SMTL ID : 4zm4.1 (2 other biounits)

Complex structure of PctV K276R mutant with PMP and 3-dehydroshkimate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.1: 15 residues within 4Å: Chain A: S.122, G.123, T.124, Y.150, H.151, G.152, E.218, N.223, D.251, V.253, I.254, R.279 Chain B: G.309, V.310, Y.311 13 PLIP interactions: 4 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:V.310, A:G.123, A:T.124, A:N.223, A:R.279, A:R.279 Water bridges: B:N.121, B:Y.311, B:Y.311, A:S.122 Hydrophobic interactions: A:Y.150, A:E.218 Salt bridges: A:R.279

1 x P3B: (3E,4R,5R)-4,5-dihydroxy-3-{[(Z)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4(1H)-ylidene}methyl]imino}cyclohex-1-ene-1-carboxylic acid(Non-covalent)

P3B.2: 20 residues within 4Å: Chain A: A.308, G.309, V.310, Y.311 Chain B: S.31, R.34, Y.67, S.122, G.123, T.124, Y.150, H.151, G.152, E.218, N.223, D.251, V.253, I.254, R.279, E.419 21 PLIP interactions: 18 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.150, B:Y.150, B:V.253 Hydrogen bonds: B:S.31, B:G.123, B:T.124, B:T.124, B:W.153, B:N.223, B:N.223, B:D.251, B:R.279, B:R.279, A:G.309, A:V.310 Water bridges: B:Y.67, B:Y.67, B:S.122, A:Y.311 Salt bridges: B:R.34, B:R.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirayama, A. et al., Mechanism-Based Trapping of the Quinonoid Intermediate by Using the K276R Mutant of PLP-Dependent 3-Aminobenzoate Synthase PctV in the Biosynthesis of Pactamycin. Chembiochem (2015)

Release Date

2015-10-14

Peptides

Aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aminotransferase

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