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Chlorine in PDB 5vao: Crystal Structure of EVP30 C-Terminus and Enp Peptide

Protein crystallography data

The structure of Crystal Structure of EVP30 C-Terminus and Enp Peptide, PDB code: 5vao was solved by W.Xu, D.W.Leung, G.K.Amarasinghe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 105.55 / 2.56
Space group I 41 2 2
Cell size a, b, c (Å), α, β, γ (°) 139.478, 139.478, 161.467, 90.00, 90.00, 90.00
R / Rfree (%) 18.3 / 22.5

Other elements in 5vao:

The structure of Crystal Structure of EVP30 C-Terminus and Enp Peptide also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of EVP30 C-Terminus and Enp Peptide (pdb code 5vao). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the Crystal Structure of EVP30 C-Terminus and Enp Peptide, PDB code: 5vao:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Chlorine binding site 1 out of 8 in 5vao

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Chlorine binding site 1 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl303

b:45.5
occ:1.00
 N B:ILE142 3.0 27.5 1.0
CA B:LYS141 3.7 36.1 1.0
CG1 B:ILE142 3.8 27.0 1.0
C B:LYS141 3.8 32.0 1.0
CB B:ILE142 3.9 25.6 1.0
CA B:ILE142 4.0 25.8 1.0
O B:PRO140 4.1 36.1 1.0
CB B:LYS141 4.4 43.5 1.0
C B:ILE142 4.7 25.2 1.0
N B:LYS141 4.7 38.1 1.0
CG B:LYS141 4.9 60.8 1.0
C B:PRO140 4.9 36.8 1.0
CD1 B:ILE142 4.9 26.8 1.0
O B:ILE142 5.0 23.6 1.0

Chlorine binding site 2 out of 8 in 5vao

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Chlorine binding site 2 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl304

b:68.5
occ:1.00
 O B:TRP227 3.8 27.4 1.0
CD1 B:LEU235 3.8 29.7 1.0
O B:TRP230 4.1 30.0 1.0
CZ2 B:TRP227 4.2 29.6 1.0
CE2 B:TRP227 4.2 28.7 1.0
CH2 B:TRP227 4.3 32.3 1.0
N B:ARG232 4.4 25.6 1.0
CD2 B:TRP227 4.4 28.0 1.0
CA B:ARG232 4.5 23.3 1.0
CZ3 B:TRP227 4.5 29.8 1.0
CB B:ARG232 4.5 24.1 1.0
CE3 B:TRP227 4.5 27.9 1.0
NE1 B:TRP227 4.8 28.7 1.0
C B:ASP231 4.8 27.1 1.0
C B:TRP227 4.9 26.1 1.0

Chlorine binding site 3 out of 8 in 5vao

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Chlorine binding site 3 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl305

b:73.6
occ:1.00
 O B:SER187 4.1 23.7 1.0
SG B:CYS190 4.2 25.6 1.0
CB B:SER187 4.3 26.4 1.0
CA B:SER187 4.6 26.3 1.0
CB B:CYS190 4.6 25.1 1.0
CB B:ALA204 4.7 24.4 1.0
C B:SER187 4.7 24.8 1.0
N B:GLU191 4.9 27.3 1.0
CD2 B:LEU208 4.9 22.9 1.0
CB B:GLU191 4.9 32.1 1.0

Chlorine binding site 4 out of 8 in 5vao

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Chlorine binding site 4 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl302

b:82.5
occ:1.00
 O C:HOH408 2.8 43.9 1.0
CZ2 C:TRP227 3.7 51.0 1.0
CH2 C:TRP227 3.9 54.8 1.0
CE2 C:TRP227 4.1 51.5 1.0
OD1 C:ASP164 4.2 75.3 1.0
CZ3 C:TRP227 4.3 54.5 1.0
CB C:ARG232 4.4 56.4 1.0
CD1 C:LEU235 4.5 67.4 1.0
CD2 C:TRP227 4.5 49.7 1.0
CG C:ASP164 4.6 73.9 1.0
O C:TRP227 4.6 58.9 1.0
CE3 C:TRP227 4.6 55.8 1.0
CA C:ARG232 4.7 57.7 1.0
NE1 C:TRP227 4.7 49.6 1.0
OD2 C:ASP164 4.7 85.5 1.0
N C:ARG232 4.8 56.9 1.0
CG C:ARG232 4.9 61.9 1.0

Chlorine binding site 5 out of 8 in 5vao

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Chlorine binding site 5 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl303

b:64.9
occ:1.00
 CD1 D:LEU235 3.9 30.1 1.0
O D:TRP227 4.0 27.9 1.0
CZ2 D:TRP227 4.1 25.4 1.0
CE2 D:TRP227 4.2 24.5 1.0
O D:TRP230 4.3 32.9 1.0
CH2 D:TRP227 4.3 27.4 1.0
N D:ARG232 4.4 36.7 1.0
CA D:ARG232 4.5 35.1 1.0
CD2 D:TRP227 4.5 24.4 1.0
CB D:ARG232 4.5 34.3 1.0
CZ3 D:TRP227 4.5 26.6 1.0
CE3 D:TRP227 4.6 25.1 1.0
NE1 D:TRP227 4.8 23.7 1.0
C D:ASP231 4.9 33.3 1.0

Chlorine binding site 6 out of 8 in 5vao

Go back to Chlorine Binding Sites List in 5vao
Chlorine binding site 6 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl304

b:71.8
occ:1.00
 O D:THR161 3.4 62.1 1.0
O D:ILE162 3.9 34.1 1.0
NH2 D:ARG232 4.0 58.1 1.0
C D:THR161 4.1 41.1 1.0
C D:ILE162 4.4 35.0 1.0
CA D:THR161 4.6 40.0 1.0
CZ D:ARG232 4.7 52.2 1.0
O D:HOH408 4.7 39.3 1.0
CA D:GLU163 4.8 41.3 1.0
N D:GLU163 4.8 34.4 1.0
N D:ILE162 4.9 39.5 1.0

Chlorine binding site 7 out of 8 in 5vao

Go back to Chlorine Binding Sites List in 5vao
Chlorine binding site 7 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl305

b:87.5
occ:1.00
 O D:HOH403 3.6 32.1 1.0
CG D:GLU205 3.8 29.3 1.0
O D:HOH421 4.0 28.0 1.0
CD D:GLU205 4.1 30.2 1.0
OE2 D:GLU205 4.3 26.6 1.0
OE1 D:GLU205 4.6 35.8 1.0
CB D:GLU205 4.9 25.8 1.0

Chlorine binding site 8 out of 8 in 5vao

Go back to Chlorine Binding Sites List in 5vao
Chlorine binding site 8 out of 8 in the Crystal Structure of EVP30 C-Terminus and Enp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of EVP30 C-Terminus and Enp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl306

b:69.1
occ:1.00
 O D:LEU199 3.1 39.0 1.0
OE1 D:GLN201 4.2 60.2 1.0
C D:LEU199 4.4 37.8 1.0
CB D:LEU194 4.5 33.2 1.0
N D:GLN201 4.6 40.8 1.0
C D:LEU194 4.7 30.9 1.0
C D:GLY200 4.7 38.7 1.0
O D:LEU194 4.7 33.0 1.0
N D:ARG195 4.7 29.1 0.7
CA D:GLY200 4.7 40.9 1.0
CA D:ARG195 4.8 31.3 0.7
O D:HOH427 4.8 31.2 1.0
CG D:GLN201 4.8 54.8 1.0
CD D:GLN201 4.9 61.8 1.0

Reference:

W.Xu, P.Luthra, C.Wu, J.Batra, D.W.Leung, C.F.Basler, G.K.Amarasinghe. Ebola Virus VP30 and Nucleoprotein Interactions Modulate Viral Rna Synthesis. Nat Commun V. 8 15576 2017.
ISSN: ESSN 2041-1723
PubMed: 28593988
DOI: 10.1038/NCOMMS15576
Page generated: Fri Jul 26 18:42:22 2024

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