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Chlorine in PDB 5g5o: Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native

Protein crystallography data

The structure of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native, PDB code: 5g5o was solved by T.H.Nguyen, A.K.Singh, B.Albala-Perez, M.J.Van Raaij, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 70.790, 126.880, 120.940, 90.00, 106.15, 90.00
R / Rfree (%) 17.2 / 22.6

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native (pdb code 5g5o). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native, PDB code: 5g5o:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 5g5o

Go back to Chlorine Binding Sites List in 5g5o
Chlorine binding site 1 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1377

b:18.2
occ:1.00
 NH1 A:ARG211 3.1 14.0 1.0
OH A:TYR223 3.1 16.5 1.0
O A:HOH2155 3.2 20.8 1.0
O A:HOH2160 3.2 17.8 1.0
N A:GLY243 3.3 17.9 1.0
C A:ALA241 3.6 19.2 1.0
CA A:ALA241 3.7 19.6 1.0
CB A:PRO286 3.7 17.9 1.0
CA A:GLY243 3.7 16.9 1.0
CE2 A:TYR223 3.8 16.3 1.0
N A:HIS242 3.8 19.3 1.0
CZ A:TYR223 3.9 16.7 1.0
O A:ALA241 4.0 19.2 1.0
CG1 A:VAL204 4.0 19.6 1.0
CG A:PRO286 4.1 18.1 1.0
CB A:ALA241 4.2 19.0 1.0
C A:GLY243 4.3 16.4 1.0
CZ A:ARG211 4.4 13.7 1.0
C A:HIS242 4.4 19.1 1.0
CD A:PRO286 4.5 18.0 1.0
N A:SER244 4.6 15.4 1.0
O A:TRP209 4.6 15.5 1.0
CA A:HIS242 4.6 20.0 1.0
CA A:PRO286 4.7 17.8 1.0
NH2 A:ARG211 4.8 13.3 1.0
N A:ALA241 4.9 19.2 1.0
O A:GLY243 4.9 16.6 1.0
N A:PRO286 4.9 18.5 1.0

Chlorine binding site 2 out of 6 in 5g5o

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Chlorine binding site 2 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl1377

b:16.5
occ:1.00
 OH B:TYR223 3.1 17.0 1.0
N B:GLY243 3.1 15.8 1.0
O B:HOH2156 3.2 14.2 1.0
O B:HOH2154 3.2 11.1 1.0
NH1 B:ARG211 3.2 15.7 1.0
C B:ALA241 3.5 14.9 1.0
CA B:ALA241 3.5 15.1 1.0
CA B:GLY243 3.6 16.5 1.0
N B:HIS242 3.8 15.7 1.0
CB B:PRO286 3.8 13.9 1.0
CB B:ALA241 3.8 15.3 1.0
O B:ALA241 3.9 14.9 1.0
CE2 B:TYR223 3.9 15.7 1.0
CZ B:TYR223 3.9 15.8 1.0
CG1 B:VAL204 4.1 16.0 1.0
C B:HIS242 4.3 16.7 1.0
C B:GLY243 4.3 16.4 1.0
CG B:PRO286 4.3 14.3 1.0
CZ B:ARG211 4.4 16.0 1.0
N B:SER244 4.5 16.4 1.0
CA B:HIS242 4.5 15.9 1.0
CD B:PRO286 4.6 14.8 1.0
CA B:PRO286 4.6 14.5 1.0
O B:TRP209 4.6 13.7 1.0
NH2 B:ARG211 4.8 16.4 1.0
N B:PRO286 4.8 15.3 1.0
N B:ALA241 4.8 15.3 1.0
N B:TRP209 5.0 13.2 1.0

Chlorine binding site 3 out of 6 in 5g5o

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Chlorine binding site 3 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl1376

b:16.0
occ:1.00
 OH C:TYR223 3.0 14.4 1.0
O C:HOH2133 3.1 17.8 1.0
NH1 C:ARG211 3.1 16.4 1.0
N C:GLY243 3.3 16.9 1.0
O C:HOH2135 3.3 14.7 1.0
CA C:ALA241 3.6 16.1 1.0
C C:ALA241 3.6 16.0 1.0
CA C:GLY243 3.7 17.6 1.0
CE2 C:TYR223 3.7 14.4 1.0
CB C:PRO286 3.8 14.7 1.0
CZ C:TYR223 3.8 14.6 1.0
N C:HIS242 3.9 15.9 1.0
CB C:ALA241 3.9 16.5 1.0
O C:ALA241 4.0 17.2 1.0
CG1 C:VAL204 4.1 13.4 1.0
CG C:PRO286 4.3 14.5 1.0
CZ C:ARG211 4.4 16.8 1.0
C C:GLY243 4.4 17.2 1.0
C C:HIS242 4.4 16.1 1.0
O C:TRP209 4.6 14.3 1.0
CA C:HIS242 4.7 15.6 1.0
CD C:PRO286 4.7 14.7 1.0
CA C:PRO286 4.7 14.9 1.0
N C:SER244 4.7 17.0 1.0
NH2 C:ARG211 4.7 17.6 1.0
N C:ALA241 4.9 16.4 1.0
N C:PRO286 4.9 15.2 1.0

