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Protein

U3 small nucleolar RNA-associated protein 4 homolog

Gene

Utp4

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

Functioni

May be a transcriptional regulator. Acts as a positive regulator of HIVEP1. Ribosome biogenesis factor involved in small subunit (SSU) pre-rRNA processing at sites A', A0, 1 and 2b.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

rRNA processing, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
U3 small nucleolar RNA-associated protein 4 homolog
Alternative name(s):
Cirhin
Testis-expressed gene 292 protein
Gene namesi
Name:Utp4
Synonyms:Cirh1a, Kiaa1988, Tex292
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1096573. Cirh1a.

Subcellular locationi

  • Nucleusnucleolus By similarity

  • Note: Found predominantly at the fibrillar center.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 686686U3 small nucleolar RNA-associated protein 4 homologPRO_0000050909Add
BLAST

Post-translational modificationi

May be phosphorylated during mitosis; may control the association of this protein with WRD43 and UTP15.By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8R2N2.
MaxQBiQ8R2N2.
PaxDbiQ8R2N2.
PRIDEiQ8R2N2.

PTM databases

iPTMnetiQ8R2N2.
PhosphoSiteiQ8R2N2.

Expressioni

Tissue specificityi

Expressed in liver.2 Publications

Developmental stagei

In 11.5 day embryos, highly and predominantly expressed in liver, with lower expression in somites, brain and craniofacial structures. Expression significantly decreases in 12.5 day embryos and in the newborn.2 Publications

Gene expression databases

BgeeiQ8R2N2.
CleanExiMM_CIRH1A.
GenevisibleiQ8R2N2. MM.

Interactioni

Subunit structurei

Interacts with HIVEP1. Forms a complex with NOL11, UTP15, WDR43 and WDR75; within this complex, directly interacts with NOL11, UTP15 and WDR43.By similarity

Protein-protein interaction databases

BioGridi204134. 1 interaction.
IntActiQ8R2N2. 1 interaction.
STRINGi10090.ENSMUSP00000048377.

Structurei

3D structure databases

ProteinModelPortaliQ8R2N2.
SMRiQ8R2N2. Positions 22-314, 439-515.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati14 – 5340WD 1Add
BLAST
Repeati57 – 9640WD 2Add
BLAST
Repeati99 – 13840WD 3Add
BLAST
Repeati143 – 18139WD 4Add
BLAST
Repeati193 – 23139WD 5Add
BLAST
Repeati234 – 27340WD 6Add
BLAST
Repeati285 – 32238WD 7Add
BLAST
Repeati324 – 35936WD 8Add
BLAST
Repeati435 – 47440WD 9Add
BLAST
Repeati482 – 52140WD 10Add
BLAST
Repeati524 – 56340WD 11Add
BLAST

Sequence similaritiesi

Contains 11 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiKOG2048. Eukaryota.
ENOG410XQNR. LUCA.
GeneTreeiENSGT00390000008662.
HOGENOMiHOG000095656.
HOVERGENiHBG050963.
InParanoidiQ8R2N2.
KOiK14548.
OMAiREFTQFA.
OrthoDBiEOG7BZVRQ.
PhylomeDBiQ8R2N2.
TreeFamiTF313159.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 2 hits.
[Graphical view]
SMARTiSM00320. WD40. 10 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8R2N2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGEFKVHRVR FFNYVPSGIR CVAYNNQSNR LAVSRTDGTV EIYNLSANYF
60 70 80 90 100
QEKFFPGHES RGTEALCWAG GQRLFSAGLN GEILEYDLQA LNIKYTLDAF
110 120 130 140 150
GGPIWSMTAS PSGSQLLVGC EDGSVKLFEV TPEKIQFARN FDRQKSRILS
160 170 180 190 200
LCWHPAGTHV AAGSLDYISV FDVKSGSIIR KMVLDRQHLG VTKSRCIVWG
210 220 230 240 250
VAFLSDGTVI SVDSVGKVQL WDSATGTLVK SHLVANADVQ SIAVADQEDS
260 270 280 290 300
FVVGTAEGTV FHFQLVSMTS NSSEKQWVRT KPFQHHTHDV RAVAHSPTAL
310 320 330 340 350
ISGGTDTHLV IRPLMERVEV KNYDAALRKI TFPHRRLISC SKRRQLLLFQ
360 370 380 390 400
FAHHLELWRL GSTSATGKNG DTLPLSKNAD HLLHLKTKGP ENIICSCVSP
410 420 430 440 450
CGSWIAYSTA SRFFLYRLKY ERDNISLQRV SKLPSFLRSA LHILFSEDST
460 470 480 490 500
KLLVASNQGS LHIVHLSEGS FKHLHTFQPQ SGTVEAMCLL AVSPDGNWLA
510 520 530 540 550
ASGTSAGVHV YDLHHLKLHC TVPAYNFPVT ALAIAPNTNN LVIAHSDQQV
560 570 580 590 600
FEFSIPEKQY TEWSRSLQKQ GFHQLWLQRD TPITHISFHP KRPMHILLHD
610 620 630 640 650
AYMFCIIDKS LPLPNEKTVL YNPLPPKNES DVFLRRTTHG FKMSKIYKPL
660 670 680
LFMDLLDERT LVAVERPLDD IIAQLPPPIK KKKFGT
Length:686
Mass (Da):76,909
Last modified:August 16, 2005 - v3
Checksum:iE927C1338E948BD7
GO

Sequence cautioni

The sequence AAH27399.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence BAD32596.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence CAA56628.1 differs from that shown. Reason: Frameshift at positions 648, 645, 668 and 679. Curated
The sequence CAA56629.1 differs from that shown. Reason: Frameshift at positions 6, 7 and 11. Curated
The sequence CAA56629.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK173318 mRNA. Translation: BAD32596.1. Different initiation.
BC018262 mRNA. Translation: AAH18262.1.
BC027399 mRNA. Translation: AAH27399.1. Different initiation.
BC068113 mRNA. Translation: AAH68113.1.
X80433 mRNA. Translation: CAA56628.1. Frameshift.
X80434 mRNA. Translation: CAA56629.1. Sequence problems.
CCDSiCCDS52664.1.
PIRiS46930.
RefSeqiNP_035704.2. NM_011574.2.
XP_006530905.1. XM_006530842.2.
UniGeneiMm.10665.

Genome annotation databases

EnsembliENSMUST00000047629; ENSMUSP00000048377; ENSMUSG00000041438.
GeneIDi21771.
KEGGimmu:21771.
UCSCiuc009ngr.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK173318 mRNA. Translation: BAD32596.1. Different initiation.
BC018262 mRNA. Translation: AAH18262.1.
BC027399 mRNA. Translation: AAH27399.1. Different initiation.
BC068113 mRNA. Translation: AAH68113.1.
X80433 mRNA. Translation: CAA56628.1. Frameshift.
X80434 mRNA. Translation: CAA56629.1. Sequence problems.
CCDSiCCDS52664.1.
PIRiS46930.
RefSeqiNP_035704.2. NM_011574.2.
XP_006530905.1. XM_006530842.2.
UniGeneiMm.10665.

3D structure databases

ProteinModelPortaliQ8R2N2.
SMRiQ8R2N2. Positions 22-314, 439-515.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi204134. 1 interaction.
IntActiQ8R2N2. 1 interaction.
STRINGi10090.ENSMUSP00000048377.

PTM databases

iPTMnetiQ8R2N2.
PhosphoSiteiQ8R2N2.

Proteomic databases

EPDiQ8R2N2.
MaxQBiQ8R2N2.
PaxDbiQ8R2N2.
PRIDEiQ8R2N2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000047629; ENSMUSP00000048377; ENSMUSG00000041438.
GeneIDi21771.
KEGGimmu:21771.
UCSCiuc009ngr.2. mouse.

Organism-specific databases

CTDi21771.
MGIiMGI:1096573. Cirh1a.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG2048. Eukaryota.
ENOG410XQNR. LUCA.
GeneTreeiENSGT00390000008662.
HOGENOMiHOG000095656.
HOVERGENiHBG050963.
InParanoidiQ8R2N2.
KOiK14548.
OMAiREFTQFA.
OrthoDBiEOG7BZVRQ.
PhylomeDBiQ8R2N2.
TreeFamiTF313159.

Miscellaneous databases

ChiTaRSiCirh1a. mouse.
NextBioi301108.
PROiQ8R2N2.
SOURCEiSearch...

Gene expression databases

BgeeiQ8R2N2.
CleanExiMM_CIRH1A.
GenevisibleiQ8R2N2. MM.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 2 hits.
[Graphical view]
SMARTiSM00320. WD40. 10 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H., Nagase T., Ohara O., Koga H.
    DNA Res. 11:205-218(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Spleen.
  2. "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].
    Tissue: Brain and Mammary tumor.
  3. "Characterization of genes expressed early in mouse spermatogenesis, isolated from a subtractive cDNA library."
    Lopez-Fernandez L.A., del Mazo J.
    Mamm. Genome 7:698-700(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-19 AND 643-686, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    Strain: SWR/J.
    Tissue: Testis.
  4. "A missense mutation (R565W) in cirhin (FLJ14728) in North American Indian childhood cirrhosis."
    Chagnon P., Michaud J., Mitchell G., Mercier J., Marion J.-F., Drouin E., Rasquin-Weber A., Hudson T.J., Richter A.
    Am. J. Hum. Genet. 71:1443-1449(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiUTP4_MOUSE
AccessioniPrimary (citable) accession number: Q8R2N2
Secondary accession number(s): Q62306
, Q62307, Q69Z48, Q6NVG9, Q8VEL5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: August 16, 2005
Last modified: April 13, 2016
This is version 117 of the entry and version 3 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.