Iodine in PDB 5mk5: Structures of Dhbn Domain of Human Blm Helicase
Enzymatic activity of Structures of Dhbn Domain of Human Blm Helicase
All present enzymatic activity of Structures of Dhbn Domain of Human Blm Helicase:
3.6.4.12;
Protein crystallography data
The structure of Structures of Dhbn Domain of Human Blm Helicase, PDB code: 5mk5
was solved by
J.Shi,
W.-F.Chen,
B.Zhang,
S.-H.Fan,
X.Ai,
N.-N.Liu,
S.Rety,
X.-G.Xi,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
27.84 /
2.16
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
34.082,
144.729,
96.767,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
21.9 /
29.7
|
Other elements in 5mk5:
The structure of Structures of Dhbn Domain of Human Blm Helicase also contains other interesting chemical elements:
Iodine Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Binding sites:
The binding sites of Iodine atom in the Structures of Dhbn Domain of Human Blm Helicase
(pdb code 5mk5). This binding sites where shown within
5.0 Angstroms radius around Iodine atom.
In total 20 binding sites of Iodine where determined in the
Structures of Dhbn Domain of Human Blm Helicase, PDB code: 5mk5:
Jump to Iodine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iodine binding site 1 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 1 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 1 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I501
b:39.6
occ:0.77
|
HA
|
A:HIS378
|
3.4
|
12.6
|
1.0
|
HE2
|
A:HIS374
|
3.5
|
34.9
|
1.0
|
HB2
|
A:HIS378
|
3.6
|
19.1
|
1.0
|
HD2
|
A:LYS381
|
3.6
|
65.6
|
1.0
|
NE2
|
A:HIS374
|
3.9
|
29.0
|
1.0
|
CG
|
A:HIS378
|
4.0
|
34.4
|
1.0
|
CB
|
A:HIS378
|
4.0
|
15.8
|
1.0
|
CA
|
A:HIS378
|
4.1
|
10.9
|
1.0
|
CD2
|
A:HIS378
|
4.2
|
21.0
|
1.0
|
HD2
|
A:HIS378
|
4.3
|
25.2
|
1.0
|
HE3
|
A:LYS381
|
4.4
|
72.5
|
1.0
|
CD2
|
A:HIS374
|
4.4
|
13.4
|
1.0
|
HD2
|
A:HIS374
|
4.4
|
16.2
|
1.0
|
CD
|
A:LYS381
|
4.5
|
54.6
|
1.0
|
N
|
A:HIS378
|
4.5
|
11.1
|
1.0
|
ND1
|
A:HIS378
|
4.5
|
35.4
|
1.0
|
H
|
A:HIS378
|
4.6
|
12.9
|
1.0
|
HE2
|
A:LYS381
|
4.7
|
72.5
|
1.0
|
CE1
|
A:HIS374
|
4.7
|
18.0
|
1.0
|
CE
|
A:LYS381
|
4.7
|
60.3
|
1.0
|
NE2
|
A:HIS378
|
4.8
|
28.2
|
1.0
|
HD1
|
A:HIS378
|
4.8
|
42.6
|
1.0
|
HE1
|
A:HIS374
|
4.9
|
21.7
|
1.0
|
HD3
|
A:LYS381
|
4.9
|
65.6
|
1.0
|
CE1
|
A:HIS378
|
4.9
|
22.4
|
1.0
|
HB3
|
A:HIS378
|
5.0
|
19.1
|
1.0
|
O
|
A:HIS374
|
5.0
|
11.9
|
1.0
|
|
Iodine binding site 2 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 2 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 2 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I502
b:57.0
occ:0.68
|
HH21
|
A:ARG407
|
3.0
|
36.7
|
1.0
|
O
|
A:HOH620
|
3.1
|
15.9
|
1.0
|
HZ1
|
A:LYS381
|
3.2
|
73.3
|
1.0
|
HG2
|
A:GLU377
|
3.3
|
39.5
|
1.0
|
HZ3
|
A:LYS381
|
3.4
|
73.3
|
1.0
|
HE2
|
A:LYS381
|
3.5
|
72.5
|
1.0
|
HD21
|
A:LEU411
|
3.5
|
38.7
|
1.0
|
NZ
|
A:LYS381
|
3.6
|
61.0
|
1.0
|
HB3
|
A:GLU377
|
3.6
|
26.1
|
1.0
|
O
|
A:HOH639
|
3.7
|
48.1
|
1.0
|
NH2
|
A:ARG407
|
3.7
|
30.5
|
1.0
|
HD22
|
A:LEU411
|
3.8
|
38.7
|
1.0
|
CD
|
A:GLU377
|
3.9
|
23.7
|
1.0
|
OE1
|
A:GLU377
|
3.9
|
88.5
|
1.0
|
CG
|
A:GLU377
|
3.9
|
32.9
|
1.0
|
O
|
A:HOH605
|
4.0
|
37.2
|
1.0
|
HH22
|
A:ARG407
|
4.0
|
36.7
|
1.0
|
O
|
A:HOH634
|
4.1
|
45.9
|
1.0
|
CE
|
A:LYS381
|
4.1
|
60.3
|
1.0
|
CD2
|
A:LEU411
|
4.1
|
32.2
|
1.0
|
CB
|
A:GLU377
|
4.3
|
21.6
|
1.0
|
HE
|
A:ARG407
|
4.3
|
24.2
|
1.0
|
OE2
|
A:GLU377
|
4.4
|
47.1
|
1.0
|
HZ2
|
A:LYS381
|
4.4
|
73.3
|
1.0
|
HA
|
A:GLU377
|
4.5
|
13.1
|
1.0
|
HD21
|
B:LEU372
|
4.5
|
41.6
|
1.0
|
HE3
|
A:LYS381
|
4.6
|
72.5
|
1.0
|
HD23
|
A:LEU411
|
4.6
|
38.7
|
1.0
|
HD11
|
A:LEU411
|
4.7
|
46.8
|
1.0
|
HG3
|
A:LYS381
|
4.7
|
79.2
|
1.0
|
CZ
|
A:ARG407
|
4.8
|
30.4
|
1.0
|
HG3
|
A:GLU377
|
4.8
|
39.5
|
1.0
|
O
|
A:HOH601
|
4.9
|
54.2
|
1.0
|
NE
|
A:ARG407
|
4.9
|
20.6
|
1.0
|
O
|
A:HOH603
|
4.9
|
51.8
|
1.0
|
HG2
|
A:LYS381
|
4.9
|
79.2
|
1.0
|
CA
|
A:GLU377
|
4.9
|
11.3
|
1.0
|
HD13
|
A:LEU411
|
5.0
|
46.8
|
1.0
|
|
Iodine binding site 3 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 3 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 3 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I503
b:43.6
occ:1.00
|
H
|
A:ASP395
|
2.9
|
60.2
|
1.0
|
HZ3
|
B:LYS390
|
3.2
|
50.9
|
1.0
|
HB3
|
A:LEU394
|
3.3
|
33.4
|
1.0
|
OD1
|
A:ASP395
|
3.3
|
0.2
|
1.0
|
HD3
|
B:LYS390
|
3.4
|
69.0
|
1.0
|
HD2
|
B:PRO387
|
3.5
|
37.9
|
1.0
|
HA
|
A:LEU394
|
3.5
|
47.0
|
1.0
|
HG23
|
B:ILE386
|
3.7
|
44.5
|
1.0
|
HD22
|
A:LEU394
|
3.7
|
51.9
|
1.0
|
N
|
A:ASP395
|
3.7
|
50.1
|
1.0
|
HA
|
B:ILE386
|
3.8
|
75.9
|
1.0
|
HD3
|
B:PRO387
|
3.8
|
37.9
|
1.0
|
HB2
|
A:ASP395
|
3.8
|
42.3
|
1.0
|
HE2
|
B:LYS390
|
3.9
|
0.1
|
1.0
|
NZ
|
B:LYS390
|
4.0
|
42.3
|
1.0
|
HG12
|
B:ILE386
|
4.1
|
76.4
|
1.0
|
CD
|
B:PRO387
|
4.1
|
31.5
|
1.0
|
CB
|
A:LEU394
|
4.1
|
27.8
|
1.0
|
CA
|
A:LEU394
|
4.1
|
39.1
|
1.0
|
CD
|
B:LYS390
|
4.2
|
57.5
|
1.0
|
CG
|
A:ASP395
|
4.2
|
48.5
|
1.0
|
CE
|
B:LYS390
|
4.2
|
86.7
|
1.0
|
CB
|
A:ASP395
|
4.4
|
35.2
|
1.0
|
HZ1
|
B:LYS390
|
4.4
|
50.9
|
1.0
|
C
|
A:LEU394
|
4.5
|
56.6
|
1.0
|
CD2
|
A:LEU394
|
4.5
|
43.2
|
1.0
|
HD23
|
A:LEU394
|
4.5
|
51.9
|
1.0
|
H
|
A:CYS396
|
4.5
|
44.5
|
1.0
|
HZ2
|
B:LYS390
|
4.6
|
50.9
|
1.0
|
CG2
|
B:ILE386
|
4.6
|
37.0
|
1.0
|
CA
|
A:ASP395
|
4.7
|
31.1
|
1.0
|
CA
|
B:ILE386
|
4.7
|
63.2
|
1.0
|
HD2
|
B:LYS390
|
4.7
|
69.0
|
1.0
|
HB2
|
A:LEU394
|
4.8
|
33.4
|
1.0
|
HD13
|
A:LEU394
|
4.8
|
62.8
|
1.0
|
HG2
|
B:PRO387
|
4.8
|
49.6
|
1.0
|
CG
|
A:LEU394
|
4.8
|
66.7
|
1.0
|
CG1
|
B:ILE386
|
4.9
|
63.6
|
1.0
|
HG2
|
B:LYS390
|
5.0
|
70.8
|
1.0
|
|
Iodine binding site 4 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 4 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 4 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I504
b:86.6
occ:0.76
|
OE1
|
A:GLU377
|
3.2
|
88.5
|
1.0
|
HE21
|
A:GLN370
|
3.2
|
18.1
|
1.0
|
HE22
|
A:GLN370
|
3.4
|
18.1
|
1.0
|
OE2
|
A:GLU377
|
3.5
|
47.1
|
1.0
|
HA
|
A:HIS374
|
3.5
|
30.1
|
1.0
|
CD
|
A:GLU377
|
3.6
|
23.7
|
1.0
|
HD2
|
A:HIS374
|
3.6
|
16.2
|
1.0
|
HG22
|
A:ILE373
|
3.6
|
45.1
|
1.0
|
NE2
|
A:GLN370
|
3.6
|
15.0
|
1.0
|
O
|
A:HOH631
|
3.7
|
13.2
|
0.5
|
K
|
A:K506
|
3.7
|
65.3
|
1.0
|
HB2
|
A:HIS374
|
3.8
|
20.6
|
1.0
|
OD1
|
C:ASP362
|
4.1
|
27.6
|
1.0
|
CA
|
A:HIS374
|
4.2
|
25.0
|
1.0
|
HG21
|
A:ILE373
|
4.4
|
45.1
|
1.0
|
CD2
|
A:HIS374
|
4.4
|
13.4
|
1.0
|
CB
|
A:HIS374
|
4.4
|
17.0
|
1.0
|
CG2
|
A:ILE373
|
4.4
|
37.5
|
1.0
|
N
|
A:HIS374
|
4.6
|
12.9
|
1.0
|
HB2
|
A:GLU377
|
4.7
|
26.1
|
1.0
|
CG
|
A:HIS374
|
4.8
|
12.7
|
1.0
|
CG
|
A:GLU377
|
4.8
|
32.9
|
1.0
|
H
|
A:HIS374
|
4.8
|
15.0
|
1.0
|
HG3
|
A:GLU377
|
4.8
|
