Structure of PDB 6tr4 Chain A

Receptor sequence

>6tr4A (length=506) Species: 935582 (Mediterraneibacter gnavus E1)

NWIGDENLTGNAEAPAKDDVVPDKNQFRYQKEELAAFCHFGPNTFNEIEW
GEHYGNQKPSEIFTLKNDFDAETLVKTLKDAGFKKLIVTAKHHDGFCIWD
SEHTEYDVKASGYKNKNGESDILAEISKACTDQNMDMGLYLSPWDIHEPS
YGYKDEHGNPTTPDKDAKDYNEFYNNQLEEILGNPKYGNDGHFVEVWMAG
AKGSGANAQEYDFKKWFKTIQDNEGKAAGYDADCMLFGAEAYTTVRWIGN
ELGIAGKDTWSKSKVDKDKNTINSNKQGNATVGFEDGDQWTVPEADARIT
SGWFWGTKKNTPKTMEELSDMYFNSVGHNATLLLNVPPNNQGTVDKAILD
RVTEFGNNIKATFKTNLAKAEGASVKVSEVRGGAKEYKPGNMIDDNDETY
WATSDGKKSGEILIDLGKETKFDVVSIEEAIQNGQRINNYKVEYRNGDSG
TWTLLEEGKTIGAKRLCRTSETTARQIKITVGTCDGKVPMISEIGVYKST
EDMEKP

3D structure

• PDB: 6tr4 Fucosidases from the human gut symbiont Ruminococcus gnavus.
• Chain: A
• Resolution: 1.45 Å

Enzymatic activity

• Enzyme Commision number: 3.2.1.187: (Ara-f)3-Hyp beta-L-arabinobiosidase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	FUL	A	F43 H45 W56 H98 H99 Y146 W203 A207 W309	F37 H39 W50 H92 H93 Y140 W197 A201 W303
BS02	FUC	A	F43 H45 W56 H98 H99 Y146 W203 W309	F37 H39 W50 H92 H93 Y140 W197 W303
BS03	MG	A	S107 T110 D113	S101 T104 D107
BS04	MG	A	D74 F75 E131	D68 F69 E125
BS05	CA	A	N397 D400 N402 T405 S498 E499	N391 D394 N396 T399 S492 E493
BS06	CA	A	S156 G158 D172 K174	S150 G152 D166 K168
BS07	CA	A	L188 G197 E230	L182 G191 E224

Gene Ontology

Molecular Function

• GO:0004560 alpha-L-fucosidase activity

Biological Process

• GO:0005975 carbohydrate metabolic process

External links

• PDB: RCSB:6tr4, PDBe:6tr4, PDBj:6tr4
• PDBsum: 6tr4
• PubMed: 32333083
• UniProt: A0A6N3BKT0