0.019318
0.000000
0.000000
0.000000
0.012899
0.000000
0.000000
0.000000
0.027366
0.00000
0.00000
0.00000
Robinson, H.
Gao, Y.-G.
Mccrary, B.S.
Edmondson, S.P.
Shriver, J.W.
Wang, A.H.-J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
51.765
77.528
36.542
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
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA 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
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
Nature
NATUAS
0006
0028-0836
392
202
205
10.1038/32455
9515968
The hyperthermophile chromosomal protein Sac7d sharply kinks DNA.
1998
10.2210/pdb1azq/pdb
pdb_00001azq
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
298
1
IMAGE PLATE
1997-04-15
RIGAKU
GRAPHITE
M
x-ray
1
1.540598
1.0
1.540598
ROTATING ANODE
RIGAKU RU200
2425.629
DNA (5'-D(*GP*TP*AP*AP*TP*TP*AP*C)-3')
2
syn
polymer
7626.914
PROTEIN (HYPERTHERMOPHILE CHROMOSOMAL PROTEIN SAC7D)
1
man
polymer
18.015
water
68
nat
water
7 KD HYPERTHERMOPHILE DNA-BINDING PROTEIN
no
no
(DG)(DT)(DA)(DA)(DT)(DT)(DA)(DC)
GTAATTAC
B,C
polydeoxyribonucleotide
no
no
MVKVKFKYKGEEKEVDTSKIKKVWRVGKMVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK
MVKVKFKYKGEEKEVDTSKIKKVWRVGKMVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK
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
Sulfolobus
Escherichia
sample
2285
Sulfolobus acidocaldarius
562
Escherichia coli
1
3.00
59.0
VAPOR DIFFUSION, HANGING DROP
6.5
pH 6.5, VAPOR DIFFUSION, HANGING DROP
PEG 400
1
TRIS BUFFER
1
PEG 400
2
1.576
1
19
B
101
C
116
6.789
B_DG101:DC116_C
1
-5.548
-0.920
0.045
-0.056
9.955
1
20
B
102
C
115
2.330
B_DT102:DA115_C
2
-0.947
-0.083
-0.100
-0.218
20.324
1
20
B
103
C
114
3.519
B_DA103:DT114_C
3
-8.212
0.190
0.440
-0.165
-20.975
1
20
B
104
C
113
-3.264
B_DA104:DT113_C
4
12.403
0.246
-0.367
0.035
-5.454
1
20
B
105
C
112
2.233
B_DT105:DA112_C
5
-4.813
-0.022
0.060
-0.174
1.426
1
20
B
106
C
111
-0.276
B_DT106:DA111_C
6
-15.402
0.040
-0.086
-0.289
9.859
1
20
B
107
C
110
-6.079
B_DA107:DT110_C
7
-9.310
0.180
-0.093
-0.375
6.197
1
19
B
108
C
109
-0.029
B_DC108:DG109_C
8
-6.028
0.470
-0.141
-0.459
3.179
31.862
B
B
101
102
-4.238
C
C
116
115
3.174
-2.325
-0.394
-0.166
BB_DG101DT102:DA115DC116_CC
1
-0.154
0.280
31.779
0.109
0.691
3.189
29.488
B
B
102
103
7.360
C
C
115
114
3.225
3.735
-0.021
-0.061
BB_DT102DA103:DT114DA115_CC
2
-1.622
3.195
29.212
-0.905
-0.298
3.378
64.091
B
B
103
104
69.977
C
C
114
113
5.955
59.771
