Calcium in PDB 4lvh: Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin

The structure of Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin, PDB code: 4lvh was solved by K.H.Kim, K.J.Cho, S.Kim, J.H.Seok, J.-H.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.49 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	72.751, 237.814, 94.230, 90.00, 110.31, 90.00
R / Rfree (%)	23.2 / 27.4

The binding sites of Calcium atom in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin (pdb code 4lvh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin, PDB code: 4lvh:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:9.0 occ:1.00 SG A:CYS55 3.4 24.9 1.0 CG A:LEU52 3.6 17.2 1.0 CD1 A:LEU52 3.8 15.1 1.0 CD1 A:TRP60 3.9 19.6 1.0 CB A:LEU52 3.9 8.7 1.0 N A:LYS54 4.0 19.6 1.0 O A:CYS67 4.2 43.1 1.0 N A:CYS55 4.2 17.1 1.0 CB A:TRP60 4.3 14.3 1.0 CG A:TRP60 4.3 17.5 1.0 CB A:CYS67 4.4 33.3 1.0 CA A:CYS67 4.4 33.9 1.0 CA A:LYS54 4.4 14.8 1.0 CB A:LYS54 4.4 15.7 1.0 N A:GLY53 4.5 9.3 1.0 C A:CYS67 4.5 39.4 1.0 CA A:LEU52 4.5 13.9 1.0 N A:LEU70 4.6 32.2 1.0 C A:LYS54 4.6 16.1 1.0 SG A:CYS67 4.6 30.7 1.0 CA A:LEU70 4.7 37.6 1.0 O A:CYS55 4.7 13.5 1.0 NE1 A:TRP60 4.8 19.1 1.0 CB A:LEU70 4.8 30.7 1.0 C A:LEU52 4.8 14.4 1.0 CB A:CYS55 4.9 25.7 1.0 CD2 A:LEU52 4.9 14.8 1.0 CA A:CYS55 4.9 22.9 1.0 CA A:TRP60 5.0 17.1 1.0

Calcium binding site 2 out of 4 in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca601 b:7.9 occ:1.00 CB D:CYS67 3.9 23.7 1.0 N D:LYS54 4.0 27.1 1.0 SG D:CYS55 4.0 19.6 1.0 N D:GLY53 4.0 18.3 1.0 O D:GLU68 4.0 35.1 1.0 CB D:LEU52 4.2 16.6 1.0 N D:LEU70 4.2 36.8 1.0 CA D:LEU52 4.2 19.3 1.0 CD1 D:TRP60 4.3 23.0 1.0 CG D:LEU52 4.3 15.2 1.0 CA D:CYS67 4.4 26.6 1.0 C D:LEU52 4.5 21.6 1.0 N D:CYS55 4.5 20.1 1.0 CA D:LEU70 4.5 37.5 1.0 CB D:LYS54 4.5 26.3 1.0 C D:CYS67 4.6 34.5 1.0 O D:CYS67 4.6 27.6 1.0 CA D:LYS54 4.7 21.6 1.0 SG D:CYS67 4.7 35.3 1.0 CB D:SER69 4.7 34.1 1.0 CB D:LEU70 4.9 40.5 1.0 NE1 D:TRP60 4.9 20.4 1.0 CG D:TRP60 4.9 18.9 1.0 CA D:GLY53 4.9 22.3 1.0 C D:GLY53 4.9 27.9 1.0

Calcium binding site 3 out of 4 in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca601 b:10.5 occ:1.00 O G:SER69 3.1 44.9 1.0 O G:CYS67 3.3 29.6 1.0 SG G:CYS55 3.5 52.2 1.0 CB G:LEU52 3.6 18.1 1.0 CB G:LYS54 3.9 28.3 1.0 C G:CYS67 3.9 37.5 1.0 CG G:LEU52 4.1 23.6 1.0 CD1 G:LEU52 4.1 19.6 1.0 CA G:LEU52 4.2 20.1 1.0 C G:SER69 4.2 52.2 1.0 CA G:CYS67 4.3 32.1 1.0 N G:CYS55 4.4 31.8 1.0 O G:GLU68 4.4 42.5 1.0 SG G:CYS67 4.5 24.1 1.0 N G:LYS54 4.5 30.7 1.0 CB G:CYS67 4.6 30.0 1.0 CB G:LEU70 4.7 52.1 1.0 CA G:LYS54 4.7 36.3 1.0 C G:GLU68 4.7 40.0 1.0 N G:GLU68 4.8 33.8 1.0 C G:LEU52 4.8 34.4 1.0 CA G:LEU70 4.9 56.1 1.0 CD1 G:TRP60 4.9 27.9 1.0 N G:SER69 4.9 34.5 1.0 CG G:LYS54 5.0 33.7 1.0 N G:GLY53 5.0 36.5 1.0

Calcium binding site 4 out of 4 in the Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca601 b:3.4 occ:1.00 CB J:LEU52 3.5 31.8 1.0 CB J:SER69 3.7 19.8 1.0 O J:SER69 3.7 53.0 1.0 SG J:CYS55 3.9 30.3 1.0 CD1 J:LEU52 4.0 19.6 1.0 CD1 J:TRP60 4.1 31.2 1.0 CB J:CYS67 4.2 26.6 1.0 CB J:LYS54 4.3 32.1 1.0 CA J:CYS67 4.3 22.4 1.0 O J:CYS67 4.4 22.3 1.0 CG J:LEU52 4.4 18.4 1.0 C J:CYS67 4.4 24.5 1.0 O J:GLU68 4.4 21.5 1.0 CA J:LEU52 4.4 40.7 1.0 N J:LYS54 4.5 32.0 1.0 OG J:SER69 4.5 28.6 1.0 CG J:TRP60 4.5 27.3 1.0 CB J:TRP60 4.6 22.2 1.0 C J:SER69 4.6 39.8 1.0 SG J:CYS67 4.6 25.2 1.0 C J:LEU52 4.6 29.5 1.0 N J:GLY53 4.7 25.6 1.0 N J:CYS55 4.7 29.8 1.0 CA J:SER69 4.7 23.6 1.0 C J:GLU68 4.9 23.7 1.0 NE1 J:TRP60 4.9 37.5 1.0 CA J:LYS54 4.9 29.9 1.0

K.J.Cho, K.W.Hong, S.H.Kim, J.H.Seok, S.Kim, J.-H.Lee, X.Saelens, K.H.Kim. Insight Into Highly Conserved H1 Subtype-Specific Epitopes in Influenza Virus Hemagglutinin Plos One V. 9 89803 2014.
ISSN: ESSN 1932-6203
PubMed: 24587046
DOI: 10.1371/JOURNAL.PONE.0089803