Structure of PDB 7dmk Chain B

Receptor sequence
>7dmkB (length=732) Species: 626929 (Bacteroides clarus) [Search protein sequence]
RTIDLNSLQSTLEKAGPGDTIYIKSGTYTNIQLQLEGYGKVEEPIVVMAQ
QPGSVFIEGVSNLRLCGEYVEINGLHFRNGYTPKGAVIEFRNGEKVANNC
RITDCVIDYFNPIDRGVSGSWILLYGRNNRLDHNSILGKLYAGVTLAVIL
NGEGDRNNNHRIDHNYFGERPILGSNGGETIRVGTSHHAFFSSNTVIEDN
MFHHCNGEVEVVSIKSSDNIIRNNVFLECRGILALRHGNRNLVEGNAFIG
NGLPCTGGVRIVNEGHTIKGNLFYGLKGDRFFAALGLMNAVPNSLPNRYH
HVKDVTLEDNRFINCDNILFCVGKDNERTLPPSNISFIRNQFISKSDKAL
YQSFDDISGFTFIDNVVNYPYTVTQRGFQNNTTLSDSIDLKPYMEKKNGA
SWYTLSELVLTGNEISVKAGQNTLLEALNQAQSGDILNLSEEGVYWLDNT
LLIDKYIRIQADSHLSKRPVLCFNGMSGKAFVTIVNGGNLEIQGLAFNGE
GEAGKALSEGGITVKSGTITPYLLTVDNCEFYNFNESGLAAIRGEKSTFS
PMVIIRNSFFHDMSGEAINFAGEKDDKGKYNVEELHVDNCIFYRLLGSAL
NIYRGGNDESTSGPLLTVDHCTIENVDNKEQGSAMRLIGVQSATVTNCSF
ANSGKGGASIRFNEMSWDKLSVSYINLYNSGRIASFWGKLGSKNITNYRP
EYVDANTGNFYQISTSPLSNKASDKKDLGITQ
3D structure
PDB7dmk Structural basis for the exolytic activity of polysaccharide lyase family 6 alginate lyase BcAlyPL6 from human gut microbe Bacteroides clarus.
ChainB
Resolution2.213 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.2.1.22: alpha-galactosidase.
3.2.1.n1: blood group B branched chain alpha-1,3-galactosidase.
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 CA B N188 E191 E220 E222 N176 E179 E208 E210
Gene Ontology
Molecular Function
GO:0004557 alpha-galactosidase activity
GO:0046872 metal ion binding

View graph for
Molecular Function
External links
PDB RCSB:7dmk, PDBe:7dmk, PDBj:7dmk
PDBsum7dmk
PubMed33610038
UniProtA0A1Y4JW59

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