Calcium in PDB 7t1b: REV1 Ternary Complex with Rctp and CA2+

The structure of REV1 Ternary Complex with Rctp and CA2+, PDB code: 7t1b was solved by B.D.Freudenthal, T.M.Weaver, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.63 / 1.75
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.193, 73.541, 117.674, 90, 90, 90
R / Rfree (%)	18.3 / 22.8

The binding sites of Calcium atom in the REV1 Ternary Complex with Rctp and CA2+ (pdb code 7t1b). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the REV1 Ternary Complex with Rctp and CA2+, PDB code: 7t1b:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the REV1 Ternary Complex with Rctp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of REV1 Ternary Complex with Rctp and CA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca803 b:16.0 occ:1.00 O1B A:CTP802 2.3 11.0 1.0 OD2 A:ASP362 2.3 23.9 1.0 OD2 A:ASP467 2.4 14.5 1.0 O1G A:CTP802 2.4 16.2 1.0 O A:PHE363 2.4 14.9 1.0 O1A A:CTP802 2.4 14.2 1.0 OD1 A:ASP362 2.8 22.3 1.0 CG A:ASP362 2.9 20.8 1.0 PB A:CTP802 3.4 14.6 1.0 PA A:CTP802 3.5 16.6 1.0 CG A:ASP467 3.5 14.0 1.0 C A:PHE363 3.6 14.2 1.0 PG A:CTP802 3.6 18.1 1.0 O3A A:CTP802 3.7 16.8 1.0 O3B A:CTP802 3.8 17.2 1.0 H5'2 A:CTP802 3.8 23.6 1.0 CA A:CA804 3.9 22.1 0.4 OD1 A:ASP467 4.0 17.9 1.0 N A:PHE363 4.1 12.9 1.0 NZ A:LYS525 4.2 17.9 1.0 O3G A:CTP802 4.2 20.8 1.0 O A:HOH1147 4.3 28.8 1.0 CA A:PHE363 4.3 13.2 1.0 CB A:ASP362 4.4 13.7 1.0 O5' A:CTP802 4.4 19.9 1.0 C A:ASP362 4.6 13.8 1.0 CB A:PHE363 4.6 14.2 1.0 N A:ASP364 4.6 12.6 1.0 C5' A:CTP802 4.6 19.6 1.0 O2A A:CTP802 4.7 17.2 1.0 CB A:PHE366 4.7 11.1 1.0 CE A:LYS525 4.7 23.6 1.0 N A:PHE366 4.7 12.5 1.0 CB A:ASP467 4.7 12.5 1.0 O2B A:CTP802 4.7 15.0 1.0 CA A:ASP364 4.8 15.8 1.0 N A:CYS365 4.8 13.4 1.0 H3' A:CTP802 4.8 20.1 1.0 O2G A:CTP802 4.8 16.2 1.0 O A:ASP467 4.8 12.4 1.0 C A:ASP364 4.9 13.2 1.0 CA A:ASP362 4.9 10.8 1.0

Calcium binding site 2 out of 2 in the REV1 Ternary Complex with Rctp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of REV1 Ternary Complex with Rctp and CA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca804 b:22.1 occ:0.37 OD1 A:ASP467 2.5 17.9 1.0 OE2 A:GLU468 2.6 25.3 1.0 O1A A:CTP802 2.7 14.2 1.0 O3' P:DG12 2.7 44.9 1.0 H5'2 A:CTP802 2.7 23.6 1.0 OD1 A:ASP362 2.9 22.3 1.0 H5'1 A:CTP802 3.1 23.6 1.0 C5' A:CTP802 3.4 19.6 1.0 CG A:ASP467 3.4 14.0 1.0 OD2 A:ASP467 3.5 14.5 1.0 OG A:SER465 3.6 17.0 1.0 CB A:GLU468 3.7 16.3 1.0 CD A:GLU468 3.7 31.1 1.0 PA A:CTP802 3.8 16.6 1.0 C3' P:DG12 3.8 43.4 1.0 CA A:CA803 3.9 16.0 1.0 O5' A:CTP802 4.1 19.9 1.0 CG A:ASP362 4.1 20.8 1.0 O2A A:CTP802 4.3 17.2 1.0 CG A:GLU468 4.3 17.5 1.0 C2' P:DG12 4.4 47.6 1.0 H4' A:CTP802 4.6 20.5 1.0 CB A:SER465 4.7 16.7 1.0 C4' A:CTP802 4.7 17.1 1.0 OD2 A:ASP362 4.7 23.9 1.0 C A:ASP467 4.7 14.1 1.0 OE1 A:GLU468 4.8 25.5 1.0 O A:ASP467 4.8 12.4 1.0 CB A:ASP467 4.8 12.5 1.0 CA A:GLU468 4.9 13.0 1.0 N A:GLU468 4.9 12.8 1.0 O A:HOH1147 5.0 28.8 1.0

T.M.Weaver, T.H.Click, T.H.Khoang, M.Todd Washington, P.K.Agarwal, B.D.Freudenthal. Mechanism of Nucleotide Discrimination By the Translesion Synthesis Polymerase REV1. Nat Commun V. 13 2876 2022.
ISSN: ESSN 2041-1723
PubMed: 35610266
DOI: 10.1038/S41467-022-30577-0