1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Commans, S.
Dardel, F.
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 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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
253
100
113
10.1006/jmbi.1995.0539
7473706
Solution structure of the anticodon-binding domain of Escherichia coli lysyl-tRNA synthetase and studies of its interaction with tRNA(Lys).
1995
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
18
305
Homology of Lyss and Lysu, the Two Escherichia Coli Genes Encoding Distinct Lysyl-tRNA Synthetase Species
1990
10.2210/pdb1krs/pdb
pdb_00001krs
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
13544.372
LYSYL-TRNA SYNTHETASE (PRODUCT OF LYSS GENE)
6.1.1.6
1
man
polymer
no
no
AEQGIAFPNDFRRDHTSDQLHAEFDGKENEELEALNIEVAVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDDLPEGVY
NEQFKKWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKA
AEQGIAFPNDFRRDHTSDQLHAEFDGKENEELEALNIEVAVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDDLPEGVY
NEQFKKWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKA
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
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
JM101TR
Escherichia
sample
PTRC99A (IPTG-INDUCIBLE LAC PROMOTER)
LYSS CODONS 40 - 149
562
Escherichia coli
LYSS CODONS 40 - 149
562
Escherichia coli
LAC
PTRC-ND
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1995-09-15
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_ref_seq_dif.details
Y
BNL
1995-06-09
REL
1
BRUNGER
refinement
X-PLOR
3.1
n
1
30
A
n
2
31
A
n
3
32
A
n
4
33
A
n
5
34
A
n
6
35
A
n
7
36
A
n
8
37
A
n
9
38
A
n
10
39
A
PHE
40
n
11
PHE
40
A
ARG
41
n
12
ARG
41
A
ARG
42
n
13
ARG
42
A
ASP
43
n
14
ASP
43
A
HIS
44
n
15
HIS
44
A
THR
45
n
16
THR
45
A
SER
46
n
17
SER
46
A
ASP
47
n
18
ASP
47
A
GLN
48
n
19
GLN
48
A
LEU
49
n
20
LEU
49
A
HIS
50
n
21
HIS
50
A
ALA
51
n
22
ALA
51
A
GLU
52
n
23
GLU
52
A
PHE
53
n
24
PHE
53
A
ASP
54
n
25
ASP
54
A
GLY
55
n
26
GLY
55
A
LYS
56
n
27
LYS
56
A
GLU
57
n
28
GLU
57
A
ASN
58
n
29
ASN
58
A
GLU
59
n
30
GLU
59
A
GLU
60
n
31
GLU
60
A
LEU
61
n
32
LEU
61
A
GLU
62
n
33
GLU
62
A
ALA
63
n
34
ALA
63
A
LEU
64
n
35
LEU
64
A
ASN
65
n
36
ASN
65
A
ILE
66
n
37
ILE
66
A
GLU
67
n
38
GLU
67
A
VAL
68
n
39
VAL
68
A
ALA
69
n
40
ALA
69
A
VAL
70
n
41
VAL
70
A
ALA
71
n
42