-0.212
1.136
BB_DA103DA104:DT113DT114_CC
3
2.800
-3.278
24.109
-4.725
0.471
2.984
19.245
B
B
104
105
17.153
C
C
113
112
3.167
5.625
0.079
0.037
BB_DA104DT105:DA112DT113_CC
4
-3.177
9.688
18.138
-2.634
-1.787
3.096
30.260
B
B
105
106
12.434
C
C
112
111
3.226
6.437
-0.262
-0.144
BB_DT105DT106:DA111DA112_CC
5
2.357
-4.553
29.491
-1.551
0.969
3.056
44.810
B
B
106
107
-4.923
C
C
111
110
3.170
-3.749
0.008
1.295
BB_DT106DA107:DT110DA111_CC
6
0.899
-1.180
44.652
2.023
0.068
3.578
29.363
B
B
107
108
-3.653
C
C
110
109
3.526
-1.849
0.603
-0.397
BB_DA107DC108:DG109DT110_CC
7
2.184
-4.316
29.226
-0.351
-0.679
database_2
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Database references
Refinement description
1
0
1999-01-13
1
1
2008-05-22
1
2
2011-07-13
1
3
2023-08-02
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
Y
NDB
1997-11-20
REL
REL
HOH
water
1AZP
PDB ENTRY 1AZP
PDB
experimental model
HOH
117
3
HOH
HOH
117
B
HOH
138
3
HOH
HOH
138
B
HOH
140
3
HOH
HOH
140
B
HOH
144
3
HOH
HOH
144
B
HOH
150
3
HOH
HOH
150
B
HOH
152
3
HOH
HOH
152
B
HOH
159
3
HOH
HOH
159
B
HOH
162
3
HOH
HOH
162
B
HOH
163
3
HOH
HOH
163
B
HOH
168
3
HOH
HOH
168
B
HOH
169
3
HOH
HOH
169
B
HOH
171
3
HOH
HOH
171
B
HOH
173
3
HOH
HOH
173
B
HOH
174
3
HOH
HOH
174
B
HOH
181
3
HOH
HOH
181
B
HOH
183
3
HOH
HOH
183
B
HOH
119
3
HOH
HOH
119
C
HOH
120
3
HOH
HOH
120
C
HOH
126
3
HOH
HOH
126
C
HOH
127
3
HOH
HOH
127
C
HOH
135
3
HOH
HOH
135
C
HOH
137
3
HOH
HOH
137
C
HOH
143
3
HOH
HOH
143
C
HOH
145
3
HOH
HOH
145
C
HOH
147
3
HOH
HOH
147
C
HOH
149
3
HOH
HOH
149
C
HOH
153
3
HOH
HOH
153
C
HOH
154
3
HOH
HOH
154
C
HOH
155
3
HOH
HOH
155
C
HOH
160
3
HOH
HOH
160
C
HOH
161
3
HOH
HOH
161
C
HOH
164
3
HOH
HOH
164
C
HOH
170
3
HOH
HOH
170
C
HOH
172
3
HOH
HOH
172
C
HOH
179
3
HOH
HOH
179
C
HOH
180
3
HOH
HOH
180
C
HOH
182
3
HOH
HOH
182
C
HOH
118
3
HOH
HOH
118
A
HOH
121
3
HOH
HOH
121
A
HOH
122
3
HOH
HOH
122
A
HOH
123
3
HOH
HOH
123
A
HOH
124
3
HOH
HOH
124
A
HOH
125
3
HOH
HOH
125
A
HOH
128
3
HOH
HOH
128
A
HOH
129
3
HOH
HOH
129
A
HOH
130
3
HOH
HOH
130
A
HOH
131
3
HOH
HOH
131
A
HOH
132
3
HOH
HOH
132
A
HOH
133
3
HOH
HOH
133
A
HOH
134
3
HOH
HOH
134
A
HOH
136
3
HOH
HOH
136
A
HOH
139
3
HOH
HOH
139
A
HOH
141
3
HOH
HOH
141
A
HOH
142
3
HOH
HOH
142
A
HOH
146
3
HOH
HOH
146
A
HOH
148
3
HOH
HOH
148
A
HOH
151
3
HOH
HOH
151
A
HOH
156
3
HOH
HOH
156
A
HOH
157
3
HOH
HOH
157
A
HOH
158
3
HOH
HOH
158
A
HOH
165
3
HOH
HOH
165
A
HOH
166
3
HOH
HOH
166
A
HOH
167
3
HOH
HOH
167
A
HOH
175
3
HOH
HOH
