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Calcium in PDB 3b4n: Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi

Enzymatic activity of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi

All present enzymatic activity of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi:
4.2.2.2;

Protein crystallography data

The structure of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi, PDB code: 3b4n was solved by C.Creze, S.Castang, E.Derivery, R.Haser, V.Shevchik, P.Gouet, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.02 / 1.45
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 61.600, 70.700, 73.400, 90.00, 112.80, 90.00
R / Rfree (%) 17.5 / 19.8

Other elements in 3b4n:

The structure of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi also contains other interesting chemical elements:

Zinc (Zn) 6 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi (pdb code 3b4n). 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 Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi, PDB code: 3b4n:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3b4n

Go back to Calcium Binding Sites List in 3b4n
Calcium binding site 1 out of 2 in the Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:11.7
occ:1.00
O A:TYR218 2.2 15.1 1.0
O A:ILE192 2.3 11.1 1.0
OD1 A:ASN213 2.3 10.8 1.0
OD1 A:ASP191 2.4 14.8 1.0
O A:HOH1003 2.4 12.5 1.0
O A:HOH1026 2.4 13.0 1.0
CG A:ASN213 3.4 10.8 1.0
C A:TYR218 3.4 16.9 1.0
CG A:ASP191 3.5 14.9 1.0
C A:ILE192 3.5 10.6 1.0
ND2 A:ASN213 3.9 10.5 1.0
N A:TYR218 3.9 16.1 1.0
OD2 A:ASP191 4.0 17.6 1.0
CA A:TYR218 4.1 16.7 1.0
N A:ILE192 4.2 11.0 1.0
C A:GLY217 4.2 16.7 1.0
C A:ASP191 4.2 12.5 1.0
CA A:ILE192 4.4 10.9 1.0
O A:GLY220 4.4 18.2 1.0
O A:ASP191 4.4 12.9 1.0
N A:GLY219 4.4 16.4 1.0
O A:CYS193 4.4 12.1 1.0
N A:CYS193 4.5 10.5 1.0
CA A:CYS193 4.5 11.2 1.0
N A:ALA214 4.6 12.7 1.0
CA A:GLY219 4.6 18.1 1.0
CB A:TYR218 4.6 19.6 1.0
O A:ALA214 4.6 13.8 1.0
CB A:ASN213 4.7 10.1 1.0
CB A:ASP191 4.7 14.0 1.0
CA A:GLY217 4.7 17.4 1.0
O A:GLY217 4.7 16.4 1.0
CB A:ILE192 4.7 10.4 1.0
CA A:ASN213 4.7 11.0 1.0
CA A:ASP191 4.8 12.1 1.0
C A:GLY219 4.9 17.1 1.0
O A:HOH1087 4.9 18.1 1.0
C A:CYS193 5.0 11.0 1.0
N A:GLY220 5.0 17.6 1.0

Calcium binding site 2 out of 2 in 3b4n

Go back to Calcium Binding Sites List in 3b4n
Calcium binding site 2 out of 2 in the Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure Analysis of Pectate Lyase Peli From Erwinia Chrysanthemi within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca701

b:11.4
occ:1.00
O B:TYR218 2.3 15.8 1.0
O B:ILE192 2.3 10.2 1.0
O B:HOH1384 2.3 16.1 1.0
OD1 B:ASN213 2.3 13.0 1.0
OD1 B:ASP191 2.3 13.8 1.0
O B:HOH1383 2.4 18.0 1.0
O B:HOH1731 2.6 29.6 1.0
CG B:ASN213 3.4 12.9 1.0
CG B:ASP191 3.5 13.2 1.0
C B:TYR218 3.5 16.1 1.0
C B:ILE192 3.5 10.1 1.0
OD2 B:ASP191 4.0 14.1 1.0
ND2 B:ASN213 4.0 14.3 1.0
N B:TYR218 4.0 17.8 1.0
N B:ILE192 4.2 9.2 1.0
C B:GLY217 4.2 19.9 1.0
C B:ASP191 4.3 10.7 1.0
CA B:TYR218 4.3 16.4 1.0
CA B:ILE192 4.3 10.0 1.0
N B:GLY219 4.4 15.7 1.0
O B:GLY220 4.5 18.4 1.0
O B:CYS193 4.5 11.2 1.0
O B:ALA214 4.5 17.4 1.0
CA B:GLY219 4.5 17.4 1.0
N B:CYS193 4.5 10.1 1.0
N B:ALA214 4.5 13.6 1.0
CA B:CYS193 4.6 10.8 1.0
CA B:GLY217 4.6 20.1 1.0
O B:ASP191 4.6 11.2 1.0
O B:GLY217 4.6 20.6 1.0
CB B:ASN213 4.6 11.6 1.0
CB B:ASP191 4.7 11.8 1.0
CA B:ASN213 4.7 11.3 1.0
CB B:ILE192 4.7 9.9 1.0
O B:HOH1219 4.8 24.7 1.0
CB B:TYR218 4.8 15.6 1.0
CA B:ASP191 4.8 10.2 1.0
C B:GLY219 4.8 17.0 1.0
N B:GLY220 5.0 18.5 1.0

Reference:

C.Creze, S.Castang, E.Derivery, R.Haser, N.Hugouvieux-Cotte-Pattat, V.E.Shevchik, P.Gouet. The Crystal Structure of Pectate Lyase Peli From Soft Rot Pathogen Erwinia Chrysanthemi in Complex with Its Substrate. J.Biol.Chem. V. 283 18260 2008.
ISSN: ISSN 0021-9258
PubMed: 18430740
DOI: 10.1074/JBC.M709931200
Page generated: Tue Jul 8 11:02:38 2025

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