39.5
|
1.0
|
HB
|
A:ILE373
|
4.9
|
26.1
|
1.0
|
CD
|
A:GLN370
|
4.9
|
14.6
|
1.0
|
|
Iodine binding site 5 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 5 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 5 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:I505
b:87.8
occ:0.69
|
HD23
|
A:LEU382
|
3.1
|
44.4
|
1.0
|
O
|
B:HOH601
|
3.3
|
39.1
|
1.0
|
HB3
|
A:LYS381
|
3.3
|
19.3
|
1.0
|
HD21
|
A:LEU382
|
3.5
|
44.4
|
1.0
|
HB2
|
A:LYS381
|
3.6
|
19.3
|
1.0
|
CD2
|
A:LEU382
|
3.7
|
36.9
|
1.0
|
HG
|
A:LEU382
|
3.8
|
32.2
|
1.0
|
CB
|
A:LYS381
|
3.9
|
16.0
|
1.0
|
HA
|
A:LEU382
|
4.2
|
24.5
|
1.0
|
CG
|
A:LEU382
|
4.3
|
26.8
|
1.0
|
N
|
A:LEU382
|
4.3
|
22.0
|
1.0
|
HD3
|
A:LYS381
|
4.3
|
65.6
|
1.0
|
H
|
A:LEU382
|
4.4
|
26.5
|
1.0
|
C
|
A:LYS381
|
4.5
|
16.6
|
1.0
|
HD2
|
A:LYS381
|
4.5
|
65.6
|
1.0
|
HE1
|
A:HIS378
|
4.5
|
27.0
|
1.0
|
HD22
|
A:LEU382
|
4.5
|
44.4
|
1.0
|
HD1
|
A:HIS378
|
4.6
|
42.6
|
1.0
|
CA
|
A:LEU382
|
4.7
|
20.3
|
1.0
|
CD
|
A:LYS381
|
4.8
|
54.6
|
1.0
|
O
|
A:LYS381
|
4.8
|
24.5
|
1.0
|
CA
|
A:LYS381
|
4.9
|
46.0
|
1.0
|
CE1
|
A:HIS378
|
4.9
|
22.4
|
1.0
|
ND1
|
A:HIS378
|
4.9
|
35.4
|
1.0
|
HG21
|
A:THR385
|
4.9
|
40.2
|
1.0
|
CG
|
A:LYS381
|
5.0
|
66.0
|
1.0
|
O
|
A:HIS378
|
5.0
|
10.3
|
1.0
|
|
Iodine binding site 6 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 6 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 6 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I501
b:58.6
occ:1.00
|
HZ3
|
A:LYS390
|
3.0
|
91.9
|
1.0
|
HD13
|
A:ILE386
|
3.0
|
69.5
|
1.0
|
H
|
B:ASP395
|
3.2
|
45.4
|
1.0
|
HB2
|
B:ASP395
|
3.3
|
84.2
|
1.0
|
HB3
|
B:LEU394
|
3.3
|
30.7
|
1.0
|
HD12
|
A:ILE386
|
3.4
|
69.5
|
1.0
|
H
|
B:CYS396
|
3.5
|
35.9
|
1.0
|
HZ1
|
A:LYS390
|
3.6
|
91.9
|
1.0
|
HD22
|
B:LEU394
|
3.6
|
51.7
|
1.0
|
CD1
|
A:ILE386
|
3.6
|
57.8
|
1.0
|
NZ
|
A:LYS390
|
3.7
|
76.5
|
1.0
|
N
|
B:ASP395
|
3.8
|
37.7
|
1.0
|
HA
|
A:ILE386
|
3.8
|
37.6
|
1.0
|
HD3
|
A:PRO387
|
3.9
|
61.5
|
1.0
|
HD11
|
A:ILE386
|
4.0
|
69.5
|
1.0
|
HE2
|
A:LYS390
|
4.0
|
48.6
|
1.0
|
CB
|
B:ASP395
|
4.1
|
70.1
|
1.0
|
HD2
|
A:PRO387
|
4.1
|
61.5
|
1.0
|
HG23
|
A:ILE386
|
4.2
|
46.7
|
1.0
|
CB
|
B:LEU394
|
4.2
|
25.5
|
1.0
|
N
|
B:CYS396
|
4.3
|
29.8
