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Sodium in PDB 2p98: E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7

Enzymatic activity of E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7

All present enzymatic activity of E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7:
3.4.11.18;

Protein crystallography data

The structure of E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7, PDB code: 2p98 was solved by Q.Ye, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 38.190, 60.270, 50.610, 90.00, 104.59, 90.00
R / Rfree (%) 20.7 / 23.8

Other elements in 2p98:

The structure of E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7 also contains other interesting chemical elements:

Manganese (Mn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7 (pdb code 2p98). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7, PDB code: 2p98:

Sodium binding site 1 out of 1 in 2p98

Go back to Sodium Binding Sites List in 2p98
Sodium binding site 1 out of 1 in the E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of E. Coli Methionine Aminopeptidase Monometalated with Inhibitor YE7 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na265

b:19.4
occ:1.00
O A:VAL76 2.4 20.0 1.0
O A:SER231 2.5 15.8 1.0
O A:ASN74 2.5 17.5 1.0
O A:HOH278 2.6 20.0 1.0
C A:ASN74 3.3 18.3 1.0
C A:SER231 3.4 16.1 1.0
C A:VAL76 3.5 17.9 1.0
O A:HOH267 3.6 20.1 1.0
N A:ASN74 3.7 16.9 1.0
CB A:SER231 3.8 16.5 1.0
N A:SER231 3.9 17.1 1.0
CA A:ASN74 3.9 17.0 1.0
N A:VAL76 3.9 18.5 1.0
CA A:SER231 3.9 15.8 1.0
C A:ILE73 4.0 16.1 1.0
O A:ILE73 4.2 16.4 1.0
CA A:VAL76 4.3 17.8 1.0
N A:GLU75 4.3 19.3 1.0
C A:GLU75 4.3 19.5 1.0
O A:SER72 4.4 14.3 1.0
N A:VAL77 4.4 16.2 1.0
O A:HOH273 4.4 15.3 1.0
N A:ALA232 4.5 14.0 1.0
C A:SER72 4.5 15.8 1.0
CA A:VAL77 4.5 16.9 1.0
OG A:SER231 4.6 14.7 1.0
N A:ILE73 4.6 15.4 1.0
CA A:GLU75 4.6 19.8 1.0
CA A:ILE73 4.6 15.9 1.0
CB A:SER72 4.6 14.6 1.0
CB A:VAL76 4.8 18.5 1.0
CD1 A:ILE93 4.8 17.3 1.0
CA A:ALA232 4.8 14.9 1.0
CG1 A:ILE93 4.9 14.5 1.0
CE A:MET112 4.9 16.4 1.0
O A:VAL77 4.9 17.0 1.0
O A:ILE93 5.0 13.9 1.0
O A:GLU75 5.0 19.0 1.0

Reference:

M.Huang, S.X.Xie, Z.Q.Ma, Q.Q.Huang, F.J.Nan, Q.Z.Ye. Inhibition of Monometalated Methionine Aminopeptidase: Inhibitor Discovery and Crystallographic Analysis. J.Med.Chem. V. 50 5735 2007.
ISSN: ISSN 0022-2623
PubMed: 17948983
DOI: 10.1021/JM700930K
Page generated: Tue Dec 15 05:53:48 2020

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