Chlorine in PDB 5d08: Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase

Enzymatic activity of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase

All present enzymatic activity of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase:
1.17.99.6;

Protein crystallography data

The structure of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase, PDB code: 5d08 was solved by D.P.Dowling, Z.D.Miles, C.Kohrer, V.Bandarian, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.41 / 1.75
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 84.301, 95.780, 111.175, 90.00, 90.00, 90.00
R / Rfree (%) 16.7 / 19.6

Other elements in 5d08:

The structure of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase also contains other interesting chemical elements:

Cobalt (Co) 2 atoms
Iron (Fe) 16 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase (pdb code 5d08). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase, PDB code: 5d08:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 5d08

Go back to Chlorine Binding Sites List in 5d08
Chlorine binding site 1 out of 2 in the Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl507

b:56.1
occ:1.00
OE1 A:GLU125 3.8 68.1 1.0
CG2 A:ILE176 4.2 34.8 1.0
CD2 A:LEU6 4.2 34.1 1.0
CG1 A:ILE176 4.5 34.7 1.0
CD1 A:ILE127 4.5 39.2 1.0
CG2 A:VAL3 4.6 43.1 1.0
CG1 A:ILE127 4.7 36.2 1.0
CD A:GLU125 4.8 71.1 1.0
CB A:ILE176 4.9 35.0 1.0
CD1 A:ILE176 5.0 36.9 1.0

Chlorine binding site 2 out of 2 in 5d08

Go back to Chlorine Binding Sites List in 5d08
Chlorine binding site 2 out of 2 in the Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Selenomethionine-Labeled Epoxyqueuosine Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl505

b:52.7
occ:1.00
CD2 B:LEU6 4.0 31.6 1.0
CG2 B:ILE176 4.1 31.8 1.0
OE1 B:GLU125 4.2 66.5 1.0
CG2 B:VAL3 4.3 45.7 1.0
CG1 B:ILE176 4.5 30.4 1.0
CD1 B:ILE127 4.7 35.4 1.0
CB B:ILE176 4.8 31.2 1.0
CD B:GLU125 4.9 67.7 1.0
CG1 B:ILE127 4.9 35.9 1.0
OD1 B:ASN2 4.9 61.0 1.0
CD1 B:ILE176 5.0 34.2 1.0

Reference:

D.P.Dowling, Z.D.Miles, C.Kohrer, S.J.Maiocco, S.J.Elliott, V.Bandarian, C.L.Drennan. Molecular Basis of Cobalamin-Dependent Rna Modification. Nucleic Acids Res. V. 44 9965 2016.
ISSN: ESSN 1362-4962
PubMed: 27638883
DOI: 10.1093/NAR/GKW806
Page generated: Sat Dec 12 11:37:12 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy