SMTL ID : 6vi9.1

Observing a ring-cleaving dioxygenase in action through a crystalline lens - an alkylperoxo bound structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-dimer

Ligands

2 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: C.146, C.149, C.183, C.186 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.146, A:C.149, A:C.183, A:C.186 FE2.4: 4 residues within 4Å: Chain B: C.146, C.149, C.183, C.186 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.146, B:C.149, B:C.183, B:C.186

2 x QXM: (5R,6Z)-5-(hydroperoxy-kappaO)-5-(hydroxy-kappaO)-6-iminocyclohexa-1,3-diene-1-carboxylato(2-)iron(Non-covalent)

QXM.2: 11 residues within 4Å: Chain A: N.48, V.62, R.68, H.72, E.78, F.80, H.116, P.118, R.120, V.129, E.131 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.62 Hydrogen bonds: A:R.68, A:R.68, A:H.72, A:E.78 Salt bridges: A:R.120 Metal complexes: A:H.72, A:E.78, A:E.78, A:H.116 QXM.5: 11 residues within 4Å: Chain B: N.48, V.62, R.68, H.72, E.78, F.80, H.116, P.118, R.120, V.129, E.131 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.62 Hydrogen bonds: B:R.68, B:R.68, B:E.78, B:E.131 Salt bridges: B:R.120 Metal complexes: B:H.72, B:E.78, B:E.78, B:H.116

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 6 residues within 4Å: Chain A: V.153, H.154, D.179, K.180, R.182, P.184 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.153, A:H.154, A:D.179, A:R.182 TRS.6: 6 residues within 4Å: Chain B: V.153, H.154, D.179, K.180, R.182, P.184 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.153, B:H.154, B:D.179, B:R.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., Observing 3-hydroxyanthranilate-3,4-dioxygenase in action through a crystalline lens. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-07-29

Peptides

3-hydroxyanthranilate 3,4-dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3-hydroxyanthranilate 3,4-dioxygenase

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