1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
He, F.
Muto, Y.
Inoue, M.
Kigawa, T.
Shirouzu, M.
Tarada, T.
Yokoyama, S.
RIKEN Structural Genomics/Proteomics Initiative (RSGI)
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
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
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
To be Published
0353
Solution structure of the SP-RING domain in non-SMC element 2 homolog (MMS21, S. cerevisiae)
10.2210/pdb2yu4/pdb
pdb_00002yu4
10635.110
E3 SUMO-protein ligase NSE2
6.-.-.-
SP-RING domain
1
man
polymer
65.409
ZINC ION
1
syn
non-polymer
Non-structural maintenance of chromosomes element 2 homolog, Non-SMC element 2 homolog, hMMS21
no
no
GSSGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN
KKRHRHSESGPSSG
GSSGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN
KKRHRHSESGPSSG
A
hsi002021786.1
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
human
Homo
sample
cell-free protein synthesis
C8orf36
9606
Homo sapiens
plasmid
P050302-25
RIKEN Structural Genomics/Proteomics Initiative
RSGI
NPPSFA, National Project on Protein Structural and Functional Analyses
database_2
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Data collection
Database references
Derived calculations
1
0
2007-10-09
1
1
2011-07-13
1
2
2022-03-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
HELIX
DETERMINATION METHOD: AUTHOR DETERMINED
Y
PDBJ
Y
PDBJ
2007-04-05
REL
REL
ZN
ZINC ION
structures with the least restraint violations, target function
100
20
3D_13C-separated_NOESY
3D_15N-separated_NOESY
120mM
7.0
ambient
298
K
torsion angle dynamics
1
lowest energy
1.0mM 13C, 15N-labeled protein; 20mM d-Tris-HCl (pH 7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O, 10% D2O
90% H2O/10% D2O
Bruker
collection
XwinNMR
3.5
Delaglio, F.
processing
NMRPipe
20030801
Johnson, B.A.
data analysis
NMRView
5.0.4
Kobayashi, N.
data analysis
KUJIRA
0.9820
Guntert, P.
structure solution
CYANA
2.1
Guntert, P.
refinement
CYANA
2.1
800
Bruker
AVANCE
ZN
201
2
ZN
ZN
201
A
GLY
1
n
1
GLY
1
A
SER
2
n
2
SER
2
A
SER
3
n
3
SER
3
A
GLY
4
n
4
GLY
4
A
SER
5
n
5
SER
5
A
SER
6
n
6
SER
6
A
GLY
7
n
7
GLY
7
A
PHE
8
n
8
PHE
8
A
THR
9
n
9
THR
9
A
CYS
10
n
10
CYS
10
A
PRO
11
n
11
PRO
11
A
ILE
12
n
12
ILE
12
A
THR
13
n
13
THR
13
A
LYS
14
n
14
LYS
14
A
GLU
15
n
15
GLU
15
A
GLU
16
n
16
GLU
16
A
MET
17
n
17
MET
17
A
LYS
18
n
18
LYS
18
A
LYS
19
n
19
LYS
19
A
PRO
20
n
20
PRO
20
A
VAL
21
n
21
VAL
21
A
LYS
22
n
22
LYS
22
A
ASN
23
n
23
ASN
23
A
LYS
24
n
24
LYS
24
A
VAL
25
n
25
VAL
25
A
CYS
26
n
26
CYS
26
A
GLY
27
n
27
GLY
27
A
HIS
28
n
28
HIS
28
A
THR
29
n
29
THR
29
A
TYR
30
n
30
TYR
30
A
GLU
31
n
31
GLU
31
A
GLU
32
n
32
GLU
32
A
ASP
33
n
33
ASP
33
A
ALA
34
n
34
ALA
34
A
ILE
35
n
35
ILE
35
A
VAL
36
n
36
VAL
36
A
ARG
37
n
37
ARG
37
A
MET
38
n
38
MET
38
A
ILE
39
n
39
ILE
39
A
GLU
40
n
40
GLU
40
A
SER
41
n
41
SER
41
A
ARG
42
n
42
ARG
42
A
GLN
43
n
43
GLN
43
A
LYS
44
n
44
LYS
44
A
ARG
45
n
45
ARG
45
A
LYS
46
n
46
LYS
46
A
LYS
47
n
47
LYS
47
A
LYS
48
n
48
LYS
48
A
ALA
49
n
49
ALA
49
A
TYR
50
n
50
TYR
50
A
CYS
51
n
51
CYS
51
A
PRO
52
n
52
PRO
52
A
GLN
53
n
53
GLN
53
A
ILE
54
n
54
ILE
54
A
GLY
55
n
55
GLY
55
A
CYS
56
n
56
CYS
56
A
SER
57
n
57
SER
57
A
HIS
58
n
58
HIS
58
A
THR
59
n
59
THR
59
A
ASP
60
n
60
ASP
60
A
ILE
61
n
61
ILE
61
A
ARG
62
n
62
ARG
62
A
LYS
63
n
63
LYS
63
A
SER
64
n
64
SER
64
A
ASP
65
n
65
ASP
65
A
LEU
66
n
66
LEU
66
A
ILE
67
n
67
ILE
67
A
GLN
68
n
68
GLN
68
A
ASP
69
n
69
ASP
69
A
GLU
70
n
70
GLU
70
A
ALA
71
n
71
ALA
71
A
LEU
72
n
72
LEU
72
A
ARG
73
n
73
ARG
73
A
ARG
74
n
74
ARG
74
A
ALA
75
n
75
ALA
75
A
ILE
76
n
76
ILE
76
A
GLU
77
n
77
GLU
77
A
ASN
78
n
78
ASN
78
A
HIS
79
n
79
HIS
79
A
ASN
80
n
80
ASN
80
A
LYS
81
n
81
LYS
81
A
LYS
82
n
82
LYS
82
A
ARG
83
n
83
ARG
83
A
HIS
84
n
84
HIS
84
A
ARG
85
n
85
ARG
85
A
HIS
86
n
86
HIS
86
A
SER
87
n
87
SER
87
A
GLU
88
n
88
GLU
88
A
SER
89
n
89
SER
89
A
GLY
90
n
90
GLY
90
A
PRO
91
n
91
PRO
91
A
SER
92
n
92
SER
92
A
SER
93
n
93
SER
93
A
GLY
94
n
94
GLY
94
A
author_defined_assembly
1
monomeric
A
CYS
26
A
SG
CYS
26
1_555
A
ZN
201
B
ZN
ZN
1_555
A
HIS
28
A
ND1
HIS
28
1_555
109.0
A
CYS
26
A
SG
CYS
26
1_555
A
ZN
201
B
ZN
ZN
1_555
A
CYS
51
A
SG
CYS
51
1_555
105.8
A
HIS
28
A
ND1
HIS
28
1_555
A
ZN
201
B
ZN
ZN
1_555
A
CYS
51
A
SG
CYS
51
1_555
114.6
A
CYS
26
A
SG
CYS
26
1_555
A
ZN
201
B
ZN
ZN
1_555
A
CYS
56
A
SG
CYS
56
1_555
110.2
A
HIS
28
A
ND1
HIS
28
1_555
A
ZN
201
B
ZN
ZN
1_555
A
CYS
56
A
SG
CYS
56
1_555
114.6
A
CYS
51
A
SG
CYS
51
1_555
A
ZN
201
B
ZN
ZN
1_555
A
CYS
56
A
SG
CYS
56
1_555
102.1
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
30
A
O
TYR
30
A
N
VAL
21
A
N
VAL
21
A
N
LYS
22
A
N
LYS
22
A
O
ILE
67
A
O
ILE
67
1
A
SER
3
-123.26
-52.35
1
A
ILE
12
-100.56
-66.98
1
A
HIS
28
-53.78
172.86
1
A
CYS
51
-51.11
103.55
1
A
ILE
54
-51.57
107.08
1
A
THR
59
-154.42
35.84
1
A
ARG
83
56.88
91.23
1
A
HIS
84
-145.19
38.71
1
A
ARG
85
-135.48
-65.24
1
A
HIS
86
-95.35
-69.71
1
A
GLU
88
-168.89
67.67
2
A
SER
3
57.34
72.30
2
A
ILE
12
-99.92
-69.24
2
A
HIS
28
-54.01
173.29
2
A
CYS
51
-50.97
103.60
2
A
ILE
54
-51.56
104.70
2
A
THR
59
-152.46
37.90
2
A
ARG
85
-149.48
-50.06
2
A
SER
89
-147.45
41.76
2
A
SER
92
-153.10
86.45
3
A
ILE
12
-99.45
-68.61
3
A
HIS
28
-54.24
173.86
3
A
CYS
51
-51.12
103.52
3
A
ILE
54
-53.36
102.04
