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Calcium in PDB 3agp: Structure of Viral Polymerase Form I

Protein crystallography data

The structure of Structure of Viral Polymerase Form I, PDB code: 3agp was solved by D.Takeshita, K.Tomita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.90 / 2.80
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 139.498, 256.428, 100.961, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 28.3

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Viral Polymerase Form I (pdb code 3agp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Structure of Viral Polymerase Form I, PDB code: 3agp:

Calcium binding site 1 out of 1 in 3agp

Go back to Calcium Binding Sites List in 3agp
Calcium binding site 1 out of 1 in the Structure of Viral Polymerase Form I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Viral Polymerase Form I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2001

b:82.2
occ:1.00
O A:HOH2024 2.8 50.9 1.0
OE2 A:GLU1089 2.8 58.9 1.0
OD2 A:ASP968 3.0 72.5 1.0
OD2 A:ASP1054 3.4 44.9 1.0
CG A:ASP1054 3.7 55.2 1.0
CG A:ASP968 3.9 68.2 1.0
CD A:GLU1089 4.0 66.8 1.0
CB A:ASP968 4.1 67.1 1.0
OD1 A:ASP1054 4.1 61.6 1.0
CB A:ASP1054 4.2 48.6 1.0
CA A:ASP1054 4.5 49.1 1.0
CA A:ASP968 4.5 61.5 1.0
OE1 A:GLU1089 4.6 62.8 1.0
O A:ASP1053 4.7 50.8 1.0
O A:VAL967 4.8 47.8 1.0
OD1 A:ASP1053 4.9 59.7 1.0

Reference:

D.Takeshita, K.Tomita. Assembly of Q{Beta} Viral Rna Polymerase with Host Translational Elongation Factors Ef-Tu and -Ts Proc.Natl.Acad.Sci.Usa V. 107 15733 2010.
ISSN: ISSN 0027-8424
PubMed: 20798060
DOI: 10.1073/PNAS.1006559107
Page generated: Sat Dec 12 04:04:03 2020

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