Mercury in PDB 1vcp: Semliki Forest Virus Capsid Protein (Crystal Form I)
Protein crystallography data
The structure of Semliki Forest Virus Capsid Protein (Crystal Form I), PDB code: 1vcp
was solved by
G.Lu,
H.-K.Choi,
M.G.Rossmann,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
6.00 /
3.00
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
39.140,
176.220,
40.210,
90.00,
110.36,
90.00
|
R / Rfree (%)
|
15.7 /
n/a
|
Mercury Binding Sites:
The binding sites of Mercury atom in the Semliki Forest Virus Capsid Protein (Crystal Form I)
(pdb code 1vcp). This binding sites where shown within
5.0 Angstroms radius around Mercury atom.
In total 3 binding sites of Mercury where determined in the
Semliki Forest Virus Capsid Protein (Crystal Form I), PDB code: 1vcp:
Jump to Mercury binding site number:
1;
2;
3;
Mercury binding site 1 out
of 3 in 1vcp
Go back to
Mercury Binding Sites List in 1vcp
Mercury binding site 1 out
of 3 in the Semliki Forest Virus Capsid Protein (Crystal Form I)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 1 of Semliki Forest Virus Capsid Protein (Crystal Form I) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Hg272
b:33.9
occ:1.00
|
SG
|
A:CYS119
|
2.5
|
21.8
|
1.0
|
SG
|
A:CYS134
|
2.6
|
22.1
|
1.0
|
CB
|
A:CYS119
|
3.3
|
22.8
|
1.0
|
CB
|
A:CYS134
|
3.4
|
20.7
|
1.0
|
O
|
A:CYS119
|
3.6
|
20.5
|
1.0
|
N
|
A:LEU135
|
3.7
|
12.4
|
1.0
|
C
|
A:CYS119
|
3.8
|
18.6
|
1.0
|
CB
|
A:SER182
|
3.8
|
18.1
|
1.0
|
O
|
A:LEU135
|
3.9
|
18.0
|
1.0
|
CA
|
A:CYS134
|
4.0
|
15.5
|
1.0
|
CA
|
A:CYS119
|
4.1
|
20.3
|
1.0
|
C
|
A:CYS134
|
4.2
|
14.7
|
1.0
|
C
|
A:LEU135
|
4.2
|
14.8
|
1.0
|
CG2
|
A:VAL230
|
4.3
|
2.0
|
1.0
|
CG1
|
A:ILE120
|
4.3
|
9.4
|
1.0
|
N
|
A:ILE120
|
4.4
|
15.2
|
1.0
|
CG
|
A:PRO222
|
4.4
|
2.0
|
1.0
|
OG
|
A:SER182
|
4.4
|
20.0
|
1.0
|
CA
|
A:LEU135
|
4.5
|
13.4
|
1.0
|
CZ
|
A:PHE224
|
4.5
|
14.1
|
1.0
|
CB
|
A:PRO222
|
4.7
|
2.0
|
1.0
|
CE1
|
A:PHE224
|
4.7
|
14.3
|
1.0
|
N
|
A:VAL136
|
4.8
|
18.3
|
1.0
|
CD1
|
A:ILE120
|
4.8
|
5.8
|
1.0
|
CA
|
A:ILE120
|
4.8
|
9.3
|
1.0
|
CD
|
A:PRO222
|
4.9
|
3.8
|
1.0
|
|
Mercury binding site 2 out
of 3 in 1vcp
Go back to
Mercury Binding Sites List in 1vcp
Mercury binding site 2 out
of 3 in the Semliki Forest Virus Capsid Protein (Crystal Form I)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 2 of Semliki Forest Virus Capsid Protein (Crystal Form I) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Hg271
b:25.6
occ:1.00
|
SG
|
B:CYS134
|
2.4
|
13.7
|
