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Calcium in PDB 5lq0: Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution

Protein crystallography data

The structure of Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution, PDB code: 5lq0 was solved by P.Ecsedi, G.Gogl, B.Kiss, L.Nyitray, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.77 / 2.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.450, 63.470, 268.910, 90.00, 90.00, 90.00
R / Rfree (%) 22.7 / 26

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution (pdb code 5lq0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution, PDB code: 5lq0:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 5lq0

Go back to Calcium Binding Sites List in 5lq0
Calcium binding site 1 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


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 TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:71.1
occ:1.00
 O A:GLY282 2.5 72.1 1.0
OD1 A:ASP322 2.5 94.5 1.0
O A:GLY280 2.7 0.8 1.0
OD2 A:ASP322 2.8 73.2 1.0
CG A:ASP322 3.0 80.0 1.0
O A:MET278 3.1 62.7 1.0
C A:GLY282 3.6 78.1 1.0
N A:GLY282 3.8 93.0 1.0
C A:GLY280 4.0 0.8 1.0
C A:MET278 4.1 66.5 1.0
CA A:GLY282 4.2 82.2 1.0
OG1 A:THR283 4.2 74.3 1.0
C A:LYS281 4.3 96.5 1.0
CB A:ASP322 4.5 70.5 1.0
CA A:MET278 4.5 63.9 1.0
CA A:LYS281 4.6 95.0 1.0
N A:THR283 4.7 78.6 1.0
N A:LYS281 4.8 99.5 1.0
N A:GLY280 4.8 0.9 1.0
C A:LYS279 4.9 93.0 1.0
O A:LYS281 5.0 97.3 1.0
CA A:GLY280 5.0 0.2 1.0

Calcium binding site 2 out of 6 in 5lq0

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Calcium binding site 2 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


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 TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:81.8
occ:1.00
 OE1 A:GLU247 2.5 93.5 1.0
O A:GLY207 2.6 0.8 1.0
O A:ARG205 2.6 97.9 1.0
O A:GLY202 2.8 79.2 1.0
OE2 A:GLU247 2.9 95.2 1.0
CD A:GLU247 3.0 92.3 1.0
N A:GLY207 3.2 98.6 1.0
C A:GLY207 3.6 98.0 1.0
O A:HOH501 3.6 49.1 1.0
CA A:LYS206 3.7 94.2 1.0
C A:ARG205 3.7 98.4 1.0
C A:LYS206 3.8 99.7 1.0
C A:GLY202 3.9 77.8 1.0
CA A:GLY207 4.0 94.9 1.0
N A:LYS206 4.2 97.5 1.0
CA A:VAL203 4.3 73.3 1.0
O A:VAL203 4.4 77.9 1.0
OG1 A:THR208 4.4 77.7 1.0
C A:VAL203 4.5 76.9 1.0
CG A:GLU247 4.5 88.7 1.0
N A:VAL203 4.6 74.9 1.0
N A:THR208 4.8 96.6 1.0
O A:LYS206 4.8 0.9 1.0
CB A:LYS206 4.9 90.1 1.0
CA A:GLY202 5.0 76.9 1.0
CA A:ARG205 5.0 0.5 1.0

Calcium binding site 3 out of 6 in 5lq0

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Calcium binding site 3 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


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 TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:30.0
occ:1.00
 OE1 A:GLU96 2.5 87.2 1.0
O A:LEU91 2.8 78.1 1.0
CD A:GLU96 3.1 81.1 1.0
OE2 A:GLU96 3.1 79.7 1.0
O A:LYS88 3.3 91.4 1.0
CA A:SER92 3.9 65.0 1.0
C A:LEU91 3.9 71.0 1.0
CB A:SER92 4.2 60.1 1.0
N A:SER92 4.4 67.9 1.0
C A:LYS88 4.5 84.4 1.0
CG A:GLU96 4.5 72.6 1.0

Calcium binding site 4 out of 6 in 5lq0

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Calcium binding site 4 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca401

b:80.0
occ:1.00
 O B:ARG205 2.6 83.2 1.0
OE2 B:GLU247 2.6 96.2 1.0
OE1 B:GLU247 2.9 96.2 1.0
O B:GLY207 3.0 83.2 1.0
CD B:GLU247 3.1 93.9 1.0
O B:GLY202 3.2 83.7 1.0
N B:GLY207 3.5 97.4 1.0
C B:ARG205 3.8 85.2 1.0
C B:GLY207 4.0 87.7 1.0
CA B:LYS206 4.1 94.7 1.0
O B:VAL203 4.1 0.5 1.0
C B:GLY202 4.2 85.0 1.0
C B:LYS206 4.3 98.9 1.0
CA B:GLY207 4.3 91.9 1.0
CA B:VAL203 4.4 96.2 1.0
N B:LYS206 4.4 89.8 1.0
C B:VAL203 4.5 0.4 1.0
OG1 B:THR208 4.6 87.5 1.0
CG B:GLU247 4.6 90.7 1.0
N B:VAL203 4.8 87.0 1.0
CA B:ARG205 4.9 84.2 1.0

Calcium binding site 5 out of 6 in 5lq0

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Calcium binding site 5 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca402

b:53.9
occ:1.00
 O B:GLY282 2.4 43.9 1.0
OD1 B:ASP322 2.5 70.5 1.0
O B:GLY280 2.5 71.1 1.0
OD2 B:ASP322 2.5 61.5 1.0
O B:MET278 2.6 52.9 1.0
CG B:ASP322 2.8 60.9 1.0
C B:MET278 3.6 58.8 1.0
C B:GLY282 3.6 45.4 1.0
C B:GLY280 3.7 68.0 1.0
N B:GLY282 4.0 57.2 1.0
CA B:MET278 4.0 55.2 1.0
OG1 B:THR283 4.2 47.4 1.0
C B:LYS281 4.2 59.1 1.0
CB B:ASP322 4.3 51.4 1.0
CA B:GLY282 4.4 48.4 1.0
N B:GLY280 4.5 64.3 1.0
CA B:LYS281 4.5 63.7 1.0
N B:LYS281 4.6 72.2 1.0
C B:LYS279 4.6 54.3 1.0
CB B:MET278 4.6 49.5 1.0
N B:THR283 4.6 45.0 1.0
N B:LYS279 4.7 62.5 1.0
CA B:GLY280 4.7 70.2 1.0
O B:LYS281 4.7 59.2 1.0
CA B:THR283 4.8 45.0 1.0
O B:LYS279 4.9 47.0 1.0

Calcium binding site 6 out of 6 in 5lq0

Go back to Calcium Binding Sites List in 5lq0
Calcium binding site 6 out of 6 in the Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of TYR24 Phosphorylated Annexin A2 at 2.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca403

b:0.6
occ:1.00
 O B:HOH502 2.6 38.9 1.0
O B:GLY50 2.6 99.1 1.0
O B:VAL51 2.7 81.7 1.0
OE1 B:GLU53 3.2 0.9 1.0
C B:GLY50 3.6 97.5 1.0
C B:VAL51 3.8 76.4 1.0
CD B:GLU53 4.2 98.7 1.0
N B:VAL51 4.4 91.7 1.0
CA B:GLY50 4.4 0.9 1.0
CA B:VAL51 4.5 81.5 1.0
OE2 B:GLU53 4.6 0.4 1.0
CB B:VAL51 4.8 78.0 1.0
N B:ASP52 4.9 69.1 1.0
N B:GLU53 4.9 75.7 1.0

Reference:

P.Ecsedi, B.Kiss, G.Gogl, L.Radnai, L.Buday, K.Koprivanacz, K.Liliom, I.Leveles, B.Vertessy, N.Jeszenoi, C.Hetenyi, G.Schlosser, G.Katona, L.Nyitray. Regulation of the Equilibrium Between Closed and Open Conformations of Annexin A2 By N-Terminal Phosphorylation and S100A4-Binding. Structure V. 25 1195 2017.
ISSN: ISSN 1878-4186
PubMed: 28669632
DOI: 10.1016/J.STR.2017.06.001
Page generated: Mon Jul 15 07:45:16 2024

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