SMTL ID : 1sg9.2 (1 other biounit)

Crystal structure of Thermotoga maritima protein HEMK, an N5-glutamine methyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 19 residues within 4Å: Chain A: F.100, P.102, T.106, I.128, G.129, T.130, G.131, I.135, D.151, V.152, S.153, G.178, E.179, F.180, N.197, P.199, E.217, A.218 Ligands: GLN.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.100 Hydrogen bonds: A:G.129, A:G.131, A:V.152, A:F.180, A:N.197 Water bridges: A:F.100, A:R.103, A:I.135, A:E.217, A:E.231 pi-Cation interactions: A:F.100 SAM.3: 19 residues within 4Å: Chain B: F.100, P.102, T.106, I.128, G.129, T.130, G.131, I.135, D.151, V.152, S.153, G.178, E.179, F.180, N.197, P.199, E.217, A.218 Ligands: GLN.4 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.100 Hydrogen bonds: B:G.129, B:G.131, B:V.152, B:F.180, B:N.197 Water bridges: B:F.100, B:R.103, B:I.135, B:E.217, B:E.231 pi-Cation interactions: B:F.100

2 x GLN: GLUTAMINE(Non-covalent)

GLN.2: 8 residues within 4Å: Chain A: F.100, R.103, N.197, P.198, P.199, Y.200, E.246 Ligands: SAM.1 9 PLIP interactions: 7 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:F.100 Hydrogen bonds: A:N.197, A:N.197, A:Y.200, A:Y.200, A:Y.200, Q.2 Salt bridges: A:R.103 Water bridges: Q.2 GLN.4: 8 residues within 4Å: Chain B: F.100, R.103, N.197, P.198, P.199, Y.200, E.246 Ligands: SAM.3 9 PLIP interactions: 7 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:F.100 Hydrogen bonds: B:N.197, B:N.197, B:Y.200, B:Y.200, B:Y.200, Q.4 Salt bridges: B:R.103 Water bridges: Q.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Agarwal, R. et al., A novel mode of dimerization via formation of a glutamate anhydride crosslink in a protein crystal structure. Proteins (2008)

Release Date

2004-08-17

Peptides

hemK protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

hemK protein

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