Atomistry » Magnesium » PDB 6i0v-6i9t » 6i2r
Atomistry »
  Magnesium »
    PDB 6i0v-6i9t »
      6i2r »

Magnesium in PDB 6i2r: Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara

Enzymatic activity of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara

All present enzymatic activity of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara:
1.2.4.2; 2.2.1.5; 2.3.1.61; 4.1.1.71;

Protein crystallography data

The structure of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara, PDB code: 6i2r was solved by T.Wagner, M.Bellinzoni, P.M.Alzari, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.15 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 95.745, 143.145, 167.106, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 21.9

Other elements in 6i2r:

The structure of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara (pdb code 6i2r). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara, PDB code: 6i2r:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6i2r

Go back to Magnesium Binding Sites List in 6i2r
Magnesium binding site 1 out of 2 in the Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2002

b:14.7
occ:1.00
O A:ILE680 2.0 22.9 1.0
O2A A:TPP2001 2.0 19.8 1.0
O2B A:TPP2001 2.0 22.6 1.0
OD1 A:ASP645 2.1 29.4 1.0
OD1 A:ASN678 2.1 18.1 1.0
O A:HOH2202 2.2 17.2 1.0
CG A:ASP645 3.1 29.1 1.0
PB A:TPP2001 3.2 22.6 1.0
CG A:ASN678 3.2 26.3 1.0
PA A:TPP2001 3.2 21.5 1.0
C A:ILE680 3.3 25.4 1.0
O3A A:TPP2001 3.3 25.3 1.0
OD2 A:ASP645 3.6 32.2 1.0
ND2 A:ASN678 3.6 20.4 1.0
O1B A:TPP2001 3.9 19.5 1.0
O7 A:TPP2001 4.0 21.9 1.0
N A:ILE680 4.1 23.1 1.0
N A:ASP645 4.1 22.2 1.0
N A:GLY681 4.1 22.1 1.0
CA A:GLY681 4.1 21.1 1.0
O A:HOH2237 4.2 26.7 1.0
CA A:ILE680 4.3 21.8 1.0
CB A:ASP645 4.4 22.9 1.0
N A:ASN678 4.4 20.5 1.0
O1A A:TPP2001 4.4 27.5 1.0
N A:ALA646 4.4 20.7 1.0
O A:VAL676 4.4 26.8 1.0
O3B A:TPP2001 4.5 25.4 1.0
CB A:ASN678 4.5 19.6 1.0
CG2 A:ILE680 4.6 26.1 1.0
CA A:ASP645 4.7 21.5 1.0
N A:GLN679 4.7 20.1 1.0
CA A:ASN678 4.8 19.5 1.0
C A:ASN678 4.8 22.9 1.0
C A:GLY644 4.9 25.6 1.0
CA A:GLY644 4.9 23.7 1.0

Magnesium binding site 2 out of 2 in 6i2r

Go back to Magnesium Binding Sites List in 6i2r
Magnesium binding site 2 out of 2 in the Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), Mutant R802A, in Complex with Gara within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2002

b:17.8
occ:1.00
OD1 C:ASP645 2.0 25.2 1.0
O C:ILE680 2.0 19.1 1.0
OD1 C:ASN678 2.1 27.8 1.0
O1A C:TPP2001 2.1 20.2 1.0
O3B C:TPP2001 2.1 18.9 1.0
O C:HOH2147 2.1 22.3 1.0
CG C:ASP645 3.1 27.0 1.0
CG C:ASN678 3.1 22.7 1.0
PB C:TPP2001 3.2 23.3 1.0
PA C:TPP2001 3.3 20.6 1.0
C C:ILE680 3.3 20.5 1.0
O3A C:TPP2001 3.4 23.8 1.0
ND2 C:ASN678 3.5 14.2 1.0
OD2 C:ASP645 3.5 33.4 1.0
O2B C:TPP2001 3.9 25.3 1.0
N C:ILE680 4.0 18.8 1.0
N C:ASP645 4.1 20.3 1.0
O7 C:TPP2001 4.1 24.3 1.0
N C:GLY681 4.2 17.1 1.0
CA C:GLY681 4.2 17.2 1.0
N C:ASN678 4.2 21.9 1.0
CA C:ILE680 4.3 18.1 1.0
O C:HOH2241 4.3 23.2 1.0
CB C:ASP645 4.3 18.4 1.0
O C:VAL676 4.4 24.2 1.0
CB C:ASN678 4.4 21.7 1.0
O2A C:TPP2001 4.4 25.4 1.0
N C:ALA646 4.5 17.4 1.0
O1B C:TPP2001 4.5 22.4 1.0
CG2 C:ILE680 4.6 23.4 1.0
N C:GLN679 4.6 23.2 1.0
CA C:ASN678 4.7 22.1 1.0
CA C:ASP645 4.7 18.7 1.0
C C:ASN678 4.7 27.2 1.0
CA C:GLY644 4.9 21.5 1.0
C C:GLY644 4.9 23.1 1.0

Reference:

T.Wagner, G.Andre-Leroux, V.Hindie, N.Barilone, M.N.Lisa, S.Hoos, B.Raynal, B.Vulliez-Le Normand, H.M.O'hare, M.Bellinzoni, P.M.Alzari. Structural Insights Into the Functional Versatility of An Fha Domain Protein in Mycobacterial Signaling. Sci.Signal. V. 12 2019.
ISSN: ESSN 1937-9145
PubMed: 31064884
DOI: 10.1126/SCISIGNAL.AAV9504
Page generated: Tue Oct 1 02:56:48 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy