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Calcium in PDB 2ie6: Annexin V Under 2.0 Mpa Pressure of Xenon

Protein crystallography data

The structure of Annexin V Under 2.0 Mpa Pressure of Xenon, PDB code: 2ie6 was solved by N.Colloc'h, J.Sopkova-De Oliveira Santos, T.Prange, A.Brisson, B.Langloisd'estainto, B.Gallois, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.39 / 1.83
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 156.985, 156.985, 37.336, 90.00, 90.00, 120.00
R / Rfree (%) 16.8 / 20

Other elements in 2ie6:

The structure of Annexin V Under 2.0 Mpa Pressure of Xenon also contains other interesting chemical elements:

Xenon (Xe) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Annexin V Under 2.0 Mpa Pressure of Xenon (pdb code 2ie6). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Annexin V Under 2.0 Mpa Pressure of Xenon, PDB code: 2ie6:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 2ie6

Go back to Calcium Binding Sites List in 2ie6
Calcium binding site 1 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:15.3
occ:1.00
O A:GLY181 2.3 14.8 1.0
O A:LYS184 2.4 16.0 1.0
O A:GLY186 2.4 17.9 1.0
O A:HOH559 2.4 15.5 1.0
OE1 A:GLU226 2.5 16.8 1.0
OE2 A:GLU226 2.5 20.0 1.0
O4 A:SO4420 2.6 29.9 0.6
O1 A:SO4420 2.7 29.6 0.6
CD A:GLU226 2.8 20.2 1.0
S A:SO4420 3.2 26.4 0.6
C A:GLY181 3.4 15.3 1.0
C A:LYS184 3.5 16.4 1.0
C A:GLY186 3.6 18.1 1.0
N A:GLY186 3.9 17.6 1.0
CA A:GLY181 4.1 15.5 1.0
N A:LYS184 4.1 15.5 1.0
O3 A:SO4420 4.2 29.2 0.6
CA A:LYS184 4.2 16.4 1.0
O2 A:SO4420 4.3 32.4 0.6
OG1 A:THR187 4.3 20.4 1.0
N A:GLU182 4.3 14.6 1.0
CG A:GLU226 4.3 18.1 1.0
CA A:GLY186 4.3 18.9 1.0
CB A:LYS184 4.4 17.3 1.0
CA A:GLU182 4.4 14.3 1.0
O A:HOH525 4.4 26.8 1.0
C A:GLU182 4.5 16.0 1.0
O A:HOH593 4.5 35.9 1.0
N A:TRP185 4.5 16.7 1.0
O A:GLU182 4.6 16.2 1.0
C A:TRP185 4.6 18.3 1.0
N A:THR187 4.6 17.3 1.0
CA A:TRP185 4.6 17.8 1.0
CA A:THR187 4.7 17.1 1.0

Calcium binding site 2 out of 6 in 2ie6

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Calcium binding site 2 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:27.3
occ:0.70
O A:MET26 2.2 30.8 1.0
OE2 A:GLU70 2.4 36.8 1.0
O A:GLY30 2.4 36.0 1.0
O A:GLY28 2.4 36.0 1.0
OE1 A:GLU70 2.5 33.2 1.0
O A:HOH594 2.5 51.0 1.0
CD A:GLU70 2.8 33.1 1.0
C A:MET26 3.3 30.7 1.0
C A:GLY30 3.6 36.2 1.0
C A:GLY28 3.6 36.8 1.0
N A:GLY30 4.0 37.7 1.0
CA A:MET26 4.0 29.2 1.0
N A:GLY28 4.2 35.8 1.0
C A:LYS27 4.2 34.3 1.0
C A:LEU29 4.3 38.0 1.0
OG1 A:THR31 4.3 34.9 1.0
CG A:GLU70 4.3 33.2 1.0
CA A:GLY30 4.3 36.9 1.0
O A:LYS27 4.4 34.7 1.0
N A:LYS27 4.4 31.2 1.0
CA A:GLY28 4.5 36.1 1.0
O A:HOH568 4.6 36.7 1.0
N A:LEU29 4.6 36.9 1.0
CB A:MET26 4.6 28.4 1.0
N A:THR31 4.6 35.4 1.0
CA A:LEU29 4.6 38.0 1.0
CA A:LYS27 4.8 33.8 1.0
O A:LEU29 4.8 38.9 1.0
CA A:THR31 4.8 33.7 1.0

Calcium binding site 3 out of 6 in 2ie6

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Calcium binding site 3 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:41.8
occ:0.60
O A:ASP224 2.8 24.2 1.0
O A:THR227 2.8 24.3 1.0
OE1 A:GLU232 2.8 29.2 1.0
OD1 A:ASP224 3.1 28.6 1.0
O A:HOH640 3.2 47.2 1.0
CD A:GLU232 3.5 27.4 1.0
OE2 A:GLU232 3.7 29.0 1.0
C A:ASP224 3.7 22.4 1.0
CG A:ASP224 3.9 26.4 1.0
C A:THR227 3.9 24.1 1.0
CA A:SER228 4.0 26.0 1.0
CA A:ASP224 4.0 21.9 1.0
CB A:SER228 4.1 26.8 1.0
N A:SER228 4.5 25.5 1.0
OD2 A:ASP224 4.5 30.6 1.0
CB A:ASP224 4.6 22.1 1.0
CG A:GLU232 4.7 23.2 1.0
O A:ILE223 4.9 17.4 1.0
N A:ARG225 5.0 22.6 1.0

Calcium binding site 4 out of 6 in 2ie6

Go back to Calcium Binding Sites List in 2ie6
Calcium binding site 4 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca404

b:47.7
occ:0.50
O A:GLY261 2.0 45.9 1.0
O A:GLY259 2.6 52.1 1.0
OD2 A:ASP301 2.8 45.4 1.0
O A:MET257 2.9 42.8 1.0
C A:GLY261 3.1 45.9 1.0
OD1 A:ASP301 3.4 44.2 1.0
CG A:ASP301 3.4 42.4 1.0
N A:GLY261 3.4 48.8 1.0
CA A:GLY261 3.7 47.3 1.0
C A:GLY259 3.8 51.4 1.0
C A:MET257 3.9 42.8 1.0
C A:ALA260 4.0 49.9 1.0
N A:THR262 4.2 44.1 1.0
OG1 A:THR262 4.2 43.6 1.0
CA A:ALA260 4.4 50.4 1.0
CA A:MET257 4.4 41.1 1.0
N A:ALA260 4.5 51.0 1.0
CA A:THR262 4.6 41.9 1.0
O A:ALA260 4.6 50.4 1.0
N A:GLY259 4.6 50.0 1.0
CB A:ASP301 4.7 40.6 1.0
C A:LYS258 4.8 48.5 1.0
N A:LYS258 4.8 44.9 1.0
CA A:GLY259 4.9 50.9 1.0

Calcium binding site 5 out of 6 in 2ie6

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Calcium binding site 5 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca405

b:47.9
occ:0.40
O A:LEU71 2.4 31.0 1.0
O A:LYS68 2.4 31.7 1.0
C A:LYS68 3.5 31.0 1.0
C A:LEU71 3.5 31.1 1.0
CG A:GLU76 3.9 32.4 1.0
OE1 A:GLU76 3.9 40.8 1.0
CD A:GLU76 4.0 37.5 1.0
CA A:THR72 4.2 32.7 1.0
CA A:LYS68 4.3 30.2 1.0
N A:THR72 4.3 32.2 1.0
N A:LEU71 4.5 30.8 1.0
N A:SER69 4.6 32.0 1.0
CB A:GLU76 4.6 29.8 1.0
CA A:LEU71 4.6 31.1 1.0
O A:SER69 4.8 34.5 1.0
C A:SER69 4.8 32.9 1.0
OE2 A:GLU76 4.8 41.5 1.0
CA A:SER69 4.8 32.8 1.0
O A:MET67 4.9 28.2 1.0
CB A:THR72 5.0 33.2 1.0
CB A:LYS68 5.0 30.3 1.0

Calcium binding site 6 out of 6 in 2ie6

Go back to Calcium Binding Sites List in 2ie6
Calcium binding site 6 out of 6 in the Annexin V Under 2.0 Mpa Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Annexin V Under 2.0 Mpa Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca407

b:42.1
occ:0.40
O A:THR31 2.3 32.5 1.0
OE1 A:GLU33 2.6 32.9 1.0
OE2 A:GLU33 3.1 35.4 1.0
CD A:GLU33 3.2 32.6 1.0
C A:THR31 3.6 32.8 1.0
N A:THR31 4.2 35.4 1.0
O A:HOH635 4.2 50.3 1.0
CA A:THR31 4.4 33.7 1.0
N A:ASP32 4.6 30.6 1.0
CB A:THR31 4.6 34.2 1.0
N A:GLU33 4.6 29.4 1.0
CA A:ASP32 4.7 29.9 1.0
CG A:GLU33 4.7 31.8 1.0

Reference:

N.Colloc'h, J.Sopkova-De Oliveira Santos, P.Retailleau, B.Langlois D'estainto, B.Gallois, A.Brisson, J.J.Risso, M.Lemaire, J.H.Abraini. Protein Crystallography Under Xenon and Nitrous Oxide Pressure: Comparison with in Vivo Pharmacology Studies and Implications For the Mechanism of Inhaled Anesthetic Action Biophys.J. V. 92 217 2007.
ISSN: ISSN 0006-3495
PubMed: 17028130
DOI: 10.1529/BIOPHYSJ.106.093807
Page generated: Sat Dec 12 03:40:15 2020

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