|
1.0
|
SG
|
B:CYS396
|
4.3
|
35.1
|
1.0
|
CG
|
B:ASP395
|
4.3
|
42.0
|
1.0
|
HA
|
B:LEU394
|
4.3
|
40.2
|
1.0
|
HZ2
|
A:LYS390
|
4.3
|
91.9
|
1.0
|
CE
|
A:LYS390
|
4.4
|
40.4
|
1.0
|
CD2
|
B:LEU394
|
4.4
|
43.0
|
1.0
|
CA
|
B:ASP395
|
4.4
|
32.4
|
1.0
|
CD
|
A:PRO387
|
4.4
|
51.2
|
1.0
|
HD23
|
B:LEU394
|
4.5
|
51.7
|
1.0
|
HB3
|
B:CYS396
|
4.5
|
42.1
|
1.0
|
HG
|
B:CYS396
|
4.6
|
42.2
|
1.0
|
C
|
B:LEU394
|
4.6
|
30.1
|
1.0
|
HD3
|
A:LYS390
|
4.6
|
75.2
|
1.0
|
CA
|
B:LEU394
|
4.6
|
33.5
|
1.0
|
OD1
|
B:ASP395
|
4.7
|
63.6
|
1.0
|
OD2
|
B:ASP395
|
4.7
|
57.7
|
1.0
|
HD13
|
B:LEU394
|
4.7
|
29.8
|
1.0
|
CA
|
A:ILE386
|
4.8
|
31.3
|
1.0
|
O
|
B:HOH623
|
4.8
|
33.0
|
1.0
|
HB2
|
B:LEU394
|
4.9
|
30.7
|
1.0
|
C
|
B:ASP395
|
4.9
|
27.3
|
1.0
|
HB3
|
B:ASP395
|
4.9
|
84.2
|
1.0
|
CG
|
B:LEU394
|
4.9
|
30.9
|
1.0
|
CB
|
B:CYS396
|
4.9
|
35.0
|
1.0
|
CG1
|
A:ILE386
|
4.9
|
35.3
|
1.0
|
|
Iodine binding site 7 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 7 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 7 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I502
b:0.9
occ:0.92
|
HZ2
|
B:LYS381
|
2.8
|
82.7
|
1.0
|
HE2
|
B:HIS374
|
3.1
|
79.9
|
1.0
|
HB2
|
B:HIS378
|
3.1
|
27.2
|
1.0
|
HZ3
|
B:LYS381
|
3.2
|
82.7
|
1.0
|
NZ
|
B:LYS381
|
3.4
|
68.9
|
1.0
|
HA
|
B:HIS378
|
3.5
|
24.1
|
1.0
|
HD2
|
B:LYS381
|
3.6
|
86.1
|
1.0
|
NE2
|
B:HIS374
|
3.7
|
66.5
|
1.0
|
CB
|
B:HIS378
|
3.7
|
22.6
|
1.0
|
CG
|
B:HIS378
|
3.8
|
35.2
|
1.0
|
HD2
|
B:HIS374
|
3.9
|
0.4
|
1.0
|
HZ1
|
B:LYS381
|
4.0
|
82.7
|
1.0
|
CA
|
B:HIS378
|
4.1
|
20.0
|
1.0
|
CD2
|
B:HIS374
|
4.1
|
93.6
|
1.0
|
CD2
|
B:HIS378
|
4.1
|
36.6
|
1.0
|
ND1
|
B:HIS378
|
4.2
|
95.0
|
1.0
|
CD
|
B:LYS381
|
4.2
|
71.7
|
1.0
|
HD3
|
B:LYS381
|
4.3
|
86.1
|
1.0
|
HD2
|
B:HIS378
|
4.3
|
44.1
|
1.0
|
CE
|
B:LYS381
|
4.4
|
43.2
|
1.0
|
HD1
|
B:HIS378
|
4.4
|
0.1
|
1.0
|
H
|
B:HIS378
|
4.4
|
24.1
|
1.0
|
N
|
B:HIS378
|
4.5
|
20.0
|
1.0
|
HB3
|
B:HIS378
|
4.6
|
27.2
|
1.0
|
NE2
|
B:HIS378
|
4.7
|
27.6
|
1.0
|
CE1
|
B:HIS378
|
4.7
|
42.9
|
1.0
|
CE1
|
B:HIS374
|
4.8
|
89.0
|
1.0
|
O
|
B:HIS374
|
4.8
|
17.2
|
1.0
|
HE3
|
B:LYS381
|
4.9
|
51.9
|
1.0
|
|
Iodine binding site 8 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 8 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 8 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I503
b:97.3
occ:0.75
|
HB2
|
B:LYS390
|
2.9
|
84.4
|
1.0
|
HB2
|
B:PRO387
|
3.2
|
33.4
|
1.0
|
HG2
|
B:PRO387
|
3.6
|
49.6
|
1.0
|
HD2
|
B:LYS390
|
3.6
|
69.0
|
1.0
|
HB3
|
B:PRO387
|
3.8
|
33.4
|
1.0
|
CB
|
B:PRO387
|
3.8
|
27.8
|
1.0
|
CB
|
B:LYS390
|
3.9
|
70.2
|
1.0
|
H
|
B:LYS390
|
4.1
|
44.2
|
1.0
|
CG
|
B:PRO387
|
4.2
|
41.2
|
1.0
|
HB2
|
B:ASP389
|
4.2
|
49.9
|
1.0
|
HB3
|
B:LYS390
|
4.2
|
84.4
|
1.0
|
N
|
B:LYS390
|
4.3
|
36.7
|
1.0
|
CD
|
B:LYS390
|
4.4
|
57.5
|
1.0
|
CA
|
B:LYS390
|
4.6
|
67.0
|
1.0
|
HD3
|
B:LYS390
|
4.6
|
69.0
|
1.0
|
CG
|
B:LYS390
|
4.7
|
58.9
|
1.0
|
HG3
|
B:PRO387
|
4.7
|
49.6
|
1.0
|
HA
|
B:LYS390
|
4.8
|
80.5
|
1.0
|
HG3
|
B:LYS390
|
4.8
|
70.8
|
1.0
|
C
|
B:ASP389
|
4.9
|
82.0
|
1.0
|
|
Iodine binding site 9 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 9 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 9 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:I504
b:69.8
occ:0.72
|
HH21
|
B:ARG407
|
2.9
|
33.4
|
1.0
|
O
|
B:HOH631
|
2.9
|
45.3
|
1.0
|
O
|
B:HOH609
|
3.0
|
45.4
|
1.0
|
HE3
|
B:LYS381
|
3.1
|
51.9
|
1.0
|
HH22
|
B:ARG407
|
3.2
|
33.4
|
1.0
|
NH2
|
B:ARG407
|
3.3
|
27.8
|
1.0
|
HB3
|
B:GLU377
|
3.4
|
19.1
|
1.0
|
HG2
|
B:GLU377
|
3.5
|
36.1
|
1.0
|
HE2
|
B:LYS381
|
3.6
|
51.9
|
1.0
|
CE
|
B:LYS381
|
3.8
|
43.2
|
1.0
|
HZ1
|
B:LYS381
|
3.8
|
82.7
|
1.0
|
O
|
B:HOH611
|
3.9
|
15.6
|
1.0
|
HD21
|
B:LEU411
|
4.0
|
22.9
|
1.0
|
CD
|
B:GLU377
|
4.0
|
35.9
|
1.0
|
CG
|
B:GLU377
|
4.0
|
30.0
|
1.0
|
OE1
|
B:GLU377
|
4.1
|
38.2
|
1.0
|
CB
|
B:GLU377
|
4.2
|
16.3
|
1.0
|
NZ
|
B:LYS381
|
4.3
|
68.9
|
1.0
|
HD22
|
B:LEU411
|
4.4
|
22.9
|
1.0
|
OE2
|
B:GLU377
|
4.4
|
37.3
|
1.0
|
HD11
|
B:LEU411
|
4.5
|
18.4
|
1.0
|
CZ
|
B:ARG407
|
4.5
|
20.3
|
1.0
|
CD2
|
B:LEU411
|
4.6
|
19.0
|
1.0
|
HZ2
|
B:LYS381
|
4.7
|
82.7
|
1.0
|
HA
|
B:GLU377
|
4.7
|
23.4
|
1.0
|
HG3
|
B:LYS381
|
4.8
|
47.1
|
1.0
|
HB2
|
B:GLU377
|
4.8
|
19.1
|
1.0
|
HE
|
B:ARG407
|
4.8
|
28.6
|
1.0
|
HD13
|
B:LEU411
|
4.9
|
18.4
|
1.0
|
HG3
|
B:GLU377
|
5.0
|
36.1
|
1.0
|
HZ3
|
B:LYS381
|
5.0
|
82.7
|
1.0
|
|
Iodine binding site 10 out
