Sodium in PDB 6cqp: High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
Protein crystallography data
The structure of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli, PDB code: 6cqp
was solved by
C.Faoro,
S.F.Ataide,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
44.22 /
1.45
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
34.697,
76.105,
108.871,
90.00,
93.64,
90.00
|
|
R / Rfree (%)
|
13.2 /
17.7
|
Sodium Binding Sites:
The binding sites of Sodium atom in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
(pdb code 6cqp). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 9 binding sites of Sodium where determined in the
High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli, PDB code: 6cqp:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Sodium binding site 1 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 1 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 1 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na501
b:30.3
occ:1.00
|
H
|
A:THR244
|
2.2
|
16.7
|
1.0
|
|
HG
|
A:SER459
|
2.2
|
27.2
|
1.0
|
|
HA3
|
A:GLY241
|
2.5
|
24.8
|
1.0
|
|
OG1
|
A:THR244
|
2.8
|
15.3
|
1.0
|
|
OG
|
A:SER459
|
3.0
|
22.7
|
1.0
|
|
N
|
A:THR244
|
3.0
|
13.9
|
1.0
|
|
HB
|
A:THR244
|
3.0
|
16.6
|
1.0
|
|
H
|
A:GLU243
|
3.2
|
21.9
|
1.0
|
|
HB2
|
A:GLU243
|
3.2
|
35.1
|
1.0
|
|
CB
|
A:THR244
|
3.3
|
13.8
|
1.0
|
|
CA
|
A:GLY241
|
3.4
|
20.7
|
1.0
|
|
O
|
A:VAL240
|
3.4
|
23.3
|
1.0
|
|
HG2
|
A:GLN463
|
3.4
|
36.3
|
1.0
|
|
C
|
A:GLY241
|
3.5
|
18.9
|
1.0
|
|
HG1
|
A:THR244
|
3.5
|
18.4
|
1.0
|
|
HG3
|
A:GLN463
|
3.6
|
36.3
|
1.0
|
|
N
|
A:GLU243
|
3.7
|
18.2
|
1.0
|
|
HA
|
A:SER459
|
3.7
|
16.2
|
1.0
|
|
CA
|
A:THR244
|
3.8
|
12.9
|
1.0
|
|
O
|
A:GLY241
|
3.8
|
17.0
|
1.0
|
|
CG
|
A:GLN463
|
3.8
|
30.2
|
1.0
|
|
HB2
|
A:SER459
|
3.8
|
20.3
|
1.0
|
|
N
|
A:VAL242
|
3.9
|
18.9
|
1.0
|
|
CB
|
A:SER459
|
3.9
|
16.9
|
1.0
|
|
CD
|
A:GLN463
|
3.9
|
41.9
|
1.0
|
|
HA2
|
A:GLY241
|
3.9
|
24.8
|
1.0
|
|
H
|
A:VAL242
|
4.0
|
22.6
|
1.0
|
|
C
|
A:GLU243
|
4.0
|
15.5
|
1.0
|
|
OE1
|
A:GLN463
|
4.0
|
47.7
|
1.0
|
|
CB
|
A:GLU243
|
4.1
|
29.3
|
1.0
|
|
CA
|
A:GLU243
|
4.1
|
20.2
|
1.0
|
|
C
|
A:VAL240
|
4.2
|
21.4
|
1.0
|
|
H
|
A:THR245
|
4.3
|
15.6
|
1.0
|
|