3
A
THR
59
-154.31
37.29
3
A
ARG
85
63.14
175.32
3
A
HIS
86
60.35
-177.35
4
A
ILE
12
-95.05
-63.89
4
A
HIS
28
-54.36
173.77
4
A
CYS
51
-51.12
103.67
4
A
ILE
54
-51.61
108.03
4
A
THR
59
-154.48
34.61
4
A
HIS
86
60.36
96.34
4
A
SER
92
57.32
70.66
5
A
SER
2
-157.79
43.08
5
A
ILE
12
-98.70
-67.69
5
A
HIS
28
-53.93
173.16
5
A
CYS
51
-51.06
103.57
5
A
ILE
54
-51.98
103.24
5
A
THR
59
-154.19
35.40
5
A
ARG
85
57.75
78.11
5
A
HIS
86
-148.21
-66.97
5
A
SER
87
-168.56
48.29
6
A
ILE
12
-101.43
-63.32
6
A
HIS
28
-55.79
177.19
6
A
CYS
51
-51.00
103.65
6
A
ILE
54
-51.59
105.46
6
A
THR
59
-153.20
38.13
6
A
HIS
84
-59.78
174.58
6
A
GLU
88
-108.77
74.56
6
A
SER
89
59.47
95.89
7
A
ILE
12
-96.51
-65.83
7
A
CYS
51
-51.15
103.68
7
A
ILE
54
-51.58
104.03
7
A
THR
59
-154.39
36.43
7
A
ARG
83
57.47
73.05
7
A
HIS
84
-59.55
107.25
7
A
SER
93
-148.99
-69.38
8
A
SER
2
-163.58
115.76
8
A
SER
5
-167.87
119.46
8
A
SER
6
-142.45
-67.21
8
A
ILE
12
-96.25
-67.78
8
A
HIS
28
-56.56
177.50
8
A
CYS
51
-51.20
103.61
8
A
ILE
54
-51.71
104.49
8
A
THR
59
-154.44
34.52
8
A
ARG
83
62.97
102.98
8
A
HIS
86
57.85
87.67
9
A
ILE
12
-95.39
-64.51
9
A
HIS
28
-57.17
177.48
9
A
CYS
51
-50.94
103.61
9
A
ILE
54
-51.68
109.79
9
A
THR
59
-152.83
34.97
9
A
ARG
85
-155.66
33.07
10
A
HIS
28
-54.12
173.23
10
A
CYS
51
-51.23
103.68
10
A
ILE
54
-51.57
104.51
10
A
THR
59
-154.38
37.43
10
A
GLU
88
62.64
167.78
10
A
SER
92
-161.68
34.58
11
A
ILE
12
-96.84
-64.63
11
A
HIS
28
-57.09
179.66
11
A
CYS
51
-51.13
103.63
11
A
ILE
54
-51.62
108.88
11
A
THR
59
-153.55
34.14
11
A
ARG
83
59.90
95.09
11
A
HIS
84
-130.72
-47.60
11
A
SER
93
-146.99
-68.20
12
A
SER
2
-55.25
101.46
12
A
SER
3
60.16
177.84
12
A
SER
6
54.71
-171.13
12
A
ILE
12
-98.76
-67.56
12
A
HIS
28
-54.30
173.87
12
A
CYS
51
-51.15
103.62
12
A
ILE
54
-51.69
108.33
12
A
THR
59
-154.53
33.93
12
A
HIS
86
62.11
168.67
12
A
SER
92
-162.46
104.49
13
A
ILE
12
-99.61
-64.45
13
A
HIS
28
-57.51
179.42
13
A
CYS
51
-51.02
103.66
13
A
THR
59
-151.30
35.97
13
A
SER
92
63.12
96.00
14
A
SER
2
-176.87
-44.99
14
A
SER
3
-146.66
44.33
14
A
ILE
12
-96.62
-65.15
14
A
HIS
28
-57.45
179.90
14
A
CYS
51
-51.14
103.65
14
A
ILE
54
-51.56
109.22
14
A
THR
59
-151.44
37.12
14
A
ARG
83
63.03
171.88
14
A
ARG
85
61.70
68.34
14
A
GLU
88
55.22
85.51
15
A
SER
3
-92.83
50.96
15
A
SER
6
-98.48
39.52
15
A
ILE
12
-95.42
-62.45
15
A
CYS
51
-51.13
103.62
15
A
THR
59
-152.13
34.60
15
A
HIS
84
54.51
83.46
15
A
HIS
86
-118.96
77.02
15
A
GLU
88
-106.72
77.95
15
A
SER
89
-162.13
-43.78
15
A
SER
92
-165.28
57.56
16
A
SER
3
61.97
-174.22
16
A
ILE
12
-99.03
-68.83
16
A
HIS
28
-54.08
173.47
16
A
CYS
51
-51.22
103.64
16
A
ILE
54
-51.67
103.98
