SMTL ID : 4o0p.1

Crystal Structure of D. radiodurans Bacteriophytochrome Photosensory Core Module in its Dark Form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.80 Å

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(Covalent)

LBV.1: 21 residues within 4Å: Chain A: T.35, C.38, E.41, I.43, M.188, Y.190, F.217, S.220, D.221, I.222, P.223, A.226, Y.230, R.268, M.273, H.274, Y.277, M.281, S.286, S.288, H.304 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.43, A:F.217, A:F.217, A:P.223, A:A.226, A:Y.277 Hydrogen bonds: A:D.221, A:D.221, A:Y.230, A:H.274, A:S.286, A:S.288 Salt bridges: A:R.268, A:H.274 pi-Stacking: A:H.274 LBV.2: 23 residues within 4Å: Chain B: T.35, C.38, I.43, M.188, Y.190, V.200, F.217, S.220, D.221, I.222, P.223, Y.230, R.268, T.270, S.271, M.273, H.274, Y.277, L.278, S.286, L.287, S.288, H.304 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:I.43, B:Y.190, B:V.200, B:F.217, B:F.217, B:I.222, B:P.223, B:T.270 Hydrogen bonds: B:D.221, B:D.221, B:Y.230, B:S.271, B:S.286, B:S.288 Salt bridges: B:R.268, B:H.274 pi-Stacking: B:H.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Takala, H. et al., Signal amplification and transduction in phytochrome photosensors. Nature (2014)

Release Date

2014-05-07

Peptides

Bacteriophytochrome: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bacteriophytochrome

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