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Manganese in PDB 4y9x: Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3

Enzymatic activity of Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3

All present enzymatic activity of Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3:
2.4.1.266;

Protein crystallography data

The structure of Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3, PDB code: 4y9x was solved by D.Albesa-Jove, A.Rodrigo-Unzueta, J.O.Cifuente, S.Urresti, N.Comino, E.Sancho-Vaello, M.E.Guerin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.06 / 2.64
Space group I 41
Cell size a, b, c (Å), α, β, γ (°) 98.850, 98.850, 127.790, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 25.2

Other elements in 4y9x:

The structure of Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3 (pdb code 4y9x). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3, PDB code: 4y9x:

Manganese binding site 1 out of 1 in 4y9x

Go back to Manganese Binding Sites List in 4y9x
Manganese binding site 1 out of 1 in the Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Glucosyl-3-Phosphoglycerate Synthase From Mycobacterium Tuberculosis in Complex with MN2+, Uridine-Diphosphate- Glucose (Udp-Glc) and Phosphoglyceric Acid (Pga) - Gpgs MN2+ Udp-Glc Pga-3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:79.0
occ:1.00
 OD2 A:ASP136 2.1 85.4 1.0
O2B A:UPG404 2.2 87.5 1.0
O A:HOH508 2.2 73.5 1.0
O A:HOH530 2.2 84.2 1.0
ND1 A:HIS258 2.2 81.5 1.0
O1A A:UPG404 2.2 90.1 1.0
CG A:ASP136 3.0 77.2 1.0
CE1 A:HIS258 3.1 86.0 1.0
OD1 A:ASP136 3.2 82.7 1.0
CG A:HIS258 3.3 88.4 1.0
PB A:UPG404 3.5 76.8 1.0
PA A:UPG404 3.6 74.5 1.0
O2' A:UPG404 3.6 81.3 1.0
CB A:HIS258 3.7 83.0 1.0
NH1 A:ARG259 3.8 75.2 0.6
O3A A:UPG404 4.0 74.0 1.0
O1B A:UPG404 4.0 75.2 1.0
NE2 A:HIS258 4.2 84.6 1.0
O A:ARG259 4.2 95.3 1.0
CD2 A:HIS258 4.4 83.0 1.0
C5C A:UPG404 4.4 82.2 1.0
CB A:ASP136 4.4 63.2 1.0
CZ A:ARG259 4.5 76.3 0.6
O5C A:UPG404 4.5 75.5 1.0
NH2 A:ARG259 4.6 69.4 0.6
O2A A:UPG404 4.6 68.1 1.0
N A:ARG259 4.6 78.1 1.0
OD2 A:ASP134 4.6 83.6 1.0
NH2 A:ARG256 4.7 80.4 1.0
O3B A:UPG404 4.7 91.8 1.0
CB A:ARG259 4.8 80.9 0.6
C2' A:UPG404 4.9 84.0 1.0

Reference:

D.Albesa-Jove, F.Mendoza, A.Rodrigo-Unzueta, F.Gomollon-Bel, J.O.Cifuente, S.Urresti, N.Comino, H.Gomez, J.Romero-Garcia, J.M.Lluch, E.Sancho-Vaello, X.Biarnes, A.Planas, P.Merino, L.Masgrau, M.E.Guerin. A Native Ternary Complex Trapped in A Crystal Reveals the Catalytic Mechanism of A Retaining Glycosyltransferase. Angew.Chem.Int.Ed.Engl. V. 54 9898 2015.
ISSN: ESSN 1521-3773
PubMed: 26136334
DOI: 10.1002/ANIE.201504617
Page generated: Sat Oct 5 23:01:44 2024

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