Calcium in PDB 3ox5: Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)

The structure of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1), PDB code: 3ox5 was solved by F.Findeisen, D.L.Minor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.07 / 2.90
Space group	I 2 3 1
Cell size a, b, c (Å), α, β, γ (°)	206.044, 206.044, 206.044, 90.00, 90.00, 90.00
R / Rfree (%)	21.3 / 25

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) (pdb code 3ox5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1), PDB code: 3ox5:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


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 Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:96.9 occ:1.00 OD1 A:ASP112 2.1 98.2 1.0 OE2 A:GLU123 2.1 0.2 1.0 O A:GLU118 2.2 0.2 1.0 OD1 A:ASP116 2.5 0.5 1.0 OD1 A:ASN114 2.6 0.2 1.0 OE1 A:GLU123 2.7 0.1 1.0 CD A:GLU123 2.8 99.4 1.0 CG A:ASP112 3.3 97.6 1.0 CG A:ASN114 3.4 0.9 1.0 C A:GLU118 3.4 0.6 1.0 CG A:ASP116 3.5 0.6 1.0 ND2 A:ASN114 3.8 0.6 1.0 OD2 A:ASP112 4.1 95.7 1.0 OD2 A:ASP116 4.1 0.7 1.0 CA A:ASP112 4.1 94.9 1.0 CB A:ASP112 4.2 94.0 1.0 CG A:GLU123 4.3 93.0 1.0 N A:ILE119 4.3 96.2 1.0 N A:SER120 4.3 89.2 1.0 CA A:ILE119 4.3 90.3 1.0 N A:ASN114 4.4 0.1 1.0 N A:GLU118 4.4 98.6 1.0 N A:ASP116 4.4 0.1 1.0 C A:ASP112 4.4 99.0 1.0 CA A:GLU118 4.5 99.8 1.0 CB A:ASN114 4.5 0.4 1.0 CB A:ASP116 4.5 0.2 1.0 N A:GLY115 4.6 0.1 1.0 N A:THR113 4.7 0.9 1.0 CA A:ASN114 4.8 0.4 1.0 C A:ILE119 4.8 89.3 1.0 O A:ASP112 4.9 0.5 1.0 C A:ASN114 4.9 0.3 1.0 CB A:GLU123 4.9 87.7 1.0 CB A:GLU118 4.9 0.7 1.0 CA A:ASP116 4.9 0.1 1.0 CB A:SER120 4.9 95.5 1.0 OG A:SER120 4.9 93.5 1.0

Calcium binding site 2 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


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 Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:98.2 occ:1.00 OE1 A:GLU160 2.3 87.3 1.0 OD1 A:ASP153 2.4 0.9 1.0 O A:ARG155 2.5 99.2 1.0 OD1 A:ASP149 2.5 0.1 1.0 OE2 A:GLU160 2.7 91.7 1.0 OD1 A:ASN151 2.8 1.0 1.0 CD A:GLU160 2.8 86.9 1.0 CG A:ASP149 3.2 0.0 1.0 CG A:ASN151 3.5 0.4 1.0 OD2 A:ASP149 3.5 0.4 1.0 C A:ARG155 3.5 97.0 1.0 ND2 A:ASN151 3.6 0.9 1.0 CG A:ASP153 3.6 0.1 1.0 OE2 A:GLU118 3.8 1.0 1.0 N A:ASP157 4.2 86.9 1.0 OD2 A:ASP157 4.2 0.0 1.0 OD2 A:ASP153 4.3 0.4 1.0 CG A:GLU160 4.3 81.8 1.0 CA A:VAL156 4.3 86.5 1.0 N A:VAL156 4.3 91.7 1.0 CB A:ASP149 4.4 0.9 1.0 N A:ARG155 4.5 0.1 1.0 CA A:ARG155 4.5 100.0 1.0 CA A:ASP149 4.6 0.3 1.0 N A:ASP153 4.7 0.6 1.0 N A:ASN151 4.7 0.5 1.0 CB A:ASP153 4.7 0.9 1.0 C A:VAL156 4.7 87.1 1.0 CB A:ASN151 4.8 0.4 1.0 N A:LEU150 4.9 0.5 1.0 CG A:ASP157 4.9 98.9 1.0 CB A:GLU160 4.9 76.6 1.0

