Structure of PDB 8r6w Chain A

Receptor sequence

>8r6wA (length=1974) Species: 992210 (SFTS virus AH12)

MNLEVLCGRINVENGLSLGEPGLYDQIYDRPGLPDLDVTVDATGVTVDIG
AVPDSASQLGSSINAGLITIQLSEAYKINHDFTFSGLSKTTDRRLSEVFP
ITHDGSDGMTPAVIHTRLDGTIVVVEFSTTRSHNIGGLEAAYRTKIEKYR
DPISRRVDIMENPRVFFGVIVVSSGGVLSNMPLTQDEAEELMYRFCIANE
IYTKARSEELEAISRALSFFSLFEPNIERVEGTFPNSEIKMLEQFLSTPA
DVDFITKTLKAKEVEAYADLCDSHYLKPEKTIQERLEINRCEAIDKTQDL
LAGLHARSNKQTSLNRGTVKLPPWLPKPSSESIDIKTDSGFGSLMDHGAY
GELWAKCLLDVSLGNVEGVVSDPAKELDIAISDDPITYRRFKPALSSSAR
QEFSLQGVEGKKWKRMAANQKKEKESHETLSPFLDVEDIGDFLTFNNLLT
DSRYGDESIQRAVSILLEKASAMQDTELTHALNDSFKRNLSSNVVQWSLW
VSCLAQELASALKQHCRAGEFIIKKLKFWPIYVIIKPTKSSSHIFYSLGI
RKADVTRRLTGRVFSDTIDAGEWELTEFKSLKTCKLTNLVNLPCTMLNSI
AFWREKLGVAPWLVRKPCSELREQVGLTFLISLEDKSKTEEIITLTRYTQ
MEGFVSPPMLPKPQKMLGKLDGPLRTKLQVYLLRKHLDCMVRIASQPFSL
IPREGRVEWGGTFHAISGRSTNLENMVNSWYIGYYKNKEESTELNALGEM
YKKIVEMEEDKPSSPEFLGWGDTDSPKKHEFSRSFLRAACSSLEREIAQR
HGRQWKQNLEERVLREIGTKNILDLASMKATSNFSKDWELYSEVQTKEYH
RSKLLEKMATLIEKGVMWYIDAVGQAWKAVLDDGCMRICLFKKNQHGGLR
EIYVMDANARLVQFGVETMARCVCELSPHETVANPRLKNSIIENHGLKSA
RSLGPGSININSSNDAKKWNQGHYTTKLALVLCWFMPAKFHRFIWAAISM
FRRKKMMVDLRFLAHLSSKSESRSSDPFREAMTDAFHGNRDVSWMDKGRT
YIKTETGMMQGILHFTSSLLHSCVQSFYKSYFVSKLKEGYMGESISGVVD
VIEGSDDSAIMISIRPKSDMDEVRSRFFVANLLHSVKFLNPLFGIYSSEK
STVNTVYCVEYNSEFHFHRHLVRPTLRWIAASHQISETEALASRQEDYSN
LLTQCLEGGASFSLTYLIQCAQLLHHYMLLGLCLHPLFGTFMGMLISDPD
PALGFFLMDNPAFAGGAGFRFNLWRACKTTDLGRKYAYYFNEIQGKTKGD
EDYRALDATSGGTLSHSVMVYWGDRKKYQALLNRMGLPEDWVEQIDENPG
VLYRRAANKKELLLKLAEKVHSPGVTSSLSKGHVVPRVVAAGVYLLSRHC
FRFSTQKASLIKLLMMSSISAMKHGGSLNPNQERMLFPQAQEYDRVCTLL
EEVEHLTGKFVVRERNIVRSRIDLFQEPVDLRCKAEDLVSEVWFGLKRTK
LGPRLLKEEWDKLRASFAWLSTDPSETLRDGPFLSHVQFRNFIAHVDAKS
RSVRLLGAPVTTISQVVRMNFFPGFSLEAEESISILKHVLFMVLNGPYTE
EYKLEMIIEAFSTLVIPQPSEVIRKSRTMTLCLLSNYLSSRGGSILDQIE
RAQSGTLGGFSKPQKTFVRPGGGVGYKGKGVWTGVMEDTHVQILIDGDGT
SNWLEEIRLSSDARLYDVIESIRRLCDDLGINNRVASAYRGHCMVRLSGF
KIKPASRTDGCPVRIMNPDEVKMRVRGDILNLSVTIQEGRVMNILSYRPR
DTDISESAAAYLWSNRDLFSFGKKEPSCSWICLKTLDNWAWSHASVLLAN
DRKTQGIDNRAMGNIFRDCLEGSLRKQGLMRSKLIAVELSEGSLDIESIF
DGAPILWSAEVEEFGEGVVAVSYSSKYYHLTLMDQAAITMCAIMGKEGCR
GLLTEKRCMAAIREQVRPFLIFLQ

3D structure

• PDB: 8r6w Structural snapshots of phenuivirus cap-snatching and transcription
• Chain: A
• Resolution: 3.35 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.

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	rna	A	Q915 R920 W989 Q1080 S1125 D1126 R1197 Q1204 Q1224	Q895 R900 W969 Q1060 S1105 D1106 R1177 Q1184 Q1204
BS02	rna	A	R318 K331 Q426 G427 E429 G430 K431 K434 K442 E443 K444 S446 H447 T449 K559 S562 H563 S600 K605 K656 R695 E763 N765 F1032 H1035 S1044 S1045 R1049	R307 K320 Q406 G407 E409 G410 K411 K414 K422 E423 K424 S426 H427 T429 K539 S542 H543 S580 K585 K636 R675 E743 N745 F1012 H1015 S1024 S1025 R1029
BS03	rna	A	H535 R537 E759 K849 A850 H870 R871 F911 I922 R930 G1081 I1082 F1085 W1342 D1344 K1347 Y1348 K1401 G1402 H1403	H515 R517 E739 K829 A830 H850 R851 F891 I902 R910 G1061 I1062 F1065 W1322 D1324 K1327 Y1328 K1381 G1382 H1383
BS04	rna	A	K1668 F1703 P1706 Q1707 R1712 G1716 V1717 Y1719 L1772 G1773 N1834 N1846 R1851	K1625 F1660 P1663 Q1664 R1669 G1673 V1674 Y1676 L1729 G1730 N1781 N1793 R1798

Gene Ontology

Molecular Function

• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0016740 transferase activity
• GO:0016787 hydrolase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0001172 RNA-templated transcription
• GO:0006351 DNA-templated transcription
• GO:0019079 viral genome replication
• GO:0039694 viral RNA genome replication

Cellular Component

• GO:0044165 host cell endoplasmic reticulum
• GO:0044172 host cell endoplasmic reticulum-Golgi intermediate compartment
• GO:0044177 host cell Golgi apparatus
• GO:0044423 virion component

External links

• PDB: RCSB:8r6w, PDBe:8r6w, PDBj:8r6w
• PDBsum: 8r6w
• PubMed: 38709882
• UniProt: I0DF35|L_SFTS RNA-directed RNA polymerase L