175
A
HOH
176
3
HOH
HOH
176
A
HOH
177
3
HOH
HOH
177
A
HOH
178
3
HOH
HOH
178
A
HOH
184
3
HOH
HOH
184
A
G
101
n
1
DG
101
B
T
102
n
2
DT
102
B
A
103
n
3
DA
103
B
A
104
n
4
DA
104
B
T
105
n
5
DT
105
B
T
106
n
6
DT
106
B
A
107
n
7
DA
107
B
C
108
n
8
DC
108
B
G
109
n
1
DG
109
C
T
110
n
2
DT
110
C
A
111
n
3
DA
111
C
A
112
n
4
DA
112
C
T
113
n
5
DT
113
C
T
114
n
6
DT
114
C
A
115
n
7
DA
115
C
C
116
n
8
DC
116
C
MET
1
n
1
MET
1
A
VAL
2
n
2
VAL
2
A
LYS
3
n
3
LYS
3
A
VAL
4
n
4
VAL
4
A
LYS
5
n
5
LYS
5
A
PHE
6
n
6
PHE
6
A
LYS
7
n
7
LYS
7
A
TYR
8
n
8
TYR
8
A
LYS
9
n
9
LYS
9
A
GLY
10
n
10
GLY
10
A
GLU
11
n
11
GLU
11
A
GLU
12
n
12
GLU
12
A
LYS
13
n
13
LYS
13
A
GLU
14
n
14
GLU
14
A
VAL
15
n
15
VAL
15
A
ASP
16
n
16
ASP
16
A
THR
17
n
17
THR
17
A
SER
18
n
18
SER
18
A
LYS
19
n
19
LYS
19
A
ILE
20
n
20
ILE
20
A
LYS
21
n
21
LYS
21
A
LYS
22
n
22
LYS
22
A
VAL
23
n
23
VAL
23
A
TRP
24
n
24
TRP
24
A
ARG
25
n
25
ARG
25
A
VAL
26
n
26
VAL
26
A
GLY
27
n
27
GLY
27
A
LYS
28
n
28
LYS
28
A
MET
29
n
29
MET
29
A
VAL
30
n
30
VAL
30
A
SER
31
n
31
SER
31
A
PHE
32
n
32
PHE
32
A
THR
33
n
33
THR
33
A
TYR
34
n
34
TYR
34
A
ASP
35
n
35
ASP
35
A
ASP
36
n
36
ASP
36
A
ASN
37
n
37
ASN
37
A
GLY
38
n
38
GLY
38
A
LYS
39
n
39
LYS
39
A
THR
40
n
40
THR
40
A
GLY
41
n
41
GLY
41
A
ARG
42
n
42
ARG
42
A
GLY
43
n
43
GLY
43
A
ALA
44
n
44
ALA
44
A
VAL
45
n
45
VAL
45
A
SER
46
n
46
SER
46
A
GLU
47
n
47
GLU
47
A
LYS
48
n
48
LYS
48
A
ASP
49
n
49
ASP
49
A
ALA
50
n
50
ALA
50
A
PRO
51
n
51
PRO
51
A
LYS
52
n
52
LYS
52
A
GLU
53
n
53
GLU
53
A
LEU
54
n
54
LEU
54
A
LEU
55
n
55
LEU
55
A
ASP
56
n
56
ASP
56
A
MET
57
n
57
MET
57
A
LEU
58
n
58
LEU
58
A
ALA
59
n
59
ALA
59
A
ARG
60
n
60
ARG
60
A
ALA
61
n
61
ALA
61
A
GLU
62
n
62
GLU
62
A
ARG
63
n
63
ARG
63
A
GLU
64
n
64
GLU
64
A
LYS
65
n
65
LYS
65
A
LYS
66
n
66
LYS
66
A
author_defined_assembly
3
trimeric
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
VAL
4
C
O
VAL
4
A
N
VAL
15
C
N
VAL
15
A
O
LYS
39
C
O
LYS
39
A
N
ASP
36
C
N
ASP
36
A
O
MET
29
C
O
MET
29
A
N
VAL
26
C
N
VAL
26
1
A
A
HZ3
HG1
LYS
THR
21
40
1.30
1
B
C
H61
O4
DA
DT
107
110
1.45
1
B
C
O2
H22
DC
DG
108
109
1.54
1
B
DA
104
0.066
SIDE CHAIN
1
C
DT
113
0.069
SIDE CHAIN
1
A
ASP
36
-93.64
48.51
1
A
ASN
37
62.84
69.31
PARHCSDX.PRO
TOPHCSDX.PRO
PARAM11.WAT
TOPH19.PEP
PARAM_NDBX_HIGH.DNA
TOPH11.WA
TOP_NDBX.DNA
0.2380000
0.012
0.1860000
0.1860000
1.94
6.0
405
8105
5.0
69.4
RANDOM
100000.00
0.1
1
A POSTERIORI
3.0
MOLECULAR REPLACEMENT
PDB ENTRY 1AZP
1.94
6.0
68
923
0
322
