Sodium in PDB 3t08: E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
Enzymatic activity of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
All present enzymatic activity of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex:
3.2.1.23;
Protein crystallography data
The structure of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex, PDB code: 3t08
was solved by
L.J.Jancewicz,
R.W.Wheatley,
G.Sutendra,
M.Lee,
M.Fraser,
R.E.Huber,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
74.52 /
2.00
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
151.160,
161.590,
202.000,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
17.5 /
22.3
|
Other elements in 3t08:
The structure of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex also contains other interesting chemical elements:
Sodium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
13;
Binding sites:
The binding sites of Sodium atom in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
(pdb code 3t08). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 13 binding sites of Sodium where determined in the
E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex, PDB code: 3t08:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Sodium binding site 1 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 1 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 1 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na3101
b:33.9
occ:1.00
|
O
|
A:HOH4679
|
2.1
|
37.6
|
1.0
|
|
O6
|
A:IPT2001
|
2.3
|
41.0
|
0.9
|
|
OD1
|
A:ASN604
|
2.4
|
32.5
|
1.0
|
|
O
|
A:PHE601
|
2.4
|
37.5
|
1.0
|
|
OD2
|
A:ASP201
|
2.4
|
38.1
|
1.0
|
|
C6
|
A:IPT2001
|
3.2
|
43.4
|
0.9
|
|
CG
|
A:ASP201
|
3.2
|
40.0
|
1.0
|
|
CG
|
A:ASN604
|
3.4
|
34.9
|
1.0
|
|
OD1
|
A:ASP201
|
3.5
|
37.5
|
1.0
|
|
C
|
A:PHE601
|
3.5
|
36.6
|
1.0
|
|
OH
|
A:TYR100
|
3.6
|
35.2
|
1.0
|
|
ND2
|
A:ASN604
|
3.7
|
30.7
|
1.0
|
|
NE1
|
A:TRP568
|
4.0
|
27.5
|
1.0
|
|
O4
|
A:IPT2001
|
4.0
|
38.4
|
0.9
|
|
O
|
A:HOH4048
|
4.2
|
31.7
|
1.0
|
|
CA
|
A:CYS602
|
4.2
|
32.4
|
1.0
|
|
N
|
A:CYS602
|
4.3
|
33.8
|
1.0
|
|
C5
|
A:IPT2001
|
4.4
|
45.4
|
0.9
|
|
C4
|
A:IPT2001
|
4.4
|
45.9
|
0.9
|
|
CB
|
A:ASP201
|
4.5
|
32.4
|
1.0
