1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Aramini, J.M.
Cort, J.R.
Huang, Y.J.
Xiao, R.
Acton, T.B.
Ho, C.K.
Shih, L.-Y.
Kennedy, M.A.
Montelione, G.T.
Northeast Structural Genomics Consortium (NESG)
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
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
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
US
Protein Sci.
PRCIEI
0795
0961-8368
12
2823
2830
10.1110/ps.03359003
14627742
Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii.
2003
10.2210/pdb1ny4/pdb
pdb_00001ny4
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
9386.690
30S ribosomal protein S28E
1
man
polymer
no
no
MAEDEGYPAEVIEIIGRTGTTGDVTQVKVRILEGRDKGRVIRRNVRGPVRVGDILILRETEREAREIKSRRAAALEHHHH
HH
MAEDEGYPAEVIEIIGRTGTTGDVTQVKVRILEGRDKGRVIRRNVRGPVRVGDILILRETEREAREIKSRRAAALEHHHH
HH
A
JR19
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
Pyrococcus
Escherichia
sample
RPS28E
53953
Pyrococcus horikoshii
562
Escherichia coli
BL21MGK
plasmid
JR19-21
PET21
Northeast Structural Genomics Consortium
NESG
PSI, Protein Structure Initiative
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-09-02
1
1
2008-04-29
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_struct_ref_seq_dif.details
Y
RCSB
Y
RCSB
2003-02-11
REL
REL
THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE
NMR SPECTROSCOPY. AUTOMATIC BACKBONE RESONANCE ASSIGNMENTS
WERE MADE USING AUTOASSIGN. Manual side chain assignments.
AUTOMATIC NOESY ASSIGNMENTS AS WELL AS DISTANCE AND HYDROGEN
BOND RESTRAINTS WERE DETERMINED USING AUTOSTRUCTURE. DIHEDRAL
ANGLE RESTRAINTS WERE DETERMINED USING HYPER AND TALOS.
BACKBONE CONFORMATIONS FOR RESIDUES 1-3, 5-6, 18-20, 22-23,
34-35, 48-49, 57-71, ARE NOT WELL-DEFINED [S(PHI) + S(PSI) <
1.8] IN THIS SOLUTION NMR STRUCTURE.
target function
56
10
3D 15N-NOESY, 3D 13C-NOESY (aliphatic and aromatic)
4D_13C-separated_NOESY
HNHA
high resolution 13C,1H-HSQC
H/D exchange
backbone TR experiments, and 3D TOCSYs
100 mM NaCl
6.5
ambient
293
K
THE STRUCTURES ARE BASED ON A TOTAL
OF 828 CONFORMATIONALLY-RESTRICTING NOE-DERIVED DISTANCE
RESTRAINTS, 99 DIHEDRAL ANGLE RESTRAINTS, AND 28 HYDROGEN
BOND RESTRAINTS. (13.5 CONSTRAINTS PER RESIDUE; 5.2 LONG-RANGE RESTRAINTS PER RESIDUE).
STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY USING
AUTOSTRUCTURE (DYANA).
THE UNSTRUCTURED 11 RESIDUE C-TERMINAL TAG (AAALEHHHHHH) WAS INCLUDED IN THE
STRUCTURE CALCULATIONS BUT IS OMITTED FROM THIS DEPOSITION.