CA
|
A:SER459
|
4.3
|
13.5
|
1.0
|
|
N
|
A:GLY241
|
4.3
|
20.6
|
1.0
|
|
HA
|
A:THR244
|
4.4
|
15.5
|
1.0
|
|
C
|
A:VAL242
|
4.4
|
18.8
|
1.0
|
|
NE2
|
A:GLN463
|
4.5
|
43.7
|
1.0
|
|
HB3
|
A:GLU243
|
4.6
|
35.1
|
1.0
|
|
CG2
|
A:THR244
|
4.8
|
13.9
|
1.0
|
|
HE21
|
A:GLN463
|
4.8
|
52.5
|
1.0
|
|
HB3
|
A:SER459
|
4.8
|
20.3
|
1.0
|
|
CA
|
A:VAL242
|
4.8
|
19.3
|
1.0
|
|
N
|
A:THR245
|
4.9
|
13.0
|
1.0
|
|
HG11
|
A:VAL428
|
4.9
|
32.9
|
1.0
|
|
C
|
A:THR244
|
4.9
|
13.4
|
1.0
|
|
HG22
|
A:THR244
|
4.9
|
16.7
|
1.0
|
|
HE22
|
A:GLN463
|
4.9
|
52.5
|
1.0
|
|
O
|
A:SER459
|
4.9
|
15.3
|
1.0
|
|
O
|
A:HOH780
|
5.0
|
29.5
|
1.0
|
|
HG3
|
A:GLU243
|
5.0
|
48.1
|
1.0
|
|
HG12
|
A:VAL240
|
5.0
|
22.4
|
1.0
|
|
Sodium binding site 2 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 2 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 2 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na502
b:21.8
occ:1.00
|
O
|
A:HOH849
|
2.7
|
39.1
|
1.0
|
|
H11
|
A:GOL504
|
2.9
|
29.9
|
1.0
|
|
C1
|
A:GOL504
|
3.6
|
24.9
|
1.0
|
|
O1
|
A:GOL504
|
3.8
|
25.1
|
1.0
|
|
H12
|
A:GOL504
|
4.0
|
29.9
|
1.0
|
|
HO2
|
A:GOL504
|
4.5
|
24.6
|
1.0
|
|
O
|
A:HOH603
|
4.6
|
30.2
|
1.0
|
|
C2
|
A:GOL504
|
4.9
|
21.4
|
1.0
|
|
O2
|
A:GOL504
|
4.9
|
20.4
|
1.0
|
|
Sodium binding site 3 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 3 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 3 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na503
b:53.8
occ:1.00
|
O
|
A:HOH772
|
2.8
|
41.9
|
1.0
|
|
HA
|
A:ASP408
|
3.1
|
23.1
|
1.0
|
|
O
|
A:LEU407
|
3.2
|
20.5
|
1.0
|
|
O
|
A:HOH650
|
3.9
|
41.7
|
1.0
|
|
CA
|
A:ASP408
|
4.0
|
19.2
|
1.0
|
|
HB2
|
A:ASP408
|
4.1
|
24.3
|
1.0
|
|
C
|
A:LEU407
|
4.2
|
18.8
|
1.0
|
|
OD1
|
A:ASP408
|
4.3
|
21.8
|
1.0
|
|
H
|
A:VAL409
|
4.3
|
24.0
|
1.0
|
|
CB
|
A:ASP408
|
4.4
|
20.2
|
1.0
|
|
CG
|
A:ASP408
|
4.4
|
22.1
|
1.0
|
|
O
|
A:HOH948
|
4.5
|
46.7
|
1.0
|
|
HZ2
|
A:LYS372
|
4.5
|
25.7
|
1.0
|
|
N
|
A:ASP408
|
4.5
|
17.7
|
1.0
|
|
HZ1
|
A:LYS372
|
4.6
|
25.7
|
1.0
|
|
HE3
|
A:LYS372
|
4.7
|
24.0
|
1.0
|
|
O
|
A:HOH846
|
4.8
|
37.6
|
1.0
|
|
NZ
|
A:LYS372
|
4.9
|
21.4
|
1.0
|
|
N
|
A:VAL409
|
4.9
|
20.0
|
1.0
|
|
