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Chlorine in PDB 5nop: Structure of Mojiang Virus Attachment Glycoprotein

Protein crystallography data

The structure of Structure of Mojiang Virus Attachment Glycoprotein, PDB code: 5nop was solved by I.R.Rissanen, A.A.Ahmed, S.Beaty, K.Azarm, P.Hong, S.Nambulli, P.W.Duprex, B.Lee, T.A.Bowden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.33 / 1.94
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.040, 102.310, 162.060, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.2

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of Mojiang Virus Attachment Glycoprotein (pdb code 5nop). 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 Mojiang Virus Attachment Glycoprotein, PDB code: 5nop:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 5nop

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Chlorine binding site 1 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl701

b:29.9
occ:1.00
 N A:SER422 3.3 27.4 1.0
CA A:ASP419 3.4 15.4 1.0
ND2 A:ASN359 3.5 31.1 1.0
CB A:SER422 3.6 22.9 1.0
C A:ASP419 3.6 19.4 1.0
N A:ALA421 3.8 28.5 1.0
O A:ASP419 3.9 19.8 1.0
CB A:ASP419 3.9 20.7 1.0
CA A:SER422 4.0 22.0 1.0
CB A:ALA421 4.0 36.5 1.0
OG A:SER422 4.0 25.5 1.0
C A:ALA421 4.0 31.8 1.0
N A:LEU420 4.1 24.8 1.0
CA A:ALA421 4.1 27.5 1.0
OD1 A:ASP419 4.5 27.4 1.0
C A:LEU420 4.5 24.4 1.0
CG A:ASN359 4.5 33.0 1.0
CG A:ASP419 4.6 27.0 1.0
N A:ASP419 4.6 21.6 1.0
OD1 A:ASN359 4.7 30.6 1.0
CA A:LEU420 5.0 21.6 1.0

Chlorine binding site 2 out of 6 in 5nop

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Chlorine binding site 2 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl702

b:24.6
occ:1.00
 O A:HOH862 3.0 15.1 1.0
O A:HOH1084 3.0 29.9 1.0
O A:HOH974 3.1 12.9 1.0
N A:ILE487 3.3 13.2 1.0
CA A:PRO486 3.6 12.6 1.0
O A:HOH907 3.7 28.6 1.0
CB A:PRO486 3.8 14.6 1.0
O A:ILE487 3.9 12.7 1.0
CZ A:PHE539 3.9 13.8 1.0
C A:PRO486 4.0 14.7 1.0
CE A:LYS489 4.2 34.8 1.0
NZ A:LYS489 4.3 38.0 1.0
CA A:ILE487 4.3 13.6 1.0
CE2 A:TYR526 4.3 13.3 1.0
CA A:GLY528 4.5 9.5 1.0
O A:HOH1047 4.5 36.0 1.0
C A:ILE487 4.6 13.6 1.0
CB A:ILE487 4.6 13.9 1.0
OD1 A:ASP485 4.6 25.3 1.0
CE1 A:PHE539 4.6 16.9 1.0
O A:HOH1285 4.7 29.1 1.0
CE2 A:PHE539 4.8 14.8 1.0
CB A:ASP485 4.9 18.2 1.0
N A:PRO486 4.9 14.0 1.0
OH A:TYR526 4.9 13.4 1.0
O A:HOH987 4.9 38.5 1.0

Chlorine binding site 3 out of 6 in 5nop

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Chlorine binding site 3 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl703

b:45.5
occ:1.00
 O A:PHE375 3.2 20.0 1.0
N A:PHE375 3.4 16.0 1.0
CD1 A:PHE375 3.8 16.2 1.0
CE1 A:PHE375 3.8 13.2 1.0
CA A:SER374 4.0 21.3 1.0
CG A:PHE375 4.1 12.9 1.0
CZ A:PHE375 4.1 17.4 1.0
C A:PHE375 4.1 19.2 1.0
C A:SER374 4.2 18.1 1.0
CA A:PHE375 4.3 13.6 1.0
CB A:SER374 4.3 26.3 1.0
OD2 A:ASP397 4.3 16.7 1.0
CD2 A:PHE375 4.4 14.6 1.0
CE2 A:PHE375 4.4 15.3 1.0
O A:HOH839 4.7 23.4 1.0
CG A:ASP397 4.7 14.4 1.0
CB A:PHE375 4.8 15.7 1.0

Chlorine binding site 4 out of 6 in 5nop

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Chlorine binding site 4 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl701

b:41.4
occ:1.00
 N B:SER422 3.1 22.4 1.0
ND2 B:ASN359 3.2 21.8 1.0
CA B:ASP419 3.3 25.4 1.0
CB B:SER422 3.3 27.8 1.0
C B:ASP419 3.4 22.3 1.0
CB B:ASP419 3.5 21.7 1.0
O B:ASP419 3.6 23.1 1.0
CA B:SER422 3.7 22.4 1.0
N B:ALA421 3.8 20.2 1.0
OG B:SER422 3.9 23.5 1.0
C B:ALA421 3.9 27.5 1.0
CB B:ALA421 4.1 21.4 1.0
OD1 B:ASP419 4.1 39.0 1.0
N B:LEU420 4.1 22.3 1.0
CG B:ASP419 4.1 37.8 1.0
CA B:ALA421 4.1 24.1 1.0
CG B:ASN359 4.3 23.1 1.0
OD1 B:ASN359 4.5 25.8 1.0
C B:LEU420 4.5 21.1 1.0
O B:HOH1053 4.5 39.1 1.0
N B:ASP419 4.6 21.7 1.0
O B:ALA421 4.9 28.6 1.0
CA B:LEU420 5.0 18.7 1.0

Chlorine binding site 5 out of 6 in 5nop

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Chlorine binding site 5 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl702

b:50.4
occ:1.00
 O B:PHE375 3.3 27.4 1.0
N B:PHE375 3.5 28.8 1.0
O B:HOH1175 3.7 36.9 1.0
CD1 B:PHE375 4.0 21.7 1.0
CE1 B:PHE375 4.0 21.9 1.0
CA B:SER374 4.0 36.1 1.0
CB B:SER374 4.1 41.2 1.0
C B:PHE375 4.2 21.4 1.0
CG B:PHE375 4.3 24.9 1.0
C B:SER374 4.3 33.4 1.0
CZ B:PHE375 4.3 20.9 1.0
CA B:PHE375 4.4 27.7 1.0
CG B:GLU406 4.4 71.0 1.0
CD2 B:PHE375 4.6 18.3 1.0
CE2 B:PHE375 4.6 17.9 1.0
OD2 B:ASP397 4.6 28.6 1.0
O B:HOH858 4.8 28.3 1.0
CE B:MET401 4.8 27.9 1.0
CG B:ASP397 4.9 21.7 1.0
CB B:PHE375 4.9 21.0 1.0

Chlorine binding site 6 out of 6 in 5nop

Go back to Chlorine Binding Sites List in 5nop
Chlorine binding site 6 out of 6 in the Structure of Mojiang Virus Attachment Glycoprotein


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of Mojiang Virus Attachment Glycoprotein within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl703

b:22.4
occ:1.00
 O B:HOH977 2.9 19.0 1.0
O B:HOH861 3.2 15.7 1.0
N B:ILE487 3.3 14.8 1.0
CA B:PRO486 3.5 13.0 1.0
O B:HOH1067 3.7 32.0 1.0
CB B:PRO486 3.7 11.4 1.0
O B:ILE487 3.8 15.8 1.0
CZ B:PHE539 3.9 18.4 1.0
C B:PRO486 3.9 14.4 1.0
CE B:LYS489 4.3 30.9 1.0
CA B:ILE487 4.3 11.9 1.0
NZ B:LYS489 4.4 41.1 1.0
CE2 B:TYR526 4.4 12.3 1.0
OD1 B:ASP485 4.4 25.1 1.0
CA B:GLY528 4.4 11.8 1.0
C B:ILE487 4.5 15.8 1.0
CB B:ILE487 4.5 15.5 1.0
CE2 B:PHE539 4.6 17.3 1.0
CE1 B:PHE539 4.7 21.4 1.0
CB B:ASP485 4.8 20.4 1.0
N B:PRO486 4.8 11.0 1.0
CG1 B:ILE487 4.9 14.8 1.0

Reference:

I.Rissanen, A.A.Ahmed, K.Azarm, S.Beaty, P.Hong, S.Nambulli, W.P.Duprex, B.Lee, T.A.Bowden. Idiosyncratic Mojiang Virus Attachment Glycoprotein Directs A Host-Cell Entry Pathway Distinct From Genetically Related Henipaviruses. Nat Commun V. 8 16060 2017.
ISSN: ESSN 2041-1723
PubMed: 28699636
DOI: 10.1038/NCOMMS16060
Page generated: Fri Jul 26 13:47:25 2024

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