Calcium in PDB 3om7: Crystal Structure of B. Megaterium Levansucrase Mutant Y247W

All present enzymatic activity of Crystal Structure of B. Megaterium Levansucrase Mutant Y247W:
2.4.1.10;

The structure of Crystal Structure of B. Megaterium Levansucrase Mutant Y247W, PDB code: 3om7 was solved by C.P.Strube, A.Homann, M.Gamer, D.Jahn, J.Seibel, D.W.Heinz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.01 / 1.86
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	93.527, 100.052, 95.450, 90.00, 90.51, 90.00
R / Rfree (%)	20.1 / 21.6

The binding sites of Calcium atom in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W (pdb code 3om7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W, PDB code: 3om7:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W


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 B. Megaterium Levansucrase Mutant Y247W within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1 b:11.4 occ:1.00 O C:HOH3 2.3 10.8 1.0 O C:LEU318 2.3 9.7 1.0 OD1 C:ASN320 2.3 8.3 1.0 OD1 C:ASP251 2.3 13.4 1.0 OD1 C:ASP349 2.4 9.5 1.0 OE1 C:GLN282 2.4 10.9 1.0 OD2 C:ASP349 2.7 9.7 1.0 CG C:ASP349 2.9 9.4 1.0 CG C:ASP251 3.4 13.6 1.0 CG C:ASN320 3.5 8.8 1.0 C C:LEU318 3.5 9.7 1.0 CD C:GLN282 3.5 10.4 1.0 OD2 C:ASP251 3.8 15.2 1.0 N C:ASN320 3.9 9.0 1.0 ND2 C:ASN274 4.1 9.7 1.0 CB C:GLN282 4.2 10.6 1.0 NE2 C:GLN282 4.3 9.3 1.0 O C:ASN252 4.3 12.2 1.0 ND2 C:ASN320 4.3 9.0 1.0 CA C:LEU318 4.3 9.9 1.0 CB C:ASP349 4.4 9.6 1.0 N C:ASN252 4.5 12.8 1.0 N C:ALA319 4.5 9.3 1.0 CB C:ASN320 4.5 9.2 1.0 CG C:GLN282 4.5 10.6 1.0 CA C:ALA319 4.6 9.3 1.0 CB C:LEU318 4.6 10.0 1.0 C C:ALA319 4.6 9.0 1.0 NE2 C:GLN236 4.6 12.0 1.0 CG C:ASN274 4.7 9.7 1.0 CA C:ASN320 4.7 9.0 1.0 OE1 C:GLN236 4.7 11.7 1.0 CB C:ASP251 4.7 13.4 1.0 CB C:ASN274 4.8 9.4 1.0 O C:HOH917 4.9 12.5 1.0 C C:ASN252 4.9 12.3 1.0 CA C:ASP251 5.0 13.5 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W


