1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Jacobsen, J.O.B.
Freund, S.M.V.
Bycroft, M.
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 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 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
To be Published
0353
The Sap Domain is a DNA-Binding Domain Capable of Binding S/Mar DNA
NE
Trends Biochem.Sci.
TBSCDB
0946
0968-0004
25
112
10.1016/S0968-0004(99)01537-6
10694879
Sap - a Putative DNA-Binding Motif Involved in Chromosomal Organization
2000
UK
Embo J.
EMJODG
0897
0261-4189
17
4859
10.1093/EMBOJ/17.16.4859
9707445
A Novel Yeast Gene, Tho2, is Involved in RNA Pol II Transcription and Provides New Evidence for Transcriptional Elongation-Associated Recombination.
1998
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
5582.212
THO1 PROTEIN
SAP DOMAIN, RESIDUES 2-50
1
man
polymer
no
no
GSADYSSLTVVQLKDLLTKRNLSVGGLKNELVQRLIKDDEESKGESEVSPQ
GSADYSSLTVVQLKDLLTKRNLSVGGLKNELVQRLIKDDEESKGESEVSPQ
S
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
BAKERS YEAST
sample
4932
SACCHAROMYCES CEREVISIAE
469008
ESCHERICHIA COLI BL21(DE3)
C41
PGRO
entity_src_gen
repository
Initial release
Version format compliance
Version format compliance
Source and taxonomy
1
0
2002-08-08
1
1
2011-05-08
1
2
2011-07-13
1
3
2018-01-24
_entity_src_gen.pdbx_host_org_ncbi_taxonomy_id
_entity_src_gen.pdbx_host_org_scientific_name
_entity_src_gen.pdbx_host_org_strain
_entity_src_gen.pdbx_host_org_variant
PDBE
Y
PDBE
2002-07-16
REL
GLY 1, THROMBIN CLEAVAGE SITE INSERTION
SER 2, THROMBIN CLEAVAGE SITE INSERTION
STRUCTURE DETERMINED USING STANDARD TRIPLE-RESONANCE AND 3D 1H,13C- NOESY/TOCSY EXPERIMENTS ON 13C, 15N-LABELED PROTEIN.
LOWEST NOE ENERGIES
50
20
13C-FILTERED NOESY
TOCSY
150
mM
6.8
pH
1
atm
298
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. RESIDUES 45-51 ARE DISORDERED WITH NO DEFINED STRUCTURE AND NOT INCLUDED IN THE COORDINATES.
simulated annealing
1
1.5MM
BRUNGER
refinement
X-PLOR
3.8
structure solution
FELIX
structure solution
SPARKY
structure solution
XPLOR
3.8
500
Bruker
DRX
GLY
1
n
1
GLY
1
S
SER
2
n
2
SER
2
S
ALA
3
n
3
ALA
3
S
ASP
4
n
4
ASP
4
S
TYR
5
n
5
TYR
5
S
SER
6
n
6
SER
6
S
SER
7
n
7
SER
7
S
LEU
8
n
8
LEU
8
S
THR
9
n
9
THR
9
S
VAL
10
n
10
VAL
10
S
VAL
11
n
11
VAL
11
S
GLN
12
n
12
GLN
12
S
LEU
13
n
13
LEU
13
S
LYS
14
n
14
LYS
14
S
ASP
15
n
15
ASP
15
S
LEU
16
n
16
LEU
16
S
LEU
17
n
17
LEU
17
S
THR
18
n
18
THR
18
S
LYS
19
n
19
LYS
19
S
ARG
20
n
20
ARG
20
S
ASN
21
n
21
ASN
21
S
LEU
22
n
22
LEU
22
S
SER
23
n
23
SER
23
S
VAL
24
n
24
VAL
24
S
GLY
25
n
25
GLY
25
S
GLY
26
n
26
GLY
26
S
LEU
27
n
27
LEU
27
S
LYS
28
n
28
LYS
28
S
ASN
29
n
29
ASN
29
S
GLU
30
n
30
GLU
30
S
LEU
31
n
31
LEU
31
S
VAL
32
n
32
VAL
32
S
GLN
33
n
33
GLN
33
S
ARG
34
n
34
ARG
34
S
LEU
35
n
35
LEU
35
S
ILE
36
n
36
ILE
36
S
LYS
37
n
37
LYS
37
S
ASP
38
n
38
ASP
38
S
ASP
39
n
39
ASP
39
S
GLU
40
n
40
GLU
40
S
GLU
41
n
41
GLU
41
S
SER
42
n
42
SER
42
S
LYS
43
n
43
LYS
43
S
GLY
44
n
44
GLY
44
S
n
45
45
S
n
46
46
S
n
47
47
S
n
48
48
S
n
49
49
S
n
50
50
S
n
51
51
S
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
1
S
GLU
45
A
GLU
45
1
Y
1
S
SER
46
A
SER
46
1
Y
1
S
GLU
47
A
GLU
47
1
Y
1
S
VAL
48
A
VAL
48
1
Y
1
S
SER
49
A
SER
49
1
Y
1
S
PRO
50
A
PRO
50
1
Y
1
S
GLN
51
A
GLN
51
1
Y
2
S
GLU
45
A
GLU
45
1
Y
2
S
SER
46
A
SER
46
1
Y
2
S
GLU
47
A
GLU
47
1
Y
2
S
VAL
48
A
VAL
48
1
Y
2
S
SER
49
A
SER
49
1
Y
2
S
PRO
50
A
PRO
50
1
Y
2
S
GLN
51
A
GLN
51
1
Y
3
S
GLU
45
A
GLU
45
1
Y
3
S
SER
46
A
SER
46
1
Y
3
S
GLU
47
A
GLU
47
1
Y
3
S
VAL
48
A
VAL
48
1
Y
3
S
SER
49
A
SER
49
1
Y
3
S
PRO
50
A
PRO
50
1
Y
3
S
GLN
51
A
GLN
51
1
Y
4
S
GLU
45
A
GLU
45
1
Y
4
S
SER
46
A
SER
46
1
Y
4
S
GLU
47
A
GLU
47
1
Y
4
S
VAL
48
A
VAL
48
1
Y
4
S
SER
49
A
SER
49
1
Y
4
S
PRO
50
A
PRO
50
1
Y
4
S
GLN
51
A
GLN
51
1
Y
5
S
GLU
45
A
GLU
45
1
Y
5
S
SER
46
A
SER
46
1
Y
5
S
GLU
47
A
GLU
47
1
Y
5
S
VAL
48
A
VAL
48
1
Y
5
S
SER
49
A
SER
49
1
Y
5
S
PRO
50
A
PRO
50
1
Y
5
S
GLN
51
A
GLN
51
1
Y
6
S
GLU
45
A
GLU
45
1
Y
6
S
SER
46
A
SER
46
1
Y
6
S
GLU
47
A
GLU
47
1
Y
6
S
VAL
48
A
VAL
48
1
Y
6
S
SER
49
A
SER
49
1
Y
6
S
PRO
50
A
PRO
50
1
Y
6
S
GLN
51
A
GLN
51
1
Y
7
S
GLU
45
A
GLU
45
1
Y
7
S
SER
46
A
SER
46
1
Y
7
S
GLU
47
A
GLU
47
1
Y
7
S
VAL
48
A
VAL
48
1
Y
7
S
SER
49
A
SER
49
1
Y
7
S
PRO
50
A
PRO
50
1
Y
7
S
GLN
51
A
GLN
51
1
Y
8
S
GLU
45
A
GLU
45
1
Y
8
S
SER
46
A
SER
46
1
Y
8
S
GLU
47
A
GLU
47
1
Y
8
S
VAL
48
A
VAL
48
1
Y
8
S
SER
49
A
SER
49
1
Y
8
S
PRO
50
A
PRO
50
1
Y
8
S
GLN
51
A
GLN
51
1
Y
9
S
GLU
45
A
GLU
45
1
Y
9
S
SER
46
A
SER
46
1
Y
9
S
GLU
47
A
GLU
47
1
Y
9
S
VAL
48
A
VAL
48
1
Y
9
S
SER
49
A
SER
49
1
Y
9
S
PRO
50
A
PRO
50
1
Y
9
S
GLN
51
A
GLN
51
1
Y
10
S
GLU
45
A
GLU
45
1
Y
10
S
SER
46
A
SER
46
1
Y
10
S
GLU
47
A
GLU
47
1
Y
10
S
VAL
48
A
VAL
48
1
Y
10
S
SER
49
A
SER
49
1
Y
10
S
PRO
50
A
PRO
50
1
Y
10
S
GLN
51
A
GLN
51
1
Y
11
S
GLU
45
A
GLU
45
1
Y
11
S
SER
46
A
SER
46
1
Y
11
S
GLU
47
A
GLU
47
1
Y
11
S
VAL
48
A
VAL
48
1
Y
11
S
SER
49
A
SER
49
1
Y
11
S
PRO
50
A
PRO
50
1
Y
11
S
GLN
51
A
GLN
51
1
Y
12
S
GLU
45
A
GLU
45
1
Y
12
S
SER
46
A
SER
46
1
Y
12
S
GLU
47
A
GLU
47
1
Y
12
S
VAL
48
A
VAL
48
1
Y
12
S
SER
49
A
SER
49
1
Y
12
S
PRO
50
A
PRO
50
1
Y
12
S
GLN
51
A
GLN
51
1
Y
13
S
GLU
45
A
GLU
45
1
Y
13
S
SER
46
A
SER
46
1
Y
13
S
GLU
47
A
GLU
47
1
Y
13
S
VAL
48
A
VAL
48
1
Y
13
S
SER
49
A
SER
49
1
Y
13
S
PRO
50
A
PRO
50
1
Y
13
S
GLN
51
A
GLN
51
1
Y
14
S
GLU
45
A
GLU
45
1
Y
14
S
SER
46
A
SER
46
1
Y
14
S
GLU
47
A
GLU
47
1
Y
14
S
VAL
48
A
VAL
48
1
Y
14
S
SER
49
A
SER
49
1
Y
14
S
PRO
50
A
PRO
50
1
Y
14
S
GLN
51
A
GLN
51
1
Y
15
S
GLU
45
A
GLU
45
1
Y
15
S
SER
46
A
SER
46
1
Y
15
S
GLU
47
A
GLU
47
1
Y
15
S
VAL
48
A
VAL
48
1
Y
15
S
SER
49
A
SER
49
1
Y
15
S
PRO
50
A
PRO
50
1
Y
15
S
GLN
51
A
GLN
51
1
Y
16
S
GLU
45
A
GLU
45
1
Y
16
S
SER
46
A
SER
46
1
Y
16
S
GLU
47
A
GLU
47
1
Y
16
S
VAL
48
A
VAL
48
1
Y
16
S
SER
49
A
SER
49
1
Y
16
S
PRO
50
A
PRO
50
1
Y
16
S
GLN
51
A
GLN
51
1
Y
17
S
GLU
45
A
GLU
45
1
Y
17
S
SER
46
A
SER
46
1
Y
17
S
GLU
47
A
GLU
47
1
Y
17
S
VAL
48
A
VAL
48
1
Y
17
S
SER
49
A
SER
49
1
Y
17
S
PRO
50
A
PRO
50
1
Y
17
S
GLN
51
A
GLN
51
1
Y
18
S
GLU
45
A
GLU
45
1
Y
18
S
SER
46
A
SER
46
1
Y
18
S
GLU
47
A
GLU
47
1
Y
18
S
VAL
48
A
VAL
48
1
Y
18
S
SER
49
A
SER
49
1
Y
18
S
PRO
50
A
PRO
50
1
Y
18
S
GLN
51
A
GLN
51
1
Y
19
S
GLU
45
A
GLU
45
1
Y
19
S
SER
46
A
SER
46
1
Y
19
S
GLU
47
A
GLU
47
1
Y
19
S
VAL
48
A
VAL
48
1
Y
19
S
SER
49
A
SER
49
1
Y
19
S
PRO
50
A
PRO
50
1
Y
19
S
GLN
51
A
GLN
51
1
Y
20
S
GLU
45
A
GLU
45
1
Y
20
S
SER
46
A
SER
46
1
Y
20
S
GLU
47
A
GLU
47
1
Y
20
S
VAL
48
A
VAL
48
1
Y
20
S
SER
49
A
SER
49
1
Y
20
S
PRO
50
A
PRO
50
1
Y
20
S
GLN
51
A
GLN
51
1
Y
4
S
S
O
HZ1
LEU
LYS
8
28
1.54
5
S
S
O
HZ3
LEU
LYS
8
28
1.53
9
S
S
OD1
HZ2
ASP
LYS
15
19
1.60
10
S
S
OG1
HE21
THR
GLN
9
12
1.50
14
S
S
O
HZ3
LEU
LYS
8
28
1.57
15
S
S
O
HG1
LYS
THR
14
18
1.41
1
S
ARG
20
0.190
SIDE CHAIN
1
S
ARG
34
0.265
SIDE CHAIN
2
S
ARG
20
0.317
SIDE CHAIN
2
S
ARG
34
0.229
SIDE CHAIN
3
S
ARG
20
0.265
SIDE CHAIN
3
S
ARG
34
0.219
SIDE CHAIN
4
S
ARG
20
0.220
SIDE CHAIN
4
S
ARG
34
0.301
SIDE CHAIN
5
S
ARG
20
0.283
SIDE CHAIN
5
S
ARG
34
0.214
SIDE CHAIN
6
S
ARG
20
0.292
SIDE CHAIN
6
S
ARG
34
0.196
SIDE CHAIN
7
S
ARG
20
0.278
SIDE CHAIN
7
S
ARG
34
0.155
SIDE CHAIN
8
S
ARG
20
0.291
SIDE CHAIN
8
S
ARG
34
0.294
SIDE CHAIN
9
S
ARG
20
0.274
SIDE CHAIN
10
S
ARG
20
0.314
SIDE CHAIN
10
S
ARG
34
0.208
SIDE CHAIN
11
S
ARG
20
0.312
SIDE CHAIN
11
S
ARG
34
0.230
SIDE CHAIN
12
S
ARG
20
0.195
SIDE CHAIN
12
S
ARG
34
0.240
SIDE CHAIN
13
S
ARG
20
0.262
SIDE CHAIN
13
S
ARG
34
0.317
SIDE CHAIN
14
S
ARG
20
0.312
SIDE CHAIN
14
S
ARG
34
0.317
SIDE CHAIN
15
S
ARG
20
0.184
SIDE CHAIN
15
S
ARG
34
0.317
SIDE CHAIN
16
S
ARG
20
0.227
SIDE CHAIN
16
S
ARG
34
0.291
SIDE CHAIN
17
S
ARG
20
0.301
SIDE CHAIN
17
S
ARG
34
0.302
SIDE CHAIN
18
S
ARG
20
0.317
SIDE CHAIN
18
S
ARG
34
0.316
SIDE CHAIN
19
S
ARG
20
0.314
SIDE CHAIN
19
S
ARG
34
0.316
SIDE CHAIN
20
S
ARG
20
0.306
SIDE CHAIN
20
S
ARG
34
0.236
SIDE CHAIN
1
S
SER
2
-151.48
-52.25
1
S
ALA
3
49.26
-178.19
1
S
ASP
4
-121.11
-95.69
1
S
SER
6
-3.11
-64.38
1
S
SER
7
-153.19
48.15
1
S
LYS
43
-178.74
105.45
2
S
ASP
4
-128.84
-95.46
2
S
SER
6
1.99
-70.08
2
S
SER
7
-151.92
56.84
2
S
GLU
41
42.69
73.97
3
S
SER
2
64.95
179.71
3
S
ASP
4
-128.35
-95.38
3
S
SER
6
-6.55
-60.58
3
S
SER
7
-152.96
49.67
3
S
GLU
41
65.31
96.68
4
S
ALA
3
57.39
95.17
4
S
ASP
4
-124.60
-94.87
4
S
SER
6
4.12
-70.92
4
S
SER
7
-151.90
55.90
4
S
SER
23
-53.00
-170.99
4
S
LYS
43
-153.37
-69.99
5
S
SER
2
52.76
-88.29
5
S
ALA
3
59.74
13.23
5
S
ASP
4
-124.28
-95.77
5
S
SER
6
8.07
-74.97
5
S
SER
7
-152.32
55.49
5
S
SER
23
-39.20
151.67
6
S
SER
2
-167.96
-58.46
6
S
ALA
3
172.46
159.82
6
S
ASP
4
-118.02
-94.97
6
S
SER
6
-5.17
-62.23
6
S
SER
7
-152.64
50.72
6
S
SER
23
-50.07
-172.43
6
S
SER
42
55.91
-177.27
6
S
LYS
43
61.44
164.00
7
S
ASP
4
-117.69
-95.48
7
S
SER
6
1.28
-69.10
7
S
SER
7
-151.36
53.91
7
S
LYS
43
61.33
137.01
8
S
ALA
3
-162.60
91.18
8
S
ASP
4
-123.69
-95.13
8
S
SER
