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Platinum in PDB 4lab: Crystal Structure of the Catalytic Domain of Rlub

Enzymatic activity of Crystal Structure of the Catalytic Domain of Rlub

All present enzymatic activity of Crystal Structure of the Catalytic Domain of Rlub:
5.4.99.22;

Protein crystallography data

The structure of Crystal Structure of the Catalytic Domain of Rlub, PDB code: 4lab was solved by N.Czudnochowski, J.S.Finer-Moore, R.M.Stroud, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 58.26 / 2.50
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 82.390, 82.390, 74.900, 90.00, 90.00, 90.00
R / Rfree (%) 23.1 / 26.1

Other elements in 4lab:

The structure of Crystal Structure of the Catalytic Domain of Rlub also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of the Catalytic Domain of Rlub (pdb code 4lab). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the Crystal Structure of the Catalytic Domain of Rlub, PDB code: 4lab:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 4lab

Go back to Platinum Binding Sites List in 4lab
Platinum binding site 1 out of 2 in the Crystal Structure of the Catalytic Domain of Rlub


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of the Catalytic Domain of Rlub within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt301

b:76.2
occ:0.86
NH2 A:ARG226 2.4 55.4 1.0
SG A:CYS114 2.5 62.4 1.0
CL A:CL303 2.5 76.3 0.7
NE A:ARG226 2.8 56.6 1.0
CZ A:ARG226 3.0 57.8 1.0
CB A:CYS114 3.3 50.0 1.0
CG A:ARG209 3.7 61.3 1.0
CD A:ARG226 4.1 59.6 1.0
CG1 A:ILE211 4.1 50.5 1.0
O A:HOH408 4.1 57.1 1.0
NH1 A:ARG226 4.3 61.4 1.0
CD1 A:ILE211 4.4 49.8 1.0
CA A:CYS114 4.8 50.7 1.0
CB A:GLU76 4.8 64.1 1.0
CG A:ARG226 5.0 60.3 1.0
N A:GLU76 5.0 59.2 1.0

Platinum binding site 2 out of 2 in 4lab

Go back to Platinum Binding Sites List in 4lab
Platinum binding site 2 out of 2 in the Crystal Structure of the Catalytic Domain of Rlub


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of the Catalytic Domain of Rlub within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt302

b:92.8
occ:0.41
SD A:MET130 2.5 0.6 1.0
CA A:GLY107 3.4 53.2 1.0
CE A:MET130 3.5 53.6 1.0
N A:GLY107 3.9 51.9 1.0
C A:GLY107 4.1 55.1 1.0
CG A:MET130 4.1 57.5 1.0
CB A:MET130 4.5 57.2 1.0
N A:ARG108 4.6 57.6 1.0
O A:HOH419 4.6 46.2 1.0
O A:GLY107 4.7 53.1 1.0
O A:HOH405 4.8 54.7 1.0

Reference:

N.Czudnochowski, G.W.Ashley, D.V.Santi, A.Alian, J.Finer-Moore, R.M.Stroud. The Mechanism of Pseudouridine Synthases From A Covalent Complex with Rna, and Alternate Specificity For U2605 Versus U2604 Between Close Homologs. Nucleic Acids Res. V. 42 2037 2014.
ISSN: ISSN 0305-1048
PubMed: 24214967
DOI: 10.1093/NAR/GKT1050
Page generated: Wed Dec 16 02:04:48 2020

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