0.012551
0.000000
0.000000
0.000000
0.010772
0.000000
0.000000
0.000000
0.027182
0.00000
0.00000
0.00000
Bent, C.J.
Isaacs, N.W.
Mitchell, T.J.
Riboldi-Tunnicliffe, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
79.673
92.829
36.789
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
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 S
149.211
y
METHIONINE
L-peptide linking
C4 H8 N O7 P
213.083
n
ASPARTYL PHOSPHATE
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
Xe
131.293
XENON
non-polymer
US
J.Bacteriol.
JOBAAY
0767
0021-9193
186
2872
2879
10.1128/JB.186.9.2872-2879.2004
15090529
Crystal structure of the response regulator 02 receiver domain, the essential YycF two-component system of Streptococcus pneumoniae in both complexed and native states.
2004
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2002-09-29
MARRESEARCH
1.8
SAD using Sulphur and Xenon
M
x-ray
1
1.8
1.0
5.2R
ELETTRA
1.8
SYNCHROTRON
ELETTRA BEAMLINE 5.2R
13680.710
DNA-binding response regulator
MicA receiver Domain
1
man
polymer
131.293
XENON
1
syn
non-polymer
18.015
water
30
nat
water
no
yes
MKKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIIL(PHD)LMLPEIDGLEVAKTIRKTSSVPIL
MLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ
MKKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSA
KDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ
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
Streptococcus
Streptococcus pneumoniae
TIGR4
Escherichia
Escherichia coli
sample
170187
Streptococcus pneumoniae
469008
Escherichia coli BL21(DE3)
BL21(DE3)
Plasmid
Pet33B
1
2.54
51.22
VAPOR DIFFUSION, SITTING DROP
4.0
40%v/v PEG 300, 100mM Phosphate Citrate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
293
repository
Initial release
Version format compliance
Advisory
Source and taxonomy
Version format compliance
1
0
2004-02-17
1
1
2008-04-29
1
2
2011-07-13
RCSB
Y
RCSB
2003-02-11
REL
REL
XE
XENON
HOH
water
XE
101
2
XE
XE
121
A
HOH
1
3
HOH
HOH
122
A
HOH
2
3
HOH
HOH
123
A
HOH
3
3
HOH
HOH
124
A
HOH
4
3
HOH
HOH
125
A
HOH
5
3
HOH
HOH
126
A
HOH
6
3
HOH
HOH
127
A
HOH
7
3
HOH
HOH
128
A
HOH
8
3
HOH
HOH
129
A
HOH
9
3
HOH
HOH
130
A
HOH
10
3
HOH
HOH
131
A
HOH
11
3
HOH
HOH
132
A
HOH
12
3
HOH
HOH
133
A
HOH
13
3
HOH
HOH
134
A
HOH
14
3
HOH
HOH
135
A
HOH
15
3
HOH
HOH
136
A
HOH
16
