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Protein

RNA-binding protein MEX3D

Gene

MEX3D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 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 fingeri600 – 64041RING-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • AU-rich element binding Source: BHF-UCL
  • poly(A) RNA binding Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • mRNA destabilization Source: BHF-UCL
  • mRNA localization resulting in posttranscriptional regulation of gene expression Source: BHF-UCL
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
RING finger protein 193
TINO
Gene namesi
Name:MEX3D
Synonyms:KIAA2031, RKHD1, RNF193
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:16734. 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

  • nucleus Source: BHF-UCL
  • perinuclear region of cytoplasm Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162395829.

Polymorphism and mutation databases

BioMutaiMEX3D.
DMDMi134047829.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 651651RNA-binding protein MEX3DPRO_0000050123Add
BLAST

Post-translational modificationi

Phosphorylated.By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ86XN8.
PaxDbiQ86XN8.
PRIDEiQ86XN8.

PTM databases

PhosphoSiteiQ86XN8.

Expressioni

Tissue specificityi

Ubiquitously expressed in all the cell lines and tissues tested.1 Publication

Gene expression databases

BgeeiQ86XN8.
CleanExiHS_MEX3D.
ExpressionAtlasiQ86XN8. baseline and differential.
GenevisibleiQ86XN8. HS.

Organism-specific databases

HPAiHPA065385.

Interactioni

Protein-protein interaction databases

BioGridi134376. 7 interactions.
STRINGi9606.ENSP00000373476.

Structurei

Secondary structure

1
651
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi273 – 2797Combined sources
Helixi282 – 2898Combined sources
Turni290 – 2934Combined sources
Helixi296 – 3027Combined sources
Beta strandi306 – 3083Combined sources
Beta strandi312 – 3143Combined sources
Beta strandi317 – 3226Combined sources
Turni324 – 3263Combined sources
Helixi327 – 33913Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DGRNMR-A272-341[»]
ProteinModelPortaliQ86XN8.
SMRiQ86XN8. Positions 273-343, 598-643.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ86XN8.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini179 – 24062KH 1PROSITE-ProRule annotationAdd
BLAST
Domaini273 – 33462KH 2PROSITE-ProRule annotationAdd
BLAST

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 fingeri600 – 64041RING-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG260228.
GeneTreeiENSGT00390000018714.
HOGENOMiHOG000236282.
HOVERGENiHBG071698.
InParanoidiQ86XN8.
KOiK15686.
OMAiSLWAKTP.
OrthoDBiEOG7D85WG.
PhylomeDBiQ86XN8.
TreeFamiTF315107.

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.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 2 hits.
PROSITEiPS50084. KH_TYPE_1. 2 hits.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q86XN8-1) [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
MPSSLGQPDG GGGGGGGGGG VGAAGEDPGP GPAPPPEGAQ EAAPAPRPPP
60 70 80 90 100
EPDDAAAALR LALDQLSALG LGGAGDTDEE GAAGDGAAAA GGADGGAAPE
110 120 130 140 150
PVPPDGPEAG APPTLAPAVA PGSLPLLDPN ASPPPPPPPR PSPPDVFAGF
160 170 180 190 200
APHPAALGPP TLLADQMSVI GSRKKSVNMT ECVPVPSSEH VAEIVGRQGC
210 220 230 240 250
KIKALRAKTN TYIKTPVRGE EPVFIVTGRK EDVEMAKREI LSAAEHFSII
260 270 280 290 300
RATRSKAGGL PGAAQGPPNL PGQTTIQVRV PYRVVGLVVG PKGATIKRIQ
310 320 330 340 350
QRTHTYIVTP GRDKEPVFAV TGMPENVDRA REEIEAHITL RTGAFTDAGP
360 370 380 390 400
DSDFHANGTD VCLDLLGAAA SLWAKTPNQG RRPPTATAGL RGDTALGAPS
410 420 430 440 450
APEAFYAGSR GGPSVPDPGP ASPYSGSGNG GFAFGAEGPG APVGTAAPDD
460 470 480 490 500
CDFGFDFDFL ALDLTVPAAA TIWAPFERAA PLPAFSGCST VNGAPGPPAA
510 520 530 540 550
GARRSSGAGT PRHSPTLPEP GGLRLELPLS RRGAPDPVGA LSWRPPQGPV
560 570 580 590 600
SFPGGAAFST ATSLPSSPAA AACAPLDSGA SENSRKPPSA SSAPALAREC
610 620 630 640 650
VVCAEGEVMA ALVPCGHNLF CMDCAVRICG KSEPECPACR TPATQAIHIF

S
Length:651
Mass (Da):64,883
Last modified:March 20, 2007 - v3
Checksum:i5E056EE2D08BC4CD
GO
Isoform 2 (identifier: Q86XN8-2) [UniParc]FASTAAdd to basket

Also known as: TINO

The sequence of this isoform differs from the canonical sequence as follows:
     648-651: HIFS → RVETPQPGGASALQRQY

Show »
Length:664
Mass (Da):66,238
Checksum:iCA8D41D3EEFD3A48
GO
Isoform 3 (identifier: Q86XN8-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     648-651: HIFS → RVETETPQPGGASALQRQY