ALA
71
A
GLY
72
n
43
GLY
72
A
ARG
73
n
44
ARG
73
A
MET
74
n
45
MET
74
A
MET
75
n
46
MET
75
A
THR
76
n
47
THR
76
A
ARG
77
n
48
ARG
77
A
ARG
78
n
49
ARG
78
A
ILE
79
n
50
ILE
79
A
MET
80
n
51
MET
80
A
GLY
81
n
52
GLY
81
A
LYS
82
n
53
LYS
82
A
ALA
83
n
54
ALA
83
A
SER
84
n
55
SER
84
A
PHE
85
n
56
PHE
85
A
VAL
86
n
57
VAL
86
A
THR
87
n
58
THR
87
A
LEU
88
n
59
LEU
88
A
GLN
89
n
60
GLN
89
A
ASP
90
n
61
ASP
90
A
VAL
91
n
62
VAL
91
A
GLY
92
n
63
GLY
92
A
GLY
93
n
64
GLY
93
A
ARG
94
n
65
ARG
94
A
ILE
95
n
66
ILE
95
A
GLN
96
n
67
GLN
96
A
LEU
97
n
68
LEU
97
A
TYR
98
n
69
TYR
98
A
VAL
99
n
70
VAL
99
A
ALA
100
n
71
ALA
100
A
ARG
101
n
72
ARG
101
A
ASP
102
n
73
ASP
102
A
ASP
103
n
74
ASP
103
A
LEU
104
n
75
LEU
104
A
PRO
105
n
76
PRO
105
A
GLU
106
n
77
GLU
106
A
GLY
107
n
78
GLY
107
A
VAL
108
n
79
VAL
108
A
TYR
109
n
80
TYR
109
A
ASN
110
n
81
ASN
110
A
GLU
111
n
82
GLU
111
A
GLN
112
n
83
GLN
112
A
PHE
113
n
84
PHE
113
A
LYS
114
n
85
LYS
114
A
LYS
115
n
86
LYS
115
A
TRP
116
n
87
TRP
116
A
ASP
117
n
88
ASP
117
A
LEU
118
n
89
LEU
118
A
GLY
119
n
90
GLY
119
A
ASP
120
n
91
ASP
120
A
ILE
121
n
92
ILE
121
A
LEU
122
n
93
LEU
122
A
GLY
123
n
94
GLY
123
A
ALA
124
n
95
ALA
124
A
LYS
125
n
96
LYS
125
A
GLY
126
n
97
GLY
126
A
LYS
127
n
98
LYS
127
A
LEU
128
n
99
LEU
128
A
PHE
129
n
100
PHE
129
A
LYS
130
n
101
LYS
130
A
THR
131
n
102
THR
131
A
LYS
132
n
103
LYS
132
A
THR
133
n
104
THR
133
A
GLY
134
n
105
GLY
134
A
GLU
135
n
106
GLU
135
A
LEU
136
n
107
LEU
136
A
SER
137
n
108
SER
137
A
ILE
138
n
109
ILE
138
A
HIS
139
n
110
HIS
139
A
CYS
140
n
111
CYS
140
A
THR
141
n
112
THR
141
A
GLU
142
n
113
GLU
142
A
LEU
143
n
114
LEU
143
A
ARG
144
n
115
ARG
144
A
LEU
145
n
116
LEU
145
A
LEU
146
n
117
LEU
146
A
THR
147
n
118
THR
147
A
LYS
148
n
119
LYS
148
A
ALA
149
n
120
ALA
149
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
GLY
93
A
O
GLY
64
A
N
ASP
90
A
N
ASP
61
A
O
THR
87
A
O
THR
58
A
N
THR
76
A
N
THR
47
A
O
GLY
123
A
O
GLY
94
A
N
ARG
144
A
N
ARG
115
1
A
ALA
30
A
ALA
1
1
Y
1
A
GLU
31
A
GLU
2
1
Y
1
A
GLN
32
A
GLN
3
1
Y
1
A
GLY
33
A
GLY
4
1
Y
1
A
ILE
34
A
ILE
5
1
Y
1
A
ALA
35
A
ALA
6
1
Y
1
A
PHE
36
A
PHE
7
1
Y
1
A
PRO
37
A
PRO
8
1
Y
1
A
ASN
38
A
ASN
9
1
Y
1
A
ASP
39
A
ASP
10
1
Y
1
A
ARG
42
0.318
SIDE CHAIN
1
A
ARG
73
0.301
SIDE CHAIN
1
A
ARG
77
0.309
SIDE CHAIN
1
A
ARG
78
0.302
SIDE CHAIN
1
A
ARG
94
0.276
SIDE CHAIN
1
A
ARG
101
0.314
SIDE CHAIN
1
A
ARG
144
0.284
SIDE CHAIN
1
-22.68
2.70
111.00
88.32
A
A
A
N
CA
C
ASP
ASP
ASP
43
43
43
N
1
20.35
1.70
113.60
133.95
A
A
A
CA
CB
CG
HIS
HIS
HIS
44
44
44
N
1
-12.95
1.70
111.00
98.05
A
A
A
CB
CG
CD2
LEU
LEU
LEU
49
49
49
N
1
-14.95
2.20
117.20
102.25
A
A
A
CA
C
N
GLU
GLU
GLU
59
59
60
Y
1
-9.56
1.50
110.90
101.34
A
A
A
CA
CB
CG1
VAL
VAL
VAL
68
68
68
N
1
-19.06
2.20
117.20
98.14
A
A
A
CA
C
N
VAL
VAL
ALA
68
68
69
Y
1
-12.54
1.40
110.10
97.56
A
A
A
N
CA
CB
ALA
ALA
ALA
69
69
69
N
1
21.37
2.70
111.00
132.37
A
A
A
N
CA
C
ALA
ALA
ALA
69
69
69
N
1
-18.51
2.20
117.20
98.69
A
A
A
CA
C
N
ALA
ALA
VAL
69
69
70
Y
1
-10.81
1.40
112.40
101.59
A
A
A
CA
CB
CG2
THR
THR
THR
76
76
76
N
1
-5.70
0.60
121.00
115.30
A
A
A
CB
CG
CD2
TYR
TYR
TYR
98
98
98
N
1
4.52
0.60
121.00
125.52
A
A
A
CB
CG
CD1
TYR
TYR
TYR
98
98
98
N
1
-8.86
1.40
110.10
101.24
A
A
A
N
CA
CB
ALA
ALA
ALA
100
100
100
N
1
-12.27
1.80
110.60
98.33
A
A
A
N
CA
CB
TYR
TYR
TYR
109
109
109
N
1
-19.34
2.20
113.40
94.06
A
A
A
CA
CB
CG
GLU
GLU
GLU
111
111
111
N
1
-14.50
1.80
110.60
96.10
A
A
A
N
CA
CB
GLN
GLN
GLN
112
112
112
N
1
-17.92
2.70
111.00
93.08
A
A
A
N
CA
C
GLN
GLN
GLN
112
112
112
N
1
-5.00
0.70
120.80
115.80
A
A
A
CB
CG
CD2
PHE
PHE
PHE
113
113
113
N
1
4.73
0.70
120.80
125.53
A
A
A
CB
CG
CD1
PHE
PHE
PHE
113
113
113
N
1
-18.66
1.90
113.70
95.04
A
A
A
CA
CB
CG
TRP
TRP
TRP
116
116
116
N
1
9.25
1.30
126.60
135.85
A
A
A
CB
CG
CD2
TRP
TRP
TRP
116
116
116
N
1
-14.22
1.30
127.00
112.78
A
A
A
CB
CG
CD1
TRP
TRP
TRP
116
116
116
N
1
-13.51
2.20
117.20
103.69
A
A
A
CA
C
N
TRP
TRP
ASP
116
116
117
Y
1
-13.81
2.20
117.20
103.39
A
A
A
CA
C
N
ASP
ASP
LEU
117
117
118
Y
1
-12.98
1.70
111.00
98.02
A
A
A
CB
CG
CD2
LEU
LEU
LEU
118
118
118
N
1
-20.32
2.50
113.10
92.78
A
A
A
N
CA
C
GLY
GLY
GLY
123
123
123
N
1
-14.20
2.00
110.40
96.20
A
A
A
N
CA
CB
LEU
LEU
LEU
136
136
136
N
1
26.41
2.70
111.00
137.41
A
A
A
N
CA
C
LEU
LEU
LEU
136
136
136
N
1
12.50
1.70
111.00
123.50
A
A
A
CB
CG
CD2
LEU
LEU
LEU
145
145
145
N
1
-13.02
2.00
110.40
97.38
A
A
A
N
CA
CB
LEU
LEU
LEU
146
146
146
N
1
-17.65
2.30
115.30
97.65
A
A
A
CA
CB
CG
LEU
LEU
LEU
146
146
146
N
1
10.83
1.70
111.00
121.83
A
A
A
CB
CG
CD2
LEU
LEU
LEU
146
146
146
N
1
13.02
2.10
120.10
133.12
A
A
A
CA
C
O
LEU
LEU
LEU
146
146
146
N
1
-25.93
2.20
117.20
91.27
A
A
A
CA
C
N
LEU
LEU
THR
