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Calcium in PDB 5keg: Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna

Protein crystallography data

The structure of Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna, PDB code: 5keg was solved by T.Kouno, B.J.Hilbert, T.Silvas, W.E.Royer, H.Matsuo, C.A.Schiffer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.71 / 2.20
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 56.583, 72.666, 114.971, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 22.5

Other elements in 5keg:

The structure of Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna (pdb code 5keg). 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 Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna, PDB code: 5keg:

Calcium binding site 1 out of 1 in 5keg

Go back to Calcium Binding Sites List in 5keg
Calcium binding site 1 out of 1 in the Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of APOBEC3A in Complex with A Single-Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca202

b:89.3
occ:1.00
OE2 A:GLU157 3.9 29.5 1.0
O A:HOH387 4.0 48.9 1.0
CG A:GLU157 4.4 22.5 1.0
CD A:GLU157 4.6 25.9 1.0
CG A:HIS160 4.9 27.6 1.0
CB A:HIS160 4.9 27.6 1.0
O A:ASP156 5.0 28.2 1.0

Reference:

T.Kouno, T.V.Silvas, B.J.Hilbert, S.M.D.Shandilya, M.F.Bohn, B.A.Kelch, W.E.Royer, M.Somasundaran, N.Kurt Yilmaz, H.Matsuo, C.A.Schiffer. Crystal Structure of APOBEC3A Bound to Single-Stranded Dna Reveals Structural Basis For Cytidine Deamination and Specificity. Nat Commun V. 8 15024 2017.
ISSN: ESSN 2041-1723
PubMed: 28452355
DOI: 10.1038/NCOMMS15024
Page generated: Sat Dec 12 05:33:16 2020

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