0.011045
0.000000
0.000291
0.000000
0.037931
0.000000
0.000000
0.000000
0.025335
0.00000
0.00000
0.00000
Arbing, M.A.
Abashidze, M.
Hurley, J.M.
Zhao, L.
Janjua, H.
Cunningham, K.
Ma, L.C.
Xiao, R.
Liu, J.
Baran, M.C.
Acton, T.B.
Rost, B.
Inouye, M.
Woychik, N.A.
Montelione, G.T.
Hunt, J.F.
Northeast Structural Genomics Consortium (NESG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
91.51
90.00
90.535
26.364
39.485
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
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
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
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
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
Structure
STRUE6
2005
0969-2126
18
996
1010
10.1016/j.str.2010.04.018
20696400
Crystal Structures of Phd-Doc, HigA, and YeeU Establish Multiple Evolutionary Links between Microbial Growth-Regulating Toxin-Antitoxin Systems.
2010
100
1
CCD
2006-07-11
ADSC QUANTUM 315
SINGLE WAVELENGTH
M
x-ray
1
0.97941
1.0
6.90
67242
0.237
1.44
1.630
30.000
11696
98.50
5.70
24-ID-C
APS
0.97941
SYNCHROTRON
APS BEAMLINE 24-ID-C
10647.538
antitoxin higa
1
man
polymer
18.015
water
96
nat
water
Putative HTH-type transcriptional regulator yddM
no
yes
(MSE)K(MSE)ANHPRPGDIIQESLDELNVSLREFARA(MSE)EIAPSTASRLLTGKAALTPE(MSE)AIKLSVVIGSSP
Q(MSE)WLNLQNAWSLAEAEKTVDVSRLRRLVTQ
MKMANHPRPGDIIQESLDELNVSLREFARAMEIAPSTASRLLTGKAALTPEMAIKLSVVIGSSPQMWLNLQNAWSLAEAE
KTVDVSRLRRLVTQ
A
ER390
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
Escherichia
Escherichia coli
CFT073
Escherichia
sample
higa
199310
Escherichia coli
562
Escherichia coli
BL21(DE3)+ MAGIC
plasmid
pET28-HigA
1
2.26
45.59
Under oil.
8.5
5 mM MgSO4, 50 mM Tris pH 8.5, 35% 1,6-Hexanediol, Under oil., temperature 293K
293
Northeast Structural Genomics Consortium
NESG
PSI, Protein Structure Initiative
software
repository
Initial release
Version format compliance
Derived calculations
Source and taxonomy
Version format compliance
Refinement description
1
0
2006-09-26
1
1
2008-05-01
1
2
2011-07-13
1
3
2017-10-18
Crystal structure of the bacterial antitoxin HigA from Escherichia coli at pH 4.0
Y
RCSB
Y
RCSB
2006-09-13
REL
REL
0.172
1.816
100.00
6.20
0.139
1.383
99.80
6.50
0.157
1.622
100.00
6.50
0.190
1.550
99.20
6.50
0.239
1.928
99.30
6.50
0.265
1.739
99.20
6.50
0.288
1.616
99.30
6.40
0.349
1.639
99.70
6.30
0.383
1.543
98.50
6.30
0.428
1.331
98.40
6.10
0.500
1.459
99.70
6.00
0.574
1.376
97.30
5.90
0.673
1.201
99.80
5.60
0.713
1.156
97.30
5.60
0.825
1.167
99.00
5.30
0.802
1.109
95.50
5.00
1.061
98.70
4.80
1.130
95.50
4.60
1.156
97.10
4.20
0.988
95.40
3.80
HOH
water
HOH
3001
2
HOH
HOH
3001
A
HOH
3002
2
HOH
HOH
3002
A
HOH
3003
2
HOH
HOH
3003
