Calcium in PDB 3g4e: Crystal Structure of Human Senescence Marker Protein-30(SMP30)(Calcium Bound)

The structure of Crystal Structure of Human Senescence Marker Protein-30(SMP30)(Calcium Bound), PDB code: 3g4e was solved by S.Chakraborti, B.J.Bahnson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 1.42
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	64.474, 51.001, 86.124, 90.00, 100.11, 90.00
R / Rfree (%)	13.6 / 21

The binding sites of Calcium atom in the Crystal Structure of Human Senescence Marker Protein-30(SMP30)(Calcium Bound) (pdb code 3g4e). 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 Human Senescence Marker Protein-30(SMP30)(Calcium Bound), PDB code: 3g4e:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Human Senescence Marker Protein-30(SMP30)(Calcium Bound)


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 Human Senescence Marker Protein-30(SMP30)(Calcium Bound) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1 b:16.5 occ:1.00 OE2 A:GLU18 2.1 25.3 1.0 O A:HOH337 2.2 20.5 1.0 OD1 A:ASP204 2.2 17.7 1.0 O A:HOH359 2.2 24.8 1.0 O A:HOH329 2.3 21.1 1.0 OD1 A:ASN154 2.6 20.0 1.0 CD A:GLU18 3.0 24.3 1.0 CG A:ASN154 3.3 20.0 1.0 CG A:ASP204 3.4 15.6 1.0 O A:HOH575 3.4 45.9 1.0 ND2 A:ASN154 3.4 20.0 1.0 OE1 A:GLU18 3.5 22.1 1.0 OD2 A:ASP204 3.9 19.4 1.0 ND2 A:ASN103 4.0 16.4 1.0 O A:THR246 4.1 14.9 1.0 CG A:GLU18 4.2 19.5 1.0 N A:GLY205 4.3 12.8 1.0 OD2 A:ASP104 4.4 21.5 1.0 OD1 A:ASN103 4.4 18.9 1.0 C A:ASP204 4.4 13.9 1.0 O A:HOH324 4.5 18.1 1.0 CB A:ASP204 4.5 15.3 1.0 CG A:ASP104 4.5 20.7 1.0 CB A:ASP104 4.6 14.5 1.0 CG A:ASN103 4.6 16.4 1.0 CA A:ASP204 4.7 13.2 1.0 CA A:GLY205 4.7 12.6 1.0 CB A:ASN154 4.8 20.0 1.0 O A:HOH615 4.8 37.3 1.0 O A:ASP204 4.9 15.0 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Human Senescence Marker Protein-30(SMP30)(Calcium Bound)


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 Human Senescence Marker Protein-30(SMP30)(Calcium Bound) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1 b:14.3 occ:1.00 OE2 B:GLU18 2.1 22.5 1.0 OD1 B:ASP204 2.1 17.2 1.0 OD1 B:ASN154 2.3 20.0 1.0 O B:HOH345 2.3 20.3 1.0 O B:HOH406 2.3 20.9 1.0 O B:HOH344 2.3 24.9 1.0 CD B:GLU18 3.0 19.3 1.0 CG B:ASN154 3.2 20.0 1.0 CG B:ASP204 3.3 13.5 1.0 OE1 B:GLU18 3.5 22.7 1.0 ND2 B:ASN154 3.5 20.0 1.0 O B:HOH729 3.6 45.1 1.0 OD2 B:ASP204 3.8 17.4 1.0 ND2 B:ASN103 4.0 14.8 1.0 O B:THR246 4.1 13.9 1.0 CG B:GLU18 4.2 15.9 1.0 N B:GLY205 4.3 12.9 1.0 O B:HOH307 4.4 17.7 1.0 OD2 B:ASP104 4.4 17.9 1.0 C B:ASP204 4.4 13.3 1.0 CB B:ASP204 4.5 14.1 1.0 OD1 B:ASN103 4.5 16.6 1.0 CB B:ASN154 4.5 20.0 1.0 CB B:ASP104 4.6 13.2 1.0 CG B:ASP104 4.6 18.2 1.0 CG B:ASN103 4.6 12.9 1.0 O B:HOH746 4.6 38.9 1.0 O B:HOH781 4.7 61.9 1.0 CA B:ASP204 4.7 13.1 1.0 CA B:GLY205 4.8 11.6 1.0 O B:ASP204 5.0 15.0 1.0 CA B:ASN154 5.0 20.0 1.0

S.Chakraborti, B.J.Bahnson. Crystal Structure of Human Senescence Marker Protein 30: Insights Linking Structural, Enzymatic, and Physiological Functions . Biochemistry V. 49 3436 2010.
ISSN: ISSN 0006-2960
PubMed: 20329768
DOI: 10.1021/BI9022297