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Q17551

- RPM1_CAEEL

UniProt

Q17551 - RPM1_CAEEL

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Protein
E3 ubiquitin-protein ligase rpm-1
Gene
rpm-1, syd-3, C01B7.6
Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins, including dlk-1. Negatively regulates a p38 MAP kinase pathway composed of dlk-1, mkk-4, and pmk-3 that functions presynaptically to regulate synaptic architecture. Has a role during synaptogenesis; regulates neuronal morphology, specifically presynaptic differentiation. May regulate the spatial arrangement of presynaptic terminals or restrict their development.3 Publications

Pathwayi

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri3331 – 337949B box-type
Add
BLAST
Zinc fingeri3517 – 356852RING-type; atypical
Add
BLAST

GO - Molecular functioni

  1. ligase activity Source: UniProtKB-KW
  2. mitogen-activated protein kinase kinase kinase binding Source: WormBase
  3. protein binding Source: IntAct
  4. ubiquitin-protein transferase activity Source: WormBase
  5. zinc ion binding Source: InterPro

GO - Biological processi

  1. body morphogenesis Source: WormBase
  2. locomotion Source: WormBase
  3. negative regulation of MAPK cascade Source: WormBase
  4. oviposition Source: WormBase
  5. regulation of protein stability Source: WormBase
  6. regulation of synapse organization Source: WormBase
  7. regulation of transcription, DNA-templated Source: UniProtKB-KW
  8. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Transcription, Transcription regulation, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

SignaLinkiQ17551.
UniPathwayiUPA00143.

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase rpm-1 (EC:6.3.2.-)
Alternative name(s):
Pam/highwire/rpm-1 protein
Regulator of presynaptic morphology protein 1
Synapse defective protein 3
Gene namesi
Name:rpm-1
Synonyms:syd-3
ORF Names:C01B7.6
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940: Chromosome V

Organism-specific databases

WormBaseiC01B7.6; CE06730; WBGene00004457; rpm-1.

Subcellular locationi

Nucleus By similarity By similarity

GO - Cellular componenti

  1. axon Source: WormBase
  2. neuromuscular junction Source: WormBase
  3. nucleus Source: UniProtKB-SubCell
  4. presynaptic periactive zone Source: WormBase
  5. synapse Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

In mutants, mechanosensory neurons fail to accumulate tagged vesicles, retract synaptic branches and ectopically extend axons. Some motor neurons branch and overgrow, others show altered synaptic organization.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi3597 – 35971R → C in ky346; total number of the synaptic vesicle GFP puncta is reduced. 1 Publication
Mutagenesisi3675 – 36751C → Y in ju44; total number of the synaptic vesicle GFP puncta is reduced. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37663766E3 ubiquitin-protein ligase rpm-1
PRO_0000055970Add
BLAST

Proteomic databases

PaxDbiQ17551.
PRIDEiQ17551.

Expressioni

Tissue specificityi

Expression is seen in the pharynx, coelomocytes and distal tip cell. Most abundant expression is in axons of the nerve ring neuropil. Expression is not seen in body wall muscle, hypodermis or intestine.2 Publications

Developmental stagei

First expressed in comma stage embryos and persists through to adulthood.1 Publication

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
Rae1Q3SWS82EBI-6920110,EBI-6920222From a different organism.

Protein-protein interaction databases

IntActiQ17551. 2 interactions.
STRINGi6239.C01B7.6.

Structurei

3D structure databases

ProteinModelPortaliQ17551.
SMRiQ17551. Positions 615-904, 1049-1205, 1503-1654, 3510-3574.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati631 – 68252RCC1 1
Add
BLAST
Repeati725 – 78460RCC1 2
Add
BLAST
Repeati785 – 83652RCC1 3
Add
BLAST
Repeati838 – 89255RCC1 4
Add
BLAST
Domaini2870 – 3046177DOC
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1056 – 1205150PHR domain 1 By similarity
Add
BLAST
Regioni1503 – 1655153PHR domain 2 By similarity
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi683 – 72543Cys-rich
Add
BLAST
Compositional biasi2508 – 253831Gly-rich
Add
BLAST

Domaini

The PHR domains are compact beta-sandwich folds composed of 11 antiparallel strands and decorated with conserved apical loops. They are likely to play a structural role and mediate interactions with substrates or partners By similarity.

