Manganese in PDB 8viw: Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site

The binding sites of Manganese atom in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site (pdb code 8viw). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 8 binding sites of Manganese where determined in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site, PDB code: 8viw:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Manganese binding site 1 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn701 b:92.1 occ:1.00 OD2 A:ASP481 2.0 87.8 1.0 O3B A:UDP702 2.0 91.4 1.0 O2A A:UDP702 2.2 91.4 1.0 CG A:ASP481 3.0 87.8 1.0 PB A:UDP702 3.1 91.4 1.0 PA A:UDP702 3.3 91.4 1.0 OD1 A:ASP481 3.3 87.8 1.0 O3A A:UDP702 3.4 91.4 1.0 O2B A:UDP702 3.6 91.4 1.0 O3 E:BDP5 3.9 87.2 1.0 O1A A:UDP702 4.1 91.4 1.0 CB A:ASP481 4.3 87.8 1.0 OE2 A:GLU595 4.4 83.5 1.0 O1B A:UDP702 4.5 91.4 1.0 NH1 A:ARG403 4.5 90.9 1.0 O5' A:UDP702 4.5 91.4 1.0 OD2 A:ASP479 4.8 85.4 1.0 C3 E:BDP5 4.8 87.2 1.0 CG2 A:THR602 4.8 92.8 1.0 C5' A:UDP702 4.9 91.4 1.0

Manganese binding site 2 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn703 b:81.3 occ:1.00 O2A A:UDP704 2.1 80.2 1.0 O A:HOH801 2.1 77.3 1.0 OD2 A:ASP217 2.1 77.4 1.0 O3B A:UDP704 2.2 80.2 1.0 OD1 A:ASP217 2.2 77.4 1.0 CG A:ASP217 2.4 77.4 1.0 PA A:UDP704 3.2 80.2 1.0 O3A A:UDP704 3.2 80.2 1.0 PB A:UDP704 3.3 80.2 1.0 OD1 A:ASP218 3.4 77.9 1.0 OD2 A:ASP218 3.4 77.9 1.0 CG A:ASP218 3.8 77.9 1.0 CB A:ASP217 3.9 77.4 1.0 OD1 A:ASN317 4.1 79.9 1.0 OD2 A:ASP215 4.1 78.6 1.0 O5' A:UDP704 4.2 80.2 1.0 C5' A:UDP704 4.2 80.2 1.0 O1B A:UDP704 4.2 80.2 1.0 O1A A:UDP704 4.2 80.2 1.0 O2B A:UDP704 4.3 80.2 1.0 CB A:ASP215 4.4 78.6 1.0 O A:THR318 4.5 80.3 1.0 CG A:ASP215 4.6 78.6 1.0 NH1 A:ARG247 4.6 80.4 1.0 C3' A:UDP704 4.6 80.2 1.0 NE A:ARG320 4.6 81.8 1.0 CA A:ASP217 4.9 77.4 1.0 NH2 A:ARG320 4.9 81.8 1.0 C A:ASP217 4.9 77.4 1.0 C4' A:UDP704 5.0 80.2 1.0

Manganese binding site 3 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn701 b:92.9 occ:1.00 OD2 B:ASP481 2.0 87.8 1.0 O3B B:UDP702 2.0 91.3 1.0 O2A B:UDP702 2.2 91.3 1.0 CG B:ASP481 3.0 87.8 1.0 PB B:UDP702 3.1 91.3 1.0 PA B:UDP702 3.3 91.3 1.0 OD1 B:ASP481 3.3 87.8 1.0 O3A B:UDP702 3.4 91.3 1.0 O2B B:UDP702 3.6 91.3 1.0 O3 F:BDP5 3.9 87.1 1.0 O1A B:UDP702 4.1 91.3 1.0 CB B:ASP481 4.3 87.8 1.0 OE2 B:GLU595 4.4 83.7 1.0 O1B B:UDP702 4.5 91.3 1.0 NH1 B:ARG403 4.5 91.0 1.0 O5' B:UDP702 4.5 91.3 1.0 OD2 B:ASP479 4.8 85.6 1.0 C3 F:BDP5 4.8 87.1 1.0 CG2 B:THR602 4.8 92.6 1.0 C5' B:UDP702 4.9 91.3 1.0

