SMTL ID : 5nci.1

GriE in complex with cobalt, alpha-ketoglutarate and l-leucine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain A: H.113, D.115, H.213 Ligands: AKG.2, LEU.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.113, A:D.115, A:H.213 CO.4: 5 residues within 4Å: Chain B: H.113, D.115, H.213 Ligands: AKG.5, LEU.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.113, B:D.115, B:H.213

2 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.2: 15 residues within 4Å: Chain A: K.98, N.100, K.102, W.110, H.113, D.115, V.147, P.175, H.213, S.215, R.224, L.226, I.228 Ligands: CO.1, LEU.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.110, A:W.110, A:V.147 Hydrogen bonds: A:N.100, A:S.215 Water bridges: A:K.98, A:N.100 Salt bridges: A:K.98, A:K.102, A:H.113, A:R.224 AKG.5: 15 residues within 4Å: Chain B: K.98, N.100, K.102, W.110, H.113, D.115, V.147, P.175, H.213, S.215, R.224, L.226, I.228 Ligands: CO.4, LEU.6 11 PLIP interactions: 10 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:W.110, B:V.147 Hydrogen bonds: B:N.100, B:S.215, B:S.215 Water bridges: B:K.98, L.6 Salt bridges: B:K.98, B:K.102, B:H.113, B:R.224

2 x LEU: LEUCINE(Non-covalent)

LEU.3: 16 residues within 4Å: Chain A: Y.62, Q.96, K.98, H.113, D.115, V.118, W.119, H.172, V.173, D.174, P.175, R.245, V.249, I.250 Ligands: CO.1, AKG.2 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:V.118, A:V.118, A:W.119, A:P.175 Hydrogen bonds: A:Q.96, A:Q.96, A:W.119, A:V.173, A:V.173 Salt bridges: A:R.245 LEU.6: 16 residues within 4Å: Chain B: Y.62, Q.96, K.98, H.113, D.115, V.118, W.119, H.172, V.173, D.174, P.175, R.245, V.249, I.250 Ligands: CO.4, AKG.5 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:V.118, B:V.118, B:W.119 Hydrogen bonds: B:Q.96, B:Q.96, B:W.119, B:V.173, B:V.173 Salt bridges: B:R.245

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 7 residues within 4Å: Chain B: S.77, D.78, R.79, R.260, S.261, G.262, L.264 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.77, B:R.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lukat, P. et al., Biosynthesis of methyl-proline containing griselimycins, natural products with anti-tuberculosis activity. Chem Sci (2017)

Release Date

2017-10-04

Peptides

Leucine hydroxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Leucine hydroxylase

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