SMTL ID : 5y8l.1

Mycobacterium tuberculosis 3-Hydroxyisobutyrate dehydrogenase (MtHIBADH) + NAD +(S)-3-hydroxyisobutyrate (S-HIBA)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 21 residues within 4Å: Chain A: L.8, G.9, G.11, N.12, M.13, F.31, D.32, P.33, A.34, M.65, L.66, P.67, V.71, S.93, T.94, V.119, G.122, V.123, K.169, L.241, K.244 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.241 Hydrogen bonds: A:N.12, A:M.13, A:A.34, A:L.66, A:T.94, A:T.94, A:V.123, A:K.244 Water bridges: A:G.11, A:N.12, A:N.12, A:N.12, A:N.12, A:G.14, A:K.169, A:K.169 NAD.6: 22 residues within 4Å: Chain B: L.8, G.9, G.11, N.12, M.13, G.14, F.31, D.32, P.33, A.34, A.37, M.65, L.66, P.67, V.71, S.93, T.94, V.119, G.122, K.169, L.241, K.244 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.241 Hydrogen bonds: B:N.12, B:N.12, B:M.13, B:G.14, B:A.34, B:L.66, B:T.94, B:T.94, B:V.123, B:K.244, B:K.244 Water bridges: B:G.11, B:N.12, B:D.78, B:K.169

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: A.59, D.60, R.84, P.85, A.86, T.87, R.144 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.84, A:T.87, A:R.144, A:R.144 Water bridges: A:A.59, A:D.60, A:D.60 GOL.3: 5 residues within 4Å: Chain A: V.22, H.26, V.27, V.28, G.45 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.28 Water bridges: A:A.47 GOL.4: 4 residues within 4Å: Chain A: S.120, N.173, W.212, F.237 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.173, A:N.173 Water bridges: A:G.121, A:G.121, A:N.172, A:N.172 GOL.8: 6 residues within 4Å: Chain B: A.59, D.60, R.84, P.85, A.86, T.87 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.84, B:R.84, B:T.87 Water bridges: B:A.59

3 x 9ON: (2~{S})-2-methylpentanedioic acid(Non-covalent)

9ON.5: 5 residues within 4Å: Chain A: R.146, E.150, A.153, G.154, I.156 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:E.150, A:E.150, A:A.153, A:I.156 Hydrogen bonds: A:A.153, A:G.154 Water bridges: A:A.153 Salt bridges: A:R.146 9ON.9: 6 residues within 4Å: Chain B: A.129, E.150, A.153, G.154, K.155, I.156 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:E.150, B:A.153 Hydrogen bonds: B:E.150, B:E.150 Water bridges: B:I.156 9ON.10: 5 residues within 4Å: Chain B: T.130, L.131, A.132, G.154, K.155 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:K.155 Salt bridges: B:K.155

1 x HUI: (2S)-2-methyl-3-oxidanyl-propanoic acid(Non-covalent)

HUI.7: 5 residues within 4Å: Chain A: T.208 Chain B: S.120, G.121, W.212, F.237 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Water bridges: B:S.120, B:G.121, B:G.121, B:G.121, B:N.173 Hydrophobic interactions: A:T.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Srikalaivani, R. et al., Structure, interactions and action ofMycobacterium tuberculosis3-hydroxyisobutyric acid dehydrogenase. Biochem. J. (2018)

Release Date

2018-07-11

Peptides

Probable 3-hydroxyisobutyrate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable 3-hydroxyisobutyrate dehydrogenase

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