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Magnesium in PDB 3r6c: Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)

Enzymatic activity of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)

All present enzymatic activity of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179):
2.4.2.18;

Protein crystallography data

The structure of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179), PDB code: 3r6c was solved by A.Castell, F.L.Short, J.S.Lott, Tb Structural Genomics Consortium(Tbsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 93.68 / 1.83
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 93.982, 77.930, 99.803, 90.00, 110.18, 90.00
R / Rfree (%) 18.6 / 22.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179) (pdb code 3r6c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179), PDB code: 3r6c:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 3r6c

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Magnesium binding site 1 out of 4 in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:15.6
occ:1.00
 O1A A:PRP401 2.0 14.5 1.0
O A:HOH560 2.0 14.2 1.0
OE2 A:GLU252 2.1 13.0 1.0
OG A:SER119 2.2 12.3 1.0
O A:HOH544 2.2 17.4 1.0
O3B A:PRP401 2.3 10.3 1.0
O3A A:PRP401 3.0 20.3 1.0
CB A:SER119 3.1 13.0 1.0
CD A:GLU252 3.1 13.8 1.0
PA A:PRP401 3.2 16.8 1.0
MG A:MG403 3.3 22.0 1.0
OE1 A:GLU252 3.4 14.6 1.0
PB A:PRP401 3.6 20.0 1.0
O A:HOH576 3.6 24.9 1.0
OD2 A:ASP251 3.9 14.0 1.0
O1B A:PRP401 3.9 21.9 1.0
N A:SER119 4.0 13.9 1.0
N A:GLY107 4.0 11.9 1.0
CA A:SER119 4.1 13.5 1.0
O2B A:PRP401 4.2 16.2 1.0
O4 A:PRP401 4.2 19.1 1.0
O A:HOH542 4.2 12.7 1.0
OD1 A:ASP251 4.2 16.7 1.0
O A:ASP251 4.3 13.5 1.0
O1 A:PRP401 4.3 17.7 1.0
O2A A:PRP401 4.3 20.0 1.0
CA A:GLY107 4.3 11.6 1.0
CG A:ASP251 4.3 14.9 1.0
CG A:GLU252 4.4 12.9 1.0
C1 A:PRP401 4.5 18.1 1.0
O A:HOH514 4.5 24.4 1.0
C A:VAL106 4.7 11.6 1.0
O A:HOH742 4.9 24.3 1.0

Magnesium binding site 2 out of 4 in 3r6c

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Magnesium binding site 2 out of 4 in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg403

b:22.0
occ:1.00
 O A:HOH606 1.9 19.6 1.0
O A:HOH514 1.9 24.4 1.0
OD1 A:ASP251 2.2 16.7 1.0
O A:HOH576 2.2 24.9 1.0
O A:HOH560 2.3 14.2 1.0
OE2 A:GLU252 2.3 13.0 1.0
CG A:ASP251 3.2 14.9 1.0
CD A:GLU252 3.2 13.8 1.0
MG A:MG402 3.3 15.6 1.0
CG A:GLU252 3.4 12.9 1.0
OD2 A:ASP251 3.5 14.0 1.0
O A:HOH742 3.6 24.3 1.0
OD2 A:ASP111 3.7 21.8 1.0
O3B A:PRP401 3.9 10.3 1.0
O A:HOH743 4.0 26.2 1.0
O1B A:PRP401 4.1 21.9 1.0
OG1 A:THR115 4.1 24.7 1.0
O A:HOH670 4.2 28.4 1.0
O A:HOH544 4.4 17.4 1.0
O A:ASP251 4.4 13.5 1.0
OE1 A:GLU252 4.4 14.6 1.0
CG A:ASP111 4.5 20.8 1.0
O4 A:PRP401 4.6 19.1 1.0
CB A:ASP251 4.6 14.2 1.0
C A:ASP251 4.6 13.9 1.0
N A:ASP251 4.7 14.3 1.0
CA A:ASP251 4.8 14.1 1.0
O1A A:PRP401 4.9 14.5 1.0
OD1 A:ASP111 4.9 22.0 1.0
CB A:GLU252 5.0 13.0 1.0
PB A:PRP401 5.0 20.0 1.0

