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Protein

Pre-mRNA-splicing factor 8 homolog

Gene

prp-8

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Functions as a scaffold that mediates the ordered assembly of spliceosomal proteins and snRNAs. Required for the assembly of the U4/U6-U5 tri-snRNP complex. Functions as scaffold that positions spliceosomal U2, U5 and U6 snRNAs at splice sites on pre-mRNA substrates, so that splicing can occur. Interacts with both the 5' and the 3' splice site.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-CEL-72163. mRNA Splicing - Major Pathway.
R-CEL-72165. mRNA Splicing - Minor Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-splicing factor 8 homolog
Gene namesi
Name:prp-8
ORF Names:C50C3.6
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome III

Organism-specific databases

WormBaseiC50C3.6; CE00122; WBGene00004187; prp-8.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000970391 – 2329Pre-mRNA-splicing factor 8 homologAdd BLAST2329

Proteomic databases

EPDiP34369.
PaxDbiP34369.
PeptideAtlasiP34369.
PRIDEiP34369.

PTM databases

iPTMnetiP34369.

Expressioni

Gene expression databases

BgeeiWBGene00004187.

Interactioni

Subunit structurei

Part of the U5 snRNP complex and of the U4/U6-U5 tri-snRNP complex.By similarity

Protein-protein interaction databases

BioGridi41358. 2 interactors.
DIPiDIP-27427N.
MINTiMINT-1103137.
STRINGi6239.C50C3.6.

Structurei

Secondary structure

12329
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi2063 – 2073Combined sources11
Helixi2074 – 2081Combined sources8
Beta strandi2082 – 2085Combined sources4
Beta strandi2092 – 2094Combined sources3
Beta strandi2096 – 2100Combined sources5
Helixi2101 – 2109Combined sources9
Beta strandi2113 – 2115Combined sources3
Beta strandi2118 – 2124Combined sources7
Beta strandi2132 – 2139Combined sources8
Beta strandi2142 – 2145Combined sources4
Turni2160 – 2164Combined sources5
Beta strandi2165 – 2176Combined sources12
Helixi2183 – 2195Combined sources13
Turni2201 – 2203Combined sources3
Beta strandi2205 – 2212Combined sources8
Beta strandi2215 – 2223Combined sources9
Helixi2225 – 2233Combined sources9
Helixi2246 – 2248Combined sources3
Beta strandi2249 – 2257Combined sources9
Beta strandi2263 – 2267Combined sources5
Helixi2278 – 2280Combined sources3
Beta strandi2289 – 2291Combined sources3
Helixi2300 – 2302Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2P87X-ray2.30A2057-2329[»]
2P8RX-ray2.10A2057-2329[»]
ProteinModelPortaliP34369.
SMRiP34369.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP34369.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2092 – 2226MPNAdd BLAST135

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni804 – 1295Reverse transcriptase homology domainAdd BLAST492
Regioni1296 – 1570LinkerAdd BLAST275
Regioni1506 – 1519Important for branch point selectionBy similarityAdd BLAST14
Regioni1574 – 1745Restriction endonuclease homology domainAdd BLAST172
Regioni1760 – 2013RNase H homology domainAdd BLAST254

Domaini

The MPN (JAB/Mov34) domain has structural similarity with deubiquitinating enzymes, but lacks the residues that would bind the catalytic metal ion.
Contains a region with structural similarity to reverse transcripase, presenting the classical thumb, fingers and palm architecture, but lacks enzyme activity, since the essential metal-binding residues are not conserved.By similarity
Contains a region with structural similarity to type-2 restriction endonucleases, but the residues that would bind catalytic metal ions in endonucleases are instead involved in hydrogen bonds that stabilize the protein structure.By similarity
Contains a region with structural similarity to RNase H, but lacks RNase H activity.By similarity

Sequence similaritiesi

Contains 1 MPN (JAB/Mov34) domain.Curated

Phylogenomic databases

eggNOGiKOG1795. Eukaryota.
COG5178. LUCA.
GeneTreeiENSGT00390000015210.
HOGENOMiHOG000184103.
InParanoidiP34369.
KOiK12856.
OMAiRNQNEEF.
OrthoDBiEOG091G003B.
PhylomeDBiP34369.