|
|
O
|
A:ASP201
|
4.6
|
33.6
|
1.0
|
|
CA
|
A:PHE601
|
4.6
|
37.5
|
1.0
|
|
NE2
|
A:HIS540
|
4.6
|
29.6
|
1.0
|
|
CB
|
A:PHE601
|
4.6
|
35.0
|
1.0
|
|
C
|
A:CYS602
|
4.7
|
33.5
|
1.0
|
|
CB
|
A:ASN604
|
4.7
|
29.3
|
1.0
|
|
CE2
|
A:TRP568
|
4.7
|
31.9
|
1.0
|
|
CZ2
|
A:TRP568
|
4.7
|
32.5
|
1.0
|
|
CZ
|
A:TYR100
|
4.7
|
37.8
|
1.0
|
|
Sodium binding site 2 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 2 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 2 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na3102
b:31.2
occ:1.00
|
O
|
A:LEU562
|
2.4
|
30.1
|
1.0
|
|
O
|
A:TYR559
|
2.4
|
28.9
|
1.0
|
|
O
|
A:PHE556
|
2.4
|
31.6
|
1.0
|
|
O
|
A:HOH4365
|
2.4
|
35.7
|
1.0
|
|
O
|
A:HOH4282
|
2.6
|
40.2
|
1.0
|
|
O
|
A:PRO560
|
3.2
|
26.5
|
1.0
|
|
C
|
A:LEU562
|
3.4
|
26.4
|
1.0
|
|
C
|
A:TYR559
|
3.4
|
28.9
|
1.0
|
|
C
|
A:PHE556
|
3.5
|
29.0
|
1.0
|
|
C
|
A:PRO560
|
3.6
|
28.5
|
1.0
|
|
CA
|
A:PRO560
|
3.7
|
28.6
|
1.0
|
|
O
|
A:HOH4514
|
3.9
|
34.3
|
1.0
|
|
N
|
A:PRO560
|
3.9
|
28.9
|
1.0
|
|
N
|
A:LEU562
|
4.1
|
25.8
|
1.0
|
|
CA
|
A:LEU562
|
4.2
|
24.8
|
1.0
|
|
CA
|
A:PHE556
|
4.2
|
28.1
|
1.0
|
|
N
|
A:GLN563
|
4.3
|
25.3
|
1.0
|
|
CA
|
A:GLN563
|
4.3
|
23.0
|
1.0
|
|
CB
|
A:LEU562
|
4.5
|
25.2
|
1.0
|
|
CA
|
A:TYR559
|
4.5
|
27.6
|
1.0
|
|
N
|
A:ARG557
|
4.6
|
29.8
|
1.0
|
|
N
|
A:ARG561
|
4.6
|
28.5
|
1.0
|
|
N
|
A:TYR559
|
4.6
|
27.1
|
1.0
|
|
CG
|
A:GLN563
|
4.6
|
23.3
|
1.0
|
|
CA
|
A:ARG557
|
4.7
|
27.3
|
1.0
|
|
C
|
A:ARG557
|
4.8
|
28.8
|
1.0
|
|
CB
|
A:PHE556
|
4.9
|
26.6
|
1.0
|
|
CD1
|
A:LEU350
|
4.9
|
27.8
|
1.0
|
|
O
|
A:ARG557
|
4.9
|
29.1
|
1.0
|
|
C
|
A:ARG561
|
4.9
|
27.8
|
1.0
|
|
Sodium binding site 3 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 3 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 3 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na3103
b:46.7
occ:1.00
|
O
|
A:HOH4741
|
2.2
|
53.1
|
1.0
|
|
O
|
A:LEU967
|
2.4
|
39.7
|
1.0
|
|
O
|
A:PRO932
|
2.6
|
31.7
|
1.0
|
|
O
|
A:THR970
|
2.7
|
45.5
|
1.0
|
|
O
|
A:HOH4167
|
2.7
|
37.1
|
1.0
|
|
O
|
A:HOH4760
|
3.4
|
45.1
|
1.0
|
|
C
|
A:LEU967
|
3.5
|
37.9
|
1.0
|
|
CZ
|
A:PHE931
|
3.6
|
38.8
|
1.0
|
|
C
|
A:PRO932
|
3.6
|
31.7
|
1.0
