5J90

Structure of Fjoh_4558, a chitin-binding SusD homolog from Flavobacterium johnsoniae

PDB DOI: https://doi.org/10.2210/pdb5J90/pdb

Classification: Chitin-binding protein
Organism(s): Flavobacterium johnsoniae UW101
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-04-08 Released: 2017-02-08
Deposition Author(s): Koropatkin, N.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.39 Å
R-Value Free: 0.167
R-Value Work: 0.150
R-Value Observed: 0.150

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

A polysaccharide utilization locus from Flavobacterium johnsoniae enables conversion of recalcitrant chitin.

Larsbrink, J., Zhu, Y., Kharade, S.S., Kwiatkowski, K.J., Eijsink, V.G., Koropatkin, N.M., McBride, M.J., Pope, P.B.

(2016) Biotechnol Biofuels 9: 260-260

PubMed: 27933102 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1186/s13068-016-0674-z
Primary Citation of Related Structures:
5J5U, 5J90

PubMed Abstract:
Chitin is the second most abundant polysaccharide on earth and as such a great target for bioconversion applications. The phylum Bacteroidetes is one of nature's most ubiquitous bacterial lineages and is essential in the global carbon cycle with many members being highly efficient degraders of complex carbohydrates. However, despite their specialist reputation in carbohydrate conversion, mechanisms for degrading recalcitrant crystalline polysaccharides such as chitin and cellulose are hitherto unknown.

Organizational Affiliation

Department of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences (NMBU), 1432 Ås, Norway ; Wallenberg Wood Science Center, Division of Industrial Biotechnology, Department of Biology and Biological Engineering, Chalmers University of Technology, 412 96 Gothenburg, Sweden.

Macromolecule Content

Total Structure Weight: 113.85 kDa
Atom Count: 9,149
Modelled Residue Count: 964
Deposited Residue Count: 1,016
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RagB/SusD domain protein	A, B	508	Flavobacterium johnsoniae UW101	Mutation(s): 0 Gene Names: Fjoh_4558
UniProt
Find proteins for A5FB66 (Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / JCM 8514 / NBRC 14942 / NCIMB 11054 / UW101)) Explore A5FB66 Go to UniProtKB: A5FB66
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A5FB66
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth B] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth B] SDF format, chain K [auth B] SDF format, chain L [auth B] SDF format, chain M [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] MOL2 format, chain K [auth B] MOL2 format, chain L [auth B] MOL2 format, chain M [auth B]	C [auth A] D [auth A] E [auth A] F [auth A] G [auth B] C [auth A], D [auth A], E [auth A], F [auth A], G [auth B], H [auth B], I [auth B], J [auth B], K [auth B], L [auth B], M [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth B] Focus chain L [auth B] Focus chain M [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth B] Focus chain L [auth B] Focus chain M [auth B]