Reviewed, UniProtKB/Swiss-Prot O43818 (U3IP2_HUMAN)

Names and origin

Protein names

Recommended name:
    U3 small nucleolar RNA-interacting protein 2
Alternative name(s):
    U3 small nucleolar ribonucleoprotein-associated 55 kDa protein
      Short name=U3 snoRNP-associated 55 kDa protein
      Short name=U3-55K
    RRP9 homolog

Gene names

Name:	RRP9
Synonyms:	RNU3IP2, U355K

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	475 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Component of a nucleolar small nuclear ribonucleoprotein particle (snoRNP) thought to participate in the processing and modification of pre-ribosomal RNA.
Subunit structure	Interacts specifically with the U3 small nucleolar RNA (U3 snoRNA). Binds a sub-fragment of the U3 snoRNA surrounding the B/C motif (3UBC). This association with the U3BC RNA is dependent on the binding of a protein called 15.5K to the box B/C motif. The association of the protein with the U3BC RNA was found to be also dependent on a conserved RNA structure that flanks the box B/C motif. Ref.5 Ref.6
Subcellular location	Nucleus › nucleolus Ref.7.
Domain	The WD domains are required for nucleolar localization and U3 small nucleolar RNAs binding.
Sequence similarities	Belongs to the WD repeat RRP9 family. Contains 7 WD repeats.

Ontologies

Keywords
Biological process	rRNA processing
Cellular component	Nucleus
Coding sequence diversity	Polymorphism
Domain	Repeat WD repeat
Ligand	RNA-binding
Molecular function	Ribonucleoprotein
PTM	Phosphoprotein
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	rRNA processing Ref.1 Traceable author statement. Source: ProtInc
Cellular component	nucleolus Inferred from electronic annotation. Source: UniProtKB-SubCell small nuclear ribonucleoprotein complex Ref.1 Traceable author statement. Source: ProtInc small nucleolar ribonucleoprotein complex Ref.1 Traceable author statement. Source: ProtInc
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 475	475	U3 small nucleolar RNA-interacting protein 2		PRO_0000051313
Regions
	Repeat	144 – 183	40	WD 1
	Repeat	197 – 236	40	WD 2
	Repeat	239 – 278	40	WD 3
	Repeat	281 – 320	40	WD 4
	Repeat	322 – 360	39	WD 5
	Repeat	374 – 413	40	WD 6
	Repeat	419 – 460	42	WD 7
	Motif	8 – 40	33	Nuclear localization signal Potential
	Compositional bias	47 – 105	59	Glu-rich
Amino acid modifications
	Modified residue	50	1	Phosphoserine Ref.8 Ref.10 Ref.11 Ref.12
	Modified residue	51	1	Phosphoserine Ref.8 Ref.10 Ref.11 Ref.12
	Modified residue	53	1	Phosphoserine Ref.8 Ref.10 Ref.11 Ref.12
	Modified residue	57	1	Phosphoserine Ref.10 Ref.12
	Modified residue	475	1	Phosphoserine Ref.9
Natural variations
	Natural variant	8	1	R → G in a breast cancer sample; somatic mutation. Ref.13		VAR_035887
	Natural variant	342	1	A → E in a breast cancer sample; somatic mutation. Ref.13		VAR_035888