torsion angle dynamics
1
lowest target function
1.0 MM JR19 U-15N,13C 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3, pH 6.5
5% D2O/95% H2O
1.0 MM JR19 U-15N,13C 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3, pH 6.5
D2O
1.0 MM JR19 U-15N, 5%-13C 20 mM MES, 100 mM NaCl, 5 mM CaCl2, 10 mM DTT, 0.02% NaN3, pH 6.5
5% D2O/95% H2O
Varian
collection
VNMR
6.1B
Delaglio
processing
NMRPipe
2.1
Goddard
data analysis
Sparky
3.106
Zimmerman, Moseley, Montelione
data analysis
AutoAssign
1.9
Huang, Montelione
refinement
AutoStructure
1.1.2
Tejero, Montelione
structure solution
HYPER
3.2
Guntert
refinement
DYANA
1.5
Tejero, Montelione
structure solution
PdbStat
3.27
800
Varian
INOVA
750
Varian
INOVA
750
Varian
INOVA
600
Varian
INOVA
500
Varian
INOVA
600
Varian
UNITY
MET
1
n
1
MET
1
A
ALA
2
n
2
ALA
2
A
GLU
3
n
3
GLU
3
A
ASP
4
n
4
ASP
4
A
GLU
5
n
5
GLU
5
A
GLY
6
n
6
GLY
6
A
TYR
7
n
7
TYR
7
A
PRO
8
n
8
PRO
8
A
ALA
9
n
9
ALA
9
A
GLU
10
n
10
GLU
10
A
VAL
11
n
11
VAL
11
A
ILE
12
n
12
ILE
12
A
GLU
13
n
13
GLU
13
A
ILE
14
n
14
ILE
14
A
ILE
15
n
15
ILE
15
A
GLY
16
n
16
GLY
16
A
ARG
17
n
17
ARG
17
A
THR
18
n
18
THR
18
A
GLY
19
n
19
GLY
19
A
THR
20
n
20
THR
20
A
THR
21
n
21
THR
21
A
GLY
22
n
22
GLY
22
A
ASP
23
n
23
ASP
23
A
VAL
24
n
24
VAL
24
A
THR
25
n
25
THR
25
A
GLN
26
n
26
GLN
26
A
VAL
27
n
27
VAL
27
A
LYS
28
n
28
LYS
28
A
VAL
29
n
29
VAL
29
A
ARG
30
n
30
ARG
30
A
ILE
31
n
31
ILE
31
A
LEU
32
n
32
LEU
32
A
GLU
33
n
33
GLU
33
A
GLY
34
n
34
GLY
34
A
ARG
35
n
35
ARG
35
A
ASP
36
n
36
ASP
36
A
LYS
37
n
37
LYS
37
A
GLY
38
n
38
GLY
38
A
ARG
39
n
39
ARG
39
A
VAL
40
n
40
VAL
40
A
ILE
41
n
41
ILE
41
A
ARG
42
n
42
ARG
42
A
ARG
43
n
43
ARG
43
A
ASN
44
n
44
ASN
44
A
VAL
45
n
45
VAL
45
A
ARG
46
n
46
ARG
46
A
GLY
47
n
47
GLY
47
A
PRO
48
n
48
PRO
48
A
VAL
49
n
49
VAL
49
A
ARG
50
n
50
ARG
50
A
VAL
51
n
51
VAL
51
A
GLY
52
n
52
GLY
52
A
ASP
53
n
53
ASP
53
A
ILE
54
n
54
ILE
54
A
LEU
55
n
55
LEU
55
A
ILE
56
n
56
ILE
56
A
LEU
57
n
57
LEU
57
A
ARG
58
n
58
ARG
58
A
GLU
59
n
59
GLU
59
A
THR
60
n
60
THR
60
A
GLU
61
n
61
GLU
61
A
ARG
62
n
62
ARG
62
A
GLU
63
n
63
GLU
63
A
ALA
64
n
64
ALA
64
A
ARG
65
n
65
ARG
65
A
GLU
66
n
66
GLU
66
A
ILE
67
n
67
ILE
67
A
LYS
68
n
68
LYS
68
A
SER
69
n
69
SER
69
A
ARG
70
n
70
ARG
70
A
ARG
71
n
71
ARG
71
A
n
72
72
A
n
73
73
A
n
74
74
A
n
75
75
A
n
76
76
A
n
77
77
A
n
78
78
A
n
79
79
A
n
80
80
A
n
81
81
A
