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Protein

Regulating synaptic membrane exocytosis protein 1

Gene

Rims1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Rab effector involved in exocytosis. May act as scaffold protein that regulates neurotransmitter release at the active zone. Essential for maintaining normal probability of neurotransmitter release and for regulating release during short-term synaptic plasticity. Plays a role in dendrite formation by melanocytes.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri133 – 19361FYVE-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • protein kinase binding Source: UniProtKB
  • Rab GTPase binding Source: ParkinsonsUK-UCL
  • SH3 domain binding Source: RGD

GO - Biological processi

  • cell differentiation Source: UniProtKB-KW
  • exocytosis Source: UniProtKB-KW
  • intracellular protein transport Source: InterPro
  • long-term synaptic potentiation Source: RGD
  • neurotransmitter transport Source: UniProtKB-KW
  • positive regulation of excitatory postsynaptic potential Source: ParkinsonsUK-UCL
  • positive regulation of gene expression Source: ParkinsonsUK-UCL
  • positive regulation of inhibitory postsynaptic potential Source: ParkinsonsUK-UCL
  • positive regulation of synaptic vesicle fusion to presynaptic membrane Source: UniProtKB
  • positive regulation of synaptic vesicle priming Source: ParkinsonsUK-UCL
Complete GO annotation...

Keywords - Biological processi

Differentiation, Exocytosis, Neurotransmitter transport, Transport

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Regulating synaptic membrane exocytosis protein 1
Alternative name(s):
Rab-3-interacting molecule 1
Short name:
RIM 1
Gene namesi
Name:Rims1
Synonyms:Rim1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi620000. Rims1.

Subcellular locationi

GO - Cellular componenti

  • cell junction Source: UniProtKB-KW
  • intracellular Source: GOC
  • plasma membrane Source: ParkinsonsUK-UCL
  • presynaptic active zone Source: InterPro
  • presynaptic membrane Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Synapse

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 16151615Regulating synaptic membrane exocytosis protein 1PRO_0000190200Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei514 – 5141PhosphoserineCombined sources
Modified residuei592 – 5921PhosphoserineCombined sources
Modified residuei742 – 7421PhosphoserineCombined sources
Modified residuei745 – 7451PhosphoserineBy similarity
Modified residuei895 – 8951PhosphoserineBy similarity
Modified residuei991 – 9911PhosphoserineCombined sources
Modified residuei1045 – 10451PhosphoserineBy similarity
Modified residuei1175 – 11751PhosphoserineCombined sources
Modified residuei1177 – 11771PhosphothreonineCombined sources
Modified residuei1179 – 11791PhosphoserineCombined sources
Modified residuei1231 – 12311PhosphoserineCombined sources
Modified residuei1233 – 12331PhosphoserineCombined sources
Modified residuei1234 – 12341PhosphoserineCombined sources
Modified residuei1262 – 12621PhosphoserineBy similarity
Modified residuei1263 – 12631PhosphoserineBy similarity
Modified residuei1265 – 12651PhosphoserineBy similarity
Modified residuei1339 – 13391PhosphoserineCombined sources
Modified residuei1600 – 16001PhosphoserineCombined sources
Modified residuei1603 – 16031PhosphoserineCombined sources
Modified residuei1606 – 16061PhosphoserineBy similarity
Modified residuei1615 – 16151PhosphoserineBy similarity

Post-translational modificationi

Phosphorylated by BRSK1.1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiQ9JIR4.

PTM databases

iPTMnetiQ9JIR4.
PhosphoSiteiQ9JIR4.

Expressioni

Tissue specificityi

Highly expressed in hippocampus, brain cortex, cerebellum and olfactory bulb. Detected at lower levels in midbrain, hindbrain and spinal cord. Detected retina and in spinal cord motor neurons.1 Publication

Interactioni

Subunit structurei

Interacts with RAB3C, RAB10, RAB26 AND RAB37 (By similarity). Binds SNAP25, SYT1 and CACNA1B. Interaction with SYT1 is enhanced by calcium ions. Interaction with SNAP25 is weaker in the presence of calcium ions. Binds RAB3A, RAB3B and RAB3D that have been activated by GTP-binding. Binds UNC13A. Interacts with TSPOAP1 and RIMBP2. Interacts with PPFIA3 and PPFIA4. Interacts with ERC1.By similarity5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
Cacna1aO703682EBI-3507436,EBI-3507514
Cacna1aP542824EBI-3507436,EBI-3507416
Cacna1bO890892EBI-3507436,EBI-3507539
Erc1Q811U38EBI-3507436,EBI-3507502

GO - Molecular functioni

  • protein kinase binding Source: UniProtKB
  • Rab GTPase binding Source: ParkinsonsUK-UCL
  • SH3 domain binding Source: RGD

Protein-protein interaction databases

DIPiDIP-41432N.
IntActiQ9JIR4. 6 interactions.
MINTiMINT-4998291.

Structurei

Secondary structure

1
1615
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi600 – 6034Combined sources
Beta strandi605 – 61612Combined sources
Beta strandi623 – 6253Combined sources
Beta strandi628 – 6369Combined sources
Beta strandi641 – 6433Combined sources
Beta strandi647 – 6526Combined sources
Helixi657 – 6604Combined sources
Beta strandi669 – 6735Combined sources
Helixi683 – 69412Combined sources
Beta strandi699 – 7035Combined sources
Beta strandi1450 – 14534Combined sources
Turni1456 – 14583Combined sources
Beta strandi1464 – 14729Combined sources
Beta strandi1475 – 148511Combined sources
Beta strandi1497 – 150610Combined sources
Beta strandi1509 – 15157Combined sources
Beta strandi1526 – 15327Combined sources
Beta strandi1540 – 154910Combined sources
Beta strandi1555 – 156410Combined sources
Helixi1566 – 15683Combined sources
Beta strandi1575 – 15806Combined sources
Helixi1584 – 15874Combined sources
Beta strandi1588 – 15925Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ZUBNMR-A597-705[»]
2Q3XX-ray1.73A/B1447-1615[»]
ProteinModelPortaliQ9JIR4.
SMRiQ9JIR4. Positions 131-193, 597-705, 759-885, 1447-1594.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9JIR4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini22 – 205184RabBDPROSITE-ProRule annotationAdd
BLAST
Domaini619 – 70587PDZPROSITE-ProRule annotationAdd
BLAST
Domaini758 – 864107C2 1PROSITE-ProRule annotationAdd
BLAST
Domaini1461 – 1563103C2 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi422 – 45534Ala-richAdd
BLAST
Compositional biasi444 – 48340Pro-richAdd
BLAST
Compositional biasi1259 – 130143Ser-richAdd
BLAST

Sequence similaritiesi

Contains 2 C2 domains.PROSITE-ProRule annotation
Contains 1 FYVE-type zinc finger.PROSITE-ProRule annotation
Contains 1 PDZ (DHR) domain.PROSITE-ProRule annotation
Contains 1 RabBD (Rab-binding) domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri133 – 19361FYVE-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

HOVERGENiHBG058147.
InParanoidiQ9JIR4.
KOiK15291.
PhylomeDBiQ9JIR4.

Family and domain databases

Gene3Di2.30.42.10. 1 hit.
2.60.40.150. 2 hits.
3.30.40.10. 2 hits.
InterProiIPR000008. C2_dom.
IPR001478. PDZ.
IPR010911. Rab_BD.
IPR030630. RIM1.
IPR017455. Znf_FYVE-rel.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR12157:SF19. PTHR12157:SF19. 2 hits.
PfamiPF00168. C2. 2 hits.
PF02318. FYVE_2. 1 hit.
PF00595. PDZ. 1 hit.
[Graphical view]
SMARTiSM00239. C2. 2 hits.
SM00228. PDZ. 1 hit.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
SSF50156. SSF50156. 1 hit.
SSF57903. SSF57903. 2 hits.
PROSITEiPS50004. C2. 2 hits.
PS50106. PDZ. 1 hit.
PS50916. RABBD. 1 hit.
PS50178. ZF_FYVE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9JIR4-1) [UniParc]FASTAAdd to basket
Also known as: Rim1B

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSSAVGPRGP RPPTVPPPMQ ELPDLSHLTE EERNIIMAVM DRQKEEEEKE
60 70 80 90 100
EAMLKCVVRD MAKPAACKTP RNAESQPHQP PLNIFRCVCV PRKPSSEEGG
110 120 130 140 150
PERDWRLHQQ FESYKEQVRK IGEEARRYQG EHKDDAPTCG ICHKTKFADG
160 170 180 190 200
CGHLCSYCRT KFCARCGGRV SLRSNNEDKV VMWVCNLCRK QQEILTKSGA
210 220 230 240 250
WFFGSGPQQP SQDGTLSDTA TGAGSEVPRE KKARLQERSR SQTPLSTAAV
260 270 280 290 300
SSQDTATPGA PLHRNKGAEP SQQALGPEQK QASRSRSEPP RERKKAPGLS
310 320 330 340 350
EQNGKGGQKS ERKRVPKSVV QPGEGIADER ERKERRETRR LEKGRSQDYS
360 370 380 390 400
DRPEKRDNGR VAEDQKQRKE EEYQTRYRSD PNLARYPVKA PPEEQQMRMH
410 420 430 440 450
ARVSRARHER RHSDVALPHT EAAAAAPAEA TAGKRAPATA RVSPPESPRA
460 470 480 490 500
RAAAAQPPTE HGPPPPRPAP GPAEPPEPRV PEPLRKQGRL DPGSAVLLRK
510 520 530 540 550
AKREKAESML RNDSLSSDQS ESVRPSPPKP HRPKRGGKRR QMSVSSSEEE
560 570 580 590 600
GVSTPEYTSC EDVELESESV SEKGDLDYYW LDPATWHSRE TSPISSHPVT
610 620 630 640 650
WQPSKEGDRL IGRVILNKRT TMPKESGALL GLKVVGGKMT DLGRLGAFIT
660 670 680 690 700
KVKKGSLADV VGHLRAGDEV LEWNGKPLPG ATNEEVYNII LESKSEPQVE
710 720 730 740 750
IIVSRPIGDI PRIPESSHPP LESSSSSFES QKMERPSISV ISPTSPGALK
760 770 780 790 800
DAPQVLPGQL SVKLWYDKVG HQLIVNVLQA TDLPPRVDGR PRNPYVKMYF
810 820 830 840 850
LPDRSDKSKR RTKTVKKLLE PKWNQTFVYS HVHRRDFRER MLEITVWDQP
860 870 880 890 900
RVQDEESEFL GEILIELETA LLDDEPHWYK LQTHDESSLP LPQPSPFMPR
910 920 930 940 950
RHIHGESSSK KLQRSQRISD SDISDYEVDD GIGVVPPVGY RASARESKAT
960 970 980 990 1000
TLTVPEQQRT THHRSRSVSP HRGDDQGRPR SRLPNVPLQR SLDEIHPTRR
1010 1020 1030 1040 1050
SRSPTRHHDA SRSPADHRSR HVESQYSSEP DSELLMLPRA KRGRSAESLH
1060 1070 1080 1090 1100
MTSELQPSLD RARSASTNCL RPDTSLHSPE RERHSRKSER CSIQKQSRKG
1110 1120 1130 1140 1150
TASDADRVLP PCLSRRGYAT PRATDQPVVR GKYPTRSRSS EHSSVRTLCS
1160 1170 1180 1190 1200
MHHLAPGGSA PPSPLLLTRT HRQGSPTQSP PADTSFGSRR GRQLPQVPVR
1210 1220 1230 1240 1250
SGSIEQASLV VEERTRQMKV KVHRFKQTTG SGSSQELDHE QYSKYNIHKD
1260 1270 1280 1290 1300
QYRSCDNASA KSSDSDVSDV SAISRASSTS RLSSTSFMSE QSERPRGRIS
1310 1320 1330 1340 1350
SFTPKMQGRR MGTSGRAIIK STSVSGEIYT LERNDGSQSD TAVGTVGAGG
1360 1370 1380 1390 1400
KKRRSSLSAK VVAIVSRRSR STSQLSQTES GHKKLKSTIQ RSTETGMAAE
1410 1420 1430 1440 1450
MRKMVRQPSR ESTDGSINSY SSEGNLIFPG VRVGPDSQFS DFLDGLGPAQ
1460 1470 1480 1490 1500
LVGRQTLATP AMGDIQIGME DKKGQLEVEV IRARSLTQKP GSKSTPAPYV
1510 1520 1530 1540 1550
KVYLLENGAC IAKKKTRIAR KTLDPLYQQS LVFDESPQGK VLQVIVWGDY
1560 1570 1580 1590 1600
GRMDHKCFMG VAQILLEELD LSSMVIGWYK LFPPSSLVDP TLAPLTRRAS
1610
QSSLESSSGP PCIRS
Length:1,615
Mass (Da):179,655
Last modified:October 1, 2000 - v1
Checksum:i80E76F74BF35FB7E
GO
Isoform 2 (identifier: Q9JIR4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1107-1168: Missing.

Show »
Length:1,553
Mass (Da):172,965
Checksum:iD6643997E65D03EE
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1107 – 116862Missing in isoform 2. 1 PublicationVSP_008172Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF007836 mRNA. Translation: AAB66703.1.
AF199333 mRNA. Translation: AAF81655.1.
PIRiT03301.
RefSeqiNP_439894.1. NM_052829.1. [Q9JIR4-2]
UniGeneiRn.10799.

Genome annotation databases

GeneIDi84556.
KEGGirno:84556.
UCSCiRGD:620000. rat. [Q9JIR4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF007836 mRNA. Translation: AAB66703.1.
AF199333 mRNA. Translation: AAF81655.1.
PIRiT03301.
RefSeqiNP_439894.1. NM_052829.1. [Q9JIR4-2]
UniGeneiRn.10799.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ZUBNMR-A597-705[»]
2Q3XX-ray1.73A/B1447-1615[»]
ProteinModelPortaliQ9JIR4.
SMRiQ9JIR4. Positions 131-193, 597-705, 759-885, 1447-1594.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-41432N.
IntActiQ9JIR4. 6 interactions.
MINTiMINT-4998291.

PTM databases

iPTMnetiQ9JIR4.
PhosphoSiteiQ9JIR4.

Proteomic databases

PRIDEiQ9JIR4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi84556.
KEGGirno:84556.
UCSCiRGD:620000. rat. [Q9JIR4-1]

Organism-specific databases

CTDi22999.
RGDi620000. Rims1.

Phylogenomic databases

HOVERGENiHBG058147.
InParanoidiQ9JIR4.
KOiK15291.
PhylomeDBiQ9JIR4.

Miscellaneous databases

EvolutionaryTraceiQ9JIR4.
PROiQ9JIR4.

Family and domain databases

Gene3Di2.30.42.10. 1 hit.
2.60.40.150. 2 hits.
3.30.40.10. 2 hits.
InterProiIPR000008. C2_dom.
IPR001478. PDZ.
IPR010911. Rab_BD.
IPR030630. RIM1.
IPR017455. Znf_FYVE-rel.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR12157:SF19. PTHR12157:SF19. 2 hits.
PfamiPF00168. C2. 2 hits.
PF02318. FYVE_2. 1 hit.
PF00595. PDZ. 1 hit.
[Graphical view]
SMARTiSM00239. C2. 2 hits.
SM00228. PDZ. 1 hit.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
SSF50156. SSF50156. 1 hit.
SSF57903. SSF57903. 2 hits.
PROSITEiPS50004. C2. 2 hits.
PS50106. PDZ. 1 hit.
PS50916. RABBD. 1 hit.
PS50178. ZF_FYVE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRIMS1_RAT
AccessioniPrimary (citable) accession number: Q9JIR4
Secondary accession number(s): O35168
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 29, 2003
Last sequence update: October 1, 2000
Last modified: July 6, 2016
This is version 130 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. 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.