Calcium in PDB 8zr4: Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom

All present enzymatic activity of Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom:
3.2.1.18;

The binding sites of Calcium atom in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom (pdb code 8zr4). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom, PDB code: 8zr4:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca403 b:7.4 occ:1.00 OD2 D:ASP248 2.2 6.4 1.0 O D:ASP217 2.3 5.6 1.0 O D:GLY221 2.4 9.1 1.0 O D:HIS271 2.5 3.9 1.0 O D:GLY269 2.6 9.6 1.0 O D:HOH511 2.6 7.2 1.0 HA D:SER222 3.3 7.2 1.0 CG D:ASP248 3.3 4.6 1.0 C D:GLY221 3.5 7.4 1.0 C D:ASP217 3.5 6.2 1.0 HA3 D:GLY272 3.5 4.5 1.0 O D:HOH556 3.6 8.3 1.0 HA D:ASN218 3.6 6.8 1.0 HA2 D:GLY269 3.6 9.1 1.0 C D:GLY269 3.6 7.7 1.0 HA2 D:GLY272 3.7 4.6 1.0 C D:HIS271 3.7 6.0 1.0 HB3 D:ASP248 3.8 5.2 1.0 CA D:GLY272 4.0 4.8 1.0 HB3 D:ASP217 4.0 6.5 1.0 CA D:SER222 4.1 7.4 1.0 CB D:ASP248 4.1 4.2 1.0 N D:SER222 4.1 5.5 1.0 CA D:GLY269 4.1 10.6 1.0 H D:GLY221 4.2 8.6 1.0 O D:GLY270 4.2 3.5 1.0 OD1 D:ASP248 4.2 5.2 1.0 CA D:ASN218 4.3 6.8 1.0 HB2 D:ASP248 4.3 6.0 1.0 N D:GLY272 4.3 3.6 1.0 N D:ASN218 4.3 4.3 1.0 HD2 D:PRO250 4.3 5.2 1.0 H D:ASP217 4.4 6.3 1.0 C D:GLY270 4.4 4.9 1.0 O D:LYS268 4.5 10.1 1.0 CA D:ASP217 4.5 7.5 1.0 N D:GLY221 4.6 7.5 1.0 CA D:GLY221 4.6 9.6 1.0 C D:ASN218 4.6 5.5 1.0 HB3 D:SER222 4.6 7.5 1.0 H D:TRP219 4.6 9.5 1.0 CB D:ASP217 4.7 6.1 1.0 HA3 D:GLY269 4.7 9.8 1.0 N D:GLY270 4.7 6.9 1.0 N D:ASP217 4.7 3.5 1.0 N D:HIS271 4.8 6.2 1.0 O D:PRO250 4.8 4.7 1.0 N D:TRP219 4.8 9.5 1.0 H D:SER222 4.8 7.2 1.0 HG3 D:ARG216 4.8 4.2 1.0 OD1 D:ASP217 4.9 9.3 1.0 CA D:HIS271 4.9 5.2 1.0 CB D:SER222 4.9 5.9 1.0

