SMTL ID : 6fht.1

Crystal structure of an artificial phytochrome regulated adenylate/guanylate cyclase in its dark adapted Pr form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 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: 24 residues within 4Å: Chain A: C.26, I.31, M.176, Y.178, F.200, F.205, S.208, D.209, I.210, P.211, A.214, Y.218, R.256, T.258, S.259, M.261, H.262, Y.265, S.274, L.275, S.276, L.288, H.292, P.467 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:I.31, A:I.31, A:F.200, A:F.205, A:F.205, A:D.209, A:I.210, A:I.210, A:P.211, A:A.214, A:Y.218, A:H.262, A:L.288, A:P.467 Hydrogen bonds: A:D.209, A:D.209, A:Y.218, A:S.259, A:S.274 Water bridges: A:R.256, A:H.262, A:H.262, A:L.275, A:L.275, A:H.292 Salt bridges: A:R.256, A:H.262 pi-Cation interactions: A:H.262 LBV.9: 25 residues within 4Å: Chain B: T.23, C.26, I.31, M.176, Y.178, F.200, F.205, S.208, D.209, I.210, P.211, A.214, Y.218, R.256, T.258, S.259, H.262, Y.265, M.269, S.274, L.275, S.276, L.288, H.292, P.467 30 PLIP interactions: 30 interactions with chain B Hydrophobic interactions: B:I.31, B:I.31, B:F.200, B:F.205, B:F.205, B:D.209, B:I.210, B:I.210, B:A.214, B:Y.218, B:H.262, B:Y.265, B:L.288, B:P.467 Hydrogen bonds: B:D.209, B:D.209, B:D.209, B:Y.218, B:S.259, B:S.274, B:S.276 Water bridges: B:R.256, B:R.256, B:L.275, B:L.275, B:H.292, B:R.468 Salt bridges: B:R.256, B:H.262 pi-Stacking: B:H.262

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: L.404, Q.494, R.497 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.494 Salt bridges: A:R.497 SO4.3: 4 residues within 4Å: Chain A: D.590, K.591, K.663 Chain B: R.519 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Water bridges: B:K.663, A:K.591 Salt bridges: B:R.519, B:K.663, A:K.591 SO4.4: 6 residues within 4Å: Chain A: I.511, R.514, R.519 Chain B: R.512, N.515, R.661 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.514, A:R.519 Hydrogen bonds: B:N.515 SO4.5: 3 residues within 4Å: Chain A: N.515, R.661 Chain B: R.514 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.515, B:R.514 Salt bridges: A:R.661 SO4.6: 4 residues within 4Å: Chain A: R.167, R.194, E.195 Ligands: 12P.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.195 Salt bridges: A:R.167 SO4.7: 4 residues within 4Å: Chain A: R.699, H.701, G.726, E.727 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.727 Salt bridges: A:R.699, A:H.701 SO4.10: 3 residues within 4Å: Chain B: L.404, Q.494, R.497 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.494 Salt bridges: B:R.497 SO4.11: 3 residues within 4Å: Chain B: R.167, R.194, E.195 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.195 Salt bridges: B:R.167 SO4.12: 4 residues within 4Å: Chain B: R.699, H.701, G.726, E.727 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.727 Salt bridges: B:R.699, B:H.701 SO4.13: 3 residues within 4Å: Chain B: N.672, R.676, K.711 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.672, B:K.711 Salt bridges: B:R.676

1 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)

12P.8: 7 residues within 4Å: Chain A: E.168, L.169, T.170, G.171, H.293, Y.297 Ligands: SO4.6 No protein-ligand interaction detected (PLIP)

Links

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Citation

Etzl, S. et al., Structure-guided design and functional characterization of an artificial red light-regulated guanylate/adenylate cyclase for optogenetic applications. J. Biol. Chem. (2018)

Release Date

2018-04-18

Peptides

Bacteriophytochrome,Adenylate cyclase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bacteriophytochrome,Adenylate cyclase