Family and domain databases

CDDicd13838. RNase_H_like_Prp8_IV. 1 hit.
InterProiIPR000555. JAMM/MPN+_dom.
IPR012591. PRO8NT.
IPR012592. PROCN.
IPR012984. PROCT.
IPR027652. PRP8.
IPR021983. PRP8_domainIV.
IPR019581. Prp8_U5-snRNA-bd.
IPR019580. Prp8_U6-snRNA-bd.
IPR012337. RNaseH-like_dom.
IPR019582. RRM_spliceosomal_PrP8.
[Graphical view]
PANTHERiPTHR11140. PTHR11140. 1 hit.
PfamiPF01398. JAB. 1 hit.
PF08082. PRO8NT. 1 hit.
PF08083. PROCN. 1 hit.
PF08084. PROCT. 1 hit.
PF12134. PRP8_domainIV. 1 hit.
PF10598. RRM_4. 1 hit.
PF10597. U5_2-snRNA_bdg. 1 hit.
PF10596. U6-snRNA_bdg. 1 hit.
[Graphical view]
ProDomiPD149576. Pre-mRNA-splicing_factor-8. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00232. JAB_MPN. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 2 hits.

Sequencei

Sequence statusi: Complete.

P34369-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MANYGGHPQT EPHAIPDSIL EEKSRKWKQL QGKRYSEKKK FGMSDTQKEE
60 70 80 90 100
MPPEHVRKVI RDHGDMTSRK YRHDKRVYLG ALKYMPHAVL KLLENMPMPW
110 120 130 140 150
EQIRDVKVLY HITGAITFVN DIPRVIEPVY MAQWGTMWIM MRREKRDRRH
160 170 180 190 200
FKRMRFPPFD DEEPPLDYAD NILDVEPLEP IQMELDPEED GAVAEWFYDH
210 220 230 240 250
KPLATTRFVN GPTYRKWAFS IPQMSTLYRL ANQLLTDLVD DNYFYLFDMK
260 270 280 290 300
SFFTAKALNV AIPGGPKFEP LVKDLHTDED WNEFNDINKV IIRAPIRTEY
310 320 330 340 350
RIAFPFMYNN LISSLPVQVS WYHTPSVVFI KTEDPDLPAF YYDPLINPIV
360 370 380 390 400
LSNLKATEEN LPEGEEEDEW ELPEDVRPIF EDVPLYTDNT ANGLALLWAP
410 420 430 440 450
RPFNLRSGRT RRAVDVPLVK SWYREHCPAG MPVKVRVSYQ KLLKVFVLNA
460 470 480 490 500
LKHRPPKPQK RRYLFRSFKA TKFFQTTTLD WVEAGLQVLR QGYNMLNLLI
510 520 530 540 550
HRKNLNYLHL DYNFNLKPVK TLTTKERKKS RFGNAFHLCR EILRLTKLVV
560 570 580 590 600
DAHVQYRLNN VDAYQLADGL QYIFAHVGQL TGMYRYKYKL MRQVRMCKDL
610 620 630 640 650
KHLIYYRFNT GPVGKGPGCG FWAPGWRVWL FFLRGITPLL ERWLGNLLSR
660 670 680 690 700
QFEGRHSKGV AKTVTKQRVE SHFDLELRAA VMHDILDMMP DGIKQNKARV
710 720 730 740 750
ILQHLSEAWR CWKANIPWKV PGLPTPVENM ILRYVKAKAD WWTNSAHYNR
760 770 780 790 800
ERVRRGATVD KTVCKKNLGR LTRLYLKSEQ ERQHNYLKDG PYISAEEAVA
810 820 830 840 850
IYTTTVHWLE SRRFSPIPFP PLSYKHDTKL LILALERLKE SYSVKNRLNQ
860 870 880 890 900
SQREELALIE QAYDNPHEAL SRIKRHMLTQ RAFKEVGIEF MDLYTHLIPV
910 920 930 940 950
YDIEPLEKVT DAYLDQYLWY EADKRRLFPA WVKPGDTEPP PLLTYKWCQG
960 970 980 990 1000
LNNLQDVWET SEGECNVIME TKLEKIAEKM DLTLLNRLLR LIVDHNIADY
1010 1020 1030 1040 1050
MTSKNNVLIN YKDMNHTNSF GIIRGLQFAS FIVQFYGLVL DLLVLGLRRA
1060 1070 1080 1090 1100
SEIAGPPQCP NEFLQFQDVA TEIGHPIRLY CRYIDRVWIM FRFSADEARD
1110 1120 1130 1140 1150
LIQRYLTEHP DPNNENIVGY NNKKCWPRDA RMRLMKHDVN LGRAVFWDIK
1160 1170 1180 1190 1200
NRLPRSITTV EWENSFVSVY SKDNPNMLFD MSGFECRILP KCRTANEEFV
1210 1220 1230 1240 1250
HRDGVWNLQN EVTKERTAQC FLKVDEESLS KFHNRIRQIL MSSGSTTFTK
1260 1270 1280 1290 1300
IVNKWNTALI GLMTYFREAV VNTQELLDLL VKCENKIQTR IKIGLNSKMP
1310 1320 1330 1340 1350
SRFPPVVFYT PKEIGGLGML SMGHVLIPQS DLRWMQQTEA GGVTHFRSGM
1360 1370 1380 1390 1400
SHDEDQLIPN LYRYIQPWEA EFVDSVRVWA EYALKRQEAN AQNRRLTLED
1410 1420 1430 1440 1450
LDDSWDRGIP RINTLFQKDR HTLAYDKGWR VRTEFKAYQI LKQNPFWWTH
1460 1470 1480 1490 1500
QRHDGKLWNL NNYRTDMIQA LGGVEGILEH TLFRGTYFPT WEGLFWERAS
1510 1520 1530 1540 1550
GFEESMKFKK LTNAQRSGLN QIPNRRFTLW WSPTINRANV YVGFQVQLDL
1560 1570 1580 1590 1600
TGIFMHGKIP TLKISLIQIF RAHLWQKIHE SVVMDLCQVF DQELDALEIQ
1610 1620 1630 1640 1650
TVQKETIHPR KSYKMNSSCA DVLLFAQYKW NVSRPSLMAD SKDVMDNTTT
1660 1670 1680 1690 1700
QKYWLDVQLR WGDYDSHDVE RYARAKFLDY TTDNMSIYPS PTGVLIAIDL
1710 1720 1730 1740 1750
AYNLYSAYGN WFPGMKPLIR QAMAKIIKAN PAFYVLRERI RKGLQLYSSE
1760 1770 1780 1790 1800
PTEPYLTSQN YGELFSNQII WFVDDTNVYR VTIHKTFEGN LTTKPINGAI
1810 1820 1830 1840 1850
FIFNPRTGQL FLKIIHTSVW AGQKRLSQLA KWKTAEEVAA LIRSLPVEEQ
1860 1870 1880 1890 1900
PRQIIVTRKA MLDPLEVHLL DFPNIVIKGS ELMLPFQAIM KVEKFGDLIL
1910 1920 1930 1940 1950
KATEPQMVLF NLYDDWLKTI SSYTAFSRVV LIMRGMHINP DKTKVILKPD
1960 1970 1980 1990 2000
KTTITEPHHI WPTLSDDDWI KVELALKDMI LADYGKKNNV NVASLTQSEV
2010 2020 2030 2040 2050
RDIILGMEIS APSQQRQQIA DIEKQTKEQS QVTATTTRTV NKHGDEIITA
2060 2070 2080 2090 2100
TTSNYETASF ASRTEWRVRA ISSTNLHLRT QHIYVNSDDV KDTGYTYILP
2110 2120 2130 2140 2150
KNILKKFITI SDLRTQIAGF MYGVSPPDNP QVKEIRCIVL VPQTGSHQQV
2160 2170 2180 2190 2200
NLPTQLPDHE LLRDFEPLGW MHTQPNELPQ LSPQDVTTHA KLLTDNISWD
2210 2220 2230 2240 2250
GEKTVMITCS FTPGSVSLTA YKLTPSGYEW GKANTDKGNN PKGYMPTHYE
2260 2270 2280 2290 2300
KVQMLLSDRF LGYFMVPSNG VWNYNFQGQR WSPAMKFDVC LSNPKEYYHE
2310 2320
DHRPVHFHNF KAFDDPLGTG SADREDAFA
Length:2,329
Mass (Da):272,028
Last modified:February 1, 1994 - v1
Checksum:i626F9F97C800960C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080718 Genomic DNA. Translation: CCD66122.1.
PIRiS44625.
RefSeqiNP_498785.1. NM_066384.4.
UniGeneiCel.38725.

Genome annotation databases

EnsemblMetazoaiC50C3.6; C50C3.6; WBGene00004187.
GeneIDi176153.
KEGGicel:CELE_C50C3.6.
UCSCiC50C3.6. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080718 Genomic DNA. Translation: CCD66122.1.
PIRiS44625.
RefSeqiNP_498785.1. NM_066384.4.
UniGeneiCel.38725.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2P87X-ray2.30A2057-2329[»]
2P8RX-ray2.10A2057-2329[»]
ProteinModelPortaliP34369.
SMRiP34369.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi41358. 2 interactors.
DIPiDIP-27427N.
MINTiMINT-1103137.
STRINGi6239.C50C3.6.

PTM databases

iPTMnetiP34369.

Proteomic databases

EPDiP34369.
PaxDbiP34369.
PeptideAtlasiP34369.
PRIDEiP34369.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiC50C3.6; C50C3.6; WBGene00004187.
GeneIDi176153.
KEGGicel:CELE_C50C3.6.
UCSCiC50C3.6. c. elegans.

Organism-specific databases

CTDi176153.
WormBaseiC50C3.6; CE00122; WBGene00004187; prp-8.

Phylogenomic databases

eggNOGiKOG1795. Eukaryota.
COG5178. LUCA.
GeneTreeiENSGT00390000015210.
HOGENOMiHOG000184103.
InParanoidiP34369.
KOiK12856.
OMAiRNQNEEF.
OrthoDBiEOG091G003B.
PhylomeDBiP34369.

Enzyme and pathway databases

ReactomeiR-CEL-72163. mRNA Splicing - Major Pathway.
R-CEL-72165. mRNA Splicing - Minor Pathway.

Miscellaneous databases

EvolutionaryTraceiP34369.
PROiP34369.

Gene expression databases

BgeeiWBGene00004187.

Family and domain databases

CDDicd13838. RNase_H_like_Prp8_IV. 1 hit.
InterProiIPR000555. JAMM/MPN+_dom.
IPR012591. PRO8NT.
IPR012592. PROCN.
IPR012984. PROCT.
IPR027652. PRP8.
IPR021983. PRP8_domainIV.
IPR019581. Prp8_U5-snRNA-bd.
IPR019580. Prp8_U6-snRNA-bd.
IPR012337. RNaseH-like_dom.
IPR019582. RRM_spliceosomal_PrP8.
[Graphical view]
PANTHERiPTHR11140. PTHR11140. 1 hit.
PfamiPF01398. JAB. 1 hit.
PF08082. PRO8NT. 1 hit.
PF08083. PROCN. 1 hit.
PF08084. PROCT. 1 hit.
PF12134. PRP8_domainIV. 1 hit.
PF10598. RRM_4. 1 hit.
PF10597. U5_2-snRNA_bdg. 1 hit.
PF10596. U6-snRNA_bdg. 1 hit.
[Graphical view]
ProDomiPD149576. Pre-mRNA-splicing_factor-8. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00232. JAB_MPN. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 2 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiPRP8_CAEEL
AccessioniPrimary (citable) accession number: P34369
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: November 2, 2016
This is version 121 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.