Chlorine in PDB 6saw: Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).

The structure of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State)., PDB code: 6saw was solved by G.Gourinchas, A.Winkler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	55.02 / 3.00
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	344.650, 344.650, 92.440, 90.00, 90.00, 120.00
R / Rfree (%)	19.7 / 22.9

The binding sites of Chlorine atom in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). (pdb code 6saw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State)., PDB code: 6saw:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Chlorine binding site 1 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl402 b:62.5 occ:1.00 NH1 A:ARG291 2.7 56.3 1.0 NH1 A:ARG295 3.2 49.9 1.0 NH1 A:ARG294 3.2 57.9 1.0 CG A:ARG291 3.8 48.1 1.0 CD2 A:LEU105 3.8 50.5 1.0 CD A:ARG294 4.0 51.9 1.0 CZ A:ARG291 4.0 51.6 1.0 NH2 A:ARG295 4.0 66.7 1.0 CZ A:ARG295 4.0 58.3 1.0 CD A:ARG291 4.1 50.1 1.0 CG1 A:VAL244 4.2 54.2 1.0 CZ A:ARG294 4.3 56.8 1.0 NE A:ARG291 4.5 52.4 1.0 CG2 A:VAL244 4.5 61.7 1.0 CB A:ARG291 4.5 44.8 1.0 NE A:ARG294 4.6 52.7 1.0 CD1 A:LEU105 4.8 49.3 1.0 CG A:LEU105 4.8 43.4 1.0 CA A:ARG291 4.9 47.5 1.0 OE2 A:GLU118 5.0 71.1 1.0

Chlorine binding site 2 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl402 b:60.4 occ:1.00 NH1 B:ARG291 2.8 59.8 1.0 NH1 B:ARG295 2.9 60.5 1.0 NH1 B:ARG294 3.1 54.4 1.0 CG B:ARG291 3.6 52.5 1.0 CD B:ARG294 3.6 52.2 1.0 CZ B:ARG295 3.8 62.7 1.0 NH2 B:ARG295 4.0 65.3 1.0 CZ B:ARG291 4.0 55.9 1.0 CD B:ARG291 4.1 50.1 1.0 CD2 B:LEU105 4.1 51.8 1.0 CZ B:ARG294 4.2 56.3 1.0 CG1 B:VAL244 4.2 48.1 1.0 CB B:ARG291 4.3 54.8 1.0 NE B:ARG294 4.3 56.3 1.0 NE B:ARG291 4.5 51.4 1.0 CA B:ARG291 4.6 55.1 1.0 CG2 B:VAL244 4.6 50.6 1.0 CB B:ARG294 4.8 54.1 1.0 CG B:ARG294 4.8 52.4 1.0

Chlorine binding site 3 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl402 b:67.3 occ:1.00 NH1 C:ARG295 2.9 60.0 1.0 NH1 C:ARG291 3.1 63.6 1.0 NH1 C:ARG294 3.4 61.6 1.0 CZ C:ARG295 3.8 62.4 1.0 NH2 C:ARG295 3.8 64.6 1.0 CG1 C:VAL244 3.9 58.9 1.0 CD C:ARG294 3.9 54.9 1.0 CD2 C:LEU105 4.0 53.0 1.0 CG C:ARG291 4.2 57.8 1.0 CZ C:ARG291 4.4 61.6 1.0 CZ C:ARG294 4.5 59.2 1.0 CD C:ARG291 4.5 53.5 1.0 CG2 C:VAL244 4.6 60.9 1.0 NE C:ARG294 4.7 55.0 1.0 CB C:ARG291 4.8 51.5 1.0 CB C:VAL244 4.9 58.0 1.0 NE C:ARG291 4.9 53.0 1.0

Chlorine binding site 4 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl402 b:76.3 occ:1.00 NH1 D:ARG295 2.7 60.6 1.0 NH1 D:ARG291 3.0 61.0 1.0 NH1 D:ARG294 3.3 54.8 1.0 CZ D:ARG295 3.6 66.2 1.0 NH2 D:ARG295 3.7 68.7 1.0 CG D:ARG291 3.9 54.2 1.0 CD D:ARG294 4.0 48.0 1.0 CZ D:ARG291 4.2 54.7 1.0 CD D:ARG291 4.3 53.8 1.0 CD2 D:LEU105 4.3 64.5 1.0 CG1 D:VAL244 4.4 56.0 1.0 CZ D:ARG294 4.4 54.0 1.0 CB D:ARG291 4.6 51.2 1.0 NE D:ARG294 4.7 52.5 1.0 NE D:ARG291 4.7 48.7 1.0 NE D:ARG295 4.8 66.3 1.0 CG2 D:VAL244 4.8 57.6 1.0 CA D:ARG291 4.8 54.2 1.0

Chlorine binding site 5 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl402 b:68.1 occ:1.00 NH1 E:ARG295 2.9 55.7 1.0 NH1 E:ARG291 3.0 59.2 1.0 NH1 E:ARG294 3.5 60.6 1.0 CZ E:ARG295 3.8 65.5 1.0 NH2 E:ARG295 3.9 64.3 1.0 CG E:ARG291 4.0 55.8 1.0 CD2 E:LEU105 4.0 50.3 1.0 CD E:ARG294 4.1 46.9 1.0 CG1 E:VAL244 4.1 59.9 1.0 CZ E:ARG291 4.3 56.2 1.0 CD E:ARG291 4.3 53.8 1.0 CG2 E:VAL244 4.4 64.0 1.0 CZ E:ARG294 4.6 56.7 1.0 CB E:ARG291 4.6 54.2 1.0 NE E:ARG291 4.7 55.2 1.0 NE E:ARG294 4.8 52.8 1.0 CD1 E:LEU105 4.9 54.2 1.0 CB E:VAL244 4.9 62.7 1.0 CA E:ARG291 5.0 50.8 1.0

Chlorine binding site 6 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ F:Cl402 b:66.5 occ:1.00 NH1 F:ARG295 2.8 62.4 1.0 NH1 F:ARG291 2.9 59.5 1.0 NH1 F:ARG294 3.4 55.5 1.0 NH2 F:ARG295 3.5 69.6 1.0 CZ F:ARG295 3.5 71.2 1.0 CG F:ARG291 3.7 55.2 1.0 CD F:ARG294 3.7 51.5 1.0 CZ F:ARG291 4.1 56.2 1.0 CD F:ARG291 4.1 53.6 1.0 CB F:ARG291 4.3 56.0 1.0 CD2 F:LEU105 4.4 63.5 1.0 CZ F:ARG294 4.4 56.0 1.0 NE F:ARG294 4.5 54.0 1.0 NE F:ARG291 4.5 54.4 1.0 CG1 F:VAL244 4.6 61.3 1.0 CG2 F:VAL244 4.6 64.6 1.0 CA F:ARG291 4.6 53.6 1.0 CB F:ARG294 4.8 52.2 1.0 NE F:ARG295 4.8 66.7 1.0 CG F:ARG294 4.9 50.8 1.0

Chlorine binding site 7 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ G:Cl402 b:65.0 occ:1.00 NH1 G:ARG291 3.0 68.2 1.0 NH1 G:ARG294 3.2 70.2 1.0 NH1 G:ARG295 3.3 55.2 1.0 CD2 G:LEU105 3.8 55.7 1.0 CD G:ARG294 3.9 57.5 1.0 CG1 G:VAL244 3.9 61.7 1.0 CG G:ARG291 4.1 62.6 1.0 CZ G:ARG295 4.2 63.8 1.0 CG2 G:VAL244 4.2 60.7 1.0 CZ G:ARG291 4.2 62.9 1.0 CZ G:ARG294 4.3 64.6 1.0 NH2 G:ARG295 4.3 62.7 1.0 CD G:ARG291 4.5 64.6 1.0 NE G:ARG294 4.6 58.5 1.0 CB G:VAL244 4.7 63.4 1.0 NE G:ARG291 4.8 62.5 1.0 CB G:ARG291 4.9 61.2 1.0 CG G:LEU105 4.9 57.7 1.0

Chlorine binding site 8 out of 8 in the Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Chromophore Binding Domain of Bacteriophytochrome Linked Diguanylyl Cyclase From Idiomarina Species A28L (Dimeric Pfr-Like State). within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl402 b:67.2 occ:1.00 NH1 H:ARG295 2.9 65.9 1.0 NH1 H:ARG291 3.2 59.8 1.0 NH1 H:ARG294 3.3 66.8 1.0 CD H:ARG294 3.7 59.6 1.0 CZ H:ARG295 3.8 72.6 1.0 NH2 H:ARG295 3.8 74.7 1.0 CD2 H:LEU105 3.9 58.4 1.0 CG1 H:VAL244 4.0 69.0 1.0 CG H:ARG291 4.0 60.0 1.0 CZ H:ARG294 4.3 64.8 1.0 CG2 H:VAL244 4.4 71.4 1.0 CZ H:ARG291 4.4 60.9 1.0 NE H:ARG294 4.5 62.2 1.0 CD H:ARG291 4.5 56.0 1.0 CB H:ARG291 4.7 55.0 1.0 CB H:ARG294 4.8 57.4 1.0 CB H:VAL244 4.8 71.6 1.0 CA H:ARG291 4.8 55.3 1.0 CG H:ARG294 4.9 54.1 1.0 NE H:ARG291 4.9 60.2 1.0

D.Buhrke, G.Gourinchas, M.Muller, N.Michael, P.Hildebrandt, A.Winkler. Distinct Chromophore-Protein Environments Enable Asymmetric Activation of A Bacteriophytochrome Activated Diguanylate Cyclase. J.Biol.Chem. 2019.
ISSN: ESSN 1083-351X
PubMed: 31801828
DOI: 10.1074/JBC.RA119.011915