SMTL ID : 6qx6.2 (1 other biounit)

Structure of gtPebB-dihydrobiliverdin complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.1: 7 residues within 4Å: Chain A: D.36, G.37, Y.38, K.41, E.234, W.235, R.238 4 PLIP interactions: 4 interactions with chain A Water bridges: A:Y.38, A:Y.38, A:K.41, A:K.41

1 x DBV: 15,16-DIHYDROBILIVERDIN(Non-covalent)

DBV.2: 28 residues within 4Å: Chain A: A.72, V.74, L.80, V.82, N.84, D.101, V.103, L.105, L.110, A.112, Q.116, F.149, P.150, A.153, Y.156, F.157, W.163, R.165, Y.213, Y.216, R.217, D.221, P.222, A.223, M.226, F.227, M.230, L.244 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:V.82, A:V.82, A:L.110, A:F.149, A:F.157, A:F.157, A:W.163, A:Y.216, A:Y.216, A:R.217, A:P.222, A:A.223, A:M.226, A:F.227, A:F.227 Hydrogen bonds: A:N.84, A:D.101, A:Q.116, A:Y.213 Water bridges: A:D.101, A:D.148, A:R.165, A:R.217, A:R.217, A:D.221

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

SO4.3: 5 residues within 4Å: Chain A: K.64, K.65, E.192, A.194, K.195 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:A.194 Water bridges: A:K.64, A:K.65, A:K.195, A:K.195 Salt bridges: A:K.64, A:K.65, A:K.195 SO4.4: 3 residues within 4Å: Chain A: W.16, K.19, K.181 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.16 Water bridges: A:K.181, A:K.181, A:K.181 Salt bridges: A:K.19, A:K.181 SO4.5: 5 residues within 4Å: Chain A: W.145, G.147, D.148, F.149, K.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.145, A:D.148, A:F.149 Salt bridges: A:K.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sommerkamp, J.A. et al., Crystal structure of the first eukaryotic bilin reductaseGtPEBB reveals a flipped binding mode of dihydrobiliverdin. J.Biol.Chem. (2019)

Release Date

2019-08-07

Peptides

Ferredoxin bilin reductase plastid: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Ferredoxin bilin reductase plastid

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