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Calcium in PDB 2ykk: Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44

Enzymatic activity of Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44

All present enzymatic activity of Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44:
3.2.1.151; 3.2.1.4;

Protein crystallography data

The structure of Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44, PDB code: 2ykk was solved by A.Ariza, J.M.Eklof, O.Spadiut, W.A.Offen, S.M.Roberts, W.Besenmatter, E.P.Friis, M.Skjot, K.S.Wilson, H.Brumer, G.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 158.11 / 1.79
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 84.170, 84.170, 157.571, 90.00, 90.00, 120.00
R / Rfree (%) 14.4 / 17.7

Other elements in 2ykk:

The structure of Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44 (pdb code 2ykk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44, PDB code: 2ykk:

Calcium binding site 1 out of 1 in 2ykk

Go back to Calcium Binding Sites List in 2ykk
Calcium binding site 1 out of 1 in the Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of A Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1520

b:7.9
occ:1.00
 O A:TYR156 2.3 7.7 1.0
O A:ASP151 2.3 11.7 1.0
O A:HOH2127 2.4 8.9 1.0
OD1 A:ASP154 2.4 9.4 1.0
O A:HOH2128 2.4 9.2 1.0
OE1 A:GLU56 2.4 7.5 1.0
OE2 A:GLU56 2.5 7.1 1.0
CD A:GLU56 2.8 7.1 1.0
CG A:ASP154 3.4 9.7 1.0
C A:TYR156 3.5 7.8 1.0
C A:ASP151 3.6 12.5 1.0
OD2 A:ASP154 3.8 9.8 1.0
N A:TYR156 4.2 8.5 1.0
O A:HOH2122 4.2 9.4 1.0
CG A:GLU56 4.3 7.2 1.0
CA A:TYR156 4.4 8.2 1.0
CB A:ASP151 4.5 14.9 1.0
CA A:ASP151 4.5 13.0 1.0
N A:VAL157 4.5 7.5 1.0
O A:ASP154 4.5 9.7 1.0
N A:LEU152 4.5 12.3 1.0
CA A:LEU152 4.5 12.9 1.0
CA A:VAL157 4.5 7.5 0.5
CA A:VAL157 4.5 7.4 0.5
CG2 A:VAL157 4.6 7.6 0.5
N A:ASP151 4.6 12.4 1.0
O A:HOH2285 4.7 10.4 1.0
N A:ASP154 4.7 11.3 1.0
C A:ASP154 4.7 10.0 1.0
C A:LEU152 4.7 13.2 1.0
CB A:ASP154 4.8 10.0 1.0
CB A:TYR156 4.8 8.4 1.0
O A:HOH2125 4.8 7.9 1.0
CG1 A:VAL157 4.9 7.5 0.5
CA A:ASP154 5.0 10.3 1.0

Reference:

A.Ariza, J.M.Eklof, O.Spadiut, W.A.Offen, S.M.Roberts, W.Besenmatter, E.P.Friis, M.Skjot, K.S.Wilson, H.Brumer, G.Davies. Structure and Activity of Paenibacillus Polymyxa Xyloglucanase From Glycoside Hydrolase Family 44. J.Biol.Chem. V. 286 33890 2011.
ISSN: ISSN 0021-9258
PubMed: 21795708
DOI: 10.1074/JBC.M111.262345
Page generated: Tue Jul 8 09:41:42 2025

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