SMTL ID : 4gjz.1

JMJD5 in complex with 2-oxoglutarate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.05 Å

Oligo State

monomer

Ligands

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

CO.1: 5 residues within 4Å: Chain A: H.140, D.142, H.219, W.233 Ligands: AKG.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.140, A:D.142, A:H.219, H2O.1

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

AKG.2: 13 residues within 4Å: Chain A: Y.91, W.129, S.137, H.140, D.142, N.146, L.148, K.155, H.219, V.221, S.231, W.233 Ligands: CO.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:W.129, A:W.129, A:V.221 Hydrogen bonds: A:Y.91, A:S.137, A:S.137, A:N.146, A:S.231, A:W.233 Water bridges: A:S.137, A:H.140 Salt bridges: A:K.155, A:H.219

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 7 residues within 4Å: Chain A: Q.46, E.47, I.48, A.49, G.50, C.51, R.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.50, A:C.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Del Rizzo, P.A. et al., Crystal Structure and Functional Analysis of JMJD5 Indicate an Alternate Specificity and Function. Mol.Cell.Biol. (2012)

Release Date

2012-09-05

Peptides

JmjC domain-containing protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

JmjC domain-containing protein 5

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