Zinc in PDB 6bms: Palmitoyltransferase Structure
Enzymatic activity of Palmitoyltransferase Structure
All present enzymatic activity of Palmitoyltransferase Structure:
2.3.1.225;
Protein crystallography data
The structure of Palmitoyltransferase Structure, PDB code: 6bms
was solved by
P.Kumar,
K.Rajashankar,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
37.21 /
2.44
|
Space group
|
P 42 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
186.402,
186.402,
90.177,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
23.3 /
26.1
|
Zinc Binding Sites:
The binding sites of Zinc atom in the Palmitoyltransferase Structure
(pdb code 6bms). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the
Palmitoyltransferase Structure, PDB code: 6bms:
Jump to Zinc binding site number:
1;
2;
3;
4;
Zinc binding site 1 out
of 4 in 6bms
Go back to
Zinc Binding Sites List in 6bms
Zinc binding site 1 out
of 4 in the Palmitoyltransferase Structure
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Palmitoyltransferase Structure within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1001
b:58.7
occ:1.00
|
ND1
|
A:HIS128
|
2.2
|
83.5
|
1.0
|
SG
|
A:CYS115
|
2.4
|
55.3
|
1.0
|
SG
|
A:CYS135
|
2.4
|
54.6
|
1.0
|
SG
|
A:CYS118
|
2.5
|
63.5
|
1.0
|
CE1
|
A:HIS128
|
2.8
|
71.8
|
1.0
|
CG
|
A:HIS128
|
3.0
|
71.9
|
1.0
|
N
|
A:CYS135
|
3.2
|
55.7
|
1.0
|
CB
|
A:CYS118
|
3.2
|
63.0
|
1.0
|
CB
|
A:CYS135
|
3.4
|
49.8
|
1.0
|
CB
|
A:CYS115
|
3.4
|
58.0
|
1.0
|
CB
|
A:HIS128
|
3.5
|
50.0
|
1.0
|
CA
|
A:CYS135
|
3.6
|
49.0
|
1.0
|
NE2
|
A:HIS128
|
3.7
|
77.0
|
1.0
|
CD2
|
A:HIS128
|
3.8
|
81.2
|
1.0
|
C
|
A:THR134
|
3.9
|
55.1
|
1.0
|
N
|
A:CYS118
|
4.0
|
66.9
|
1.0
|
CA
|
A:HIS128
|
4.2
|
54.4
|
1.0
|
CA
|
A:CYS118
|
4.3
|
64.5
|
1.0
|
CA
|
A:THR134
|
4.4
|
67.6
|
1.0
|
O
|
A:THR134
|
4.5
|
56.5
|
1.0
|
CA
|
A:CYS115
|
4.9
|
63.4
|
1.0
|
CB
|
A:ARG117
|
4.9
|
70.8
|
1.0
|
|
Zinc binding site 2 out
of 4 in 6bms
Go back to
Zinc Binding Sites List in 6bms
Zinc binding site 2 out
of 4 in the Palmitoyltransferase Structure
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Palmitoyltransferase Structure within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1002
b:62.0
occ:1.00
|
SG
|
A:CYS149
|
2.1
|
58.6
|
1.0
|
ND1
|
A:HIS142
|
2.2
|
70.5
|
1.0
|
SG
|
A:CYS129
|
2.3
|
50.9
|
1.0
|
SG
|
A:CYS132
|
2.3
|
72.2
|
1.0
|
CE1
|
A:HIS142
|
3.1
|
63.3
|
1.0
|
CG
|
A:HIS142
|
3.1
|
70.7
|
1.0
|
CB
|
A:CYS149
|
3.2
|
53.4
|
1.0
|
CB
|
A:CYS129
|
3.3
|
48.3
|
1.0
|
CB
|
A:CYS132
|
3.4
|
72.7
|
1.0
|
CB
|
A:HIS142
|
3.4
|
45.9
|
1.0
|
N
|
A:CYS132
|
3.7
|
64.3
|
1.0
|
CA
|
A:CYS149
|
3.7
|
52.7
|
1.0
|
N
|
A:CYS149
|
3.8
|
57.2
|
1.0
|
NE2
|
A:HIS142
|
4.1
|
73.0
|
1.0
|
CD2
|
A:HIS142
|
4.1
|
60.6
|
1.0
|
CA
|
A:CYS132
|
4.1
|
58.0
|
1.0
|
CA
|
A:HIS142
|
4.2
|
53.7
|
1.0
|
CB
|
A:VAL131
|
4.4
|
66.4
|
1.0
|
C
|
A:ASN148
|
4.5
|
64.2
|
1.0
|
CA
|
A:CYS129
|
4.7
|
57.9
|
1.0
|
C
|
A:VAL131
|
4.7
|
73.6
|
1.0
|
O
|
A:ASN148
|
4.9
|
68.8
|
1.0
|
CA
|
A:VAL131
|
5.0
|
65.3
|
1.0
|
|
Zinc binding site 3 out
of 4 in 6bms
Go back to
Zinc Binding Sites List in 6bms
Zinc binding site 3 out
of 4 in the Palmitoyltransferase Structure
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Palmitoyltransferase Structure within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn1001
b:63.3
occ:1.00
|
ND1
|
D:HIS132
|
2.1
|
66.3
|
1.0
|
SG
|
D:CYS119
|
2.4
|
63.4
|
1.0
|
SG
|
D:CYS122
|
2.4
|
63.0
|
1.0
|
SG
|
D:CYS139
|
2.5
|
57.1
|
1.0
|
CE1
|
D:HIS132
|
3.1
|
52.6
|
1.0
|
CG
|
D:HIS132
|
3.1
|
65.2
|
1.0
|
CB
|
D:CYS122
|
3.2
|
60.0
|
1.0
|
N
|
D:CYS139
|
3.3
|
59.0
|
1.0
|
CB
|
D:CYS139
|
3.4
|
50.0
|
1.0
|
CB
|
D:CYS119
|
3.4
|
62.8
|
1.0
|
CB
|
D:HIS132
|
3.5
|
54.9
|
1.0
|
CA
|
D:CYS139
|
3.6
|
56.5
|
1.0
|
C
|
D:THR138
|
3.9
|
68.4
|
1.0
|
N
|
D:CYS122
|
4.0
|
63.9
|
1.0
|
NE2
|
D:HIS132
|
4.2
|
61.5
|
1.0
|
CA
|
D:HIS132
|
4.2
|
60.1
|
1.0
|
CD2
|
D:HIS132
|
4.2
|
53.5
|
1.0
|
CA
|
D:CYS122
|
4.3
|
58.2
|
1.0
|
CA
|
D:THR138
|
4.5
|
71.6
|
1.0
|
O
|
D:THR138
|
4.5
|
63.2
|
1.0
|
CA
|
D:CYS119
|
4.8
|
54.3
|
1.0
|
N
|
D:HIS132
|
5.0
|
55.1
|
1.0
|
|
Zinc binding site 4 out
of 4 in 6bms
Go back to
Zinc Binding Sites List in 6bms
Zinc binding site 4 out
of 4 in the Palmitoyltransferase Structure
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Palmitoyltransferase Structure within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn1002
b:63.6
occ:1.00
|
CD2
|
D:HIS146
|
2.2
|
68.5
|
1.0
|
SG
|
D:CYS133
|
2.3
|
58.4
|
1.0
|
SG
|
D:CYS136
|
2.4
|
63.6
|
1.0
|
SG
|
D:CYS153
|
2.4
|
60.0
|
1.0
|
CB
|
D:CYS153
|
3.0
|
54.5
|
1.0
|
CG
|
D:HIS146
|
3.2
|
62.7
|
1.0
|
NE2
|
D:HIS146
|
3.3
|
61.8
|
1.0
|
CB
|
D:CYS133
|
3.3
|
58.3
|
1.0
|
CB
|
D:CYS136
|
3.4
|
59.3
|
1.0
|
CA
|
D:CYS153
|
3.5
|
59.1
|
1.0
|
CB
|
D:HIS146
|
3.6
|
50.9
|
1.0
|
N
|
D:CYS153
|
3.7
|
59.1
|
1.0
|
N
|
D:CYS136
|
3.8
|
72.7
|
1.0
|
CA
|
D:HIS146
|
4.1
|
51.8
|
1.0
|
CA
|
D:CYS136
|
4.2
|
58.5
|
1.0
|
ND1
|
D:HIS146
|
4.3
|
63.8
|
1.0
|
CE1
|
D:HIS146
|
4.4
|
61.4
|
1.0
|
C
|
D:ASN152
|
4.5
|
70.2
|
1.0
|
CB
|
D:VAL135
|
4.7
|
63.3
|
1.0
|
CA
|
D:CYS133
|
4.7
|
55.6
|
1.0
|
N
|
D:HIS146
|
4.9
|
53.7
|
1.0
|
CE
|
D:MET143
|
4.9
|
59.8
|
1.0
|
C
|
D:VAL135
|
4.9
|
71.9
|
1.0
|
O
|
D:ASN152
|
5.0
|
70.4
|
1.0
|
C
|
D:CYS153
|
5.0
|
53.5
|
1.0
|
|
Reference:
M.S.Rana,
P.Kumar,
C.J.Lee,
R.Verardi,
K.R.Rajashankar,
A.Banerjee.
Fatty Acyl Recognition and Transfer By An Integral Membranes-Acyltransferase. Science V. 359 2018.
ISSN: ESSN 1095-9203
PubMed: 29326245
DOI: 10.1126/SCIENCE.AAO6326
Page generated: Mon Oct 28 18:08:31 2024
|