Calcium in PDB 4ri8: FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna

All present enzymatic activity of FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna:
3.1.4.1;

The structure of FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna, PDB code: 4ri8 was solved by N.P.Pavletich, R.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	70.00 / 2.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	62.260, 210.880, 83.220, 90.00, 107.61, 90.00
R / Rfree (%)	22.1 / 25.5

The binding sites of Calcium atom in the FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna (pdb code 4ri8). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna, PDB code: 4ri8:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1101 b:59.7 occ:1.00 O A:VAL976 2.3 92.7 1.0 OD2 A:ASP960 2.3 89.7 1.0 OP1 F:DG3 2.3 1.0 1.0 OE2 A:GLU975 2.3 84.5 1.0 CG A:ASP960 3.0 82.5 1.0 OD1 A:ASP960 3.0 83.5 1.0 OE2 A:GLU815 3.2 83.0 1.0 CD A:GLU975 3.5 78.3 1.0 C A:VAL976 3.5 87.1 1.0 P F:DG3 3.7 0.3 1.0 NZ A:LYS977 3.7 80.9 1.0 OE1 A:GLU975 4.1 75.7 1.0 O5' F:DG3 4.2 0.1 1.0 N A:VAL976 4.2 78.4 1.0 CD A:GLU815 4.3 84.5 1.0 CA A:VAL976 4.3 83.1 1.0 CB A:ASP960 4.4 78.2 1.0 C5' F:DG3 4.4 0.0 1.0 CB A:VAL976 4.5 83.8 1.0 N A:LYS977 4.5 88.4 1.0 OD2 A:ASP981 4.6 0.5 1.0 CG A:GLU975 4.6 79.4 1.0 CG A:GLU815 4.6 82.2 1.0 O3' F:DG2 4.7 0.6 1.0 OP2 F:DG3 4.7 0.8 1.0 CA A:LYS977 4.8 88.1 1.0 CE A:LYS977 4.8 81.2 1.0 NE2 A:GLN987 5.0 62.5 1.0

Calcium binding site 2 out of 2 in the FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of FAN1 Nuclease Bound to 5' Phosphorylated P(Dg)/3'(Dt-Dt-Dt-Dt) Double Flap Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1101 b:77.6 occ:1.00 OP1 I:DG3 2.3 0.7 1.0 OE2 B:GLU975 2.3 0.9 1.0 OD2 B:ASP960 2.3 0.3 1.0 O B:VAL976 2.3 0.3 1.0 CG B:ASP960 3.1 0.2 1.0 OD1 B:ASP960 3.1 0.8 1.0 OE2 B:GLU815 3.3 0.5 1.0 CD B:GLU975 3.5 0.5 1.0 C B:VAL976 3.5 0.6 1.0 NZ B:LYS977 3.6 0.2 1.0 P I:DG3 3.8 0.1 1.0 OE1 B:GLU975 4.0 0.4 1.0 N B:VAL976 4.3 0.5 1.0 O5' I:DG3 4.3 0.0 1.0 CA B:VAL976 4.4 0.7 1.0 CD B:GLU815 4.4 0.6 1.0 OD2 B:ASP981 4.5 0.1 1.0 CB B:ASP960 4.5 0.8 1.0 N B:LYS977 4.6 0.6 1.0 CG B:GLU975 4.6 0.5 1.0 CE B:LYS977 4.6 0.2 1.0 OP2 I:DG3 4.7 0.8 1.0 C5' I:DG3 4.7 0.8 1.0 CB B:VAL976 4.7 0.4 1.0 O3' I:DG2 4.7 0.8 1.0 CG B:GLU815 4.8 0.1 1.0 NE2 B:GLN987 4.8 86.1 1.0 CA B:LYS977 4.8 0.4 1.0 CD B:LYS977 5.0 0.2 1.0

R.Wang, N.Persky, B.Yoo, O.Ouerfelli, A.Smogorzewska, S.Elledge, N.P.Pavletich. Mechanism of Dna Interstrand Cross-Link Processing By Repair Nuclease FAN1 Science 2014.
ISSN: ESSN 1095-9203
DOI: 10.1126/SCIENCE.1258973