
SG
CYS
10
1_555
109.6
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
O
TYR
15
A
O
TYR
15
A
N
CYS
10
A
N
CYS
10
A
O
GLU
9
A
O
GLU
9
A
N
LYS
54
A
N
LYS
54
1
A
ARG
47
0.230
SIDE CHAIN
2
A
ARG
47
0.295
SIDE CHAIN
3
A
ARG
47
0.317
SIDE CHAIN
4
A
ARG
47
0.207
SIDE CHAIN
5
A
ARG
47
0.200
SIDE CHAIN
6
A
ARG
47
0.318
SIDE CHAIN
7
A
ARG
47
0.168
SIDE CHAIN
8
A
ARG
47
0.295
SIDE CHAIN
9
A
ARG
47
0.304
SIDE CHAIN
10
A
ARG
47
0.276
SIDE CHAIN
11
A
ARG
47
0.157
SIDE CHAIN
12
A
ARG
47
0.210
SIDE CHAIN
13
A
ARG
47
0.223
SIDE CHAIN
14
A
ARG
47
0.309
SIDE CHAIN
15
A
ARG
47
0.260
SIDE CHAIN
16
A
ARG
47
0.260
SIDE CHAIN
17
A
ARG
47
0.253
SIDE CHAIN
18
A
ARG
47
0.152
SIDE CHAIN
19
A
ARG
47
0.210
SIDE CHAIN
20
A
ARG
47
0.211
SIDE CHAIN
21
A
ARG
47
0.316
SIDE CHAIN
1
A
ASP
4
174.02
-24.88
1
A
GLU
5
-69.68
61.44
1
A
PRO
19
-68.77
-70.04
1
A
PRO
30
-70.90
-163.38
1
A
LEU
37
-56.61
178.97
1
A
ARG
47
57.65
18.17
1
A
ILE
56
-159.99
77.63
1
A
LYS
57
-100.71
65.76
1
A
ALA
61
-176.20
127.16
1
A
GLU
65
-154.36
79.01
1
A
ASN
66
-90.74
53.16
2
A
GLU
2
-61.88
96.38
2
A
GLU
5
-90.57
-148.47
2
A
PRO
19
-68.58
-76.66
2
A
PRO
30
-72.19
-164.87
2
A
SER
55
-68.15
-178.44
2
A
ILE
56
-160.00
88.12
2
A
LYS
57
-101.66
64.55
2
A
GLN
67
-103.54
62.89
3
A
GLU
5
-91.38
-146.95
3
A
PRO
19
-68.99
-72.24
3
A
PRO
30
-73.01
-163.59
3
A
LEU
37
-53.19
-179.25
3
A
ILE
56
-157.60
69.93
3
A
LYS
58
-170.47
148.59
3
A
ALA
61
-153.36
23.23
3
A
GLU
65
53.46
79.38
3
A
ASN
66
-146.92
46.38
4
A
ASP
4
178.06
-32.02
4
A
GLU
5
-66.66
78.03
4
A
PRO
30
-69.54
-164.14
4
A
SER
38
-49.57
164.86
4
A
ARG
47
52.95
17.73
4
A
LYS
57
-108.69
66.46
4
A
ALA
64
-174.19
127.70
4
A
GLN
67
-116.68
-167.31
5
A
GLU
2
53.68
71.46
5
A
ASP
4
-146.70
10.53
5
A
PRO
19
-68.81
-74.04
5
A
PRO
30
-70.84
-163.54
5
A
ARG
47
57.30
16.32
5
A
ILE
56
-160.03
81.51
5
A
ALA
61
-176.80
-56.74
5
A
LYS
68
55.32
173.75
5
A
TYR
69
-147.09
-72.90
6
A
ASP
4
-176.35
-30.70
6
A
GLU
5
-78.59
-142.04
6
A
PRO
30
-71.42
-163.83
6
A
ARG
47
57.66
17.60
6
A
ILE
56
-158.78
89.19
6
A
LYS
57
-105.59
67.48
6
A
ILE
60
-152.33
71.67
6
A
ALA
61
-157.24
78.84
6
A
PHE
63
-147.36
-158.41
6
A
GLU
65
-129.48
-165.51
6
A
ASN
66
-170.65
-38.90
6
A
GLN
67
-123.12
-164.07
7
A
GLU
2
54.19
94.03
7
A
ASP
4
179.56
112.77
7
A
GLU
5
-158.61
26.27
7
A
PRO
19
-70.06
-74.59
7
A
PRO
30
-70.05
-163.85
7
A
SER
40
-141.20
51.74
7
A
ALA
45
-121.66
-50.42
7
A
SER
55
-64.25
-179.94
7
A
ILE
56
-160.12
91.96
7
A
ALA
61
55.64
-164.06
7
A
ALA
64
-153.38
40.36
7
A
LYS
68
-90.35
-70.43
8
A
ASP
4
171.77
-26.57
8
A
PRO
30
-70.76
-163.73
8
A
LEU
37
-53.66
170.68
8
A
ARG
47
59.44
18.87
8
A
SER
55
-59.88
172.42
8
A
ILE
56
-159.97
84.77
8
A
LYS
57
-110.00
68.01
8
A
PHE
63
-156.77
34.89
8
A
ALA
64
52.57
78.09
8
A
GLN
67
-125.45
-168.10
8
A
TYR
69
-167.13
81.64
9
A
ASP
4
179.92
112.44
9
A
GLU
5
-168.03
46.38
9
A
PRO
30
-70.66
-163.79
9
A
ARG
47
58.75
13.65
9
A
SER
55
-50.95
177.69
9
A
ILE
56
-141.98
58.05
9
A
LYS
68
52.89
-170.33
10
A
GLU
2
51.80
74.23
10
A
ASP
4
178.91
-22.20
10
A
GLU
5
-79.13
-141.26
10
A
PRO
30
-70.95
-163.28
10
A
SER
55
-52.00
-178.26
10
A
LYS
57
-105.73
67.86
10
A
ALA
64
-106.08
-76.92
10
A
GLU
65
-109.17
-75.27
10
A
ASN
66
-165.61
-59.15
10
A
TYR
69
-58.37
-173.69
11
A
ASP
4
-159.54
13.30
11
A
PRO
30
-71.68
-163.54
11
A
SER
38
-49.93
160.00
11
A
ARG
47
58.49
14.56
11
A
SER
55
-57.28
178.34
11
A
ILE
56
-155.35
84.52
11
A
GLU
65
-72.64
-158.37
11
A
ASN
66
-165.14
74.00
11
A
LYS
68
-140.99
-45.17
12
A
ASP
4
179.91
-30.26
12
A
GLU
5
-67.49
71.20
12
A
PRO
30
-70.19
-163.77
12
A
ARG
47
54.50
18.84
12
A
LYS
57
-114.27
70.96
12
A
ILE
60
-157.63
69.38
12
A
ASN
66
-102.58
-64.57
12
A
GLN
67
-139.75
-51.36
12
A
TYR
69
-57.88
96.77
13
A
ASP
4
-177.87
-25.73
13
A
GLU
5
-64.87
75.80
13
A
PRO
30
-69.99
-163.72
13
A
LYS
57
-101.64
65.49
13
A
TYR
69
-64.86
97.98
14
A
ASP
4
178.83
112.75
14
A
GLU
5
-171.95
54.22
14
A
PRO
30
-68.59
-163.78
14
A
LEU
37
-54.38
176.37
14
A
ARG
47
58.37
13.84
14
A
ILE
56
-151.48
76.49
14
A
LYS
57
-100.01
62.73
14
A
ALA
61
-67.41
90.87
14
A
ALA
64
-173.47
142.16
14
A
ASN
66
-147.91
48.86
14
A
GLN
67
-152.69
40.50
15
A
GLU
2
-115.31
77.50
15
A
ASP
4
176.54
113.26
15
A
GLU
5
-159.46
-148.89
15
A
PRO
30
-67.89
-164.43
15
A
SER
38
-56.53
173.31
15
A
SER
55
-54.14
-174.17
15
A
LYS
57
-114.54
70.86
15
A
ALA
61
50.47
-149.41
15
A
PHE
63
51.99
91.08
16
A
GLU
2
-115.31
77.50
16
A
ASP
4
176.54
113.26
16
A
GLU
5
-159.46
