Calcium in PDB 5nbl: Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody

The structure of Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody, PDB code: 5nbl was solved by K.R.Knoll, S.Eustermann, K.P.Hopfner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.43 / 2.80
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	191.224, 191.224, 221.973, 90.00, 90.00, 120.00
R / Rfree (%)	17.1 / 20.4

The binding sites of Calcium atom in the Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody (pdb code 5nbl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody, PDB code: 5nbl:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody


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 the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:61.1 occ:1.00 O A:HOH610 2.3 58.2 1.0 O2B A:ATP502 2.3 44.1 1.0 O A:HOH601 2.4 46.7 1.0 O1G A:ATP502 2.5 55.6 1.0 O A:HOH602 3.5 45.4 1.0 OD2 A:ASP159 3.6 57.8 1.0 PG A:ATP502 3.6 37.9 1.0 PB A:ATP502 3.7 34.5 1.0 O3G A:ATP502 3.9 37.6 1.0 OD1 A:ASP159 4.0 62.5 1.0 O3B A:ATP502 4.1 50.3 1.0 CG A:ASP159 4.2 62.4 1.0 O2A A:ATP502 4.4 38.6 1.0 O A:HOH612 4.6 45.9 1.0 O3A A:ATP502 4.6 31.6 1.0 O1B A:ATP502 4.8 35.4 1.0 O A:HOH615 4.8 43.0 1.0 O A:HOH626 4.9 37.4 1.0 O2G A:ATP502 5.0 44.7 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the ARP4-N-Actin(Apo-State) Heterodimer Bound By A Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:62.0 occ:1.00 O B:HOH607 2.2 42.8 1.0 O1B B:ATP502 2.3 44.0 1.0 O B:HOH605 2.4 61.8 1.0 O2G B:ATP502 2.5 50.6 1.0 O B:HOH616 3.4 50.2 1.0 PG B:ATP502 3.6 37.9 1.0 PB B:ATP502 3.7 35.7 1.0 OD2 B:ASP159 3.7 55.9 1.0 O3G B:ATP502 3.9 39.1 1.0 O3B B:ATP502 4.1 48.1 1.0 OD1 B:ASP159 4.2 65.5 1.0 CG B:ASP159 4.3 67.9 1.0 O1A B:ATP502 4.4 42.0 1.0 O3A B:ATP502 4.6 36.7 1.0 O2B B:ATP502 4.8 37.2 1.0 O B:HOH610 4.8 49.1 1.0 O B:HOH623 4.9 32.8 1.0 O1G B:ATP502 4.9 46.8 1.0 O B:HOH614 4.9 44.1 1.0

K.R.Knoll, S.Eustermann, V.Niebauer, E.Oberbeckmann, G.Stoehr, K.Schall, A.Tosi, M.Schwarz, A.Buchfellner, P.Korber, K.P.Hopfner. The Nuclear Actin-Containing ARP8 Module Is A Linker Dna Sensor Driving INO80 Chromatin Remodeling. Nat. Struct. Mol. Biol. V. 25 823 2018.
ISSN: ESSN 1545-9985
PubMed: 30177756
DOI: 10.1038/S41594-018-0115-8