Nickel in PDB 9fek: Crystal Structure of Guanidinase From Nitrospira Inopinata
Enzymatic activity of Crystal Structure of Guanidinase From Nitrospira Inopinata
All present enzymatic activity of Crystal Structure of Guanidinase From Nitrospira Inopinata:
3.5.3.11;
Protein crystallography data
The structure of Crystal Structure of Guanidinase From Nitrospira Inopinata, PDB code: 9fek
was solved by
D.Puehringer,
A.Mccarthy,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
45.01 /
1.58
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
98.965,
164.791,
143.965,
90,
90.03,
90
|
|
R / Rfree (%)
|
20 /
21.4
|
Other elements in 9fek:
The structure of Crystal Structure of Guanidinase From Nitrospira Inopinata also contains other interesting chemical elements:
Nickel Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Nickel atom in the Crystal Structure of Guanidinase From Nitrospira Inopinata
(pdb code 9fek). This binding sites where shown within
5.0 Angstroms radius around Nickel atom.
In total 12 binding sites of Nickel where determined in the
Crystal Structure of Guanidinase From Nitrospira Inopinata, PDB code: 9fek:
Jump to Nickel binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Nickel binding site 1 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 1 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 1 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ni404
b:40.3
occ:0.31
|
HD1
|
A:HIS182
|
1.7
|
40.2
|
1.0
|
|
OD2
|
A:ASP207
|
1.9
|
25.5
|
1.0
|
|
HZ2
|
A:TRP313
|
2.0
|
42.6
|
1.0
|
|
OD2
|
A:ASP299
|
2.2
|
33.8
|
1.0
|
|
ND1
|
A:HIS182
|
2.3
|
33.5
|
1.0
|
|
OD2
|
A:ASP211
|
2.4
|
27.2
|
1.0
|
|
CZ2
|
A:TRP313
|
2.6
|
35.5
|
1.0
|
|
CG
|
A:ASP207
|
2.9
|
25.5
|
1.0
|
|
HH2
|
A:TRP313
|
2.9
|
43.6
|
1.0
|
|
MN
|
A:MN403
|
3.0
|
35.2
|
0.3
|
|
HB2
|
A:HIS182
|
3.0
|
24.9
|
1.0
|
|
CG
|
A:HIS182
|
3.1
|
22.8
|
1.0
|
|
CH2
|
A:TRP313
|
3.1
|
36.4
|
1.0
|
|
CE1
|
A:HIS182
|
3.2
|
37.2
|
1.0
|
|
OD1
|
A:ASP207
|
3.2
|
26.1
|
1.0
|
|
CG
|
A:ASP299
|
3.3
|
27.7
|
1.0
|
|
HB3
|
A:HIS182
|
3.3
|
24.9
|
1.0
|
|
CG
|
A:ASP211
|
3.3
|
20.9
|
1.0
|
|
CB
|
A:HIS182
|
3.3
|
20.8
|
1.0
|
|
HB2
|
A:ASP299
|
3.3
|
21.0
|
1.0
|
|
HB2
|
A:HIS209
|
3.4
|
35.0
|
1.0
|
|
HE1
|
A:HIS182
|
3.4
|
44.7
|
1.0
|
|
HE2
|
A:HIS205
|
3.5
|
26.3
|
1.0
|
|
OD1
|
A:ASP211
|
3.5
|
24.8
|
1.0
|
|
CE2
|
A:TRP313
|
3.7
|
28.3
|
1.0
|
|
CB
|
A:ASP299
|
3.8
|
17.5
|
1.0
|
|
HG3
|
A:GLU344
|
4.0
|
25.7
|
1.0
|
|
HB3
|
A:ASP299
|
4.1
|
21.0
|
1.0
|
|
HE1
|
A:TRP313
|
4.1
|
42.4
|
1.0
|
|
CD2
|
A:HIS182
|
4.2
|
26.2
|
1.0
|
|
NE2
|
A:HIS182
|
4.2
|
32.1
|
1.0
|
|
CB
|
A:ASP207
|
4.2
|
22.4
|
1.0
|
|
HB2
|
A:ASP207
|
4.2
|
26.9
|
1.0
|
|
OD2
|
A:ASP301
|
4.3
|
37.7
|
1.0
|
|
NE1
|
A:TRP313
|
4.3
|
35.3
|
1.0
|
|
CB
|
A:HIS209
|
4.4
|
29.1
|
1.0
|
|
CZ3
|
A:TRP313
|
4.4
|
36.9
|
1.0
|
|
OD1
|
A:ASP299
|
4.4
|
24.2
|
1.0
|
|
NE2
|
A:HIS205
|
4.4
|
21.9
|
1.0
|
|
ND1
|
A:HIS209
|
4.5
|
36.8
|
1.0
|
|
H
|
A:HIS209
|
4.6
|
26.2
|
1.0
|
|
OE2
|
A:GLU344
|
4.6
|
27.0
|
1.0
|
|
HB3
|
A:ASP207
|
4.6
|
26.9
|
1.0
|
|
O
|
A:HIS222
|
4.6
|
26.2
|
1.0
|
|
HG23
|
A:VAL343
|
4.7
|
25.5
|
1.0
|
|
O
|
A:HIS209
|
4.7
|
25.3
|
1.0
|
|
CB
|
A:ASP211
|
4.7
|
20.8
|
1.0
|
|
HB2
|
A:HIS222
|
4.7
|
25.4
|
1.0
|
|
CG
|
A:GLU344
