SMTL ID : 3w04.2 (1 other biounit)

Crystal structure of Oryza sativa DWARF14 (D14)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.1: 10 residues within 4Å: Chain A: A.164, V.166, Q.241, T.242, E.243, S.250, A.251, P.252, S.253, L.254 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.242, A:E.243, A:S.253, A:L.254 Water bridges: A:E.243

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

MPD.2: 6 residues within 4Å: Chain A: F.26, F.124, Y.157, V.192, F.193, S.218 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.26, A:F.124, A:Y.157, A:V.192, A:F.193 Hydrogen bonds: A:Y.157, A:S.218 Water bridges: A:H.245

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: D.129, Y.130, H.131, S.222, V.223, Y.226 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.129, A:H.131, A:H.131, A:S.222 EDO.4: 5 residues within 4Å: Chain A: D.68, H.187, Q.190, T.191, K.194 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.191, A:K.194 EDO.5: 4 residues within 4Å: Chain A: P.59, D.60, F.64, R.181 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.60, A:D.60, A:R.181, A:R.181 Water bridges: A:F.62 EDO.6: 6 residues within 4Å: Chain A: G.133, D.216, V.217, S.218, V.219, P.220 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.133, A:V.219 Water bridges: A:D.216, A:D.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kagiyama, M. et al., Structures of D14 and D14L in the strigolactone and karrikin signaling pathways. Genes Cells (2013)

Release Date

2013-01-23

Peptides

Dwarf 88 esterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Dwarf 88 esterase

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