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Protein

RNA-binding protein MEX3D

Gene

Mex3d

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

RNA binding protein, may be involved in post-transcriptional regulatory mechanisms.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri592 – 63241RING-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • mRNA catabolic process Source: MGI
  • mRNA destabilization Source: BHF-UCL
  • RNA destabilization Source: MGI
Complete GO annotation...

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein MEX3D
Alternative name(s):
RING finger and KH domain-containing protein 1
Gene namesi
Name:Mex3d
Synonyms:Rkhd1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:2681847. Mex3d.

Subcellular locationi

  • Cytoplasm By similarity
  • Nucleus By similarity

  • Note: Predominantly expressed in the cytoplasm and shuttles between the cytoplasm and the nucleus through the CRM1 export pathway.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 643643RNA-binding protein MEX3DPRO_0000281676Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei495 – 4951PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ3UE17.
PaxDbiQ3UE17.
PRIDEiQ3UE17.

PTM databases

iPTMnetiQ3UE17.
PhosphoSiteiQ3UE17.

Expressioni

Gene expression databases

CleanExiMM_MEX3D.

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000057962.

Structurei

3D structure databases

ProteinModelPortaliQ3UE17.
SMRiQ3UE17. Positions 253-323, 590-637.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini160 – 22162KH 1PROSITE-ProRule annotationAdd
BLAST
Domaini253 – 31462KH 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi46 – 494Poly-Ala

Domaini

Binds RNA through its KH domains.By similarity

Sequence similaritiesi

Contains 2 KH domains.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri592 – 63241RING-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG2113. Eukaryota.
ENOG410YCYR. LUCA.
HOGENOMiHOG000236282.
HOVERGENiHBG071698.
InParanoidiQ3UE17.
KOiK15686.
PhylomeDBiQ3UE17.

Family and domain databases

Gene3Di3.30.1370.10. 2 hits.
3.30.40.10. 1 hit.
InterProiIPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00013. KH_1. 2 hits.
[Graphical view]
SMARTiSM00322. KH. 2 hits.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 2 hits.
PROSITEiPS50084. KH_TYPE_1. 2 hits.
PS50089. ZF_RING_2. 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: Q3UE17-1) [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
MPGSTGQPDA GGAGTGTTAG DPGHPHPALA GAEDAAPRPP PEPDDAAAAL
60 70 80 90 100
RLALDQLSAL GLGGARPGDE GMATRSADGA TECGEDEPAP PDELEVAVAP
110 120 130 140 150
PVTASVAPGG LPLLDPDVSP RPSPPDVFAS FAPHPAALGP STLLAEQLNV
160 170 180 190 200
IGSRKKSVNM TECVPVPSSE HVAEIVGRQG CKIKALRAKT NTYIKTPVRG
210 220 230 240 250
EEPVFIVTGR KEDVEMAKRE ILSAEHFSLI RATRSKAGGL SGATPGPPNL
260 270 280 290 300
PGQTTIQVRV PYRVVGLVVG PKGATIKRIQ QRTHTYIVTP GRDKEPVFAV
310 320 330 340 350
TGMPENVDRA REEIEAHITL RTGAFTDSGP DSDFHANGTD VCLDLLGAAA
360 370 380 390 400
SLWAKAPHPG RRPPAATGGL RGDNALGAAS TPEPFYVGSR GGPPLPDPSP
410 420 430 440 450
SSPYGGSGNG GFTFGGDGPS APTGTATPED CDFGFDFLAL DLTVPATATI
460 470 480 490 500
WAPFERAAPL PAFSGCPAVN GAPAQPNTGT RRSSGGGAAT TPRHSPTLPE
510 520 530 540 550
PGGLSLELPL ARRSVPDPVG AVPWRPPQSA LPPFSGSTTF STTPSLPSTT
560 570 580 590 600
LASSTLDTVP SEGNHKPSTT AANSSASTAA PGPPSAALAR ECVVCSEGEA
610 620 630 640
MAALVPCGHN LFCMDCAVRI CGKSEPECPA CRTPATQAIH IFS
Length:643
Mass (Da):65,329
Last modified:March 20, 2007 - v2
Checksum:iEB8EF02F788480F2
GO
Isoform 2 (identifier: Q3UE17-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-104: MPGSTGQPDA...EVAVAPPVTA → MGVGPSMALA...TLAPTMAVAS

Show »
Length:610
Mass (Da):62,094
Checksum:i3BC2585DA7B18B0D
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 104104MPGST…PPVTA → MGVGPSMALAPSVTCAPSMA LAPSVTSAPSMALAPSVTCA PCMAVAPSVTVAPSMALTPS VTLAPTMAVAS in isoform 2. 1 PublicationVSP_024020Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CAAA01108096 Genomic DNA. No translation available.
AC152062 Genomic DNA. No translation available.
AK149801 mRNA. Translation: BAE29094.1.
RefSeqiNP_941017.2. NM_198615.2.
UniGeneiMm.268389.

Genome annotation databases

GeneIDi237400.
KEGGimmu:237400.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CAAA01108096 Genomic DNA. No translation available.
AC152062 Genomic DNA. No translation available.
AK149801 mRNA. Translation: BAE29094.1.
RefSeqiNP_941017.2. NM_198615.2.
UniGeneiMm.268389.

3D structure databases

ProteinModelPortaliQ3UE17.
SMRiQ3UE17. Positions 253-323, 590-637.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000057962.

PTM databases

iPTMnetiQ3UE17.
PhosphoSiteiQ3UE17.

Proteomic databases

MaxQBiQ3UE17.
PaxDbiQ3UE17.
PRIDEiQ3UE17.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi237400.
KEGGimmu:237400.

Organism-specific databases

CTDi399664.
MGIiMGI:2681847. Mex3d.

Phylogenomic databases

eggNOGiKOG2113. Eukaryota.
ENOG410YCYR. LUCA.
HOGENOMiHOG000236282.
HOVERGENiHBG071698.
InParanoidiQ3UE17.
KOiK15686.
PhylomeDBiQ3UE17.

Miscellaneous databases

PROiQ3UE17.
SOURCEiSearch...

Gene expression databases

CleanExiMM_MEX3D.

Family and domain databases

Gene3Di3.30.1370.10. 2 hits.
3.30.40.10. 1 hit.
InterProiIPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00013. KH_1. 2 hits.
[Graphical view]
SMARTiSM00322. KH. 2 hits.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 2 hits.
PROSITEiPS50084. KH_TYPE_1. 2 hits.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  2. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-427 (ISOFORM 2).
    Strain: C57BL/6J.
    Tissue: Bone marrow.
  3. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-495, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Kidney and Testis.

Entry informationi

Entry nameiMEX3D_MOUSE
AccessioniPrimary (citable) accession number: Q3UE17
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 20, 2007
Last sequence update: March 20, 2007
Last modified: June 8, 2016
This is version 84 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  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.