Calcium in PDB 1ru4: Crystal Structure of Pectate Lyase PEL9A

All present enzymatic activity of Crystal Structure of Pectate Lyase PEL9A:
4.2.2.2;

The structure of Crystal Structure of Pectate Lyase PEL9A, PDB code: 1ru4 was solved by J.Jenkins, V.E.Shevchik, N.Hugouvieux-Cotte-Pattat, R.W.Pickersgill, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.00 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.330, 57.830, 114.930, 90.00, 90.00, 90.00
R / Rfree (%)	16.7 / 18.6

The binding sites of Calcium atom in the Crystal Structure of Pectate Lyase PEL9A (pdb code 1ru4). 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 Pectate Lyase PEL9A, PDB code: 1ru4:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Pectate Lyase PEL9A


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 Pectate Lyase PEL9A within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1 b:5.5 occ:1.00 OD2 A:ASP209 2.4 6.4 1.0 OD2 A:ASP237 2.4 7.9 1.0 OD2 A:ASP233 2.4 11.2 1.0 OD1 A:ASP234 2.4 9.5 1.0 O A:HOH459 2.6 10.4 1.0 OD1 A:ASP209 2.7 7.4 1.0 O A:HOH573 2.7 18.5 1.0 CG A:ASP209 2.8 6.3 1.0 CG A:ASP233 3.4 9.6 1.0 CG A:ASP237 3.4 7.8 1.0 CG A:ASP234 3.5 7.4 1.0 CB A:ASP237 3.7 6.2 1.0 CB A:ASP233 3.8 5.8 1.0 O A:HOH578 3.9 18.9 1.0 O A:MET207 4.0 7.1 1.0 CB A:ASP234 4.0 6.0 1.0 N A:ASP234 4.2 4.7 1.0 NZ A:LYS273 4.3 10.6 1.0 NZ A:LYS214 4.3 8.2 1.0 CB A:ASP209 4.3 4.2 1.0 OD1 A:ASP233 4.3 9.7 1.0 OD1 A:ASP237 4.4 9.4 1.0 OD2 A:ASP234 4.5 6.5 1.0 CD A:LYS273 4.7 7.6 1.0 O A:HOH702 4.7 24.7 1.0 C A:MET207 4.7 7.2 1.0 CA A:ASP234 4.8 4.1 1.0 C A:ASP233 4.9 5.7 1.0 O A:SER206 5.0 10.3 1.0 CE A:LYS273 5.0 8.0 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Pectate Lyase PEL9A


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 Pectate Lyase PEL9A within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2 b:14.4 occ:1.00 O A:SER413 2.4 11.7 1.0 O A:ALA416 2.4 8.3 1.0 OD1 A:ASN402 2.4 8.7 1.0 OE2 A:GLU423 2.4 11.7 1.0 OD2 A:ASP418 2.5 6.2 1.0 O A:HOH482 2.9 22.6 1.0 CG A:ASP418 3.4 7.1 1.0 C A:SER413 3.4 12.5 1.0 CG A:ASN402 3.5 7.7 1.0 CD A:GLU423 3.5 10.5 1.0 C A:ALA416 3.6 8.9 1.0 OD1 A:ASP418 3.8 8.2 1.0 N A:ASP418 3.9 5.8 1.0 N A:ASN402 3.9 7.5 1.0 CA A:ASN402 4.0 7.3 1.0 OG A:SER413 4.0 17.9 1.0 N A:SER413 4.1 11.7 1.0 OE1 A:GLU423 4.1 11.0 1.0 C A:PRO417 4.2 5.9 1.0 N A:ALA416 4.2 11.6 1.0 N A:GLY414 4.3 14.0 1.0 CA A:GLY414 4.3 13.4 1.0 CA A:PRO417 4.3 7.0 1.0 CA A:SER413 4.3 12.9 1.0 CB A:ASN402 4.3 9.3 1.0 N A:PRO417 4.4 7.5 1.0 ND2 A:ASN402 4.5 10.7 1.0 CB A:ASP418 4.5 5.5 1.0 CA A:ASP418 4.5 5.2 1.0 CA A:ALA416 4.6 9.2 1.0 CG A:GLU423 4.6 11.1 1.0 C A:GLY414 4.6 14.3 1.0 N A:SER415 4.6 13.2 1.0 CB A:TYR412 4.7 10.1 1.0 CB A:SER413 4.8 13.7 1.0 CG2 A:ILE401 4.8 6.3 1.0 O A:PRO417 4.9 7.0 1.0 CD1 A:TYR412 4.9 11.4 1.0

J.Jenkins, V.E.Shevchik, N.Hugouvieux-Cotte-Pattat, R.W.Pickersgill. The Crystal Structure of Pectate Lyase PEL9A From Erwinia Chrysanthemi J.Biol.Chem. V. 279 9139 2004.
ISSN: ISSN 0021-9258
PubMed: 14670977
DOI: 10.1074/JBC.M311390200