n
82
82
A
author_defined_assembly
1
monomeric
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
ILE
41
A
O
ILE
41
A
N
VAL
29
A
N
VAL
29
A
O
ARG
30
A
O
ARG
30
A
N
GLU
10
A
N
GLU
10
A
N
ALA
9
A
N
ALA
9
A
O
LEU
55
A
O
LEU
55
1
A
ALA
72
A
ALA
72
1
Y
1
A
ALA
73
A
ALA
73
1
Y
1
A
ALA
74
A
ALA
74
1
Y
1
A
LEU
75
A
LEU
75
1
Y
1
A
GLU
76
A
GLU
76
1
Y
1
A
HIS
77
A
HIS
77
1
Y
1
A
HIS
78
A
HIS
78
1
Y
1
A
HIS
79
A
HIS
79
1
Y
1
A
HIS
80
A
HIS
80
1
Y
1
A
HIS
81
A
HIS
81
1
Y
1
A
HIS
82
A
HIS
82
1
Y
2
A
ALA
72
A
ALA
72
1
Y
2
A
ALA
73
A
ALA
73
1
Y
2
A
ALA
74
A
ALA
74
1
Y
2
A
LEU
75
A
LEU
75
1
Y
2
A
GLU
76
A
GLU
76
1
Y
2
A
HIS
77
A
HIS
77
1
Y
2
A
HIS
78
A
HIS
78
1
Y
2
A
HIS
79
A
HIS
79
1
Y
2
A
HIS
80
A
HIS
80
1
Y
2
A
HIS
81
A
HIS
81
1
Y
2
A
HIS
82
A
HIS
82
1
Y
3
A
ALA
72
A
ALA
72
1
Y
3
A
ALA
73
A
ALA
73
1
Y
3
A
ALA
74
A
ALA
74
1
Y
3
A
LEU
75
A
LEU
75
1
Y
3
A
GLU
76
A
GLU
76
1
Y
3
A
HIS
77
A
HIS
77
1
Y
3
A
HIS
78
A
HIS
78
1
Y
3
A
HIS
79
A
HIS
79
1
Y
3
A
HIS
80
A
HIS
80
1
Y
3
A
HIS
81
A
HIS
81
1
Y
3
A
HIS
82
A
HIS
82
1
Y
4
A
ALA
72
A
ALA
72
1
Y
4
A
ALA
73
A
ALA
73
1
Y
4
A
ALA
74
A
ALA
74
1
Y
4
A
LEU
75
A
LEU
75
1
Y
4
A
GLU
76
A
GLU
76
1
Y
4
A
HIS
77
A
HIS
77
1
Y
4
A
HIS
78
A
HIS
78
1
Y
4
A
HIS
79
A
HIS
79
1
Y
4
A
HIS
80
A
HIS
80
1
Y
4
A
HIS
81
A
HIS
81
1
Y
4
A
HIS
82
A
HIS
82
1
Y
5
A
ALA
72
A
ALA
72
1
Y
5
A
ALA
73
A
ALA
73
1
Y
5
A
ALA
74
A
ALA
74
1
Y
5
A
LEU
75
A
LEU
75
1
Y
5
A
GLU
76
A
GLU
76
1
Y
5
A
HIS
77
A
HIS
77
1
Y
5
A
HIS
78
A
HIS
78
1
Y
5
A
HIS
79
A
HIS
79
1
Y
5
A
HIS
80
A
HIS
80
1
Y
5
A
HIS
81
A
HIS
81
1
Y
5
A
HIS
82
A
HIS
82
1
Y
6
A
ALA
72
A
ALA
72
1
Y
6
A
ALA
73
A
ALA
73
1
Y
6
A
ALA
74
A
ALA
74
1
Y
6
A
LEU
75
A
LEU
75
1
Y
6
A
GLU
76
A
GLU
76
1
Y
6
A
HIS
77
A
HIS
77
1
Y
6
A
HIS
78
A
HIS
78
1
Y
6
A
HIS
79
A
HIS
79
1
Y
6
A
HIS
80
A
HIS
80
1
Y
6
A
HIS
81
A
HIS
81
1
Y
6
A
HIS
82
A
HIS
82
1
Y
7
A
ALA
72
A
ALA
72
1
Y
7
A
ALA
73
A
ALA
73
1
Y
7
A
ALA
74
A
ALA
74
1
Y
7
A
LEU
75
A
LEU
75
1
Y
7
A
GLU
76
A
GLU
76
1
Y
7
A
HIS
77
A
HIS
77
1
Y
7
A
HIS
78
A
HIS
78
1
Y
7
A
HIS
79
A
HIS
79
1
Y
7
A
HIS
80
A
HIS
80
1
Y
7
A
HIS
81
A
HIS
81
1
Y
7
A
HIS
82
A
HIS
82
1
Y
8
A
ALA
72
A
ALA
72
1
Y
8
A
ALA
73
A
ALA
73
1
Y
8
A
ALA
74
A
ALA
74
1
Y
8
A
LEU
75
A
LEU
75
1
Y
8
A
GLU
76
A
GLU
76
1
Y
8
A
HIS
77
A
HIS
77
1
Y
8
A
HIS
78
A
HIS
78
1
Y
8
A
HIS
79
A
HIS
79
1
Y
8
A
HIS
80
A
HIS
80
1
Y
8
A
HIS
81
A
HIS
81
1
Y
8
A
HIS
82
A
HIS
82
1
Y
9
