SMTL ID : 9cbq.1

Methionine synthase from Thermus thermophilus HB8, Folate demethylation state (Fol-on)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

monomer

Ligands

1 x B12: COBALAMIN(Non-covalent)

B12.1: 42 residues within 4Å: Chain A: N.13, T.15, G.16, S.50, D.80, T.82, N.101, S.102, L.129, I.131, M.136, T.171, F.172, P.173, Q.176, N.210, F.213, L.390, G.395, D.396, V.397, H.398, G.399, I.400, G.401, L.404, V.405, G.441, M.442, S.443, L.445, L.446, V.447, I.470, G.472, G.473, A.474, A.494, E.495, D.496, A.497, G.500 31 PLIP interactions: 31 interactions with chain A, Hydrophobic interactions: A:T.15, A:T.82, A:L.129, A:I.131, A:F.172, A:P.173, A:F.213, A:L.390, A:V.397, A:L.404, A:V.405, A:L.445, A:L.445, A:A.494 Hydrogen bonds: A:N.13, A:N.13, A:T.15, A:S.50, A:D.80, A:E.106, A:G.395, A:V.397, A:H.398, A:G.399, A:I.400, A:G.401, A:V.447, A:A.497 Water bridges: A:A.52, A:K.138, A:K.402

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: E.10, F.213, R.220 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.10 Salt bridges: A:R.220 SO4.6: 4 residues within 4Å: Chain A: R.11, S.17, K.18, R.19 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.17, A:K.18, A:R.19

1 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.3: 5 residues within 4Å: Chain A: K.186, L.190, R.234, Y.265, R.267 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.190 Water bridges: A:R.267, A:R.267 Salt bridges: A:R.267

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

CL.4: 2 residues within 4Å: Chain A: E.142, R.145 Ligand excluded by PLIP

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 2 residues within 4Å: Chain A: H.157, H.158 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mendoza, J. et al., Methionine synthase from Thermus thermophilus HB8, Folate demethylation state (Fol-on). To Be Published

Release Date

2025-07-02

Peptides

Methionine synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methionine synthase