Samarium in PDB 7lw9: Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na

The structure of Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na, PDB code: 7lw9 was solved by C.L.Tsai, J.A.Tainer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.11 / 2.71
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	51.073, 83.664, 96.15, 90, 90, 90
R / Rfree (%)	19.4 / 25.3

The structure of Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na also contains other interesting chemical elements:

Sodium	(Na)	1 atom
Iron	(Fe)	4 atoms

The binding sites of Samarium atom in the Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na (pdb code 7lw9). This binding sites where shown within 5.0 Angstroms radius around Samarium atom.
In total 2 binding sites of Samarium where determined in the Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na, PDB code: 7lw9:
Jump to Samarium binding site number: 1; 2;

Samarium binding site 1 out of 2 in the Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na


Mono view


Stereo pair view

A full contact list of Samarium with other atoms in the Sm binding site number 1 of Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na within 5.0Å range: probe atom residue distance (Å) B Occ A:Sm504 b:44.9 occ:1.00 OD2 A:ASP182 2.2 47.6 1.0 O A:HOH611 2.4 53.6 1.0 OE2 A:GLU196 2.4 48.7 1.0 OP1 B:DG10 2.4 35.1 1.0 O A:ACT502 2.4 51.0 1.0 O A:LEU197 2.5 56.6 1.0 O A:HOH618 2.6 45.1 1.0 OXT A:ACT502 2.8 52.9 1.0 C A:ACT502 2.9 57.0 1.0 CG A:ASP182 3.1 46.4 1.0 OD1 A:ASP182 3.2 44.2 1.0 CD A:GLU196 3.4 51.4 1.0 C A:LEU197 3.7 49.3 1.0 P B:DG10 3.7 52.1 1.0 OE1 A:GLU196 3.8 57.5 1.0 O3' B:DA9 3.8 53.2 1.0 N A:LEU197 4.1 40.5 1.0 CA A:LEU197 4.4 34.8 1.0 CH3 A:ACT502 4.4 58.5 1.0 CB A:ASP182 4.5 37.7 1.0 O B:HOH201 4.6 56.2 1.0 CG A:GLU196 4.6 41.7 1.0 O5' B:DG10 4.6 47.9 1.0 NA A:NA506 4.7 80.7 1.0 N A:LYS198 4.7 52.3 1.0 O A:HOH608 4.7 54.0 1.0 CB A:LEU197 4.7 40.2 1.0 OP2 B:DG10 4.8 55.9 1.0 C5' B:DG10 4.8 59.8 1.0 CD A:LYS198 4.9 43.5 1.0 CA A:LYS198 4.9 43.0 1.0 CE A:LYS198 5.0 32.5 1.0 O A:HOH613 5.0 75.2 1.0 C3' B:DA9 5.0 50.6 1.0

Samarium binding site 2 out of 2 in the Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na


Mono view


Stereo pair view

A full contact list of Samarium with other atoms in the Sm binding site number 2 of Human Exonuclease 5 Crystal Structure in Complex with Ssdna, Sm, and Na within 5.0Å range: probe atom residue distance (Å) B Occ A:Sm505 b:145.3 occ:0.95 OE2 A:GLU165 4.0 106.0 1.0 CG A:GLU165 4.2 60.3 1.0 CD A:GLU165 4.4 96.5 1.0 NH2 A:ARG164 4.5 74.0 1.0

S.Hambarde, C.L.Tsai, R.K.Pandita, A.Bacolla, A.Maitra, V.Charaka, C.R.Hunt, R.Kumar, O.Limbo, R.Le Meur, W.J.Chazin, S.E.Tsutakawa, P.Russell, K.Schlacher, T.K.Pandita, J.A.Tainer. EXO5-Dna Structure and Blm Interactions Direct Dna Resection Critical For Atr-Dependent Replication Restart. Mol.Cell 2021.
ISSN: ISSN 1097-2765
PubMed: 34197737
DOI: 10.1016/J.MOLCEL.2021.05.027