Chlorine in PDB 3zn5: VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived)

The structure of VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived), PDB code: 3zn5 was solved by I.Rissanen, J.M.Grimes, A.Pawlowski, S.Mantynen, K.Harlos, J.K.H.Bamford, D.I.Stuart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.16 / 2.36
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	41.410, 77.050, 403.000, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 23.4

The binding sites of Chlorine atom in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived) (pdb code 3zn5). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived), PDB code: 3zn5:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1171 b:38.2 occ:1.00 NH2 B:ARG35 3.1 32.9 1.0 NE B:ARG35 3.2 34.2 1.0 NH2 A:ARG35 3.2 34.2 1.0 O B:HOH2016 3.4 30.5 1.0 NE A:ARG35 3.4 31.8 1.0 O A:HOH2025 3.4 28.7 1.0 CZ B:ARG35 3.5 47.5 1.0 CZ A:PHE89 3.5 37.9 1.0 CZ B:PHE89 3.6 31.6 1.0 CZ A:ARG35 3.8 46.8 1.0 CE2 A:PHE89 4.0 40.1 1.0 CE2 B:PHE89 4.0 34.3 1.0 CD B:ARG35 4.4 35.4 1.0 CB B:ARG35 4.4 19.1 1.0 CE2 A:TYR142 4.4 28.6 1.0 CE2 B:TYR142 4.5 31.0 1.0 CD A:ARG35 4.6 36.6 1.0 CB A:ARG35 4.7 32.2 1.0 CE1 B:PHE89 4.7 33.5 1.0 CE1 A:PHE89 4.7 38.0 1.0 NH1 B:ARG35 4.9 29.9 1.0 CD2 B:TYR142 4.9 28.9 1.0 CD2 A:TYR142 4.9 28.9 1.0 CG B:ARG35 5.0 32.6 1.0 CZ A:TYR142 5.0 28.5 1.0

Chlorine binding site 2 out of 4 in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived) within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl1169 b:46.6 occ:1.00 O D:HOH2011 3.0 35.2 1.0 NH2 D:ARG35 3.1 39.3 1.0 NE D:ARG35 3.2 37.8 1.0 O C:HOH2014 3.2 36.3 1.0 NH2 C:ARG35 3.2 43.9 1.0 NE C:ARG35 3.3 42.1 1.0 CZ D:PHE89 3.5 40.0 1.0 CZ D:ARG35 3.6 46.8 1.0 CZ C:PHE89 3.6 40.8 1.0 CZ C:ARG35 3.7 49.6 1.0 CE2 D:PHE89 4.0 40.8 1.0 CE2 C:PHE89 4.1 42.6 1.0 CE2 C:TYR142 4.3 37.2 1.0 CD D:ARG35 4.4 46.4 1.0 CB D:ARG35 4.5 39.3 1.0 CE2 D:TYR142 4.5 39.5 1.0 CB C:ARG35 4.5 36.2 1.0 CD C:ARG35 4.5 28.4 1.0 CE1 D:PHE89 4.7 41.7 1.0 CE1 C:PHE89 4.7 41.0 1.0 CD2 C:TYR142 4.8 35.3 1.0 CD2 D:TYR142 4.9 38.5 1.0 NH1 D:ARG35 4.9 39.5 1.0 CZ C:TYR142 4.9 39.8 1.0 O C:HOH2013 5.0 35.0 1.0 O D:HOH2009 5.0 38.6 1.0

Chlorine binding site 3 out of 4 in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived) within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl1168 b:44.1 occ:1.00 O F:HOH2007 3.1 22.2 1.0 NH2 F:ARG35 3.1 37.0 1.0 NE F:ARG35 3.2 43.6 1.0 NH2 E:ARG35 3.3 52.8 1.0 NE E:ARG35 3.5 36.4 1.0 CZ F:ARG35 3.6 52.5 1.0 CZ F:PHE89 3.7 43.7 1.0 CZ E:PHE89 3.8 46.9 1.0 CZ E:ARG35 3.8 52.7 1.0 CE2 F:PHE89 4.2 45.3 1.0 CE2 E:PHE89 4.3 48.8 1.0 CB F:ARG35 4.3 39.6 1.0 CE2 F:TYR142 4.3 33.4 1.0 CD F:ARG35 4.4 47.7 1.0 CE2 E:TYR142 4.4 36.5 1.0 O F:HOH2006 4.5 37.6 1.0 CB E:ARG35 4.6 35.4 1.0 CD E:ARG35 4.7 28.4 1.0 CD2 F:TYR142 4.7 36.5 1.0 CE1 F:PHE89 4.8 44.1 1.0 CD2 E:TYR142 4.9 36.7 1.0 NH1 F:ARG35 4.9 32.5 1.0 CE1 E:PHE89 4.9 46.4 1.0 CG F:ARG35 4.9 47.0 1.0 CZ F:TYR142 5.0 39.5 1.0

Chlorine binding site 4 out of 4 in the VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of VP16, A Capsid Protein of Bacteriophage P23-77 (VP16-Virus-Derived) within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl1169 b:44.1 occ:1.00 NH2 G:ARG35 3.1 35.8 1.0 NH2 H:ARG35 3.2 44.4 1.0 NE H:ARG35 3.2 59.3 1.0 NE G:ARG35 3.4 43.9 1.0 CZ H:PHE89 3.5 49.1 1.0 O G:HOH2007 3.5 26.2 1.0 CZ G:PHE89 3.6 46.0 1.0 CZ H:ARG35 3.7 60.9 1.0 CZ G:ARG35 3.7 52.2 1.0 CE2 H:PHE89 4.0 51.1 1.0 CE2 G:PHE89 4.1 47.3 1.0 CE2 G:TYR142 4.4 35.6 1.0 CE2 H:TYR142 4.4 43.8 1.0 CB H:ARG35 4.4 38.9 1.0 CD H:ARG35 4.4 35.8 1.0 CB G:ARG35 4.6 44.0 1.0 CD G:ARG35 4.6 48.7 1.0 CE1 H:PHE89 4.6 48.7 1.0 O G:HOH2006 4.7 37.9 1.0 CD2 H:TYR142 4.8 44.9 1.0 CE1 G:PHE89 4.8 45.5 1.0 CD2 G:TYR142 4.9 34.6 1.0 CZ G:TYR142 5.0 36.4 1.0 CZ H:TYR142 5.0 46.0 1.0 NH1 H:ARG35 5.0 49.8 1.0

I.Rissanen, J.M.Grimes, A.Pawlowski, S.Mantynen, K.Harlos, J.K.H.Bamford, D.I.Stuart. Bacteriophage P23-77 Capsid Protein Structures Reveal the Archetype of An Ancient Branch From A Major Virus Lineage. Structure V. 21 718 2013.
ISSN: ISSN 0969-2126
PubMed: 23623731
DOI: 10.1016/J.STR.2013.02.026