SMTL ID : 4gvq.1

X-ray structure of the Archaeoglobus fulgidus methenyl-tetrahydromethanopterin cyclohydrolase in complex with tetrahydromethanpterin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-trimer

Ligands

2 x N4M: 1-[4-({(1R)-1-[(6S,7S)-2-amino-7-methyl-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]ethyl}amino)phenyl]-1-deoxy-5-O-{5-O-[(R)-{[(1R)-1,3-dicarboxypropyl]oxy}(hydroxy)phosphoryl]-alpha-D-ribofuranosyl}-D-xylitol(Non-covalent)

N4M.1: 21 residues within 4Å: Chain A: K.94, A.95, G.96, M.107, P.119, T.122, R.125, E.140, I.180, R.183, E.186, T.187, F.190, N.193, E.194, M.222, N.226, M.229, F.272, Y.273, F.280 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:K.94, A:T.187, A:F.190, A:F.190, A:F.272, A:F.272, A:Y.273, A:F.280 Hydrogen bonds: A:K.94, A:K.94, A:A.95, A:G.96, A:R.183, A:R.183, A:E.186, A:N.193, A:N.226, A:N.226, A:N.226, A:N.226 Water bridges: A:R.125, A:Q.179, A:Q.179 Salt bridges: A:K.94, A:K.121, A:R.125, A:E.140 pi-Stacking: A:F.272 N4M.2: 19 residues within 4Å: Chain B: K.94, A.95, G.96, Q.98, M.107, E.140, I.180, R.183, E.186, T.187, F.190, M.222, N.226, M.229, F.272, Y.273, K.274, P.277, F.280 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:K.94, B:A.95, B:T.187, B:F.190, B:F.190, B:F.272, B:F.272, B:F.280 Hydrogen bonds: B:A.95, B:S.109, B:R.183, B:E.186, B:N.226, B:N.226, B:N.226, B:N.226, B:Y.273 Water bridges: B:Q.98, B:Q.98, B:Q.179, B:Q.179, B:Y.273 Salt bridges: B:E.140, B:K.274 pi-Stacking: B:F.272

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Upadhyay, V. et al., Structure and catalytic mechanism of N(5),N(10)-methenyl-tetrahydromethanopterin cyclohydrolase. Biochemistry (2012)

Release Date

2012-10-31

Peptides

Methenyltetrahydromethanopterin cyclohydrolase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Methenyltetrahydromethanopterin cyclohydrolase