16
A
THR
59
-154.19
35.05
16
A
ARG
85
69.17
-75.44
17
A
SER
3
-174.00
107.36
17
A
SER
6
-138.32
-48.47
17
A
HIS
28
-55.03
174.81
17
A
CYS
51
-51.11
103.65
17
A
ILE
54
-51.67
103.31
17
A
THR
59
-152.54
38.28
17
A
ARG
83
69.19
-75.39
17
A
HIS
84
-174.38
86.83
17
A
SER
89
62.35
96.94
17
A
SER
92
-155.92
28.52
17
A
SER
93
-160.64
103.01
18
A
SER
2
-176.61
-52.19
18
A
SER
3
72.13
-69.45
18
A
ILE
12
-96.98
-67.61
18
A
HIS
28
-57.20
-179.92
18
A
CYS
51
-51.11
103.63
18
A
ILE
54
-51.72
107.18
18
A
THR
59
-154.57
32.71
18
A
ARG
83
62.21
168.71
18
A
ARG
85
61.90
70.64
18
A
SER
87
-143.84
-61.16
18
A
SER
93
-131.21
-42.14
19
A
SER
2
69.31
-75.72
19
A
SER
3
58.16
76.55
19
A
ILE
12
-97.11
-65.46
19
A
HIS
28
-57.39
179.94
19
A
CYS
51
-51.11
103.69
19
A
THR
59
-151.31
36.58
19
A
SER
89
-119.58
70.72
19
A
PRO
91
-69.72
93.20
20
A
SER
6
-110.15
72.71
20
A
ILE
12
-96.03
-65.04
20
A
HIS
28
-57.23
179.82
20
A
CYS
51
-51.07
103.64
20
A
ILE
54
-51.57
109.96
20
A
THR
59
-151.22
36.60
20
A
ARG
83
69.19
-75.38
20
A
HIS
84
-163.82
52.58
Solution structure of the SP-RING domain in non-SMC element 2 homolog (MMS21, S. cerevisiae)
1
N
N
2
N
N
A
GLU
32
A
GLU
32
HELX_P
A
GLN
43
A
GLN
43
1
1
12
A
LYS
63
A
LYS
63
HELX_P
A
ASP
65
A
ASP
65
5
2
3
A
GLU
70
A
GLU
70
HELX_P
A
ASN
80
A
ASN
80
1
3
11
metalc
2.245
A
CYS
26
A
SG
CYS
26
1_555
A
ZN
201
B
ZN
ZN
1_555
metalc
2.052
A
HIS
28
A
ND1
HIS
28
1_555
A
ZN
201
B
ZN
ZN
1_555
metalc
2.344
A
CYS
51
A
SG
CYS
51
1_555
A
ZN
201
B
ZN
ZN
1_555
metalc
2.349
A
CYS
56
A
SG
CYS
56
1_555
A
ZN
201
B
ZN
ZN
1_555
APOPTOSIS
SP-RING domain, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, APOPTOSIS
NSE2_HUMAN
UNP
1
167
Q96MF7
FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHNKKRHRHS
E
167
247
2YU4
8
88
Q96MF7
A
1
8
88
1
expression tag
GLY
1
2YU4
A
Q96MF7
UNP
1
1
expression tag
SER
2
2YU4
A
Q96MF7
UNP
2
1
expression tag
SER
3
2YU4
A
Q96MF7
UNP
3
1
expression tag
GLY
4
2YU4
A
Q96MF7
UNP
4
1
expression tag
SER
5
2YU4
A
Q96MF7
UNP
5
1
expression tag
SER
6
2YU4
A
Q96MF7
UNP
6
1
expression tag
GLY
7
2YU4
A
Q96MF7
UNP
7
1
expression tag
SER
89
2YU4
A
Q96MF7
UNP
89
1
expression tag
GLY
90
2YU4
A
Q96MF7
UNP
90
1
expression tag
PRO
91
2YU4
A
Q96MF7
UNP
91
1
expression tag
SER
92
2YU4
A
Q96MF7
UNP
92
1
expression tag
SER
93
2YU4
A
Q96MF7
UNP
93
1
expression tag
GLY
94
2YU4
A
Q96MF7
UNP
94
3
anti-parallel
anti-parallel
A
THR
29
A
THR
29
A
GLU
31
A
GLU
31
A
PRO
20
A
PRO
20
A
ASN
23
A
ASN
23
A
LEU
66
A
LEU
66
A
GLN
68
A
GLN
68
BINDING SITE FOR RESIDUE ZN A 201
A
ZN
201
Software
4
A
CYS
26
A
CYS
26
4
1_555
A
HIS
28
A
HIS
28
4
1_555
A
CYS
51
A
CYS
51
4
1_555
A
CYS
56
A
CYS
56
4
1_555