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Protein

Ras-related protein Rab-40C

Gene

RAB40C

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.1 Publication

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi21 – 288GTPBy similarity
Nucleotide bindingi69 – 735GTPBy similarity
Nucleotide bindingi126 – 1294GTPBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Ubl conjugation pathway

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Enzyme and pathway databases

UniPathwayiUPA00143.

Names & Taxonomyi

Protein namesi
Recommended name:
Ras-related protein Rab-40C
Alternative name(s):
Rar-like protein
Ras-like protein family member 8C
SOCS box-containing protein RAR3
Gene namesi
Name:RAB40C
Synonyms:RARL, RASL8C
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

HGNCiHGNC:18285. RAB40C.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi212 – 2154LPLP → AAAA: Abolishes interaction with RNF7 and CUL5. 1 Publication
Mutagenesisi221 – 2222HL → AA: Abolishes interaction with RNF7. 1 Publication

Organism-specific databases

PharmGKBiPA34139.

Polymorphism and mutation databases

BioMutaiRAB40C.
DMDMi27734457.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 281281Ras-related protein Rab-40CPRO_0000121261Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi273 – 2731S-palmitoyl cysteineSequence analysis
Lipidationi278 – 2781S-geranylgeranyl cysteineBy similarity

Keywords - PTMi

Lipoprotein, Palmitate, Prenylation

Proteomic databases

PaxDbiQ96S21.
PRIDEiQ96S21.
TopDownProteomicsiQ96S21-1. [Q96S21-1]

PTM databases

iPTMnetiQ96S21.
PhosphoSiteiQ96S21.

Expressioni

Gene expression databases

BgeeiQ96S21.
CleanExiHS_RAB40C.
ExpressionAtlasiQ96S21. baseline and differential.
GenevisibleiQ96S21. HS.

Organism-specific databases

HPAiHPA055931.

Interactioni

Subunit structurei

Component of the probable SCF-like ECS(RAB40C) E3 ubiquitin-protein ligase complex which contains CUL5, RNF7/RBX2, Elongin BC complex and RAB40C. Interacts with CUL5, RNF7, TCEB1 and TCEB2.1 Publication

Protein-protein interaction databases

BioGridi121771. 11 interactions.
IntActiQ96S21. 6 interactions.
MINTiMINT-1419142.
STRINGi9606.ENSP00000248139.

Structurei

3D structure databases

ProteinModelPortaliQ96S21.
SMRiQ96S21. Positions 9-172.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini175 – 22854SOCS boxPROSITE-ProRule annotationAdd
BLAST

Domaini

The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module in different E3 ubiquitin ligase complexes.By similarity

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated
Contains 1 SOCS box domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0078. Eukaryota.
ENOG410XPUI. LUCA.
GeneTreeiENSGT00840000129698.
HOGENOMiHOG000233967.
HOVERGENiHBG009351.
InParanoidiQ96S21.
KOiK07928.
OMAiFCSGNDC.
PhylomeDBiQ96S21.
TreeFamiTF323230.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR001496. SOCS_box.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
PF07525. SOCS_box. 1 hit.
[Graphical view]
SMARTiSM00253. SOCS. 1 hit.
SM00969. SOCS_box. 1 hit.
[Graphical view]
SUPFAMiSSF158235. SSF158235. 1 hit.
SSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51419. RAB. 1 hit.
PS50225. SOCS. 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: Q96S21-1) [UniParc]FASTAAdd to basket

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
MGSQGSPVKS YDYLLKFLLV GDSDVGKGEI LESLQDGAAE SPYAYSNGID
60 70 80 90 100
YKTTTILLDG RRVKLELWDT SGQGRFCTIF RSYSRGAQGI LLVYDITNRW
110 120 130 140 150
SFDGIDRWIK EIDEHAPGVP RILVGNRLHL AFKRQVPTEQ ARAYAEKNCM
160 170 180 190 200
TFFEVSPLCN FNVIESFTEL SRIVLMRHGM EKIWRPNRVF SLQDLCCRAI
210 220 230 240 250
VSCTPVHLID KLPLPVTIKS HLKSFSMANG MNAVMMHGRS YSLASGAGGG
260 270 280
GSKGNSLKRS KSIRPPQSPP QNCSRSNCKI S
Length:281
Mass (Da):31,304
Last modified:December 1, 2001 - v1
Checksum:i478F974645AA91EC
GO
Isoform 2 (identifier: Q96S21-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     115-133: Missing.