Magnesium binding site 3 out of 4 in 3r6c

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Magnesium binding site 3 out of 4 in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:33.2
occ:1.00
 O B:HOH733 2.1 36.6 1.0
OE2 B:GLU252 2.2 17.1 1.0
O B:HOH543 2.3 19.4 1.0
O B:HOH602 2.3 30.5 1.0
OD1 B:ASP251 2.3 22.8 1.0
O B:HOH569 2.5 31.7 1.0
CD B:GLU252 3.2 18.9 1.0
CG B:ASP251 3.3 21.1 1.0
MG B:MG403 3.3 16.9 1.0
CG B:GLU252 3.4 18.7 1.0
O3B B:PRP401 3.5 19.0 1.0
OD2 B:ASP251 3.6 19.4 1.0
OD2 B:ASP111 3.7 31.9 1.0
O B:HOH696 3.9 40.0 1.0
O B:HOH507 4.1 16.1 1.0
O B:ASP251 4.3 20.8 1.0
OG1 B:THR115 4.3 30.5 1.0
OE1 B:GLU252 4.3 21.1 1.0
C B:ASP251 4.6 20.7 1.0
CG B:ASP111 4.6 31.9 1.0
CB B:ASP251 4.6 21.0 1.0
PB B:PRP401 4.7 20.1 1.0
O4 B:PRP401 4.7 28.9 1.0
O2B B:PRP401 4.8 22.9 1.0
N B:ASP251 4.8 21.7 1.0
O1A B:PRP401 4.8 19.4 1.0
CA B:ASP251 4.9 20.9 1.0
OD1 B:ASP111 4.9 33.1 1.0
CB B:GLU252 4.9 19.6 1.0
OG B:SER119 5.0 18.0 1.0

Magnesium binding site 4 out of 4 in 3r6c

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Magnesium binding site 4 out of 4 in the Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Anthranilate Phosphoribosyltransferase (Trpd) From Mycobacterium Tuberculosis (Complex with Inhibitor ACS179) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg403

b:16.9
occ:1.00
 O3B B:PRP401 2.0 19.0 1.0
O1A B:PRP401 2.0 19.4 1.0
OE2 B:GLU252 2.1 17.1 1.0
OG B:SER119 2.1 18.0 1.0
O B:HOH507 2.1 16.1 1.0
O B:HOH543 2.2 19.4 1.0
CD B:GLU252 3.0 18.9 1.0
CB B:SER119 3.1 16.9 1.0
PB B:PRP401 3.2 20.1 1.0
PA B:PRP401 3.3 22.9 1.0
OE1 B:GLU252 3.3 21.1 1.0
MG B:MG402 3.3 33.2 1.0
O3A B:PRP401 3.5 23.4 1.0
O B:HOH569 3.9 31.7 1.0
N B:GLY107 4.0 17.6 1.0
OD2 B:ASP251 4.0 19.4 1.0
N B:SER119 4.0 17.2 1.0
CA B:SER119 4.1 17.3 1.0
O B:HOH522 4.2 18.3 1.0
O B:ASP251 4.2 20.8 1.0
O2B B:PRP401 4.3 22.9 1.0
O1B B:PRP401 4.3 20.4 1.0
O1 B:PRP401 4.3 25.2 1.0
O2A B:PRP401 4.4 24.8 1.0
O4 B:PRP401 4.4 28.9 1.0
CA B:GLY107 4.4 18.4 1.0
OD1 B:ASP251 4.4 22.8 1.0
CG B:GLU252 4.4 18.7 1.0
CG B:ASP251 4.5 21.1 1.0
C1 B:PRP401 4.6 28.7 1.0
C B:VAL106 4.6 17.2 1.0
O B:HOH602 4.8 30.5 1.0
CA B:VAL106 4.9 16.9 1.0

Reference:

A.Castell, F.L.Short, G.L.Evans, T.V.Cookson, E.M.Bulloch, D.D.Joseph, C.E.Lee, E.J.Parker, E.N.Baker, J.S.Lott. The Substrate Capture Mechanism of Mycobacterium Tuberculosis Anthranilate Phosphoribosyltransferase Provides A Mode For Inhibition. Biochemistry V. 52 1776 2013.
ISSN: ISSN 0006-2960
PubMed: 23363292
DOI: 10.1021/BI301387M
Page generated: Mon Dec 14 08:44:08 2020

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