Sodium binding site 4 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 4 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 4 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na501
b:29.2
occ:1.00
|
H
|
B:VAL324
|
2.2
|
14.3
|
1.0
|
|
HA
|
B:SER323
|
2.7
|
17.8
|
1.0
|
|
HG3
|
B:GLU318
|
2.8
|
41.0
|
1.0
|
|
O
|
B:HOH849
|
2.8
|
55.0
|
1.0
|
|
N
|
B:VAL324
|
2.9
|
11.9
|
1.0
|
|
HG12
|
B:ILE349
|
2.9
|
19.9
|
1.0
|
|
HB
|
B:VAL324
|
3.1
|
16.0
|
1.0
|
|
HB2
|
B:GLU318
|
3.1
|
31.2
|
1.0
|
|
O
|
B:LYS322
|
3.1
|
21.2
|
1.0
|
|
HG22
|
B:VAL324
|
3.2
|
17.9
|
1.0
|
|
CA
|
B:SER323
|
3.5
|
14.8
|
1.0
|
|
CG
|
B:GLU318
|
3.5
|
34.2
|
1.0
|
|
CB
|
B:VAL324
|
3.6
|
13.3
|
1.0
|
|
HA
|
B:GLU318
|
3.7
|
27.1
|
1.0
|
|
C
|
B:SER323
|
3.7
|
13.6
|
1.0
|
|
O
|
B:HOH758
|
3.7
|
20.3
|
1.0
|
|
CB
|
B:GLU318
|
3.7
|
26.0
|
1.0
|
|
CG2
|
B:VAL324
|
3.7
|
14.9
|
1.0
|
|
HG21
|
B:VAL324
|
3.8
|
17.9
|
1.0
|
|
CA
|
B:VAL324
|
3.8
|
10.7
|
1.0
|
|
CG1
|
B:ILE349
|
3.8
|
16.5
|
1.0
|
|
HD11
|
B:ILE349
|
3.9
|
22.2
|
1.0
|
|
C
|
B:LYS322
|
4.1
|
18.7
|
1.0
|
|
O
|
B:VAL324
|
4.1
|
11.7
|
1.0
|
|
HG13
|
B:ILE349
|
4.1
|
19.9
|
1.0
|
|
CD
|
B:GLU318
|
4.1
|
41.8
|
1.0
|
|
O
|
B:HOH804
|
4.1
|
33.5
|
1.0
|
|
CA
|
B:GLU318
|
4.2
|
22.6
|
1.0
|
|
CD1
|
B:ILE349
|
4.2
|
18.5
|
1.0
|
|
N
|
B:SER323
|
4.3
|
14.5
|
1.0
|
|
HD13
|
B:ILE349
|
4.3
|
22.2
|
1.0
|
|
HG2
|
B:GLU318
|
4.3
|
41.0
|
1.0
|
|
OE2
|
B:GLU318
|
4.3
|
45.8
|
1.0
|
|
C
|
B:VAL324
|
4.4
|
10.2
|
1.0
|
|
HG21
|
B:ILE349
|
4.4
|
18.5
|
1.0
|
|
HB2
|
B:SER323
|
4.5
|
19.8
|
1.0
|
|
HB3
|
B:GLU318
|
4.5
|
31.2
|
1.0
|
|
CB
|
B:SER323
|
4.6
|
16.5
|
1.0
|
|
HA
|
B:ILE349
|
4.6
|
16.3
|
1.0
|
|
HA
|
B:VAL324
|
4.6
|
12.8
|
1.0
|
|
HG23
|
B:VAL324
|
4.7
|
17.9
|
1.0
|
|
HB3
|
B:SER323
|
4.8
|
19.8
|
1.0
|
|
O
|
B:SER323
|
4.8
|
14.4
|
1.0
|
|
OE1
|
B:GLU318
|
4.9
|
45.6
|
1.0
|
|
CB
|
B:ILE349
|
4.9
|
13.2
|
1.0
|
|
N
|
B:GLU318
|
4.9
|
19.9
|
1.0
|
|
Sodium binding site 5 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 5 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 5 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na502
b:12.0
occ:1.00
|
OD1
|
B:ASP283
|
2.3
|
12.0
|
1.0
|
|
O
|
B:PHE483
|
2.3
|
11.5
|
1.0
|
|
O
|
B:HOH715
|
2.4
|
12.6
|
1.0
|
|
O
|
B:ASP283
|
2.4
|
11.1
|
1.0
|
|
O
|
A:HOH856
|
2.4
|
13.1
|
1.0
|
|
O
|
B:HOH695
|
2.9
|
13.4
|
1.0
|
|
C
|
B:ASP283
|
3.2
|
10.3
|
1.0
|
|
CG
|
B:ASP283
|
3.2
|
10.6
|
1.0
|
|
HA
|
B:ASP283
|
3.2
|
12.6
|
1.0
|
|
HA
|
B:LYS484
|
3.3
|
13.0
|
1.0
|
|
HG3
|
B:PRO285
|
3.3
|
18.4
|
1.0
|
|
C
|
B:PHE483
|
3.5
|
10.8
|
1.0
|
|
CA
|
B:ASP283
|
3.6
|
10.4
|
1.0
|
|
HD3
|
B:PRO285
|
3.8
|
16.1
|
1.0
|
|
HD2
|
B:PHE483
|
3.9
|
13.1
|
1.0
|
|
HA
|
B:PRO285
|
3.9
|
13.5
|
1.0
|
|
CB
|
B:ASP283
|
4.0
|
10.0
|
1.0
|
|
OD2
|
B:ASP283
|
4.0
|
12.6
|
1.0
|
|
H
|
B:ALA485
|
4.0
|
11.8
|
1.0
|
|
N
|
B:PRO285
|
4.0
|
11.3
|
1.0
|
|
CG
|
B:PRO285
|
4.1
|
15.3
|
1.0
|
|
HB3
|
B:PHE483
|
4.1
|
12.5
|
1.0
|
|
CA
|
B:LYS484
|
4.1
|
10.9
|
1.0
|
|
HA2
|
A:GLY195
|
4.2
|
18.4
|
1.0
|
|
CD
|
B:PRO285
|
4.2
|
13.4
|
1.0
|
|
C
|
B:GLU284
|
4.2
|
11.2
|
1.0
|
|
HG2
|
B:LYS484
|
4.2
|
14.4
|
1.0
|
|
N
|
B:GLU284
|
4.2
|
10.8
|
1.0
|
|
N
|
B:LYS484
|
4.2
|
10.5
|
1.0
|
|
CA
|
B:PRO285
|
4.4
|
11.2
|
1.0
|
|
HB3
|
B:ASP283
|
4.4
|
12.0
|
1.0
|
|
CD2
|
B:PHE483
|
4.4
|
10.9
|
1.0
|
|
O
|
B:HOH670
|
4.5
|
12.9
|
1.0
|
|
O
|
B:GLU284
|
4.5
|
11.8
|
1.0
|
|
N
|
A:GLY195
|
4.5
|
17.2
|
1.0
|
|
CA
|
B:PHE483
|
4.6
|
9.7
|
1.0
|
|
O
|
A:HOH908
|
4.6
|
17.7
|
1.0
|
|
HB3
|
B:PRO285
|
4.6
|
15.6
|
1.0
|
|
CB
|
B:PRO285
|
4.7
|
13.0
|
1.0
|
|
CA
|
B:GLU284
|
4.7
|
11.2
|
1.0
|
|
CB
|
B:PHE483
|
4.7
|
10.4
|
1.0
|
|
HA
|
B:GLU284
|
4.7
|
13.5
|
1.0
|
|
N
|
B:ALA485
|
4.7
|
9.8
|
1.0
|
|
O
|
B:ILE468
|
4.7
|
10.7
|
1.0
|
|
HB2
|
B:ASP283
|
4.7
|
12.0
|
1.0
|
|
H
|
B:PHE483
|
4.8
|
12.4
|
1.0
|
|
HG3
|
B:LYS484
|
4.8
|
14.4
|
1.0
|
|
HG2
|
B:PRO285
|
4.9
|
18.4
|
1.0
|
|
CA
|
A:GLY195
|
4.9
|
15.3
|
1.0
|
|
CG
|
B:LYS484
|
4.9
|
12.0
|
1.0
|
|
N
|
B:PHE483
|
4.9
|
10.3
|
1.0
|
|
CG
|
B:PHE483
|
4.9
|
10.8
|
1.0
|
|
H
|
B:GLU284
|
4.9
|
12.9
|
1.0
|
|
C
|
B:LYS484
|
5.0
|
10.0
|
1.0
|
|
Sodium binding site 6 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 6 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 6 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na503
b:19.9
occ:1.00
|
HD21
|
B:ASN347
|
2.3
|
20.8
|
1.0
|
|
HE
|
B:ARG346
|
2.5
|
29.0
|
1.0
|
|
HH11
|
B:ARG346
|
3.0
|
23.6
|
1.0
|
|
O
|
B:HOH897
|
3.1
|
50.2
|
1.0
|
|
