Structure of PDB 8kdc Chain A

Receptor sequence
>8kdcA (length=2114) Species: 11216 (Human respirovirus 3) [Search protein sequence]
VSDILYPECHLNSPIVKGKIAQLHTIMSLPQPYDMDDDSILVITRQKIKL
NKLDKRQRSIRRLKLILTEKVNDLGKYTFIRYPEMSKEMFKLYIPGINSK
VTELLLKADRTYSQMTDGLRDLWINVLSKLASKNDGSNYDLNEEINNISK
VHTTYKSDKWYNPFKTWFTIKYDMRRLQKARNEITFNVGKDYNLLEDQKN
FLLIHPELVLILDKQNYNGYLITPELVLMYCDVVEGRWNISACAKLDPKL
QSMYQKGNNLWEVIDKLFPIMGEKTFDVISLLEPLALSLIQTHDPVKQLR
GAFLNHVLSEMELIFESGESIREFLSVDYIDKILDIFNESTIDEIAEIFS
FFRTFGHPPLEASIAAEKVRKYMYIEKQLKFDTVNKCHAIFCTIIINGYR
ERHGGQWPPVTLPDHAHEFIINAYGSNSAISYENAVDYYQSFIGIKFNKF
IEPQLDEDLTIYMKDKALSPKKSNWDTVYPASNLLYRTNASNESRRLVEV
FIADSKFDPHQILDYVESGDWLDDPEFNISYSLKEKEIKQEGRLFAKMTY
KMRATQVLSETLLANNIGKFFQENGMVKGEIELLKRLTTISISGVPRYNE
SKKFEFKSTDIYNDGYETVSCFLTTDLKKYCLNWRYESTALFGETCNQIF
GLNKLFNWLHPRLEGSTIYVGDPYCPPSDKEHISLEDHPDSGFYVHNPRG
GIEGFCQKLWTLISISAIHLAAVRIGVRVTAMVQGDNQAIAVTTRVPNNY
DYRIKKEIVYKDVVRFFDSLREVMDDLGHELKLNETIISSKMFIYSKRIY
YDGRILPQALKALSRCVFWSETVIDETRSASSNLATSFAKAIENGYSPVL
GYACSIFKNIQQLYIALGMNINPTITQNIKDQYFKNSNWMQYASLIPASV
GGFNYMAMSRCFVRNIGDPSVAALADIKRFIKANLLDRSVLYRIMNQEPG
ESSFLDWASDPYSCNLPQSQNITTMIKNITARNVLQDSPNPLLSGLFTNT
MIEEDEELAEFLMDRKVILPRVAHDILDNSLTGIRNAIAGMLDTTKSLIR
VGINRGGLTYSLLRKISNYDLVQYETLSRTLRLIVSDKIRYEDMCSVDLA
IALRQKMWIHLSGGRMISGLETPDPLELLSGVVITGSEHCKICYSSDGTN
PYTWMYLPGNIKIGSAETGVSSLRVPYFGSVTDERSEAQLGYIKNLSKPA
KAAIRIAMIYTWAFGNDEISWMEASQIAQTRANFTLDSLKILTPVATSTN
LSHRKFSSTSLIRVSRFITMSNDNMSIKEANETKDTNLIYQQIMLTGLSV
FEYLFRLKETTGHNPIVMHLHIEDECCIKESFNDEHINPESTLELIRYPE
SNEFIYDKDPLKDVDLSKLMVIKDHSYTIDMNYWDDTDIIHAISICTAIT
IADTMSQLDRDNLKEIIVIANDDDINSLITEFLTLDILVFLKTFGGLLVN
QFAYTLYSLKIEGRDLIWDYIMRTLRDTSHSILKVLSNALSHPKVFKRFW
DCGVLNPIYGPNTASQDQIKLALSICEYALDLFMREWLNGVSLEIYICDS
DMEVANDRKQAFISRHLSFVCCLAEIASFGPNLLNLTYLERLDLLKQYLE
LNIKEDPTLKYVQISGLLIKSFPSTVTYVRKTAIKYLRIRGISPPEVNIV
KTINDNCNKDNKGNKINNFWGLALKNYQVLKIRSILPQGGNYLSHQLRLF
GINSTSCLKALELSQILMKEVNKDKDRLFLGEGAGAMLACYDATLGPAIN
YYNSGLNITDVIGQRELKIFPSEVSLVGKKLGNVTQILNRVKVLFNGNPN
STWIGNMECESLIWSELNDKSIGLVHCDMEGAIGKSEETVLHEHYSVIRI
TYLIGDDDVVLVSKIIPTITPNWSRILYLYKLYWKDVSIISLKTSNPAST
ELYLISKDAYCTIMEPSEVVLSKLKRLSLLEENNLLKWIILSKKRNNEWL
HHEIKEGERDYGVMRPYHMALQIFGFQINLNHLAKEFLSTPDLTNINNII
QSFQRTIKDVLFEWININKGKLRLLSRRLVLSWISLSLSTRLLTGRFPDE
KFEHRAQTGYVSLADTDLESLKLLSKNIIKNYRECIGSISYWFLTKEVKI
LMKLIGGAKLLGIP
3D structure
PDB8kdc Structural basis for dimerization of a paramyxovirus polymerase complex.
ChainA
Resolution3.3 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.1.1.-
2.1.1.375: NNS virus cap methyltransferase.
2.7.7.48: RNA-directed RNA polymerase.
2.7.7.88: GDP polyribonucleotidyltransferase.
3.6.1.-
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 ZN A C1177 H1364 H1366 C1140 H1319 H1321
BS02 ZN A C1132 E1164 C1371 C1095 E1127 C1326
Gene Ontology
Molecular Function
GO:0003924 GTPase activity
GO:0003968 RNA-dependent RNA polymerase activity
GO:0004482 mRNA 5'-cap (guanine-N7-)-methyltransferase activity
GO:0005524 ATP binding
GO:0008168 methyltransferase activity
GO:0016740 transferase activity
GO:0016787 hydrolase activity
GO:0034062 5'-3' RNA polymerase activity
Biological Process
GO:0001172 RNA-templated transcription
GO:0006139 nucleobase-containing compound metabolic process
GO:0006370 7-methylguanosine mRNA capping
GO:0032259 methylation
GO:0106005 RNA 5'-cap (guanine-N7)-methylation
Cellular Component
GO:0005737 cytoplasm
GO:0030430 host cell cytoplasm
GO:0044423 virion component

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8kdc, PDBe:8kdc, PDBj:8kdc
PDBsum8kdc
PubMed38605025
UniProtO89238

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