Sequence similaritiesi

Belongs to the highwire family.
Contains 1 DOC domain.
Contains 4 RCC1 repeats.

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG240798.
GeneTreeiENSGT00390000011403.
HOGENOMiHOG000016145.
InParanoidiQ17551.
KOiK10693.
OMAiLPMIFNS.
OrthoDBiEOG75B84C.
PhylomeDBiQ17551.

Family and domain databases

Gene3Di2.130.10.30. 1 hit.
2.60.120.260. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR004939. APC_su10/DOC_dom.
IPR008979. Galactose-bd-like.
IPR027047. Highwire/Pam/Rpm-1.
IPR012983. PHR.
IPR009091. RCC1/BLIP-II.
IPR000408. Reg_chr_condens.
IPR000315. Znf_B-box.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR12846:SF17. PTHR12846:SF17. 1 hit.
PfamiPF08005. PHR. 2 hits.
PF00415. RCC1. 1 hit.
PF00643. zf-B_box. 1 hit.
PF13639. zf-RING_2. 1 hit.
[Graphical view]
SMARTiSM00336. BBOX. 1 hit.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF49785. SSF49785. 1 hit.
SSF50985. SSF50985. 2 hits.
PROSITEiPS51284. DOC. 1 hit.
PS00626. RCC1_2. 1 hit.
PS50012. RCC1_3. 1 hit.
PS50119. ZF_BBOX. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q17551-1 [UniParc]FASTAAdd to Basket

« Hide

MSFFLREIDG ERVCSTSTET SIPEDRKSAR RLRKLLYKCA ENTCKPDILR     50
VPAHCGKLDK EEEKSKTPLD QQQQINFHDI LNSKFVVGPP SPFALVAIAK 100
SILARFGNPE EVSEKEDGSE EEAGTSGADE EGKQYKNTDQ LVGASLTCIF 150
EVLEQLSRRD AELCVQALES LLSLIQSMPI DCLQSENRLS MSAMMHVLKT 200
LREDACPSVS SKATSCLVAL SVACGEPEHL GSTIRSLICM KKNIRMSADS 250
TYDMIQMPEN LRKLLLKVRR KALGGDNTAN SPPNWAMVDV HEHSVASSFS 300
LPSLPDSSPS SDTPDDDNRI HSTMACDGTF LYILNYVGLY KLGTGLNETI 350
SGKLYAANQS LQSSKNVQMY LCNGSLYLRR NYSSCISVID TDSLLDIGEV 400
ILPPSCVQHA LFTDGTYFYS ATLIANSTLS TIQLNDSFSP SNEPSSRRSH 450
RLTDVKFTIQ GDLQVPHQLP EFLPANLHPQ TVDLHFTREM AFIQARSGKV 500
YYAGNGTRFG LFETGNNWME LCLPEPIVQI SVGIDTIMFR SGAGHGWIAS 550
VDDKKRNGRL RRLVPSNRRK IVHVCASGHV YGYVSENGKI FMGGLHTMRV 600
NVSSQMLNGL DNVMISSLAL GKSHGVAVTR NGHLFTWGLN NMNQCGRVES 650
TSTTSSPRHS GRQEYQICPI GEHTWLTDTP SVCAQCGLCS ARGVACGRVP 700
RPKGTMCHCG VGESTCLRCG LCRPCGEVTE PAQPGRAQHV QFSSTAAPQR 750
STLHPSRVIL SQGPHDVKVS SVSCGNFHTV LLASDRRVFT FGSNCHGQLG 800
VGDTLSKNTP QQVILPSDTV IVQVAAGSNH TILRANDGSV FTFGAFGKGQ 850
LARPAGEKAG WNAIPEKVSG FGPGFNAFAG WIGADGDSSI IHSHTALLSS 900
DNILKAQIVA NKTNIFIFPR EVGKDYIVIR RKLNVFEHHA SDYKCWYTSW 950
ATDPKYDMLW YYNSAEMEIK GYDIFKKSEK SVGDAFDSLT FLAGAEFAVQ 1000
VYDSPAYATS MSLGMQLLSA TFSANVINLS EFWKEKHGER EQDHEKTIMD 1050
GYSVANRFDG TGGGWGYSAN SVEAIQFKVS KEIRLVGVGL YGGRGEYISK 1100
LKLYRQIGTE ADELYVEQIT ETDETVYDCG AHETATLLFS QPIVIQPNHW 1150
HVVSAKISGP SSDCGANGKR HVECDGVTFQ FRKSAVSNNG TDVDVGQIPE 1200
LYYQIVGGSE SRDESDSNKQ LSISRDMSNL FSPAALKNVT AEGIGNLLIL 1250
LEWALQRVQI DEDTNNQVEG SAENQWSQER AGFVAILSMK LISRFVRTVY 1300
KEKGCHDEPG IDFANKLVNL HSMLLEFFFS TDMTGYENRP LIKKEEKVVE 1350
EGYTLMKCVS EAVKLFISLS HCFMGSRSLM NAHLIAVMNK GNHEALILTS 1400
AIIGSLAKIE RFAHQLLCST TTTERFPMLS SLLLKHFNCE KETLASLTSF 1450
PNILRFLYDQ TFMRNAYENT SSLAEAILVK VSRDLAIPTD DTLMGPVVHQ 1500
TSSRFRRRSA QPTWDMSDGC ADAIAFRVDS EGIKLHGFGI YLPTEPDRRN 1550
FVGEIMMLSP DSSEKWTCLL RVTAEMSSEE KEVGIVRFPE YVLLSPGVTY 1600
AVKVNMMKNT KTFCGEGGVT QVHLLNGARL FFSGCSMSQN GTTVQRGQLP 1650
YLIYSILDQS NSLQIKQETI YDTFTLLLRL MANKIGAAIT EGGALPACCQ 1700
HLMSHINPHV MVYMERFPDK ALEMMSTMEQ LIPMVSNLNG VERVFHSYDS 1750
DDSGCDTPYS GIVTTVVESQ HPYKPNTSSS MVLLFEEADY ICVRFSPDCQ 1800
TAQFDDQLTI YLKIDEHSYM PIERCYGSEW PSYPMILPGN CLMFVLDASS 1850
AVEGATSEQM FGYHVTVTGY LVGYNDSTMR LEQDLVWLSA NACRIMTQLP 1900
INPSNIEHLS TAEDDTRHLF EKHGSLLKKG LSLSHSPTLS ELCTKGQPPP 1950
AQSADLQFLR EFLSGHTSTS AGFLAKWLPT GSVVDASKCQ LSLSHDDLIV 2000
GKAVTLKLLC KDQYDREVDC PKLQVEVFAS LGHRNPSSTI HQNLHIGNLP 2050
SSLLIHQNPF QPIIVNHTRY MNIAAMPAYA NYSVEEIRLG FMIEELVKDR 2100
VPLKSSDSSL FSGTWTPTTA GKYRIECKVD GSDISHTYTV EVTERPHRAG 2150
KGTITKPSGS RRGAQMTVAR TVSIPFSSDF SGIRMRLGTT LASTSVGVIP 2200
RGALVEFIEE MDNDDGKWIR LTDETALLYG CNQGVGQVWC LAYHRPLQRE 2250
LIPLKADTDR EKAVKLRRKE IEKESNGSKH HSVSIDAKET YILSPNDVLQ 2300
VYSTPAPHSM IDGEKIIGPC DLMSSGWLAN RHGVWIKLTG VEKYVLQKND 2350
PSSETSLSFS TNGNDEEDLE RPIERKKTRL PNALTPSVAD CIRAVFAAFV 2400
WHEHLVKDLM AAAAYLRFHQ NLHNIWQSCE IPSCTNAPAA LQPIVKIWRE 2450
ICEVVETSVE QHLIMPPVSN KAMRAETVKP PSRSGGCELC DANITVPLTV 2500
HLRMAHPGCG GDCLGYGYNS NGKFTTGWSG ECGAGGRGQS PWYLLCNTCR 2550
SQYLKKTPAG HHQERTRRWR EFRFSTSASD ARPEVIIRQN AMFLLDLNSR 2600
LQTESNSSST ATSGWTINLF PTHLSTPSTM PRSQQKRLDV PPNNSVHQNS 2650
YMKLGYSSDP GPKVNVIMSP PNQGADQSAS LNRPGPSAIN EPAEVLQSPS 2700
AALRTLFSNT NPSTSALLKR PVLAFCVEHH DLKRIKSACV QSVRRAVAFS 2750
HAFRVWNWLL RMVSSEYSVS DIILQYLTTL TSYNRLAEYM FSAKKNSNIL 2800
PHPWRLCFLA GPIAADMVTQ LHAFLHTVSI ILQSAGVDGR LKSLCFKSWT 2850
LQLTAQEQDL LILTCNILGT VGGILSDTSI LDSDNRFVKE MKDITKFADI 2900
TASSRQAMVI CLTDESGETF WESGEEDKNR SRSLSVQLDE SAHGEILSLF 2950
IDNARDEGYR ISSIAFKAIL EDGRRKDLTS LTLESAYCGW LKCCIKDISH 3000
IQIQFKGPNP ASRIRQLMIL GYPAKTTGTP RLAPSTSHHL FFSDTQRDAF 3050
ALFQAISSQA FCGELSEDDT LRERVIDLLF SRVQLYPLQN YVYTQVVQAM 3100
EKEVELLCDK SKRNYSYCCG LMSLLVRICD SRGNMDSFGQ RNSVLTSITQ 3150
LLIFSPVVVQ RQCLNSLECI FASFTPSNVE VPKIIRNLLV VVGKVIQLQV 3200
RDKAAHTVVT VHLCSSVLNA PQNWRVDKSI DMDIGRQTAV LVENLCNGTY 3250
TPEWSNATKC ELANCLLSLI QMPESVSYTE TLSTGGKSKA VAVVSSKRFW 3300
TAISSLSLIK DKSWLELSER WKTVQDEEDQ EPVLLCENHD DGHTVAQVFC 3350
VDCDVALCKE CFTVMHLHKK NRNHGVKNLV QSSTQHDINI HQGCARMKFL 3400
NFLILFHGEA LNGMVEVAAD TLFPTSTSSI QPAMQSSSAF LGIHPMTCRF 3450
CGNNVPVEDQ SLDGTCTHED CVNYAKTACQ VMHTCNHFCG GIRNEEECLP 3500
CMTCKREDAA QDGDDVCVIC FTERLGAAPC IRLGCGHMFH FHCVRMILER 3550
RWNGPRIVFR FMQCPLCIQP IEHSGLQDLI EPLKTIRQEV VDKAKMRLEY 3600
DGLLTTPALT DPRSEFYNQP EEYALDRYMY VLCHKCKKAY FGGESRCQAA 3650
LDSSQFNPEE LLCGGCSDTS GVQVCPRHGV EYLEYKCRFC CSIAVYFCFG 3700
TTHFCAPCHD DFQRLMSLPK HLLPTCPVGP RSTPMEEQTC PLKMKHPPTG 3750
DEFAMGCGIC RNISTF 3766
Length:3,766
Mass (Da):418,058
Last modified:November 1, 1996 - v1
Checksum:iEAB59E816C5BBF4D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FO080217 Genomic DNA. Translation: CCD62087.1.
PIRiT29165.
RefSeqiNP_505267.1. NM_072866.3.
UniGeneiCel.2746.

Genome annotation databases

EnsemblMetazoaiC01B7.6; C01B7.6; WBGene00004457.
GeneIDi179259.
KEGGicel:CELE_C01B7.6.
UCSCiC01B7.6. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FO080217 Genomic DNA. Translation: CCD62087.1 .
PIRi T29165.
RefSeqi NP_505267.1. NM_072866.3.
UniGenei Cel.2746.

3D structure databases

ProteinModelPortali Q17551.
SMRi Q17551. Positions 615-904, 1049-1205, 1503-1654, 3510-3574.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q17551. 2 interactions.
STRINGi 6239.C01B7.6.

Proteomic databases

PaxDbi Q17551.
PRIDEi Q17551.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblMetazoai C01B7.6 ; C01B7.6 ; WBGene00004457 .
GeneIDi 179259.
KEGGi cel:CELE_C01B7.6.
UCSCi C01B7.6. c. elegans.

Organism-specific databases

CTDi 179259.
WormBasei C01B7.6 ; CE06730 ; WBGene00004457 ; rpm-1.

Phylogenomic databases

eggNOGi NOG240798.
GeneTreei ENSGT00390000011403.
HOGENOMi HOG000016145.
InParanoidi Q17551.
KOi K10693.
OMAi LPMIFNS.
OrthoDBi EOG75B84C.
PhylomeDBi Q17551.

Enzyme and pathway databases

UniPathwayi UPA00143 .
SignaLinki Q17551.

Miscellaneous databases

NextBioi 904596.
PROi Q17551.

Family and domain databases

Gene3Di 2.130.10.30. 1 hit.
2.60.120.260. 1 hit.
3.30.40.10. 1 hit.
InterProi IPR004939. APC_su10/DOC_dom.
IPR008979. Galactose-bd-like.
IPR027047. Highwire/Pam/Rpm-1.
IPR012983. PHR.
IPR009091. RCC1/BLIP-II.
IPR000408. Reg_chr_condens.
IPR000315. Znf_B-box.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view ]
PANTHERi PTHR12846:SF17. PTHR12846:SF17. 1 hit.
Pfami PF08005. PHR. 2 hits.
PF00415. RCC1. 1 hit.
PF00643. zf-B_box. 1 hit.
PF13639. zf-RING_2. 1 hit.
[Graphical view ]
SMARTi SM00336. BBOX. 1 hit.
SM00184. RING. 1 hit.
[Graphical view ]
SUPFAMi SSF49785. SSF49785. 1 hit.
SSF50985. SSF50985. 2 hits.
PROSITEi PS51284. DOC. 1 hit.
PS00626. RCC1_2. 1 hit.
PS50012. RCC1_3. 1 hit.
PS50119. ZF_BBOX. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Regulation of presynaptic terminal organization by C. elegans RPM-1, a putative guanine nucleotide exchanger with a RING-H2 finger domain."
    Zhen M., Huang X., Bamber B., Jin Y.
    Neuron 26:331-343(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, TISSUE SPECIFICITY, MUTAGENESIS OF ARG-3597 AND CYS-3675.
    Strain: Bristol N2.
  2. "rpm-1, a conserved neuronal gene that regulates targeting and synaptogenesis in C. elegans."
    Schaefer A.M., Hadwiger G.D., Nonet M.L.
    Neuron 26:345-356(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
    Strain: Bristol N2.
  3. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.
  4. Bienvenut W.V.
    Submitted (MAR-2005) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 86-99; 341-351; 621-629; 736-749; 834-847; 858-865; 1045-1056; 1084-1093; 1225-1237; 1281-1290; 1426-1434; 1441-1480; 1588-1603; 1961-1988; 2089-2097; 2103-2122; 2171-2183; 2186-2201; 2408-2416 AND 2573-2588, IDENTIFICATION BY MASS SPECTROMETRY.
  5. "Regulation of a DLK-1 and p38 MAP kinase pathway by the ubiquitin ligase RPM-1 is required for presynaptic development."
    Nakata K., Abrams B., Grill B., Goncharov A., Huang X., Chisholm A.D., Jin Y.
    Cell 120:407-420(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiRPM1_CAEEL
AccessioniPrimary (citable) accession number: Q17551
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 21, 2005
Last sequence update: November 1, 1996
Last modified: September 3, 2014
This is version 117 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi