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Magnesium in PDB 6i2q: Crystal Structure of the Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), in Complex with Gara

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

All present enzymatic activity of Crystal Structure of the Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), 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 Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), in Complex with Gara, PDB code: 6i2q 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) 31.48 / 2.15
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 141.250, 167.846, 102.808, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 19.1

Other elements in 6i2q:

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

Calcium (Ca) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), in Complex with Gara (pdb code 6i2q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of the Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), in Complex with Gara, PDB code: 6i2q:

Magnesium binding site 1 out of 1 in 6i2q

Go back to Magnesium Binding Sites List in 6i2q
Magnesium binding site 1 out of 1 in the Crystal Structure of the Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), 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 Wild-Type Suca Domain of Mycobacterium Smegmatis Kgd (Alpha-Ketoglutarate Decarboxylase), in Complex with Gara within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2002

b:29.9
occ:1.00
 O1A A:TPP2001 2.0 32.2 1.0
OD1 A:ASP645 2.0 34.2 1.0
OD1 A:ASN678 2.1 33.5 1.0
O A:ILE680 2.1 36.0 1.0
O A:HOH2116 2.2 30.9 1.0
O1B A:TPP2001 2.3 35.9 1.0
CG A:ASP645 3.1 35.0 1.0
CG A:ASN678 3.1 41.1 1.0
PA A:TPP2001 3.2 33.8 1.0
O3A A:TPP2001 3.2 35.0 1.0
PB A:TPP2001 3.3 35.3 1.0
C A:ILE680 3.4 36.1 1.0
OD2 A:ASP645 3.6 36.7 1.0
ND2 A:ASN678 3.6 30.2 1.0
O3B A:TPP2001 3.8 35.6 1.0
N A:ASP645 3.8 29.4 1.0
O7 A:TPP2001 4.1 35.6 1.0
N A:ILE680 4.1 32.1 1.0
N A:GLY681 4.2 33.2 1.0
CB A:ASP645 4.3 30.4 1.0
N A:ASN678 4.3 33.2 1.0
CA A:GLY681 4.3 32.5 1.0
O A:VAL676 4.3 34.2 1.0
CA A:ILE680 4.4 31.5 1.0
N A:ALA646 4.4 28.3 1.0
O2A A:TPP2001 4.4 32.0 1.0
CB A:ASN678 4.4 32.1 1.0
O A:HOH2245 4.5 39.7 1.0
CA A:ASP645 4.5 28.7 1.0
O2B A:TPP2001 4.6 39.6 1.0
CG2 A:ILE680 4.6 33.9 1.0
C A:GLY644 4.7 32.2 1.0
N A:GLN679 4.7 35.0 1.0
CA A:ASN678 4.7 33.6 1.0
CA A:GLY644 4.7 29.4 1.0
C A:ASN678 4.8 37.3 1.0
C A:ASP645 5.0 31.4 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 02:56:29 2024

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