Zinc in PDB 2uyv: L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
Enzymatic activity of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
All present enzymatic activity of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A):
4.1.2.19;
Protein crystallography data
The structure of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A), PDB code: 2uyv
was solved by
D.Grueninger,
G.E.Schulz,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
20.00 /
2.20
|
Space group
|
I 2 2 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
95.565,
102.355,
265.500,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
20.4 /
24.4
|
Zinc Binding Sites:
The binding sites of Zinc atom in the L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
(pdb code 2uyv). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the
L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A), PDB code: 2uyv:
Jump to Zinc binding site number:
1;
2;
3;
4;
Zinc binding site 1 out
of 4 in 2uyv
Go back to
Zinc Binding Sites List in 2uyv
Zinc binding site 1 out
of 4 in the L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1276
b:32.5
occ:1.00
|
O
|
A:HOH2253
|
2.1
|
54.0
|
1.0
|
NE2
|
A:HIS212
|
2.2
|
30.8
|
1.0
|
NE2
|
A:HIS141
|
2.2
|
25.4
|
1.0
|
NE2
|
A:HIS143
|
2.3
|
23.3
|
1.0
|
O4
|
A:TLA1277
|
2.7
|
75.0
|
1.0
|
CD2
|
A:HIS212
|
3.1
|
29.5
|
1.0
|
CD2
|
A:HIS141
|
3.1
|
26.0
|
1.0
|
CE1
|
A:HIS212
|
3.2
|
30.9
|
1.0
|
CE1
|
A:HIS141
|
3.2
|
26.5
|
1.0
|
CD2
|
A:HIS143
|
3.2
|
27.1
|
1.0
|
O3
|
A:TLA1277
|
3.3
|
74.3
|
1.0
|
CE1
|
A:HIS143
|
3.3
|
26.0
|
1.0
|
C4
|
A:TLA1277
|
3.4
|
75.4
|
1.0
|
O4
|
A:TLA1275
|
3.6
|
66.7
|
1.0
|
C3
|
A:TLA1277
|
3.8
|
75.3
|
1.0
|
O41
|
A:TLA1275
|
3.9
|
65.2
|
1.0
|
N
|
A:GLY31
|
4.1
|
30.8
|
1.0
|
O41
|
A:TLA1277
|
4.2
|
77.0
|
1.0
|
CG
|
A:HIS212
|
4.2
|
31.2
|
1.0
|
C4
|
A:TLA1275
|
4.2
|
65.2
|
1.0
|
ND1
|
A:HIS212
|
4.3
|
31.6
|
1.0
|
CG
|
A:HIS141
|
4.3
|
27.6
|
1.0
|
ND1
|
A:HIS141
|
4.3
|
27.0
|
1.0
|
CG
|
A:HIS143
|
4.4
|
26.4
|
1.0
|
ND1
|
A:HIS143
|
4.4
|
28.8
|
1.0
|
OE1
|
A:GLU117
|
4.5
|
55.1
|
1.0
|
CA
|
A:GLY31
|
4.7
|
31.5
|
1.0
|
O
|
B:HOH2179
|
4.8
|
42.6
|
1.0
|
CA
|
A:GLY30
|
4.9
|
29.7
|
1.0
|
CZ3
|
A:TRP209
|
4.9
|
36.5
|
1.0
|
C
|
A:GLY30
|
4.9
|
30.7
|
1.0
|
|
Zinc binding site 2 out
of 4 in 2uyv
Go back to
Zinc Binding Sites List in 2uyv
Zinc binding site 2 out
of 4 in the L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn1276
b:34.0
occ:1.00
|
O1
|
B:TLA1275
|
2.1
|
52.8
|
0.5
|
NE2
|
B:HIS212
|
2.2
|
33.8
|
1.0
|
NE2
|
B:HIS141
|
2.2
|
29.5
|
1.0
|
NE2
|
B:HIS143
|
2.2
|
17.6
|
1.0
|
O1
|
B:TLA1275
|
2.3
|
29.9
|
0.5
|
O11
|
B:TLA1275
|
2.3
|
31.9
|
0.5
|
C1
|
B:TLA1275
|
2.6
|
32.4
|
0.5
|
C1
|
B:TLA1275
|
2.7
|
53.5
|
0.5
|
O11
|
B:TLA1275
|
2.8
|
52.7
|
0.5
|
CD2
|
B:HIS212
|
3.1
|
32.9
|
1.0
|
CD2
|
B:HIS141
|
3.1
|
28.8
|
1.0
|
CD2
|
B:HIS143
|
3.2
|
20.4
|
1.0
|
CE1
|
B:HIS212
|
3.2
|
32.9
|
1.0
|
CE1
|
B:HIS141
|
3.2
|
28.8
|
1.0
|
CE1
|
B:HIS143
|
3.3
|
19.9
|
1.0
|
OE1
|
C:GLU171
|
3.9
|
44.0
|
1.0
|
C2
|
B:TLA1275
|
4.0
|
32.9
|
0.5
|
C2
|
B:TLA1275
|
4.1
|
53.5
|
0.5
|
N
|
B:GLY31
|
4.2
|
29.9
|
1.0
|
CG
|
B:HIS212
|
4.2
|
33.7
|
1.0
|
ND1
|
B:HIS212
|
4.3
|
33.3
|
1.0
|
CG
|
B:HIS141
|
4.3
|
29.5
|
1.0
|
ND1
|
B:HIS141
|
4.3
|
30.3
|
1.0
|
O
|
B:HOH2264
|
4.3
|
33.6
|
0.5
|
O3
|
B:TLA1275
|
4.3
|
35.2
|
0.5
|
CD
|
C:GLU171
|
4.3
|
40.5
|
1.0
|
CG
|
B:HIS143
|
4.4
|
21.4
|
1.0
|
ND1
|
B:HIS143
|
4.4
|
20.8
|
1.0
|
OE2
|
C:GLU171
|
4.4
|
43.1
|
1.0
|
C3
|
B:TLA1275
|
4.6
|
35.1
|
0.5
|
O2
|
B:TLA1275
|
4.7
|
30.2
|
0.5
|
C3
|
B:TLA1275
|
4.8
|
53.1
|
0.5
|
O
|
B:HOH2260
|
4.8
|
70.5
|
1.0
|
CA
|
B:GLY31
|
4.8
|
30.8
|
1.0
|
CZ3
|
B:TRP209
|
4.9
|
38.2
|
1.0
|
CA
|
B:GLY30
|
5.0
|
29.8
|
1.0
|
O3
|
B:TLA1275
|
5.0
|
53.4
|
0.5
|
|
Zinc binding site 3 out
of 4 in 2uyv
Go back to
Zinc Binding Sites List in 2uyv
Zinc binding site 3 out
of 4 in the L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn1276
b:31.5
occ:1.00
|
NE2
|
C:HIS212
|
2.1
|
31.6
|
1.0
|
O1
|
C:TLA1275
|
2.2
|
41.1
|
1.0
|
NE2
|
C:HIS141
|
2.2
|
29.0
|
1.0
|
NE2
|
C:HIS143
|
2.3
|
25.5
|
1.0
|
O11
|
C:TLA1275
|
2.5
|
38.7
|
1.0
|
C1
|
C:TLA1275
|
2.6
|
42.4
|
1.0
|
CD2
|
C:HIS212
|
3.0
|
32.0
|
1.0
|
CD2
|
C:HIS141
|
3.2
|
28.9
|
1.0
|
CE1
|
C:HIS212
|
3.2
|
32.0
|
1.0
|
CD2
|
C:HIS143
|
3.2
|
26.4
|
1.0
|
CE1
|
C:HIS141
|
3.2
|
29.2
|
1.0
|
CE1
|
C:HIS143
|
3.3
|
28.6
|
1.0
|
OE1
|
D:GLU171
|
3.7
|
53.0
|
1.0
|
CD
|
D:GLU171
|
4.1
|
50.5
|
1.0
|
C2
|
C:TLA1275
|
4.1
|
43.1
|
1.0
|
N
|
C:GLY31
|
4.2
|
30.8
|
1.0
|
CG
|
C:HIS212
|
4.2
|
31.8
|
1.0
|
ND1
|
C:HIS212
|
4.2
|
32.9
|
1.0
|
OE2
|
D:GLU171
|
4.2
|
53.1
|
1.0
|
CG
|
C:HIS141
|
4.3
|
30.2
|
1.0
|
ND1
|
C:HIS141
|
4.3
|
29.9
|
1.0
|
CG
|
C:HIS143
|
4.4
|
26.6
|
1.0
|
ND1
|
C:HIS143
|
4.4
|
29.1
|
1.0
|
O3
|
C:TLA1275
|
4.6
|
44.9
|
1.0
|
O2
|
C:TLA1275
|
4.7
|
42.8
|
1.0
|
C3
|
C:TLA1275
|
4.8
|
44.7
|
1.0
|
CA
|
C:GLY31
|
4.8
|
28.2
|
1.0
|
CZ3
|
C:TRP209
|
4.9
|
37.0
|
1.0
|
O
|
D:HOH2157
|
4.9
|
43.2
|
1.0
|
CA
|
C:GLY30
|
4.9
|
30.8
|
1.0
|
|
Zinc binding site 4 out
of 4 in 2uyv
Go back to
Zinc Binding Sites List in 2uyv
Zinc binding site 4 out
of 4 in the L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A)
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of L-Rhamnulose-1-Phosphate Aldolase From Escherichia Coli (Mutant Q6Y- E192A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn1276
b:38.5
occ:1.00
|
NE2
|
D:HIS141
|
2.2
|
28.2
|
1.0
|
NE2
|
D:HIS212
|
2.3
|
31.5
|
1.0
|
O11
|
D:TLA1275
|
2.3
|
44.5
|
1.0
|
NE2
|
D:HIS143
|
2.4
|
28.7
|
1.0
|
O
|
D:HOH2224
|
2.4
|
53.3
|
1.0
|
O
|
D:HOH2222
|
2.8
|
58.3
|
1.0
|
O1
|
D:TLA1275
|
3.0
|
53.7
|
1.0
|
C1
|
D:TLA1275
|
3.0
|
51.7
|
1.0
|
CD2
|
D:HIS141
|
3.1
|
27.4
|
1.0
|
CD2
|
D:HIS212
|
3.2
|
32.6
|
1.0
|
CE1
|
D:HIS212
|
3.3
|
30.1
|
1.0
|
CE1
|
D:HIS141
|
3.3
|
27.9
|
1.0
|
CD2
|
D:HIS143
|
3.4
|
29.6
|
1.0
|
CE1
|
D:HIS143
|
3.4
|
28.0
|
1.0
|
N
|
D:GLY31
|
3.9
|
32.4
|
1.0
|
CG
|
D:HIS141
|
4.3
|
29.9
|
1.0
|
ND1
|
D:HIS141
|
4.4
|
28.2
|
1.0
|
ND1
|
D:HIS212
|
4.4
|
33.0
|
1.0
|
CG
|
D:HIS212
|
4.4
|
31.3
|
1.0
|
C2
|
D:TLA1275
|
4.5
|
53.6
|
1.0
|
ND1
|
D:HIS143
|
4.5
|
29.5
|
1.0
|
CA
|
D:GLY31
|
4.5
|
30.2
|
1.0
|
CG
|
D:HIS143
|
4.5
|
27.7
|
1.0
|
CA
|
D:GLY30
|
4.9
|
33.5
|
1.0
|
C
|
D:GLY30
|
4.9
|
33.9
|
1.0
|
ND2
|
D:ASN32
|
4.9
|
35.9
|
1.0
|
O2
|
D:TLA1275
|
4.9
|
55.5
|
1.0
|
O
|
A:HOH2188
|
4.9
|
65.9
|
1.0
|
OE1
|
D:GLU117
|
5.0
|
43.2
|
1.0
|
CZ3
|
D:TRP209
|
5.0
|
37.1
|
1.0
|
|
Reference:
D.Grueninger,
N.Treiber,
M.O.P.Ziegler,
J.W.A.Koetter,
M.-S.Schulze,
G.E.Schulz.
Designed Protein-Protein Association. Science V. 319 206 2008.
ISSN: ISSN 0036-8075
PubMed: 18187656
DOI: 10.1126/SCIENCE.1150421
Page generated: Thu Oct 17 04:01:05 2024
|