Zinc in PDB 6lm2: Crystal Structure of Zinc Binding Protein Zint From E. Coli
Protein crystallography data
The structure of Crystal Structure of Zinc Binding Protein Zint From E. Coli, PDB code: 6lm2
was solved by
L.Xiang,
G.Zhang,
J.Zhou,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
38.36 /
2.13
|
Space group
|
P 41 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
55.810,
55.810,
153.420,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
22.6 /
27.5
|
Zinc Binding Sites:
The binding sites of Zinc atom in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
(pdb code 6lm2). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the
Crystal Structure of Zinc Binding Protein Zint From E. Coli, PDB code: 6lm2:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 1 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn201
b:0.2
occ:1.00
|
OE1
|
A:GLU169
|
2.1
|
55.2
|
1.0
|
CD
|
A:GLU169
|
3.1
|
52.2
|
1.0
|
OE2
|
A:GLU169
|
3.5
|
54.7
|
1.0
|
CG
|
A:GLU169
|
4.4
|
49.6
|
1.0
|
|
Zinc binding site 2 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 2 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn202
b:87.2
occ:0.50
|
OE1
|
A:GLU69
|
2.3
|
69.6
|
1.0
|
CD
|
A:GLU69
|
3.2
|
68.7
|
1.0
|
OE2
|
A:GLU69
|
3.5
|
70.3
|
1.0
|
O
|
A:THR64
|
4.4
|
91.7
|
1.0
|
CG
|
A:GLU69
|
4.6
|
67.5
|
1.0
|
|
Zinc binding site 3 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 3 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn203
b:0.2
occ:1.00
|
OD1
|
A:ASP89
|
2.4
|
56.0
|
1.0
|
OD2
|
A:ASP89
|
2.9
|
56.2
|
1.0
|
CG
|
A:ASP89
|
3.0
|
53.1
|
1.0
|
OE2
|
A:GLU88
|
3.5
|
58.6
|
1.0
|
CD
|
A:GLU88
|
4.0
|
57.1
|
1.0
|
CG
|
A:GLU88
|
4.2
|
53.8
|
1.0
|
CB
|
A:ASP89
|
4.5
|
50.0
|
1.0
|
OE1
|
A:GLU88
|
4.7
|
57.9
|
1.0
|
N
|
A:ASP89
|
5.0
|
45.7
|
1.0
|
|
Zinc binding site 4 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 4 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn204
b:63.0
occ:1.00
|
OE2
|
A:GLU93
|
2.3
|
50.5
|
1.0
|
CD
|
A:GLU93
|
3.2
|
48.5
|
1.0
|
OE1
|
A:GLU93
|
3.7
|
49.0
|
1.0
|
O
|
A:HOH305
|
3.9
|
41.5
|
1.0
|
CG
|
A:GLU93
|
4.3
|
45.2
|
1.0
|
|
Zinc binding site 5 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 5 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn205
b:55.9
occ:1.00
|
NE2
|
A:HIS155
|
2.0
|
40.0
|
1.0
|
NE2
|
A:HIS144
|
2.1
|
48.6
|
1.0
|
O
|
A:HOH337
|
2.3
|
64.2
|
1.0
|
CE1
|
A:HIS144
|
2.4
|
48.9
|
1.0
|
O
|
A:HOH307
|
2.5
|
42.3
|
1.0
|
CE1
|
A:HIS155
|
3.0
|
36.7
|
1.0
|
CD2
|
A:HIS155
|
3.1
|
36.7
|
1.0
|
CD2
|
A:HIS144
|
3.4
|
47.6
|
1.0
|
ND1
|
A:HIS144
|
3.7
|
49.2
|
1.0
|
ND1
|
A:HIS155
|
4.1
|
36.6
|
1.0
|
CG
|
A:HIS144
|
4.2
|
49.3
|
1.0
|
CG
|
A:HIS155
|
4.2
|
36.9
|
1.0
|
|
Zinc binding site 6 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 6 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn206
b:56.6
occ:1.00
|
OE1
|
A:GLU189
|
2.0
|
56.5
|
1.0
|
NE2
|
A:HIS153
|
2.2
|
43.0
|
1.0
|
O
|
A:HOH332
|
2.6
|
51.2
|
1.0
|
CD
|
A:GLU189
|
2.8
|
56.0
|
1.0
|
CD2
|
A:HIS153
|
2.9
|
41.6
|
1.0
|
OE2
|
A:GLU189
|
2.9
|
53.5
|
1.0
|
CE1
|
A:HIS153
|
3.4
|
42.5
|
1.0
|
CG
|
A:HIS153
|
4.1
|
39.7
|
1.0
|
CG
|
A:GLU189
|
4.3
|
55.0
|
1.0
|
ND1
|
A:HIS153
|
4.3
|
39.5
|
1.0
|
OH
|
A:TYR177
|
4.7
|
38.8
|
1.0
|
O
|
A:GLU189
|
4.7
|
57.3
|
1.0
|
|
Zinc binding site 7 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 7 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn207
b:63.3
occ:1.00
|
ND1
|
A:HIS95
|
2.5
|
38.5
|
1.0
|
CG
|
A:HIS95
|
3.3
|
37.2
|
1.0
|
CB
|
A:HIS95
|
3.4
|
36.3
|
1.0
|
CE1
|
A:HIS95
|
3.6
|
38.9
|
1.0
|
CG2
|
A:THR100
|
3.8
|
43.1
|
1.0
|
CA
|
A:HIS95
|
4.3
|
37.9
|
1.0
|
O
|
A:HOH338
|
4.4
|
76.5
|
1.0
|
O
|
A:GLU99
|
4.4
|
49.5
|
1.0
|
CD2
|
A:HIS95
|
4.5
|
37.2
|
1.0
|
C
|
A:ASN98
|
4.5
|
51.9
|
1.0
|
N
|
A:GLU99
|
4.6
|
56.5
|
1.0
|
NE2
|
A:HIS95
|
4.6
|
38.1
|
1.0
|
CA
|
A:ASN98
|
4.6
|
52.5
|
1.0
|
C
|
A:GLU99
|
4.7
|
53.1
|
1.0
|
O
|
A:ASN98
|
4.9
|
50.6
|
1.0
|
C
|
A:HIS95
|
5.0
|
39.0
|
1.0
|
|
Zinc binding site 8 out
of 8 in 6lm2
Go back to
Zinc Binding Sites List in 6lm2
Zinc binding site 8 out
of 8 in the Crystal Structure of Zinc Binding Protein Zint From E. Coli
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Crystal Structure of Zinc Binding Protein Zint From E. Coli within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn208
b:54.8
occ:1.00
|
O
|
A:HOH335
|
2.0
|
37.4
|
1.0
|
OD1
|
A:ASP24
|
2.2
|
56.9
|
1.0
|
O
|
A:HOH334
|
2.4
|
52.5
|
1.0
|
CG
|
A:ASP24
|
3.1
|
56.3
|
1.0
|
CB
|
A:ASP24
|
3.4
|
55.9
|
1.0
|
OD2
|
A:ASP24
|
4.3
|
54.8
|
1.0
|
CA
|
A:ASP24
|
4.9
|
56.0
|
1.0
|
CD1
|
A:ILE112
|
5.0
|
43.2
|
1.0
|
|
Reference:
L.Xiang,
G.Zhang,
J.Zhou.
Crystal Structure of Zinc Binding Protein Zint From E. Coli To Be Published.
Page generated: Tue Oct 29 02:42:02 2024
|