Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q17551 (RPM1_CAEEL) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 116. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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 names
Name:rpm-1
Synonyms:syd-3
ORF Names:C01B7.6
OrganismCaenorhabditis elegans [Reference proteome]
Taxonomic identifier6239 [NCBI]
Taxonomic lineageEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis

Protein attributes

Sequence length3766 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.1 Ref.2 Ref.5

Pathway

Protein modification; protein ubiquitination.

Subcellular location

Nucleus By similarity UniProtKB O75592.

Tissue specificity

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. Ref.1 Ref.2

Developmental stage

First expressed in comma stage embryos and persists through to adulthood. Ref.2

Domain

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.

Disruption phenotype

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. Ref.2

Sequence similarities

Belongs to the highwire family.

Contains 1 B box-type zinc finger.

Contains 1 DOC domain.

Contains 4 RCC1 repeats.

Contains 1 RING-type zinc finger.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
Ubl conjugation pathway
   Cellular componentNucleus
   DomainRepeat
Zinc-finger
   LigandMetal-binding
Zinc
   Molecular functionLigase
   Technical termComplete proteome
Direct protein sequencing
Reference proteome
Gene Ontology (GO)
   Biological_processbody morphogenesis

Inferred from mutant phenotype Ref.2. Source: WormBase

locomotion

Inferred from genetic interaction Ref.5. Source: WormBase

negative regulation of MAPK cascade

Inferred from genetic interaction Ref.5. Source: WormBase

oviposition

Inferred from mutant phenotype Ref.2. Source: WormBase

regulation of protein stability

Inferred from mutant phenotype Ref.5. Source: WormBase

regulation of synapse organization

Inferred from mutant phenotype Ref.1Ref.2Ref.5. Source: WormBase

regulation of transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentaxon

Inferred from direct assay Ref.2PubMed 17698012. Source: WormBase

neuromuscular junction

Inferred from direct assay Ref.1. Source: WormBase

nucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

presynaptic periactive zone

Inferred from direct assay PubMed 18224716. Source: WormBase

synapse

Inferred from direct assay Ref.1. Source: WormBase

   Molecular_functionmitogen-activated protein kinase kinase kinase binding

Inferred from physical interaction Ref.5. Source: WormBase

protein binding

Inferred from physical interaction PubMed 22357847. Source: IntAct

ubiquitin-protein transferase activity

Inferred from direct assay Ref.5. Source: WormBase

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Rae1Q3SWS82EBI-6920110,EBI-6920222From a different organism.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 37663766E3 ubiquitin-protein ligase rpm-1
PRO_0000055970

Regions

Repeat631 – 68252RCC1 1
Repeat725 – 78460RCC1 2
Repeat785 – 83652RCC1 3
Repeat838 – 89255RCC1 4
Domain2870 – 3046177DOC
Zinc finger3331 – 337949B box-type
Zinc finger3517 – 356852RING-type; atypical
Region1056 – 1205150PHR domain 1 By similarity
Region1503 – 1655153PHR domain 2 By similarity
Compositional bias683 – 72543Cys-rich
Compositional bias2508 – 253831Gly-rich

Experimental info

Mutagenesis35971R → C in ky346; total number of the synaptic vesicle GFP puncta is reduced. Ref.1
Mutagenesis36751C → Y in ju44; total number of the synaptic vesicle GFP puncta is reduced. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Q17551 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: EAB59E816C5BBF4D

FASTA3,766418,058
        10         20         30         40         50         60 
MSFFLREIDG ERVCSTSTET SIPEDRKSAR RLRKLLYKCA ENTCKPDILR VPAHCGKLDK 

        70         80         90        100        110        120 
EEEKSKTPLD QQQQINFHDI LNSKFVVGPP SPFALVAIAK SILARFGNPE EVSEKEDGSE 

       130        140        150        160        170        180 
EEAGTSGADE EGKQYKNTDQ LVGASLTCIF EVLEQLSRRD AELCVQALES LLSLIQSMPI 

       190        200        210        220        230        240 
DCLQSENRLS MSAMMHVLKT LREDACPSVS SKATSCLVAL SVACGEPEHL GSTIRSLICM 

       250        260        270        280        290        300 
KKNIRMSADS TYDMIQMPEN LRKLLLKVRR KALGGDNTAN SPPNWAMVDV HEHSVASSFS 

       310        320        330        340        350        360 
LPSLPDSSPS SDTPDDDNRI HSTMACDGTF LYILNYVGLY KLGTGLNETI SGKLYAANQS 

       370        380        390        400        410        420 
LQSSKNVQMY LCNGSLYLRR NYSSCISVID TDSLLDIGEV ILPPSCVQHA LFTDGTYFYS 

       430        440        450        460        470        480 
ATLIANSTLS TIQLNDSFSP SNEPSSRRSH RLTDVKFTIQ GDLQVPHQLP EFLPANLHPQ 

       490        500        510        520        530        540 
TVDLHFTREM AFIQARSGKV YYAGNGTRFG LFETGNNWME LCLPEPIVQI SVGIDTIMFR 

       550        560        570        580        590        600 
SGAGHGWIAS VDDKKRNGRL RRLVPSNRRK IVHVCASGHV YGYVSENGKI FMGGLHTMRV 

       610        620        630        640        650        660 
NVSSQMLNGL DNVMISSLAL GKSHGVAVTR NGHLFTWGLN NMNQCGRVES TSTTSSPRHS 

       670        680        690        700        710        720 
GRQEYQICPI GEHTWLTDTP SVCAQCGLCS ARGVACGRVP RPKGTMCHCG VGESTCLRCG 

       730        740        750        760        770        780 
LCRPCGEVTE PAQPGRAQHV QFSSTAAPQR STLHPSRVIL SQGPHDVKVS SVSCGNFHTV 

       790        800        810        820        830        840 
LLASDRRVFT FGSNCHGQLG VGDTLSKNTP QQVILPSDTV IVQVAAGSNH TILRANDGSV 

       850        860        870        880        890        900 
FTFGAFGKGQ LARPAGEKAG WNAIPEKVSG FGPGFNAFAG WIGADGDSSI IHSHTALLSS 

       910        920        930        940        950        960 
DNILKAQIVA NKTNIFIFPR EVGKDYIVIR RKLNVFEHHA SDYKCWYTSW ATDPKYDMLW 

       970        980        990       1000       1010       1020 
YYNSAEMEIK GYDIFKKSEK SVGDAFDSLT FLAGAEFAVQ VYDSPAYATS MSLGMQLLSA 

      1030       1040       1050       1060       1070       1080 
TFSANVINLS EFWKEKHGER EQDHEKTIMD GYSVANRFDG TGGGWGYSAN SVEAIQFKVS 

      1090       1100       1110       1120       1130       1140 
KEIRLVGVGL YGGRGEYISK LKLYRQIGTE ADELYVEQIT ETDETVYDCG AHETATLLFS 

      1150       1160       1170       1180       1190       1200 
QPIVIQPNHW HVVSAKISGP SSDCGANGKR HVECDGVTFQ FRKSAVSNNG TDVDVGQIPE 

      1210       1220       1230       1240       1250       1260 
LYYQIVGGSE SRDESDSNKQ LSISRDMSNL FSPAALKNVT AEGIGNLLIL LEWALQRVQI 

      1270       1280       1290       1300       1310       1320 
DEDTNNQVEG SAENQWSQER AGFVAILSMK LISRFVRTVY KEKGCHDEPG IDFANKLVNL 

      1330       1340       1350       1360       1370       1380 
HSMLLEFFFS TDMTGYENRP LIKKEEKVVE EGYTLMKCVS EAVKLFISLS HCFMGSRSLM 

      1390       1400       1410       1420       1430       1440 
NAHLIAVMNK GNHEALILTS AIIGSLAKIE RFAHQLLCST TTTERFPMLS SLLLKHFNCE 

      1450       1460       1470       1480       1490       1500 
KETLASLTSF PNILRFLYDQ TFMRNAYENT SSLAEAILVK VSRDLAIPTD DTLMGPVVHQ 

      1510       1520       1530       1540       1550       1560 
TSSRFRRRSA QPTWDMSDGC ADAIAFRVDS EGIKLHGFGI YLPTEPDRRN FVGEIMMLSP 

      1570       1580       1590       1600       1610       1620 
DSSEKWTCLL RVTAEMSSEE KEVGIVRFPE YVLLSPGVTY AVKVNMMKNT KTFCGEGGVT 

      1630       1640       1650       1660       1670       1680 
QVHLLNGARL FFSGCSMSQN GTTVQRGQLP YLIYSILDQS NSLQIKQETI YDTFTLLLRL 

      1690       1700       1710       1720       1730       1740 
MANKIGAAIT EGGALPACCQ HLMSHINPHV MVYMERFPDK ALEMMSTMEQ LIPMVSNLNG 

      1750       1760       1770       1780       1790       1800 
VERVFHSYDS DDSGCDTPYS GIVTTVVESQ HPYKPNTSSS MVLLFEEADY ICVRFSPDCQ 

      1810       1820       1830       1840       1850       1860 
TAQFDDQLTI YLKIDEHSYM PIERCYGSEW PSYPMILPGN CLMFVLDASS AVEGATSEQM 

      1870       1880       1890       1900       1910       1920 
FGYHVTVTGY LVGYNDSTMR LEQDLVWLSA NACRIMTQLP INPSNIEHLS TAEDDTRHLF 

      1930       1940       1950       1960       1970       1980 
EKHGSLLKKG LSLSHSPTLS ELCTKGQPPP AQSADLQFLR EFLSGHTSTS AGFLAKWLPT 

      1990       2000       2010       2020       2030       2040 
GSVVDASKCQ LSLSHDDLIV GKAVTLKLLC KDQYDREVDC PKLQVEVFAS LGHRNPSSTI 

      2050       2060       2070       2080       2090       2100 
HQNLHIGNLP SSLLIHQNPF QPIIVNHTRY MNIAAMPAYA NYSVEEIRLG FMIEELVKDR 

      2110       2120       2130       2140       2150       2160 
VPLKSSDSSL FSGTWTPTTA GKYRIECKVD GSDISHTYTV EVTERPHRAG KGTITKPSGS 

      2170       2180       2190       2200       2210       2220 
RRGAQMTVAR TVSIPFSSDF SGIRMRLGTT LASTSVGVIP RGALVEFIEE MDNDDGKWIR 

      2230       2240       2250       2260       2270       2280 
LTDETALLYG CNQGVGQVWC LAYHRPLQRE LIPLKADTDR EKAVKLRRKE IEKESNGSKH 

      2290       2300       2310       2320       2330       2340 
HSVSIDAKET YILSPNDVLQ VYSTPAPHSM IDGEKIIGPC DLMSSGWLAN RHGVWIKLTG 

      2350       2360       2370       2380       2390       2400 
VEKYVLQKND PSSETSLSFS TNGNDEEDLE RPIERKKTRL PNALTPSVAD CIRAVFAAFV 

      2410       2420       2430       2440       2450       2460 
WHEHLVKDLM AAAAYLRFHQ NLHNIWQSCE IPSCTNAPAA LQPIVKIWRE ICEVVETSVE 

      2470       2480       2490       2500       2510       2520 
QHLIMPPVSN KAMRAETVKP PSRSGGCELC DANITVPLTV HLRMAHPGCG GDCLGYGYNS 

      2530       2540       2550       2560       2570       2580 
NGKFTTGWSG ECGAGGRGQS PWYLLCNTCR SQYLKKTPAG HHQERTRRWR EFRFSTSASD 

      2590       2600       2610       2620       2630       2640 
ARPEVIIRQN AMFLLDLNSR LQTESNSSST ATSGWTINLF PTHLSTPSTM PRSQQKRLDV 

      2650       2660       2670       2680       2690       2700 
PPNNSVHQNS YMKLGYSSDP GPKVNVIMSP PNQGADQSAS LNRPGPSAIN EPAEVLQSPS 

      2710       2720       2730       2740       2750       2760 
AALRTLFSNT NPSTSALLKR PVLAFCVEHH DLKRIKSACV QSVRRAVAFS HAFRVWNWLL 

      2770       2780       2790       2800       2810       2820 
RMVSSEYSVS DIILQYLTTL TSYNRLAEYM FSAKKNSNIL PHPWRLCFLA GPIAADMVTQ 

      2830       2840       2850       2860       2870       2880 
LHAFLHTVSI ILQSAGVDGR LKSLCFKSWT LQLTAQEQDL LILTCNILGT VGGILSDTSI 

      2890       2900       2910       2920       2930       2940 
LDSDNRFVKE MKDITKFADI TASSRQAMVI CLTDESGETF WESGEEDKNR SRSLSVQLDE 

      2950       2960       2970       2980       2990       3000 
SAHGEILSLF IDNARDEGYR ISSIAFKAIL EDGRRKDLTS LTLESAYCGW LKCCIKDISH 

      3010       3020       3030       3040       3050       3060 
IQIQFKGPNP ASRIRQLMIL GYPAKTTGTP RLAPSTSHHL FFSDTQRDAF ALFQAISSQA 

      3070       3080       3090       3100       3110       3120 
FCGELSEDDT LRERVIDLLF SRVQLYPLQN YVYTQVVQAM EKEVELLCDK SKRNYSYCCG 

      3130       3140       3150       3160       3170       3180 
LMSLLVRICD SRGNMDSFGQ RNSVLTSITQ LLIFSPVVVQ RQCLNSLECI FASFTPSNVE 

      3190       3200       3210       3220       3230       3240 
VPKIIRNLLV VVGKVIQLQV RDKAAHTVVT VHLCSSVLNA PQNWRVDKSI DMDIGRQTAV 

      3250       3260       3270       3280       3290       3300 
LVENLCNGTY TPEWSNATKC ELANCLLSLI QMPESVSYTE TLSTGGKSKA VAVVSSKRFW 

      3310       3320       3330       3340       3350       3360 
TAISSLSLIK DKSWLELSER WKTVQDEEDQ EPVLLCENHD DGHTVAQVFC VDCDVALCKE 

      3370       3380       3390       3400       3410       3420 
CFTVMHLHKK NRNHGVKNLV QSSTQHDINI HQGCARMKFL NFLILFHGEA LNGMVEVAAD 

      3430       3440       3450       3460       3470       3480 
TLFPTSTSSI QPAMQSSSAF LGIHPMTCRF CGNNVPVEDQ SLDGTCTHED CVNYAKTACQ 

      3490       3500       3510       3520       3530       3540 
VMHTCNHFCG GIRNEEECLP CMTCKREDAA QDGDDVCVIC FTERLGAAPC IRLGCGHMFH 

      3550       3560       3570       3580       3590       3600 
FHCVRMILER RWNGPRIVFR FMQCPLCIQP IEHSGLQDLI EPLKTIRQEV VDKAKMRLEY 

      3610       3620       3630       3640       3650       3660 
DGLLTTPALT DPRSEFYNQP EEYALDRYMY VLCHKCKKAY FGGESRCQAA LDSSQFNPEE 

      3670       3680       3690       3700       3710       3720 
LLCGGCSDTS GVQVCPRHGV EYLEYKCRFC CSIAVYFCFG TTHFCAPCHD DFQRLMSLPK 

      3730       3740       3750       3760 
HLLPTCPVGP RSTPMEEQTC PLKMKHPPTG DEFAMGCGIC RNISTF 

« Hide

References

« Hide 'large scale' references
[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
FO080217 Genomic DNA. Translation: CCD62087.1.
PIRT29165.
RefSeqNP_505267.1. NM_072866.3.
UniGeneCel.2746.

3D structure databases

ProteinModelPortalQ17551.
SMRQ17551. Positions 615-904, 1049-1205, 1503-1654, 3510-3574.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ17551. 2 interactions.
STRING6239.C01B7.6.

Proteomic databases

PaxDbQ17551.
PRIDEQ17551.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaC01B7.6; C01B7.6; WBGene00004457.
GeneID179259.
KEGGcel:CELE_C01B7.6.
UCSCC01B7.6. c. elegans.

Organism-specific databases

CTD179259.
WormBaseC01B7.6; CE06730; WBGene00004457; rpm-1.

Phylogenomic databases

eggNOGNOG240798.
GeneTreeENSGT00390000011403.
HOGENOMHOG000016145.
InParanoidQ17551.
KOK10693.
OMALPMIFNS.
OrthoDBEOG75B84C.
PhylomeDBQ17551.

Enzyme and pathway databases

SignaLinkQ17551.
UniPathwayUPA00143.

Family and domain databases

Gene3D2.130.10.30. 1 hit.
2.60.120.260. 1 hit.
3.30.40.10. 1 hit.
InterProIPR004939. 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]
PANTHERPTHR12846:SF17. PTHR12846:SF17. 1 hit.
PfamPF08005. PHR. 2 hits.
PF00415. RCC1. 1 hit.
PF00643. zf-B_box. 1 hit.
PF13639. zf-RING_2. 1 hit.
[Graphical view]
SMARTSM00336. BBOX. 1 hit.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMSSF49785. SSF49785. 1 hit.
SSF50985. SSF50985. 2 hits.
PROSITEPS51284. 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]
ProtoNetSearch...

Other

NextBio904596.
PROQ17551.

Entry information

Entry nameRPM1_CAEEL
AccessionPrimary (citable) accession number: Q17551
Entry history
Integrated into UniProtKB/Swiss-Prot: June 21, 2005
Last sequence update: November 1, 1996
Last modified: June 11, 2014
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

Caenorhabditis elegans

Caenorhabditis elegans: entries, gene names and cross-references to WormBase