SMTL ID : 4bwi.1

Structure of the phytochrome Cph2 from Synechocystis sp. PCC6803

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

1 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.1: 5 residues within 4Å: Chain A: P.82, R.85, E.86, G.89, N.90 9 PLIP interactions: 8 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:R.85 Hydrogen bonds: A:P.82, A:E.86, A:E.86, A:E.86, A:G.89, A:N.90, E.1 Salt bridges: A:R.85

2 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.2: 24 residues within 4Å: Chain A: K.45, Y.47, F.75, E.78, D.79, I.80, P.81, Q.83, A.84, I.95, V.97, K.104, V.126, D.127, C.129, H.130, Y.133, T.144, I.156, A.158, H.160, R.373, N.379, I.380 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.47, A:F.75, A:D.79, A:I.80, A:P.81, A:A.84, A:I.95, A:D.127, A:H.130, A:I.156 Hydrogen bonds: A:D.79, A:D.127, A:T.144, A:T.144 Water bridges: A:H.130, A:H.130, A:S.142, A:R.373 Salt bridges: A:K.104, A:H.130 CYC.7: 23 residues within 4Å: Chain B: Y.47, F.75, E.78, D.79, I.80, P.81, I.95, V.97, K.104, V.126, D.127, C.129, H.130, Y.133, T.144, I.156, A.158, H.160, R.378, N.379, I.380, L.381, P.382 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:F.75, B:F.75, B:I.80, B:I.80, B:P.81, B:I.95, B:V.126, B:D.127, B:T.144, B:I.156 Hydrogen bonds: B:D.79, B:D.127, B:T.144 Water bridges: B:S.142, B:S.142 Salt bridges: B:K.104, B:H.130

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: Y.224, E.227, T.228, Q.231 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.227, A:T.228, A:Q.231 GOL.8: 6 residues within 4Å: Chain B: R.92, M.148, Q.149, D.150, Q.151, S.183 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.92, B:R.92, B:D.150, B:Q.151, B:S.183, B:S.183

7 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 4 residues within 4Å: Chain A: H.19, L.22, S.189, S.192 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.192 Water bridges: A:L.24, A:S.189 FMT.5: 2 residues within 4Å: Chain A: A.100, R.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.102 FMT.6: 3 residues within 4Å: Chain A: E.390, E.391, T.392 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.392, A:T.392 FMT.9: 2 residues within 4Å: Chain B: C.310, V.311 No protein-ligand interaction detected (PLIP) FMT.10: 2 residues within 4Å: Chain B: Q.29, E.33 No protein-ligand interaction detected (PLIP) FMT.11: 5 residues within 4Å: Chain B: R.36, G.40, V.41, D.42, N.63 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.36, B:D.42, B:D.42, B:N.63 FMT.12: 3 residues within 4Å: Chain B: H.253, Q.255, D.261 2 PLIP interactions: 2 interactions with chain B Water bridges: B:Q.255, B:D.261

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anders, K. et al., Structure of the Cyanobacterial Phytochrome 2 Photosensor Implies a Tryptophan Switch for Phytochrome Signaling. J.Biol.Chem. (2013)

Release Date

2013-10-30

Peptides

PHYTOCHROME-LIKE PROTEIN CPH2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PHYTOCHROME-LIKE PROTEIN CPH2