Calcium in PDB 5lfc: Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M

All present enzymatic activity of Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M:
2.4.1.5;

The structure of Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M, PDB code: 5lfc was solved by M.Claverie, G.Cioci, M.Remaud-Simeon, C.Moulis, S.Tranier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	114.67 / 3.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	105.840, 128.710, 229.340, 90.00, 90.00, 90.00
R / Rfree (%)	22.1 / 24.8

The binding sites of Calcium atom in the Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M (pdb code 5lfc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M, PDB code: 5lfc:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2001 b:42.1 occ:1.00 OD2 A:ASP633 2.1 35.1 1.0 OE2 A:GLU627 2.1 37.0 1.0 OD1 A:ASP1182 2.3 33.0 1.0 O A:ASN681 2.4 37.2 1.0 O A:GLU627 2.7 28.5 1.0 CG A:ASP633 2.8 35.6 1.0 OD1 A:ASP633 2.9 37.4 1.0 CD A:GLU627 3.3 35.8 1.0 CG A:ASP1182 3.6 31.7 1.0 C A:ASN681 3.6 35.5 1.0 C A:GLU627 3.8 30.9 1.0 CG A:GLU627 3.9 34.9 1.0 O A:VAL634 3.9 32.5 1.0 O A:ASP1182 4.0 34.0 1.0 CB A:ASP633 4.2 33.9 1.0 CG1 A:VAL682 4.2 35.5 1.0 CA A:VAL682 4.2 35.8 1.0 OD2 A:ASP1182 4.3 30.9 1.0 OE1 A:GLU627 4.3 36.7 1.0 CA A:GLU627 4.4 32.1 1.0 N A:VAL682 4.4 35.2 1.0 ND2 A:ASN1274 4.5 35.9 1.0 CB A:ASP1182 4.6 31.8 1.0 CA A:ASP1182 4.6 32.6 1.0 C A:ASP1182 4.7 32.6 1.0 CA A:ASN681 4.7 35.2 1.0 CB A:GLU627 4.7 33.6 1.0 CB A:VAL682 4.8 35.3 1.0 CB A:ASN681 4.8 34.8 1.0 CA A:ASP633 4.9 34.0 1.0 N A:LEU628 4.9 30.6 1.0 N A:VAL634 4.9 33.6 1.0 ND2 A:ASN636 4.9 32.9 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Leuconostoc Citreum Nrrl B-1299 N-Terminally Truncated Dextransucrase Dsr-M within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2001 b:55.1 occ:1.00 OD1 B:ASP1182 2.1 53.0 1.0 OD2 B:ASP633 2.1 51.2 1.0 O B:GLU627 2.3 47.3 1.0 O B:ASN681 2.3 51.1 1.0 OE2 B:GLU627 2.4 50.5 1.0 OD1 B:ASP633 2.6 53.6 1.0 CG B:ASP633 2.6 51.2 1.0 CG B:ASP1182 3.3 52.4 1.0 C B:GLU627 3.4 49.3 1.0 CD B:GLU627 3.5 50.6 1.0 C B:ASN681 3.5 51.5 1.0 OD2 B:ASP1182 3.9 52.4 1.0 CG B:GLU627 4.0 50.8 1.0 O B:ASP1182 4.1 54.0 1.0 CB B:ASP633 4.1 49.6 1.0 CA B:GLU627 4.1 50.5 1.0 CB B:ASN681 4.4 52.2 1.0 CG1 B:VAL682 4.4 54.5 1.0 CB B:ASP1182 4.4 52.4 1.0 N B:VAL682 4.4 51.9 1.0 O B:VAL634 4.4 51.8 1.0 CA B:ASN681 4.5 52.1 1.0 CA B:VAL682 4.5 53.4 1.0 N B:LEU628 4.5 49.7 1.0 CA B:ASP1182 4.6 52.5 1.0 OE1 B:GLU627 4.6 49.4 1.0 CB B:GLU627 4.7 50.5 1.0 C B:ASP1182 4.7 51.7 1.0 CA B:ASP633 4.8 49.5 1.0 CA B:LEU628 4.8 49.7 1.0 N B:LEU629 5.0 50.6 1.0 ND2 B:ASN1274 5.0 54.5 1.0

M.Claverie, G.Cioci, M.Vuillemin, N.Monties, P.Roblin, G.Lippens, M.Remaud-Simeon, C.Moulis. Investigations on the Determinants Responsible For Low Molar Mass Dextran Formation By Dsr-M Dextransucrase Acs Catalysis V. 7 7106 2017.
ISSN: ESSN 2155-5435
DOI: 10.1021/ACSCATAL.7B02182