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Calcium in PDB 5g56: The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography

Protein crystallography data

The structure of The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography, PDB code: 5g56 was solved by J.L.A.Bras, H.J.Gilbert, L.M.A.Ferreira, C.M.G.A.Fontes, S.Najmudin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.70 / 2.64
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 147.410, 191.730, 50.700, 90.00, 90.00, 90.00
R / Rfree (%) 23.726 / 27.8

Calcium Binding Sites:

The binding sites of Calcium atom in the The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography (pdb code 5g56). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography, PDB code: 5g56:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 5g56

Go back to Calcium Binding Sites List in 5g56
Calcium binding site 1 out of 3 in the The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1743

b:38.7
occ:1.00
OD1 A:ASP394 2.2 43.3 1.0
OD2 A:ASP392 2.4 38.4 1.0
O A:VAL396 2.4 37.8 1.0
O A:GLY407 2.5 34.1 1.0
OD2 A:ASP409 2.6 35.2 1.0
OD1 A:ASP409 2.7 35.5 1.0
CG A:ASP409 3.0 35.1 1.0
CG A:ASP394 3.3 43.2 1.0
O A:ASP394 3.4 40.7 1.0
CG A:ASP392 3.4 37.2 1.0
C A:VAL396 3.6 38.6 1.0
C A:GLY407 3.7 33.9 1.0
OD2 A:ASP394 3.9 43.5 1.0
O A:HOH2156 4.0 41.6 1.0
C A:ASP394 4.0 40.6 1.0
OD1 A:ASP392 4.1 37.2 1.0
CA A:CA1744 4.2 38.1 1.0
N A:ASP394 4.3 40.6 1.0
N A:VAL396 4.3 39.5 1.0
CB A:ASP392 4.3 36.4 1.0
CA A:GLY407 4.4 34.6 1.0
CB A:ASP409 4.4 34.7 1.0
CA A:ASP394 4.4 41.4 1.0
CB A:ASP394 4.4 42.8 1.0
N A:ASN397 4.5 38.1 1.0
CA A:VAL396 4.6 39.5 1.0
N A:ASP409 4.6 32.9 1.0
CA A:ASN397 4.6 37.9 1.0
C A:VAL408 4.7 33.1 1.0
N A:VAL408 4.7 33.1 1.0
N A:VAL398 4.7 38.8 1.0
CG1 A:VAL398 4.8 39.8 1.0
CG2 A:VAL396 4.8 40.9 1.0
CA A:VAL408 4.8 32.9 1.0
N A:SER395 4.8 40.4 1.0
CA A:ASP409 4.9 33.7 1.0
C A:SER395 5.0 39.4 1.0

Calcium binding site 2 out of 3 in 5g56

Go back to Calcium Binding Sites List in 5g56
Calcium binding site 2 out of 3 in the The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1744

b:38.1
occ:1.00
O A:HOH2155 2.3 37.6 1.0
OD1 A:ASP392 2.3 37.2 1.0
O A:TRP424 2.4 37.1 1.0
O A:HOH2156 2.4 41.6 1.0
OD2 A:ASP409 2.4 35.2 1.0
OE1 A:GLU429 2.9 35.5 1.0
OE2 A:GLU429 2.9 35.7 1.0
OD2 A:ASP392 3.0 38.4 1.0
CG A:ASP392 3.0 37.2 1.0
CD A:GLU429 3.3 35.6 1.0
C A:TRP424 3.5 38.1 1.0
CG A:ASP409 3.5 35.1 1.0
CB A:ASP409 3.9 34.7 1.0
CB A:TRP424 3.9 39.1 1.0
O A:GLY423 4.1 36.4 1.0
CA A:CA1743 4.2 38.7 1.0
CA A:TRP424 4.3 39.0 1.0
N A:ILE425 4.3 38.4 1.0
O A:HOH2169 4.3 31.4 1.0
N A:ASP409 4.4 32.9 1.0
CA A:ILE425 4.5 38.1 1.0
CB A:ASP392 4.5 36.4 1.0
OD1 A:ASP409 4.6 35.5 1.0
N A:SER426 4.6 39.5 1.0
O A:HOH2154 4.7 17.5 1.0
OG1 A:THR393 4.8 40.3 1.0
CG A:GLU429 4.8 35.3 1.0
CA A:ASP409 4.9 33.7 1.0
O A:GLY407 5.0 34.1 1.0
N A:THR393 5.0 38.7 1.0

Calcium binding site 3 out of 3 in 5g56

Go back to Calcium Binding Sites List in 5g56
Calcium binding site 3 out of 3 in the The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Tetra-Modular Cellulosomal Arabinoxylanase CTXYL5A Structure As Revealed By X-Ray Crystallography within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1745

b:34.4
occ:1.00
O A:TYR420 2.4 36.6 1.0
O A:HOH2147 2.4 27.7 1.0
OE1 A:GLU377 2.4 36.1 1.0
OD1 A:ASN509 2.4 36.6 1.0
OE1 A:GLU379 2.4 33.2 1.0
O A:ASN509 2.5 35.8 1.0
OE2 A:GLU379 2.7 34.1 1.0
CD A:GLU379 3.0 33.4 1.0
C A:ASN509 3.4 35.8 1.0
CD A:GLU377 3.5 35.5 1.0
C A:TYR420 3.6 36.5 1.0
CG A:ASN509 3.6 37.2 1.0
CA A:ASN509 3.9 36.7 1.0
CB A:GLU377 4.0 34.2 1.0
N A:TYR420 4.1 35.8 1.0
CG A:GLU377 4.2 34.6 1.0
O A:HOH2148 4.3 34.3 1.0
CB A:ASN509 4.4 37.4 1.0
N A:ALA378 4.4 32.9 1.0
CA A:GLU377 4.4 33.8 1.0
CA A:TYR420 4.4 36.5 1.0
N A:TRP510 4.5 35.6 1.0
OE2 A:GLU377 4.5 35.8 1.0
CG A:GLU379 4.5 32.8 1.0
N A:ASN421 4.5 36.4 1.0
CA A:ASN421 4.6 36.1 1.0
ND2 A:ASN509 4.6 37.8 1.0
CB A:TRP510 4.6 35.0 1.0
CD1 A:TRP510 4.8 36.5 1.0
C A:GLU377 4.8 33.1 1.0
CA A:TRP510 4.9 34.6 1.0

Reference:

A.Labourel, L.I.Crouch, J.L.Bras, A.Jackson, A.Rogowski, J.Gray, M.P.Yadav, B.Henrissat, C.M.Fontes, H.J.Gilbert, S.Najmudin, A.Basle, F.Cuskin. The Mechanism By Which Arabinoxylanases Can Recognise Highly Decorated Xylans. J.Biol.Chem. V. 291 22149 2016.
ISSN: ISSN 0021-9258
PubMed: 27531750
DOI: 10.1074/JBC.M116.743948
Page generated: Wed Jul 9 06:06:02 2025

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