Calcium binding site 3 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:96.2 occ:1.00 OD1 B:ASP112 2.0 90.5 1.0 OD1 B:ASP116 2.2 0.4 1.0 O B:GLU118 2.3 92.1 1.0 OD1 B:ASN114 2.4 0.1 1.0 OE2 B:GLU123 2.4 0.8 1.0 OE1 B:GLU123 2.6 0.9 1.0 CD B:GLU123 2.8 0.6 1.0 CG B:ASN114 3.0 0.2 1.0 ND2 B:ASN114 3.2 0.5 1.0 CG B:ASP112 3.2 89.8 1.0 CG B:ASP116 3.3 0.1 1.0 C B:GLU118 3.6 93.0 1.0 OD2 B:ASP112 4.1 89.7 1.0 OD2 B:ASP116 4.1 0.6 1.0 CB B:ASP112 4.2 86.8 1.0 CB B:ASN114 4.2 0.2 1.0 CA B:ASP112 4.2 88.5 1.0 CB B:ASP116 4.3 0.9 1.0 N B:ASP116 4.3 0.5 1.0 CG B:GLU123 4.3 98.5 1.0 N B:ASN114 4.4 0.6 1.0 N B:SER120 4.4 88.7 1.0 N B:GLU118 4.5 93.9 1.0 N B:ILE119 4.5 89.4 1.0 CA B:ILE119 4.5 86.8 1.0 CA B:GLU118 4.5 95.5 1.0 C B:ASP112 4.6 93.5 1.0 N B:GLY115 4.6 0.0 1.0 CA B:ASN114 4.7 0.7 1.0 CA B:ASP116 4.7 99.3 1.0 N B:THR113 4.7 97.0 1.0 C B:ASN114 4.8 0.1 1.0 OG B:SER120 4.9 91.0 1.0 CB B:GLU118 5.0 0.8 1.0 C B:ILE119 5.0 88.0 1.0

Calcium binding site 4 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca502 b:0.9 occ:1.00 OD1 B:ASP153 2.1 0.4 1.0 OE1 B:GLU160 2.3 91.0 1.0 O B:ARG155 2.5 97.0 1.0 OD1 B:ASP149 2.6 93.0 1.0 OE2 B:GLU160 2.9 89.7 1.0 CD B:GLU160 3.0 88.6 1.0 CG B:ASP153 3.1 0.3 1.0 OD1 B:ASN151 3.2 0.6 1.0 OE2 B:GLU118 3.5 0.3 1.0 CG B:ASP149 3.5 94.6 1.0 C B:ARG155 3.6 93.5 1.0 OD2 B:ASP153 3.6 0.5 1.0 ND2 B:ASN151 3.7 0.4 1.0 CG B:ASN151 3.7 0.8 1.0 OD2 B:ASP149 3.8 94.3 1.0 OD2 B:ASP157 3.9 0.5 1.0 N B:ASP157 4.0 86.6 1.0 CA B:VAL156 4.3 87.2 1.0 N B:VAL156 4.3 90.8 1.0 CB B:ASP153 4.3 0.6 1.0 CG B:GLU160 4.5 83.2 1.0 N B:ARG155 4.5 99.8 1.0 C B:VAL156 4.5 86.4 1.0 CG B:ASP157 4.5 94.8 1.0 CA B:ARG155 4.6 96.2 1.0 N B:ASP153 4.7 0.1 1.0 CB B:ASP157 4.7 90.3 1.0 CD B:GLU118 4.8 0.1 1.0 CB B:ASP149 4.8 97.0 1.0 N B:ASN151 4.8 0.6 1.0 CA B:ASP153 4.9 0.4 1.0 CA B:ASP149 4.9 97.9 1.0 CB B:ARG155 5.0 94.8 1.0 N B:GLY154 5.0 1.0 1.0 CB B:ASN151 5.0 0.4 1.0

