Sodium in PDB 3muy: E. Coli (Lacz) Beta-Galactosidase (R599A)
Enzymatic activity of E. Coli (Lacz) Beta-Galactosidase (R599A)
All present enzymatic activity of E. Coli (Lacz) Beta-Galactosidase (R599A):
3.2.1.23;
Protein crystallography data
The structure of E. Coli (Lacz) Beta-Galactosidase (R599A), PDB code: 3muy
was solved by
M.L.Dugdale,
M.Vance,
M.L.Driedger,
A.Nibber,
A.Tran,
R.E.Huber,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
86.02 /
2.50
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
149.266,
167.237,
200.614,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
17.9 /
23.5
|
Other elements in 3muy:
The structure of E. Coli (Lacz) Beta-Galactosidase (R599A) also contains other interesting chemical elements:
Sodium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
16;
Binding sites:
The binding sites of Sodium atom in the E. Coli (Lacz) Beta-Galactosidase (R599A)
(pdb code 3muy). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 16 binding sites of Sodium where determined in the
E. Coli (Lacz) Beta-Galactosidase (R599A), PDB code: 3muy:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Sodium binding site 1 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 1 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
1:Na3101
b:17.8
occ:1.00
|
OD1
|
1:ASN604
|
2.3
|
11.2
|
1.0
|
|
O
|
1:HOH4278
|
2.5
|
18.4
|
1.0
|
|
OD2
|
1:ASP201
|
2.5
|
13.3
|
1.0
|
|
O
|
1:PHE601
|
2.5
|
14.7
|
1.0
|
|
O
|
1:HOH7547
|
2.6
|
35.1
|
1.0
|
|
O
|
1:HOH7560
|
3.1
|
31.3
|
1.0
|
|
CG
|
1:ASN604
|
3.2
|
10.6
|
1.0
|
|
ND2
|
1:ASN604
|
3.5
|
11.9
|
1.0
|
|
CG
|
1:ASP201
|
3.6
|
15.6
|
1.0
|
|
C
|
1:PHE601
|
3.8
|
16.5
|
1.0
|
|
NE1
|
1:TRP568
|
4.0
|
13.7
|
1.0
|
|
O
|
1:HOH7550
|
4.1
|
48.1
|
1.0
|
|
NE2
|
1:HIS540
|
4.1
|
11.6
|
1.0
|
|
OD1
|
1:ASP201
|
4.1
|
16.4
|
1.0
|
|
OH
|
1:TYR100
|
4.3
|
15.0
|
1.0
|
|
CB
|
1:ASN604
|
4.5
|
9.6
|
1.0
|
|
CB
|
1:PHE601
|
4.5
|
19.6
|
1.0
|
|
CE1
|
1:HIS540
|
4.5
|
10.6
|
1.0
|
|
CA
|
1:PHE601
|
4.6
|
17.2
|
1.0
|
|
O
|
1:HOH4052
|
4.7
|
21.0
|