|
|
O
|
A:MET968
|
3.8
|
43.0
|
1.0
|
|
C
|
A:THR970
|
3.8
|
43.8
|
1.0
|
|
CE2
|
A:PHE931
|
3.9
|
40.6
|
1.0
|
|
C
|
A:MET968
|
3.9
|
43.7
|
1.0
|
|
CE1
|
A:PHE931
|
4.0
|
35.6
|
1.0
|
|
CA
|
A:MET968
|
4.0
|
43.1
|
1.0
|
|
CB
|
A:PRO932
|
4.0
|
30.2
|
1.0
|
|
N
|
A:MET968
|
4.2
|
39.4
|
1.0
|
|
N
|
A:THR970
|
4.2
|
43.3
|
1.0
|
|
CA
|
A:PRO932
|
4.2
|
30.2
|
1.0
|
|
CD
|
A:PRO932
|
4.3
|
33.5
|
1.0
|
|
N
|
A:PRO932
|
4.3
|
33.6
|
1.0
|
|
CD2
|
A:PHE931
|
4.5
|
40.5
|
1.0
|
|
N
|
A:GLU969
|
4.6
|
43.0
|
1.0
|
|
CD1
|
A:PHE931
|
4.6
|
42.8
|
1.0
|
|
CG
|
A:PRO932
|
4.6
|
32.9
|
1.0
|
|
CA
|
A:THR970
|
4.6
|
43.1
|
1.0
|
|
N
|
A:SER933
|
4.6
|
31.4
|
1.0
|
|
CA
|
A:LEU967
|
4.7
|
38.6
|
1.0
|
|
N
|
A:SER971
|
4.8
|
41.4
|
1.0
|
|
CG
|
A:PHE931
|
4.8
|
37.7
|
1.0
|
|
CA
|
A:SER971
|
4.9
|
40.4
|
1.0
|
|
CA
|
A:SER933
|
4.9
|
31.0
|
1.0
|
|
Sodium binding site 4 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 4 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 4 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na3101
b:28.7
occ:1.00
|
O
|
B:HOH4233
|
2.3
|
34.0
|
1.0
|
|
OD1
|
B:ASN604
|
2.4
|
33.7
|
1.0
|
|
O
|
B:PHE601
|
2.4
|
30.8
|
1.0
|
|
OD2
|
B:ASP201
|
2.4
|
35.9
|
1.0
|
|
O6
|
B:IPT2001
|
2.4
|
35.5
|
1.0
|
|
CG
|
B:ASP201
|
3.2
|
31.8
|
1.0
|
|
C6
|
B:IPT2001
|
3.3
|
40.1
|
1.0
|
|
CG
|
B:ASN604
|
3.4
|
34.3
|
1.0
|
|
C
|
B:PHE601
|
3.5
|
33.7
|
1.0
|
|
OD1
|
B:ASP201
|
3.5
|
34.9
|
1.0
|
|
OH
|
B:TYR100
|
3.6
|
31.0
|
1.0
|
|
ND2
|
B:ASN604
|
3.9
|
29.0
|
1.0
|
|
NE1
|
B:TRP568
|
4.0
|
28.4
|
1.0
|
|
O4
|
B:IPT2001
|
4.1
|
35.0
|
1.0
|
|
CA
|
B:CYS602
|
4.1
|
30.4
|
1.0
|
|
O
|
B:HOH4056
|
4.2
|
36.9
|
1.0
|
|
N
|
B:CYS602
|
4.3
|
32.3
|
1.0
|
|
C5
|
B:IPT2001
|
4.4
|
42.8
|
1.0
|
|
CB
|
B:ASP201
|
4.4
|
27.4
|
1.0
|
|
C4
|
B:IPT2001
|
4.4
|
43.6
|
1.0
|
|
O
|
B:ASP201
|
4.5
|
24.5
|
1.0
|
|
CA
|
B:PHE601
|
4.6
|
32.9
|
1.0
|
|
NE2
|
B:HIS540
|
4.6
|
25.9
|
1.0
|
|
C
|
B:CYS602
|
4.6
|
30.5
|
1.0
|
|
CB
|
B:PHE601
|
4.6
|
34.7
|
1.0
|
|
CE2
|
B:TRP568
|
4.7
|
27.0
|
1.0
|
|
CB
|
B:ASN604
|
4.7
|
30.9
|
1.0
|
|
CZ2
|
B:TRP568
|
4.7
|
32.3
|
1.0
|
|
CZ
|
B:TYR100
|
4.7
|
32.6
|
1.0
|
|
O
|
B:CYS602
|
4.9
|
30.0
|
1.0
|
|
Sodium binding site 5 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 5 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 5 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na3102
b:31.1
occ:1.00
|
O
|
B:PHE556
|
2.4
|
28.6
|
1.0
|
|
O
|
B:LEU562
|
2.4
|
25.8
|
1.0
|
|
O
|
B:TYR559
|
2.4
|
27.7
|
1.0
|
|
O
|
B:HOH4370
|
2.4
|
41.3
|
1.0
|
|
O
|
B:HOH4291
|
2.5
|
51.8
|
1.0
|
|
O
|
B:PRO560
|
3.3
|
27.1
|
1.0
|
|
C
|
B:TYR559
|
3.4
|
26.2
|
1.0
|
|
C
|
B:LEU562
|
3.4
|
27.4
|
1.0
|
|
C
|
B:PHE556
|
3.5
|
26.3
|
1.0
|
|
C
|
B:PRO560
|
3.7
|
24.5
|
1.0
|
|
CA
|
B:PRO560
|
3.7
|
23.0
|
1.0
|
|
O
|
B:HOH4424
|
3.9
|
46.2
|
1.0
|
|
O
|
B:HOH4239
|
4.0
|
47.6
|
1.0
|
|
N
|
B:PRO560
|
4.0
|
23.7
|
1.0
|
|
N
|
B:LEU562
|
4.1
|
24.7
|
1.0
|
|
CA
|
B:LEU562
|
4.2
|
26.0
|
1.0
|
|
CA
|
B:PHE556
|
4.3
|
25.0
|
1.0
|
|
N
|
B:GLN563
|
4.3
|
24.3
|
1.0
|
|
CA
|
B:GLN563
|
4.3
|
26.2
|
1.0
|
|
CB
|
B:LEU562
|
4.5
|
24.7
|
1.0
|
|
N
|
B:ARG557
|
4.6
|
28.2
|
1.0
|
|
CA
|
B:TYR559
|
4.6
|
26.5
|
1.0
|
|
N
|
B:TYR559
|
4.6
|
27.5
|
1.0
|
|
N
|
B:ARG561
|
4.6
|
24.1
|
1.0
|
|
O
|
B:HOH4690
|
4.7
|
46.0
|
1.0
|
|
CA
|
B:ARG557
|
4.7
|
27.7
|
1.0
|
|
CD1
|
B:LEU350
|
4.7
|
32.4
|
1.0
|
|
CG
|
B:GLN563
|
4.7
|
26.4
|
1.0
|
|
O
|
B:ARG557
|
4.8
|
24.5
|
1.0
|
|
C
|
B:ARG557
|
4.8
|
29.2
|
1.0
|
|
CB
|
B:PHE556
|
4.9
|
23.9
|
1.0
|
|
C
|
B:ARG561
|
5.0
|
25.4
|
1.0
|
|
Sodium binding site 6 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 6 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 6 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na3103
b:59.7
occ:1.00
|
O
|
B:LEU967
|
2.6
|
39.8
|
1.0
|
|
O
|
B:THR970
|
2.8
|
47.2
|
1.0
|
|
O
|
B:PRO932
|
2.9
|
31.7
|
1.0
|
|
O
|
B:HOH4183
|
2.9
|
40.1
|
1.0
|
|
O
|
B:HOH4341
|
2.9
|
56.0
|
1.0
|
|
O
|
B:MET968
|
3.5
|
42.7
|
1.0
|
|
CZ
|
B:PHE931
|
3.5
|
44.1
|
1.0
|
|
C
|
B:LEU967
|
3.7
|
37.1
|
1.0
|
|
C
|
B:MET968
|
3.7
|
41.5
|
1.0
|
|
C
|
B:THR970
|
3.8
|
47.6
|
1.0
|
|
CE1
|
B:PHE931
|
3.9
|
46.1
|
1.0
|
|
C
|
B:PRO932
|
3.9
|
29.9
|
1.0
|
|
CE2
|
B:PHE931
|
3.9
|
39.4
|
1.0
|
|
CA
|
B:MET968
|
4.0
|
41.1
|
1.0
|
|
N
|
B:THR970
|
4.1
|
42.7
|
1.0
|
|
N
|
B:MET968
|
4.3
|
38.8
|
1.0
|
|
CB
