Bromine in PDB 6umz: Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore

The structure of Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore, PDB code: 6umz was solved by C.-Y.Lin, M.G.Romei, S.G.Boxer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.05 / 0.90
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	65.767, 65.767, 40.577, 90.00, 90.00, 120.00
R / Rfree (%)	12.7 / 13.7

The binding sites of Bromine atom in the Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore (pdb code 6umz). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total only one binding site of Bromine was determined in the Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore, PDB code: 6umz:

Bromine binding site 1 out of 1 in the Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of Photoactive Yellow Protein (Pyp); 3-Br-P-Coumaric Acid Chromophore within 5.0Å range: probe atom residue distance (Å) B Occ A:Br201 b:12.6 occ:1.00 BR A:QBV201 0.0 12.6 1.0 C3' A:QBV201 1.9 8.4 1.0 HG11 A:VAL66 2.1 9.7 0.1 HG12 A:VAL66 2.4 9.7 0.1 CG1 A:VAL66 2.6 8.1 0.1 C2' A:QBV201 2.9 8.1 1.0 C4' A:QBV201 2.9 7.0 1.0 HG2 A:ARG52 2.9 16.9 1.0 HG13 A:VAL66 2.9 9.7 0.1 H2' A:QBV201 2.9 8.3 1.0 O4' A:QBV201 3.1 7.4 1.0 HG21 A:VAL66 3.2 13.2 0.9 HE2 A:TYR42 3.2 7.7 1.0 HB A:VAL66 3.3 13.3 0.9 HD3 A:ARG52 3.3 17.8 1.0 HG11 A:VAL57 3.4 16.5 1.0 OH A:TYR42 3.4 6.9 1.0 HG23 A:VAL66 3.5 13.2 0.9 CG A:ARG52 3.6 14.1 1.0 HB2 A:ARG52 3.7 14.6 1.0 CG2 A:VAL66 3.7 11.0 0.9 HE1 A:PHE62 3.7 10.3 1.0 CE2 A:TYR42 3.8 6.4 1.0 CD A:ARG52 3.8 14.8 1.0 HE A:ARG52 3.9 19.6 1.0 CZ A:TYR42 3.9 6.2 1.0 CB A:VAL66 3.9 11.1 0.9 CB A:VAL66 4.0 8.3 0.1 NE A:ARG52 4.0 16.3 1.0 HG1 A:THR50 4.0 10.7 1.0 CB A:ARG52 4.1 12.2 1.0 HB A:VAL66 4.1 9.9 0.1 C5' A:QBV201 4.1 6.8 1.0 C1' A:QBV201 4.1 6.6 1.0 CG1 A:VAL57 4.2 13.8 1.0 HB3 A:ARG52 4.2 14.6 1.0 HG12 A:VAL57 4.2 16.5 1.0 HG21 A:VAL66 4.4 10.1 0.1 HD1 A:PHE62 4.4 9.3 1.0 CE1 A:PHE62 4.4 8.6 1.0 HG11 A:VAL66 4.4 16.9 0.9 HG3 A:ARG52 4.5 16.9 1.0 HB2 A:ALA67 4.5 7.8 1.0 HB A:VAL57 4.5 13.6 1.0 HD13 A:ILE39 4.5 11.3 1.0 HD11 A:ILE39 4.6 11.3 1.0 HG22 A:VAL66 4.6 13.2 0.9 HG21 A:VAL57 4.6 14.2 1.0 C6' A:QBV201 4.6 7.3 1.0 CG2 A:VAL66 4.7 8.4 0.1 HB A:THR50 4.7 11.0 1.0 HD2 A:ARG52 4.7 17.8 1.0 OG1 A:THR50 4.7 8.9 1.0 O A:VAL66 4.8 7.5 1.0 CZ A:ARG52 4.8 17.5 1.0 CD1 A:PHE62 4.8 7.7 1.0 CG1 A:VAL66 4.8 14.1 0.9 HG21 A:THR50 4.8 11.3 1.0 HG22 A:VAL66 4.8 10.1 0.1 CB A:VAL57 4.9 11.4 1.0 HG13 A:VAL57 4.9 16.5 1.0 CD2 A:TYR42 4.9 6.4 1.0 C A:VAL66 5.0 7.1 1.0 CD1 A:ILE39 5.0 9.4 1.0 H1 A:QBV201 5.0 8.2 1.0

M.G.Romei, C.Y.Lin, S.G.Boxer. Structural and Spectroscopic Characterization of Photoactive Yellow Protein and Photoswitchable Fluorescent Protein Constructs Containing Heavy Atoms. J Photochem Photobiol A Chem V. 401 12738 2020.
ISSN: ISSN 1010-6030
PubMed: 32753830
DOI: 10.1016/J.JPHOTOCHEM.2020.112738