Chlorine in PDB 7pnc: Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography

The structure of Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography, PDB code: 7pnc was solved by R.Bosman, G.Ortolani, G.Branden, R.Neutze, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.44 / 2.20
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	89.75, 131.7, 51, 90, 90, 90
R / Rfree (%)	18.3 / 20.1

The binding sites of Chlorine atom in the Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography (pdb code 7pnc). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography, PDB code: 7pnc:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl302 b:49.0 occ:1.00 H A:PHE69 2.5 46.4 1.0 HH A:TYR73 2.6 41.9 1.0 HH11 A:ARG72 2.7 32.8 1.0 HE2 A:TYR73 2.8 34.5 1.0 O A:HOH426 2.9 64.2 1.0 HA A:VAL68 3.0 57.0 1.0 HD2 A:PHE69 3.0 42.7 1.0 NH1 A:ARG72 3.1 27.4 1.0 HH12 A:ARG72 3.2 32.8 1.0 O A:HOH419 3.4 68.9 1.0 N A:PHE69 3.4 38.6 1.0 OH A:TYR73 3.4 34.9 1.0 HG3 A:PRO183 3.4 48.0 1.0 HD2 A:ARG72 3.5 30.1 1.0 HG13 A:VAL68 3.6 64.1 1.0 CE2 A:TYR73 3.6 28.7 1.0 HG22 A:VAL68 3.6 67.2 1.0 HB2 A:PHE69 3.6 37.7 1.0 CD2 A:PHE69 3.8 35.6 1.0 CA A:VAL68 3.9 47.5 1.0 CZ A:TYR73 3.9 29.7 1.0 C A:VAL68 4.1 44.3 1.0 CZ A:ARG72 4.2 28.1 1.0 CB A:PHE69 4.3 31.4 1.0 CG A:PRO183 4.3 40.0 1.0 HG2 A:PRO183 4.3 48.0 1.0 CA A:PHE69 4.3 36.9 1.0 CD A:ARG72 4.4 25.0 1.0 HB1 A:ALA116 4.4 46.3 1.0 CG2 A:VAL68 4.4 56.0 1.0 CG1 A:VAL68 4.4 53.4 1.0 O A:THR67 4.4 38.4 1.0 CB A:VAL68 4.4 52.1 1.0 CG A:PHE69 4.5 36.9 1.0 O A:PHE69 4.5 37.2 1.0 HD3 A:ARG72 4.5 30.1 1.0 NE A:ARG72 4.7 22.0 1.0 HG23 A:VAL68 4.7 67.2 1.0 HE2 A:PHE69 4.7 42.8 1.0 HD3 A:PRO183 4.7 49.0 1.0 O A:HOH408 4.8 36.0 1.0 CE2 A:PHE69 4.8 35.7 1.0 CD2 A:TYR73 4.8 29.6 1.0 C A:PHE69 4.8 34.3 1.0 HG11 A:VAL68 4.9 64.1 1.0 HD2 A:TYR73 4.9 35.6 1.0 N A:VAL68 5.0 42.9 1.0 HB3 A:ARG72 5.0 35.2 1.0

Chlorine binding site 2 out of 2 in the Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Dark State Structure of Sensory Rhodopsin II Solved By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl317 b:92.3 occ:1.00 O A:HOH403 2.3 87.7 1.0 H8'3 A:BOG304 2.7 95.1 1.0 H8'2 A:BOG304 2.7 95.1 1.0 C8' A:BOG304 3.0 79.2 1.0 H8'1 A:BOG304 3.3 95.1 1.0 HG12 A:VAL198 3.7 32.2 1.0 HB2 A:TYR199 3.7 25.0 1.0 H3 A:MPG311 3.8 140.9 1.0 HA A:TYR199 4.1 26.0 1.0 HD1 A:TYR199 4.2 24.1 1.0 HD13 A:LEU202 4.4 35.4 1.0 C7' A:BOG304 4.4 81.2 1.0 HB A:VAL198 4.5 27.9 1.0 O3 A:MPG311 4.5 117.4 1.0 CB A:TYR199 4.5 20.8 1.0 H A:TYR199 4.5 22.1 1.0 CG1 A:VAL198 4.5 26.8 1.0 H7'2 A:BOG304 4.5 97.5 1.0 O A:ALA195 4.6 21.1 1.0 N A:TYR199 4.6 18.4 1.0 CA A:TYR199 4.6 21.7 1.0 HD13 A:LEU10 4.7 50.6 1.0 HG11 A:VAL198 4.7 32.2 1.0 HD22 A:LEU7 4.8 41.6 1.0 H7'1 A:BOG304 4.9 97.5 1.0 H211 A:MPG311 5.0 140.9 1.0 CD1 A:TYR199 5.0 20.1 1.0

R.Bosman, G.Ortolani, G.Branden, R.Neutze. Structural Basis of the Prolonged Photocycle of Sensory Rhodopsin II Revealed By Serial Millisecond Crystallography To Be Published.