Calcium binding site 5 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca501 b:0.4 occ:1.00 OE2 C:GLU123 2.2 0.7 1.0 O C:GLU118 2.3 1.0 1.0 OD1 C:ASP116 2.5 0.9 1.0 OD1 C:ASP112 2.9 0.8 1.0 CD C:GLU123 2.9 0.7 1.0 OE1 C:GLU123 2.9 0.1 1.0 ND2 C:ASN114 2.9 0.5 1.0 OD1 C:ASN114 3.4 0.2 1.0 C C:GLU118 3.4 0.5 1.0 CG C:ASP116 3.5 0.1 1.0 CG C:ASN114 3.5 0.2 1.0 N C:SER120 3.6 0.1 1.0 OD2 C:ASP116 3.8 0.7 1.0 CB C:SER120 3.9 0.6 1.0 CG C:ASP112 4.1 0.1 1.0 CA C:ILE119 4.3 0.0 1.0 N C:ILE119 4.3 0.4 1.0 C C:ILE119 4.4 0.8 1.0 CA C:SER120 4.4 0.6 1.0 CB C:GLU118 4.4 0.1 1.0 CG C:GLU123 4.4 1.0 1.0 CA C:GLU118 4.4 0.7 1.0 OG C:SER120 4.5 0.7 1.0 CB C:ASP116 4.7 0.8 1.0 N C:GLU118 4.8 0.3 1.0 CB C:ASN114 4.8 0.6 1.0 OD2 C:ASP112 4.8 1.0 1.0 CB C:ASP112 4.9 1.0 1.0 CB C:GLU123 4.9 0.4 1.0 CA C:ASP112 5.0 0.3 1.0

Calcium binding site 6 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca502 b:0.6 occ:1.00 OD1 C:ASP153 2.1 0.6 1.0 O C:ARG155 2.3 0.9 1.0 OD1 C:ASP149 2.3 0.4 1.0 OE1 C:GLU160 2.5 0.1 1.0 OD1 C:ASN151 2.9 0.7 1.0 OE2 C:GLU160 3.1 0.9 1.0 CD C:GLU160 3.1 0.9 1.0 CG C:ASP149 3.2 0.8 1.0 CG C:ASP153 3.2 0.8 1.0 ND2 C:ASN151 3.3 0.6 1.0 CG C:ASN151 3.4 0.8 1.0 OD2 C:ASP149 3.4 0.7 1.0 C C:ARG155 3.4 0.8 1.0 OE2 C:GLU118 3.8 0.2 1.0 OD2 C:ASP153 3.9 0.3 1.0 OD2 C:ASP157 4.0 0.2 1.0 N C:ASP153 4.2 0.5 1.0 N C:VAL156 4.3 0.9 1.0 CB C:ASP153 4.3 0.1 1.0 CA C:VAL156 4.3 0.3 1.0 N C:ARG155 4.3 0.9 1.0 N C:ASP157 4.3 0.5 1.0 CA C:ARG155 4.4 0.7 1.0 CB C:ASP149 4.5 0.7 1.0 CA C:ASP153 4.6 0.9 1.0 CG C:GLU160 4.6 0.3 1.0 C C:VAL156 4.7 0.5 1.0 CG C:ASP157 4.8 0.1 1.0 N C:GLY154 4.8 0.6 1.0 CB C:ASN151 4.8 0.9 1.0 C C:ASP153 4.8 0.9 1.0 N C:ASN151 4.8 0.2 1.0 CA C:ASP149 4.9 0.5 1.0 CB C:ASP157 4.9 0.4 1.0 N C:LEU150 4.9 0.2 1.0

Calcium binding site 7 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca501 b:0.1 occ:1.00 O D:GLU118 2.0 0.3 1.0 OE2 D:GLU123 2.2 0.6 1.0 OD1 D:ASP116 2.5 0.6 1.0 OD1 D:ASP112 2.6 1.0 1.0 CD D:GLU123 2.9 0.3 1.0 OE1 D:GLU123 3.0 0.1 1.0 C D:GLU118 3.1 0.8 1.0 CG D:ASP116 3.2 0.1 1.0 ND2 D:ASN114 3.3 0.9 1.0 OD1 D:ASN114 3.5 1.0 1.0 OD2 D:ASP116 3.5 0.4 1.0 CG D:ASN114 3.7 0.3 1.0 CG D:ASP112 3.7 0.6 1.0 CB D:GLU118 3.9 0.1 1.0 CA D:GLU118 3.9 0.6 1.0 N D:SER120 3.9 0.5 1.0 N D:ILE119 4.0 0.3 1.0 CA D:ILE119 4.2 0.9 1.0 N D:GLU118 4.3 0.0 1.0 CG D:GLU123 4.3 0.3 1.0 OD2 D:ASP112 4.3 0.6 1.0 CB D:ASP116 4.4 0.8 1.0 C D:ILE119 4.5 0.6 1.0 CB D:SER120 4.5 0.3 1.0 CG D:GLU118 4.7 0.1 1.0 CB D:ASP112 4.8 0.3 1.0 N D:ASP116 4.8 0.4 1.0 CA D:SER120 4.8 0.4 1.0 CB D:GLU123 4.9 0.3 1.0 CB D:ASN114 4.9 0.5 1.0 CA D:ASP112 4.9 0.2 1.0 OG D:SER120 5.0 0.2 1.0

Calcium binding site 8 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca502 b:0.4 occ:1.00 OD1 D:ASP153 2.2 0.2 1.0 O D:ARG155 2.2 0.8 1.0 OE1 D:GLU160 2.5 0.8 1.0 OD1 D:ASP149 2.7 0.1 1.0 OE2 D:GLU160 2.8 0.3 1.0 OD1 D:ASN151 2.9 0.5 1.0 CD D:GLU160 2.9 0.8 1.0 OD2 D:ASP149 3.0 0.2 1.0 CG D:ASP149 3.0 0.4 1.0 CG D:ASP153 3.3 0.7 1.0 C D:ARG155 3.4 0.8 1.0 CG D:ASN151 3.8 0.4 1.0 OD2 D:ASP153 3.9 0.9 1.0 ND2 D:ASN151 4.0 0.9 1.0 CA D:VAL156 4.1 0.8 1.0 N D:VAL156 4.2 0.6 1.0 OD2 D:ASP157 4.2 0.1 1.0 CB D:ASP149 4.2 0.0 1.0 N D:ASP157 4.3 0.5 1.0 N D:ASP153 4.3 0.5 1.0 OE2 D:GLU118 4.3 0.2 1.0 N D:ARG155 4.4 0.1 1.0 CG D:GLU160 4.5 0.8 1.0 CA D:ARG155 4.5 0.2 1.0 CA D:ASP149 4.5 0.1 1.0 CB D:ASP153 4.5 0.3 1.0 C D:VAL156 4.6 0.5 1.0 N D:LEU150 4.7 0.9 1.0 CA D:ASP153 4.8 0.6 1.0 N D:ASN151 4.8 0.7 1.0 C D:ASP153 4.9 0.7 1.0 N D:GLY154 5.0 0.0 1.0 N D:GLY152 5.0 0.7 1.0 CG D:ASP157 5.0 0.5 1.0