1.0
|
|
N
|
1:CYS602
|
4.7
|
15.0
|
1.0
|
|
CD2
|
1:PHE601
|
4.7
|
22.3
|
1.0
|
|
CA
|
1:CYS602
|
4.7
|
15.7
|
1.0
|
|
CB
|
1:ASP201
|
4.7
|
13.2
|
1.0
|
|
CE2
|
1:TRP568
|
4.7
|
14.4
|
1.0
|
|
ND2
|
1:ASN102
|
4.8
|
21.6
|
1.0
|
|
CD1
|
1:TRP568
|
4.9
|
12.6
|
1.0
|
|
CZ2
|
1:TRP568
|
4.9
|
13.7
|
1.0
|
|
Sodium binding site 2 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 2 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
1:Na3102
b:16.6
occ:1.00
|
O
|
1:PHE556
|
2.3
|
8.6
|
1.0
|
|
O
|
1:LEU562
|
2.3
|
10.9
|
1.0
|
|
O
|
1:HOH4652
|
2.5
|
22.2
|
1.0
|
|
O
|
1:TYR559
|
2.6
|
11.7
|
1.0
|
|
O
|
1:HOH4410
|
2.7
|
13.1
|
1.0
|
|
O
|
1:PRO560
|
3.3
|
10.9
|
1.0
|
|
C
|
1:LEU562
|
3.4
|
11.4
|
1.0
|
|
C
|
1:PHE556
|
3.4
|
8.9
|
1.0
|
|
C
|
1:TYR559
|
3.6
|
8.6
|
1.0
|
|
C
|
1:PRO560
|
3.7
|
7.8
|
1.0
|
|
CA
|
1:PRO560
|
3.8
|
6.0
|
1.0
|
|
O
|
1:HOH4286
|
3.9
|
19.6
|
1.0
|
|
N
|
1:LEU562
|
4.1
|
10.1
|
1.0
|
|
N
|
1:PRO560
|
4.1
|
7.0
|
1.0
|
|
CA
|
1:GLN563
|
4.2
|
12.8
|
1.0
|
|
N
|
1:GLN563
|
4.2
|
11.2
|
1.0
|
|
CA
|
1:PHE556
|
4.2
|
6.4
|
1.0
|
|
CA
|
1:LEU562
|
4.3
|
10.7
|
1.0
|
|
N
|
1:ARG557
|
4.5
|
8.6
|
1.0
|
|
CB
|
1:LEU562
|
4.5
|
11.0
|
1.0
|
|
CG
|
1:GLN563
|
4.6
|
11.4
|
1.0
|
|
CA
|
1:ARG557
|
4.6
|
7.3
|
1.0
|
|
N
|
1:ARG561
|
4.7
|
8.8
|
1.0
|
|
CA
|
1:TYR559
|
4.7
|
8.1
|
1.0
|
|
CB
|
1:PHE556
|
4.8
|
8.8
|
1.0
|
|
N
|
1:TYR559
|
4.8
|
8.8
|
1.0
|
|
CD1
|
1:LEU350
|
4.8
|
3.6
|
1.0
|
|
C
|
1:ARG557
|
4.8
|
8.2
|
1.0
|
|
O
|
1:ARG557
|
4.9
|
9.3
|
1.0
|
|
C
|
1:ARG561
|
5.0
|
9.8
|
1.0
|
|
CB
|
1:GLN563
|
5.0
|
11.1
|
1.0
|
|
Sodium binding site 3 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 3 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
1:Na3103
b:30.7
occ:1.00
|
O
|
1:DMS8425
|
2.2
|
49.0
|
1.0
|
|
O
|
1:LEU670
|
2.5
|
24.6
|
1.0
|
|
O
|
1:SER647
|
2.6
|
18.0
|
1.0
|
|
O
|
1:GLU650
|
2.7
|
22.0
|
1.0
|
|
O
|
1:HOH5010
|
3.2
|
39.3
|
1.0
|
|
S
|
1:DMS8425
|
3.3
|
49.5
|
1.0
|
|
N
|
1:GLU650
|
3.5
|
17.6
|
1.0
|
|
C
|
1:LEU670
|
3.6
|
25.0
|
1.0
|
|