146
146
147
Y
1
12.91
1.60
122.70
135.61
A
A
A
O
C
N
LEU
LEU
THR
146
146
147
Y
1
A
A
CG
ND1
HIS
HIS
44
44
-0.095
0.015
1.369
1.274
N
1
A
A
CA
CB
ALA
ALA
69
69
-0.258
0.021
1.520
1.262
N
1
A
A
CA
CB
ALA
ALA
83
83
-0.173
0.021
1.520
1.347
N
1
A
A
CG
CD2
TRP
TRP
116
116
-0.106
0.017
1.432
1.326
N
1
A
ARG
41
-107.83
-158.72
1
A
HIS
44
-13.94
-100.17
1
A
SER
46
98.06
89.75
1
A
PHE
53
-38.44
-37.21
1
A
LYS
56
-121.22
-167.97
1
A
ASN
65
-15.51
143.37
1
A
GLU
67
-111.00
66.28
1
A
MET
74
-161.81
-149.62
1
A
MET
75
179.19
9.90
1
A
ARG
78
-141.03
51.96
1
A
ILE
79
-47.60
153.85
1
A
MET
80
-152.09
38.73
1
A
LYS
82
-119.95
-151.03
1
A
ALA
83
-3.21
114.12
1
A
VAL
91
-24.48
-60.45
1
A
PRO
105
-69.99
64.06
1
A
VAL
108
-47.09
-19.51
1
A
TYR
109
-74.68
-144.19
1
A
ASN
110
-40.43
-17.96
1
A
LEU
118
-28.98
-114.63
1
A
LYS
130
-46.48
90.77
1
A
GLU
135
-112.50
-112.42
1
A
LEU
136
-21.12
7.29
1
A
HIS
139
-117.03
77.95
1
A
THR
141
-132.83
-31.66
1
A
LEU
146
-78.61
-168.82
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
SOLUTION STRUCTURE OF THE ANTICODON BINDING DOMAIN OF ESCHERICHIA COLI LYSYL-TRNA SYNTHETASE AND STUDIES OF ITS INTERACTIONS WITH TRNA-LYS
1
Y
N
A
GLN
48
A
GLN
19
HELX_P
A
PHE
53
A
PHE
24
1
1
6
A
ASN
58
A
ASN
29
HELX_P
A
ALA
63
A
ALA
34
1
2
6
A
GLN
112
A
GLN
83
HELX_P
A
LYS
115
A
LYS
86
1
3
4
AMINOACYL-TRNA SYNTHETASE
AMINOACYL-TRNA SYNTHETASE
SYK1_ECOLI
UNP
1
1
P0A8N3
SEQHAQGADAVVDLNNELKTRREKLANLREQGIAFPNDFRRDHTSDQLHAEFDGKENEELEALNIEVAVAGRMMTRRIMG
KASFVTLQDVGGRIQLYVARDDLPEGVYNEQFKKWDLGDILGAKGKLFKTKTGELSIHCTELRLLTKALRPLPDKFHGLQ
DQEARYRQRYLDLISNDESRNTFKVRSQILSGIRQFMVNRGFMEVETPMMQVIPGGAAARPFITHHNALDLDMYLRIAPE
LYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYKDLIELTESLFRTLAQDILGKTEVTYGDVTLDFG
KPFEKLTMREAIKKYRPETDMADLDNFDSAKAIAESIGIHVEKSWGLGRIVTEIFEEVAEAHLIQPTFITEYPAEVSPLA
RRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAQRFLDQVAAKDAGDDEAMFYDEDYVTALEHGLPPTAGLGIGIDR
MVMLFTNSHTIRDVILFPAMRPVK
26
148
1KRS
30
149
P0A8N3
A
1
1
120
1
ASN
deletion
1KRS
A
P0A8N3
UNP
27
1
LEU
deletion
1KRS
A
P0A8N3
UNP
28
1
ARG
deletion
1KRS
A
P0A8N3
UNP
29
3
2
anti-parallel
anti-parallel
anti-parallel
A
GLY
93
A
GLY
64
A
VAL
99
A
VAL
70
A
SER
84
A
SER
55
A
ASP
90
A
ASP
61
A
ARG
73
A
ARG
44
A
ARG
77
A
ARG
48
A
LEU
122
A
LEU
93
A
PHE
129
A
PHE
100
A
SER
137
A
SER
108
A
LEU
145
A
LEU
116
1
P 1