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Praseodymium in PDB 2vsy: Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure

Protein crystallography data

The structure of Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure, PDB code: 2vsy was solved by A.W.Schuettelkopf, A.J.Clarke, D.M.F.Van Aalten, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 81.523, 100.096, 156.274, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 23.6

Other elements in 2vsy:

The structure of Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Praseodymium Binding Sites:

The binding sites of Praseodymium atom in the Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure (pdb code 2vsy). This binding sites where shown within 5.0 Angstroms radius around Praseodymium atom.
In total 3 binding sites of Praseodymium where determined in the Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure, PDB code: 2vsy:
Jump to Praseodymium binding site number: 1; 2; 3;

Praseodymium binding site 1 out of 3 in 2vsy

Go back to Praseodymium Binding Sites List in 2vsy
Praseodymium binding site 1 out of 3 in the Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 1 of Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pr1571

b:36.1
occ:0.50
OE2 A:GLU364 2.7 49.3 1.0
O A:HOH2005 2.9 47.0 1.0
O A:HOH2096 3.0 43.8 1.0
O A:HOH2021 3.0 40.2 1.0
OE1 A:GLU364 3.0 49.2 1.0
CD A:GLU364 3.2 48.7 1.0
CG A:GLU364 4.7 42.0 1.0

Praseodymium binding site 2 out of 3 in 2vsy

Go back to Praseodymium Binding Sites List in 2vsy
Praseodymium binding site 2 out of 3 in the Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 2 of Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pr1572

b:54.8
occ:0.50
O2 A:PEG1570 2.5 53.2 1.0
O A:HOH2153 2.5 23.4 1.0
OD1 A:ASP455 2.7 31.8 1.0
C1 A:PEG1570 3.4 53.0 1.0
C2 A:PEG1570 3.5 51.4 1.0
O1 A:PEG1570 3.5 55.7 1.0
CG A:ASP455 3.6 37.3 1.0
C3 A:PEG1570 3.7 51.8 1.0
O4 A:PEG1570 3.8 52.9 1.0
OD2 A:ASP455 3.9 38.5 1.0
C4 A:PEG1570 4.0 52.9 1.0
NH2 A:ARG368 4.3 45.4 1.0
CB A:ASP455 5.0 35.1 1.0

Praseodymium binding site 3 out of 3 in 2vsy

Go back to Praseodymium Binding Sites List in 2vsy
Praseodymium binding site 3 out of 3 in the Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 3 of Xanthomonas Campestris Putative Ogt (XCC0866), Apostructure within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Pr1572

b:57.4
occ:0.50
O B:HOH2141 2.6 48.5 1.0
O B:HOH2156 2.9 22.8 1.0
O B:HOH2028 3.1 46.3 1.0
O B:HOH2142 3.5 36.1 1.0
ND1 B:HIS530 3.6 50.1 1.0
CB B:HIS530 4.3 41.6 1.0
CG B:HIS530 4.4 44.8 1.0
CE1 B:HIS530 4.5 50.0 1.0
O B:GLY476 4.7 39.7 1.0
OD2 B:ASP534 4.8 48.7 1.0

Reference:

A.J.Clarke, R.Hurtado-Guerrero, S.Pathak, A.W.Schuttelkopf, V.Borodkin, S.M.Shepherd, A.F.M.Ibrahim, D.M.F.Van Aalten. Structural Insights Into Mechanism and Specificity of O-Glcnac Transferase. Embo J. V. 27 2780 2008.
ISSN: ISSN 0261-4189
PubMed: 18818698
DOI: 10.1038/EMBOJ.2008.186
Page generated: Thu Oct 29 06:39:19 2020

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