A
ALA
72
A
ALA
72
1
Y
9
A
ALA
73
A
ALA
73
1
Y
9
A
ALA
74
A
ALA
74
1
Y
9
A
LEU
75
A
LEU
75
1
Y
9
A
GLU
76
A
GLU
76
1
Y
9
A
HIS
77
A
HIS
77
1
Y
9
A
HIS
78
A
HIS
78
1
Y
9
A
HIS
79
A
HIS
79
1
Y
9
A
HIS
80
A
HIS
80
1
Y
9
A
HIS
81
A
HIS
81
1
Y
9
A
HIS
82
A
HIS
82
1
Y
10
A
ALA
72
A
ALA
72
1
Y
10
A
ALA
73
A
ALA
73
1
Y
10
A
ALA
74
A
ALA
74
1
Y
10
A
LEU
75
A
LEU
75
1
Y
10
A
GLU
76
A
GLU
76
1
Y
10
A
HIS
77
A
HIS
77
1
Y
10
A
HIS
78
A
HIS
78
1
Y
10
A
HIS
79
A
HIS
79
1
Y
10
A
HIS
80
A
HIS
80
1
Y
10
A
HIS
81
A
HIS
81
1
Y
10
A
HIS
82
A
HIS
82
1
Y
1
A
ALA
2
80.69
-56.32
1
A
GLU
3
-36.65
116.50
1
A
ASP
4
-151.24
20.53
1
A
THR
18
-135.26
-46.56
1
A
THR
20
63.73
-75.98
1
A
ARG
35
64.50
-75.32
1
A
LYS
37
39.01
89.08
1
A
PRO
48
-74.96
-162.56
1
A
ASP
53
-43.67
150.28
1
A
GLU
59
-150.84
-47.93
1
A
THR
60
79.96
-3.07
1
A
GLU
61
47.84
-175.40
1
A
ARG
62
-150.19
-59.77
1
A
GLU
63
65.14
79.31
1
A
ALA
64
-100.11
58.46
1
A
GLU
66
61.27
65.24
1
A
ARG
70
41.27
88.01
2
A
ALA
2
-74.45
-143.38
2
A
ASP
4
-150.34
19.61
2
A
ILE
15
-80.41
-77.65
2
A
THR
20
64.25
-76.00
2
A
ARG
35
69.99
-76.02
2
A
LYS
37
41.31
89.87
2
A
PRO
48
-75.00
-166.89
2
A
LEU
57
-160.00
114.93
2
A
GLU
59
178.70
144.43
2
A
THR
60
163.87
-34.10
2
A
ALA
64
-155.69
-70.21
2
A
ARG
65
82.33
-54.15
2
A
LYS
68
-171.37
37.19
2
A
ARG
70
39.61
90.72
3
A
GLU
3
-36.80
116.72
3
A
ILE
15
-94.61
-81.47
3
A
THR
18
-166.26
45.36
3
A
THR
20
67.02
-80.65
3
A
ARG
35
84.33
-47.52
3
A
ASP
36
-92.54
30.51
3
A
LYS
37
-51.25
88.57
3
A
THR
60
82.18
7.99
3
A
ALA
64
-175.91
-64.60
3
A
ARG
65
77.99
-61.68
3
A
GLU
66
65.73
69.94
4
A
GLU
3
-36.39
118.24
4
A
ASP
4
-150.97
20.34
4
A
THR
18
-145.83
56.31
4
A
LYS
37
37.53
88.52
4
A
ILE
56
-96.99
-135.69
4
A
LEU
57
87.98
140.63
4
A
GLU
59
-38.55
-29.27
4
A
THR
60
-80.89
49.00
4
A
ARG
62
63.70
114.60
4
A
GLU
63
-162.65
67.57
4
A
GLU
66
77.00
70.61
4
A
LYS
68
-170.98
60.39
5
A
ASP
4
-153.02
20.99
5
A
THR
18
-145.95
-73.97
5
A
ARG
35
68.19
-73.68
5
A
LYS
37
33.30
88.42
5
A
GLU
59
158.54
-23.67
5
A
ARG
62
83.41
-66.52
5
A
GLU
66
-153.67
-62.56
5
A
ILE
67
53.46
173.28
5
A
LYS
68
-170.59
49.37
6
A
ALA
2
-64.66
-71.04
6
A
GLU
3
77.07
124.32
6
A
ASP
4
-146.61
18.10
6
A
ILE
15
-84.30
-81.50
6
A
LYS
37
32.91
88.32
6
A
VAL
49
60.18
149.69
6
A
GLU
59
-151.87
-71.75
6
A
THR
60
-152.25
-47.36
6
A
GLU
61
72.17
-62.80
6
A
ARG
62
-42.96
106.57
6
A
GLU
66
73.57
61.80
6
