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Calcium in PDB 1avc: Bovine Annexin VI (Calcium-Bound)

Protein crystallography data

The structure of Bovine Annexin VI (Calcium-Bound), PDB code: 1avc was solved by A.J.Avila-Sakar, C.E.Creutz, R.H.Kretsinger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.90
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 67.404, 67.404, 200.078, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 26.8

Calcium Binding Sites:

The binding sites of Calcium atom in the Bovine Annexin VI (Calcium-Bound) (pdb code 1avc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Bovine Annexin VI (Calcium-Bound), PDB code: 1avc:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 1avc

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Calcium binding site 1 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca674

b:29.3
occ:1.00
 O A:GLY380 2.5 38.6 1.0
OE1 A:GLU420 2.5 35.9 1.0
O A:LEU379 2.5 35.5 1.0
O A:GLY378 2.7 33.4 1.0
OE2 A:GLU420 2.9 29.5 1.0
C A:GLY380 3.0 36.2 1.0
CD A:GLU420 3.0 36.5 1.0
C A:LEU379 3.0 34.0 1.0
O A:MET376 3.1 33.9 1.0
C A:GLY378 3.4 34.6 1.0
N A:GLY380 3.6 34.5 1.0
N A:THR381 3.6 34.4 1.0
CA A:GLY380 3.7 35.2 1.0
CA A:THR381 3.9 31.4 1.0
CA A:LEU379 3.9 32.9 1.0
N A:LEU379 3.9 34.3 1.0
C A:MET376 4.0 32.6 1.0
CB A:THR381 4.1 29.4 1.0
O A:LYS377 4.2 39.2 1.0
C A:LYS377 4.2 38.4 1.0
N A:GLY378 4.3 37.4 1.0
CA A:GLY378 4.4 35.1 1.0
CG2 A:THR381 4.5 25.5 1.0
CG A:GLU420 4.5 38.0 1.0
CA A:MET376 4.7 27.6 1.0
N A:LYS377 4.8 35.6 1.0
CA A:LYS377 4.9 37.6 1.0

Calcium binding site 2 out of 6 in 1avc

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Calcium binding site 2 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca675

b:27.0
occ:1.00
 O A:LEU78 2.7 30.9 1.0
O A:LYS75 2.8 37.2 1.0
OG1 A:THR79 2.9 42.6 1.0
OE1 A:GLU83 3.2 30.4 1.0
CB A:THR79 3.8 41.5 1.0
C A:LEU78 3.8 35.9 1.0
C A:LYS75 4.0 36.1 1.0
CA A:THR79 4.1 41.1 1.0
O A:TYR76 4.1 44.6 1.0
CD A:GLU83 4.3 27.6 1.0
N A:THR79 4.4 37.8 1.0
CA A:TYR76 4.5 41.2 1.0
C A:TYR76 4.6 42.5 1.0
N A:TYR76 4.8 39.1 1.0

Calcium binding site 3 out of 6 in 1avc

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Calcium binding site 3 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca676

b:30.3
occ:1.00
 O A:GLY266 2.5 45.3 1.0
OD2 A:ASP308 2.6 33.2 1.0
O A:MET264 2.7 29.6 1.0
O A:GLY268 2.7 35.1 1.0
OD1 A:ASP308 2.7 33.0 1.0
CG A:ASP308 3.0 32.1 1.0
C A:GLY268 3.3 35.4 1.0
C A:GLY266 3.4 41.4 1.0
N A:GLY268 3.4 38.4 1.0
C A:MET264 3.5 30.6 1.0
OG1 A:THR269 3.6 29.1 1.0
C A:LEU267 3.6 40.9 1.0
CA A:LEU267 3.9 40.5 1.0
CA A:MET264 4.0 28.0 1.0
CA A:GLY268 4.0 37.2 1.0
N A:LEU267 4.0 41.2 1.0
N A:THR269 4.0 33.7 1.0
O A:LYS265 4.1 36.5 1.0
C A:LYS265 4.2 37.9 1.0
CA A:THR269 4.3 29.4 1.0
O A:LEU267 4.3 43.8 1.0
N A:GLY266 4.4 38.9 1.0
N A:LYS265 4.5 33.5 1.0
CA A:GLY266 4.5 40.8 1.0
CB A:THR269 4.5 26.2 1.0
CB A:ASP308 4.5 29.9 1.0
CB A:MET264 4.7 25.0 1.0
NH2 A:ARG270 4.8 35.2 1.0
CA A:LYS265 4.9 35.8 1.0
O A:ALA263 4.9 29.8 1.0