A
HOH
3004
2
HOH
HOH
3004
A
HOH
3005
2
HOH
HOH
3005
A
HOH
3006
2
HOH
HOH
3006
A
HOH
3007
2
HOH
HOH
3007
A
HOH
3008
2
HOH
HOH
3008
A
HOH
3009
2
HOH
HOH
3009
A
HOH
3010
2
HOH
HOH
3010
A
HOH
3011
2
HOH
HOH
3011
A
HOH
3012
2
HOH
HOH
3012
A
HOH
3013
2
HOH
HOH
3013
A
HOH
3014
2
HOH
HOH
3014
A
HOH
3015
2
HOH
HOH
3015
A
HOH
3016
2
HOH
HOH
3016
A
HOH
3017
2
HOH
HOH
3017
A
HOH
3018
2
HOH
HOH
3018
A
HOH
3019
2
HOH
HOH
3019
A
HOH
3020
2
HOH
HOH
3020
A
HOH
3021
2
HOH
HOH
3021
A
HOH
3022
2
HOH
HOH
3022
A
HOH
3023
2
HOH
HOH
3023
A
HOH
3024
2
HOH
HOH
3024
A
HOH
3025
2
HOH
HOH
3025
A
HOH
3026
2
HOH
HOH
3026
A
HOH
3027
2
HOH
HOH
3027
A
HOH
3028
2
HOH
HOH
3028
A
HOH
3029
2
HOH
HOH
3029
A
HOH
3030
2
HOH
HOH
3030
A
HOH
3031
2
HOH
HOH
3031
A
HOH
3032
2
HOH
HOH
3032
A
HOH
3033
2
HOH
HOH
3033
A
HOH
3034
2
HOH
HOH
3034
A
HOH
3035
2
HOH
HOH
3035
A
HOH
3036
2
HOH
HOH
3036
A
HOH
3037
2
HOH
HOH
3037
A
HOH
3038
2
HOH
HOH
3038
A
HOH
3039
2
HOH
HOH
3039
A
HOH
3040
2
HOH
HOH
3040
A
HOH
3041
2
HOH
HOH
3041
A
HOH
3042
2
HOH
HOH
3042
A
HOH
3043
2
HOH
HOH
3043
A
HOH
3044
2
HOH
HOH
3044
A
HOH
3045
2
HOH
HOH
3045
A
HOH
3046
2
HOH
HOH
3046
A
HOH
3047
2
HOH
HOH
3047
A
HOH
3048
2
HOH
HOH
3048
A
HOH
3049
2
HOH
HOH
3049
A
HOH
3050
2
HOH
HOH
3050
A
HOH
3051
2
HOH
HOH
3051
A
HOH
3052
2
HOH
HOH
3052
A
HOH
3053
2
HOH
HOH
3053
A
HOH
3054
2
HOH
HOH
3054
A
HOH
3055
2
HOH
HOH
3055
A
HOH
3056
2
HOH
HOH
3056
A
HOH
3057
2
HOH
HOH
3057
A
HOH
3058
2
HOH
HOH
3058
A
HOH
3059
2
HOH
HOH
3059
A
HOH
3060
2
HOH
HOH
3060
A
HOH
3061
2
HOH
HOH
3061
A
HOH
3062
2
HOH
HOH
3062
A
HOH
3063
2
HOH
HOH
3063
A
HOH
3064
2
HOH
HOH
3064
A
HOH
3065
2
HOH
HOH
3065
A
HOH
3066
2
HOH
HOH
3066
A
HOH
3067
2
HOH
HOH
3067
A
HOH
3068
2
HOH
HOH
3068
A
HOH
3069
2
HOH
HOH
3069
A
HOH
3070
2
HOH
HOH
3070
A
HOH
3071
2
HOH
HOH
3071
A
HOH
3072
2
HOH
HOH
3072
A
HOH
3073
2
HOH
HOH
3073
A
HOH
3074
2
HOH
HOH
3074
A
HOH
3075
2
HOH
HOH
3075
A
HOH
3076
2
HOH
HOH
3076
A
HOH
3077
2
HOH
HOH
3077
A
HOH
3078
2
HOH
HOH
3078
A
HOH
3079
2
HOH
HOH
3079
A
HOH
3080
2
HOH
HOH
3080
A
HOH
3081
2
HOH
HOH
3081
A
HOH
3082
2
HOH
HOH
3082
A
HOH
3083
2
HOH
HOH
3083
A
HOH
3084
2
HOH
HOH
3084
A
HOH
3085
2
HOH
HOH
3085
A
HOH
3086
2
HOH
HOH
3086
A
HOH
3087
2
HOH
HOH
3087
A
HOH
3088
2
HOH
HOH
3088
A
HOH
3089
2
HOH
HOH
3089
A
HOH
3090
2
HOH
HOH
3090
A
HOH
3091
2
HOH
HOH
3091
A
HOH
3092
2
HOH
HOH
3092
A
HOH
3093
2
HOH
HOH
3093
A
HOH
3094
2
HOH
HOH
3094
A
HOH
3095
2
HOH
HOH
3095
A
HOH
3096
2
HOH
HOH
3096
A
48.700
38.620
4.000
4.000
15.000
15.000
MSE
1
n
1
MSE
1
A
LYS
2
n
2
LYS
2
A
MSE
3
n
3
MSE
3
A
ALA
4
n
4
ALA
4
A
ASN
5
n
5
ASN
5
A
HIS
6
n
6
HIS
6
A
PRO
7
n
7
PRO
7
A
ARG
8
n
8
ARG
8
A
PRO
9
n
9
PRO
9
A
GLY
10
n
10
GLY
10
A
ASP
11
n
11
ASP
11
A
ILE
12
n
12
ILE
12
A
ILE
13
n
13
ILE
13
A
GLN
14
n
14
GLN
14
A
GLU
15
n
15
GLU
15
A
SER
16
n
16
SER
16
A
LEU
17
n
17
LEU
17
A
ASP
18
n
18
ASP
18
A
GLU
19
n
19
GLU
19
A
LEU
20
n
20
LEU
20
A
ASN
21
n
21
ASN
21
A
VAL
22
n
22
VAL
22
A
SER
23
n
23
SER
23
A
LEU
24
n
24
LEU
24
A
ARG
25
n
25
ARG
25
A
GLU
26
n
26
GLU
26
A
PHE
27
n
27
PHE
27
A
ALA
28
n
28
ALA
28
A
ARG
29
n
29
ARG
29
A
ALA
30
n
30
ALA
30
A
MSE
31
n
31
MSE
31
A
GLU
32
n
32
GLU
32
A
ILE
33
n
33
ILE
33
A
ALA
34
n
34
ALA
34
A
PRO
35
n
35
PRO
35
A
SER
36
n
36
SER
36
A
THR
37
n
37
THR
37
A
ALA
38
n
38
ALA
38
A
SER
39
n
39
SER
39
A
ARG
40
n
40
ARG
40
A
LEU
41
n
41
LEU
41
A
LEU
42
n
42
LEU
42
A
THR
43
n
43
THR
43
A
GLY
44
n
44
GLY
44
A
LYS
45
n
45
LYS
45
A
ALA
46
n
46
ALA
46
A
ALA
47
n
47
ALA
47
A
LEU
48
n
48
LEU
48
A
THR
49
n
49
THR
49
A
PRO
50
n
50
PRO
50
A
GLU
51
n
51
GLU
51
A
MSE
52
n
52
MSE
52
A
ALA
53
n
53
ALA
53
A
ILE
54
n
54
ILE
54
A
LYS
55
n
55
LYS
55
A
LEU
56
n
56
LEU
56
A
SER
57
n
57
SER
57
A
VAL
58
n
58
VAL
58
A
VAL
59
n
59
VAL
59
A
ILE
60
n
60
ILE
60
A
GLY
61
n
61
GLY
61
A
SER
62
n
62
SER
62
A
SER
63
n
63
SER
63
A
PRO
64
n
64
PRO
64
A
GLN
65
n
65
GLN
65
A
MSE
66
n
66
MSE
66
A
TRP
67
n
67
TRP
67
A
LEU
68
n
68
LEU
68
A
ASN
69
n
69
ASN
69
A
LEU
70
n
70
LEU
70
A
GLN
71
n
71
GLN
71
A
ASN
72
n
72
ASN
72
A
ALA
73
n
73
ALA
73
A
TRP
74
n
74
TRP
74
A
SER
75
n
75
SER
75
A
LEU
76
n
76
LEU
76
A
ALA
77
n
77
ALA
77
A
GLU
78
n
78
GLU
78
A
ALA
79
n
79
ALA
79
A
GLU
80
n
80
GLU
80
A
LYS
81
n
81
LYS
81
A
THR
82
n
82
THR
82
A
VAL
83
n
83
VAL
83
A
ASP
84
n
84
ASP
84
A
VAL
85
n
85
VAL
85
A
SER
86
n
86
SER
86
A
ARG
87
n
87
ARG
87
A
LEU
88
n
88
LEU
88
A
ARG
89
n
89
ARG
89
A
ARG
90
n
90
ARG
90
A
LEU
91
n
91
LEU
91
A
VAL
92
n
92
VAL
92
A
THR
93
n
93
THR
93
A
GLN
94
n
94
GLN
94
A
author_defined_assembly
1
monomeric
software_defined_assembly
PISA,PQS
2
dimeric
3240
-24
10610
A
MSE
1
SELENOMETHIONINE
A
MSE
1
MET
A
MSE
3
SELENOMETHIONINE
A
MSE
3
MET
A
MSE
31
SELENOMETHIONINE
A
MSE
31
MET
A
MSE
52
SELENOMETHIONINE
A
MSE
52
MET
A
MSE
66
SELENOMETHIONINE
A
MSE
66
MET
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
2_655
-x+1,y,-z
crystal symmetry operation
90.5350000000
0.0000000000
0.0000000000
1
A
SER
62
64.96
-165.32
protein_rep.param
water_rep.param
ion.param
22.007
3.321
0.000
-2.390
-3.601
0.000
0.280
0.201
0.198
1.630
30.000
506
9805
4.200
82.300
0.904
1
1360.00
MOLECULAR REPLACEMENT
36.819
1.630
30.000
96
823
0
0
727
0.005
1.013
0.34
0.247
1.690
23
580
603
10
0.199
0.247
1.760
39
676
715
10
0.222
0.22
1.840
32
774
806
10
0.203
0.201
1.930
48
873
921
10
0.218
0.202
2.050
49
978
1027
10
0.196
0.19
2.210
31
1045
1076
10
0.238
0.193
2.430
73
1025
1098
10
0.182
0.189
2.790
64
1077
1141
10
0.193
0.193
3.510
64
1100
1164