1.0
|
SG
|
B:CYS119
|
2.5
|
24.5
|
1.0
|
CB
|
B:CYS134
|
3.2
|
15.7
|
1.0
|
CB
|
B:CYS119
|
3.4
|
23.6
|
1.0
|
O
|
B:CYS119
|
3.5
|
17.5
|
1.0
|
N
|
B:LEU135
|
3.5
|
4.7
|
1.0
|
O
|
B:LEU135
|
3.6
|
14.1
|
1.0
|
CA
|
B:CYS134
|
3.7
|
11.1
|
1.0
|
C
|
B:CYS119
|
3.8
|
16.4
|
1.0
|
C
|
B:CYS134
|
3.9
|
8.6
|
1.0
|
C
|
B:LEU135
|
4.0
|
10.8
|
1.0
|
CB
|
B:SER182
|
4.0
|
20.0
|
1.0
|
CA
|
B:CYS119
|
4.1
|
18.9
|
1.0
|
CG2
|
B:VAL136
|
4.2
|
2.0
|
1.0
|
CG
|
B:PRO222
|
4.3
|
2.0
|
1.0
|
CA
|
B:LEU135
|
4.4
|
8.0
|
1.0
|
CG1
|
B:ILE120
|
4.4
|
11.5
|
1.0
|
CG2
|
B:VAL230
|
4.4
|
2.0
|
1.0
|
N
|
B:ILE120
|
4.5
|
13.5
|
1.0
|
CB
|
B:PRO222
|
4.6
|
2.0
|
1.0
|
CZ
|
B:PHE224
|
4.7
|
12.1
|
1.0
|
CE1
|
B:PHE224
|
4.7
|
10.6
|
1.0
|
N
|
B:VAL136
|
4.7
|
8.0
|
1.0
|
OG
|
B:SER182
|
4.8
|
24.5
|
1.0
|
O
|
B:CYS134
|
4.8
|
10.9
|
1.0
|
CD1
|
B:ILE120
|
4.8
|
7.3
|
1.0
|
CA
|
B:ILE120
|
5.0
|
12.7
|
1.0
|
|
Mercury binding site 3 out
of 3 in 1vcp
Go back to
Mercury Binding Sites List in 1vcp
Mercury binding site 3 out
of 3 in the Semliki Forest Virus Capsid Protein (Crystal Form I)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 3 of Semliki Forest Virus Capsid Protein (Crystal Form I) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Hg273
b:35.2
occ:1.00
|
SG
|
C:CYS119
|
2.5
|
27.4
|
1.0
|
O
|
C:CYS119
|
2.6
|
19.1
|
1.0
|
SG
|
C:CYS134
|
2.6
|
22.1
|
1.0
|
C
|
C:CYS119
|
3.2
|
18.4
|
1.0
|
CB
|
C:CYS119
|
3.3
|
24.0
|
1.0
|
CB
|
C:CYS134
|
3.3
|
18.7
|
1.0
|
N
|
C:LEU135
|
3.5
|
10.7
|
1.0
|
CA
|
C:CYS134
|
3.7
|
16.0
|
1.0
|
CA
|
C:CYS119
|
3.8
|
20.2
|
1.0
|
CG1
|
C:ILE120
|
3.9
|
9.9
|
1.0
|
O
|
C:LEU135
|
4.0
|
19.7
|
1.0
|
C
|
C:CYS134
|
4.0
|
15.0
|
1.0
|
N
|
C:ILE120
|
4.0
|
15.4
|
1.0
|
CB
|
C:SER182
|
4.2
|
20.9
|
1.0
|
CG
|
C:PRO222
|
4.2
|
2.0
|
1.0
|
C
|
C:LEU135
|
4.3
|
14.7
|
1.0
|
CA
|
C:ILE120
|
4.4
|
9.6
|
1.0
|
CA
|
C:LEU135
|
4.5
|
10.7
|
1.0
|
CD1
|
C:ILE120
|
4.5
|
10.0
|
1.0
|
CB
|
C:PRO222
|
4.6
|
2.7
|
1.0
|
CZ
|
C:PHE224
|
4.7
|
15.7
|
1.0
|
CG2
|
C:VAL230
|
4.7
|
7.0
|
1.0
|
OG
|
C:SER182
|
4.8
|
18.2
|
1.0
|
CB
|
C:ILE120
|
4.8
|
5.7
|
1.0
|
CD
|
C:PRO222
|
4.9
|
2.0
|
1.0
|
N
|
C:VAL136
|
4.9
|
14.2
|
1.0
|
CE1
|
C:PHE224
|
4.9
|
13.4
|
1.0
|
|
Reference:
H.K.Choi,
G.Lu,
S.Lee,
G.Wengler,
M.G.Rossmann.
Structure of Semliki Forest Virus Core Protein. Proteins V. 27 345 1997.
ISSN: ISSN 0887-3585
PubMed: 9094737
DOI: 10.1002/(SICI)1097-0134(199703)27:3<345::AID-PROT3>3.0.CO;2-C
Page generated: Sun Aug 11 01:41:18 2024
|