|
4.8
|
21.4
|
1.0
|
|
HG21
|
A:VAL343
|
4.8
|
25.5
|
1.0
|
|
HB3
|
A:HIS209
|
4.8
|
35.0
|
1.0
|
|
CA
|
A:HIS182
|
4.9
|
17.6
|
1.0
|
|
CD2
|
A:TRP313
|
4.9
|
30.4
|
1.0
|
|
HG2
|
A:GLU344
|
4.9
|
25.7
|
1.0
|
|
CG
|
A:HIS209
|
4.9
|
35.6
|
1.0
|
|
HB2
|
A:ASP211
|
4.9
|
24.9
|
1.0
|
|
HB3
|
A:ASP211
|
4.9
|
24.9
|
1.0
|
|
HZ3
|
A:TRP313
|
4.9
|
44.2
|
1.0
|
|
HE2
|
A:HIS182
|
5.0
|
38.6
|
1.0
|
|
HD2
|
A:HIS182
|
5.0
|
31.4
|
1.0
|
|
CG
|
A:ASP301
|
5.0
|
33.6
|
1.0
|
|
OD1
|
A:ASP301
|
5.0
|
30.6
|
1.0
|
|
Nickel binding site 2 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 2 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 2 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ni404
b:44.5
occ:0.30
|
OD2
|
B:ASP207
|
1.8
|
26.5
|
1.0
|
|
OD2
|
B:ASP299
|
2.0
|
29.1
|
1.0
|
|
HZ2
|
B:TRP313
|
2.0
|
40.8
|
1.0
|
|
ND1
|
B:HIS182
|
2.5
|
35.7
|
1.0
|
|
OD2
|
B:ASP211
|
2.6
|
33.5
|
1.0
|
|
CZ2
|
B:TRP313
|
2.8
|
34.0
|
1.0
|
|
MN
|
B:MN403
|
2.8
|
41.2
|
0.4
|
|
CG
|
B:ASP207
|
2.8
|
23.4
|
1.0
|
|
HB2
|
B:HIS182
|
2.9
|
19.6
|
1.0
|
|
CG
|
B:HIS182
|
3.0
|
25.3
|
1.0
|
|
CG
|
B:ASP299
|
3.1
|
26.2
|
1.0
|
|
HB2
|
B:ASP299
|
3.1
|
24.8
|
1.0
|
|
OD1
|
B:ASP207
|
3.2
|
26.2
|
1.0
|
|
CB
|
B:HIS182
|
3.2
|
16.3
|
1.0
|
|
HB3
|
B:HIS182
|
3.3
|
19.6
|
1.0
|
|
HH2
|
B:TRP313
|
3.3
|
43.8
|
1.0
|
|
CH2
|
B:TRP313
|
3.4
|
36.5
|
1.0
|
|
HE2
|
B:HIS205
|
3.5
|
29.3
|
1.0
|
|
CG
|
B:ASP211
|
3.6
|
24.1
|
1.0
|
|
CB
|
B:ASP299
|
3.6
|
20.6
|
1.0
|
|
CE1
|
B:HIS182
|
3.7
|
37.7
|
1.0
|
|
CE2
|
B:TRP313
|
3.8
|
38.8
|
1.0
|
|
HG3
|
B:GLU344
|
3.8
|
27.5
|
1.0
|
|
OD1
|
B:ASP211
|
3.9
|
30.7
|
1.0
|
|
HB2
|
B:HIS209
|
3.9
|
38.6
|
1.0
|
|
HB3
|
B:ASP299
|
3.9
|
24.8
|
1.0
|
|
HE1
|
B:TRP313
|
3.9
|
42.3
|
1.0
|
|
HE1
|
B:HIS182
|
4.1
|
45.2
|
1.0
|
|
OD1
|
B:ASP299
|
4.1
|
26.1
|
1.0
|
|
OD2
|
B:ASP301
|
4.1
|
45.3
|
1.0
|
|
HD1
|
B:HIS209
|
4.1
|
45.6
|
1.0
|
|
CB
|
B:ASP207
|
4.2
|
18.7
|
1.0
|
|
NE1
|
B:TRP313
|
4.2
|
35.3
|
1.0
|
|
HB2
|
B:ASP207
|
4.2
|
22.5
|
1.0
|
|
CD2
|
B:HIS182
|
4.2
|
36.4
|
1.0
|
|
HG23
|
B:VAL343
|
4.2
|
22.4
|
1.0
|
|
NE2
|
B:HIS205
|
4.4
|
24.4
|
1.0
|
|
NE2
|
B:HIS182
|
4.5
|
41.3
|
1.0
|
|
HB3
|
B:ASP207
|
4.6
|
22.5
|
1.0
|
|
OE2
|
B:GLU344
|
4.6
|
26.1
|
1.0
|
|
CG
|
B:GLU344
|
4.7
|
22.9
|
1.0
|
|
CZ3
|
B:TRP313
|
4.7
|
38.4
|
1.0
|
|
HG21
|
B:VAL343
|
4.7
|
22.4
|
1.0
|
|
CA
|
B:HIS182
|
4.8
|
21.0
|
1.0
|
|
HG2
|
B:GLU344
|
4.8
|
27.5
|
1.0
|
|
H
|
B:HIS209
|
4.8
|
35.4
|
1.0
|
|
ND1
|
B:HIS209
|
4.8
|
38.0
|
1.0
|
|
CB
|
B:HIS209
|
4.8
|
32.2
|
1.0
|
|
CG
|
B:ASP301
|
4.8
|
27.4
|
1.0
|
|
O
|
B:HIS209
|
4.9
|
21.7
|
1.0
|
|
OD1
|
B:ASP301
|
4.9
|
28.7
|
1.0
|
|
HB2
|
B:HIS222
|
4.9
|
30.1
|
1.0
|
|
CG2
|
B:VAL343
|
4.9
|
18.7
|
1.0
|
|
CB
|
B:ASP211
|
4.9
|
21.9
|
1.0
|
|
CA
|
B:ASP299
|
4.9
|
20.0
|
1.0
|
|
O
|
B:HIS222
|
4.9
|
20.3
|
1.0
|
|
H
|
B:HIS182
|
5.0
|
22.8
|
1.0
|
|
HD2
|
B:HIS182
|
5.0
|
43.7
|
1.0
|
|
CD2
|
B:TRP313
|
5.0
|
38.3
|
1.0
|
|
HA
|
B:ASP299
|
5.0
|
24.0
|
1.0
|
|
Nickel binding site 3 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 3 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 3 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ni404
b:40.9
occ:0.38
|
OD2
|
C:ASP207
|
1.9
|
21.7
|
1.0
|
|
HZ2
|