Manganese binding site 4 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn703 b:81.1 occ:1.00 O2A B:UDP704 2.1 80.0 1.0 O B:HOH801 2.1 76.5 1.0 OD2 B:ASP217 2.1 77.8 1.0 O3B B:UDP704 2.2 80.0 1.0 OD1 B:ASP217 2.2 77.8 1.0 CG B:ASP217 2.4 77.8 1.0 PA B:UDP704 3.2 80.0 1.0 O3A B:UDP704 3.2 80.0 1.0 PB B:UDP704 3.3 80.0 1.0 OD1 B:ASP218 3.4 78.4 1.0 OD2 B:ASP218 3.4 78.4 1.0 CG B:ASP218 3.8 78.4 1.0 CB B:ASP217 3.9 77.8 1.0 OD1 B:ASN317 4.1 79.6 1.0 OD2 B:ASP215 4.1 79.0 1.0 O5' B:UDP704 4.2 80.0 1.0 C5' B:UDP704 4.2 80.0 1.0 O1B B:UDP704 4.2 80.0 1.0 O1A B:UDP704 4.2 80.0 1.0 O2B B:UDP704 4.3 80.0 1.0 CB B:ASP215 4.4 79.0 1.0 O B:THR318 4.5 80.0 1.0 CG B:ASP215 4.6 79.0 1.0 NH1 B:ARG247 4.6 80.0 1.0 C3' B:UDP704 4.6 80.0 1.0 NE B:ARG320 4.6 81.3 1.0 CA B:ASP217 4.9 77.8 1.0 NH2 B:ARG320 4.9 81.3 1.0 C B:ASP217 4.9 77.8 1.0 C4' B:UDP704 5.0 80.0 1.0

Manganese binding site 5 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn701 b:93.5 occ:1.00 OD2 C:ASP481 2.0 87.5 1.0 O3B C:UDP702 2.0 90.9 1.0 O2A C:UDP702 2.2 90.9 1.0 CG C:ASP481 3.0 87.5 1.0 PB C:UDP702 3.1 90.9 1.0 PA C:UDP702 3.3 90.9 1.0 OD1 C:ASP481 3.3 87.5 1.0 O3A C:UDP702 3.4 90.9 1.0 O2B C:UDP702 3.6 90.9 1.0 O3 G:BDP5 3.9 86.7 1.0 O1A C:UDP702 4.1 90.9 1.0 CB C:ASP481 4.3 87.5 1.0 OE2 C:GLU595 4.4 84.1 1.0 O1B C:UDP702 4.5 90.9 1.0 NH1 C:ARG403 4.5 90.3 1.0 O5' C:UDP702 4.5 90.9 1.0 OD2 C:ASP479 4.8 85.1 1.0 C3 G:BDP5 4.8 86.7 1.0 CG2 C:THR602 4.8 92.3 1.0 C5' C:UDP702 4.9 90.9 1.0

Manganese binding site 6 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn703 b:79.7 occ:1.00 O2A C:UDP704 2.1 79.9 1.0 O C:HOH801 2.1 77.3 1.0 OD2 C:ASP217 2.1 77.6 1.0 O3B C:UDP704 2.2 79.9 1.0 OD1 C:ASP217 2.2 77.6 1.0 CG C:ASP217 2.4 77.6 1.0 PA C:UDP704 3.2 79.9 1.0 O3A C:UDP704 3.2 79.9 1.0 PB C:UDP704 3.3 79.9 1.0 OD1 C:ASP218 3.4 78.0 1.0 OD2 C:ASP218 3.4 78.0 1.0 CG C:ASP218 3.8 78.0 1.0 CB C:ASP217 3.9 77.6 1.0 OD1 C:ASN317 4.1 80.0 1.0 OD2 C:ASP215 4.1 78.9 1.0 O5' C:UDP704 4.2 79.9 1.0 C5' C:UDP704 4.2 79.9 1.0 O1B C:UDP704 4.2 79.9 1.0 O1A C:UDP704 4.2 79.9 1.0 O2B C:UDP704 4.3 79.9 1.0 CB C:ASP215 4.4 78.9 1.0 O C:THR318 4.5 80.0 1.0 CG C:ASP215 4.6 78.9 1.0 NE C:ARG320 4.6 82.4 1.0 C3' C:UDP704 4.6 79.9 1.0 NH1 C:ARG247 4.6 80.1 1.0 CA C:ASP217 4.9 77.6 1.0 NH2 C:ARG320 4.9 82.4 1.0 C C:ASP217 4.9 77.6 1.0 C4' C:UDP704 5.0 79.9 1.0

