SMTL ID : 6ftd.1 (1 other biounit)

Deinococcus radiodurans BphP PAS-GAF H290T mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 3 residues within 4Å: Chain A: L.167, R.168, I.201 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.168, A:R.168 Salt bridges: A:R.168 ACT.2: 3 residues within 4Å: Chain A: T.197, R.216, F.217 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.197, A:R.216 Hydrogen bonds: A:R.216 ACT.3: 5 residues within 4Å: Chain A: D.185, R.186, T.304, H.305, Q.306 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.185 Hydrogen bonds: A:T.304 Salt bridges: A:R.186

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 3 residues within 4Å: Chain A: I.33, P.272, Q.276 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.276

1 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.5: 24 residues within 4Å: Chain A: T.34, T.35, C.38, I.43, M.188, Y.190, F.212, F.217, S.220, D.221, I.222, P.223, A.226, Y.230, R.268, T.270, S.271, M.273, H.274, Y.277, S.286, L.287, S.288, T.304 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:I.43, A:I.43, A:Y.190, A:F.212, A:F.217, A:F.217, A:I.222, A:I.222, A:P.223, A:A.226, A:Y.230, A:M.273, A:H.274, A:Y.277 Hydrogen bonds: A:D.221, A:D.221, A:Y.230, A:Y.230, A:S.271 Water bridges: A:R.268, A:R.268, A:H.274, A:H.274, A:L.287, A:L.287 Salt bridges: A:R.268, A:H.274 pi-Stacking: A:H.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lenngren, N. et al., Coordination of the biliverdin D-ring in bacteriophytochromes. Phys Chem Chem Phys (2018)

Release Date

2018-07-18

Peptides

Bacteriophytochrome: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bacteriophytochrome

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