A
ILE
67
-88.97
-148.65
6
A
LYS
68
179.78
-37.60
6
A
SER
69
65.65
163.38
6
A
ARG
70
66.65
167.80
7
A
ALA
2
-168.80
-158.64
7
A
ASP
4
-140.44
15.55
7
A
ILE
15
-98.31
-74.19
7
A
THR
18
-154.66
57.76
7
A
THR
20
64.72
-80.77
7
A
LYS
37
36.64
88.42
7
A
ARG
58
69.12
-60.49
7
A
GLU
61
52.67
-175.88
7
A
ARG
62
61.99
-88.77
7
A
ALA
64
-153.29
56.44
7
A
GLU
66
84.30
36.23
7
A
ILE
67
36.69
-148.60
7
A
LYS
68
-175.05
-39.55
7
A
SER
69
60.54
169.23
8
A
ALA
2
-162.18
-166.78
8
A
ASP
4
-150.89
20.08
8
A
LYS
37
39.14
89.36
8
A
ASP
53
-40.72
150.64
8
A
ARG
58
-123.00
-66.61
8
A
GLU
61
-47.66
169.20
8
A
GLU
63
-166.66
105.75
8
A
ALA
64
-170.07
102.00
8
A
GLU
66
74.12
68.86
8
A
LYS
68
-170.29
37.41
9
A
ALA
2
-144.11
-98.61
9
A
GLU
3
-168.45
-140.49
9
A
ASP
4
-152.44
20.61
9
A
ILE
15
-93.48
-70.69
9
A
ARG
35
64.04
-76.80
9
A
LYS
37
39.72
89.34
9
A
VAL
49
-167.65
-166.97
9
A
GLU
61
64.56
-79.88
9
A
ARG
62
82.39
106.24
9
A
ILE
67
41.96
-162.17
9
A
LYS
68
-172.75
47.74
9
A
ARG
70
66.50
142.84
10
A
ALA
2
-89.22
-88.07
10
A
GLU
3
-35.25
112.51
10
A
LYS
37
32.95
88.68
10
A
ARG
58
-72.32
-72.26
10
A
ARG
62
62.81
175.40
10
A
GLU
63
38.15
73.79
10
A
ARG
65
77.18
-0.41
10
A
LYS
68
177.92
-34.42
10
A
SER
69
75.38
-62.89
10
A
ARG
70
-161.63
-63.63
Solution structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Northeast Structural Genomics Consortium target JR19.
1
N
N
RNA BINDING PROTEIN
JR19, AUTOSTRUCTURE, Ribosomal protein, Northeast Structural Genomics Consortium, PSI, Protein Structure Initiative, NESG, RNA binding protein
RS28_PYRHO
UNP
1
1
P61030
MAEDEGYPAEVIEIIGRTGTTGDVTQVKVRILEGRDKGRVIRRNVRGPVRVGDILILRETEREAREIKSRR
1
71
1NY4
1
71
P61030
A
1
1
71
1
expression tag
ALA
72
1NY4
A
P61030
UNP
72
1
expression tag
ALA
73
1NY4
A
P61030
UNP
73
1
expression tag
ALA
74
1NY4
A
P61030
UNP
74
1
expression tag
LEU
75
1NY4
A
P61030
UNP
75
1
expression tag
GLU
76
1NY4
A
P61030
UNP
76
1
expression tag
HIS
77
1NY4
A
P61030
UNP
77
1
expression tag
HIS
78
1NY4
A
P61030
UNP
78
1
expression tag
HIS
79
1NY4
A
P61030
UNP
79
1
expression tag
HIS
80
1NY4
A
P61030
UNP
80
1
expression tag
HIS
81
1NY4
A
P61030
UNP
81
1
expression tag
HIS
82
1NY4
A
P61030
UNP
82
4
anti-parallel
anti-parallel
anti-parallel
A
VAL
40
A
VAL
40
A
ARG
46
A
ARG
46
A
VAL
24
A
VAL
24
A
ILE
31
A
ILE
31
A
PRO
8
A
PRO
8
A
ILE
14
A
ILE
14
A
ILE
54
A
ILE
54
A
ILE
56
A
ILE
56
1
P 1