Structure of PDB 8r6y Chain A

Receptor sequence

>8r6yA (length=1991) Species: 992210 (SFTS virus AH12)

MNLEVLCGRINVENGLSLGEPGLYDQIYDRPGLPDLDVTVDATGVTVDIG
AVPDSASQLGSSINAGLITIQLSEAYKINHDFTFSGLSKTTDRRLSEVFP
ITHDGSDGMTPAVIHTRLDGTIVVVEFSTTRSHNIGGLEAAYRTKIEKYR
DPISRRVDIMENPRVFFGVIVVSSGGVLSNMPLTQDEAEELMYRFCIANE
IYTKAREEELEAISRALSFFSLFEPNIERVEGTFPNSEIKMLEQFLSTPA
DVDFITKTLKAKEVEAYADLCDSHYLKPEKTIQERLEINRCEAIDKTQDL
LAGLHARSNKQTSLNRGTVKLPPWLPKPSSESIDIKTDSGFGSLMDHGAY
GELWAKCLLDVSLGNVEGVVSDPAKELDIAISITYRRFKPALSSSARQEF
SLQGVEGKKWKRMAANQKKEKESHETLSPFLDVEDIGDFLTFNNLLTDSR
YGDESIQRAVSILLEKASAMQDTELTHALNDSFKRNLSSNVVQWSLWVSC
LAQELASALKQHCRAGEFIIKKLKFWPIYVIIKPTKSSSHIFYSLGIRKA
DVTRRLTGRVFSDTIDAGEWELTEFKSLKTCKLTNLVNLPCTMLNSIAFW
REKLGVAPWLVRKPCSELREQVGLTFLISLEDKSKTEEIITLTRYTQMEG
FVSPPMLPKPQKMLGKLDGPLRTKLQVYLLRKHLDCMVRIASQPFSLIPR
EGRVEWGGTFHAISGRSTNLENMVNSWYIGYYKNKEESTELNALGEMYKK
IVEMEEDKPSSPEFLGWGDTDSPKKHEFSRSFLRAACSSLEREIAQRHGR
QWKQNLEERVLREIGTKNILDLASMKATSNFSKDWELYSEVQTKEYHRSK
LLEKMATLIEKGVMWYIDAVGQAWKAVLDDGCMRICLFKKNQHGGLREIY
VMDANARLVQFGVETMARCVCELSPHETVANPRLKNSIIENHGLKSARSL
GPGSININSSNDAKKWNQGHYTTKLALVLCWFMPAKFHRFIWAAISMFRR
KKMMVDLRFLAHLSSKSESRSSDPFREAMTDAFHGNRDVSWMDKGRTYIK
TETGMMQGILHFTSSLLHSCVQSFYKSYFVSKLKEGYMGESISGVVDVIE
GSDDSAIMISIRPKSDMDEVRSRFFVANLLHSVKFLNPLFGIYSSEKSTV
NTVYCVEYNSEFHFHRHLVRPTLRWIAASHQISETEALASRQEDYSNLLT
QCLEGGASFSLTYLIQCAQLLHHYMLLGLCLHPLFGTFMGMLISDPDPAL
GFFLMDNPAFAGGAGFRFNLWRACKTTDLGRKYAYYFNEIQGKTKGDEDY
RALDATSGGTLSHSVMVYWGDRKKYQALLNRMGLPEDWVEQIDENPGVLY
RRAANKKELLLKLAEKVHSPGVTSSLSKGHVVPRVVAAGVYLLSRHCFRF
STQKASLIKLLMMSSISAMKHGGSLNPNQERMLFPQAQEYDRVCTLLEEV
EHLTGKFVVRERNIVRSRIDLFQEPVDLRCKAEDLVSEVWFGLKRTKLGP
RLLKEEWDKLRASFAWLSTDPSETLRDGPFLSHVQFRNFIAHVDAKSRSV
RLLGAPVTTISQVVRMNFFPGFSLEAEKSLDNQERLESISILKHVLFMVL
NGPYTEEYKLEMIIEAFSTLVIPQPSEVIRKSRTMTLCLLSNYLSSRGGS
ILDQIERAQSGTLGGFSKPQKTFVRPGGGVGYKGKGVWTGVMEDTHVQIL
IDGDGTSNWLEEIRLSSDARLYDVIESIRRLCDDLGINNRVASAYRGHCM
VRLSGFKIKPASRTDGCPVRIMNPDEVKMRVRGDILNLSVTIQEGRVMNI
LSYRPRDTDISESAAAYLWSNRDLFSFGKKEPSCSWICLKTLDNWAWSHA
SVLLANDRKTQGIDNRAMGNIFRDCLEGSLRKQGLMRSKLTQELVDILEG
SLDIESIFDGAPILWSAEVEEFGEGVVAVSYSSKYYHLTLMDQAAITMCA
IMGKEGCRGLLTEKRCMAAIREQVRPFLIFLQIPEDSISWV

3D structure

• PDB: 8r6y Structural snapshots of phenuivirus cap-snatching and transcription
• Chain: A
• Resolution: 3.4 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	R318 Q426 G427 E429 G430 K431 E443 S446 H447 K559 H563 S600 K602 R695 E763 N765 H1035 L1036 K1039 R1043 S1044 S1045 D1046 F1048 R1049	R307 Q403 G404 E406 G407 K408 E420 S423 H424 K536 H540 S577 K579 R672 E740 N742 H1012 L1013 K1016 R1020 S1021 S1022 D1023 F1025 R1026
BS02	rna	A	H535 R537 E759 K849 A850 H870 R871 F911 K913 I922 R930 K1346 K1347 K1401 H1403	H512 R514 E736 K826 A827 H847 R848 F888 K890 I899 R907 K1323 K1324 K1378 H1380
BS03	rna	A	H1084 S1125 R1197 Q1204	H1061 S1102 R1174 Q1181
BS04	rna	A	F1703 P1706 Q1707 G1716 V1717 Y1719 L1772 R1829 I1832 N1846 S1849 R1851	F1666 P1669 Q1670 G1679 V1680 Y1682 L1735 R1782 I1785 N1799 S1802 R1804
BS05	2KH	A	K913 R920 A986 K987 W989 Q1080 G1081 D1126	K890 R897 A963 K964 W966 Q1057 G1058 D1103
BS06	MG	A	D985 A986 D1126	D962 A963 D1103

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:8r6y, PDBe:8r6y, PDBj:8r6y
• PDBsum: 8r6y
• PubMed: 38709882
• UniProt: I0DF35|L_SFTS RNA-directed RNA polymerase L