-148.89
16
A
PRO
30
-67.89
-164.43
16
A
SER
38
-56.53
173.31
16
A
SER
55
-54.14
-174.17
16
A
LYS
57
-114.54
70.86
16
A
ALA
61
50.47
-149.41
16
A
PHE
63
51.99
91.08
17
A
ASP
4
179.22
112.19
17
A
GLU
5
-167.60
29.52
17
A
PRO
19
-69.42
-71.32
17
A
PRO
30
-69.27
-164.72
17
A
ALA
61
-114.47
-160.31
17
A
ALA
64
-140.82
53.07
17
A
GLU
65
-108.47
46.63
17
A
GLN
67
-164.19
29.82
17
A
LYS
68
-91.83
47.31
18
A
ASP
4
-177.56
-29.96
18
A
GLU
5
-78.85
-141.39
18
A
PRO
19
-68.77
-70.64
18
A
PRO
30
-71.85
-163.39
18
A
ARG
47
57.20
17.16
18
A
SER
55
-52.89
178.99
18
A
ILE
56
-160.11
91.67
18
A
ALA
61
-101.04
-162.12
18
A
GLU
65
-98.29
44.22
18
A
ASN
66
-169.19
33.75
18
A
GLN
67
56.40
168.34
19
A
GLU
2
-173.94
76.70
19
A
ASP
4
171.58
-21.26
19
A
GLU
5
-67.89
65.27
19
A
PRO
30
-72.39
-164.09
19
A
SER
38
-52.68
177.67
19
A
ARG
47
58.36
17.73
19
A
LYS
57
-115.20
71.76
19
A
ALA
61
53.51
-158.87
19
A
PHE
63
-109.57
-68.68
19
A
ASN
66
-78.45
-72.99
19
A
GLN
67
-120.41
-79.78
20
A
GLU
2
-114.35
58.81
20
A
ASP
4
-157.80
10.81
20
A
PRO
30
-72.45
-163.40
20
A
ARG
47
45.48
23.56
20
A
ILE
56
-155.95
67.52
20
A
ILE
60
-95.07
57.86
20
A
GLU
65
-156.47
50.85
21
A
GLU
2
-173.52
66.57
21
A
ASP
4
178.46
112.02
21
A
GLU
5
-172.47
65.70
21
A
PRO
30
-70.64
-163.37
21
A
LEU
37
-52.10
172.81
21
A
ARG
47
54.39
15.98
21
A
SER
55
-52.12
-179.99
21
A
ILE
56
-158.53
67.26
21
A
LYS
57
-102.58
61.39
21
A
ASN
66
-160.49
-44.41
RUBREDOXIN
Rubredoxin from Guillardia theta
1
N
N
2
N
N
A
PRO
33
A
PRO
33
HELX_P
A
LEU
37
A
LEU
37
5
1
5
metalc
2.347
A
ZN
71
B
ZN
ZN
1_555
A
CYS
43
A
SG
CYS
43
1_555
metalc
2.354
A
ZN
71
B
ZN
ZN
1_555
A
CYS
13
A
SG
CYS
13
1_555
metalc
2.352
A
ZN
71
B
ZN
ZN
1_555
A
CYS
46
A
SG
CYS
46
1_555
metalc
2.352
A
ZN
71
B
ZN
ZN
1_555
A
CYS
10
A
SG
CYS
10
1_555
ELECTRON TRANSPORT
ELECTRON TRANSPORT, RUBREDOXIN, GUILLARDIA THETA, ZINC-SUBSTITUTION
Q9XG40
UNP
1
Q9XG40
57
126
1DX8
1
70
Q9XG40
A
1
1
70
3
anti-parallel
anti-parallel
A
TYR
15
A
TYR
15
A
TYR
17
A
TYR
17
A
TYR
8
A
TYR
8
A
CYS
10
A
CYS
10
A
PHE
53
A
PHE
53
A
SER
55
A
SER
55
BINDING SITE FOR RESIDUE ZN A 71
Software
4
A
CYS
10
A
CYS
10
4
1_555
A
CYS
13
A
CYS
13
4
1_555
A
CYS
43
A
CYS
43
4
1_555
A
CYS
46
A
CYS
46
4
1_555
1
P 1