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Sodium in PDB 6qlj: Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap

Enzymatic activity of Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap

All present enzymatic activity of Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap:
2.5.1.129;

Protein crystallography data

The structure of Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap, PDB code: 6qlj was solved by S.A.Marshall, D.Leys, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.16 / 1.77
Space group F 2 3
Cell size a, b, c (Å), α, β, γ (°) 141.887, 141.887, 141.887, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 21.2

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap (pdb code 6qlj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap, PDB code: 6qlj:

Sodium binding site 1 out of 1 in 6qlj

Go back to Sodium Binding Sites List in 6qlj
Sodium binding site 1 out of 1 in the Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of F181Q Ubix in Complex with An Oxidised N5-C1' Adduct Derived From Dmap within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na302

b:35.4
occ:1.00
 OD1 A:ASN117 2.0 24.4 1.0
O A:HOH482 2.4 19.8 1.0
O A:HOH407 2.5 18.6 1.0
CG A:ASN117 3.2 28.4 1.0
O A:ALA115 3.8 12.5 1.0
ND2 A:ASN117 4.0 26.5 1.0
CA A:ASN117 4.1 12.0 1.0
CB A:ASN117 4.2 16.4 1.0
O A:HOH541 4.3 42.8 1.0
O A:CYS116 4.4 22.1 1.0
O A:HOH550 4.7 21.4 1.0
N A:ASN117 4.7 14.3 1.0
C A:CYS116 4.7 20.9 1.0
C A:ALA115 5.0 17.8 1.0

Reference:

S.A.Marshall, K.A.P.Payne, K.Fisher, M.D.White, A.Ni Cheallaigh, A.Balaikaite, S.E.J.Rigby, D.Leys. The Ubix Flavin Prenyltransferase Reaction Mechanism Resembles Class I Terpene Cyclase Chemistry. Nat Commun V. 10 2357 2019.
ISSN: ESSN 2041-1723
PubMed: 31142738
DOI: 10.1038/S41467-019-10220-1
Page generated: Tue Oct 8 12:54:58 2024

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