C:TRP313
|
2.2
|
34.0
|
1.0
|
|
OD2
|
C:ASP211
|
2.2
|
27.6
|
1.0
|
|
OD2
|
C:ASP299
|
2.3
|
27.5
|
1.0
|
|
ND1
|
C:HIS182
|
2.6
|
42.4
|
1.0
|
|
CZ2
|
C:TRP313
|
2.9
|
28.4
|
1.0
|
|
CG
|
C:ASP207
|
2.9
|
22.8
|
1.0
|
|
HB2
|
C:HIS182
|
2.9
|
19.9
|
1.0
|
|
HH2
|
C:TRP313
|
3.0
|
38.7
|
1.0
|
|
CG
|
C:HIS182
|
3.1
|
26.9
|
1.0
|
|
HB3
|
C:HIS182
|
3.1
|
19.9
|
1.0
|
|
CG
|
C:ASP211
|
3.2
|
27.1
|
1.0
|
|
MN
|
C:MN403
|
3.2
|
28.3
|
0.3
|
|
CB
|
C:HIS182
|
3.2
|
16.6
|
1.0
|
|
HE2
|
C:HIS205
|
3.3
|
23.3
|
1.0
|
|
OD1
|
C:ASP207
|
3.3
|
23.4
|
1.0
|
|
CH2
|
C:TRP313
|
3.3
|
32.2
|
1.0
|
|
HB2
|
C:ASP299
|
3.4
|
27.7
|
1.0
|
|
CG
|
C:ASP299
|
3.4
|
29.8
|
1.0
|
|
OD1
|
C:ASP211
|
3.5
|
26.4
|
1.0
|
|
HB2
|
C:HIS209
|
3.7
|
35.7
|
1.0
|
|
CE1
|
C:HIS182
|
3.7
|
37.4
|
1.0
|
|
CB
|
C:ASP299
|
3.9
|
23.1
|
1.0
|
|
CE2
|
C:TRP313
|
4.0
|
31.2
|
1.0
|
|
HG3
|
C:GLU344
|
4.1
|
24.6
|
1.0
|
|
HE1
|
C:HIS182
|
4.1
|
44.9
|
1.0
|
|
NE2
|
C:HIS205
|
4.1
|
19.4
|
1.0
|
|
CB
|
C:ASP207
|
4.2
|
21.9
|
1.0
|
|
HB3
|
C:ASP299
|
4.2
|
27.7
|
1.0
|
|
HB2
|
C:ASP207
|
4.3
|
26.3
|
1.0
|
|
CD2
|
C:HIS182
|
4.3
|
38.5
|
1.0
|
|
HE1
|
C:TRP313
|
4.4
|
41.9
|
1.0
|
|
OD1
|
C:ASP299
|
4.5
|
22.4
|
1.0
|
|
HD1
|
C:HIS209
|
4.5
|
48.1
|
1.0
|
|
NE2
|
C:HIS182
|
4.5
|
32.5
|
1.0
|
|
CB
|
C:ASP211
|
4.5
|
21.7
|
1.0
|
|
HG23
|
C:VAL343
|
4.5
|
25.4
|
1.0
|
|
O
|
C:HIS209
|
4.5
|
22.9
|
1.0
|
|
HB3
|
C:ASP207
|
4.6
|
26.3
|
1.0
|
|
O
|
C:HIS222
|
4.6
|
18.8
|
1.0
|
|
NE1
|
C:TRP313
|
4.6
|
34.9
|
1.0
|
|
CZ3
|
C:TRP313
|
4.6
|
32.6
|
1.0
|
|
CB
|
C:HIS209
|
4.7
|
29.8
|
1.0
|
|
HB2
|
C:ASP211
|
4.7
|
26.0
|
1.0
|
|
HB3
|
C:ASP211
|
4.7
|
26.0
|
1.0
|
|
H
|
C:HIS209
|
4.7
|
20.6
|
1.0
|
|
OD2
|
C:ASP301
|
4.7
|
41.2
|
1.0
|
|
CA
|
C:HIS182
|
4.8
|
20.4
|
1.0
|
|
HE1
|
C:HIS205
|
4.8
|
30.3
|
1.0
|
|
OE2
|
C:GLU344
|
4.8
|
19.4
|
1.0
|
|
HB2
|
C:HIS222
|
4.9
|
21.3
|
1.0
|
|
HG21
|
C:VAL343
|
4.9
|
25.4
|
1.0
|
|
CE1
|
C:HIS205
|
4.9
|
25.3
|
1.0
|
|
CG
|
C:GLU344
|
5.0
|
20.5
|
1.0
|
|
HD2
|
C:HIS182
|
5.0
|
46.2
|
1.0
|
|
Nickel binding site 4 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 4 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 4 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ni404
b:46.5
occ:0.39
|
OD2
|
D:ASP207
|
1.8
|
33.1
|
1.0
|
|
HZ2
|
D:TRP313
|
2.2
|
40.8
|
1.0
|
|
OD2
|
D:ASP211
|
2.4
|
30.2
|
1.0
|
|
OD2
|
D:ASP299
|
2.5
|
25.8
|
1.0
|
|
ND1
|
D:HIS182
|
2.6
|
38.0
|
1.0
|
|
CG
|
D:ASP207
|
2.8
|
34.2
|
1.0
|
|
MN
|
D:MN403
|
2.8
|
33.4
|
0.3
|
|
CZ2
|
D:TRP313
|
2.9
|
34.0
|
1.0
|
|
HB2
|
D:HIS182
|
3.0
|
25.4
|
1.0
|
|
CG
|
D:HIS182
|
3.1
|
27.7
|
1.0
|
|
HB2
|
D:ASP299
|
3.2
|
21.5
|
1.0
|
|
OD1
|
D:ASP207
|
3.2
|
30.1
|
1.0
|
|
HH2
|
D:TRP313
|
3.2
|
42.4
|
1.0
|
|
HB3
|
D:HIS182
|
3.3
|
25.4
|
1.0
|
|
HE2
|
D:HIS205
|
3.3
|
30.3
|
1.0
|
|
CB
|
D:HIS182
|
3.3
|
21.2
|
1.0
|
|
CH2
|
D:TRP313
|
3.4
|
35.3
|
1.0
|
|
CG
|
D:ASP211
|
3.4
|
23.4
|
1.0
|
|
CG
|
D:ASP299
|
3.5
|
23.8
|
1.0
|
|
CE1
|
D:HIS182
|
3.5
|
38.3
|
1.0
|
|
OD1
|
D:ASP211
|
3.7
|
28.3
|
1.0
|
|
CB
|
D:ASP299
|
3.8
|
17.9
|
1.0
|
|
HE1
|
D:HIS182
|
3.8
|
46.0
|
1.0
|
|
HB2
|
D:HIS209
|
3.9
|
35.2
|
1.0
|
|
CE2
|
D:TRP313
|
3.9
|
31.5
|
1.0
|
|
HG3
|
D:GLU344
|
4.0
|
25.2
|
1.0
|
|
HB3
|
D:ASP299
|
4.1
|
21.5
|
1.0
|
|
CB
|
D:ASP207
|
4.1
|
26.1
|
1.0
|
|
NE2
|
D:HIS205
|
4.1
|
25.2
|
1.0
|
|
HB2
|
D:ASP207
|
4.2
|
31.3
|
1.0
|
|
CD2
|
D:HIS182
|
4.2
|
38.1
|
1.0
|
|
HE1
|
D:TRP313
|
4.2
|
37.6
|
1.0
|
|
HD1
|
D:HIS209
|
4.3
|
43.9
|
1.0
|
|
NE2
|
D:HIS182
|
4.3
|
36.9
|
1.0
|
|
HG23
|
D:VAL343
|
4.4
|
15.5
|
1.0
|
|
NE1
|
D:TRP313
|
4.4
|
31.3
|
1.0
|
|
OD2
|
D:ASP301
|
4.5
|
42.9
|
1.0
|
|
HB3
|
D:ASP207
|
4.6
|
31.3
|
1.0
|
|
OD1
|
D:ASP299
|
4.6
|
27.7
|
1.0
|
|
CZ3
|
D:TRP313
|
4.7
|
34.7
|
1.0
|
|
CB
|
D:ASP211
|
4.7
|
20.5
|
1.0
|
|
HE1
|
D:HIS205
|
4.7
|
33.7
|
1.0
|
|
O
|
D:HIS209
|
4.7
|
21.1
|
1.0
|
|
H
|
D:HIS209
|
4.8
|
25.4
|
1.0
|
|
O
|
D:HIS222
|
4.8
|
20.7
|
1.0
|
|
OE2
|
D:GLU344
|
4.8
|
21.1
|
1.0
|
|
CA
|
D:HIS182
|
4.8
|
23.1
|
1.0
|
|
CG
|
D:GLU344
|
4.8
|
21.0
|
1.0
|
|
CB
|
D:HIS209
|
4.9
|
29.4
|
1.0
|
|
CE1
|
D:HIS205
|
4.9
|
28.1
|
1.0
|
|
HG2
|
D:GLU344
|
4.9
|
25.2
|
1.0
|
|
HB2
|
D:ASP211
|
4.9
|
24.6
|
1.0
|
|
HG21
|
D:VAL343
|
4.9
|
15.5
|
1.0
|
|
HB3
|
D:ASP211
|
4.9
|
24.6
|
1.0
|
|
HB2
|
D:HIS222
|
4.9
|
26.5
|
1.0
|
|
HD2
|
D:HIS182
|
5.0
|
45.7
|
1.0
|
|
ND1
|
D:HIS209
|
5.0
|
36.6
|
1.0
|
|
Nickel binding site 5 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 5 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 5 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ni404
b:38.9
occ:0.33
|
HD1
|
E:HIS182
|
1.8
|
34.8
|
1.0
|
|
OD2
|
E:ASP207
|
1.8
|
30.4
|
1.0
|
|
ND1
|
E:HIS182
|
2.1
|
29.0
|
1.0
|
|
OD2
|
E:ASP211
|
2.2
|
27.5
|
1.0
|
|
HZ2
|
E:TRP313
|
2.3
|
40.3
|
1.0
|
|
OD2
|
E:ASP299
|
2.4
|
26.6
|
1.0
|
|
CG
|
E:HIS182
|
2.9
|
20.6
|
1.0
|
|
CE1
|
E:HIS182
|
2.9
|
37.3
|
1.0
|
|
CG
|
E:ASP207
|
2.9
|
24.9
|
1.0
|
|
HB2
|
E:HIS182
|
3.0
|
22.5
|
1.0
|
|
HE2
|
E:HIS205
|
3.0
|
27.2
|
1.0
|
|
CZ2
|
E:TRP313
|
3.1
|
33.6
|
1.0
|
|
HE1
|
E:HIS182
|
3.2
|
44.7
|
1.0
|
|
CG
|
E:ASP211
|
3.2
|
28.9
|
1.0
|
|
HB2
|
E:ASP299
|
3.3
|
25.2
|
1.0
|
|
HB3
|
E:HIS182
|
3.3
|
22.5
|
1.0
|
|
CB
|
E:HIS182
|
3.3
|
18.8
|
1.0
|
|
MN
|
E:MN403
|
3.3
|
27.1
|
0.3
|
|
HH2
|
E:TRP313
|
3.3
|
42.9
|
1.0
|
|
CG
|
E:ASP299
|
3.4
|
25.1
|
1.0
|
|
OD1
|
E:ASP207
|
3.4
|
23.9
|
1.0
|
|
CH2
|
E:TRP313
|
3.6
|
35.8
|
1.0
|
|
OD1
|
E:ASP211
|
3.7
|
25.4
|
1.0
|
|
NE2
|
E:HIS182
|
3.8
|
31.6
|
1.0
|
|
CD2
|
E:HIS182
|
3.8
|
26.5
|
1.0
|
|
CB
|
E:ASP299
|
3.8
|
21.0
|
1.0
|
|
NE2
|
E:HIS205
|
3.9
|
22.6
|
1.0
|
|
HB2
|
E:HIS209
|
3.9
|
38.3
|
1.0
|
|
HB2
|
E:ASP207
|
4.0
|
24.4
|
1.0
|
|
CB
|
E:ASP207
|
4.1
|
20.3
|
1.0
|
|
HB3
|
E:ASP299
|
4.2
|
25.2
|
1.0
|
|
HG3
|
E:GLU344
|
4.2
|
24.4
|
1.0
|
|
CE2
|
E:TRP313
|
4.2
|
31.5
|
1.0
|
|
HD1
|
E:HIS209
|
4.5
|
41.9
|
1.0
|
|
HE2
|
E:HIS182
|
4.5
|
37.9
|
1.0
|
|
HE1
|
E:TRP313
|
4.5
|
46.1
|
1.0
|
|
CB
|
E:ASP211
|
4.5
|
25.0
|
1.0
|
|
OD1
|
E:ASP299
|
4.5
|
22.0
|
1.0
|
|
HB3
|
E:ASP207
|
4.5
|
24.4
|
1.0
|
|
HD2
|
E:HIS182
|
4.6
|
31.8
|
1.0
|
|
O
|
E:HIS209
|
4.6
|
22.4
|
1.0
|
|
HE1
|
E:HIS205
|
4.6
|
32.2
|
1.0
|
|
HG23
|
E:VAL343
|
4.6
|
23.0
|
1.0
|
|
HB2
|
E:ASP211
|
4.6
|
30.0
|
1.0
|
|
HG21
|
E:VAL343
|
4.7
|
23.0
|
1.0
|
|
O
|
E:HIS222
|
4.7
|
18.1
|
1.0
|
|
CE1
|
E:HIS205
|
4.7
|
26.8
|
1.0
|
|
HB3
|
E:ASP211
|
4.7
|
30.0
|
1.0
|
|
NE1
|
E:TRP313
|
4.8
|
38.4
|
1.0
|
|
CA
|
E:HIS182
|
4.8
|
19.9
|
1.0
|
