Magnesium in PDB 1u3f: Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087)

Enzymatic activity of Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087)

All present enzymatic activity of Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087):
6.3.3.2;

Protein crystallography data

The structure of Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087), PDB code: 1u3f was solved by S.Chen, A.F.Yakunin, M.Proudfoot, R.Kim, S.-H.Kim, Berkeleystructural Genomics Center (Bsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.38 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 45.135, 74.369, 110.614, 90.00, 90.00, 90.00
R / Rfree (%) 22.3 / 26.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087) (pdb code 1u3f). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087), PDB code: 1u3f:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1u3f

Go back to Magnesium Binding Sites List in 1u3f
Magnesium binding site 1 out of 2 in the Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:48.3
occ:1.00
 OD2 A:ASP154 2.4 36.1 1.0
O1A A:ADP201 2.4 37.1 1.0
O A:HOH773 2.5 27.4 1.0
O A:HOH612 2.5 20.6 1.0
O3B A:ADP201 2.6 35.7 1.0
OD2 A:ASP124 2.6 32.2 1.0
CG A:ASP154 3.1 35.6 1.0
PB A:ADP201 3.5 37.6 1.0
OD1 A:ASP154 3.5 34.9 1.0
O2B A:ADP201 3.5 34.6 1.0
CG A:ASP124 3.6 30.3 1.0
PA A:ADP201 3.6 39.2 1.0
O A:ARG115 3.6 29.8 1.0
NZ A:LYS3 3.7 44.1 1.0
O3A A:ADP201 3.8 40.5 1.0
OD1 A:ASP124 3.8 30.9 1.0
CB A:ASP154 4.0 33.5 1.0
O2A A:ADP201 4.2 39.2 1.0
O A:HOH644 4.2 28.4 1.0
NE1 A:TRP153 4.4 40.6 1.0
O A:HOH608 4.4 22.5 1.0
CA A:ASP154 4.5 32.5 1.0
O A:HOH614 4.6 29.2 1.0
CD1 A:TRP153 4.6 36.1 1.0
CE A:LYS3 4.7 46.5 1.0
C A:ARG115 4.8 31.5 1.0
O1B A:ADP201 4.8 38.2 1.0
O5' A:ADP201 4.8 40.3 1.0
CB A:ASP124 4.9 30.6 1.0

Magnesium binding site 2 out of 2 in 1u3f

Go back to Magnesium Binding Sites List in 1u3f
Magnesium binding site 2 out of 2 in the Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural and Functional Characterization of A 5,10- Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:33.5
occ:1.00
 OD2 B:ASP154 2.4 35.6 1.0
O B:HOH723 2.5 36.1 1.0
O1B B:ADP202 2.5 31.0 1.0
OD2 B:ASP124 2.5 24.5 1.0
O1A B:ADP202 2.5 31.3 1.0
CG B:ASP154 3.1 34.3 1.0
PB B:ADP202 3.3 30.2 1.0
O3B B:ADP202 3.4 30.1 1.0
CG B:ASP124 3.4 23.0 1.0
NZ B:LYS3 3.5 47.0 1.0
PA B:ADP202 3.5 32.1 1.0
OD1 B:ASP154 3.6 36.6 1.0
O3A B:ADP202 3.6 31.6 1.0
OD1 B:ASP124 3.7 21.7 1.0
O B:ARG115 3.8 33.5 1.0
O B:HOH806 4.0 52.3 1.0
CB B:ASP154 4.1 33.2 1.0
O2A B:ADP202 4.1 33.2 1.0
NE1 B:TRP153 4.3 39.2 1.0
O B:HOH604 4.4 24.0 1.0
CA B:ASP154 4.5 33.9 1.0
CE B:LYS3 4.5 49.7 1.0
CD1 B:TRP153 4.6 37.1 1.0
O B:HOH626 4.7 27.1 1.0
O2B B:ADP202 4.8 31.7 1.0
CB B:ASP124 4.8 21.1 1.0
O5' B:ADP202 4.9 31.2 1.0
C B:ARG115 4.9 33.0 1.0

Reference:

S.Chen, D.H.Shin, R.Pufan, R.Kim, S.-H.Kim. Crystal Structure of Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087) at 2.2 A Resolution Proteins V. 56 839 2004.
ISSN: ISSN 0887-3585
PubMed: 15281135
DOI: 10.1002/PROT.20214
Page generated: Mon Dec 14 06:52:24 2020

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