C1
|
1:DMS8425
|
3.7
|
49.7
|
1.0
|
|
C
|
1:GLU650
|
3.7
|
21.5
|
1.0
|
|
C
|
1:SER647
|
3.8
|
18.0
|
1.0
|
|
N
|
1:LEU670
|
4.0
|
26.0
|
1.0
|
|
N
|
1:ASN649
|
4.0
|
18.5
|
1.0
|
|
CA
|
1:GLU650
|
4.1
|
19.7
|
1.0
|
|
C
|
1:ASP648
|
4.2
|
18.2
|
1.0
|
|
CA
|
1:LEU670
|
4.2
|
26.0
|
1.0
|
|
CA
|
1:ASP648
|
4.2
|
17.9
|
1.0
|
|
OG
|
1:SER647
|
4.4
|
15.4
|
1.0
|
|
CB
|
1:LEU670
|
4.4
|
25.3
|
1.0
|
|
N
|
1:ASP648
|
4.5
|
18.4
|
1.0
|
|
C
|
1:ASN649
|
4.6
|
17.2
|
1.0
|
|
CB
|
1:GLU650
|
4.6
|
19.1
|
1.0
|
|
CA
|
1:ASN649
|
4.6
|
17.3
|
1.0
|
|
N
|
1:ASP671
|
4.7
|
25.3
|
1.0
|
|
CB
|
1:SER647
|
4.7
|
17.3
|
1.0
|
|
O
|
1:ASP648
|
4.8
|
18.4
|
1.0
|
|
C2
|
1:DMS8425
|
4.8
|
49.3
|
1.0
|
|
OE1
|
1:GLU650
|
4.9
|
18.2
|
1.0
|
|
N
|
1:LEU651
|
4.9
|
22.3
|
1.0
|
|
CA
|
1:SER647
|
4.9
|
18.2
|
1.0
|
|
C
|
1:PRO669
|
4.9
|
26.7
|
1.0
|
|
CA
|
1:ASP671
|
5.0
|
27.1
|
1.0
|
|
Sodium binding site 4 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 4 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:Na3101
b:13.0
occ:1.00
|
O
|
2:TYR559
|
2.2
|
15.3
|
1.0
|
|
O
|
2:PHE556
|
2.2
|
7.5
|
1.0
|
|
O
|
2:LEU562
|
2.3
|
13.8
|
1.0
|
|
O
|
2:HOH4652
|
2.7
|
18.1
|
1.0
|
|
O
|
2:HOH4410
|
2.9
|
13.4
|
1.0
|
|
O
|
2:PRO560
|
3.2
|
12.4
|
1.0
|
|
C
|
2:TYR559
|
3.3
|
14.1
|
1.0
|
|
C
|
2:PHE556
|
3.4
|
8.6
|
1.0
|
|
C
|
2:LEU562
|
3.4
|
12.3
|
1.0
|
|
C
|
2:PRO560
|
3.5
|
11.6
|
1.0
|
|
CA
|
2:PRO560
|
3.6
|
12.4
|
1.0
|
|
N
|
2:PRO560
|
3.8
|
13.7
|
1.0
|
|
O
|
2:HOH4286
|
4.0
|
21.3
|
1.0
|
|
N
|
2:LEU562
|
4.0
|
11.3
|
1.0
|
|
CA
|
2:PHE556
|
4.1
|
9.6
|
1.0
|
|
CA
|
2:LEU562
|
4.3
|
12.0
|
1.0
|
|
N
|
2:GLN563
|
4.3
|
11.3
|
1.0
|
|
CA
|
2:GLN563
|
4.3
|
9.6
|
1.0
|
|
N
|
2:ARG557
|
4.4
|
9.3
|
1.0
|
|
CA
|
2:TYR559
|
4.5
|
13.1
|
1.0
|
|
N
|
2:ARG561
|
4.5
|
11.7
|
1.0
|
|
CB
|
2:LEU562
|
4.5
|
9.1
|
1.0
|
|
CG
|
2:GLN563
|
4.6
|
4.2
|
1.0
|
|
N
|
2:TYR559
|
4.6
|
14.0
|
1.0
|
|
CA
|
2:ARG557
|
4.7
|
10.3
|
1.0
|
|
CB
|
2:PHE556
|
4.8
|
10.8
|
1.0
|
|
C
|
2:ARG557
|
4.8
|
11.0
|
1.0
|
|
C
|
2:ARG561
|
