Calcium in PDB 8xpk: Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose

The structure of Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose, PDB code: 8xpk was solved by J.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.51 / 2.00
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	77.313, 77.313, 89.536, 90, 90, 90
R / Rfree (%)	18.8 / 22.8

The binding sites of Calcium atom in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose (pdb code 8xpk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose, PDB code: 8xpk:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:9.9 occ:1.00 OD1 A:ASP278 2.1 2.1 1.0 O A:GLY86 2.3 2.4 1.0 O A:ASP278 2.4 2.7 1.0 O A:HOH542 2.4 12.0 1.0 O A:GLU46 2.4 3.8 1.0 O A:HOH549 2.4 14.1 1.0 CG A:ASP278 3.3 2.2 1.0 C A:ASP278 3.3 2.6 1.0 C A:GLY86 3.4 2.8 1.0 C A:GLU46 3.6 4.8 1.0 CA A:ASP278 3.8 2.5 1.0 CA A:GLY86 3.9 2.7 1.0 CB A:ASP278 4.1 2.3 1.0 OD2 A:ASP278 4.3 2.0 1.0 CA A:GLU46 4.3 4.9 1.0 O A:HOH695 4.4 21.7 1.0 O A:HOH746 4.4 10.0 1.0 N A:TRP279 4.5 2.8 1.0 N A:ASN87 4.5 3.0 1.0 O A:PHE47 4.6 5.0 1.0 C A:PHE47 4.6 5.8 1.0 CB A:GLU46 4.6 5.5 1.0 OE1 A:GLU46 4.6 6.1 1.0 N A:PHE47 4.7 4.7 1.0 CB A:TRP279 4.7 3.0 1.0 CD1 A:TRP279 4.7 3.7 1.0 CB A:PHE47 4.8 3.9 1.0 CA A:TRP279 4.9 2.8 1.0 O A:HOH535 4.9 20.2 1.0 CA A:PHE47 4.9 4.5 1.0 CA A:ASN87 4.9 3.4 1.0 N A:ASP48 4.9 8.8 1.0

Calcium binding site 2 out of 4 in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:9.7 occ:1.00 O A:HOH675 2.2 5.8 1.0 O A:GLU235 2.2 4.4 1.0 O A:ALA182 2.2 2.1 1.0 OE1 A:GLU238 2.4 4.7 1.0 O A:HOH553 2.5 5.4 1.0 OE2 A:GLU238 2.5 7.4 1.0 O A:HOH620 2.6 10.7 1.0 CD A:GLU238 2.7 6.3 1.0 C A:GLU235 3.2 4.9 1.0 C A:ALA182 3.4 2.5 1.0 CA A:GLU235 4.0 5.2 1.0 CG A:GLU238 4.0 6.8 1.0 CB A:ALA182 4.1 2.4 1.0 O A:HOH664 4.1 16.7 1.0 CA A:ALA182 4.2 2.5 1.0 N A:MET236 4.2 4.5 1.0 N A:ALA182 4.4 2.5 1.0 CA A:MET236 4.4 4.5 1.0 N A:GLY183 4.5 2.9 1.0 O A:HOH799 4.5 14.7 1.0 OE2 A:GLU186 4.5 3.2 1.0 CB A:GLU235 4.6 7.5 1.0 O A:HOH763 4.6 21.2 1.0 OE1 A:GLU186 4.6 3.6 1.0 N A:LYS237 4.6 4.0 1.0 O A:GLY183 4.6 2.7 1.0 CD2 A:PHE181 4.6 2.9 1.0 CA A:GLY183 4.7 3.3 1.0 N A:GLU238 4.9 3.9 1.0 C A:MET236 4.9 4.1 1.0 CD A:GLU186 4.9 3.4 1.0 O A:SER234 5.0 3.2 1.0

Calcium binding site 3 out of 4 in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:18.4 occ:1.00 OD1 B:ASP278 2.3 3.9 1.0 O B:HOH622 2.3 18.9 1.0 O B:GLU46 2.3 4.6 1.0 O B:GLY86 2.3 5.0 1.0 O B:ASP278 2.3 3.6 1.0 O B:HOH540 2.5 19.7 1.0 OD1 B:ASP48 2.6 8.0 1.0 C B:ASP278 3.4 4.2 1.0 C B:GLY86 3.4 5.5 1.0 CG B:ASP278 3.4 4.0 1.0 C B:GLU46 3.5 5.0 1.0 CG B:ASP48 3.6 7.6 1.0 CA B:ASP278 3.8 3.9 1.0 CA B:GLY86 3.9 5.5 1.0 OD2 B:ASP48 4.0 8.1 1.0 O B:HOH505 4.0 25.3 1.0 CB B:ASP278 4.2 4.1 1.0 CA B:GLU46 4.2 5.5 1.0 OD2 B:ASP278 4.4 3.9 1.0 O B:PHE47 4.4 5.4 1.0 C B:PHE47 4.5 6.1 1.0 N B:TRP279 4.5 4.3 1.0 CB B:GLU46 4.5 5.5 1.0 N B:PHE47 4.5 4.9 1.0 N B:ASN87 4.6 5.8 1.0 CB B:TRP279 4.6 4.1 1.0 OE1 B:GLU46 4.7 5.9 1.0 CD1 B:TRP279 4.7 3.8 1.0 CB B:PHE47 4.7 4.7 1.0 O B:HOH689 4.8 37.3 1.0 N B:ASP48 4.8 7.3 1.0 CB B:ASP48 4.8 7.6 1.0 CA B:PHE47 4.8 5.2 1.0 CA B:TRP279 4.9 4.5 1.0 O B:HOH524 4.9 33.7 1.0 CA B:ASN87 5.0 6.9 1.0 CA B:ASP48 5.0 7.5 1.0

Calcium binding site 4 out of 4 in the Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Marine Bacterial Laminarinase Ptlam Mutant E154A in Complex with Laminatriose within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:18.9 occ:1.00 O B:HOH641 2.2 20.3 1.0 O B:GLU235 2.2 6.2 1.0 O B:ALA182 2.3 4.2 1.0 OE1 B:GLU238 2.4 5.6 1.0 OE2 B:GLU238 2.4 7.4 1.0 O B:HOH598 2.5 18.9 1.0 O B:HOH638 2.6 16.0 1.0 CD B:GLU238 2.6 6.2 1.0 C B:GLU235 3.2 6.5 1.0 C B:ALA182 3.4 5.1 1.0 CA B:GLU235 3.9 7.7 1.0 CB B:ALA182 4.0 5.3 1.0 CG B:GLU238 4.1 6.3 1.0 CA B:ALA182 4.1 5.3 1.0 N B:MET236 4.2 6.0 1.0 O B:HOH624 4.3 32.5 1.0 OE1 B:GLU186 4.3 47.5 1.0 N B:ALA182 4.3 5.2 1.0 CA B:MET236 4.4 7.2 1.0 CB B:GLU235 4.4 9.9 1.0 N B:GLY183 4.5 5.2 1.0 N B:LYS237 4.6 6.8 1.0 O B:GLY183 4.6 6.4 1.0 CD2 B:PHE181 4.7 3.8 1.0 CA B:GLY183 4.8 5.9 1.0 O B:HOH720 4.8 24.9 1.0 N B:GLU238 4.8 5.5 1.0 C B:MET236 4.9 6.5 1.0

J.Yang, J.Yang. N/A N/A.