|
B:PRO932
|
4.3
|
33.1
|
1.0
|
|
N
|
B:GLU969
|
4.4
|
40.4
|
1.0
|
|
CD
|
B:PRO932
|
4.5
|
31.4
|
1.0
|
|
CA
|
B:PRO932
|
4.5
|
31.2
|
1.0
|
|
N
|
B:PRO932
|
4.5
|
33.7
|
1.0
|
|
CA
|
B:THR970
|
4.6
|
46.4
|
1.0
|
|
CD1
|
B:PHE931
|
4.6
|
43.7
|
1.0
|
|
CD2
|
B:PHE931
|
4.6
|
37.6
|
1.0
|
|
N
|
B:SER971
|
4.7
|
45.4
|
1.0
|
|
CA
|
B:SER971
|
4.8
|
45.1
|
1.0
|
|
C
|
B:GLU969
|
4.8
|
44.3
|
1.0
|
|
CG
|
B:PRO932
|
4.8
|
33.9
|
1.0
|
|
O
|
B:HOH4413
|
4.9
|
50.2
|
1.0
|
|
N
|
B:SER933
|
4.9
|
32.4
|
1.0
|
|
CG
|
B:PHE931
|
4.9
|
36.0
|
1.0
|
|
CA
|
B:LEU967
|
4.9
|
36.9
|
1.0
|
|
Sodium binding site 7 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 7 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 7 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na3101
b:29.0
occ:1.00
|
O6
|
C:IPT2001
|
2.3
|
40.7
|
1.0
|
|
O
|
C:HOH4224
|
2.3
|
40.3
|
1.0
|
|
OD1
|
C:ASN604
|
2.4
|
32.0
|
1.0
|
|
O
|
C:PHE601
|
2.4
|
30.0
|
1.0
|
|
OD2
|
C:ASP201
|
2.4
|
33.1
|
1.0
|
|
CG
|
C:ASP201
|
3.2
|
34.1
|
1.0
|
|
C6
|
C:IPT2001
|
3.3
|
42.5
|
1.0
|
|
CG
|
C:ASN604
|
3.3
|
30.1
|
1.0
|
|
OD1
|
C:ASP201
|
3.6
|
37.4
|
1.0
|
|
C
|
C:PHE601
|
3.6
|
29.9
|
1.0
|
|
ND2
|
C:ASN604
|
3.6
|
28.6
|
1.0
|
|
OH
|
C:TYR100
|
3.7
|
31.6
|
1.0
|
|
NE1
|
C:TRP568
|
4.0
|
30.4
|
1.0
|
|
O4
|
C:IPT2001
|
4.0
|
36.9
|
1.0
|
|
O
|
C:HOH4054
|
4.2
|
31.4
|
1.0
|
|
CA
|
C:CYS602
|
4.2
|
31.0
|
1.0
|
|
N
|
C:CYS602
|
4.3
|
29.0
|
1.0
|
|
C5
|
C:IPT2001
|
4.3
|
46.3
|
1.0
|
|
C4
|
C:IPT2001
|
4.3
|
46.8
|
1.0
|
|
CB
|
C:ASP201
|
4.4
|
27.1
|
1.0
|
|
CA
|
C:PHE601
|
4.6
|
27.9
|
1.0
|
|
O
|
C:ASP201
|
4.6
|
25.4
|
1.0
|
|
NE2
|
C:HIS540
|
4.6
|
24.8
|
1.0
|
|
CB
|
C:PHE601
|
4.7
|
29.1
|
1.0
|
|
C
|
C:CYS602
|
4.7
|
30.9
|
1.0
|
|
CB
|
C:ASN604
|
4.7
|
29.9
|
1.0
|
|
CE2
|
C:TRP568
|
4.7
|
29.8
|
1.0
|
|
CZ2
|
C:TRP568
|
4.8
|
28.5
|
1.0
|
|
CZ
|
C:TYR100
|
4.8
|
30.8
|
1.0
|
|
O
|
C:CYS602
|
5.0
|
28.7
|
1.0
|
|
Sodium binding site 8 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 8 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 8 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na3102
b:32.6
occ:1.00
|
O
|
C:PHE556
|
2.4
|
30.6
|
1.0
|
|
O
|
C:LEU562
|
