Calcium in PDB 9ga8: The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium

The structure of The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium, PDB code: 9ga8 was solved by A.Ruggiero, G.Barra, O.Ghilardi, M.C.Scala, M.Sala, S.Di Micco, G.Bifulco, P.Campiglia, L.Vitagliano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.38 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	58.613, 39.62, 73.496, 90, 95.14, 90
R / Rfree (%)	20.2 / 21.6

The binding sites of Calcium atom in the The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium (pdb code 9ga8). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium, PDB code: 9ga8:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:18.6 occ:1.00 O A:MET27 2.3 17.1 1.0 O A:HOH654 2.3 25.7 1.0 O A:GLY29 2.4 22.1 1.0 O A:HOH625 2.4 25.9 1.0 OE2 A:GLU71 2.4 20.5 1.0 O A:GLY31 2.5 18.4 1.0 OE1 A:GLU71 2.6 20.5 1.0 CD A:GLU71 2.8 18.5 1.0 C A:MET27 3.5 16.2 1.0 C A:GLY29 3.6 20.7 1.0 C A:GLY31 3.6 19.9 1.0 N A:GLY31 3.8 20.1 1.0 C A:LEU30 4.1 19.1 1.0 N A:GLY29 4.1 20.6 1.0 CA A:MET27 4.2 13.8 1.0 C A:LYS28 4.2 19.7 1.0 OG1 A:THR32 4.3 20.6 1.0 CA A:GLY31 4.3 19.6 1.0 CG A:GLU71 4.4 19.6 1.0 CA A:LEU30 4.4 20.3 1.0 N A:LEU30 4.4 20.0 1.0 O A:HOH582 4.4 21.9 1.0 CA A:GLY29 4.5 23.5 1.0 N A:LYS28 4.5 17.4 1.0 N A:THR32 4.6 17.1 1.0 O A:LEU30 4.6 20.2 1.0 O A:LYS28 4.7 18.9 1.0 CA A:LYS28 4.7 18.0 1.0 CB A:MET27 4.7 14.7 1.0 CA A:THR32 4.9 19.8 1.0

Calcium binding site 2 out of 3 in the The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:38.8 occ:1.00 O A:GLY101 2.4 32.7 1.0 O A:GLY103 2.4 39.0 1.0 O A:MET99 2.5 30.6 1.0 OD2 A:ASP143 2.5 38.3 1.0 OD1 A:ASP143 2.8 39.0 1.0 CG A:ASP143 2.9 35.2 1.0 C A:MET99 3.5 29.9 1.0 C A:GLY101 3.6 38.6 1.0 C A:GLY103 3.6 37.8 1.0 OG1 A:THR104 3.6 35.8 1.0 C A:ALA102 3.9 37.9 1.0 O A:ALA102 4.0 41.5 1.0 CA A:MET99 4.0 21.7 1.0 N A:GLY103 4.1 35.7 1.0 CA A:ALA102 4.4 35.7 1.0 N A:ALA102 4.4 34.0 1.0 N A:GLY101 4.4 51.0 1.0 CB A:ASP143 4.4 25.6 1.0 C A:LYS100 4.4 42.6 1.0 CA A:GLY103 4.4 39.2 1.0 N A:THR104 4.5 30.6 1.0 N A:LYS100 4.5 31.3 1.0 CA A:GLY101 4.6 44.2 1.0 CA A:THR104 4.6 30.4 1.0 CB A:MET99 4.7 22.9 1.0 O A:LYS100 4.7 43.9 1.0 CB A:THR104 4.7 31.3 1.0 CA A:LYS100 4.9 40.2 1.0 CA A:ASP143 5.0 22.4 1.0 O A:HOH600 5.0 34.4 1.0

Calcium binding site 3 out of 3 in the The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Crystal Structure of Human Annexin A4 From Crystals Grown at 4 Mm Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:29.5 occ:1.00 O A:MET258 2.3 20.1 1.0 O A:HOH601 2.3 35.4 1.0 O A:HOH653 2.3 36.8 1.0 O A:GLY262 2.4 26.8 1.0 OD2 A:ASP302 2.4 34.5 1.0 O A:GLY260 2.5 28.9 1.0 OD1 A:ASP302 2.6 34.4 1.0 CG A:ASP302 2.8 26.8 1.0 C A:MET258 3.4 19.7 1.0 C A:GLY262 3.5 26.9 1.0 C A:GLY260 3.7 38.6 1.0 N A:GLY262 3.7 33.5 1.0 CA A:MET258 4.1 16.8 1.0 CA A:GLY262 4.1 30.9 1.0 OG1 A:THR263 4.1 25.6 1.0 C A:LEU261 4.3 36.0 1.0 N A:GLY260 4.3 29.7 1.0 CB A:ASP302 4.3 24.0 1.0 C A:LYS259 4.4 30.9 1.0 N A:LYS259 4.5 23.4 1.0 O A:HOH650 4.5 38.6 1.0 N A:THR263 4.5 24.1 1.0 CA A:GLY260 4.6 40.5 1.0 O A:LYS259 4.6 34.5 1.0 N A:LEU261 4.6 40.2 1.0 CA A:LEU261 4.6 40.7 1.0 CB A:MET258 4.8 18.1 1.0 CA A:LYS259 4.8 27.4 1.0 CA A:THR263 4.8 22.2 1.0 O A:LEU261 4.9 39.8 1.0

S.Di Micco, M.C.Scala, M.Sala, G.Barra, O.Ghilardi, P.Campiglia, G.Bifulco, L.Vitagliano, A.Ruggiero. Computational, Crystallographic, and Biophysical Characterizations Provide Insights Into Calcium and Phosphate Binding By Human Annexin A4. Int.J.Biol.Macromol. V. 308 42600 2025.
ISSN: ISSN 0141-8130
PubMed: 40157693
DOI: 10.1016/J.IJBIOMAC.2025.142600