SMTL ID : 4yt5.1

HmdII from Methanocaldococcus jannaschii with bound methylene-tetrahydromethanopterin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 5 residues within 4Å: Chain A: N.272, E.274, L.275, R.278 Chain B: Y.201 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.272

2 x H4M: 5,10-DIMETHYLENE TETRAHYDROMETHANOPTERIN(Non-covalent)

H4M.2: 20 residues within 4Å: Chain A: Y.25, L.29, P.101, F.102, A.105, R.108, C.127, H.155, A.157, V.159, A.212, D.213, M.214, S.216 Chain B: I.237, P.240, M.243, S.279, S.282, M.283 11 PLIP interactions: 4 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:I.237, A:Y.25, A:L.29 Hydrogen bonds: B:N.238, B:S.279, B:S.282, A:F.102, A:A.212, A:S.216 Salt bridges: A:R.108, A:R.108 H4M.3: 21 residues within 4Å: Chain A: I.237, N.238, A.239, P.240, M.243, S.279, S.282, M.283 Chain B: L.24, Y.25, L.29, P.101, F.102, K.104, C.127, A.157, V.159, A.212, D.213, M.214, S.216 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.24, B:Y.25, A:I.237 Hydrogen bonds: B:F.102, B:A.212, B:S.216, A:N.238, A:S.279, A:S.282 Salt bridges: B:K.104, B:K.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujishiro, T. et al., Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs. Febs J. (2015)

Release Date

2015-07-01

Peptides

H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338

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