|
H
|
E:HIS209
|
4.8
|
24.7
|
1.0
|
|
CB
|
E:HIS209
|
4.9
|
31.9
|
1.0
|
|
CD2
|
E:HIS205
|
4.9
|
25.5
|
1.0
|
|
OD2
|
E:ASP301
|
4.9
|
37.1
|
1.0
|
|
CZ3
|
E:TRP313
|
4.9
|
37.6
|
1.0
|
|
HD2
|
E:HIS205
|
5.0
|
30.6
|
1.0
|
|
OE2
|
E:GLU344
|
5.0
|
22.5
|
1.0
|
|
Nickel binding site 6 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 6 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 6 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Ni404
b:41.3
occ:0.31
|
OD2
|
F:ASP207
|
1.9
|
27.2
|
1.0
|
|
HZ2
|
F:TRP313
|
2.1
|
40.3
|
1.0
|
|
OD2
|
F:ASP299
|
2.2
|
31.0
|
1.0
|
|
HD1
|
F:HIS182
|
2.2
|
38.8
|
1.0
|
|
ND1
|
F:HIS182
|
2.4
|
32.3
|
1.0
|
|
OD2
|
F:ASP211
|
2.5
|
28.9
|
1.0
|
|
CZ2
|
F:TRP313
|
2.7
|
33.6
|
1.0
|
|
HH2
|
F:TRP313
|
2.8
|
38.0
|
1.0
|
|
HB2
|
F:HIS182
|
2.9
|
25.9
|
1.0
|
|
CG
|
F:ASP207
|
2.9
|
26.5
|
1.0
|
|
CG
|
F:HIS182
|
2.9
|
26.7
|
1.0
|
|
MN
|
F:MN403
|
3.0
|
31.2
|
0.3
|
|
CH2
|
F:TRP313
|
3.1
|
31.6
|
1.0
|
|
CE1
|
F:HIS182
|
3.2
|
32.4
|
1.0
|
|
CB
|
F:HIS182
|
3.2
|
21.6
|
1.0
|
|
CG
|
F:ASP299
|
3.3
|
28.3
|
1.0
|
|
HB3
|
F:HIS182
|
3.3
|
25.9
|
1.0
|
|
HB2
|
F:ASP299
|
3.3
|
24.5
|
1.0
|
|
HE2
|
F:HIS205
|
3.3
|
24.9
|
1.0
|
|
OD1
|
F:ASP207
|
3.4
|
27.8
|
1.0
|
|
CG
|
F:ASP211
|
3.4
|
25.6
|
1.0
|
|
OD1
|
F:ASP211
|
3.6
|
25.6
|
1.0
|
|
HE1
|
F:HIS182
|
3.6
|
38.9
|
1.0
|
|
HB2
|
F:HIS209
|
3.7
|
33.5
|
1.0
|
|
CD2
|
F:HIS182
|
3.8
|
37.9
|
1.0
|
|
CB
|
F:ASP299
|
3.8
|
20.4
|
1.0
|
|
CE2
|
F:TRP313
|
3.9
|
32.2
|
1.0
|
|
NE2
|
F:HIS182
|
3.9
|
32.6
|
1.0
|
|
HG3
|
F:GLU344
|
4.0
|
26.8
|
1.0
|
|
HB2
|
F:ASP207
|
4.1
|
24.5
|
1.0
|
|
HD1
|
F:HIS209
|
4.2
|
43.1
|
1.0
|
|
CB
|
F:ASP207
|
4.2
|
20.4
|
1.0
|
|
NE2
|
F:HIS205
|
4.2
|
20.8
|
1.0
|
|
HB3
|
F:ASP299
|
4.2
|
24.5
|
1.0
|
|
OD2
|
F:ASP301
|
4.2
|
37.1
|
1.0
|
|
OD1
|
F:ASP299
|
4.3
|
23.1
|
1.0
|
|
HE1
|
F:TRP313
|
4.3
|
42.9
|
1.0
|
|
CZ3
|
F:TRP313
|
4.4
|
26.1
|
1.0
|
|
NE1
|
F:TRP313
|
4.5
|
35.7
|
1.0
|
|
HG23
|
F:VAL343
|
4.5
|
22.6
|
1.0
|
|
HD2
|
F:HIS182
|
4.5
|
45.4
|
1.0
|
|
HB3
|
F:ASP207
|
4.6
|
24.5
|
1.0
|
|
CB
|
F:HIS209
|
4.7
|
28.0
|
1.0
|
|
O
|
F:HIS222
|
4.7
|
25.1
|
1.0
|
|
HG21
|
F:VAL343
|
4.7
|
22.6
|
1.0
|
|
CA
|
F:HIS182
|
4.7
|
19.7
|
1.0
|
|
HE1
|
F:HIS205
|
4.8
|
33.1
|
1.0
|
|
H
|
F:HIS209
|
4.8
|
25.3
|
1.0
|
|
ND1
|
F:HIS209
|
4.8
|
35.9
|
1.0
|
|
CG
|
F:GLU344
|
4.8
|
22.3
|
1.0
|
|
CB
|
F:ASP211
|
4.8
|
21.9
|
1.0
|
|
HG2
|
F:GLU344
|
4.8
|
26.8
|
1.0
|
|
O
|
F:HIS209
|
4.8
|
27.8
|
1.0
|
|
OE2
|
F:GLU344
|
4.8
|
23.6
|
1.0
|
|
HB2
|
F:HIS222
|
4.9
|
20.9
|
1.0
|
|
CE1
|
F:HIS205
|
4.9
|
27.6
|
1.0
|
|
HZ3
|
F:TRP313
|
4.9
|
31.4
|
1.0
|
|
H
|
F:HIS182
|
4.9
|
22.9
|
1.0
|
|
CD2
|
F:TRP313
|
5.0
|
27.9
|
1.0
|
|
Nickel binding site 7 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 7 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 7 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Ni404
b:39.6
occ:0.34
|
HD1
|
G:HIS182
|
1.8
|
31.3
|
1.0
|
|
OD2
|
G:ASP207
|
1.8
|
25.1
|
1.0
|
|
HZ2
|
G:TRP313
|
2.0
|
34.6
|
1.0
|
|
OD2
|
G:ASP299
|
2.0
|
32.7
|
1.0
|
|
ND1
|
G:HIS182
|
2.3
|
26.1
|
1.0
|
|
MN
|
G:MN403
|
2.5
|
38.1
|
0.2
|
|
OD2
|
G:ASP211
|
2.5
|
25.3
|
1.0
|
|
CZ2
|
G:TRP313
|
2.7
|
28.8
|
1.0
|
|
CG
|
G:ASP207
|
2.8
|
23.4
|
1.0
|
|
HH2
|
G:TRP313
|
3.0
|
41.3
|
1.0
|
|
OD1
|
G:ASP207
|
3.1
|
24.6
|
1.0
|
|
HB2
|
G:HIS182
|
3.1
|
24.9
|
1.0
|
|
HB2
|
G:ASP299
|
3.1
|
24.3
|
1.0
|
|
CG
|
G:HIS182
|
3.1
|
22.5
|
1.0
|
|
CG
|
G:ASP299
|
3.1
|
25.5
|
1.0
|
|
CE1
|
G:HIS182
|
3.1
|
33.4
|
1.0
|
|
CH2
|
G:TRP313
|
3.2
|
34.4
|
1.0
|
|
HE1
|
G:HIS182
|
3.4
|
40.1
|
1.0
|
|
CB
|
G:HIS182
|
3.4
|
20.8
|
1.0
|
|
HE2
|
G:HIS205
|
3.5
|
28.5
|
1.0
|
|
HB3
|
G:HIS182
|
3.5
|
24.9
|
1.0
|
|
CB
|
G:ASP299
|
3.5
|
20.3
|
1.0
|
|
CG
|
G:ASP211
|
3.6
|
24.6
|
1.0
|
|
CE2
|
G:TRP313
|
3.8
|
33.4
|
1.0
|
|
HB3
|
G:ASP299
|
3.8
|
24.3
|
1.0
|
|
HG3
|
G:GLU344
|
3.8
|
22.9
|
1.0
|
|
OD1
|
G:ASP211
|
3.9
|
24.4
|
1.0
|
|
HB2
|
G:HIS209
|
3.9
|
28.6
|
1.0
|
|
CD2
|
G:HIS182
|
4.0
|
31.0
|
1.0
|
|
NE2
|
G:HIS182
|
4.0
|
34.3
|
1.0
|
|
CB
|
G:ASP207
|
4.1
|
26.9
|
1.0
|
|
HE1
|
G:TRP313
|
4.1
|
50.5
|
1.0
|
|
OD2
|
G:ASP301
|
4.2
|
39.0
|
1.0
|
|
HB2
|
G:ASP207
|
4.2
|
32.3
|
1.0
|
|
HD1
|
G:HIS209
|
4.2
|
43.3
|
1.0
|
|
OD1
|
G:ASP299
|
4.2
|
25.3
|
1.0
|
|
NE2
|
G:HIS205
|
4.3
|
23.8
|
1.0
|
|
NE1
|
G:TRP313
|
4.3
|
42.1
|
1.0
|
|
HG23
|
G:VAL343
|
4.5
|
23.4
|
1.0
|
|
CZ3
|
G:TRP313
|
4.5
|
38.4
|
1.0
|
|
HB3
|
G:ASP207
|
4.6
|
32.3
|
1.0
|
|
CG
|
G:GLU344
|
4.7
|
19.0
|
1.0
|
|
H
|
G:HIS209
|
4.7
|
25.1
|
1.0
|
|
OE2
|
G:GLU344
|
4.7
|
22.1
|
1.0
|
|
HG21
|
G:VAL343
|
4.7
|
23.4
|
1.0
|
|
O
|
G:HIS209
|
4.7
|
20.3
|
1.0
|
|
HE2
|
G:HIS182
|
4.8
|
41.1
|
1.0
|
|
HG2
|
G:GLU344
|
4.8
|
22.9
|
1.0
|
|
ND1
|
G:HIS209
|
4.8
|
36.1
|
1.0
|
|
HD2
|
G:HIS182
|
4.8
|
37.2
|
1.0
|
|
OD1
|
G:ASP301
|
4.8
|
30.5
|
1.0
|
|
HE1
|
G:HIS205
|
4.8
|
31.0
|
1.0
|
|
CG
|
G:ASP301
|
4.8
|
32.8
|
1.0
|
|
HA
|
G:ASP207
|
4.8
|
20.9
|
1.0
|
|
CB
|
G:HIS209
|
4.9
|
23.8
|
1.0
|
|
CB
|
G:ASP211
|
4.9
|
18.2
|
1.0
|
|
CA
|
G:HIS182
|
4.9
|
17.8
|
1.0
|
|
CA
|
G:ASP299
|
4.9
|
18.3
|
1.0
|
|
CD2
|
G:TRP313
|
4.9
|
34.3
|
1.0
|
|
O
|
G:HIS222
|
5.0
|
21.2
|
1.0
|
|
HB2
|
G:HIS222
|
5.0
|
27.7
|
1.0
|
|
CE1
|
G:HIS205
|
5.0
|
25.8
|
1.0
|
|
Nickel binding site 8 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 8 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 8 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Ni404
b:40.3
occ:0.27
|
OD2
|
H:ASP207
|
1.9
|
21.5
|
1.0
|
|
HZ2
|
H:TRP313
|
2.0
|
39.3
|
1.0
|
|
HD1
|
H:HIS182
|
2.0
|
41.0
|
1.0
|
|
OD2
|
H:ASP299
|
2.2
|
28.0
|
1.0
|
|
ND1
|
H:HIS182
|
2.5
|
34.2
|
1.0
|
|
OD2
|
H:ASP211
|
2.5
|
31.1
|
1.0
|
|
CZ2
|
H:TRP313
|
2.6
|
32.8
|
1.0
|
|
MN
|
H:MN403
|
2.6
|
34.2
|
0.3
|
|
CG
|
H:ASP207
|
2.8
|
23.2
|
1.0
|
|
HH2
|
H:TRP313
|
2.9
|
41.7
|
1.0
|
|
OD1
|
H:ASP207
|
3.1
|
26.3
|
1.0
|
|
CH2
|
H:TRP313
|
3.1
|
34.8
|
1.0
|
|
HB2
|
H:HIS182
|
3.1
|
25.2
|
1.0
|
|
CG
|
H:HIS182
|
3.3
|
23.7
|
1.0
|
|
CG
|
H:ASP299
|
3.3
|
22.6
|
1.0
|
|
CE1
|
H:HIS182
|
3.3
|
31.2
|
1.0
|
|
HB2
|
H:ASP299
|
3.4
|
19.6
|
1.0
|
|
CG
|
H:ASP211
|
3.4
|
23.4
|
1.0
|
|
HB2
|
H:HIS209
|
3.4
|
35.6
|
1.0
|
|
HE2
|
H:HIS205
|
3.5
|
29.5
|
1.0
|
|
CB
|
H:HIS182
|
3.5
|
21.0
|
1.0
|
|
HE1
|
H:HIS182
|
3.6
|
37.4
|
1.0
|
|
HB3
|
H:HIS182
|
3.6
|
25.2
|
1.0
|
|
OD1
|
H:ASP211
|
3.6
|
26.0
|
1.0
|
|
CE2
|
H:TRP313
|
3.7
|
31.9
|
1.0
|
|
CB
|
H:ASP299
|
3.8
|
16.3
|
1.0
|
|
HD1
|
H:HIS209
|
3.8
|
47.5
|
1.0
|
|
HG3
|
H:GLU344
|
4.0
|
23.7
|
1.0
|
|
HB3
|
H:ASP299
|
4.1
|
19.6
|
1.0
|
|
OD2
|
H:ASP301
|
4.1
|
40.6
|
1.0
|
|
HE1
|
H:TRP313
|
4.1
|
41.3
|
1.0
|
|
CB
|
H:ASP207
|
4.2
|
17.6
|
1.0
|
|
CD2
|
H:HIS182
|
4.2
|
23.4
|
1.0
|
|
HB2
|
H:ASP207
|
4.3
|
21.2
|
1.0
|
|
NE2
|
H:HIS182
|
4.3
|
32.3
|
1.0
|
|
NE1
|
H:TRP313
|
4.3
|
34.4
|
1.0
|
|
OD1
|
H:ASP299
|
4.3
|
24.9
|
1.0
|
|
NE2
|
H:HIS205
|
4.3
|
24.6
|
1.0
|
|
CB
|
H:HIS209
|
4.4
|
29.6
|
1.0
|
|
CZ3
|
H:TRP313
|
4.4
|
30.6
|
1.0
|
|
ND1
|
H:HIS209
|
4.4
|
39.6
|
1.0
|
|
H
|
H:HIS209
|
4.6
|
24.8
|
1.0
|
|
HB3
|
H:ASP207
|
4.6
|
21.2
|
1.0
|
|
O
|
H:HIS209
|
4.7
|
24.9
|
1.0
|
|
HG23
|
H:VAL343
|
4.7
|
24.4
|
1.0
|
|
HE1
|
H:HIS205
|
4.8
|
28.6
|
1.0
|
|
CB
|
H:ASP211
|
4.8
|
21.5
|
1.0
|
|
O
|
H:HIS222
|
4.8
|
20.7
|
1.0
|
|
CG
|
H:GLU344
|
4.8
|
19.8
|
1.0
|
|
OE2
|
H:GLU344
|
4.8
|
21.6
|
1.0
|
|
CG
|
H:HIS209
|
4.8
|
34.4
|
1.0
|
|
CD2
|
H:TRP313
|
4.8
|
36.9
|
1.0
|
|
HG2
|
H:GLU344
|
4.9
|
23.7
|
1.0
|
|
CG
|
H:ASP301
|
4.9
|
26.6
|
1.0
|
|
HB2
|
H:HIS222
|
4.9
|
24.4
|
1.0
|
|
HB3
|
H:HIS209
|
4.9
|
35.6
|
1.0
|
|
OD1
|
H:ASP301
|
5.0
|
31.6
|
1.0
|
|
CE1
|
H:HIS205
|
5.0
|
23.8
|
1.0
|
|
HZ3
|
H:TRP313
|
5.0
|
36.7
|
1.0
|
|
HB2
|
H:ASP211
|
5.0
|
25.8
|
1.0
|
|
Nickel binding site 9 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 9 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 9 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Ni404
b:42.2
occ:0.29
|
HD1
|
I:HIS182
|
1.7
|
37.9
|
1.0
|
|
HZ2
|
I:TRP313
|
1.9
|
41.0
|
1.0
|
|
OD2
|
I:ASP207
|
1.9
|
20.9
|
1.0
|
|
OD2
|
I:ASP299
|
2.1
|
30.7
|
1.0
|
|
ND1
|
I:HIS182
|
2.4
|
31.5
|
1.0
|
|
CZ2
|
I:TRP313
|
2.5
|
34.1
|
1.0
|
|
OD2
|
I:ASP211
|
2.5
|
35.6
|
1.0
|
|
MN
|
I:MN403
|
2.6
|
25.8
|
0.3
|
|
CG
|
I:ASP207
|
2.7
|
23.3
|
1.0
|
|
HH2
|
I:TRP313
|
2.9
|
41.0
|
1.0
|
|
OD1
|
I:ASP207
|
3.0
|
19.9
|
1.0
|
|
CH2
|
I:TRP313
|
3.1
|
34.2
|
1.0
|
|
CG
|
I:ASP299
|
3.2
|
24.6
|
1.0
|
|
HB2
|
I:HIS182
|
3.2
|
22.9
|
1.0
|
|
CG
|
I:HIS182
|
3.3
|
21.5
|
1.0
|
|
CE1
|
I:HIS182
|
3.3
|
34.0
|
1.0
|
|
HB2
|
I:ASP299
|
3.4
|
25.0
|
1.0
|
|
CG
|
I:ASP211
|
3.4
|
27.3
|
1.0
|
|
HE1
|
I:HIS182
|
3.5
|
40.8
|
1.0
|
|
HB2
|
I:HIS209
|
3.5
|
32.2
|
1.0
|
|
CE2
|
I:TRP313
|
3.6
|
27.9
|
1.0
|
|
CB
|
I:HIS182
|
3.6
|
19.1
|
1.0
|
|
HB3
|
I:HIS182
|
3.6
|
22.9
|
1.0
|
|
OD1
|
I:ASP211
|
3.6
|
27.4
|
1.0
|
|
HE2
|
I:HIS205
|
3.6
|
29.3
|
1.0
|
|
CB
|
I:ASP299
|
3.7
|
20.8
|
1.0
|
|
HD1
|
I:HIS209
|
3.8
|
46.3
|
1.0
|
|
HB3
|
I:ASP299
|
3.9
|
25.0
|
1.0
|
|
HG3
|
I:GLU344
|
4.0
|
23.1
|
1.0
|
|
HE1
|
I:TRP313
|
4.0
|
37.9
|
1.0
|
|
OD2
|
I:ASP301
|
4.1
|
35.5
|
1.0
|
|
NE1
|
I:TRP313
|
4.1
|
31.6
|
1.0
|
|
CB
|
I:ASP207
|
4.1
|
20.5
|
1.0
|
|
OD1
|
I:ASP299
|
4.2
|
22.1
|
1.0
|
|
HB2
|
I:ASP207
|
4.3
|
24.6
|
1.0
|
|
CZ3
|
I:TRP313
|
4.3
|
25.3
|
1.0
|
|
NE2
|
I:HIS182
|
4.4
|
28.3
|
1.0
|
|
CD2
|
I:HIS182
|
4.4
|
30.0
|
1.0
|
|
ND1
|
I:HIS209
|
4.4
|
38.6
|
1.0
|
|
H
|
I:HIS209
|
4.5
|
26.3
|
1.0
|
|
NE2
|
I:HIS205
|
4.5
|
24.4
|
1.0
|
|
CB
|
I:HIS209
|
4.5
|
26.8
|
1.0
|
|
HB3
|
I:ASP207
|
4.6
|
24.6
|
1.0
|
|
O
|
I:HIS209
|
4.6
|
22.6
|
1.0
|
|
HG23
|
I:VAL343
|
4.7
|
24.8
|
1.0
|
|
OE2
|
I:GLU344
|
4.7
|
24.7
|
1.0
|
|
CD2
|
I:TRP313
|
4.7
|
39.9
|
1.0
|
|
CB
|
I:ASP211
|
4.8
|
25.0
|
1.0
|
|
CG
|
I:GLU344
|
4.8
|
19.3
|
1.0
|
|
CG
|
I:ASP301
|
4.9
|
30.9
|
1.0
|
|
O
|
I:HIS222
|
4.9
|
21.8
|
1.0
|
|
OD1
|
I:ASP301
|
4.9
|
33.9
|
1.0
|
|
CG
|
I:HIS209
|
4.9
|
30.6
|
1.0
|
|
HB2
|
I:HIS222
|
4.9
|
29.0
|
1.0
|
|
HA
|
I:ASP207
|
4.9
|
24.7
|
1.0
|
|
HZ3
|
I:TRP313
|
4.9
|
30.4
|
1.0
|
|
HG21
|
I:VAL343
|
5.0
|
24.8
|
1.0
|
|
Nickel binding site 10 out
of 12 in 9fek
Go back to
Nickel Binding Sites List in 9fek
Nickel binding site 10 out
of 12 in the Crystal Structure of Guanidinase From Nitrospira Inopinata
 Mono view
 Stereo pair view
|
|
A full contact list of Nickel with other atoms in the Ni binding
site number 10 of Crystal Structure of Guanidinase From Nitrospira Inopinata within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Ni404
b:43.0
occ:0.39
|
OD2
|
J:ASP207
|
1.9
|
22.0
|
1.0
|
|
HZ2
|
J:TRP313
|
1.9
|
46.6
|
1.0
|
|
OD2
|
J:ASP299
|
2.4
|
26.7
|
1.0
|
|
CZ2
|
J:TRP313
|
2.5
|
38.8
|
1.0
|
|
HD1
|
J:HIS182
|
2.5
|
41.4
|
1.0
|
|
OD2
|
J:ASP211
|
2.5
|
27.6
|
1.0
|
|
HH2
|
J:TRP313
|
2.6
|
46.3
|
1.0
|
|
MN
|
J:MN403
|
2.7
|
29.3
|
0.2
|
|
CG
|
J:ASP207
|
2.8
|
25.9
|
1.0
|
|
CH2
|
J:TRP313
|
2.8
|
38.6
|
1.0
|
|
ND1
|
J:HIS182
|
3.0
|
34.5
|
1.0
|
|
OD1
|
J:ASP207
|
3.0
|
22.3
|
1.0
|
|
HB2
|
J:HIS182
|
3.1
|
25.9
|
1.0
|
|
CG
|
J:ASP211
|
3.3
|
28.0
|
1.0
|
|
OD1
|
J:ASP211
|
3.4
|
29.9
|
1.0
|
|
HB3
|
J:HIS182
|
3.5
|
25.9
|
1.0
|
|
CG
|
J:ASP299
|
3.5
|
21.7
|
1.0
|
|
HB2
|
J:HIS209
|
3.5
|
29.4
|
1.0
|
|
HE2
|
J:HIS205
|
3.5
|
23.9
|
1.0
|
|
CG
|
J:HIS182
|
3.6
|
26.6
|
1.0
|
|
CB
|
J:HIS182
|
3.6
|
21.6
|
1.0
|
|
HB2
|
J:ASP299
|
3.6
|
21.0
|
1.0
|
|
CE2
|
J:TRP313
|
3.6
|
35.5
|
1.0
|
|
HD1
|
J:HIS209
|
3.9
|
49.3
|
1.0
|
|
CE1
|
J:HIS182
|
4.0
|
30.8
|
1.0
|
|
CB
|
J:ASP299
|
4.0
|
17.5
|
1.0
|
|
HG3
|
J:GLU344
|
4.1
|
27.6
|
1.0
|
|
CZ3
|
J:TRP313
|
4.1
|
35.3
|
1.0
|
|
CB
|
J:ASP207
|
4.2
|
18.1
|
1.0
|
|
HE1
|
J:TRP313
|
4.2
|
41.2
|
1.0
|
|
OD2
|
J:ASP301
|
4.2
|
43.0
|
1.0
|
|
HE1
|
J:HIS182
|
4.3
|
37.0
|
1.0
|
|
HB3
|
J:ASP299
|
4.3
|
21.0
|
1.0
|
|
HB2
|
J:ASP207
|
4.3
|
21.7
|
1.0
|
|
NE1
|
J:TRP313
|
4.3
|
34.3
|
1.0
|
|
NE2
|
J:HIS205
|
4.4
|
19.9
|
1.0
|
|
CB
|
J:HIS209
|
4.5
|
24.5
|
1.0
|
|
H
|
J:HIS209
|
4.5
|
27.0
|
1.0
|
|
HB3
|
J:ASP207
|
4.5
|
21.7
|
1.0
|
|
ND1
|
J:HIS209
|
4.5
|
41.0
|
1.0
|
|
OD1
|
J:ASP299
|
4.5
|
23.5
|
1.0
|
|
O
|
J:HIS209
|
4.5
|
22.1
|
1.0
|
|
O
|
J:HIS222
|
4.6
|
21.7
|
1.0
|
|
CD2
|
J:HIS182
|
4.6
|
26.5
|
1.0
|
|
HZ3
|
J:TRP313
|
4.7
|
42.4
|
1.0
|
|
OE2
|
J:GLU344
|
4.7
|
21.8
|
1.0
|
|
CD2
|
J:TRP313
|
4.7
|
39.6
|
1.0
|
|
CB
|
J:ASP211
|
4.8
|
21.4
|
1.0
|
|
HB2
|
J:HIS222
|
4.8
|
29.3
|
1.0
|
|
HG23
|
J:VAL343
|
4.8
|
23.6
|
1.0
|
|
NE2
|
J:HIS182
|
4.8
|
30.4
|
1.0
|
|
CG
|
J:HIS209
|
4.9
|
31.3
|
1.0
|
|
CE3
|
J:TRP313
|
4.9
|
39.7
|
1.0
|
|
CG
|
J:GLU344
|
4.9
|
23.0
|
1.0
|
|
HE1
|
J:HIS205
|
4.9
|
27.5
|
1.0
|
|
HB3
|
J:ASP211
|
5.0
|
25.7
|
1.0
|
|
Reference:
M.Palatinszky,
C.W.Herbold,
C.J.Sedlacek,
D.Puehringer,
K.Wasmund,
P.H.Nielsen,
M.S.Dueholm,
N.Jehmlich,
R.Grusek,
J.Kostan,
N.Krasnici,
J.Palmetzhofer,
T.Hofmann,
M.Zumstein,
K.Djinovic-Carugo,
H.Daims,
M.Wagner.
Growth of Complete Ammonia Oxidizers on Guanidine To Be Published.
Page generated: Thu Oct 10 09:50:20 2024
|
