Calcium in PDB 8gyc: Annexin A5 Protein Dimer Mutant

The structure of Annexin A5 Protein Dimer Mutant, PDB code: 8gyc was solved by Z.C.Hua, W.Tang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.98 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.198, 79.743, 133.936, 90, 90, 90
R / Rfree (%)	25.8 / 28.9

The binding sites of Calcium atom in the Annexin A5 Protein Dimer Mutant (pdb code 8gyc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Annexin A5 Protein Dimer Mutant, PDB code: 8gyc:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:83.7 occ:1.00 OE1 A:GLU72 2.4 28.7 1.0 O A:HOH562 2.5 37.2 1.0 O A:HOH501 2.6 13.1 1.0 O A:HOH724 2.7 40.3 1.0 O A:HOH723 2.8 28.6 1.0 O A:MET28 3.2 23.0 1.0 CD A:GLU72 3.3 30.8 1.0 O A:GLY30 3.4 23.4 1.0 O A:HOH532 3.4 37.1 1.0 OE2 A:GLU72 3.5 28.3 1.0 C A:MET28 4.4 21.6 1.0 C A:GLY30 4.6 21.6 1.0 CG A:GLU72 4.7 31.1 1.0 CB A:MET28 4.7 26.5 1.0 N A:GLY30 4.9 28.3 1.0 O A:GLY32 5.0 22.1 1.0

Calcium binding site 2 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:84.5 occ:1.00 CB A:GLU120 2.8 38.0 1.0 CG A:GLU120 3.0 52.9 1.0 CA A:GLU120 4.1 29.4 1.0 O A:HOH774 4.2 44.1 1.0 CD A:GLU120 4.2 55.4 1.0 O A:HOH734 4.2 40.5 1.0 OE1 A:GLU120 4.4 66.3 1.0 O A:HOH575 4.6 33.3 1.0 C A:GLU120 4.7 31.0 1.0 O A:HOH535 4.9 41.1 1.0

Calcium binding site 3 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:84.9 occ:1.00 O A:HOH514 2.5 37.3 1.0 CG A:GLU234 2.8 34.3 1.0 CB A:GLU234 3.7 28.9 1.0 OG A:SER230 3.7 56.0 1.0 O A:THR224 3.8 40.1 1.0 CG1 A:ILE225 3.9 34.5 1.0 CD A:GLU234 3.9 41.2 1.0 CD1 A:TRP187 4.0 30.1 1.0 OE2 A:GLU234 4.2 46.6 1.0 CA A:ILE225 4.3 39.1 1.0 CB A:ILE225 4.5 32.9 1.0 O A:LYS186 4.5 30.7 1.0 CG2 A:ILE225 4.6 35.4 1.0 CB A:SER230 4.7 51.0 1.0 OE1 A:GLU234 4.8 37.0 1.0 NE1 A:TRP187 4.8 28.6 1.0 C A:THR224 4.8 40.5 1.0 CD1 A:ILE225 5.0 26.8 1.0 CG A:TRP187 5.0 26.1 1.0

Calcium binding site 4 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca404 b:79.6 occ:1.00 O A:HOH511 2.5 38.4 1.0 O A:HOH692 4.0 33.2 1.0 O A:GLY317 4.3 21.8 1.0 O A:HOH604 4.4 26.7 1.0 CD2 A:LEU314 4.6 18.8 1.0 O A:HOH771 4.7 43.8 1.0

Calcium binding site 5 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:88.2 occ:1.00 CB B:GLU120 2.8 39.1 1.0 N B:GLU120 3.0 25.9 1.0 CA B:GLU120 3.5 30.7 1.0 OG1 B:THR118 3.9 22.3 1.0 OE2 B:GLU120 4.0 65.5 1.0 CG B:GLU120 4.0 55.7 1.0 CB B:THR118 4.1 28.6 1.0 CD B:GLU120 4.1 68.3 1.0 C B:PRO119 4.1 22.8 1.0 O B:HOH510 4.1 38.1 1.0 N B:PRO119 4.2 28.9 1.0 NH2 B:ARG123 4.3 40.0 1.0 CD B:PRO119 4.3 29.6 1.0 CB B:PRO119 4.3 31.0 1.0 CA B:PRO119 4.5 23.0 1.0 C B:THR118 4.7 25.4 1.0 C B:GLU120 4.8 33.1 1.0 CG B:PRO119 4.8 30.7 1.0 OE1 B:GLU120 4.8 70.1 1.0 N B:GLU121 5.0 24.7 1.0

Calcium binding site 6 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:72.8 occ:1.00 O B:HOH709 2.5 44.8 1.0 OD1 B:ASP139 2.6 39.8 1.0 OE2 B:GLU138 2.9 49.2 1.0 CG B:ASP139 3.3 35.0 1.0 OD2 B:ASP139 3.6 30.1 1.0 CD B:GLU138 3.9 36.5 1.0 OG B:SER136 4.1 31.2 1.0 CG B:GLU138 4.4 33.4 1.0 N B:ASP139 4.5 24.2 1.0 CB B:ASP139 4.6 28.2 1.0 CB B:GLU138 4.6 29.3 1.0 CA B:ASP139 4.8 24.9 1.0 OE1 B:GLU138 4.9 33.8 1.0

Calcium binding site 7 out of 7 in the Annexin A5 Protein Dimer Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Annexin A5 Protein Dimer Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca403 b:92.0 occ:1.00 CA B:PRO163 2.8 55.1 1.0 CB B:PRO163 3.2 62.6 1.0 N B:ASP164 3.4 60.4 1.0 C B:PRO163 3.7 52.4 1.0 N B:PRO163 3.9 52.2 1.0 O B:ASP162 4.1 40.0 1.0 O B:HOH678 4.4 39.6 1.0 C B:ASP162 4.4 41.9 1.0 CG B:PRO163 4.6 57.4 1.0 CA B:ASP164 4.7 58.2 1.0 CD B:PRO163 4.8 53.5 1.0 O B:PRO163 4.9 50.9 1.0 CB B:ASP164 4.9 69.1 1.0 O B:ARG161 5.0 45.3 1.0

Z.C.Hua, W.Tang. Structure Dissection of the Membrane Aggregation Mechanism Induced By Annexin A5 Mutation To Be Published.