Structure of PDB 7vb5 Chain A

Receptor sequence

>7vb5A (length=412) Species: 4006 (Linum usitatissimum)

PDKNGVITCKAIMLKEAKLPGMSYADTVQIIDIQVDPPQNVELRVKMLCA
SVCRTDILTIEGFMAPTQFPKINGHEGVGIIESMGPDTKNFKVGDVIVAP
TLGECQTCSSCRSGRTNFCQNYGANESALEPDGTSRFSYIDSDGKKKLLY
YKLGCSTWTQYMVVDSNYATKLNEIAPELPPPHGSILSCAFATGYGAVWL
DAAVQEGDSVAIFGVGSVGISAVIAAKELKAKQIIVVDRNEYKLKMAMEL
GATHCINSEKLPEGVTPSQAVRKLTPKEVGVDASIESSGYDVFMNEAMKA
AIHGKAKTVITGEGIYENDRIFFDFKDFLFGGNVVGNVTGRVRIHSDFPG
LLRKAQEPVIRAGMDKILGYDAATMKCKYEVDIREGTPALLKALEEVENV
DCVKLVIKLNDY

3D structure

• PDB: 7vb5 Structural characterization of Linum usitatissimum hydroxynitrile lyase: A new cyanohydrin decomposition mechanism involving a cyano-zinc complex.
• Chain: A
• Resolution: 1.58 Å

Enzymatic activity

• Enzyme Commision number: 4.1.2.46: aliphatic (R)-hydroxynitrile lyase.

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	NAD	A	C63 R64 T65 C199 T203 G226 S227 V228 D248 R249 S297 S298 G299 Y300 F303 T321 G322 E323 V348	C53 R54 T55 C189 T193 G216 S217 V218 D238 R239 S287 S288 G289 Y290 F293 T311 G312 E313 V338
BS02	ZN	A	C115 C118 C121 C129	C105 C108 C111 C119
BS03	ZN	A	C63 H85 C199	C53 H75 C189
BS04	CNH	A	T65 E323	T55 E313
BS05	MG	A	E52 E140	E42 E130

Gene Ontology

Molecular Function

• GO:0008270 zinc ion binding
• GO:0016829 lyase activity
• GO:0046872 metal ion binding
• GO:0051903 S-(hydroxymethyl)glutathione dehydrogenase [NAD(P)+] activity
• GO:0052919 aliphatic (R)-hydroxynitrile lyase activity

Biological Process

• GO:0046294 formaldehyde catabolic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:7vb5, PDBe:7vb5, PDBj:7vb5
• PDBsum: 7vb5
• PubMed: 35101448
• UniProt: P93243|AHNL_LINUS Aliphatic (R)-hydroxynitrile lyase