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Zinc in PDB 2vbs: Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4

Enzymatic activity of Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4

All present enzymatic activity of Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4:
2.7.1.161;

Protein crystallography data

The structure of Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4, PDB code: 2vbs was solved by M.D.Hartmann, S.Djuranovic, M.Ammelburg, J.Martin, A.N.Lupas, K.Zeth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.99 / 3.0
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.700, 77.700, 107.070, 90.00, 90.00, 90.00
R / Rfree (%) 23 / 28.2

Other elements in 2vbs:

The structure of Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4 also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4 (pdb code 2vbs). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4, PDB code: 2vbs:

Zinc binding site 1 out of 1 in 2vbs

Go back to Zinc Binding Sites List in 2vbs
Zinc binding site 1 out of 1 in the Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Riboflavin Kinase MJ0056 From Methanocaldococcus Jannaschii in Complex with PO4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1135

b:80.6
occ:1.00
O4 A:PO41134 2.3 63.1 1.0
ND1 A:HIS101 2.3 45.5 1.0
O2 A:PO41134 2.8 64.0 1.0
CG A:HIS101 2.8 47.5 1.0
CB A:HIS101 2.8 48.9 1.0
P A:PO41134 2.9 62.7 1.0
N A:HIS101 3.0 50.0 1.0
O3 A:PO41134 3.2 63.4 1.0
CA A:HIS101 3.4 49.0 1.0
CE1 A:HIS101 3.4 45.2 1.0
C A:TYR100 3.8 51.5 1.0
N A:TYR100 3.8 52.9 1.0
CD2 A:HIS101 3.9 47.5 1.0
OG1 A:THR99 4.1 52.8 1.0
NE2 A:HIS101 4.2 46.5 1.0
CA A:TYR100 4.2 52.9 1.0
O1 A:PO41134 4.3 61.9 1.0
CG A:LEU15 4.5 55.3 1.0
CD2 A:LEU15 4.5 52.8 1.0
CB A:TYR100 4.5 54.3 1.0
C A:THR99 4.6 53.0 1.0
O A:TYR100 4.7 51.2 1.0
C A:HIS101 4.7 49.0 1.0
CA A:THR99 4.9 53.1 1.0
CB A:THR99 5.0 53.1 1.0

Reference:

M.Ammelburg, M.D.Hartmann, S.Djuranovic, V.Alva, K.K.Koretke, J.Martin, G.Sauer, V.Truffault, K.Zeth, A.N.Lupas, M.Coles. A Ctp-Dependent Archaeal Riboflavin Kinase Forms A Bridge in the Evolution of Cradle-Loop Barrels. Structure V. 15 1577 2007.
ISSN: ISSN 0969-2126
PubMed: 18073108
DOI: 10.1016/J.STR.2007.09.027
Page generated: Wed Dec 16 03:54:56 2020

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