4.9
|
11.0
|
1.0
|
|
CD1
|
2:LEU350
|
4.9
|
5.6
|
1.0
|
|
O
|
2:ARG557
|
4.9
|
12.5
|
1.0
|
|
O
|
2:ALA555
|
4.9
|
7.2
|
1.0
|
|
Sodium binding site 5 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 5 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:Na3102
b:30.0
occ:1.00
|
O
|
2:DMS8425
|
2.3
|
52.9
|
1.0
|
|
O
|
2:SER647
|
2.5
|
19.9
|
1.0
|
|
O
|
2:LEU670
|
2.7
|
31.3
|
1.0
|
|
O
|
2:GLU650
|
2.8
|
23.2
|
1.0
|
|
O
|
2:HOH5010
|
3.2
|
16.6
|
1.0
|
|
C1
|
2:DMS8425
|
3.3
|
53.4
|
1.0
|
|
S
|
2:DMS8425
|
3.3
|
53.6
|
1.0
|
|
N
|
2:GLU650
|
3.4
|
17.9
|
1.0
|
|
C
|
2:SER647
|
3.6
|
18.1
|
1.0
|
|
C
|
2:GLU650
|
3.7
|
21.2
|
1.0
|
|
N
|
2:ASN649
|
3.8
|
18.6
|
1.0
|
|
C
|
2:ASP648
|
3.8
|
19.1
|
1.0
|
|
CA
|
2:ASP648
|
3.8
|
19.7
|
1.0
|
|
C
|
2:LEU670
|
3.8
|
29.4
|
1.0
|
|
CA
|
2:GLU650
|
4.0
|
19.5
|
1.0
|
|
N
|
2:LEU670
|
4.1
|
31.6
|
1.0
|
|
N
|
2:ASP648
|
4.2
|
18.4
|
1.0
|
|
CB
|
2:GLU650
|
4.4
|
18.5
|
1.0
|
|
CA
|
2:LEU670
|
4.4
|
30.1
|
1.0
|
|
C
|
2:ASN649
|
4.4
|
18.0
|
1.0
|
|
CA
|
2:ASN649
|
4.4
|
17.4
|
1.0
|
|
O
|
2:ASP648
|
4.4
|
17.4
|
1.0
|
|
OG
|
2:SER647
|
4.5
|
19.2
|
1.0
|
|
CB
|
2:LEU670
|
4.7
|
29.2
|
1.0
|
|
C2
|
2:DMS8425
|
4.8
|
53.5
|
1.0
|
|
OE1
|
2:GLU650
|
4.8
|
16.4
|
1.0
|
|
CB
|
2:SER647
|
4.8
|
19.8
|
1.0
|
|
O
|
2:HOH5124
|
4.8
|
33.5
|
1.0
|
|
CA
|
2:SER647
|
4.8
|
19.0
|
1.0
|
|
N
|
2:ASP671
|
4.9
|
26.9
|
1.0
|
|
N
|
2:LEU651
|
5.0
|
23.5
|
1.0
|
|
C
|
2:PRO669
|
5.0
|
32.7
|
1.0
|
|
Sodium binding site 6 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 6 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:Na3103
b:28.5
occ:1.00
|
O
|
2:PRO932
|
2.5
|
19.3
|
1.0
|
|
O
|
2:LEU967
|
2.6
|
19.8
|
1.0
|
|
O
|
2:THR970
|
2.7
|
25.9
|
1.0
|
|
O
|
2:HOH4207
|
2.9
|
30.0
|
1.0
|
|
CZ
|
2:PHE931
|
3.4
|
22.6
|
1.0
|
|
C
|
2:PRO932
|
3.4
|
19.4
|
1.0
|
|
C
|
2:LEU967
|
3.7
|
21.2
|
1.0
|
|
O
|
2:HOH4558
|
3.8
|
36.1
|
1.0
|
|
CE2
|
2:PHE931
|
3.8
|
22.9
|
1.0
|
|
CE1
|
2:PHE931
|
3.8
|
21.8
|
1.0
|
|
CA
|
2:MET968
|
3.9
|
24.3
|
1.0
|
|
C
|
2:THR970
|
3.9
|
25.1
|
1.0
|
|
CB
|
2:PRO932
|
4.0
|
20.4
|
1.0
|
|
C
|
2:MET968
|
4.0
|
25.7
|
1.0
|
|
CA
|
2:PRO932
|
4.1
|
20.8
|
1.0
|
|
O
|
2:MET968
|
4.2
|
27.3
|
1.0
|
|
N
|
2:MET968
|
4.2
|
21.7
|
1.0
|
|
N
|
2:PRO932
|
4.3
|
21.5
|
1.0
|
|
N
|
2:THR970
|
4.3
|
24.2
|
1.0
|
|
CD2
|
2:PHE931
|
4.4
|
20.7
|
1.0
|
|
N
|
2:SER933
|
4.4
|
18.4
|
1.0
|
|
CD1
|
2:PHE931
|
4.4
|
22.4
|
1.0
|
|
CD
|
2:PRO932
|
4.5
|
21.8
|
1.0
|
|
CA
|
2:THR970
|
4.7
|
24.5
|
1.0
|
|
N
|
2:GLU969
|
4.7
|
25.6
|
1.0
|
|
CG
|
2:PHE931
|
4.7
|
21.7
|
1.0
|
|
CA
|
2:SER933
|
4.7
|
15.7
|
1.0
|
|
O
|
2:HOH4763
|
4.8
|
38.1
|
1.0
|
|
C
|
2:PHE931
|
4.8
|
20.5
|
1.0
|
|
N
|
2:SER971
|
4.9
|
24.4
|
1.0
|
|
CG
|
2:PRO932
|
4.9
|
22.8
|
1.0
|
|
CA
|
2:LEU967
|
4.9
|
19.9
|
1.0
|
|
CA
|
2:SER971
|
5.0
|
23.5
|
1.0
|
|
Sodium binding site 7 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 7 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:Na3104
b:27.7
occ:1.00
|
O
|
2:HOH4278
|
2.4
|
14.7
|
1.0
|
|
O
|
2:PHE601
|
2.4
|
13.9
|
1.0
|
|
O
|
2:HOH7560
|
2.5
|
51.8
|
1.0
|
|
OD1
|
2:ASN604
|
2.6
|
13.6
|
1.0
|
|
OD2
|
2:ASP201
|
2.7
|
13.5
|
1.0
|
|
O
|
2:HOH7559
|
3.1
|
34.4
|
1.0
|
|
CG
|
2:ASN604
|
3.3
|
10.7
|
1.0
|
|
ND2
|
2:ASN604
|
3.4
|
9.7
|
1.0
|
|
C
|
2:PHE601
|
3.6
|
14.8
|
1.0
|
|
CG
|
2:ASP201
|
3.7
|
13.3
|
1.0
|
|
NE2
|
2:HIS540
|
3.9
|
12.3
|
1.0
|
|
NE1
|
2:TRP568
|
4.1
|
8.4
|
1.0
|
|
OD1
|
2:ASP201
|
4.2
|
15.3
|
1.0
|
|
OH
|
2:TYR100
|
4.3
|
11.2
|
1.0
|
|
CE1
|
2:HIS540
|
4.4
|
11.3
|
1.0
|
|
CB
|
2:PHE601
|
4.4
|
16.9
|
1.0
|
|
CA
|
2:PHE601
|
4.5
|
15.7
|
1.0
|
|
N
|
2:CYS602
|
4.6
|
13.5
|
1.0
|
|
CA
|
2:CYS602
|
4.6
|
15.3
|
1.0
|
|
CB
|
2:ASN604
|
4.7
|
10.8
|
1.0
|
|
CD2
|
2:PHE601
|
4.7
|
17.1
|
1.0
|
|
CD1
|
2:TRP568
|
4.8
|
8.1
|
1.0
|
|
O
|
2:HOH4052
|
4.8
|
13.4
|
1.0
|
|
CB
|
2:ASP201
|
4.9
|
10.2
|
1.0
|
|
CE2
|
2:TRP568
|
4.9
|
7.1
|
1.0
|
|
Sodium binding site 8 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 8 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
3:Na3101
b:10.8
occ:1.00
