Structure of PDB 5yb8 Chain A Binding Site BS02

Receptor Information
>5yb8 Chain A (length=549) Species: 1355242 (Pseudomonas sp. AIU 813) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KKPITIFGPDFPFAFDDWLEHPAGLGSIPAARHGEEVAIVGAGIAGLVAA
YELMKLGLKPVVYEASKMGGRLRSQAFNGTDGIIAELGGMRFPVSSTAFY
HYVDKLGLETKPFPNPLTPASRSTVIDLEGQTYYAEKAADLPALFQEVTD
AWADALESGARFGDIQQAIRDRDVPRLKELWNTLVPLWDDRTFYDFVATS
KAFAKLSFQHREVFGQVGFGTGGWDSDFPNSMLEIFRVVMTNCDDHQHLV
VGGVEQVPQGIWRHVPERCAHWPEGTSLSSLHGGAPRTGVKRIARASDGR
LAVTDNWGDCRHYAAVLTTCQSWLLTTQIDCEESLFSQKMWMALDRTRYM
QSSKTFVMVDRPFWKDKDPETGRDLMSMTLTDRLTRGTYLFDNGDDKPGV
ICLSYAWMSDALKMLPHPVEKRVQLALDALKKIYPKTDIAGHIIGDPITI
SWEADPHFLGAFKGALPGHYRYNQRMYAHFMQAQMPVEQRGIFIAGDDVS
WTPAWVEGAVQTSLNAVWGIMNHFGGKTHADNPGPGDVFDEIGQIALAD
Ligand information
Ligand IDARG
InChIInChI=1S/C6H14N4O2/c7-4(5(11)12)2-1-3-10-6(8)9/h4H,1-3,7H2,(H,11,12)(H4,8,9,10)/p+1/t4-/m0/s1
InChIKeyODKSFYDXXFIFQN-BYPYZUCNSA-O
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C(CC(C(=O)O)N)CNC(=[NH2+])N
CACTVS 3.341N[C@@H](CCCNC(N)=[NH2+])C(O)=O
OpenEye OEToolkits 1.5.0C(C[C@@H](C(=O)O)N)CNC(=[NH2+])N
CACTVS 3.341N[CH](CCCNC(N)=[NH2+])C(O)=O
ACDLabs 10.04O=C(O)C(N)CCCN\C(=[NH2+])N
FormulaC6 H15 N4 O2
NameARGININE
ChEMBL
DrugBank
ZINC
PDB chain5yb8 Chain A Residue 602 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5yb8 Ligand complex structures of l-amino acid oxidase/monooxygenase from
Resolution2.3 Å
Binding residue
(original residue number in PDB)		D393 R394
Binding residue
(residue number reindexed from 1)		D382 R383
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) E245 K365
Catalytic site (residue number reindexed from 1) E234 K354
Enzyme Commision number 1.13.12.3: tryptophan 2-monooxygenase.
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

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5yb8, PDBe:5yb8, PDBj:5yb8
PDBsum5yb8
PubMed29511608
UniProtW6JQJ6

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