Chlorine in PDB 7vgv: Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla

The structure of Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla, PDB code: 7vgv was solved by T.Hosaka, E.Nango, T.Nakane, F.Luo, T.Kimura-Someya, M.Shirouzu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.46 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	68.4, 69.5, 231.4, 90, 90, 90
R / Rfree (%)	21 / 24.1

The binding sites of Chlorine atom in the Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla (pdb code 7vgv). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla, PDB code: 7vgv:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl302 b:51.6 occ:0.47 ND2 C:ASN98 2.5 52.5 1.0 NZ C:LYS235 2.8 50.7 1.0 O C:HOH420 3.2 45.8 1.0 CE C:LYS235 3.4 46.5 1.0 CD1 C:TRP99 3.6 44.6 1.0 NE1 C:TRP99 3.7 45.0 1.0 CG C:ASN98 3.8 69.8 1.0 C15 C:RET301 3.8 42.6 1.0 OG1 C:THR102 3.9 60.6 1.0 CB C:ALA61 4.1 48.5 1.0 CG2 C:ILE64 4.2 55.2 1.0 C14 C:RET301 4.2 40.8 1.0 CA C:ALA61 4.4 46.6 1.0 CB C:ASN98 4.4 52.2 1.0 CD C:LYS235 4.4 45.7 1.0 CG2 C:THR102 4.5 53.0 1.0 OD1 C:ASP231 4.6 44.1 1.0 CB C:THR102 4.7 52.4 1.0 OD1 C:ASN98 4.7 60.1 1.0 OD2 C:ASP231 4.8 46.6 1.0 CG C:ASP231 4.9 50.7 1.0 CG C:TRP99 5.0 51.0 1.0

Chlorine binding site 2 out of 2 in the Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Anion Free Form of Light-Driven Chloride Ion-Pumping Rhodopsin, Nm-R3, Structure Determined By Serial Femtosecond Crystallography at Sacla within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl303 b:92.5 occ:1.00 N C:LYS46 3.3 53.0 1.0 CD C:PRO45 3.5 65.4 1.0 CB C:LYS46 3.6 60.9 1.0 N C:PRO45 3.6 63.9 1.0 CG C:LYS46 3.7 65.2 1.0 CB C:ALA44 3.8 44.2 1.0 CB C:PRO45 4.0 62.8 1.0 CA C:LYS46 4.0 60.1 1.0 CG C:PRO45 4.1 64.7 1.0 C C:PRO45 4.1 56.7 1.0 CD C:LYS46 4.1 71.3 1.0 CA C:PRO45 4.1 58.2 1.0 C C:ALA44 4.2 64.7 1.0 CA C:ALA44 4.5 58.3 1.0 O C:ALA44 4.9 59.0 1.0

T.Hosaka, T.Nomura, M.Kubo, T.Nakane, L.Fangjia, S.I.Sekine, T.Ito, K.Murayama, K.Ihara, H.Ehara, K.Kashiwagi, K.Katsura, R.Akasaka, T.Hisano, T.Tanaka, R.Tanaka, T.Arima, A.Yamashita, M.Sugahara, H.Naitow, Y.Matsuura, S.Yoshizawa, K.Tono, S.Owada, O.Nureki, T.Kimura-Someya, S.Iwata, E.Nango, M.Shirouzu. Conformational Alterations in Unidirectional Ion Transport of A Light-Driven Chloride Pump Revealed Using X-Ray Free Electron Lasers. Proc.Natl.Acad.Sci.Usa V. 119 2022.
ISSN: ESSN 1091-6490
PubMed: 35197289
DOI: 10.1073/PNAS.2117433119