Atomistry » Calcium » PDB 2bw7-2c4x » 2c2r
Atomistry »
  Calcium »
    PDB 2bw7-2c4x »
      2c2r »

Calcium in PDB 2c2r: Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4

Enzymatic activity of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4

All present enzymatic activity of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4:
2.7.7.7;

Protein crystallography data

The structure of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4, PDB code: 2c2r was solved by A.Irimia, L.V.Loukachevitch, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.99 / 2.55
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 95.200, 100.150, 52.000, 90.00, 90.00, 90.00
R / Rfree (%) 25.1 / 31

Calcium Binding Sites:

The binding sites of Calcium atom in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 (pdb code 2c2r). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4, PDB code: 2c2r:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 2c2r

Go back to Calcium Binding Sites List in 2c2r
Calcium binding site 1 out of 4 in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1343

b:50.6
occ:1.00
 OE2 A:GLU106 2.4 49.9 1.0
OP2 P:DOC14 2.6 33.1 1.0
OD2 A:ASP105 2.6 20.5 1.0
OD2 A:ASP7 2.7 51.9 1.0
OD1 A:ASP105 2.8 32.0 1.0
O1A A:DCT1342 3.0 72.3 1.0
CG A:ASP105 3.0 27.3 1.0
CA A:CA1344 3.1 41.8 1.0
CD A:GLU106 3.2 51.0 1.0
CG A:GLU106 3.2 46.8 1.0
CG A:ASP7 3.7 49.0 1.0
P P:DOC14 3.8 35.8 1.0
O A:HOH2067 4.0 47.9 1.0
O3A A:DCT1342 4.0 74.5 1.0
PA A:DCT1342 4.1 71.2 1.0
O A:ASP105 4.1 28.1 1.0
OP1 P:DOC14 4.2 33.4 1.0
C5' A:DCT1342 4.2 64.2 1.0
OD1 A:ASP7 4.3 49.2 1.0
OE1 A:GLU106 4.4 53.7 1.0
O2G A:DCT1342 4.4 65.7 1.0
C A:ASP105 4.4 32.5 1.0
O A:HOH2022 4.5 24.3 1.0
CB A:ASP105 4.5 26.4 1.0
CB A:GLU106 4.5 41.6 1.0
O5' P:DOC14 4.5 38.5 1.0
O5' A:DCT1342 4.7 68.7 1.0
OG A:SER103 4.7 40.6 1.0
CB A:ASP7 4.7 47.8 1.0
N A:GLU106 4.8 35.8 1.0
NZ A:LYS152 4.9 34.6 1.0
CA A:GLU106 4.9 39.8 1.0
O A:HOH2002 4.9 25.6 1.0

Calcium binding site 2 out of 4 in 2c2r

Go back to Calcium Binding Sites List in 2c2r
Calcium binding site 2 out of 4 in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1344

b:41.8
occ:1.00
 O2G A:DCT1342 2.1 65.7 1.0
OD2 A:ASP105 2.3 20.5 1.0
O A:PHE8 2.4 30.3 1.0
OD1 A:ASP7 2.8 49.2 1.0
CA A:CA1343 3.1 50.6 1.0
O3A A:DCT1342 3.1 74.5 1.0
OD2 A:ASP7 3.2 51.9 1.0
CG A:ASP7 3.3 49.0 1.0
CG A:ASP105 3.5 27.3 1.0
PG A:DCT1342 3.6 66.4 1.0
C A:PHE8 3.6 34.0 1.0
O2B A:DCT1342 3.7 73.8 1.0
PB A:DCT1342 3.8 77.8 1.0
O3B A:DCT1342 3.8 71.8 1.0
O A:HOH2022 3.9 24.3 1.0
O1A A:DCT1342 4.2 72.3 1.0
N A:PHE8 4.2 38.4 1.0
OD1 A:ASP105 4.3 32.0 1.0
PA A:DCT1342 4.3 71.2 1.0
CB A:ASP105 4.4 26.4 1.0
O3G A:DCT1342 4.4 69.4 1.0
O A:HOH2067 4.4 47.9 1.0
CA A:PHE8 4.5 35.0 1.0
N A:TYR10 4.5 35.0 1.0
N A:ASP9 4.5 35.1 1.0
O1G A:DCT1342 4.5 67.7 1.0
CA A:ASP9 4.5 36.3 1.0
N A:PHE11 4.6 35.2 1.0
C A:ASP9 4.6 36.4 1.0
O A:ASP105 4.6 28.1 1.0
C A:ASP7 4.6 42.3 1.0
CB A:PHE11 4.6 35.8 1.0
CB A:ASP7 4.7 47.8 1.0
CB A:PHE8 4.9 34.3 1.0

Calcium binding site 3 out of 4 in 2c2r

Go back to Calcium Binding Sites List in 2c2r
Calcium binding site 3 out of 4 in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1345

b:72.6
occ:1.00
 O A:ILE186 2.5 39.4 1.0
O A:ALA181 2.5 49.4 1.0
O P:HOH2019 3.1 62.3 1.0
C A:ILE186 3.7 38.5 1.0
C A:ALA181 3.7 49.2 1.0
CA A:GLY187 4.2 40.7 1.0
C A:GLY187 4.2 41.6 1.0
O A:GLY187 4.3 40.6 1.0
N A:GLY187 4.4 40.8 1.0
CA A:ALA181 4.4 50.2 1.0
OP2 P:DC13 4.6 30.5 1.0
CB A:ILE186 4.7 37.2 1.0
CB A:ALA181 4.7 50.4 1.0
N A:ASN188 4.7 41.0 1.0
N A:ASP182 4.7 47.8 1.0
CA A:ILE186 4.8 36.5 1.0
CG2 A:ILE186 4.8 34.0 1.0
CA A:ASP182 4.9 44.7 1.0

Calcium binding site 4 out of 4 in 2c2r

Go back to Calcium Binding Sites List in 2c2r
Calcium binding site 4 out of 4 in the Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1346

b:65.0
occ:1.00
 OP1 P:DOC14 2.5 33.4 1.0
O A:HOH2067 2.8 47.9 1.0
O1A A:DCT1342 3.1 72.3 1.0
O2A A:DCT1342 3.2 70.4 1.0
PA A:DCT1342 3.7 71.2 1.0
O P:HOH2018 3.8 47.5 1.0
P P:DOC14 3.8 35.8 1.0
C3' P:DC13 4.3 31.7 1.0
O3' P:DC13 4.3 35.6 1.0
O A:HOH2030 4.5 64.1 1.0
OP2 P:DOC14 4.6 33.1 1.0
C2' P:DC13 4.7 32.1 1.0
O5' A:DCT1342 4.8 68.7 1.0
O3A A:DCT1342 4.9 74.5 1.0
NZ A:LYS152 4.9 34.6 1.0
O5' P:DOC14 4.9 38.5 1.0

Reference:

H.Zang, A.Irimia, J.-Y.Choi, K.C.Angel, L.V.Loukachevitch, M.Egli, F.P.Guengerich. Efficient and High Fidelity Incorporation of Dctp Opposite 7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus Solfataricus Dna Polymerase DPO4 J.Biol.Chem. V. 281 2358 2006.
ISSN: ISSN 0021-9258
PubMed: 16306039
DOI: 10.1074/JBC.M510889200
Page generated: Fri Jul 12 09:19:56 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy