Structure of PDB 7dkt Chain A

Receptor sequence

>7dktA (length=769) Species: 858215 (Thermoanaerobacterium xylanolyticum LX-11) [Search protein sequence]

DKISHKIDIPDSAWTIGIGEKFKNAGHPNVKYPMIDDSYVQGAPLGGFGA
GTIGRTYNGGFSRWHLEIGKNKYTTVYANQFSVFQKVEGNKDGVAQVLYA
GEPENGYLSSWKWDYPKESGMYYALYPNSWYTYTNKDLPVQLAVKQFSPI
IPYNYKETSYPVAVFKWTAYNPTNKNVDVSIMFTWQNMIGFFGKQVNVNS
GNFNKIIKDKSKDSEIVAAVMGNISNDNEEWNGEYSIGVKKVPGVDISYK
AKFVTTGDGSDLWHEFSKNGILDNKDDETPTKQDGIGSAIAVNFKLQPGQ
TIEVPFALSWDLPIMKFGGGDKWYKMYTKYFGKNGKNSFAILKEALNNYQ
KWEKMIDDWQKPILSNKSKPDWYKTALFNELYYLADGGTAWENGKVGEKR
TNNMFGLLACFDYNYYETLDVRFYGSFPLVMLWPDIEKQVMRQFADTINV
QDSSEFKVGSNGAMAVKKVQGMIPHDLGSSYALPWIKINAYDWQNPNIWK
DLNSKYVLLVYRDYVLTGKTDKEFLKYTWKSVKTALDKLKEMDKDNDGIP
DNEGIPDQTYDTWSMKGTSAYCGSLWLAALKAAQEIGKVLKDNEAYIKYN
EWYKIAQQNFEKELWNGEYYNFDTESDHKDSIMADQLAGQWYADILRLGD
ILPKDHVQKALKKIYEFNVMKFENGKMGAVNGMRPDGIVDESDIQAQEVW
TGVTYALASFMKYRGMTEEAYNTAYGVYKMTYDKSGKGYWFRTPEAWTKD
GNYRASMYMRPLSIWSMEV

3D structure

PDB

7dkt Structural basis for transglycosylation in glycoside hydrolase family GH116 glycosynthases.

Chain

Resolution

1.65 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

3.2.1.45: glucosylceramidase.

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	GLF	A	Y445 D452 H507 Y523 T591 W732 E777 R786 Y790	Y413 D420 H475 Y491 T559 W700 E745 R754 Y758
BS02	GOL	A	Y445 D593	Y413 D561
BS03	GOL	A	F443 D444 Y513	F411 D412 Y481
BS04	GOL	A	K196 D387	K166 D357
BS05	GOL	A	W595 S596 F654 S658 H660 D722 S724	W563 S564 F622 S626 H628 D690 S692
BS06	GOL	A	W44 T45 E50 Y764 K766	W14 T15 E20 Y732 K734
BS07	GOL	A	T566 D569	T534 D537
BS08	GOL	A	N434 M436 Q471 R474 Q475 D478	N402 M404 Q439 R442 Q443 D446
BS09	GOL	A	I181 Y183 N184 M385	I151 Y153 N154 M355
BS10	GOL	A	D484 I518 K519 I520	D452 I486 K487 I488
BS11	CA	A	D575 D577 D579 I581 D583	D543 D545 D547 I549 D551

Gene Ontology

	Molecular Function
GO:0004348	glucosylceramidase activity
GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0008422	beta-glucosidase activity
GO:0016798	hydrolase activity, acting on glycosyl bonds
GO:0046872	metal ion binding

View graph for
Molecular Function

External links

PDB	RCSB:7dkt, PDBe:7dkt, PDBj:7dkt
PDBsum	7dkt
PubMed	34019851
UniProt	F6BL85

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