Chlorine in PDB 6jxf: Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0)

The structure of Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0), PDB code: 6jxf was solved by R.Nakashima, K.Sakurai, H.Shinoda, T.Matsuda, T.Nagai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.68 / 1.80
Space group	I 21 3
Cell size a, b, c (Å), α, β, γ (°)	161.711, 161.711, 161.711, 90.00, 90.00, 90.00
R / Rfree (%)	15.4 / 16.8

The binding sites of Chlorine atom in the Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0) (pdb code 6jxf). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0), PDB code: 6jxf:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl303 b:31.1 occ:1.00 O A:HOH461 3.0 25.5 1.0 O A:HOH562 3.1 34.0 1.0 N A:TRP62 3.2 22.4 1.0 CD1 A:TRP62 3.7 26.7 1.0 CA A:SER61 3.8 24.3 1.0 CB A:LYS142 3.9 32.3 1.0 CB A:TRP62 3.9 23.3 1.0 C A:SER61 4.0 22.6 1.0 CA A:TRP62 4.1 22.0 1.0 CG A:LYS142 4.2 33.3 1.0 OG A:SER61 4.2 24.4 1.0 O A:HOH523 4.2 41.2 1.0 CG A:TRP62 4.2 22.5 1.0 O A:HOH492 4.4 38.1 1.0 CB A:SER61 4.5 24.0 1.0 O A:HOH516 4.6 30.4 1.0 CD A:LYS142 4.6 44.2 1.0 N A:VAL63 4.7 21.9 1.0 CA A:LYS142 4.7 27.5 1.0 O A:LYS142 4.7 30.1 1.0 O A:MET60 4.7 24.6 1.0 N A:SER61 5.0 24.4 1.0 NE1 A:TRP62 5.0 26.4 1.0 C A:TRP62 5.0 21.7 1.0

Chlorine binding site 2 out of 3 in the Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl304 b:33.1 occ:1.00 O A:HOH467 3.1 39.7 1.0 NZ A:LYS198 3.2 47.5 1.0 N A:LYS198 3.2 25.8 1.0 N A:THR84 3.2 24.3 1.0 O A:HOH592 3.6 55.5 1.0 OG1 A:THR84 3.6 36.2 1.0 CA A:PRO197 3.7 23.8 1.0 CG A:LYS198 3.8 45.4 1.0 CA A:ILE83 3.8 23.9 1.0 CB A:THR84 3.9 32.0 1.0 C A:PRO197 3.9 23.4 1.0 C A:ILE83 4.0 24.6 1.0 CB A:LYS198 4.0 30.4 1.0 CG2 A:ILE83 4.1 26.2 1.0 CB A:PRO197 4.2 24.0 1.0 CA A:THR84 4.2 24.7 1.0 CA A:LYS198 4.2 28.9 1.0 O A:ASP82 4.3 31.4 1.0 CE A:LYS198 4.3 48.1 1.0 CB A:ILE83 4.5 24.6 1.0 CD A:LYS198 4.6 52.2 1.0 O A:GLN196 4.8 25.4 1.0 N A:ILE83 4.9 26.7 1.0 N A:PRO197 4.9 24.8 1.0 O A:HOH545 5.0 51.1 1.0 C A:ASP82 5.0 36.4 1.0

Chlorine binding site 3 out of 3 in the Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Photoswitchable Fluorescent Protein Gamillus, Off-State (PH7.0) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl305 b:35.3 occ:0.80 CE2 A:QYG70 0.9 43.0 0.2 CD2 A:QYG70 2.0 41.5 0.2 CZ A:QYG70 2.1 36.6 0.2 OH A:QYG70 2.7 28.3 0.2 O A:HOH543 3.0 23.6 0.8 CG2 A:QYG70 3.2 39.3 0.2 CE1 A:QYG70 3.2 40.6 0.2 O A:HOH543 3.3 20.0 0.2 NE2 A:HIS74 3.4 23.9 1.0 SG A:CYS184 3.5 31.5 1.0 CD1 A:QYG70 3.5 28.4 0.8 CD1 A:QYG70 3.6 39.4 0.2 NH2 A:ARG99 3.7 30.1 1.0 CD2 A:LEU164 3.7 29.7 1.0 CE1 A:HIS74 3.7 25.4 1.0 CB2 A:QYG70 3.9 26.7 0.8 O2 A:QYG70 4.1 26.6 0.2 CB A:LEU164 4.2 21.2 1.0 O2 A:QYG70 4.3 24.1 0.8 CG2 A:QYG70 4.3 25.7 0.8 CD A:GLN182 4.4 31.6 1.0 CB2 A:QYG70 4.5 33.7 0.2 CB A:CYS184 4.5 25.8 1.0 CE1 A:QYG70 4.5 33.2 0.8 CG1 A:VAL152 4.6 25.5 1.0 CG A:LEU164 4.6 28.8 1.0 NE2 A:GLN182 4.6 28.7 1.0 CD2 A:HIS74 4.6 23.8 1.0 CG A:GLN182 4.7 27.4 1.0 CZ A:ARG99 4.8 28.6 1.0 OE1 A:GLN182 4.8 28.9 1.0 C2 A:QYG70 4.9 26.8 0.2 CA2 A:QYG70 4.9 22.5 0.8 C2 A:QYG70 5.0 24.5 0.8 CG2 A:VAL152 5.0 25.5 1.0 CA2 A:QYG70 5.0 28.7 0.2

H.Shinoda, K.Lu, R.Nakashima, T.Wazawa, K.Noguchi, T.Matsuda, T.Nagai. Acid-Tolerant Reversibly Switchable Green Fluorescent Protein For Super-Resolution Imaging Under Acidic Conditions. Cell Chem Biol V. 26 1469 2019.
ISSN: ESSN 2451-9456
PubMed: 31422907
DOI: 10.1016/J.CHEMBIOL.2019.07.012