Chlorine in PDB 5c69: Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm

The structure of Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm, PDB code: 5c69 was solved by J.S.Mclellan, J.P.M.Langedijk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.54 / 2.30
Space group	P 41 3 2
Cell size a, b, c (Å), α, β, γ (°)	167.820, 167.820, 167.820, 90.00, 90.00, 90.00
R / Rfree (%)	18 / 21.7

The binding sites of Chlorine atom in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm (pdb code 5c69). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm, PDB code: 5c69:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm


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 Prefusion-Stabilized Rsv F Variant Pr-Dm within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl610 b:48.5 occ:0.50 N A:ILE190 3.2 58.2 1.0 CA A:ASN189 3.6 60.2 1.0 CB A:ASN189 3.9 70.3 1.0 CG2 A:ILE190 3.9 56.5 1.0 C A:ASN189 3.9 62.4 1.0 CB A:ILE190 4.0 54.8 1.0 CA A:ILE190 4.2 57.3 1.0 CE A:LYS75 4.2 54.4 1.0 OE1 A:GLU191 4.4 60.1 1.0 NZ A:LYS75 4.5 57.4 1.0 CD A:LYS75 4.5 52.2 1.0 N A:ASN189 4.9 67.9 1.0 O A:PRO188 5.0 60.7 1.0

Chlorine binding site 2 out of 5 in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm


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 Prefusion-Stabilized Rsv F Variant Pr-Dm within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl611 b:41.7 occ:1.00 O A:HOH782 3.4 38.2 1.0 O A:HOH857 3.4 67.2 1.0 NE1 A:TRP52 3.5 32.0 1.0 CD1 A:TRP52 3.8 33.5 1.0 O A:SER119 3.9 35.3 1.0 CE A:MET343 4.1 39.1 1.0 O A:ALA120 4.4 38.8 1.0 C A:SER119 4.6 35.7 1.0 CA A:ALA120 4.6 38.8 1.0 CE2 A:TRP52 4.7 32.2 1.0 C A:ALA120 4.8 37.4 1.0 NH2 A:ARG49 4.8 31.3 1.0

Chlorine binding site 3 out of 5 in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm


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 Prefusion-Stabilized Rsv F Variant Pr-Dm within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl612 b:82.8 occ:1.00 NE1 A:TRP314 3.2 31.3 1.0 NZ A:LYS288 3.2 31.6 1.0 O A:ALA328 3.5 55.2 1.0 CE A:LYS288 3.8 31.8 1.0 CE2 A:TRP314 4.1 32.8 1.0 CD1 A:TRP314 4.1 30.6 1.0 CD A:LYS288 4.2 31.9 1.0 O A:CYS331 4.3 47.7 1.0 CG2 A:VAL333 4.3 48.6 1.0 C A:ALA328 4.4 54.1 1.0 CZ2 A:TRP314 4.4 32.5 1.0 CB A:ALA328 4.5 45.6 1.0 O A:HOH724 4.9 50.1 1.0

Chlorine binding site 4 out of 5 in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm


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 Prefusion-Stabilized Rsv F Variant Pr-Dm within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl613 b:94.8 occ:1.00 N A:GLU436 3.3 58.8 1.0 NE2 A:GLN435 3.6 64.6 1.0 CA A:GLN435 3.9 56.6 1.0 CB A:GLU436 3.9 69.6 1.0 C A:GLN435 4.1 56.7 1.0 CA A:GLU436 4.3 62.2 1.0 CD A:GLN435 4.3 63.7 1.0 O A:LYS434 4.5 55.8 1.0 CB A:GLN435 4.7 58.1 1.0 CG A:GLN435 4.7 60.8 1.0 N A:GLN435 4.9 53.0 1.0 OE1 A:GLN435 4.9 65.5 1.0

Chlorine binding site 5 out of 5 in the Crystal Structure of Prefusion-Stabilized Rsv F Variant Pr-Dm


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 Prefusion-Stabilized Rsv F Variant Pr-Dm within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl614 b:0.9 occ:1.00 OG A:SER475 3.9 92.1 1.0 CB A:PRO457 4.0 57.8 1.0 CA A:PRO457 4.1 58.6 1.0 CE A:LYS471 4.4 79.6 1.0 N A:PRO457 4.6 57.8 1.0 CG A:LYS471 4.8 75.2 1.0 O A:VAL455 4.9 65.4 1.0 CD A:LYS471 4.9 75.9 1.0

A.Krarup, D.Truan, P.Furmanova-Hollenstein, L.Bogaert, P.Bouchier, I.J.Bisschop, M.N.Widjojoatmodjo, R.Zahn, H.Schuitemaker, J.S.Mclellan, J.P.Langedijk. A Highly Stable Prefusion Rsv F Vaccine Derived From Structural Analysis of the Fusion Mechanism. Nat Commun V. 6 8143 2015.
ISSN: ESSN 2041-1723
PubMed: 26333350
DOI: 10.1038/NCOMMS9143