HZ3
|
B:TRP343
|
3.1
|
20.3
|
1.0
|
|
ND2
|
B:ASN347
|
3.2
|
17.3
|
1.0
|
|
HD3
|
B:ARG315
|
3.2
|
42.0
|
1.0
|
|
NE
|
B:ARG346
|
3.3
|
24.2
|
1.0
|
|
HH11
|
B:ARG315
|
3.3
|
53.4
|
1.0
|
|
HD11
|
B:ILE477
|
3.5
|
26.1
|
1.0
|
|
HE3
|
B:TRP343
|
3.5
|
19.4
|
1.0
|
|
CZ3
|
B:TRP343
|
3.6
|
16.9
|
1.0
|
|
NH1
|
B:ARG346
|
3.6
|
19.7
|
1.0
|
|
HD22
|
B:ASN347
|
3.7
|
20.8
|
1.0
|
|
NH1
|
B:ARG315
|
3.8
|
44.5
|
1.0
|
|
CE3
|
B:TRP343
|
3.8
|
16.2
|
1.0
|
|
OD1
|
B:ASN347
|
3.9
|
22.3
|
1.0
|
|
HB3
|
B:ARG346
|
3.9
|
27.8
|
1.0
|
|
CZ
|
B:ARG346
|
3.9
|
19.0
|
1.0
|
|
HB2
|
B:ARG346
|
3.9
|
27.8
|
1.0
|
|
CG
|
B:ASN347
|
3.9
|
17.2
|
1.0
|
|
HD2
|
B:ARG346
|
4.0
|
32.0
|
1.0
|
|
HH12
|
B:ARG315
|
4.1
|
53.4
|
1.0
|
|
CD
|
B:ARG315
|
4.1
|
35.0
|
1.0
|
|
CD
|
B:ARG346
|
4.2
|
26.7
|
1.0
|
|
HD13
|
B:ILE477
|
4.3
|
26.1
|
1.0
|
|
CD1
|
B:ILE477
|
4.3
|
21.7
|
1.0
|
|
CB
|
B:ARG346
|
4.3
|
23.2
|
1.0
|
|
HH12
|
B:ARG346
|
4.4
|
23.6
|
1.0
|
|
HB2
|
B:ARG315
|
4.4
|
26.6
|
1.0
|
|
CZ
|
B:ARG315
|
4.5
|
43.1
|
1.0
|
|
CH2
|
B:TRP343
|
4.6
|
17.4
|
1.0
|
|
NE
|
B:ARG315
|
4.6
|
38.6
|
1.0
|
|
HD12
|
B:ILE477
|
4.6
|
26.1
|
1.0
|
|
HD2
|
B:ARG315
|
4.7
|
42.0
|
1.0
|
|
HG2
|
B:ARG315
|
4.7
|
34.9
|
1.0
|
|
HA
|
B:TRP343
|
4.8
|
14.6
|
1.0
|
|
HH2
|
B:TRP343
|
4.8
|
20.9
|
1.0
|
|
CG
|
B:ARG315
|
4.9
|
29.1
|
1.0
|
|
CD2
|
B:TRP343
|
4.9
|
13.9
|
1.0
|
|
CG
|
B:ARG346
|
4.9
|
27.5
|
1.0
|
|
Sodium binding site 7 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 7 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 7 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na504
b:31.0
occ:1.00
|
HZ1
|
B:LYS405
|
2.2
|
28.9
|
1.0
|
|
O
|
B:PRO412
|
2.8
|
11.1
|
1.0
|
|
HD2
|
B:PRO412
|
2.9
|
12.7
|
1.0
|
|
NZ
|
B:LYS405
|
3.0
|
24.1
|
1.0
|
|
HZ3
|
B:LYS405
|
3.1
|
28.9
|
1.0
|
|
HZ2
|
B:LYS405
|
3.4
|
28.9
|
1.0
|
|
HG2
|
B:PRO412
|
3.6
|
13.2
|
1.0
|
|
CD
|
B:PRO412
|
3.6
|
10.6
|
1.0
|
|
N
|
B:PRO412
|
3.7
|
9.7
|
1.0
|
|
O
|
B:GLU410
|
3.8
|
12.9
|
1.0
|
|
C
|
B:PRO412
|
3.8
|
9.6
|
1.0
|
|
C
|
B:ALA411
|
3.9
|
10.5
|
1.0
|
|
O
|
B:ALA411
|
3.9
|
12.2
|
1.0
|
|
HE2
|
B:LYS405
|
4.0
|
29.9
|
1.0
|
|
CE
|
B:LYS405
|
4.1
|
24.9
|
1.0
|
|
CG
|
B:PRO412
|
4.1
|
11.0
|
1.0
|
|
O
|
B:HOH685
|
4.3
|
17.3
|
1.0
|
|
HE3
|
B:LYS405
|
4.3
|
29.9
|
1.0
|
|
CA
|
B:PRO412
|
4.3
|
9.1
|
1.0
|
|
C
|
B:GLU410
|
4.4
|
11.9
|
1.0
|
|
HD3
|
B:PRO412
|
4.5
|
12.7
|
1.0
|
|
HA
|
B:HIS413
|
4.6
|
10.8
|
1.0
|
|
HA
|
B:ALA411
|
4.8
|
13.4
|
1.0
|
|
HG13
|
B:VAL401
|
4.8
|
18.5
|
1.0
|
|
CA
|
B:ALA411
|
4.8
|
11.2
|
1.0
|
|
HA
|
B:GLU410
|
4.8
|
13.4
|
1.0
|
|
CB
|
B:PRO412
|
4.9
|
10.4
|
1.0
|
|
HG3
|
B:PRO412
|
4.9
|
13.2
|
1.0
|
|
N
|
B:HIS413
|
4.9
|
10.1
|
1.0
|
|
N
|
B:ALA411
|
4.9
|
10.8
|
1.0
|
|
O
|
B:VAL409
|
4.9
|
12.4
|
1.0
|
|
HG22
|
B:VAL415
|
4.9
|
14.4
|
1.0
|
|
Sodium binding site 8 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 8 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 8 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na505
b:55.2
occ:1.00
|
O
|
B:HOH981
|
2.5
|
55.3
|
1.0
|
|
O
|
B:HOH934
|
2.5
|
42.3
|
1.0
|
|
O
|
B:HOH1002
|
2.7
|
67.9
|
1.0
|
|
O
|
B:HOH625
|
2.7
|
41.9
|
1.0
|
|
HE2
|
B:PHE228
|
2.9
|
22.9
|
1.0
|
|
HA
|
B:ASP224
|
3.0
|
25.2
|
1.0
|
|
HD2
|
B:PHE228
|
3.5
|
20.3
|
1.0
|
|
CE2
|
B:PHE228
|
3.7
|
19.0
|
1.0
|
|
CA
|
B:ASP224
|
3.8
|
21.0
|
1.0
|
|
C
|
B:ASP224
|
3.9
|
19.3
|
1.0
|
|
HG21
|
B:ILE223
|
3.9
|
26.3
|
1.0
|
|
O
|
B:HOH987
|
4.0
|
50.2
|
1.0
|
|
N
|
B:ASP225
|
4.0
|
20.2
|
1.0
|
|
HG23
|
B:THR253
|
4.0
|
24.6
|
1.0
|
|
CD2
|
B:PHE228
|
4.0
|
16.9
|
1.0
|
|
H
|
B:ASP225
|
4.0
|
24.3
|
1.0
|
|
OD1
|
B:ASP225
|
4.1
|
29.6
|
1.0
|
|
HA
|
B:ASP225
|
4.3
|
25.0
|
1.0
|
|
O
|
B:ASP224
|
4.4
|
18.7
|
1.0
|
|
N
|
B:ASP224
|
4.4
|
20.7
|
1.0
|
|
O
|
B:ILE223
|
4.4
|
25.4
|
1.0
|
|
O
|
B:HOH995
|
4.4
|
47.4
|
1.0
|
|
O
|
B:HOH683
|
4.4
|
38.5
|
1.0
|
|
CG
|
B:ASP225
|
4.6
|
28.2
|
1.0
|
|
C
|
B:ILE223
|
4.7
|
22.1
|
1.0
|
|
O
|
B:HOH867
|
4.7
|
52.4
|
1.0
|
|
CA
|
B:ASP225
|
4.7
|
20.8
|
1.0
|
|
O
|
B:HOH713
|
4.7
|
30.2
|
1.0
|
|
HG21
|
B:THR253
|
4.8
|
24.6
|
1.0
|
|
O
|
B:HOH999
|
4.8
|
38.9
|
1.0
|
|
CG2
|
B:THR253
|
4.8
|
20.5
|
1.0
|
|
CG2
|
B:ILE223
|
4.8
|
21.9
|
1.0
|
|
H
|
B:ASP224
|
4.9
|
24.8
|
1.0
|
|
OD2
|
B:ASP225
|
4.9
|
31.3
|
1.0
|
|
CZ
|
B:PHE228
|
4.9
|
20.0
|
1.0
|
|
HB2
|
B:ASP224
|
5.0
|
26.8
|
1.0
|
|
CB
|
B:ASP224
|
5.0
|
22.3
|
1.0
|
|
Sodium binding site 9 out
of 9 in 6cqp
Go back to