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 B. Megaterium Levansucrase Mutant Y247W within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1 b:15.1 occ:1.00 OD1 A:ASN320 2.2 8.1 1.0 OE1 A:GLN282 2.3 13.3 1.0 O A:HOH488 2.3 10.6 1.0 O A:LEU318 2.4 11.7 1.0 OD1 A:ASP251 2.4 17.3 1.0 OD1 A:ASP349 2.5 11.2 1.0 OD2 A:ASP349 2.7 11.1 1.0 CG A:ASP349 2.9 11.2 1.0 CG A:ASN320 3.4 8.4 1.0 CG A:ASP251 3.4 17.4 1.0 CD A:GLN282 3.5 13.3 1.0 C A:LEU318 3.6 11.6 1.0 OD2 A:ASP251 3.7 16.5 1.0 N A:ASN320 4.0 9.5 1.0 ND2 A:ASN274 4.1 11.0 1.0 ND2 A:ASN320 4.1 8.6 1.0 NE2 A:GLN282 4.2 12.8 1.0 O A:ASN252 4.2 15.4 1.0 CB A:GLN282 4.3 13.1 1.0 CB A:ASP349 4.4 11.8 1.0 CA A:LEU318 4.4 12.1 1.0 CB A:ASN320 4.5 9.0 1.0 CG A:GLN282 4.5 13.4 1.0 N A:ASN252 4.5 16.7 1.0 NE2 A:GLN236 4.6 11.8 1.0 N A:ALA319 4.6 10.9 1.0 CG A:ASN274 4.6 10.8 1.0 CB A:LEU318 4.6 12.3 1.0 CA A:ALA319 4.7 10.5 1.0 C A:ALA319 4.7 10.0 1.0 CA A:ASN320 4.7 8.9 1.0 OE1 A:GLN236 4.7 11.6 1.0 CB A:ASP251 4.8 17.8 1.0 CB A:ASN274 4.8 11.1 1.0 C A:ASN252 4.9 15.4 1.0 CD A:GLN236 5.0 12.1 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of B. Megaterium Levansucrase Mutant Y247W within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1 b:15.1 occ:1.00 O B:LEU318 2.3 11.5 1.0 NE2 B:GLN282 2.3 11.2 1.0 O B:HOH532 2.4 17.0 1.0 OD1 B:ASN320 2.4 9.0 1.0 OD1 B:ASP251 2.4 23.6 1.0 OD2 B:ASP349 2.5 13.2 1.0 OD1 B:ASP349 2.7 13.2 1.0 CG B:ASP349 2.9 12.7 1.0 CG B:ASN320 3.4 8.9 1.0 CG B:ASP251 3.5 24.2 1.0 CD B:GLN282 3.6 11.6 1.0 C B:LEU318 3.6 11.2 1.0 OD2 B:ASP251 3.8 23.0 1.0 N B:ASN320 4.0 9.2 1.0 ND2 B:ASN274 4.0 9.9 1.0 O B:ASN252 4.1 21.4 1.0 ND2 B:ASN320 4.2 9.2 1.0 OE1 B:GLN282 4.3 13.1 1.0 CB B:GLN282 4.3 10.1 1.0 CB B:ASP349 4.4 11.9 1.0 CB B:ASN320 4.4 8.7 1.0 CA B:LEU318 4.4 11.3 1.0 N B:ASN252 4.5 23.0 1.0 CG B:GLN282 4.5 10.9 1.0 N B:ALA319 4.5 10.6 1.0 NE2 B:GLN236 4.6 13.2 1.0 CA B:ALA319 4.6 10.2 1.0 CG B:ASN274 4.6 9.9 1.0 C B:ALA319 4.7 9.7 1.0 CA B:ASN320 4.7 8.7 1.0 CB B:LEU318 4.7 11.5 1.0 CB B:ASP251 4.8 24.4 1.0 OE1 B:GLN236 4.8 13.7 1.0 CB B:ASN274 4.9 9.3 1.0 O B:HOH575 4.9 19.6 1.0 C B:ASN252 4.9 21.4 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of B. Megaterium Levansucrase Mutant Y247W


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of B. Megaterium Levansucrase Mutant Y247W within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1 b:14.4 occ:1.00 OE1 D:GLN282 2.3 11.9 1.0 O D:LEU318 2.3 11.0 1.0 OD1 D:ASN320 2.4 8.4 1.0 O D:HOH494 2.4 16.1 1.0 OD1 D:ASP251 2.5 22.0 1.0 OD1 D:ASP349 2.5 12.1 1.0 OD2 D:ASP349 2.6 12.9 1.0 CG D:ASP349 2.9 12.3 1.0 CG D:ASN320 3.4 9.0 1.0 CD D:GLN282 3.4 11.5 1.0 C D:LEU318 3.5 10.7 1.0 CG D:ASP251 3.5 22.9 1.0 OD2 D:ASP251 3.9 23.3 1.0 N D:ASN320 4.0 9.6 1.0 ND2 D:ASN274 4.0 9.7 1.0 ND2 D:ASN320 4.1 8.8 1.0 NE2 D:GLN282 4.2 11.7 1.0 O D:ASN252 4.2 19.9 1.0 CA D:LEU318 4.3 10.9 1.0 CB D:ASP349 4.4 12.3 1.0 CB D:GLN282 4.4 10.7 1.0 CB D:ASN320 4.4 9.3 1.0 CG D:GLN282 4.5 11.4 1.0 CB D:LEU318 4.5 10.9 1.0 N D:ASN252 4.5 21.8 1.0 N D:ALA319 4.5 10.4 1.0 NE2 D:GLN236 4.6 13.8 1.0 CG D:ASN274 4.6 10.1 1.0 CA D:ASN320 4.6 9.4 1.0 O D:HOH920 4.7 28.3 1.0 CA D:ALA319 4.7 10.1 1.0 C D:ALA319 4.7 9.8 1.0 OE1 D:GLN236 4.8 13.8 1.0 CB D:ASP251 4.9 23.1 1.0 CB D:ASN274 4.9 9.9 1.0 C D:ASN252 4.9 20.0 1.0

C.P.Strube, A.Homann, M.Gamer, D.Jahn, J.Seibel, D.W.Heinz. Polysaccharide Synthesis of the Levansucrase Sacb From Bacillus Megaterium Is Controlled By Distinct Surface Motifs. J.Biol.Chem. V. 286 17593 2011.
ISSN: ISSN 0021-9258
PubMed: 21454585
DOI: 10.1074/JBC.M110.203166