Calcium binding site 9 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca501 b:0.2 occ:1.00 O E:GLU118 2.3 0.5 1.0 OD1 E:ASP116 2.7 0.2 1.0 OE2 E:GLU123 2.9 0.3 1.0 ND2 E:ASN114 3.0 0.6 1.0 C E:GLU118 3.4 0.2 1.0 CG E:ASP116 3.4 0.2 1.0 OD1 E:ASN114 3.4 0.5 1.0 CD E:GLU123 3.5 0.1 1.0 OD1 E:ASP112 3.5 0.1 1.0 OD2 E:ASP116 3.5 0.9 1.0 OE1 E:GLU123 3.5 0.8 1.0 N E:SER120 3.5 1.0 1.0 CG E:ASN114 3.6 0.4 1.0 CB E:SER120 3.8 0.4 1.0 OG E:SER120 4.1 0.6 1.0 CB E:GLU118 4.1 0.0 1.0 CA E:GLU118 4.2 0.2 1.0 CA E:SER120 4.2 0.8 1.0 N E:ILE119 4.3 0.5 1.0 C E:ILE119 4.3 0.4 1.0 CA E:ILE119 4.4 0.1 1.0 CG E:ASP112 4.5 0.5 1.0 N E:GLU118 4.6 0.6 1.0 CG E:GLU123 4.7 0.9 1.0 CB E:ASP116 4.8 0.4 1.0 CG E:GLU118 5.0 0.4 1.0

Calcium binding site 10 out of 12 in the Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Crystal Structure of the Calcium Sensor Calcium-Binding Protein 1 (CABP1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca502 b:0.1 occ:1.00 O E:ARG155 2.3 0.2 1.0 OD1 E:ASN151 2.3 0.3 1.0 OD1 E:ASP149 2.4 0.6 1.0 OE1 E:GLU160 2.4 0.2 1.0 OD1 E:ASP153 2.5 0.1 1.0 OE2 E:GLU160 2.8 0.9 1.0 CD E:GLU160 2.9 0.9 1.0 CG E:ASP149 3.1 0.5 1.0 CG E:ASN151 3.2 0.3 1.0 OD2 E:ASP149 3.3 0.2 1.0 ND2 E:ASN151 3.4 0.3 1.0 C E:ARG155 3.5 0.7 1.0 CG E:ASP153 3.6 0.0 1.0 OD2 E:ASP157 4.1 0.2 1.0 CA E:VAL156 4.2 1.0 1.0 N E:ASP157 4.3 0.2 1.0 N E:VAL156 4.3 0.1 1.0 N E:ASP153 4.3 0.0 1.0 CB E:ASP149 4.3 0.2 1.0 OE2 E:GLU118 4.4 0.7 1.0 OD2 E:ASP153 4.4 0.1 1.0 N E:ARG155 4.4 0.1 1.0 CG E:GLU160 4.4 0.8 1.0 CA E:ARG155 4.5 0.4 1.0 CB E:ASP153 4.6 0.8 1.0 CB E:ASN151 4.6 0.1 1.0 N E:ASN151 4.6 0.3 1.0 C E:VAL156 4.6 0.7 1.0 CA E:ASP149 4.6 0.2 1.0 CA E:ASP153 4.8 0.1 1.0 N E:GLY152 4.8 0.5 1.0 N E:LEU150 4.8 0.6 1.0 N E:GLY154 4.8 0.1 1.0 CG E:ASP157 4.9 0.2 1.0 C E:ASP153 5.0 0.9 1.0 CB E:ASP157 5.0 0.6 1.0 CA E:ASN151 5.0 0.2 1.0

F.Findeisen, D.L.Minor. Structural Basis For the Differential Effects of CABP1 and Calmodulin on Ca(V)1.2 Calcium-Dependent Inactivation. Structure V. 18 1617 2010.
ISSN: ISSN 0969-2126
PubMed: 21134641
DOI: 10.1016/J.STR.2010.09.012