Chlorine binding site 4 out of 6 in 5g5o

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Chlorine binding site 4 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl1379

b:14.9
occ:1.00
 O D:HOH2152 2.9 10.5 1.0
OH D:TYR223 3.0 12.5 1.0
N D:GLY243 3.2 12.2 1.0
NH1 D:ARG211 3.2 13.4 1.0
O D:HOH2157 3.4 11.6 1.0
C D:ALA241 3.5 14.7 1.0
CA D:ALA241 3.6 14.8 1.0
CA D:GLY243 3.6 12.3 1.0
CB D:PRO286 3.7 12.5 1.0
CE2 D:TYR223 3.8 12.1 1.0
O D:ALA241 3.8 14.0 1.0
CZ D:TYR223 3.9 12.3 1.0
N D:HIS242 3.9 14.5 1.0
CG1 D:VAL204 4.1 12.5 1.0
CB D:ALA241 4.1 14.7 1.0
CG D:PRO286 4.1 12.5 1.0
C D:GLY243 4.3 12.3 1.0
C D:HIS242 4.3 13.0 1.0
CZ D:ARG211 4.5 12.3 1.0
CD D:PRO286 4.5 12.9 1.0
N D:SER244 4.5 12.2 1.0
CA D:HIS242 4.6 13.7 1.0
O D:TRP209 4.6 10.8 1.0
CA D:PRO286 4.7 12.7 1.0
N D:ALA241 4.9 14.8 1.0
N D:PRO286 4.9 13.2 1.0
N D:TRP209 4.9 11.2 1.0
NH2 D:ARG211 5.0 12.1 1.0

Chlorine binding site 5 out of 6 in 5g5o

Go back to Chlorine Binding Sites List in 5g5o
Chlorine binding site 5 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl1378

b:16.1
occ:1.00
 O E:HOH2130 2.9 17.1 1.0
OH E:TYR223 3.1 16.8 1.0
N E:GLY243 3.2 16.1 1.0
NH1 E:ARG211 3.2 13.1 1.0
O E:HOH2132 3.4 13.4 1.0
C E:ALA241 3.4 15.4 1.0
CA E:GLY243 3.4 15.3 1.0
CA E:ALA241 3.5 15.6 1.0
O E:ALA241 3.6 14.6 1.0
CB E:PRO286 3.8 16.8 1.0
CE2 E:TYR223 3.8 16.4 1.0
N E:HIS242 3.9 15.3 1.0
CZ E:TYR223 3.9 16.7 1.0
CB E:ALA241 4.1 15.6 1.0
CG1 E:VAL204 4.1 16.2 1.0
C E:GLY243 4.2 15.7 1.0
CG E:PRO286 4.3 16.6 1.0
C E:HIS242 4.3 15.7 1.0
CZ E:ARG211 4.4 13.3 1.0
CD E:PRO286 4.5 17.2 1.0
O E:TRP209 4.5 12.4 1.0
N E:SER244 4.6 15.3 1.0
CA E:HIS242 4.6 15.4 1.0
CA E:PRO286 4.6 16.6 1.0
N E:ALA241 4.8 15.4 1.0
N E:PRO286 4.8 17.0 1.0
NH2 E:ARG211 4.9 13.8 1.0
N E:TRP209 5.0 14.2 1.0
O E:GLY243 5.0 16.6 1.0

Chlorine binding site 6 out of 6 in 5g5o

Go back to Chlorine Binding Sites List in 5g5o
Chlorine binding site 6 out of 6 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Native within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl1376

b:16.9
occ:1.00
 OH F:TYR223 3.0 15.5 1.0
NH1 F:ARG211 3.2 17.7 1.0
O F:HOH2124 3.2 18.0 1.0
O F:HOH2126 3.3 11.3 1.0
N F:GLY243 3.3 16.5 1.0
C F:ALA241 3.5 16.9 1.0
CA F:ALA241 3.6 17.4 1.0
CB F:PRO286 3.7 16.4 1.0
CA F:GLY243 3.8 15.9 1.0
N F:HIS242 3.8 16.7 1.0
CE2 F:TYR223 3.8 16.4 1.0
CZ F:TYR223 3.9 16.1 1.0
O F:ALA241 4.0 16.2 1.0
CG1 F:VAL204 4.1 17.3 1.0
CB F:ALA241 4.1 16.9 1.0
CG F:PRO286 4.2 16.8 1.0
C F:HIS242 4.4 17.0 1.0
C F:GLY243 4.4 15.3 1.0
CD F:PRO286 4.4 17.9 1.0
CZ F:ARG211 4.4 18.6 1.0
N F:SER244 4.5 14.0 1.0
CA F:HIS242 4.6 17.1 1.0
O F:TRP209 4.6 15.4 1.0
CA F:PRO286 4.6 16.4 1.0
N F:PRO286 4.8 16.9 1.0
N F:ALA241 4.9 18.1 1.0
NH2 F:ARG211 4.9 19.6 1.0
N F:TRP209 5.0 15.1 1.0

Reference:

R.Menendez-Conejero, T.H.Nguyen, A.K.Singh, G.N.Condezo, R.E.Marschang, M.J.Van Raaij, C.San Martin. Structure of A Reptilian Adenovirus Reveals A Phage Tailspike Fold Stabilizing A Vertebrate Virus Capsid. Structure V. 25 1562 2017.
ISSN: ISSN 0969-2126
PubMed: 28943338
DOI: 10.1016/J.STR.2017.08.007
Page generated: Fri Jul 26 08:21:38 2024

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