6
-11.22
-55.27
8
S
SER
7
-154.43
48.80
8
S
SER
23
-72.12
-167.66
8
S
SER
42
-176.75
77.67
9
S
ASP
4
-120.79
-95.12
9
S
SER
6
-3.81
-64.18
9
S
SER
7
-153.17
56.17
9
S
SER
23
-52.53
-170.77
9
S
GLU
41
42.11
-152.38
9
S
SER
42
-73.62
-158.02
10
S
ASP
4
-125.65
-95.57
10
S
SER
6
3.01
-68.79
10
S
SER
7
-154.47
49.16
10
S
SER
42
-85.74
-74.44
10
S
LYS
43
178.05
54.91
11
S
SER
2
46.07
76.29
11
S
ASP
4
-128.71
-95.67
11
S
SER
6
-10.75
-55.10
11
S
SER
7
-153.91
44.29
11
S
SER
23
-47.60
-176.85
11
S
VAL
24
-119.35
71.81
11
S
GLU
41
45.01
-93.07
12
S
SER
2
-169.64
48.18
12
S
ALA
3
174.62
163.61
12
S
ASP
4
-118.54
-95.57
12
S
SER
6
-5.12
-61.40
12
S
SER
7
-153.77
47.51
12
S
SER
23
-49.10
-173.84
13
S
SER
2
-100.84
53.55
13
S
ALA
3
42.72
71.98
13
S
ASP
4
-128.44
-95.09
13
S
SER
6
4.95
-72.09
13
S
SER
7
-150.84
57.75
13
S
SER
23
-45.61
177.00
14
S
SER
2
-175.84
-159.08
14
S
ALA
3
63.33
133.32
14
S
ASP
4
-128.16
-95.10
14
S
SER
6
-5.86
-62.14
14
S
SER
7
-153.95
52.46
14
S
SER
42
68.42
-63.75
15
S
SER
2
-55.62
-176.83
15
S
ASP
4
-128.78
-95.82
15
S
SER
6
-14.41
-50.76
15
S
SER
7
-151.17
43.56
15
S
SER
23
-45.08
176.48
15
S
GLU
41
65.39
-69.27
15
S
SER
42
-58.86
-179.45
15
S
LYS
43
51.48
-172.58
16
S
ALA
3
-106.32
57.08
16
S
ASP
4
-129.03
-95.74
16
S
SER
6
0.07
-67.15
16
S
SER
7
-153.66
54.81
17
S
ALA
3
-159.09
-135.57
17
S
ASP
4
-114.69
-94.63
17
S
SER
6
-5.20
-62.83
17
S
SER
7
-153.31
54.50
17
S
SER
23
-79.92
-167.49
17
S
GLU
41
64.54
102.01
18
S
ALA
3
-172.53
64.74
18
S
ASP
4
-120.33
-95.95
18
S
SER
6
-18.23
-46.15
18
S
SER
7
-151.55
40.58
18
S
SER
23
-54.37
-168.07
18
S
GLU
41
52.66
170.95
18
S
SER
42
53.35
-166.89
19
S
ASP
4
-118.45
-95.19
19
S
SER
6
-0.83
-66.89
19
S
SER
7
-152.47
54.78
19
S
LYS
43
52.94
-88.64
20
S
ASP
4
-128.90
-95.12
20
S
SER
6
-5.83
-61.49
20
S
SER
7
-153.51
55.73
20
S
SER
23
-77.78
-166.98
THO1 PROTEIN
The SAP domain is a DNA-Binding Domain Capable of Binding S/MAR DNA
1
N
N
S
ASP
4
A
ASP
4
HELX_P
S
LEU
8
A
LEU
8
5
1
5
S
VAL
10
A
VAL
10
HELX_P
S
ARG
20
A
ARG
20
1
2
11
S
LEU
27
A
LEU
27
HELX_P
S
GLU
40
A
GLU
40
1
3
14
DNA BINDING
SAP DOMAIN, DNA BINDING
1H1J
PDB
1
1H1J
THO1_YEAST
UNP
1
P40040
1
2
1H1J
1
2
1H1J
S
1
1
2
2
50
1H1J
3
51
P40040
S
2
3
51
1
P 1