Note: No experimental confirmation available.
Show »
Length:666
Mass (Da):66,469
Checksum:i498479459CECBD6C
GO

Sequence cautioni

The sequence AAQ04763.1 differs from that shown. Reason: Erroneous initiation. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei648 – 6514HIFS → RVETPQPGGASALQRQY in isoform 2. 2 PublicationsVSP_024019
Alternative sequencei648 – 6514HIFS → RVETETPQPGGASALQRQY in isoform 3. CuratedVSP_047662

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY950680 mRNA. Translation: AAY34148.1.
AC005943 Genomic DNA. No translation available.
AC027307 Genomic DNA. No translation available.
AB107353 mRNA. Translation: BAC67658.1.
AF458084 mRNA. Translation: AAQ04763.1. Different initiation.
BC113384 mRNA. Translation: AAI13385.1.
BC113741 mRNA. Translation: AAI13742.2.
CCDSiCCDS32865.2. [Q86XN8-1]
RefSeqiNP_001167589.1. NM_001174118.1. [Q86XN8-3]
NP_976049.3. NM_203304.3. [Q86XN8-1]
UniGeneiHs.436495.

Genome annotation databases

EnsembliENST00000402693; ENSP00000384398; ENSG00000181588. [Q86XN8-1]
GeneIDi399664.
KEGGihsa:399664.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY950680 mRNA. Translation: AAY34148.1.
AC005943 Genomic DNA. No translation available.
AC027307 Genomic DNA. No translation available.
AB107353 mRNA. Translation: BAC67658.1.
AF458084 mRNA. Translation: AAQ04763.1. Different initiation.
BC113384 mRNA. Translation: AAI13385.1.
BC113741 mRNA. Translation: AAI13742.2.
CCDSiCCDS32865.2. [Q86XN8-1]
RefSeqiNP_001167589.1. NM_001174118.1. [Q86XN8-3]
NP_976049.3. NM_203304.3. [Q86XN8-1]
UniGeneiHs.436495.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DGRNMR-A272-341[»]
ProteinModelPortaliQ86XN8.
SMRiQ86XN8. Positions 273-343, 598-643.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi134376. 7 interactions.
STRINGi9606.ENSP00000373476.

PTM databases

PhosphoSiteiQ86XN8.

Polymorphism and mutation databases

BioMutaiMEX3D.
DMDMi134047829.

Proteomic databases

MaxQBiQ86XN8.
PaxDbiQ86XN8.
PRIDEiQ86XN8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000402693; ENSP00000384398; ENSG00000181588. [Q86XN8-1]
GeneIDi399664.
KEGGihsa:399664.

Organism-specific databases

CTDi399664.
GeneCardsiGC19M001554.
HGNCiHGNC:16734. MEX3D.
HPAiHPA065385.
MIMi611009. gene.
neXtProtiNX_Q86XN8.
PharmGKBiPA162395829.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG260228.
GeneTreeiENSGT00390000018714.
HOGENOMiHOG000236282.
HOVERGENiHBG071698.
InParanoidiQ86XN8.
KOiK15686.
OMAiSLWAKTP.
OrthoDBiEOG7D85WG.
PhylomeDBiQ86XN8.
TreeFamiTF315107.

Miscellaneous databases

EvolutionaryTraceiQ86XN8.
GeneWikiiMEX3D.
GenomeRNAii399664.
NextBioi105463.
PROiQ86XN8.
SOURCEiSearch...

Gene expression databases

BgeeiQ86XN8.
CleanExiHS_MEX3D.
ExpressionAtlasiQ86XN8. baseline and differential.
GenevisibleiQ86XN8. HS.

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.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 2 hits.
PROSITEiPS50084. KH_TYPE_1. 2 hits.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification and characterization of human Mex-3 proteins, a novel family of evolutionarily conserved RNA-binding proteins differentially localized to processing bodies."
    Buchet-Poyau K., Courchet J., Le Hir H., Seraphin B., Scoazec J.-Y., Duret L., Domon-Dell C., Freund J.-N., Billaud M.
    Nucleic Acids Res. 35:1289-1300(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
  2. "The DNA sequence and biology of human chromosome 19."
    Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
    , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
    Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The nucleotide sequence of a long cDNA clone isolated from human."
    Nagase T., Kikuno R., Ohara O.
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 137-651 (ISOFORM 1).
    Tissue: Brain.
  4. "Identification of TINO: a new evolutionarily conserved BCL-2 AU-rich element RNA-binding protein."
    Donnini M., Lapucci A., Papucci L., Witort E., Jacquier A., Brewer G., Nicolin A., Capaccioli S., Schiavone N.
    J. Biol. Chem. 279:20154-20166(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 177-651 (ISOFORM 2).
    Tissue: Placenta.
  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] OF 178-651 (ISOFORM 2).
  6. "Solution structure of the second KH domain in RING finger and KH domain-containing protein 1."
    RIKEN structural genomics initiative (RSGI)
    Submitted (SEP-2006) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 272-343.

Entry informationi

Entry nameiMEX3D_HUMAN
AccessioniPrimary (citable) accession number: Q86XN8
Secondary accession number(s): A0PJL8
, A1L023, E9PAL6, Q71M49
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: March 20, 2007
Last modified: June 24, 2015
This is version 112 of the entry and version 3 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.