|
O
|
3:PHE601
|
2.4
|
13.2
|
1.0
|
|
ND2
|
3:ASN604
|
2.4
|
11.5
|
1.0
|
|
OD2
|
3:ASP201
|
2.6
|
13.7
|
1.0
|
|
O
|
3:HOH7575
|
2.6
|
36.5
|
1.0
|
|
O
|
3:HOH4278
|
2.6
|
17.8
|
1.0
|
|
CG
|
3:ASN604
|
3.1
|
13.9
|
1.0
|
|
O
|
3:HOH7564
|
3.2
|
41.3
|
1.0
|
|
OD1
|
3:ASN604
|
3.2
|
14.8
|
1.0
|
|
C
|
3:PHE601
|
3.6
|
14.9
|
1.0
|
|
CG
|
3:ASP201
|
3.6
|
13.6
|
1.0
|
|
O
|
3:HOH7563
|
3.7
|
64.3
|
1.0
|
|
OD1
|
3:ASP201
|
4.1
|
15.8
|
1.0
|
|
OH
|
3:TYR100
|
4.1
|
14.7
|
1.0
|
|
NE2
|
3:HIS540
|
4.1
|
11.3
|
1.0
|
|
NE1
|
3:TRP568
|
4.2
|
4.6
|
1.0
|
|
CB
|
3:PHE601
|
4.4
|
17.1
|
1.0
|
|
CA
|
3:PHE601
|
4.4
|
16.5
|
1.0
|
|
N
|
3:CYS602
|
4.5
|
14.6
|
1.0
|
|
CB
|
3:ASN604
|
4.5
|
13.6
|
1.0
|
|
CA
|
3:CYS602
|
4.5
|
16.3
|
1.0
|
|
O
|
3:HOH4052
|
4.6
|
5.2
|
1.0
|
|
CE1
|
3:HIS540
|
4.6
|
10.2
|
1.0
|
|
CB
|
3:ASP201
|
4.7
|
11.9
|
1.0
|
|
CD2
|
3:PHE601
|
4.8
|
18.5
|
1.0
|
|
ND2
|
3:ASN102
|
4.9
|
18.1
|
1.0
|
|
Sodium binding site 9 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 9 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
3:Na3102
b:17.3
occ:1.00
|
O
|
3:PHE556
|
2.2
|
13.3
|
1.0
|
|
O
|
3:TYR559
|
2.3
|
11.9
|
1.0
|
|
O
|
3:LEU562
|
2.6
|
10.9
|
1.0
|
|
O
|
3:HOH4652
|
2.7
|
30.7
|
1.0
|
|
O
|
3:HOH4410
|
2.8
|
19.7
|
1.0
|
|
C
|
3:TYR559
|
3.3
|
10.8
|
1.0
|
|
O
|
3:PRO560
|
3.3
|
11.1
|
1.0
|
|
C
|
3:PHE556
|
3.4
|
12.4
|
1.0
|
|
CA
|
3:PRO560
|
3.5
|
8.4
|
1.0
|
|
C
|
3:PRO560
|
3.6
|
8.8
|
1.0
|
|
C
|
3:LEU562
|
3.6
|
10.6
|
1.0
|
|
N
|
3:PRO560
|
3.8
|
10.1
|
1.0
|
|
O
|
3:HOH4286
|
4.0
|
26.0
|
1.0
|
|
N
|
3:LEU562
|
4.2
|
8.9
|
1.0
|
|
CA
|
3:PHE556
|
4.2
|
12.2
|
1.0
|
|
N
|
3:ARG557
|
4.4
|
12.5
|
1.0
|
|
CA
|
3:TYR559
|
4.4
|
10.7
|
1.0
|
|
CA
|
3:GLN563
|
4.4
|
8.9
|
1.0
|
|
N
|
3:GLN563
|
4.4
|
9.8
|
1.0
|
|
CA
|
3:LEU562
|
4.5
|
9.4
|
1.0
|
|
N
|
3:ARG561
|
4.5
|
8.8
|
1.0
|
|
CA
|
3:ARG557
|
4.5
|
12.4
|
1.0
|
|
N
|
3:TYR559
|
4.6
|
11.5
|
1.0
|
|
CB
|
3:LEU562
|
4.6
|
8.7
|
1.0
|
|
C
|
3:ARG557
|
4.7
|
13.0
|
1.0
|
|
CG
|
3:GLN563
|
4.7
|
8.4
|
1.0
|
|
O