10
0.188
0.194
40.000
83
1171
1254
10
1.630
30.000
2ICT
11696
0.237
1.442
1
6.900
5.700
98.500
1.63
1.66
544
0.988
1
3.80
95.40
1.66
1.69
578
1.156
1
4.20
97.10
1.69
1.72
546
1.130
1
4.60
95.50
1.72
1.76
590
1.061
1
4.80
98.70
0.802
1.76
1.79
547
1.109
1
5.00
95.50
0.825
1.79
1.84
580
1.167
1
5.30
99.00
0.713
1.84
1.88
610
1.156
1
5.60
97.30
0.673
1.88
1.93
550
1.201
1
5.60
99.80
0.574
1.93
1.99
582
1.376
1
5.90
97.30
0.5
1.99
2.05
602
1.459
1
6.00
99.70
0.428
2.05
2.13
570
1.331
1
6.10
98.40
0.383
2.13
2.21
589
1.543
1
6.30
98.50
0.349
2.21
2.31
580
1.639
1
6.30
99.70
0.288
2.31
2.43
597
1.616
1
6.40
99.30
0.265
2.43
2.59
588
1.739
1
6.50
99.20
0.239
2.59
2.79
596
1.928
1
6.50
99.30
0.19
2.79
3.07
591
1.550
1
6.50
99.20
0.157
3.07
3.51
594
1.622
1
6.50
100.00
0.139
3.51
4.42
630
1.383
1
6.50
99.80
0.172
4.42
30.00
632
1.816
1
6.20
100.00
data reduction
Zbyszek Otwinowski
zbyszek@mix.swmed.edu
http://www.lnls.br/infra/linhasluz/denzo-hkl.htm
DENZO
package
data scaling
Zbyszek Otwinowski
zbyszek@mix.swmed.edu
http://www.lnls.br/infra/linhasluz/denzo-hkl.htm
SCALEPACK
package
phasing
L. Tong
tong@como.bio.columbia.edu
05/01
http://como.bio.columbia.edu/tong/Public/Como/como.html
COMO
package
1.2
refinement
Axel T. Brunger
axel.brunger@yale.edu
Fortran_77
http://cns.csb.yale.edu/v1.1/
CNS
package
data extraction
PDB
sw-help@rcsb.rutgers.edu
April. 3, 2006
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
2.000
data collection
ADSC
QUANTUM
Y
Putative HTH-type transcriptional regulator yddM
Crystal structure of the bacterial antitoxin HigA from Escherichia coli at pH 8.5. Northeast Structural Genomics TARGET ER390.
1
N
N
2
N
N
A
ARG
8
A
ARG
8
HELX_P
A
ASN
21
A
ASN
21
1
1
14
A
SER
23
A
SER
23
HELX_P
A
GLU
32
A
GLU
32
1
2
10
A
ALA
34
A
ALA
34
HELX_P
A
THR
43
A
THR
43
1
3
10
A
THR
49
A
THR
49
HELX_P
A
ILE
60
A
ILE
60
1
4
12
A
SER
63
A
SER
63
HELX_P
A
LYS
81
A
LYS
81
1
5
19
covale
1.329
A
MSE
1
A
C
MSE
1
1_555
A
LYS
2
A
N
LYS
2
1_555
covale
1.329
A
LYS
2
A
C
LYS
2
1_555
A
MSE
3
A
N
MSE
3
1_555
covale
1.328
A
MSE
3
A
C
MSE
3
1_555
A
ALA
4
A
N
ALA
4
1_555
covale
1.330
A
ALA
30
A
C
ALA
30
1_555
A
MSE
31
A
N
MSE
31
1_555
covale
1.325
A
MSE
31
A
C
MSE
31
1_555
A
GLU
32
A
N
GLU
32
1_555
covale
1.330
A
GLU
51
A
C
GLU
51
1_555
A
MSE
52
A
N
MSE
52
1_555
covale
1.331
A
MSE
52
A
C
MSE
52
1_555
A
ALA
53
A
N
ALA
53
1_555
covale
1.332
A
GLN
65
A
C
GLN
65
1_555
A
MSE
66
A
N
MSE
66
1_555
covale
1.330
A
MSE
66
A
C
MSE
66
1_555
A
TRP
67
A
N
TRP
67
1_555
DNA BINDING PROTEIN
helix-turn-helix, Structural Genomics, PSI-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, NESG, DNA BINDING PROTEIN
YDDM_ECOLI
UNP
1
1
P67699
1
94
2ICT
1
94
P67699
A
1
1
94
5
C 1 2 1