Calcium binding site 2 out of 4 in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca403 b:9.8 occ:1.00 OD2 H:ASP248 2.2 10.2 1.0 O H:ASP217 2.3 6.5 1.0 O H:GLY221 2.4 10.9 1.0 O H:HIS271 2.5 3.9 1.0 O H:GLY269 2.6 9.2 1.0 O H:HOH508 2.6 8.3 1.0 HA H:SER222 3.3 8.1 1.0 CG H:ASP248 3.3 5.5 1.0 C H:ASP217 3.5 4.8 1.0 C H:GLY221 3.5 7.7 1.0 HA3 H:GLY272 3.5 4.9 1.0 O H:HOH538 3.6 8.9 1.0 HA2 H:GLY269 3.6 9.7 1.0 HA H:ASN218 3.6 7.1 1.0 C H:GLY269 3.6 8.8 1.0 HA2 H:GLY272 3.7 5.0 1.0 C H:HIS271 3.7 6.3 1.0 HB3 H:ASP248 3.8 5.6 1.0 CA H:GLY272 4.0 4.4 1.0 HB3 H:ASP217 4.0 7.1 1.0 CB H:ASP248 4.1 3.2 1.0 CA H:SER222 4.1 6.5 1.0 N H:SER222 4.1 6.0 1.0 CA H:GLY269 4.1 11.1 1.0 OD1 H:ASP248 4.2 5.0 1.0 O H:GLY270 4.2 4.3 1.0 H H:GLY221 4.2 9.2 1.0 HB2 H:ASP248 4.3 6.6 1.0 CA H:ASN218 4.3 7.2 1.0 N H:ASN218 4.3 4.7 1.0 N H:GLY272 4.3 3.6 1.0 HD2 H:PRO250 4.3 5.6 1.0 H H:ASP217 4.3 6.7 1.0 C H:GLY270 4.4 4.4 1.0 O H:LYS268 4.5 12.1 1.0 CA H:ASP217 4.5 8.2 1.0 N H:GLY221 4.6 7.1 1.0 CA H:GLY221 4.6 10.8 1.0 C H:ASN218 4.6 5.6 1.0 HB3 H:SER222 4.6 8.2 1.0 CB H:ASP217 4.7 7.2 1.0 HA3 H:GLY269 4.7 10.4 1.0 H H:TRP219 4.7 10.2 1.0 N H:ASP217 4.7 4.1 1.0 N H:GLY270 4.7 7.5 1.0 N H:HIS271 4.8 8.2 1.0 O H:PRO250 4.8 4.5 1.0 HG3 H:ARG216 4.8 4.8 1.0 H H:SER222 4.9 8.1 1.0 N H:TRP219 4.9 10.2 1.0 OD1 H:ASP217 4.9 11.1 1.0 CA H:HIS271 4.9 5.6 1.0 CB H:SER222 4.9 7.0 1.0

Calcium binding site 3 out of 4 in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ K:Ca403 b:11.4 occ:1.00 OD2 K:ASP248 2.2 5.6 1.0 O K:ASP217 2.3 5.5 1.0 O K:GLY221 2.4 9.3 1.0 O K:HIS271 2.5 5.0 1.0 O K:GLY269 2.6 9.8 1.0 O K:HOH510 2.6 7.1 1.0 HA K:SER222 3.3 7.9 1.0 CG K:ASP248 3.3 5.4 1.0 C K:ASP217 3.5 5.3 1.0 C K:GLY221 3.5 8.4 1.0 HA3 K:GLY272 3.5 4.8 1.0 O K:HOH538 3.6 7.4 1.0 HA2 K:GLY269 3.6 9.6 1.0 HA K:ASN218 3.6 7.2 1.0 C K:GLY269 3.6 8.1 1.0 HA2 K:GLY272 3.7 4.9 1.0 C K:HIS271 3.7 5.2 1.0 HB3 K:ASP248 3.8 5.7 1.0 CA K:GLY272 4.0 4.0 1.0 HB3 K:ASP217 4.0 6.9 1.0 CB K:ASP248 4.1 4.5 1.0 CA K:SER222 4.1 7.6 1.0 N K:SER222 4.1 7.7 1.0 CA K:GLY269 4.1 9.2 1.0 OD1 K:ASP248 4.1 4.8 1.0 O K:GLY270 4.2 6.1 1.0 H K:GLY221 4.2 9.2 1.0 HB2 K:ASP248 4.3 6.2 1.0 CA K:ASN218 4.3 7.7 1.0 N K:ASN218 4.3 6.2 1.0 N K:GLY272 4.3 3.9 1.0 HD2 K:PRO250 4.3 5.5 1.0 H K:ASP217 4.3 6.9 1.0 C K:GLY270 4.4 5.8 1.0 O K:LYS268 4.5 10.8 1.0 CA K:ASP217 4.5 7.5 1.0 N K:GLY221 4.6 8.3 1.0 CA K:GLY221 4.6 9.9 1.0 C K:ASN218 4.6 6.6 1.0 HB3 K:SER222 4.6 8.4 1.0 HA3 K:GLY269 4.7 10.0 1.0 CB K:ASP217 4.7 7.8 1.0 H K:TRP219 4.7 10.0 1.0 N K:ASP217 4.7 4.5 1.0 N K:GLY270 4.7 7.5 1.0 N K:HIS271 4.8 5.2 1.0 O K:PRO250 4.8 5.1 1.0 HG3 K:ARG216 4.8 4.4 1.0 H K:SER222 4.8 8.3 1.0 N K:TRP219 4.9 8.9 1.0 OD1 K:ASP217 4.9 9.0 1.0 CA K:HIS271 4.9 7.3 1.0 CB K:SER222 4.9 6.9 1.0