533
0.011
1.47
38.8
1.94
30.0
1AZQ
10085
1.0
0.0570000
1
14.2
5.2
87.9
0.2800000
1.94
2.0
1.8
2.5
65.8
model building
X-PLOR
refinement
X-PLOR
3.843
data reduction
R-AXIS
data scaling
R-AXIS
phasing
X-PLOR
HYPERTHERMOPHILE CHROMOSOMAL PROTEIN SAC7D BOUND WITH KINKED DNA DUPLEX
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
A
THR
17
C
THR
17
HELX_P
A
LYS
19
C
LYS
19
5
1
3
A
GLU
47
C
GLU
47
HELX_P
A
ASP
49
C
ASP
49
5
2
3
A
LYS
52
C
LYS
52
HELX_P
A
ARG
63
C
ARG
63
1
3
12
hydrog
WATSON-CRICK
B
DG
101
A
N1
DG
1
1_555
C
DC
116
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
B
DG
101
A
N2
DG
1
1_555
C
DC
116
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
B
DG
101
A
O6
DG
1
1_555
C
DC
116
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
B
DT
102
A
N3
DT
2
1_555
C
DA
115
B
N1
DA
7
1_555
hydrog
WATSON-CRICK
B
DT
102
A
O4
DT
2
1_555
C
DA
115
B
N6
DA
7
1_555
hydrog
WATSON-CRICK
B
DA
103
A
N1
DA
3
1_555
C
DT
114
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
B
DA
103
A
N6
DA
3
1_555
C
DT
114
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
B
DA
104
A
N1
DA
4
1_555
C
DT
113
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
B
DA
104
A
N6
DA
4
1_555
C
DT
113
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
B
DT
105
A
N3
DT
5
1_555
C
DA
112
B
N1
DA
4
1_555
hydrog
WATSON-CRICK
B
DT
105
A
O4
DT
5
1_555
C
DA
112
B
N6
DA
4
1_555
hydrog
WATSON-CRICK
B
DT
106
A
N3
DT
6
1_555
C
DA
111
B
N1
DA
3
1_555
hydrog
WATSON-CRICK
B
DT
106
A
O4
DT
6
1_555
C
DA
111
B
N6
DA
3
1_555
hydrog
WATSON-CRICK
B
DA
107
A
N1
DA
7
1_555
C
DT
110
B
N3
DT
2
1_555
hydrog
WATSON-CRICK
B
DA
107
A
N6
DA
7
1_555
C
DT
110
B
O4
DT
2
1_555
hydrog
WATSON-CRICK
B
DC
108
A
N3
DC
8
1_555
C
DG
109
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
108
A
N4
DC
8
1_555
C
DG
109
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
108
A
O2
DC
8
1_555
C
DG
109
B
N2
DG
1
1_555
DNA BINDING PROTEIN/DNA
COMPLEX (CHROMATIN PROTEIN-DNA), DNA-BINDING, ARCHEA, KINKED-DNA, MINOR-GROOVE BINDING, INTERCALATION, DNA BINDING PROTEIN-DNA COMPLEX
DN71_SULAC
UNP
2
P13123
1AZQ
PDB
1
1AZQ
1
65
1AZQ
2
66
P13123
A
1
2
66
101
108
1AZQ
101
108
1AZQ
B
2
1
8
109
116
1AZQ
109
116
1AZQ
C
2
1
8
2
3
anti-parallel
anti-parallel
anti-parallel
A
LYS
3
C
LYS
3
A
TYR
8
C
TYR
8
A
GLU
11
C
GLU
11
A
ASP
16
C
ASP
16
A
LYS
39
C
LYS
39
A
SER
46
C
SER
46
A
MET
29
C
MET
29
A
ASP
36
C
ASP
36
A
ILE
20
C
ILE
20
A
VAL
26
C
VAL
26
19
orthorhombic
P 21 21 21