Structure of PDB 5yij Chain A

Receptor sequence

>5yijA (length=959) Species: 446 (Legionella pneumophila)

GFSLYTDDTVKAAAQYAYDNYLGKPYTGSVESAPANFGGRMVYRQHHGLS
HTLRTMAYAELIVEEARKAKLRGETLGKFKDGRTIADVTPQELKKIMIAQ
AFFVAGRDDEASDAKNYQKYHEQSRDAFLKYVKDNESTLIPDVFKDQEDV
NFYARVIEDKSHDWESTPAHVLINQGHMVDLVRVKQPPESFLQRYFSSMQ
RWIGSQATEAVFGIQRQFFHATYEVVAGFDSDNKEPHLVVSGLGRYVIGE
DGQPIREAPKKGQKEGDLKVFPQTYKNERLMRVDEFLKLPEIQNTFPGSG
KHLQGGMPGMNEMDYWNRLNSLNRARCENDVDFCLKQLQTAHDKAKIEPI
KQAFQSSKGKERRQPNVDEIAAARIIQQILANPDCIHDDHVLINGQKLEQ
QFFRDLLAKCEMAVVGSLLNDTDIGNIDTLMRHEKDTEFHSTNPEAVPVK
IGEYWINDQRINNSSGNITQKKHDLIFLMQNDAWYFSRVNAIAQNRDKGS
TFKEVLITTLMTPLTSKALVDTSQAKPPTRLFRGLNLSEEFTKGLIDQAN
AMIANTTERLFTDHSPEAFKQIKLNDLSKMSGRTNASTTTEIKLVKETWD
SNVIFEMLDPDGLLHSKQVGRHGEGTESEFSVYLPEDVALVPVKVTLDGK
TQKGENRYVFTFVAVKSPDFTPRHESGYAVEPFLRMQAAKLAEVKSSIEK
AQRAPDLETIFNLQNEVEAVQYSHLSTGYKNFLKNTVGPVLENSLSGLME
SDTDTLSKALAAFPSDTQWSAFNFEEARQAKRQMDAIKQMVGNKVVLDAL
TQCQDALEKQNIAGALDALKKIPSEKEMGTIRRELREQIQSARQELESLQ
RAVVTPVVTDEKKVRERYDALIENTSKKITELETGKLPNLDAVKKGISNL
SNLKQEVTVLRNEKIRMHVGTDKVDFSDVEKLEQQIQVIDTKLADAYLLE
VTKQISALE

3D structure

• PDB: 5yij Structural basis of ubiquitin modification by the Legionella effector SdeA.
• Chain: A
• Resolution: 3.18 Å

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	NAI	A	Q713 F719 N723 Q727 R729 R766 G767 N769 S820 T822 W832 E862	Q480 F486 N490 Q494 R496 R533 G534 N536 S587 T589 W599 E629	PDBbind-CN: -logKd/Ki=3.42,Kd=381uM

Gene Ontology

Molecular Function

• GO:0106274 NAD+-protein-arginine ADP-ribosyltransferase activity

External links

• PDB: RCSB:5yij, PDBe:5yij, PDBj:5yij
• PDBsum: 5yij
• PubMed: 29795342
• UniProt: Q6RCR0