6HUY

HmdII from Desulfurobacterium thermolithotrophum reconstitued with Fe-guanylylpyridinol (FeGP) cofactor and co-crystallized with methenyl-tetrahydrofolate form A

Summary for 6HUY

DescriptorCoenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin reductase-related protein, iron-guanylyl pyridinol cofactor, GLYCEROL, ... (8 entities in total)
Functional Keywordshydrogenase, h2-activation, lateral gene-transfer, cofactor biosynthesis, tetrahydromethanopterin, tetrahydrofolate, paralog, sulfur-reducing bacteria, metalloenzyme, oxidoreductase
Biological sourceDesulfurobacterium thermolithotrophum DSM 11699
Total number of polymer chains4
Total molecular weight168287.99
Authors
Watanabe, T.,Wagner, T.,Huang, G.,Kahnt, J.,Ataka, K.,Ermler, U.,Shima, S. (deposition date: 2018-10-09, release date: 2019-01-09)
Primary citation
Watanabe, T.,Wagner, T.,Huang, G.,Kahnt, J.,Ataka, K.,Ermler, U.,Shima, S.
The bacterial [Fe]-hydrogenase paralog uses tetrahydrofolate derivatives as substrates.
Angew. Chem. Int. Ed. Engl., 2019
PubMed: 30600878 (PDB entries with the same primary citation)
DOI: 10.1002/anie.201813465
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (2.25 Å)
?

Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers 0.2191 0.1% 0.3% 1.9%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 6huy
no rotation
Molmil generated image of 6huy
rotated about x axis by 90°
Molmil generated image of 6huy
rotated about y axis by 90°

More Biological unit images

Molmil generated image of 6huy
no rotation
Molmil generated image of 6huy
rotated about x axis by 90°
Molmil generated image of 6huy
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (6huy.pdb1.gz [245.19 KB])
Coordinate files for Biological unit (6huy.pdb2.gz [243.54 KB])
PDBj@FacebookPDBj@TwitterwwPDBwwPDB Foundation

Copyright © 2013-2019 Protein Data Bank Japan