|
3:ARG557
|
4.8
|
15.5
|
1.0
|
|
CB
|
3:PHE556
|
4.8
|
12.0
|
1.0
|
|
CD1
|
3:LEU350
|
4.9
|
10.9
|
1.0
|
|
CB
|
3:PRO560
|
5.0
|
6.7
|
1.0
|
|
C
|
3:ARG561
|
5.0
|
10.1
|
1.0
|
|
O
|
3:ALA555
|
5.0
|
12.3
|
1.0
|
|
Sodium binding site 10 out
of 16 in 3muy
Go back to
Sodium Binding Sites List in 3muy
Sodium binding site 10 out
of 16 in the E. Coli (Lacz) Beta-Galactosidase (R599A)
 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 (R599A) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
3:Na3103
b:34.9
occ:1.00
|
O
|
3:LEU967
|
2.7
|
20.7
|
1.0
|
|
O
|
3:THR970
|
2.7
|
27.7
|
1.0
|
|
O
|
3:HOH4207
|
2.8
|
22.4
|
1.0
|
|
O
|
3:PRO932
|
3.0
|
17.0
|
1.0
|
|
CZ
|
3:PHE931
|
3.4
|
24.7
|
1.0
|
|
O
|
3:HOH4558
|
3.5
|
30.5
|
1.0
|
|
O
|
3:MET968
|
3.7
|
28.2
|
1.0
|
|
C
|
3:MET968
|
3.7
|
26.7
|
1.0
|
|
CA
|
3:MET968
|
3.7
|
25.8
|
1.0
|
|
C
|
3:THR970
|
3.8
|
26.2
|
1.0
|
|
CE1
|
3:PHE931
|
3.8
|
23.4
|
1.0
|
|
C
|
3:LEU967
|
3.8
|
21.6
|
1.0
|
|
CE2
|
3:PHE931
|
4.0
|
25.2
|
1.0
|
|
C
|
3:PRO932
|
4.0
|
16.6
|
1.0
|
|
N
|
3:THR970
|
4.1
|
25.3
|
1.0
|
|
N
|
3:MET968
|
4.2
|
23.9
|
1.0
|
|
N
|
3:GLU969
|
4.3
|
26.4
|
1.0
|
|
CB
|
3:PRO932
|
4.5
|
17.1
|
1.0
|
|
CD1
|
3:PHE931
|
4.6
|
24.5
|
1.0
|
|
CA
|
3:THR970
|
4.6
|
25.1
|
1.0
|
|
CA
|
3:PRO932
|
4.6
|
16.9
|
1.0
|
|
N
|
3:SER971
|
4.7
|
25.4
|
1.0
|
|
CD2
|
3:PHE931
|
4.7
|
23.5
|
1.0
|
|
N
|
3:PRO932
|
4.7
|
17.0
|
1.0
|
|
CD
|
3:PRO932
|
4.8
|
17.2
|
1.0
|
|
C
|
3:GLU969
|
4.8
|
26.1
|
1.0
|
|
CA
|
3:SER971
|
4.8
|
24.6
|
1.0
|
|
CB
|
3:MET968
|
5.0
|
26.2
|
1.0
|
|
CG
|
3:PHE931
|
5.0
|
22.8
|
1.0
|
|
N
|
3:SER933
|
5.0
|
16.7
|
1.0
|
|
CA
|
3:GLU969
|
5.0
|
26.2
|
1.0
|
|
Reference:
M.L.Dugdale,
M.L.Vance,
R.W.Wheatley,
M.R.Driedger,
A.Nibber,
A.Tran,
R.E.Huber.
Importance of Arg-599 of Beta-Galactosidase (Escherichia Coli) As An Anchor For the Open Conformations of Phe-601 and the Active-Site Loop Biochem.Cell Biol. V. 88 969 2010.
ISSN: ISSN 0829-8211
PubMed: 21102659
DOI: 10.1139/O10-144
Page generated: Mon Oct 7 11:37:17 2024
|