Calcium binding site 4 out of 6 in 1avc

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Calcium binding site 4 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca677

b:26.8
occ:1.00
 OE1 A:GLU233 2.6 31.6 1.0
O A:GLY188 2.7 30.7 1.0
O A:GLY193 2.7 35.5 1.0
CG A:GLU233 3.0 26.1 1.0
C A:GLY188 3.0 29.3 1.0
CD A:GLU233 3.2 30.6 1.0
O A:LYS191 3.3 34.5 1.0
CB A:GLU233 3.4 21.8 1.0
OG1 A:THR194 3.6 32.2 1.0
N A:GLU189 3.6 29.7 1.0
CA A:GLY188 3.7 30.0 1.0
O A:SER229 3.7 32.2 1.0
C A:GLY193 3.8 35.4 1.0
CA A:GLU189 4.0 30.0 1.0
N A:GLY193 4.3 37.3 1.0
OE2 A:GLU233 4.4 32.6 1.0
C A:LYS191 4.4 35.5 1.0
C A:GLU189 4.5 31.6 1.0
CA A:GLY193 4.6 36.5 1.0
O A:GLU189 4.6 33.7 1.0
CB A:THR194 4.7 30.2 1.0
N A:THR194 4.7 33.6 1.0
CA A:GLU233 4.7 19.0 1.0
CA A:THR194 4.8 30.3 1.0
N A:LYS191 4.8 36.4 1.0
C A:SER229 4.8 30.0 1.0

Calcium binding site 5 out of 6 in 1avc

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Calcium binding site 5 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca678

b:30.4
occ:1.00
 O A:GLY616 2.3 44.5 1.0
OD2 A:ASP656 2.5 38.3 1.0
O A:GLY614 2.8 53.5 1.0
OG1 A:THR617 3.0 31.5 1.0
CG A:ASP656 3.2 36.5 1.0
OD1 A:ASP656 3.2 36.6 1.0
O A:MET612 3.2 38.7 1.0
C A:GLY616 3.3 42.3 1.0
O A:ALA615 3.4 51.1 1.0
O A:HOH779 3.6 28.9 1.0
C A:ALA615 3.7 50.9 1.0
C A:GLY614 3.8 53.5 1.0
C A:MET612 3.9 38.5 1.0
N A:GLY616 4.0 48.5 1.0
CA A:GLY616 4.1 45.2 1.0
N A:THR617 4.1 36.5 1.0
CB A:THR617 4.2 29.5 1.0
CA A:THR617 4.3 31.4 1.0
CA A:MET612 4.3 34.3 1.0
CA A:ALA615 4.4 52.3 1.0
CB A:ASP656 4.5 33.5 1.0
N A:ALA615 4.5 53.7 1.0
C A:LYS613 4.6 49.1 1.0
N A:GLY614 4.6 51.0 1.0
O A:LYS613 4.7 49.3 1.0
N A:LYS613 4.7 43.4 1.0
CA A:GLY614 4.7 52.2 1.0

Calcium binding site 6 out of 6 in 1avc

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Calcium binding site 6 out of 6 in the Bovine Annexin VI (Calcium-Bound)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Bovine Annexin VI (Calcium-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca679

b:28.0
occ:1.00
 O A:GLY452 2.5 28.5 1.0
O A:GLY450 2.5 36.4 1.0
O A:MET448 2.6 25.7 1.0
OD1 A:ASP492 2.7 35.5 1.0
C A:MET448 3.0 26.2 1.0
OD2 A:ASP492 3.0 36.5 1.0
CG A:ASP492 3.1 35.3 1.0
C A:GLU449 3.4 36.4 1.0
C A:GLY450 3.4 36.8 1.0
O A:GLU449 3.5 37.8 1.0
N A:GLU449 3.6 30.2 1.0
N A:GLY450 3.6 36.6 1.0
C A:GLY452 3.7 31.8 1.0
CA A:MET448 3.8 24.2 1.0
CA A:GLU449 3.8 34.5 1.0
N A:GLY452 4.0 37.2 1.0
CA A:GLY450 4.1 36.9 1.0
C A:ALA451 4.2 37.9 1.0
N A:ALA451 4.3 38.5 1.0
O A:ALA447 4.4 27.6 1.0
CA A:GLY452 4.4 34.3 1.0
CA A:ALA451 4.5 38.1 1.0
CB A:ASP492 4.5 33.7 1.0
N A:THR453 4.6 29.6 1.0
O A:ALA451 4.6 36.5 1.0
OG1 A:THR453 4.7 22.6 1.0
CA A:THR453 4.7 28.0 1.0
N A:MET448 4.7 24.2 1.0
CB A:MET448 4.8 23.5 1.0
C A:ALA447 4.9 25.5 1.0

Reference:

A.J.Avila-Sakar, C.E.Creutz, R.H.Kretsinger. Crystal Structure of Bovine Annexin VI in A Calcium-Bound State. Biochim.Biophys.Acta V.1387 103 1998.
ISSN: ISSN 0006-3002
PubMed: 9748523
DOI: 10.1016/S0167-4838(98)00111-3
Page generated: Mon Jul 7 13:28:25 2025

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