Calcium binding site 4 out of 4 in the Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Structure of the N2-4N2C402 Complex at A Resolution of 1.9 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ N:Ca403 b:14.0 occ:1.00 OD2 N:ASP248 2.2 6.0 1.0 O N:ASP217 2.3 3.5 1.0 O N:GLY221 2.4 7.5 1.0 O N:HIS271 2.5 0.6 1.0 O N:GLY269 2.6 5.1 1.0 O N:HOH511 2.6 7.2 1.0 HA N:SER222 3.3 4.6 1.0 CG N:ASP248 3.3 1.6 1.0 C N:ASP217 3.5 0.0 1.0 C N:GLY221 3.5 4.8 1.0 HA3 N:GLY272 3.5 2.3 1.0 O N:HOH535 3.6 9.1 1.0 HA2 N:GLY269 3.6 5.4 1.0 HA N:ASN218 3.6 4.0 1.0 C N:GLY269 3.6 4.0 1.0 HA2 N:GLY272 3.7 2.4 1.0 C N:HIS271 3.7 2.6 1.0 HB3 N:ASP248 3.8 2.4 1.0 CA N:GLY272 4.0 1.1 1.0 HB3 N:ASP217 4.0 4.1 1.0 CB N:ASP248 4.1 1.1 1.0 CA N:SER222 4.1 2.0 1.0 N N:SER222 4.1 0.9 1.0 CA N:GLY269 4.1 6.0 1.0 OD1 N:ASP248 4.2 4.7 1.0 O N:GLY270 4.2 2.6 1.0 H N:GLY221 4.2 5.7 1.0 HB2 N:ASP248 4.3 3.7 1.0 CA N:ASN218 4.3 4.3 1.0 N N:GLY272 4.3 1.1 1.0 N N:ASN218 4.3 2.4 1.0 HD2 N:PRO250 4.3 2.2 1.0 H N:ASP217 4.3 3.8 1.0 C N:GLY270 4.4 3.6 1.0 O N:LYS268 4.5 8.8 1.0 CA N:ASP217 4.5 8.1 1.0 N N:GLY221 4.6 2.2 1.0 CA N:GLY221 4.6 9.1 1.0 C N:ASN218 4.6 1.9 1.0 HB3 N:SER222 4.6 4.8 1.0 CB N:ASP217 4.7 5.3 1.0 HA3 N:GLY269 4.7 7.0 1.0 H N:TRP219 4.7 6.9 1.0 N N:ASP217 4.7 1.9 1.0 N N:GLY270 4.7 6.5 1.0 N N:HIS271 4.8 5.9 1.0 O N:PRO250 4.8 0.3 1.0 HG3 N:ARG216 4.8 2.4 1.0 H N:SER222 4.8 4.4 1.0 N N:TRP219 4.9 6.4 1.0 OD1 N:ASP217 4.9 8.1 1.0 CA N:HIS271 4.9 5.5 1.0 CB N:SER222 4.9 1.0 1.0

X.Wang, Q.Yang, B.X.Chu, X.D.Wu, Z.L.Zhang. Profiling Influenza Neuraminidase Pre-Existing Humoral Immunity in Humans Cell Host Microbe 2024.
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