Show »
Length:262
Mass (Da):29,226
Checksum:i8D0754A7549180B7
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti64 – 641K → R in AAH28696 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei115 – 13319Missing in isoform 2. 1 PublicationVSP_055835Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY823398 mRNA. Translation: AAV83924.1.
AE006464 Genomic DNA. Translation: AAK61236.1.
Z84479, Z98883 Genomic DNA. Translation: CAB06484.2.
Z98883, Z84479 Genomic DNA. Translation: CAM26443.1.
CH471112 Genomic DNA. Translation: EAW85791.1.
CH471112 Genomic DNA. Translation: EAW85792.1.
CH471112 Genomic DNA. Translation: EAW85793.1.
CH471112 Genomic DNA. Translation: EAW85794.1.
BC028696 mRNA. Translation: AAH28696.1.
CCDSiCCDS10413.1. [Q96S21-1]
RefSeqiNP_001166134.1. NM_001172663.1. [Q96S21-1]
NP_001166135.1. NM_001172664.1. [Q96S21-1]
NP_001166136.1. NM_001172665.1. [Q96S21-1]
NP_001166137.1. NM_001172666.1. [Q96S21-2]
NP_066991.3. NM_021168.4. [Q96S21-1]
UniGeneiHs.459630.

Genome annotation databases

EnsembliENST00000248139; ENSP00000248139; ENSG00000197562. [Q96S21-1]
ENST00000535977; ENSP00000438492; ENSG00000197562. [Q96S21-1]
ENST00000538492; ENSP00000438382; ENSG00000197562. [Q96S21-1]
ENST00000539661; ENSP00000445050; ENSG00000197562. [Q96S21-1]
GeneIDi57799.
KEGGihsa:57799.
UCSCiuc002chr.4. human. [Q96S21-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY823398 mRNA. Translation: AAV83924.1.
AE006464 Genomic DNA. Translation: AAK61236.1.
Z84479, Z98883 Genomic DNA. Translation: CAB06484.2.
Z98883, Z84479 Genomic DNA. Translation: CAM26443.1.
CH471112 Genomic DNA. Translation: EAW85791.1.
CH471112 Genomic DNA. Translation: EAW85792.1.
CH471112 Genomic DNA. Translation: EAW85793.1.
CH471112 Genomic DNA. Translation: EAW85794.1.
BC028696 mRNA. Translation: AAH28696.1.
CCDSiCCDS10413.1. [Q96S21-1]
RefSeqiNP_001166134.1. NM_001172663.1. [Q96S21-1]
NP_001166135.1. NM_001172664.1. [Q96S21-1]
NP_001166136.1. NM_001172665.1. [Q96S21-1]
NP_001166137.1. NM_001172666.1. [Q96S21-2]
NP_066991.3. NM_021168.4. [Q96S21-1]
UniGeneiHs.459630.

3D structure databases

ProteinModelPortaliQ96S21.
SMRiQ96S21. Positions 9-172.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121771. 11 interactions.
IntActiQ96S21. 6 interactions.
MINTiMINT-1419142.
STRINGi9606.ENSP00000248139.

PTM databases

iPTMnetiQ96S21.
PhosphoSiteiQ96S21.

Polymorphism and mutation databases

BioMutaiRAB40C.
DMDMi27734457.

Proteomic databases

PaxDbiQ96S21.
PRIDEiQ96S21.
TopDownProteomicsiQ96S21-1. [Q96S21-1]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000248139; ENSP00000248139; ENSG00000197562. [Q96S21-1]
ENST00000535977; ENSP00000438492; ENSG00000197562. [Q96S21-1]
ENST00000538492; ENSP00000438382; ENSG00000197562. [Q96S21-1]
ENST00000539661; ENSP00000445050; ENSG00000197562. [Q96S21-1]
GeneIDi57799.
KEGGihsa:57799.
UCSCiuc002chr.4. human. [Q96S21-1]

Organism-specific databases

CTDi57799.
GeneCardsiRAB40C.
HGNCiHGNC:18285. RAB40C.
HPAiHPA055931.
neXtProtiNX_Q96S21.
PharmGKBiPA34139.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0078. Eukaryota.
ENOG410XPUI. LUCA.
GeneTreeiENSGT00840000129698.
HOGENOMiHOG000233967.
HOVERGENiHBG009351.
InParanoidiQ96S21.
KOiK07928.
OMAiFCSGNDC.
PhylomeDBiQ96S21.
TreeFamiTF323230.

Enzyme and pathway databases

UniPathwayiUPA00143.

Miscellaneous databases

ChiTaRSiRAB40C. human.
GenomeRNAii57799.
PROiQ96S21.

Gene expression databases

BgeeiQ96S21.
CleanExiHS_RAB40C.
ExpressionAtlasiQ96S21. baseline and differential.
GenevisibleiQ96S21. HS.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR001496. SOCS_box.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
PF07525. SOCS_box. 1 hit.
[Graphical view]
SMARTiSM00253. SOCS. 1 hit.
SM00969. SOCS_box. 1 hit.
[Graphical view]
SUPFAMiSSF158235. SSF158235. 1 hit.
SSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51419. RAB. 1 hit.
PS50225. SOCS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequencing of E. coli expression clones for human proteins."
    Sievert V., Buessow K.
    Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
    Tissue: Brain.
  2. "Sequence, structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16."
    Daniels R.J., Peden J.F., Lloyd C., Horsley S.W., Clark K., Tufarelli C., Kearney L., Buckle V.J., Doggett N.A., Flint J., Higgs D.R.
    Hum. Mol. Genet. 10:339-352(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The sequence and analysis of duplication-rich human chromosome 16."
    Martin J., Han C., Gordon L.A., Terry A., Prabhakar S., She X., Xie G., Hellsten U., Chan Y.M., Altherr M., Couronne O., Aerts A., Bajorek E., Black S., Blumer H., Branscomb E., Brown N.C., Bruno W.J.
    , Buckingham J.M., Callen D.F., Campbell C.S., Campbell M.L., Campbell E.W., Caoile C., Challacombe J.F., Chasteen L.A., Chertkov O., Chi H.C., Christensen M., Clark L.M., Cohn J.D., Denys M., Detter J.C., Dickson M., Dimitrijevic-Bussod M., Escobar J., Fawcett J.J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Goodwin L.A., Grady D.L., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Hildebrand C.E., Huang W., Israni S., Jett J., Jewett P.B., Kadner K., Kimball H., Kobayashi A., Krawczyk M.-C., Leyba T., Longmire J.L., Lopez F., Lou Y., Lowry S., Ludeman T., Manohar C.F., Mark G.A., McMurray K.L., Meincke L.J., Morgan J., Moyzis R.K., Mundt M.O., Munk A.C., Nandkeshwar R.D., Pitluck S., Pollard M., Predki P., Parson-Quintana B., Ramirez L., Rash S., Retterer J., Ricke D.O., Robinson D.L., Rodriguez A., Salamov A., Saunders E.H., Scott D., Shough T., Stallings R.L., Stalvey M., Sutherland R.D., Tapia R., Tesmer J.G., Thayer N., Thompson L.S., Tice H., Torney D.C., Tran-Gyamfi M., Tsai M., Ulanovsky L.E., Ustaszewska A., Vo N., White P.S., Williams A.L., Wills P.L., Wu J.-R., Wu K., Yang J., DeJong P., Bruce D., Doggett N.A., Deaven L., Schmutz J., Grimwood J., Richardson P., Rokhsar D.S., Eichler E.E., Gilna P., Lucas S.M., Myers R.M., Rubin E.M., Pennacchio L.A.
    Nature 432:988-994(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Testis.
  6. "VHL-box and SOCS-box domains determine binding specificity for Cul2-Rbx1 and Cul5-Rbx2 modules of ubiquitin ligases."
    Kamura T., Maenaka K., Kotoshiba S., Matsumoto M., Kohda D., Conaway R.C., Conaway J.W., Nakayama K.I.
    Genes Dev. 18:3055-3065(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN AN E3 UBIQUITIN-PROTEIN LIGASE COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY, INTERACTION WITH CUL5; RNF7; TCEB1 AND TCEB2, MUTAGENESIS OF 212-LEU--PRO-215 AND 221-HIS-LEU-222.

Entry informationi

Entry nameiRB40C_HUMAN
AccessioniPrimary (citable) accession number: Q96S21
Secondary accession number(s): A2IDE2
, D3DU54, O60795, Q4TT41, Q5PXE8, Q6PIU5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2003
Last sequence update: December 1, 2001
Last modified: June 8, 2016
This is version 141 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 16
    Human chromosome 16: entries, gene names and cross-references to MIM
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  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.