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Magnesium in PDB 4l2z: Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi

Enzymatic activity of Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi

All present enzymatic activity of Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi:
2.5.1.6;

Protein crystallography data

The structure of Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi, PDB code: 4l2z was solved by F.Wang, K.A.Hurley, K.E.Helmich, S.Singh, C.A.Bingman, J.S.Thorson, G.N.Phillips Jr., Enzyme Discovery For Natural Product Biosynthesis(Natpro), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.84 / 2.49
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 151.597, 151.597, 226.125, 90.00, 90.00, 120.00
R / Rfree (%) 16 / 18.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi (pdb code 4l2z). 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 S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi, PDB code: 4l2z:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4l2z

Go back to Magnesium Binding Sites List in 4l2z
Magnesium binding site 1 out of 2 in the Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi


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 S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:26.8
occ:0.82
O1 B:DPO502 1.9 19.9 0.7
O2 B:PO4503 1.9 34.0 0.8
O A:HOH601 2.1 27.8 1.0
OE1 A:GLU305 2.1 36.3 1.0
O6 B:DPO502 2.1 30.4 0.7
OE2 A:GLU305 2.3 31.9 1.0
CD A:GLU305 2.4 32.1 1.0
P1 B:DPO502 3.0 19.6 0.7
P B:PO4503 3.1 31.8 0.8
P2 B:DPO502 3.2 36.7 0.7
O4 B:DPO502 3.2 33.7 0.7
O1 B:PO4503 3.3 26.3 0.8
O2 B:DPO502 3.7 28.7 0.7
O3 B:PO4503 3.7 23.9 0.8
O B:HOH619 3.8 33.2 1.0
CG A:GLU305 3.9 29.6 1.0
OG A:SER162 4.0 35.2 1.0
O7 B:DPO502 4.2 19.6 0.7
O5 B:DPO502 4.2 36.3 0.7
O3 B:DPO502 4.2 24.9 0.7
OD2 A:ASP160 4.2 37.1 1.0
O A:HOH635 4.2 36.9 1.0
O4 B:PO4503 4.3 25.9 0.8
NZ B:LYS25 4.3 21.0 1.0
CE A:LYS310 4.4 34.4 1.0
MG B:MG504 4.4 25.0 0.8
CB A:GLU305 4.5 25.3 1.0
CA A:GLU305 4.5 24.4 1.0
NZ A:LYS310 4.6 37.1 1.0
CE1 A:HIS315 4.7 30.5 1.0
CB A:SER162 4.8 27.0 1.0

Magnesium binding site 2 out of 2 in 4l2z

Go back to Magnesium Binding Sites List in 4l2z
Magnesium binding site 2 out of 2 in the Crystal Structure of S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi


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 S-Adenosylmethionine Synthetase From Sulfolobus Solfataricus Complexed with Sae and Ppi within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg504

b:25.0
occ:0.79
O3 B:PO4503 1.9 23.9 0.8
O2 B:DPO502 2.0 28.7 0.7
O7 B:DPO502 2.0 19.6 0.7
O B:HOH601 2.0 35.6 1.0
OD2 B:ASP31 2.2 18.6 1.0
O B:HOH741 2.2 35.1 1.0
P2 B:DPO502 3.0 36.7 0.7
P1 B:DPO502 3.1 19.6 0.7
CG B:ASP31 3.1 20.9 1.0
P B:PO4503 3.2 31.8 0.8
O4 B:DPO502 3.3 33.7 0.7
OD1 B:ASP31 3.4 20.7 1.0
O6 B:DPO502 3.5 30.4 0.7
NZ B:LYS25 3.5 21.0 1.0
O2 B:PO4503 3.7 34.0 0.8
O1 B:DPO502 4.0 19.9 0.7
CE1 B:HIS29 4.1 22.5 1.0
O1 B:PO4503 4.1 26.3 0.8
O4 B:PO4503 4.2 25.9 0.8
NH2 B:ARG288 4.2 24.4 1.0
O3 B:DPO502 4.2 24.9 0.7
O5 B:DPO502 4.3 36.3 0.7
MG A:MG501 4.4 26.8 0.8
NZ A:LYS63 4.4 28.3 1.0
O B:ARG288 4.4 47.8 1.0
CB B:ASP31 4.5 18.9 1.0
CE A:LYS63 4.5 31.9 1.0
O B:ASP283 4.5 26.5 1.0
OD2 B:ASP282 4.6 30.6 1.0
NE B:ARG288 4.7 32.1 1.0
NE2 B:HIS29 4.7 21.8 1.0
CE B:LYS25 4.7 22.2 1.0
CZ B:ARG288 4.8 27.8 1.0
CB B:ARG288 4.8 24.2 1.0

Reference:

F.Wang, S.Singh, J.Zhang, T.D.Huber, K.E.Helmich, M.Sunkara, K.A.Hurley, R.D.Goff, C.A.Bingman, A.J.Morris, J.S.Thorson, G.N.Phillips. Understanding Molecular Recognition of Promiscuity of Thermophilic Methionine Adenosyltransferase Smat From Sulfolobus Solfataricus. Febs J. V. 281 4224 2014.
ISSN: ISSN 1742-464X
PubMed: 24649856
DOI: 10.1111/FEBS.12784
Page generated: Sat Aug 17 04:26:03 2024

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