SMTL ID : 4r8d.1

Crystal structure of Rv1600 encoded aminotransferase in complex with PLP-MES from Mycobacterium tuberculosis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 14 residues within 4Å: Chain A: G.102, S.103, N.104, Y.128, N.177, D.202, A.204, Y.205, T.230, S.232, K.233, R.241 Chain B: Y.68 Ligands: MES.2 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.128, A:A.204, A:K.233 Hydrogen bonds: A:S.103, A:S.103, A:N.104, A:Y.128, A:N.177, A:Y.205, A:S.232, B:Y.68 Water bridges: A:S.103 Salt bridges: A:K.233, A:R.241 PLP.6: 14 residues within 4Å: Chain A: Y.68 Chain B: G.102, S.103, N.104, Y.128, N.177, D.202, A.204, Y.205, T.230, S.232, K.233, R.241 Ligands: MES.7 13 PLIP interactions: 12 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.128, B:A.204, B:K.233 Hydrogen bonds: B:S.103, B:S.103, B:N.104, B:N.177, B:Y.205, B:T.230, B:S.232, A:Y.68 Salt bridges: B:K.233, B:R.241

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 15 residues within 4Å: Chain A: Y.26, N.38, T.39, N.40, N.104, Y.128, M.130, N.177, R.338, R.347 Chain B: Y.68, P.261, Y.262 Ligands: PLP.1, SO4.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.40, A:N.40, A:N.177 Water bridges: A:R.347 Salt bridges: A:K.233, A:R.338, A:R.347 MES.7: 16 residues within 4Å: Chain A: Y.68, P.261, Y.262 Chain B: Y.26, N.38, T.39, N.40, N.104, Y.128, M.130, N.177, Y.205, R.338, R.347 Ligands: PLP.6, SO4.8 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:N.38, B:N.40, B:N.40, B:N.104, B:Y.128, B:N.177, B:Y.205 Salt bridges: B:K.233, B:R.338, B:R.347

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

SO4.3: 8 residues within 4Å: Chain A: Y.26, G.27, A.28, T.39, R.338 Chain B: R.71, Y.262 Ligands: MES.2 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Y.262, A:Y.26, A:A.28 Salt bridges: B:R.71, A:R.338 SO4.4: 3 residues within 4Å: Chain A: R.17, A.18 Chain B: R.119 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:A.18 Water bridges: A:R.17, B:R.119 Salt bridges: B:R.119 SO4.5: 3 residues within 4Å: Chain A: R.119 Chain B: R.17, A.18 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.119 Hydrogen bonds: B:A.18 SO4.8: 7 residues within 4Å: Chain A: R.71, Y.262 Chain B: Y.26, G.27, A.28, R.338 Ligands: MES.7 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Y.26, B:A.28, A:Y.262, A:Y.262 Salt bridges: B:R.338, A:R.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nasir, N. et al., Crystal structure of Rv1600 encoded aminotransferase in complex with PLP-MES from Mycobacterium tuberculosis. To be Published

Release Date

2015-09-02

Peptides

Histidinol-phosphate aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histidinol-phosphate aminotransferase

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