Manganese in PDB 5a29: Family 2 Pectate Lyase From Vibrio Vulnificus

The structure of Family 2 Pectate Lyase From Vibrio Vulnificus, PDB code: 5a29 was solved by R.Mclean, J.K.Hobbs, M.D.Suits, S.Tuomivaara, D.Jones, A.B.Boraston, D.W.Abbott, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	122.20 / 1.90
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	141.102, 141.102, 72.426, 90.00, 90.00, 120.00
R / Rfree (%)	15.6 / 19.7

The binding sites of Manganese atom in the Family 2 Pectate Lyase From Vibrio Vulnificus (pdb code 5a29). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Family 2 Pectate Lyase From Vibrio Vulnificus, PDB code: 5a29:

Manganese binding site 1 out of 1 in the Family 2 Pectate Lyase From Vibrio Vulnificus


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Family 2 Pectate Lyase From Vibrio Vulnificus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn601 b:20.9 occ:1.00 OE1 A:GLU150 2.0 21.9 1.0 NE2 B:HIS4 2.0 24.2 1.0 NE2 A:HIS192 2.1 24.6 1.0 NE2 A:HIS129 2.1 23.5 1.0 NE2 B:HIS6 2.1 24.2 1.0 O A:HOH2137 2.3 20.2 1.0 CE1 B:HIS4 2.9 30.2 1.0 CD A:GLU150 3.0 24.2 1.0 CE1 A:HIS192 3.0 30.9 1.0 CD2 A:HIS129 3.1 21.6 1.0 CE1 A:HIS129 3.1 20.1 1.0 CD2 B:HIS6 3.1 25.1 1.0 CD2 B:HIS4 3.1 26.2 1.0 CD2 A:HIS192 3.1 23.2 1.0 CE1 B:HIS6 3.2 23.9 1.0 OE2 A:GLU150 3.3 23.1 1.0 ND1 B:HIS4 4.1 29.9 1.0 ND1 A:HIS192 4.2 25.7 1.0 ND1 A:HIS129 4.2 21.3 1.0 CG B:HIS4 4.2 26.5 1.0 CG A:HIS129 4.2 21.1 1.0 CG A:HIS192 4.3 28.5 1.0 ND1 B:HIS6 4.3 26.1 1.0 CG B:HIS6 4.3 27.8 1.0 CG A:GLU150 4.4 20.0 1.0 ND1 A:HIS546 4.4 28.8 1.0 CG A:ARG191 4.5 27.5 1.0 ND2 A:ASN146 4.5 33.1 1.0 O A:HOH2477 4.7 27.0 1.0 OE1 A:GLN143 4.7 40.6 1.0 CB A:GLU150 4.9 19.8 1.0

R.Mclean, J.K.Hobbs, M.D.Suits, S.T.Tuomivaara, D.Jones, A.B.Boraston, D.W.Abbott. Functional Analyses of Resurrected and Contemporary Enzymes Illuminate An Evolutionary Path For the Emergence of Exolysis in Polysaccharide Lyase Family 2. J.Biol.Chem. V. 290 21231 2015.
ISSN: ISSN 0021-9258
PubMed: 26160170
DOI: 10.1074/JBC.M115.664847