Calcium in PDB 6k22: Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition

The structure of Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition, PDB code: 6k22 was solved by S.Hong, N.-C.Ha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.40 / 2.75
Space group	P 63 2 2
Cell size a, b, c (Å), α, β, γ (°)	92.795, 92.795, 134.055, 90.00, 90.00, 120.00
R / Rfree (%)	25 / 30.6

The binding sites of Calcium atom in the Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition (pdb code 6k22). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition, PDB code: 6k22:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition


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 Ca-Bound Human Annexin A5 in Low Salt Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:70.8 occ:1.00 O A:GLY188 2.6 55.6 1.0 OE2 A:GLU228 2.9 53.7 1.0 N A:GLY188 2.9 64.6 1.0 O A:GLY183 3.1 56.9 1.0 OE1 A:GLU228 3.3 54.1 1.0 CA A:TRP187 3.4 66.0 1.0 O A:LYS186 3.4 60.1 1.0 CD1 A:TRP187 3.5 72.0 1.0 CD A:GLU228 3.5 51.9 1.0 C A:GLY188 3.5 55.8 1.0 C A:TRP187 3.6 67.5 1.0 CA A:GLY188 3.7 60.8 1.0 CG A:TRP187 4.1 73.6 1.0 C A:GLY183 4.2 53.9 1.0 C A:LYS186 4.2 61.3 1.0 NE1 A:TRP187 4.2 79.1 1.0 N A:TRP187 4.3 62.4 1.0 O A:GLU184 4.3 62.5 1.0 CB A:TRP187 4.4 69.2 1.0 CA A:GLU184 4.7 53.4 1.0 O A:TRP187 4.7 66.1 1.0 OG1 A:THR189 4.7 53.0 1.0 C A:GLU184 4.8 58.5 1.0 N A:THR189 4.8 52.0 1.0 N A:GLU184 4.9 52.8 1.0 CG A:GLU228 5.0 45.7 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition


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 Ca-Bound Human Annexin A5 in Low Salt Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:61.1 occ:1.00 O A:MET259 2.9 58.0 1.0 OD1 A:ASP303 3.0 59.2 1.0 O A:GLY261 3.1 60.6 1.0 CA A:LYS260 3.5 55.9 1.0 C A:MET259 3.8 55.2 1.0 CA A:GLY263 3.8 59.5 1.0 N A:GLY261 3.8 54.6 1.0 CG A:ASP303 3.8 57.8 1.0 C A:GLY263 3.9 58.0 1.0 N A:GLY263 3.9 57.2 1.0 C A:LYS260 3.9 59.6 1.0 C A:GLY261 4.0 58.6 1.0 OD2 A:ASP303 4.0 59.2 1.0 N A:LYS260 4.0 49.4 1.0 O A:GLY263 4.1 56.3 1.0 C A:ALA262 4.4 62.7 1.0 CA A:GLY261 4.5 51.6 1.0 N A:THR264 4.5 54.9 1.0 CB A:LYS260 4.6 56.7 1.0 CG A:LYS260 4.8 55.5 1.0 O A:ALA262 4.8 61.5 1.0 OG1 A:THR264 4.8 49.0 1.0 O A:LYS260 4.9 61.3 1.0 CD A:LYS260 4.9 54.2 1.0 N A:ALA262 5.0 57.1 1.0 CA A:MET259 5.0 48.7 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of Ca-Bound Human Annexin A5 in Low Salt Condition


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 Ca-Bound Human Annexin A5 in Low Salt Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:61.4 occ:1.00 O A:GLY32 2.5 49.1 1.0 O A:GLY30 2.6 50.2 1.0 O A:MET28 2.6 47.9 1.0 OE1 A:GLU72 3.1 40.6 1.0 N A:GLY32 3.2 52.6 1.0 C A:GLY30 3.4 51.1 1.0 C A:GLY32 3.5 54.8 1.0 CD A:GLU72 3.7 39.4 1.0 OE2 A:GLU72 3.7 49.2 1.0 C A:MET28 3.7 42.3 1.0 CA A:GLY32 3.8 57.7 1.0 C A:LYS29 4.0 45.9 1.0 C A:LEU31 4.0 52.7 1.0 N A:GLY30 4.1 47.2 1.0 O A:LYS29 4.1 42.7 1.0 N A:LEU31 4.1 50.6 1.0 CA A:LEU31 4.2 51.7 1.0 CA A:GLY30 4.3 53.5 1.0 CA A:LYS29 4.5 41.4 1.0 N A:LYS29 4.6 42.8 1.0 CA A:MET28 4.6 39.4 1.0 N A:THR33 4.7 52.1 1.0 CG A:GLU72 5.0 37.6 1.0 O A:LEU31 5.0 52.7 1.0

S.Hong, S.Na, O.H.Kim, S.Jeong, B.C.Oh, N.C.Ha. High-Resolution Structures of Annexin A5 in A Two-Dimensional Array. J.Struct.Biol. V. 209 07401 2020.
ISSN: ESSN 1095-8657
PubMed: 31605770
DOI: 10.1016/J.JSB.2019.10.003