2.4
|
30.6
|
1.0
|
|
O
|
C:TYR559
|
2.4
|
30.3
|
1.0
|
|
O
|
C:HOH4294
|
2.4
|
44.1
|
1.0
|
|
O
|
C:HOH4386
|
2.5
|
40.6
|
1.0
|
|
O
|
C:PRO560
|
3.2
|
29.2
|
1.0
|
|
C
|
C:TYR559
|
3.4
|
29.3
|
1.0
|
|
C
|
C:LEU562
|
3.4
|
28.8
|
1.0
|
|
C
|
C:PHE556
|
3.5
|
27.5
|
1.0
|
|
C
|
C:PRO560
|
3.6
|
26.9
|
1.0
|
|
CA
|
C:PRO560
|
3.6
|
24.3
|
1.0
|
|
N
|
C:PRO560
|
3.9
|
26.9
|
1.0
|
|
O
|
C:HOH4228
|
4.0
|
34.3
|
1.0
|
|
N
|
C:LEU562
|
4.1
|
25.3
|
1.0
|
|
CA
|
C:LEU562
|
4.2
|
25.9
|
1.0
|
|
CA
|
C:PHE556
|
4.2
|
25.9
|
1.0
|
|
N
|
C:GLN563
|
4.2
|
26.9
|
1.0
|
|
CA
|
C:GLN563
|
4.3
|
27.9
|
1.0
|
|
O
|
C:HOH4587
|
4.3
|
59.9
|
1.0
|
|
CB
|
C:LEU562
|
4.4
|
23.9
|
1.0
|
|
N
|
C:ARG561
|
4.5
|
25.7
|
1.0
|
|
CA
|
C:TYR559
|
4.5
|
29.4
|
1.0
|
|
N
|
C:ARG557
|
4.6
|
29.2
|
1.0
|
|
N
|
C:TYR559
|
4.6
|
28.8
|
1.0
|
|
CA
|
C:ARG557
|
4.7
|
29.2
|
1.0
|
|
O
|
C:ARG557
|
4.7
|
30.8
|
1.0
|
|
C
|
C:ARG557
|
4.7
|
28.5
|
1.0
|
|
CG
|
C:GLN563
|
4.7
|
27.7
|
1.0
|
|
CD1
|
C:LEU350
|
4.8
|
23.5
|
1.0
|
|
CB
|
C:PHE556
|
4.9
|
25.7
|
1.0
|
|
C
|
C:ARG561
|
4.9
|
26.8
|
1.0
|
|
O
|
C:ALA555
|
4.9
|
26.1
|
1.0
|
|
Sodium binding site 9 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 9 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 9 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na3103
b:48.9
occ:1.00
|
O
|
C:LEU967
|
2.4
|
38.5
|
1.0
|
|
O
|
C:THR970
|
2.6
|
40.6
|
1.0
|
|
O
|
C:PRO932
|
2.7
|
30.9
|
1.0
|
|
O
|
C:HOH4178
|
3.1
|
41.7
|
1.0
|
|
O
|
C:HOH4355
|
3.2
|
46.0
|
1.0
|
|
C
|
C:LEU967
|
3.6
|
35.3
|
1.0
|
|
C
|
C:PRO932
|
3.6
|
30.9
|
1.0
|
|
C
|
C:THR970
|
3.7
|
42.5
|
1.0
|
|
CZ
|
C:PHE931
|
3.7
|
33.6
|
1.0
|
|
O
|
C:MET968
|
3.7
|
37.6
|
1.0
|
|
C
|
C:MET968
|
3.8
|
40.5
|
1.0
|
|
CE2
|
C:PHE931
|
4.0
|
34.2
|
1.0
|
|
N
|
C:THR970
|
4.0
|
42.2
|
1.0
|
|
CA
|
C:MET968
|
4.0
|
37.6
|
1.0
|
|
CE1
|
C:PHE931
|
4.0
|
32.8
|
1.0
|
|
CB
|
C:PRO932
|
4.1
|
32.5
|
1.0
|
|
CD
|
C:PRO932
|
4.2
|
34.2
|
1.0
|
|
N
|
C:MET968
|
4.2
|
36.7
|
1.0
|
|
CA
|
C:PRO932
|
4.2
|
33.8
|
1.0
|
|
N
|
C:PRO932
|
4.3
|
36.0
|
1.0
|
|
CA
|
C:THR970
|
4.4
|
41.1
|
1.0
|
|
N
|
C:GLU969
|
4.4
|
39.4
|
1.0
|
|
CD2
|
C:PHE931
|
4.6
|
37.2
|
1.0
|
|
CD1
|
C:PHE931
|
4.6
|
40.6
|
1.0
|
|
CG
|
C:PRO932
|
4.6
|
35.2
|
1.0
|
|
N
|
C:SER971
|
4.6
|
39.5
|
1.0
|
|
N
|
C:SER933
|
4.7
|
30.7
|
1.0
|
|
CA
|
C:LEU967
|
4.8
|
32.1
|
1.0
|
|
CA
|
C:SER971
|
4.8
|
39.8
|
1.0
|
|
CG
|
C:PHE931
|
4.8
|
36.7
|
1.0
|
|
C
|
C:GLU969
|
4.9
|
41.6
|
1.0
|
|
Sodium binding site 10 out
of 13 in 3t08
Go back to
Sodium Binding Sites List in 3t08
Sodium binding site 10 out
of 13 in the E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 10 of E. Coli (Lacz) Beta-Galactosidase (S796A) Iptg Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na3104
b:48.8
occ:1.00
|
O
|
C:DMS8014
|
2.2
|
59.8
|
1.0
|
|
O
|
C:SER647
|
2.2
|
43.7
|
1.0
|
|
O
|
C:HOH4560
|
2.4
|
56.0
|
1.0
|
|
O
|
C:LEU670
|
2.4
|
42.1
|
1.0
|
|
O
|
C:HOH4758
|
2.6
|
50.1
|
1.0
|
|
O
|
C:GLU650
|
2.7
|
36.2
|
1.0
|
|
C
|
C:SER647
|
3.4
|
40.6
|
1.0
|
|
N
|
C:GLU650
|
3.5
|
37.3
|
1.0
|
|
C
|
C:LEU670
|
3.5
|
42.4
|
1.0
|
|
S
|
C:DMS8014
|
3.7
|
67.0
|
1.0
|
|
C
|
C:GLU650
|
3.7
|
38.9
|
1.0
|
|
CA
|
C:ASP648
|
3.9
|
40.1
|
1.0
|
|
N
|
C:LEU670
|
4.0
|
46.4
|
1.0
|
|
N
|
C:ASN649
|
4.0
|
37.6
|
1.0
|
|
CA
|
C:GLU650
|
4.0
|
36.5
|
1.0
|
|
C
|
C:ASP648
|
4.0
|
40.1
|
1.0
|
|
OG
|
C:SER647
|
4.0
|
35.1
|
1.0
|
|
N
|
C:ASP648
|
4.1
|
40.5
|
1.0
|
|
CA
|
C:LEU670
|
4.2
|
42.8
|
1.0
|
|
CB
|
C:GLU650
|
4.3
|
34.3
|
1.0
|
|
C1
|
C:DMS8014
|
4.4
|
63.9
|
1.0
|
|
CB
|
C:LEU670
|
4.4
|
42.5
|
1.0
|
|
CB
|
C:SER647
|
4.5
|
39.2
|
1.0
|
|
C
|
C:ASN649
|
4.6
|
37.3
|
1.0
|
|
CA
|
C:SER647
|
4.6
|
38.1
|
1.0
|
|
N
|
C:ASP671
|
4.6
|
41.6
|
1.0
|
|
CA
|
C:ASN649
|
4.7
|
36.6
|
1.0
|
|
O
|
C:ASP648
|
4.7
|
40.7
|
1.0
|
|
OE1
|
C:GLU650
|
4.8
|
38.4
|
1.0
|
|
N
|
C:LEU651
|
4.9
|
37.7
|
1.0
|
|
CA
|
C:ASP671
|
5.0
|
44.9
|
1.0
|
|
C
|
C:PRO669
|
5.0
|
47.6
|
1.0
|
|
Reference:
L.J.Jancewicz,
R.W.Wheatley,
G.Sutendra,
M.Lee,
M.E.Fraser,
R.E.Huber.
Ser-796 of Beta-Galactosidase (E. Coli) Plays A Key Role in Maintaining An Optimum Balance Between the Opened and Closed Conformations of the Catalytically Important Active Site Loop Arch.Biochem.Biophys. V. 517 111 2012.
ISSN: ISSN 0003-9861
PubMed: 22155115
DOI: 10.1016/J.ABB.2011.11.017
Page generated: Mon Oct 7 13:02:59 2024
|