3
HOH
HOH
137
A
HOH
17
3
HOH
HOH
138
A
HOH
18
3
HOH
HOH
139
A
HOH
19
3
HOH
HOH
140
A
HOH
20
3
HOH
HOH
141
A
HOH
21
3
HOH
HOH
142
A
HOH
22
3
HOH
HOH
143
A
HOH
23
3
HOH
HOH
144
A
HOH
24
3
HOH
HOH
145
A
HOH
25
3
HOH
HOH
146
A
HOH
26
3
HOH
HOH
147
A
HOH
27
3
HOH
HOH
148
A
HOH
28
3
HOH
HOH
149
A
HOH
29
3
HOH
HOH
150
A
HOH
30
3
HOH
HOH
151
A
n
1
1
A
LYS
2
n
2
LYS
2
A
LYS
3
n
3
LYS
3
A
ILE
4
n
4
ILE
4
A
LEU
5
n
5
LEU
5
A
ILE
6
n
6
ILE
6
A
VAL
7
n
7
VAL
7
A
ASP
8
n
8
ASP
8
A
ASP
9
n
9
ASP
9
A
GLU
10
n
10
GLU
10
A
LYS
11
n
11
LYS
11
A
PRO
12
n
12
PRO
12
A
ILE
13
n
13
ILE
13
A
SER
14
n
14
SER
14
A
ASP
15
n
15
ASP
15
A
ILE
16
n
16
ILE
16
A
ILE
17
n
17
ILE
17
A
LYS
18
n
18
LYS
18
A
PHE
19
n
19
PHE
19
A
ASN
20
n
20
ASN
20
A
MET
21
n
21
MET
21
A
THR
22
n
22
THR
22
A
LYS
23
n
23
LYS
23
A
GLU
24
n
24
GLU
24
A
GLY
25
n
25
GLY
25
A
TYR
26
n
26
TYR
26
A
GLU
27
n
27
GLU
27
A
VAL
28
n
28
VAL
28
A
VAL
29
n
29
VAL
29
A
THR
30
n
30
THR
30
A
ALA
31
n
31
ALA
31
A
PHE
32
n
32
PHE
32
A
ASN
33
n
33
ASN
33
A
GLY
34
n
34
GLY
34
A
ARG
35
n
35
ARG
35
A
GLU
36
n
36
GLU
36
A
ALA
37
n
37
ALA
37
A
LEU
38
n
38
LEU
38
A
GLU
39
n
39
GLU
39
A
GLN
40
n
40
GLN
40
A
PHE
41
n
41
PHE
41
A
GLU
42
n
42
GLU
42
A
ALA
43
n
43
ALA
43
A
GLU
44
n
44
GLU
44
A
GLN
45
n
45
GLN
45
A
PRO
46
n
46
PRO
46
A
ASP
47
n
47
ASP
47
A
ILE
48
n
48
ILE
48
A
ILE
49
n
49
ILE
49
A
ILE
50
n
50
ILE
50
A
LEU
51
n
51
LEU
51
A
PHD
52
n
52
PHD
52
A
LEU
53
n
53
LEU
53
A
MET
54
n
54
MET
54
A
LEU
55
n
55
LEU
55
A
PRO
56
n
56
PRO
56
A
n
57
57
A
n
58
58
A
ASP
59
n
59
ASP
59
A
GLY
60
n
60
GLY
60
A
LEU
61
n
61
LEU
61
A
GLU
62
n
62
GLU
62
A
VAL
63
n
63
VAL
63
A
ALA
64
n
64
ALA
64
A
LYS
65
n
65
LYS
65
A
THR
66
n
66
THR
66
A
ILE
67
n
67
ILE
67
A
ARG
68
n
68
ARG
68
A
LYS
69
n
69
LYS
69
A
THR
70
n
70
THR
70
A
SER
71
n
71
SER
71
A
SER
72
n
72
SER
72
A
VAL
73
n
73
VAL
73
A
PRO
74
n
74
PRO
74
A
ILE
75
n
75
ILE
75
A
LEU
76
n
76
LEU
76
A
MET
77
n
77
MET
77
A
LEU
78
n
78
LEU
78
A
SER
79
n
79
SER
79
A
ALA
80
n
80
ALA
80
A
LYS
81
n
81
LYS
81
A
ASP
82
n
82
ASP
82
A
SER
83
n
83
SER
83
A
GLU
84
n
84
GLU
84
A
PHE
85
n
85
PHE
85
A
ASP
86
n
86
ASP
86
A
LYS
87
n
87
LYS
87
A
VAL
88
n
88
VAL
88
A
ILE
89
n
89
ILE
89
A
GLY
90
n
90
GLY
90
A
LEU
91
n
91
LEU
91
A
GLU
92
n
92
GLU
92
A
LEU
93
n
93
LEU
93
A
GLY
94
n
94
GLY
94
A
ALA
95
n
95
ALA
95
A
ASP
96
n
96
ASP
96
A
ASP
97
n
97
ASP
97
A
TYR
98
n
98
TYR
98
A
VAL
99
n
99
VAL
99
A
THR
100
n
100
THR
100
A
LYS
101
n
101
LYS
101
A
PRO
102
n
102
PRO
102
A
PHE
103
n
103
PHE
103
A
SER
104
n
104
SER
104
A
ASN
105
n
105
ASN
105
A
ARG
106
n
106
ARG
106
A
GLU
107
n
107
GLU
107
A
LEU
108
n
108
LEU
108
A
GLN
109
n
109
GLN
109
A
ALA
110
n
110
ALA
110
A
ARG
111
n
111
ARG
111
A
VAL
112
n
112
VAL
112
A
LYS
113
n
113
LYS
113
A
ALA
114
n
114
ALA
114
A
LEU
115
n
115
LEU
115
A
LEU
116
n
116
LEU
116
A
ARG
117
n
117
ARG
117
A
ARG
118
n
118
ARG
118
A
SER
119
n
119
SER
119
A
n
120
120
A
0.3313
-0.2105
-0.0590
1.0424
0.2223
0.1837
-0.0060
0.0129
0.0078
0.0320
0.0128
-0.0424
0.0015
-0.0309
-0.0067
0.0151
0.0112
-0.0047
0.0109
-0.0006
0.0047
refined
64.7686
57.3347
5.4721
X-RAY DIFFRACTION
A
2
A
2
A
24
A
24
X-RAY DIFFRACTION
1
A
25
A
25
A
44
A
44
X-RAY DIFFRACTION
1
A
45
A
45
A
54
A
54
X-RAY DIFFRACTION
1
A
59
A
59
A
70
A
70
X-RAY DIFFRACTION
1
A
71
A
71
A
94
A
94
X-RAY DIFFRACTION
1
A
95
A
95
A
119
A
119
X-RAY DIFFRACTION
1
author_defined_assembly
2
dimeric
A
PHD
52
ASPARTYL PHOSPHATE
A
PHD
52
ASP
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
4_566
x,-y+1,-z+1
crystal symmetry operation
0.0000000000
92.8290000000
36.7890000000
A
O
GLU
27
A
O
GLU
27
A
N
ILE
4
A
N
ILE
4
A
N
VAL
7
A
N
VAL
7
A
O
ILE
50
A
O
ILE
50
A
N
ILE
49
A
N
ILE
49
A
O
LEU
76
A
O
LEU
76
A
N
MET
77
A
N
MET
77
A
O
VAL
99
A
O
VAL
99
1
A
CD
GLU
42
A
CD
GLU
42
0
Y
1
A
OE1
GLU
42
A
OE1
GLU
42
0
Y
1
A
OE2
GLU
42
A
OE2
GLU
42
0
Y
1
A
C
PRO
56
A
C
PRO
56
0
Y
1
A
O
PRO
56
A
O
PRO
56
0
Y
1
A
CG
GLU
92
A
CG
GLU
92
0
Y
1
A
CD
GLU
92
A
CD
GLU
92
0
Y
1
A
OE1
GLU
92
A
OE1
GLU
92
0
Y
1
A
OE2
GLU
92
A
OE2
GLU
92
0
Y
1
A
CG
LYS
113
A
CG
LYS
113
0
Y
1
A
CD
LYS
113
A
CD
LYS
113
0
Y
1
A
CE
LYS
113
A
CE
LYS
113
0
Y
1
A
NZ
LYS
113
A
NZ
LYS
113
0
Y
1
A
MET
1
A
MET
1
1
Y
1
A
GLU
57
A
GLU
57
1
Y
1
A
ILE
58
A
ILE
58
1
Y
1
A
GLN
120
A
GLN
120
1
Y
1
A
A
O
O
HOH
HOH
149
150
1.48
1
A
A
O
O
HOH
HOH
135
137
2.17
1
A
ARG
118
-36.31
1
5.64
0.90
118.30
123.94
A
A
A
CB
CG
OD2
ASP
ASP
ASP
15
15
15
N
1
17.22
2.70
114.20
131.42
A
A
A
CB
CG
CD
GLU
GLU
GLU
42
42
42
N
1
-15.05
2.00
118.30
103.25
A
A
A
CG
CD
OE1
GLU
GLU
GLU
42
42
42
N
1
14.89
2.00
118.30
133.19
A
A
A
CG
CD
OE2
GLU
GLU
GLU
42
42
42
N
1
6.37
0.90
118.30
124.67
A
A
A
CB
CG
OD2
ASP
ASP
ASP
59
59
59
N
1
15.03
2.20
113.40
128.43
A
A
A
CA
CB
CG
GLU
GLU
GLU
92
92
92
N
1
-20.10
2.10
120.10
100.00
A
A
A
CA
C
O
ARG
ARG
ARG
118
118
118
N
1
-14.24
1.60
122.70
108.46
A
A
A
O
C
N
ARG
ARG
SER
118
118
119
Y
1
A
A
CG
CD
GLU
GLU
42
42
-0.102
0.015
1.515
1.413
N
1
A
A
CB
CG
GLU
GLU
92
92
-0.232
0.019
1.517
1.285
N
1
A
A
C
O
ARG
ARG
118
118
-0.213
0.019
1.229
1.016
N
39.556
2.61
0.00
0.00
-1.28
0.00
-1.33
0.934
0.911
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.23556
0.2141
0.21614
2.34
30.86
579
5398
9.7
98.96
11.526
0.259
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
2.0
2.0
SAD Xenon/Sulphur
0.396
0.239
0.80
0.80
1.40
BABINET MODEL WITH MASK
2.34
30.86
30
953
1
0
922
0.022
0.022
921
0.000
0.020
889
1.838
2.013
1239
3.788
3.000
2068
6.476
5.000
114
0.112
0.200
147
0.011
0.020
983
0.013
0.020
167
0.222
0.200
198
0.279
0.200
906
0.110
0.200
473
0.331
0.200
25
0.216
0.200
13
0.303
0.200
51
0.235
0.200
5
1.058
1.500
575
1.972
2.000
931
2.928
3.000
346
5.368
4.500
308
0.247
0.301
2.402
41
357
20
39.55
2.34
30.86
1NXT
5398
2.0
2.0
0.052
1
11.6
98.96
2.342
2.402
5.1
0.116
1
97.3
refinement
REFMAC
5.1.27
data reduction
MOSFLM
data scaling
CCP4
(SCALA)
phasing
SHARP
DNA-binding response regulator
MicArec pH 4.0
1
N
N
2
N
N
3
N
N
he second part of the biological assembly is generated
by the two fold axis: X, -y, -z
A
GLU
10
A
GLU
10
HELX_P
A
GLU
24
A
GLU
24
1
1
15
A
ASN
33
A
ASN
33
HELX_P
A
GLN
45
A
GLN
45
1
2
13
A
ASP
59
A
ASP
59
HELX_P
A
SER
71
A
SER
71
1
3
13
A
SER
83
A
SER
83
HELX_P
A
LEU
93
A
LEU
93
1
4
11
A
SER
104
A
SER
104
HELX_P
A
ARG
118
A
ARG
118
1
5
15
covale
1.321
A
A
LEU
51
A
C
LEU
51
1_555
A
PHD
52
A
N
PHD
52
1_555
covale
1.347
A
A
PHD
52
A
C
PHD
52
1_555
A
LEU
53
A
N
LEU
53
1_555
SIGNALING PROTEIN
doubly wound 5 alpha, 5 beta fold, SIGNALING PROTEIN
A
LYS
101
A
LYS
101
1
A
PRO
102
A
PRO
102
4.38
Q9S1K0_STRPN
UNP
1
1
Q9S1K0
MKKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSA
KDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ
1
120
1NXT
1
120
Q9S1K0
A
1
1
120
1
ASP
MODIFIED RESIDUE
PHD
52
1NXT
A
Q9S1K0
UNP
52
52
5
parallel
parallel
parallel
parallel
A
GLU
27
A
GLU
27
A
ALA
31
A
ALA
31
A
LYS
3
A
LYS
3
A
VAL
7
A
VAL
7
A
ILE
48
A
ILE
48
A
PHD
52
A
PHD
52
A
ILE
75
A
ILE
75
A
SER
79
A
SER
79
A
ASP
97
A
ASP
97
A
THR
100
A
THR
100
20
C 2 2 21