SMTL ID : 9rcc.1

PrPfr hybrid state of the Pseudomonas aeruginosa bacteriophytochrome / PaBphP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x LBV: 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid(Non-covalent)

LBV.1: 22 residues within 4Å: Chain A: Y.163, Y.190, S.193, D.194, I.195, P.196, A.199, Y.203, R.241, V.243, S.244, I.246, H.247, Y.250, L.251, M.254, S.259, S.261, L.273, H.277, L.454, P.456 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:Y.163, A:Y.190, A:Y.190, A:I.195, A:P.196, A:A.199, A:Y.203, A:V.243, A:I.246, A:H.247, A:L.273, A:L.454, A:P.456 Hydrogen bonds: A:D.194, A:D.194, A:Y.203, A:S.244, A:S.259, A:S.261 Salt bridges: A:R.241, A:H.247 pi-Stacking: A:H.247, A:Y.250 LBV.2: 23 residues within 4Å: Chain B: C.12, E.13, Y.163, Q.188, Y.190, S.193, D.194, I.195, P.196, A.199, Y.203, R.209, V.243, S.244, I.246, H.247, Y.250, M.254, L.273, S.275, L.454, P.456, S.459 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:Y.163, B:Q.188, B:I.195, B:I.195, B:P.196, B:A.199, B:Y.203, B:I.246, B:Y.250, B:L.273, B:L.454, B:P.456 Hydrogen bonds: B:D.194, B:D.194, B:D.194, B:Y.203, B:S.275, B:S.459 Salt bridges: B:R.209, B:H.247, B:H.277

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bodizs, S.A. et al., Chemical mechanism of allosteric and asymmetric dark reversion in a bacterial phytochrome uncovered by cryo-EM. Biorxiv (2025)

Release Date

2025-09-03

Peptides

Bacteriophytochrome: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bacteriophytochrome