Calcium in PDB 3akb: Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein

The structure of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein, PDB code: 3akb was solved by X.Zhao, H.Pang, S.Wang, W.Zhou, K.Yang, M.Bartlam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.50 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	33.144, 51.137, 87.260, 90.00, 90.00, 90.00
R / Rfree (%)	20.3 / 23.2

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Calcium atom in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein (pdb code 3akb). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 11 binding sites of Calcium where determined in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein, PDB code: 3akb:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1 b:8.9 occ:1.00 OD2 A:ASP150 1.9 15.9 1.0 OD2 A:ASP148 1.9 15.0 1.0 O A:HOH180 2.0 14.8 1.0 O A:HOH308 2.6 18.9 1.0 CG A:ASP148 2.8 15.1 1.0 CG A:ASP150 2.9 13.9 1.0 OD1 A:ASP148 3.0 13.9 1.0 OD1 A:ASP150 3.3 12.3 1.0 CA A:CA175 3.5 12.2 1.0 CB A:ASP150 4.2 14.4 1.0 CB A:ASP148 4.2 13.7 1.0 O A:HOH376 4.2 59.4 1.0 O A:HOH252 4.5 18.3 1.0 OE2 A:GLU157 4.5 13.5 1.0

Calcium binding site 2 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2 b:9.4 occ:1.00 OD1 A:ASP114 2.2 11.9 1.0 O A:ALA118 2.3 10.2 1.0 OD1 A:ASP112 2.3 11.8 1.0 O A:HOH203 2.3 10.6 1.0 O A:HOH379 2.3 12.9 1.0 OD1 A:ASP116 2.4 12.6 1.0 CG A:ASP116 3.2 14.1 1.0 C A:ALA118 3.3 10.4 1.0 CG A:ASP112 3.3 11.5 1.0 CG A:ASP114 3.3 13.3 1.0 CA A:CA178 3.4 19.9 1.0 OD2 A:ASP116 3.5 14.2 1.0 N A:ALA118 3.8 12.3 1.0 OD2 A:ASP114 3.9 13.1 1.0 CA A:ALA118 4.0 11.1 1.0 CA A:ASP112 4.1 9.8 1.0 N A:ASP114 4.1 11.3 1.0 N A:ASP116 4.1 12.6 1.0 OD2 A:ASP112 4.1 14.2 1.0 CB A:ASP112 4.1 9.8 1.0 N A:THR113 4.2 9.5 1.0 O A:HOH288 4.2 20.6 1.0 C A:ASP112 4.3 10.6 1.0 CB A:ALA118 4.3 10.9 1.0 O A:HOH240 4.3 16.6 1.0 N A:VAL119 4.3 10.0 1.0 N A:GLY115 4.4 12.2 1.0 CB A:ASP116 4.4 13.8 1.0 O A:HOH191 4.4 8.9 1.0 CB A:ASP114 4.5 11.7 1.0 N A:GLY117 4.6 13.8 1.0 CA A:ASP116 4.6 13.5 1.0 CA A:ASP114 4.6 12.0 1.0 CA A:VAL119 4.7 9.4 1.0 C A:ASP116 4.7 13.7 1.0 C A:ASP114 4.8 12.1 1.0 O A:HOH217 4.8 17.2 1.0 C A:GLY117 5.0 13.8 1.0

Calcium binding site 3 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca3 b:10.6 occ:1.00 NE2 A:GLN51 2.0 9.8 1.0 CD A:GLN51 3.1 12.9 1.0 OE1 A:GLN51 3.5 14.5 1.0 O A:HOH219 4.1 11.8 1.0 CG A:GLN51 4.4 10.0 1.0 CB A:GLN51 5.0 8.8 1.0

Calcium binding site 4 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca171 b:9.0 occ:1.00 OD1 A:ASP18 2.3 9.8 1.0 O A:HOH224 2.4 9.9 1.0 O A:HIS24 2.4 10.0 1.0 OD1 A:ASP20 2.4 10.6 1.0 OD1 A:ASN22 2.4 10.5 1.0 OD2 A:ASP29 2.4 9.2 1.0 OD1 A:ASP29 2.6 9.4 1.0 CG A:ASP29 2.9 8.1 1.0 CG A:ASP20 3.2 11.3 1.0 CG A:ASN22 3.3 12.1 1.0 CG A:ASP18 3.5 9.9 1.0 C A:HIS24 3.6 10.1 1.0 OD2 A:ASP20 3.6 13.7 1.0 ND2 A:ASN22 3.8 13.5 1.0 N A:ASN22 4.1 12.5 1.0 CA A:ASP18 4.3 9.3 1.0 OD2 A:ASP18 4.3 11.1 1.0 CA A:ILE25 4.3 10.3 1.0 N A:HIS24 4.3 10.6 1.0 N A:ASP20 4.4 11.8 1.0 N A:ILE25 4.4 9.8 1.0 CB A:ASP29 4.4 7.6 1.0 CB A:ASP18 4.4 9.0 1.0 CB A:ASN22 4.4 11.9 1.0 CB A:ASP20 4.5 12.1 1.0 N A:GLY21 4.5 12.2 1.0 N A:ASP26 4.5 10.2 1.0 C A:ASP18 4.6 10.2 1.0 CA A:HIS24 4.6 10.4 1.0 OD2 A:ASP26 4.6 12.8 1.0 CA A:ASN22 4.6 12.7 1.0 CA A:ASP20 4.7 11.4 1.0 CD2 A:HIS24 4.7 13.0 1.0 N A:GLY23 4.7 11.8 1.0 C A:ASP20 4.8 12.4 1.0 N A:GLN19 4.8 9.5 1.0 C A:ILE25 4.9 10.3 1.0 C A:ASN22 4.9 12.8 1.0 O A:ASP18 5.0 10.3 1.0 CG A:HIS24 5.0 10.3 1.0

Calcium binding site 5 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca172 b:11.8 occ:1.00 O A:ARG75 2.3 13.2 1.0 OD1 A:ASP71 2.3 16.4 1.0 OD1 A:ASP73 2.3 13.3 1.0 OD1 A:ASP69 2.4 16.4 1.0 OE1 A:GLU80 2.5 15.1 1.0 O A:HOH284 2.5 20.0 1.0 OE2 A:GLU80 2.6 15.4 1.0 CD A:GLU80 2.9 16.6 1.0 CG A:ASP71 3.3 18.6 1.0 CG A:ASP73 3.4 13.7 1.0 C A:ARG75 3.5 12.5 1.0 CG A:ASP69 3.6 14.5 1.0 OD2 A:ASP71 3.7 20.6 1.0 OD2 A:ASP73 3.9 16.6 1.0 N A:ARG75 4.3 11.2 1.0 CA A:ASP69 4.3 14.3 1.0 N A:ASP73 4.3 14.4 1.0 CG A:GLU80 4.4 16.3 1.0 N A:ASP71 4.4 18.9 1.0 CA A:ARG75 4.4 13.0 1.0 CA A:ILE76 4.4 12.2 1.0 N A:ILE76 4.4 11.6 1.0 OD2 A:ASP69 4.4 14.4 1.0 CB A:ASP69 4.4 13.5 1.0 CB A:ASP73 4.6 13.9 1.0 CB A:ASP71 4.6 18.6 1.0 C A:ASP69 4.6 16.1 1.0 N A:GLY72 4.6 17.1 1.0 N A:ARG70 4.7 17.2 1.0 O A:HOH249 4.7 24.6 1.0 CB A:ARG75 4.7 13.7 1.0 N A:GLN74 4.8 12.0 1.0 N A:THR77 4.8 12.5 1.0 CA A:ASP71 4.8 18.1 1.0 CA A:ASP73 4.8 13.7 1.0 C A:ASP71 4.9 18.2 1.0 O A:HOH322 4.9 26.9 1.0 C A:ASP73 5.0 12.9 1.0

Calcium binding site 6 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca173 b:14.4 occ:1.00 OD2 A:ASP136 2.1 18.0 1.0 O A:HOH363 2.1 30.9 1.0 OD1 A:ASP136 2.6 19.7 1.0 CG A:ASP136 2.6 15.6 1.0 NE2 A:GLN140 3.4 23.8 1.0 O A:HOH374 4.1 23.0 1.0 CB A:ASP136 4.1 13.0 1.0 O A:HOH303 4.2 43.5 1.0 CD A:GLN140 4.5 18.9 1.0 CG A:GLN140 5.0 18.0 1.0

