Atomistry » Calcium » PDB 4q1o-4qn4 » 4q8l
Atomistry »
  Calcium »
    PDB 4q1o-4qn4 »
      4q8l »

Calcium in PDB 4q8l: Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd

Protein crystallography data

The structure of Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd, PDB code: 4q8l was solved by S.Dong, C.Y.Li, Y.Z.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.30 / 2.10
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 66.738, 66.738, 419.881, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 22.1

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd (pdb code 4q8l). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd, PDB code: 4q8l:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 4q8l

Go back to Calcium Binding Sites List in 4q8l
Calcium binding site 1 out of 2 in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd


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 Polysacchride Lyase Family 18 Aly-SJ02 R-Catd within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:25.1
occ:1.00
O A:VAL116 2.4 23.5 1.0
O A:ILE121 2.4 16.6 1.0
OD2 A:ASP114 2.4 20.2 1.0
OD1 A:ASN119 2.4 26.8 1.0
OD1 A:ASP106 2.4 22.5 1.0
O A:HOH401 2.6 22.0 1.0
CG A:ASN119 3.4 29.0 1.0
CG A:ASP114 3.4 27.5 1.0
C A:VAL116 3.5 23.0 1.0
C A:ILE121 3.5 21.8 1.0
CG A:ASP106 3.6 23.1 1.0
N A:VAL116 3.9 23.7 1.0
CA A:ASP106 3.9 20.9 1.0
ND2 A:ASN119 3.9 20.5 1.0
N A:ILE121 4.0 19.0 1.0
CB A:ILE121 4.0 20.9 1.0
CA A:ILE121 4.1 22.9 1.0
CA A:VAL116 4.1 23.8 1.0
OD1 A:ASP114 4.1 22.8 1.0
C A:ASP106 4.2 24.3 1.0
CB A:VAL116 4.2 23.2 1.0
CB A:ASP106 4.2 24.1 1.0
N A:ASN119 4.3 23.7 1.0
CB A:ASP114 4.3 20.2 1.0
O A:THR107 4.4 19.8 1.0
OD2 A:ASP106 4.5 22.6 1.0
N A:THR107 4.6 20.1 1.0
N A:ALA117 4.6 21.9 1.0
CB A:ASN119 4.6 27.1 1.0
O A:ASP106 4.6 22.9 1.0
N A:PHE122 4.6 20.9 1.0
N A:ASN118 4.6 26.8 1.0
OD2 A:ASP123 4.7 19.1 1.0
C A:ALA117 4.7 27.6 1.0
CG2 A:ILE121 4.8 22.6 1.0
N A:GLY120 4.8 20.5 1.0
CA A:ASN119 4.8 21.9 1.0
CA A:ALA117 4.8 27.1 1.0
O A:SER105 4.9 17.4 1.0
N A:SER115 4.9 19.5 1.0
CA A:PHE122 4.9 18.9 1.0
CG1 A:VAL116 4.9 24.2 1.0
C A:ASN119 4.9 23.4 1.0
C A:SER115 5.0 23.1 1.0

Calcium binding site 2 out of 2 in 4q8l

Go back to Calcium Binding Sites List in 4q8l
Calcium binding site 2 out of 2 in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd


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 Polysacchride Lyase Family 18 Aly-SJ02 R-Catd within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:21.5
occ:1.00
O B:VAL116 2.4 17.1 1.0
O B:ILE121 2.4 16.2 1.0
OD1 B:ASP106 2.4 18.6 1.0
OD2 B:ASP114 2.4 20.2 1.0
OD1 B:ASN119 2.5 19.8 1.0
O B:HOH402 2.5 17.6 1.0
CG B:ASN119 3.4 22.3 1.0
CG B:ASP114 3.5 20.2 1.0
C B:ILE121 3.5 17.6 1.0
C B:VAL116 3.5 18.8 1.0
CG B:ASP106 3.6 21.4 1.0
ND2 B:ASN119 3.9 15.3 1.0
N B:VAL116 3.9 20.5 1.0
CA B:ASP106 4.0 17.7 1.0
N B:ILE121 4.0 19.1 1.0
CA B:ILE121 4.1 21.1 1.0
CB B:ILE121 4.1 18.2 1.0
CA B:VAL116 4.1 18.9 1.0
C B:ASP106 4.2 17.3 1.0
OD1 B:ASP114 4.2 19.7 1.0
N B:ASN119 4.3 18.4 1.0
CB B:ASP114 4.3 18.7 1.0
CB B:ASP106 4.3 18.4 1.0
CB B:VAL116 4.4 18.2 1.0
O B:THR107 4.4 20.2 1.0
OD2 B:ASP106 4.5 21.1 1.0
N B:ALA117 4.6 18.3 1.0
CB B:ASN119 4.6 22.4 1.0
N B:PHE122 4.6 15.3 1.0
N B:ASN118 4.6 19.9 1.0
N B:THR107 4.6 18.2 1.0
O B:ASP106 4.6 19.8 1.0
C B:ALA117 4.7 19.7 1.0
OD2 B:ASP123 4.7 20.6 1.0
O B:SER105 4.8 18.1 1.0
CA B:ALA117 4.8 20.5 1.0
N B:GLY120 4.8 19.9 1.0
CA B:ASN119 4.8 19.0 1.0
CG2 B:ILE121 4.8 17.2 1.0
N B:SER115 4.9 19.0 1.0
CA B:PHE122 4.9 17.4 1.0
C B:ASN119 4.9 19.4 1.0

Reference:

S.Dong, C.Y.Li, Y.Z.Zhang. Molecular Insight Into the Role of the N-Terminal Extension in the Maturation, Substrate Recognition and Catalysis of A Bacterial Alginate Lyase From Polysaccharide Lyase FAMILY18 To Be Published.
Page generated: Sat Dec 12 05:05:42 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy