P06447 · L_SENDZ
- ProteinRNA-directed RNA polymerase L
- GeneL
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids2228 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
RNA-directed RNA polymerase that catalyzes the transcription of viral mRNAs, their capping and polyadenylation. The template is composed of the viral RNA tightly encapsidated by the nucleoprotein (N). The viral polymerase binds to the genomic RNA at the 3' leader promoter, and transcribes subsequently all viral mRNAs with a decreasing efficiency. The first gene is the most transcribed, and the last the least transcribed. The viral phosphoprotein acts as a processivity factor. Capping is concommitant with initiation of mRNA transcription. Indeed, a GDP polyribonucleotidyl transferase (PRNTase) adds the cap structure when the nascent RNA chain length has reached few nucleotides. Ribose 2'-O methylation of viral mRNA cap precedes and facilitates subsequent guanine-N-7 methylation, both activities being carried by the viral polymerase. Polyadenylation of mRNAs occur by a stuttering mechanism at a slipery stop site present at the end viral genes. After finishing transcription of a mRNA, the polymerase can resume transcription of the downstream gene.
RNA-directed RNA polymerase that catalyzes the replication of viral genomic RNA. The template is composed of the viral RNA tightly encapsidated by the nucleoprotein (N). The replicase mode is dependent on intracellular N protein concentration. In this mode, the polymerase replicates the whole viral genome without recognizing transcriptional signals, and the replicated genome is not caped or polyadenylated.
Miscellaneous
Least abundant structural protein (approximately 50 copies per virion). Unstable in the absence of P protein.
Catalytic activity
- a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1)
- a 5'-end (5'-triphosphoguanosine)-adenylyl-adenylyl-cytidylyl-adenosine in mRNA + S-adenosyl-L-methionine = a 5'-end (5'-triphosphoguanosine)-(2'-O-methyladenylyl)-adenylyl-cytidylyl-adenosine in mRNA + H+ + S-adenosyl-L-homocysteine
- a 5'-end (5'-triphosphoguanosine)-(2'-O-methyladenylyl)-adenylyl-cytidylyl-adenosine in mRNA + S-adenosyl-L-methionine = a 5'-end (N7-methyl 5'-triphosphoguanosine)-(2'-O-methyladenylyl)-adenylyl-cytidylyl-adenosine in mRNA + S-adenosyl-L-homocysteine
- GTP + H2O = GDP + H+ + phosphate
pH Dependence
Optimum pH is 6 for mRNA (guanine-N7-)-methyltransferase activity.
Temperature Dependence
Optimum temperature is 30 degrees Celsius.
Features
Showing features for binding site.
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | host cell cytoplasm | |
Cellular Component | virion component | |
Molecular Function | ATP binding | |
Molecular Function | GTPase activity | |
Molecular Function | mRNA 5'-cap (guanine-N7-)-methyltransferase activity | |
Molecular Function | RNA-dependent RNA polymerase activity |
Keywords
- Molecular function
- Biological process
- Ligand
Names & Taxonomy
Protein names
- Recommended nameRNA-directed RNA polymerase L
- Short namesProtein L
- Alternative names
Including 4 domains:
- Recommended nameRNA-directed RNA polymerase
- EC number
- Recommended nameGTP phosphohydrolase
- EC number
- Recommended nameGDP polyribonucleotidyltransferase
- EC number
- Alternative names
- Recommended namemRNA cap methyltransferase
- EC number
- Alternative names
Gene names
Organism names
- Strains
- Taxonomic lineageViruses > Riboviria > Orthornavirae > Negarnaviricota > Haploviricotina > Monjiviricetes > Mononegavirales > Paramyxoviridae > Orthoparamyxovirinae > Respirovirus > Respirovirus muris
- Virus hosts
Accessions
- Primary accessionP06447
- Secondary accessions
Proteomes
Subcellular Location
Phenotypes & Variants
Features
Showing features for mutagenesis, natural variant.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Mutagenesis | 20-25 | Complete loss of P binding. | ||||
Sequence: LNSPIV → ANAPAA | ||||||
Mutagenesis | 29-33 | Complete loss of P binding. | ||||
Sequence: IAQLH → AAAAA | ||||||
Mutagenesis | 77-81 | 80% loss of P binding. | ||||
Sequence: QRTIK → ASAIA | ||||||
Natural variant | 96 | in strain: Mutant F1-R / T-5 revertant, Mutant ts-f1 and Mutant F1-R | ||||
Sequence: Q → H | ||||||
Mutagenesis | 173-177 | Complete loss of P binding. | ||||
Sequence: FLTWF → AAAWA | ||||||
Mutagenesis | 209-213 | Complete loss of P binding. | ||||
Sequence: YTLVT → AEAAA | ||||||
Mutagenesis | 235-238 | Complete loss of P binding. | ||||
Sequence: LVLM → AAAA | ||||||
Mutagenesis | 262-266 | 80% loss of P binding. | ||||
Sequence: ITSKG → AAGRA | ||||||
Mutagenesis | 287-291 | Complete loss of P binding. | ||||
Sequence: VIALL → AAAAA | ||||||
Mutagenesis | 345-347 | Complete loss of P binding. | ||||
Sequence: IFH → AAA | ||||||
Mutagenesis | 349-350 | 46% loss of transcription. Complete loss of replication. | ||||
Sequence: TS → DD | ||||||
Mutagenesis | 354-355 | 62% loss of transcription. complete loss of replication. | ||||
Sequence: KA → TG | ||||||
Mutagenesis | 362 | Complete loss of transcription and replication. | ||||
Sequence: R → A | ||||||
Mutagenesis | 363 | Complete loss of transcription and replication. | ||||
Sequence: T → S | ||||||
Mutagenesis | 366 | Complete loss of transcription and replication. | ||||
Sequence: H → A | ||||||
Mutagenesis | 368 | Loss of phosphoprotein binding. Complete loss of transcription and replication. | ||||
Sequence: S → R | ||||||
Mutagenesis | 370 | No effect. | ||||
Sequence: E → A | ||||||
Mutagenesis | 376-377 | 60% loss of transcription. 22% loss of replication. | ||||
Sequence: DK → EN | ||||||
Mutagenesis | 533-535 | 75% loss of replication. No loss of transcription. | ||||
Sequence: DEE → AAA | ||||||
Mutagenesis | 540 | Complete loss of transcription and replication. | ||||
Sequence: Y → E or Q | ||||||
Mutagenesis | 540 | 70% loss of transcription. | ||||
Sequence: Y → F | ||||||
Mutagenesis | 542-543 | Complete loss of transcription and replication. No effect on template binding. | ||||
Sequence: LK → AA | ||||||
Mutagenesis | 543 | Complete loss of transcription and replication. | ||||
Sequence: K → H, I, L, N, P, Q, R, S, T, or V | ||||||
Mutagenesis | 544-548 | Complete loss of transcription and replication. No effect on template binding. | ||||
Sequence: EKEIK → AAAIA | ||||||
Mutagenesis | 552 | 50% loss of transcription; complete loss of replication. No effect on template binding. | ||||
Sequence: R → A | ||||||
Mutagenesis | 556 | Complete loss of transcription and replication. No effect on template binding. | ||||
Sequence: K → A | ||||||
Mutagenesis | 562 | Complete loss of transcription and replication. No effect on template binding. | ||||
Sequence: R → A | ||||||
Mutagenesis | 569 | Complete loss of transcription and replication. | ||||
Sequence: E → A | ||||||
Natural variant | 581 | in strain: Mutant F1-R / T-5 revertant, Mutant ts-f1 and Mutant F1-R | ||||
Sequence: R → S | ||||||
Natural variant | 625 | in strain: Mutant F1-R / T-5 revertant and Mutant F1-R | ||||
Sequence: E → G | ||||||
Mutagenesis | 661 | Complete loss od transcription and replication. | ||||
Sequence: T → E or K | ||||||
Mutagenesis | 663 | Complete loss of transcription and replication. | ||||
Sequence: D → G, R, S, V, or Y | ||||||
Mutagenesis | 666 | 80% loss of transcription. Complete loss of replication. | ||||
Sequence: K → A | ||||||
Mutagenesis | 666 | Complete loss of transcription and replication. | ||||
Sequence: K → G, L, or V | ||||||
Mutagenesis | 666 | 76% loss of transcription. 40% loss of replication. | ||||
Sequence: K → R | ||||||
Mutagenesis | 668 | Complete loss of transcription and replication. | ||||
Sequence: C → K or L | ||||||
Mutagenesis | 668 | 40% loss of transcription. | ||||
Sequence: C → Y | ||||||
Mutagenesis | 734 | 26% loss of transcription. No effect on replication. | ||||
Sequence: N → E | ||||||
Mutagenesis | 736 | Complete loss of transcription and replication. | ||||
Sequence: R → D, E, or P | ||||||
Mutagenesis | 736 | 80% loss of transcription. 50% increase of replication. | ||||
Sequence: R → L or V | ||||||
Mutagenesis | 736 | 13% loss of transcription. No effect on replication. | ||||
Sequence: R → M | ||||||
Mutagenesis | 737 | Complete loss of transcription. 80% loss of replication. | ||||
Sequence: G → E | ||||||
Mutagenesis | 738 | Complete loss of transcription and replication. | ||||
Sequence: G → F | ||||||
Mutagenesis | 740 | Complete loss of transcription and replication. | ||||
Sequence: E → S | ||||||
Mutagenesis | 741 | Complete loss of transcription and replication. | ||||
Sequence: G → R | ||||||
Mutagenesis | 744 | Complete loss of transcription and replication. | ||||
Sequence: Q → K | ||||||
Natural variant | 752 | in strain: Mutant F1-R / T-5 revertant, Mutant ts-f1 and Mutant F1-R | ||||
Sequence: I → M | ||||||
Mutagenesis | 943-945 | No effect. | ||||
Sequence: MST → LNM | ||||||
Mutagenesis | 957-959 | 38% loss of transcription. | ||||
Sequence: AVA → VTS | ||||||
Mutagenesis | 963-966 | Complete loss of transcription and replication. | ||||
Sequence: DLKR → ALAA | ||||||
Natural variant | 971 | in strain: Mutant F1-R / T-5 revertant, Mutant ts-f1 and Mutant F1-R | ||||
Sequence: D → G | ||||||
Mutagenesis | 1004-1006 | Complete loss of transcription and replication. | ||||
Sequence: PHS → VCV | ||||||
Mutagenesis | 1011-1013 | 70% loss of transcription and replication. | ||||
Sequence: TII → RLL | ||||||
Mutagenesis | 1023-1024 | 30% loss of transcription and replication. | ||||
Sequence: QE → IH | ||||||
Mutagenesis | 1036-1037 | 25% loss of transcription. 40% loss of replication. | ||||
Sequence: ET → DD | ||||||
Mutagenesis | 1040-1042 | Complete loss of transcription and replication. | ||||
Sequence: EED → AAA | ||||||
Mutagenesis | 1051-1053 | Complete loss of transcription and replication. | ||||
Sequence: DRK → AAA | ||||||
Mutagenesis | 1065-1066 | 14% loss of transcription. 48% loss of replication. | ||||
Sequence: GN → DH | ||||||
Mutagenesis | 1097-1099 | 16% loss of transcription. 66% loss of replication. | ||||
Sequence: YGI → SRV | ||||||
Mutagenesis | 1149-1150 | 70% loss of transcription. | ||||
Sequence: TY → AR | ||||||
Mutagenesis | 1172-1174 | 30% loss of transcription. 27% loss of replication. | ||||
Sequence: EGS → RRH | ||||||
Natural variant | 1207 | in strain: Mutant F1-R / T-5 revertant, Mutant ts-f1 and Mutant F1-R | ||||
Sequence: C → S | ||||||
Mutagenesis | 1208-1210 | 80% loss of transcription. Complete loss replication. | ||||
Sequence: PAI → SSL | ||||||
Mutagenesis | 1220-1222 | Complete loss of transcription and replication. | ||||
Sequence: DER → AAA | ||||||
Mutagenesis | 1254-1255 | 90% loss of transcription and replication. | ||||
Sequence: DE → AA | ||||||
Mutagenesis | 1293-1294 | 86% loss of transcription. Complete loss of replication. | ||||
Sequence: KD → AA | ||||||
Mutagenesis | 1303-1305 | 15% loss of replication. 45% loss of replication. | ||||
Sequence: SAT → GTS | ||||||
Mutagenesis | 1333-1334 | 77% loss of transcription. 94% loss of replication. | ||||
Sequence: LV → FI | ||||||
Mutagenesis | 1351-1354 | Complete loss of transcription and replication. No effect on template binding or complex formation with P protein. | ||||
Sequence: RYKK → AAAA | ||||||
Mutagenesis | 1571 | Almost no effect. | ||||
Sequence: C → F, L, or S | ||||||
Mutagenesis | 1571 | Almost no effect. | ||||
Sequence: C → F or L | ||||||
Mutagenesis | 1571 | 80% loss of transcription and replication. | ||||
Sequence: C → G | ||||||
Mutagenesis | 1571 | Complete loss of transcription and replication. | ||||
Sequence: C → H or R | ||||||
Mutagenesis | 1571 | 30% loss of transcription. | ||||
Sequence: C → T | ||||||
Mutagenesis | 1571 | 120% increase of transcription. 70% increase of replication. | ||||
Sequence: C → V | ||||||
Mutagenesis | 1571 | 70% loss of transcription. Complete loss of replication. | ||||
Sequence: C → Y | ||||||
Mutagenesis | 1798-1800 | 80% loss of transcription. 27% loss of replication. | ||||
Sequence: KDR → AAA | ||||||
Mutagenesis | 1815-1817 | Complete loss of transcription and replication. | ||||
Sequence: DAT → KEI | ||||||
Mutagenesis | 1838-1839 | Complete loss of transcription and replication. | ||||
Sequence: RE → AA |
Variants
We now provide the "Disease & Variants" viewer in its own tab.
The viewer provides 6 variants from UniProt as well as other sources including ClinVar and dbSNP.
PTM/Processing
Features
Showing features for chain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000142740 | 1-2228 | RNA-directed RNA polymerase L | |||
Sequence: MDGQESSQNPSDILYPECHLNSPIVRGKIAQLHVLLDVNQPYRLKDDSIINITKHKIRNGGLSPRQIKIRSLGKALQRTIKDLDRYTFEPYPTYSQELLRLDIPEICDKIRSVFAVSDRLTRELSSGFQDLWLNIFKQLGNIEGREGYDPLQDIGTIPEITDKYSRNRWYRPFLTWFSIKYDMRWMQKTRPGGPLDTSNSHNLLECKSYTLVTYGDLVMILNKLTLTGYILTPELVLMYCDVVEGRWNMSAAGHLDKKSIGITSKGEELWELVDSLFSSLGEEIYNVIALLEPLSLALIQLNDPVIPLRGAFMRHVLTELQTVLTSRDVYTDAEADTIVESLLAIFHGTSIDEKAEIFSFFRTFGHPSLEAVTAADKVRAHMYAQKAIKLKTLYECHAVFCTIIINGYRERHGGQWPPCDFPDHVCLELRNAQGSNTAISYECAVDNYTSFIGFKFRKFIEPQLDEDLTIYMKDKALSPRKEAWDSVYPDSNLYYKAPESEETRRLIEVFINDENFNPEEIINYVESGDWLKDEEFNISYSLKEKEIKQEGRLFAKMTYKMRAVQVLAETLLAKGIGELFRENGMVKGEIDLLKRLTTLSVSGVPRTDSVYNNSKSSEKRNEGMENKNSGGYWDEKKRSRHEFKATDSSTDGYETLSCFLTTDLKKYCLNWRFESTALFGQRCNEIFGFKTFFNWMHPVLERCTIYVGDPYCPVADRMHRQLQDHADSGIFIHNPRGGIEGYCQKLWTLISISAIHLAAVRVGVRVSAMVQGDNQAIAVTSRVPVAQTYKQKKNHVYEEITKYFGALRHVMFDVGHELKLNETIISSKMFVYSKRIYYDGKILPQCLKALTKCVFWSETLVDENRSACSNISTSIAKAIENGYSPILGYCIALYKTCQQVCISLGMTINPTISPTVRDQYFKGKNWLRCAVLIPANVGGFNYMSTSRCFVRNIGDPAVAALADLKRFIRADLLDKQVLYRVMNQEPGDSSFLDWASDPYSCNLPHSQSITTIIKNITARSVLQESPNPLLSGLFTETSGEEDLNLASFLMDRKVILPRVAHEILGNSLTGVREAIAGMLDTTKSLVRASVRKGGLSYGILRRLVNYDLLQYETLTRTLRKPVKDNIEYEYMCSVELAVGLRQKMWIHLTYGRPIHGLETPDPLELLRGIFIEGSEVCKLCRSEGADPIYTWFYLPDNIDLDTLTNGCPAIRIPYFGSATDERSEAQLGYVRNLSKPAKAAIRIAMVYTWAYGTDEISWMEAALIAQTRANLSLENLKLLTPVSTSTNLSHRLKDTATQMKFSSATLVRASRFITISNDNMALKEAGESKDTNLVYQQIMLTGLSLFEFNMRYKKGSLGKPLILHLHLNNGCCIMESPQEANIPPRSTLDLEITQENNKLIYDPDPLKDVDLELFSKVRDVVHTVDMTYWSDDEVIRATSICTAMTIADTMSQLDRDNLKEMIALVNDDDVNSLITEFMVIDVPLFCSTFGGILVNQFAYSLYGLNIRGREEIWGHVVRILKDTSHAVLKVLSNALSHPKIFKRFWNAGVVEPVYGPNLSNQDKILLALSVCEYSVDLFMHDWQGGVPLEIFICDNDPDVADMRRSSFLARHLAYLCSLAEISRDGPRLESMNSLERLESLKSYLELTFLDDPVLRYSQLTGLVIKVFPSTLTYIRKSSIKVLRTRGIGVPEVLEDWDPEADNALLDGIAAEIQQNIPLGHQTRAPFWGLRVSKSQVLRLRGYKEITRGEIGRSGVGLTLPFDGRYLSHQLRLFGINSTSCLKALELTYLLSPLVDKDKDRLYLGEGAGAMLSCYDATLGPCINYYNSGVYSCDVNGQRELNIYPAEVALVGKKLNNVTSLGQRVKVLFNGNPGSTWIGNDECEALIWNELQNSSIGLVHCDMEGGDHKDDQVVLHEHYSVIRIAYLVGDRDVVLISKIAPRLGTDWTRQLSLYLRYWDEVNLIVLKTSNPASTEMYLLSRHPKSDIIEDSKTVLASLLPLSKEDSIKIEKWILIEKAKAHEWVTRELREGSSSSGMLRPYHQALQTFGFEPNLYKLSRDFLSTMNIADTHNCMIAFNRVLKDTIFEWARITESDKRLKLTGKYDLYPVRDSGKLKTISRRLVLSWISLSMSTRLVTGSFPDQKFEARLQLGIVSLSSREIRNLRVITKTLLDRFEDIIHSITYRFLTKEIKILMKILGAVKMFGARQNEYTTVIDDGSLGDIEPYDSS |
Interaction
Subunit
Homooligomer. Interacts with the P and C proteins. The L protein complexes with P protein to form the functional polymerase. C protein binding to L has an inhibitory effect.
Family & Domains
Features
Showing features for region, compositional bias, domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Region | 1-174 | Oligomerization domain | ||||
Sequence: MDGQESSQNPSDILYPECHLNSPIVRGKIAQLHVLLDVNQPYRLKDDSIINITKHKIRNGGLSPRQIKIRSLGKALQRTIKDLDRYTFEPYPTYSQELLRLDIPEICDKIRSVFAVSDRLTRELSSGFQDLWLNIFKQLGNIEGREGYDPLQDIGTIPEITDKYSRNRWYRPFL | ||||||
Region | 610-633 | Disordered | ||||
Sequence: VYNNSKSSEKRNEGMENKNSGGYW | ||||||
Compositional bias | 613-633 | Basic and acidic residues | ||||
Sequence: NSKSSEKRNEGMENKNSGGYW | ||||||
Domain | 656-840 | RdRp catalytic | ||||
Sequence: LSCFLTTDLKKYCLNWRFESTALFGQRCNEIFGFKTFFNWMHPVLERCTIYVGDPYCPVADRMHRQLQDHADSGIFIHNPRGGIEGYCQKLWTLISISAIHLAAVRVGVRVSAMVQGDNQAIAVTSRVPVAQTYKQKKNHVYEEITKYFGALRHVMFDVGHELKLNETIISSKMFVYSKRIYYDG | ||||||
Region | 1756-2228 | Involved in mRNA cap methylation | ||||
Sequence: GLTLPFDGRYLSHQLRLFGINSTSCLKALELTYLLSPLVDKDKDRLYLGEGAGAMLSCYDATLGPCINYYNSGVYSCDVNGQRELNIYPAEVALVGKKLNNVTSLGQRVKVLFNGNPGSTWIGNDECEALIWNELQNSSIGLVHCDMEGGDHKDDQVVLHEHYSVIRIAYLVGDRDVVLISKIAPRLGTDWTRQLSLYLRYWDEVNLIVLKTSNPASTEMYLLSRHPKSDIIEDSKTVLASLLPLSKEDSIKIEKWILIEKAKAHEWVTRELREGSSSSGMLRPYHQALQTFGFEPNLYKLSRDFLSTMNIADTHNCMIAFNRVLKDTIFEWARITESDKRLKLTGKYDLYPVRDSGKLKTISRRLVLSWISLSMSTRLVTGSFPDQKFEARLQLGIVSLSSREIRNLRVITKTLLDRFEDIIHSITYRFLTKEIKILMKILGAVKMFGARQNEYTTVIDDGSLGDIEPYDSS | ||||||
Domain | 1771-1978 | Mononegavirus-type SAM-dependent 2'-O-MTase | ||||
Sequence: RLFGINSTSCLKALELTYLLSPLVDKDKDRLYLGEGAGAMLSCYDATLGPCINYYNSGVYSCDVNGQRELNIYPAEVALVGKKLNNVTSLGQRVKVLFNGNPGSTWIGNDECEALIWNELQNSSIGLVHCDMEGGDHKDDQVVLHEHYSVIRIAYLVGDRDVVLISKIAPRLGTDWTRQLSLYLRYWDEVNLIVLKTSNPASTEMYLL |
Domain
The N-terminal part (about 1-400) seems to be involved in binding to the P protein.
Sequence similarities
Belongs to the paramyxovirus L protein family.
Family and domain databases
Sequence
- Sequence statusComplete
- Length2,228
- Mass (Da)252,867
- Last updated1988-01-01 v1
- Checksum074A4DFE8F8A37B5
Sequence caution
Features
Showing features for compositional bias.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 613-633 | Basic and acidic residues | ||||
Sequence: NSKSSEKRNEGMENKNSGGYW |
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
X03614 EMBL· GenBank· DDBJ | CAA27272.1 EMBL· GenBank· DDBJ | Genomic RNA | Different initiation | |
X03614 EMBL· GenBank· DDBJ | CAA27273.1 EMBL· GenBank· DDBJ | Genomic RNA | ||
M30202 EMBL· GenBank· DDBJ | AAB06283.1 EMBL· GenBank· DDBJ | Genomic RNA | ||
M30203 EMBL· GenBank· DDBJ | AAB06289.1 EMBL· GenBank· DDBJ | Genomic RNA | ||
M30204 EMBL· GenBank· DDBJ | AAB06201.1 EMBL· GenBank· DDBJ | Genomic RNA | ||
M69046 EMBL· GenBank· DDBJ | AAB06295.1 EMBL· GenBank· DDBJ | Genomic RNA |