SMTL ID : 3pus.2 (1 other biounit)

PHF2 Jumonji-NOG-Ni(II)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

monomer

Ligands

1 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.1: 4 residues within 4Å: Chain A: T.134, Y.177, H.276 Ligands: OGA.13 No protein-ligand interaction detected (PLIP)

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 3 residues within 4Å: Chain A: D.120, Y.123, S.124 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.120 EDO.3: 6 residues within 4Å: Chain A: K.316, H.366, F.367, K.368, Q.371, L.372 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.368, A:K.368 EDO.4: 2 residues within 4Å: Chain A: H.366, K.368 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.366 EDO.5: 4 residues within 4Å: Chain A: S.139, T.175, K.176 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.139, A:T.175 EDO.6: 7 residues within 4Å: Chain A: G.51, L.54, T.55, G.75, D.151, I.152, K.155 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.75 Water bridges: A:L.56 EDO.7: 5 residues within 4Å: Chain A: S.139, A.170, K.171, K.173 Ligands: EDO.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.139, A:S.139 EDO.8: 3 residues within 4Å: Chain A: L.169, A.170, N.306 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.170 Water bridges: A:N.306 EDO.9: 1 residues within 4Å: Chain A: K.112 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.112 EDO.10: 6 residues within 4Å: Chain A: P.214, A.215, S.216, I.219, M.285, R.288 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.214

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 5 residues within 4Å: Chain A: S.157, W.158, V.159, F.277, L.278 Ligand excluded by PLIP

1 x NI: NICKEL (II) ION(Non-covalent)

NI.12: 4 residues within 4Å: Chain A: H.190, D.192, Y.262 Ligands: OGA.13 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.190, A:D.192, A:Y.262, H2O.3

1 x OGA: N-OXALYLGLYCINE(Non-covalent)

OGA.13: 11 residues within 4Å: Chain A: L.179, T.187, H.190, D.192, Y.200, K.207, Y.262, T.264, H.276 Ligands: OXY.1, NI.12 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.187 Water bridges: A:T.187, A:K.207 Salt bridges: A:K.207, A:H.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Horton, J.R. et al., Structural basis for human PHF2 Jumonji domain interaction with metal ions. J.Mol.Biol. (2011)

Release Date

2011-01-26

Peptides

PHD finger protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

PHD finger protein 2

Related Entries With Identical Sequence