Calcium binding site 7 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca174 b:8.6 occ:1.00 NE2 A:HIS24 2.0 13.6 1.0 OD2 A:ASP26 2.1 12.8 1.0 CG A:ASP26 2.8 10.1 1.0 OD1 A:ASP26 2.9 13.4 1.0 CE1 A:HIS24 2.9 13.7 1.0 CD2 A:HIS24 3.0 13.0 1.0 O A:HOH202 4.0 18.0 1.0 O A:HOH224 4.0 9.9 1.0 ND1 A:HIS24 4.1 14.1 1.0 ND2 A:ASN22 4.1 13.5 1.0 CG A:HIS24 4.1 10.3 1.0 CD A:ARG75 4.2 16.0 1.0 CB A:ASP26 4.3 11.2 1.0 O A:HOH214 4.4 11.6 1.0 CG A:ARG75 4.4 15.5 1.0

Calcium binding site 8 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca175 b:12.2 occ:1.00 O A:LYS152 2.2 13.1 1.0 O A:HOH180 2.3 14.8 1.0 OD1 A:ASP148 2.3 13.9 1.0 OD1 A:ASP146 2.4 13.5 1.0 OE2 A:GLU157 2.4 13.5 1.0 OD1 A:ASP150 2.6 12.3 1.0 OE1 A:GLU157 2.7 13.3 1.0 CD A:GLU157 2.9 12.9 1.0 CG A:ASP148 3.4 15.1 1.0 C A:LYS152 3.4 12.6 1.0 CG A:ASP150 3.5 13.9 1.0 CA A:CA1 3.5 8.9 1.0 CG A:ASP146 3.6 13.5 1.0 O A:HOH376 3.6 59.4 1.0 OD2 A:ASP150 3.7 15.9 1.0 OD2 A:ASP148 3.8 15.0 1.0 CA A:ASP146 4.0 13.2 1.0 O A:HOH308 4.2 18.9 1.0 N A:LYS152 4.2 13.6 1.0 CB A:ASP146 4.3 12.6 1.0 CA A:LYS152 4.3 13.7 1.0 N A:ASP148 4.3 14.8 1.0 N A:VAL153 4.4 11.5 1.0 C A:ASP146 4.4 13.5 1.0 CA A:VAL153 4.4 12.0 1.0 N A:ASP150 4.4 15.2 1.0 CG A:GLU157 4.4 11.0 1.0 O A:HOH252 4.4 18.3 1.0 OD2 A:ASP146 4.5 14.0 1.0 N A:THR147 4.5 14.4 1.0 N A:GLY149 4.5 16.1 1.0 CB A:ASP148 4.6 13.7 1.0 CB A:LYS152 4.7 15.0 1.0 CB A:ASP150 4.8 14.4 1.0 CA A:ASP148 4.8 14.9 1.0 N A:GLY151 4.9 13.2 1.0 N A:GLY154 4.9 10.9 1.0 C A:ASP148 4.9 15.6 1.0 CA A:ASP150 5.0 14.6 1.0

Calcium binding site 9 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca176 b:38.1 occ:1.00 OG1 A:THR129 2.7 14.8 1.0 O A:HOH259 2.8 18.4 1.0 CB A:THR129 3.5 11.2 1.0 CG2 A:THR129 3.6 10.2 1.0 CA A:ARG126 4.0 9.9 1.0 CG A:ARG126 4.2 11.0 1.0 CB A:ARG126 4.5 9.9 1.0 O A:ARG126 4.5 11.6 1.0 OE1 A:GLU40 4.6 17.1 1.0 OE2 A:GLU40 4.6 13.3 1.0 CD A:GLU40 4.7 12.9 1.0 O A:ALA125 4.8 9.4 1.0 N A:ARG126 4.8 9.7 1.0 C A:ARG126 4.8 10.1 1.0 OE1 A:GLU135 4.8 16.2 1.0 CA A:THR129 4.9 10.0 1.0

Calcium binding site 10 out of 11 in the Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Structural Basis For Prokaryotic Calcium-Mediated Regulation By A Streptomyces Coelicolor Calcium-Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca177 b:16.9 occ:1.00 OE1 A:GLU135 2.1 16.2 1.0 CD A:GLU135 2.8 18.3 1.0 OE2 A:GLU135 2.8 22.0 1.0 CG A:GLU135 4.2 15.9 1.0 CB A:GLU135 4.8 12.5 1.0

X.Zhao, H.Pang, S.Wang, W.Zhou, K.Yang, M.Bartlam. Structural Basis For Prokaryotic Calciummediated Regulation By A Streptomyces Coelicolor Calcium Binding Protein Protein Cell V. 1 771 2010.
ISSN: ISSN 1674-800X
PubMed: 21203918
DOI: 10.1007/S13238-010-0085-Z