Manganese binding site 7 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn701 b:93.4 occ:1.00 OD2 D:ASP481 2.0 87.7 1.0 O3B D:UDP702 2.0 90.7 1.0 O2A D:UDP702 2.2 90.7 1.0 CG D:ASP481 3.0 87.7 1.0 PB D:UDP702 3.1 90.7 1.0 PA D:UDP702 3.3 90.7 1.0 OD1 D:ASP481 3.3 87.7 1.0 O3A D:UDP702 3.4 90.7 1.0 O2B D:UDP702 3.6 90.7 1.0 O3 H:BDP5 3.9 86.5 1.0 O1A D:UDP702 4.1 90.7 1.0 CB D:ASP481 4.3 87.7 1.0 OE2 D:GLU595 4.4 84.2 1.0 O1B D:UDP702 4.5 90.7 1.0 NH1 D:ARG403 4.5 90.2 1.0 O5' D:UDP702 4.5 90.7 1.0 OD2 D:ASP479 4.8 85.6 1.0 C3 H:BDP5 4.8 86.5 1.0 CG2 D:THR602 4.8 92.3 1.0 C5' D:UDP702 4.9 90.7 1.0

Manganese binding site 8 out of 8 in the Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Cryo-Em Structure of Heparosan Synthase 2 From Pasteurella Multocida with Polysaccharide in the Glcnac-T Active Site within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn703 b:81.2 occ:1.00 O2A D:UDP704 2.1 80.1 1.0 O D:HOH801 2.1 77.2 1.0 OD2 D:ASP217 2.1 77.7 1.0 O3B D:UDP704 2.2 80.1 1.0 OD1 D:ASP217 2.2 77.7 1.0 CG D:ASP217 2.4 77.7 1.0 PA D:UDP704 3.2 80.1 1.0 O3A D:UDP704 3.2 80.1 1.0 PB D:UDP704 3.3 80.1 1.0 OD1 D:ASP218 3.4 78.1 1.0 OD2 D:ASP218 3.4 78.1 1.0 CG D:ASP218 3.8 78.1 1.0 CB D:ASP217 3.9 77.7 1.0 OD1 D:ASN317 4.1 79.9 1.0 OD2 D:ASP215 4.1 79.1 1.0 O5' D:UDP704 4.2 80.1 1.0 C5' D:UDP704 4.2 80.1 1.0 O1B D:UDP704 4.2 80.1 1.0 O1A D:UDP704 4.2 80.1 1.0 O2B D:UDP704 4.3 80.1 1.0 CB D:ASP215 4.3 79.1 1.0 O D:THR318 4.5 80.5 1.0 CG D:ASP215 4.6 79.1 1.0 NH1 D:ARG247 4.6 80.8 1.0 C3' D:UDP704 4.6 80.1 1.0 NE D:ARG320 4.6 81.9 1.0 CA D:ASP217 4.9 77.7 1.0 NH2 D:ARG320 4.9 81.9 1.0 C D:ASP217 4.9 77.7 1.0 C4' D:UDP704 5.0 80.1 1.0

E.Stancanelli, J.A.Krahn, E.Viverette, R.Dutcher, V.Pagadala, M.J.Borgnia, J.Liu, L.C.Pedersen. Structural and Functional Analysis of Heparosan Synthase 2 From Pasteurella Multocida to Improve the Synthesis of Heparin Acs Catalysis V. 14 6577 2024.
ISSN: ESSN 2155-5435
DOI: 10.1021/ACSCATAL.4C00677