SMTL ID : 4kp1.1

Crystal structure of IPM isomerase large subunit from methanococcus jannaschii (MJ0499)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x KP1: 2,4-DIMETHYLPENTANE-2,4-DIOL(Non-covalent)

KP1.1: 6 residues within 4Å: Chain A: F.321, S.324, C.325, L.393, S.405, F.411 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.321, A:F.321, A:L.393, A:F.411 Hydrogen bonds: A:S.324, A:S.405

4 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 12 residues within 4Å: Chain A: A.298, C.299, P.300, H.301, N.302, V.303, N.410, F.411, R.412, Q.415, I.422, L.424 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.303, A:Q.415, A:L.424 Hydrogen bonds: A:C.299, A:F.411 MPD.3: 4 residues within 4Å: Chain A: Y.182, E.278, F.282, V.285 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.282, A:V.285 Hydrogen bonds: A:E.278 MPD.4: 4 residues within 4Å: Chain A: Y.70, H.166, A.169, T.170 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.70, A:A.169, A:T.170 Hydrogen bonds: A:H.166 MPD.5: 9 residues within 4Å: Chain A: Y.182, G.219, G.220, V.223, K.224, R.231, I.248, E.249, D.251 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.224, A:E.249, A:D.251 Hydrogen bonds: A:G.220, A:D.251 Water bridges: A:F.218, A:E.249

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 6 residues within 4Å: Chain A: H.124, H.145, N.236, C.325, T.326, R.409 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, E.H. et al., Structural characterization and comparison of the large subunits of IPM isomerase and homoaconitase from Methanococcus jannaschii. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-04-23

Peptides

Isopropylmalate/citramalate isomerase large subunit: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Isopropylmalate/citramalate isomerase large subunit