SMTL ID : 6j4k.1

Structural basis for the target DNA recognition and binding by the MYB domain of phosphate starvation response 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

homo-dimer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: R.4, M.5, R.6, T.8 Chain B: E.17, S.21 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.4, A:R.6, B:E.17 GOL.2: 2 residues within 4Å: Chain A: Y.45, H.46 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.46 GOL.3: 4 residues within 4Å: Chain A: T.56, A.57, R.58 Ligands: MLA.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.58 GOL.4: 3 residues within 4Å: Chain A: R.4, W.7 Ligands: MLA.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.4 GOL.5: 5 residues within 4Å: Chain A: A.14, I.36, M.37 Chain B: E.26, R.27 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:I.36, B:R.27 Water bridges: B:G.23

4 x MLA: MALONIC ACID(Non-covalent)

MLA.6: 4 residues within 4Å: Chain A: K.53 Ligands: GOL.4, MLA.8, MLA.9 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.53, A:K.53 Salt bridges: A:K.53 MLA.7: 1 residues within 4Å: Chain A: R.27 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.27, A:R.27 Salt bridges: A:R.27, A:R.27 MLA.8: 7 residues within 4Å: Chain A: H.12, H.50, K.53, Y.54 Ligands: GOL.3, MLA.6, MLA.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.54 Salt bridges: A:H.12, A:H.12, A:H.50 MLA.9: 6 residues within 4Å: Chain A: W.7, S.49, H.50, K.53 Ligands: MLA.6, MLA.8 7 PLIP interactions: 7 interactions with chain A Water bridges: A:S.49, A:K.53, A:K.53 Salt bridges: A:H.50, A:H.50, A:K.53, A:K.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, M. et al., Structural basis for the Target DNA recognition and binding by the MYB domain of phosphate starvation response 1. Febs J. (2019)

Release Date

2019-04-24

Peptides

Protein PHOSPHATE STARVATION RESPONSE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein PHOSPHATE STARVATION RESPONSE 1

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