Calcium in PDB 1jpn: Gmppnp Complex of Srp Gtpase Ng Domain

The structure of Gmppnp Complex of Srp Gtpase Ng Domain, PDB code: 1jpn was solved by S.Padmanabhan, D.M.Freymann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 1.90
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	108.815, 54.531, 99.078, 90.00, 97.42, 90.00
R / Rfree (%)	19 / 24.1

The binding sites of Calcium atom in the Gmppnp Complex of Srp Gtpase Ng Domain (pdb code 1jpn). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Gmppnp Complex of Srp Gtpase Ng Domain, PDB code: 1jpn:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Gmppnp Complex of Srp Gtpase Ng Domain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Gmppnp Complex of Srp Gtpase Ng Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca900 b:16.0 occ:1.00 O A:HOH1492 2.4 17.0 1.0 O A:HOH1494 2.4 12.6 1.0 OE1 B:GLU46 2.4 17.5 1.0 O A:HOH1495 2.4 13.9 1.0 OE2 B:GLU46 2.4 19.4 1.0 O B:HOH1493 2.5 20.8 1.0 CD B:GLU46 2.8 19.4 1.0 O B:HOH1126 4.3 30.9 1.0 CG B:GLU46 4.3 13.0 1.0 O A:HOH1155 4.3 34.5 1.0 O B:HOH1135 4.6 24.6 1.0 O A:GLY293 4.6 15.3 1.0 O A:GLY295 4.8 16.5 1.0 NE2 B:HIS261 4.8 22.8 1.0 N A:GLY295 4.9 17.4 1.0

Calcium binding site 2 out of 2 in the Gmppnp Complex of Srp Gtpase Ng Domain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Gmppnp Complex of Srp Gtpase Ng Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca901 b:37.0 occ:1.00 O A:HOH1497 2.4 37.7 1.0 O A:HOH1498 2.4 36.4 1.0 O A:HOH1496 2.5 32.5 1.0 OE1 A:GLU46 2.5 37.1 1.0 OE2 A:GLU46 2.5 39.9 1.0 CD A:GLU46 2.8 38.4 1.0 CG A:GLU46 4.3 32.9 1.0 O A:HOH1240 4.5 45.6 1.0 NE2 A:HIS261 4.7 37.7 1.0 O A:HOH1213 4.9 32.9 1.0

S.Padmanabhan, D.M.Freymann. The Conformation of Bound Gmppnp Suggests A Mechanism For Gating the Active Site of the Srp Gtpase. Structure V. 9 859 2001.
ISSN: ISSN 0969-2126
PubMed: 11566135
DOI: 10.1016/S0969-2126(01)00641-4