of 20 in 5mk5
Go back to
Iodine Binding Sites List in 5mk5
Iodine binding site 10 out
of 20 in the Structures of Dhbn Domain of Human Blm Helicase
Mono view
Stereo pair view
|
A full contact list of Iodine with other atoms in the I binding
site number 10 of Structures of Dhbn Domain of Human Blm Helicase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:I503
b:37.7
occ:1.00
|
H
|
D:ASP395
|
2.8
|
44.1
|
1.0
|
HD2
|
C:LYS390
|
3.1
|
41.8
|
1.0
|
HD2
|
C:PRO387
|
3.3
|
56.5
|
1.0
|
HD3
|
C:LYS390
|
3.3
|
41.8
|
1.0
|
HA
|
D:LEU394
|
3.5
|
44.2
|
1.0
|
HB2
|
D:ASP395
|
3.6
|
43.1
|
1.0
|
CD
|
C:LYS390
|
3.6
|
34.8
|
1.0
|
N
|
D:ASP395
|
3.6
|
36.8
|
1.0
|
HG23
|
C:ILE386
|
3.6
|
46.4
|
1.0
|
HA
|
C:ILE386
|
3.7
|
33.0
|
1.0
|
HE2
|
C:LYS390
|
3.7
|
47.8
|
1.0
|
HB3
|
D:LEU394
|
3.7
|
50.1
|
1.0
|
HD22
|
D:LEU394
|
3.8
|
44.1
|
1.0
|
HG12
|
C:ILE386
|
3.8
|
30.2
|
1.0
|
CG
|
D:ASP395
|
3.9
|
49.0
|
1.0
|
HD23
|
D:LEU394
|
3.9
|
44.1
|
1.0
|
HD3
|
C:PRO387
|
4.0
|
56.5
|
1.0
|
CD
|
C:PRO387
|
4.1
|
47.0
|
1.0
|
OD2
|
D:ASP395
|
4.1
|
43.8
|
1.0
|
CB
|
D:ASP395
|
4.1
|
36.4
|
1.0
|
OD1
|
D:ASP395
|
4.2
|
47.1
|
1.0
|
CE
|
C:LYS390
|
4.2
|
39.8
|
1.0
|
CA
|
D:LEU394
|
4.2
|
37.2
|
1.0
|
CD2
|
D:LEU394
|
4.3
|
37.1
|
1.0
|
CB
|
D:LEU394
|
4.4
|
41.7
|
1.0
|
C
|
D:LEU394
|
4.5
|
44.3
|
1.0
|
CA
|
D:ASP395
|
4.5
|
47.9
|
1.0
|
HZ3
|
C:LYS390
|
4.5
|
0.4
|
1.0
|
H
|
D:CYS396
|
4.5
|
51.4
|
1.0
|
CG2
|
C:ILE386
|
4.6
|
38.5
|
1.0
|
CA
|
C:ILE386
|
4.6
|
27.5
|
1.0
|
HG23
|
C:THR385
|
4.7
|
24.3
|
1.0
|
HB3
|
C:LYS390
|
4.7
|
34.1
|
1.0
|
CG1
|
C:ILE386
|
4.7
|
25.1
|
1.0
|
HB2
|
C:LYS390
|
4.8
|
34.1
|
1.0
|
CB
|
C:ILE386
|
4.9
|
18.9
|
1.0
|
HG3
|
C:PRO387
|
4.9
|
49.0
|
1.0
|
CG
|
C:PRO387
|
4.9
|
40.8
|
1.0
|
CG
|
C:LYS390
|
4.9
|
53.0
|
1.0
|
HG2
|
C:PRO387
|
4.9
|
49.0
|
1.0
|
NZ
|
C:LYS390
|
4.9
|
0.9
|
1.0
|
HE3
|
C:LYS390
|
5.0
|
47.8
|
1.0
|
|
Reference:
J.Shi,
W.F.Chen,
B.Zhang,
S.H.Fan,
X.Ai,
N.N.Liu,
S.Rety,
X.G.Xi.
A Helical Bundle in the N-Terminal Domain of the Blm Helicase Mediates Dimer and Potentially Hexamer Formation. J. Biol. Chem. V. 292 5909 2017.
ISSN: ESSN 1083-351X
PubMed: 28228481
DOI: 10.1074/JBC.M116.761510
Page generated: Sun Aug 11 21:30:21 2024
|