Sodium Binding Sites List in 6cqp
Sodium binding site 9 out
of 9 in the High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 9 of High Resolution Crystal Structure of Ftsy-Ng Domain of E. Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na506
b:45.6
occ:1.00
|
O
|
B:HOH997
|
2.7
|
24.9
|
1.0
|
|
HB
|
B:VAL342
|
2.8
|
15.2
|
1.0
|
|
HA
|
B:GLN339
|
2.9
|
13.7
|
1.0
|
|
HG13
|
B:VAL342
|
2.9
|
15.0
|
1.0
|
|
O
|
B:GLN339
|
2.9
|
12.4
|
1.0
|
|
HB3
|
B:GLN339
|
3.1
|
19.2
|
1.0
|
|
O
|
B:HOH831
|
3.1
|
31.3
|
1.0
|
|
HD1
|
B:TRP343
|
3.2
|
21.3
|
1.0
|
|
HE1
|
B:TRP343
|
3.2
|
20.7
|
1.0
|
|
CD1
|
B:TRP343
|
3.4
|
17.7
|
1.0
|
|
NE1
|
B:TRP343
|
3.4
|
17.2
|
1.0
|
|
CA
|
B:GLN339
|
3.5
|
11.4
|
1.0
|
|
HG2
|
B:GLN339
|
3.5
|
29.4
|
1.0
|
|
C
|
B:GLN339
|
3.6
|
11.0
|
1.0
|
|
CB
|
B:GLN339
|
3.6
|
16.0
|
1.0
|
|
CB
|
B:VAL342
|
3.6
|
12.7
|
1.0
|
|
CG1
|
B:VAL342
|
3.7
|
12.5
|
1.0
|
|
H
|
B:TRP343
|
4.0
|
14.0
|
1.0
|
|
CG
|
B:GLN339
|
4.1
|
24.5
|
1.0
|
|
O
|
B:HOH735
|
4.1
|
40.3
|
1.0
|
|
HG22
|
B:VAL342
|
4.1
|
15.2
|
1.0
|
|
HG12
|
B:VAL342
|
4.2
|
15.0
|
1.0
|
|
HH12
|
B:ARG346
|
4.3
|
23.6
|
1.0
|
|
HG11
|
B:VAL342
|
4.4
|
15.0
|
1.0
|
|
HH22
|
B:ARG346
|
4.4
|
23.2
|
1.0
|
|
CG
|
B:TRP343
|
4.4
|
14.8
|
1.0
|
|
CE2
|
B:TRP343
|
4.4
|
15.9
|
1.0
|
|
CG2
|
B:VAL342
|
4.4
|
12.6
|
1.0
|
|
N
|
B:TRP343
|
4.5
|
11.6
|
1.0
|
|
HB2
|
B:GLN339
|
4.5
|
19.2
|
1.0
|
|
HG3
|
B:GLN339
|
4.6
|
29.4
|
1.0
|
|
O
|
B:HOH945
|
4.7
|
36.0
|
1.0
|
|
H
|
B:VAL342
|
4.7
|
13.3
|
1.0
|
|
HG23
|
B:VAL342
|
4.8
|
15.2
|
1.0
|
|
CA
|
B:VAL342
|
4.8
|
11.9
|
1.0
|
|
N
|
B:LEU340
|
4.8
|
10.6
|
1.0
|
|
N
|
B:GLN339
|
4.8
|
11.1
|
1.0
|
|
NH1
|
B:ARG346
|
4.9
|
19.7
|
1.0
|
|
NH2
|
B:ARG346
|
4.9
|
19.3
|
1.0
|
|
O
|
B:HOH1018
|
4.9
|
38.1
|
1.0
|
|
CD2
|
B:TRP343
|
4.9
|
13.9
|
1.0
|
|
C
|
B:VAL342
|
4.9
|
11.2
|
1.0
|
|
O
|
B:HOH926
|
5.0
|
39.3
|
1.0
|
|
Reference:
C.Faoro,
L.Wilkinson-White,
A.H.Kwan,
S.F.Ataide.
Discovery of Fragments That Target Key Interactions in the Signal Recognition Particle (Srp) As Potential Leads For A New Class of Antibiotics. Plos One V. 13 00387 2018.
ISSN: ESSN 1932-6203
PubMed: 30044812
DOI: 10.1371/JOURNAL.PONE.0200387
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