Structure of PDB 5yb6 Chain D

Receptor sequence

>5yb6D (length=556) Species: 1355242 (Pseudomonas sp. AIU 813)

NRHPADGKKPITIFGPDFPFAFDDWLEHPAGLGSIPAARHGEEVAIVGAG
IAGLVAAYELMKLGLKPVVYEASKMGGRLRSQAFNGTDGIIAELGGMRFP
VSSTAFYHYVDKLGLETKPFPNPLTPASRSTVIDLEGQTYYAEKAADLPA
LFQEVTDAWADALESGARFGDIQQAIRDRDVPRLKELWNTLVPLWDDRTF
YDFVATSKAFAKLSFQHREVFGQVGFGTGGWDSDFPNSMLEIFRVVMTNC
DDHQHLVVGGVEQVPQGIWRHVPERCAHWPEGTSLSSLHGGAPRTGVKRI
ARASDGRLAVTDNWGDCRHYAAVLTTCQSWLLTTQIDCEESLFSQKMWMA
LDRTRYMQSSKTFVMVDRPFWKDKDPETGRDLMSMTLTDRLTRGTYLFDN
GDDKPGVICLSYAWMSDALKMLPHPVEKRVQLALDALKKIYPKTDIAGHI
IGDPITISWEADPHFLGAFKGALPGHYRYNQRMYAHFMQAQMPVEQRGIF
IAGDDVSWTPAWVEGAVQTSLNAVWGIMNHFGGKTHADNPGPGDVFDEIG
QIALAD

3D structure

• PDB: 5yb6 Ligand complex structures of l-amino acid oxidase/monooxygenase from
• Chain: D
• Resolution: 2.1 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): E245 K365
• Catalytic site (residue number reindexed from 1): E241 K361
• Enzyme Commision number: 1.13.12.3: tryptophan 2-monooxygenase.

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	LYS	D	R394 L395	R390 L391
BS02	FAD	D	V51 G52 I55 A56 E75 A76 G81 R82 L83 G99 G100 R102 F103 V301 C331 L335 I340 F469 A472 F473 G507 D508 A515 W516 V517 A520	V47 G48 I51 A52 E71 A72 G77 R78 L79 G95 G96 R98 F99 V297 C327 L331 I336 F465 A468 F469 G503 D504 A511 W512 V513 A516
BS03	LYS	D	R102 D238 Y416 W418 F473 A515 W516	R98 D234 Y412 W414 F469 A511 W512
BS04	LYS	D	T337 Q349 W352 D356	T333 Q345 W348 D352

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0001716 L-amino-acid oxidase activity
• GO:0004497 monooxygenase activity
• GO:0016491 oxidoreductase activity

Biological Process

• GO:0009063 amino acid catabolic process
• GO:0009851 auxin biosynthetic process

External links

• PDB: RCSB:5yb6, PDBe:5yb6, PDBj:5yb6
• PDBsum: 5yb6
• PubMed: 29511608
• UniProt: W6JQJ6