Sequences

	Sequence		Length	Mass (Da)
	O43818-1 [UniParc]. Last modified June 1, 1998. Version 1. Checksum: 3CD19F66EA75B627	FASTA	475	51,841
	10 20 30 40 50 60 MSATAAARKR GKPASGAGAG AGAGKRRRKA DSAGDRGKSK GGGKMNEEIS SDSESESLAP 70 80 90 100 110 120 RKPEEEEEEE LEETAQEKKL RLAKLYLEQL RQQEEEKAEA RAFEEDQVAG RLKEDVLEQR 130 140 150 160 170 180 GRLQKLVAKE IQAPASADIR VLRGHQLSIT CLVVTPDDSA IFSAAKDCSI IKWSVESGRK 190 200 210 220 230 240 LHVIPRAKKG AEGKPPGHSS HVLCMAISSD GKYLASGDRS KLILIWEAQS CQHLYTFTGH 250 260 270 280 290 300 RDAVSGLAFR RGTHQLYSTS HDRSVKVWNV AENSYVETLF GHQDAVAALD ALSRECCVTA 310 320 330 340 350 360 GGRDGTVRVW KIPEESQLVF YGHQGSIDCI HLINEEHMVS GADDGSVALW GLSKKRPLAL 370 380 390 400 410 420 QREAHGLRGE PGLEQPFWIS SVAALLNTDL VATGSHSSCV RLWQCGEGFR QLDLLCDIPL 430 440 450 460 470 VGFINSLKFS SSGDFLVAGV GQEHRLGRWW RIKEARNSVC IIPLRRVPVP PAAGS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"cDNA cloning and characterization of the human U3 small nucleolar ribonucleoprotein complex-associated 55-kilodalton protein." Pluk H., Soffner J., Luehrmann R., van Venrooij W.J. Mol. Cell. Biol. 18:488-498(1998) [PubMed: 9418896] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 102-113 AND 267-273. Tissue: Teratocarcinoma.
[2]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[3]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Brain and Skin.
[5]	"Interaction of the U3-55k protein with U3 snoRNA is mediated by the box B/C motif of U3 and the WD repeats of U3-55k." Lukowiak A.A., Granneman S., Mattox S.A., Speckmann W.A., Jones K., Pluk H., van Venrooij W.J., Terns R.M., Terns M.P. Nucleic Acids Res. 28:3462-3471(2000) [PubMed: 10982864] [Abstract] Cited for: INTERACTION WITH U3 SNRNA.
[6]	"The hU3-55K protein requires 15.5K binding to the box B/C motif as well as flanking RNA elements for its association with the U3 small nucleolar RNA in Vitro." Granneman S., Pruijn G.J.M., Horstman W., van Venrooij W.J., Luehrmann R., Watkins N.J. J. Biol. Chem. 277:48490-48500(2002) [PubMed: 12381732] [Abstract] Cited for: INTERACTION WITH U3 SNRNA.
[7]	"Functional proteomic analysis of human nucleolus." Scherl A., Coute Y., Deon C., Calle A., Kindbeiter K., Sanchez J.-C., Greco A., Hochstrasser D.F., Diaz J.-J. Mol. Biol. Cell 13:4100-4109(2002) [PubMed: 12429849] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[8]	"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks." Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Cell 127:635-648(2006) [PubMed: 17081983] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50; SER-51 AND SER-53, MASS SPECTROMETRY. Tissue: Epithelium.
[9]	"Evaluation of the low-specificity protease elastase for large-scale phosphoproteome analysis." Wang B., Malik R., Nigg E.A., Korner R. Anal. Chem. 80:9526-9533(2008) [PubMed: 19007248] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-475, MASS SPECTROMETRY.
[10]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed: 18669648] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50; SER-51; SER-53 AND SER-57, MASS SPECTROMETRY.
[11]	"Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach." Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S. Anal. Chem. 81:4493-4501(2009) [PubMed: 19413330] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50; SER-51 AND SER-53, MASS SPECTROMETRY.
[12]	"Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed: 19690332] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50; SER-51; SER-53 AND SER-57, MASS SPECTROMETRY. Tissue: T-cell.
[13]	"The consensus coding sequences of human breast and colorectal cancers." Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V. , Gazdar A.F., Hartigan J., Wu L., Liu C., Parmigiani G., Park B.H., Bachman K.E., Papadopoulos N., Vogelstein B., Kinzler K.W., Velculescu V.E. Science 314:268-274(2006) [PubMed: 16959974] [Abstract] Cited for: VARIANTS [LARGE SCALE ANALYSIS] GLY-8 AND GLU-342.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AJ001340 mRNA. Translation: CAA04687.1. AK313696 mRNA. Translation: BAG36443.1. CH471055 Genomic DNA. Translation: EAW65159.1. BC001113 mRNA. Translation: AAH01113.1. BC009879 mRNA. Translation: AAH09879.1. BC010048 mRNA. Translation: AAH10048.1. BC023662 mRNA. Translation: AAH23662.2.
IPI	IPI00217862.
RefSeq	NP_004695.1.
UniGene	Hs.153768
3D structure databases
SMR	O43818. Positions 139-446.
ModBase	Search...
Protein-protein interaction databases
IntAct	O43818. 1 interaction.
STRING	O43818.
PTM databases
PhosphoSite	O43818.
2-D gel databases
SWISS-2DPAGE	O43818.
DOSAC-COBS-2DPAGE	O43818.
Proteomic databases
PeptideAtlas	O43818.
PRIDE	O43818.
Genome annotation databases
Ensembl	ENST00000232888; ENSP00000232888; ENSG00000114767; Homo sapiens. [Genome view]
GeneID	9136.
KEGG	hsa:9136.
UCSC	uc003dbw.1. human.
Organism-specific databases
CTD	9136.
GeneCards	GC03M051943.
H-InvDB	HIX0003335.
HGNC	HGNC:16829. RRP9.
GenAtlas	Search...
Phylogenomic databases
eggNOG	prNOG06018.
HOGENOM	HBG713247.
HOVERGEN	O43818.
InParanoid	O43818.
OMA	WISSVAA.
OrthoDB	EOG9DNHQG.
PhylomeDB	O43818.
Gene expression databases
ArrayExpress	O43818.
Bgee	O43818.
CleanEx	HS_RRP9.
Genevestigator	O43818.
GermOnline	ENSG00000114767. Homo sapiens.
Family and domain databases
InterPro	IPR020472. G-protein_beta_WD-40_rep_reg. IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR011046. WD40_repeat-like_dom. IPR019782. WD40_repeat_2. IPR019775. WD40_repeat_CS. IPR017986. WD40_repeat_dom. IPR019781. WD40_repeat_sg. [Graphical view]
Gene3D	G3DSA:2.130.10.10. WD40/YVTN_repeat-like. 1 hit.
Pfam	PF00400. WD40. 6 hits. [Graphical view]
PRINTS	PR00320. GPROTEINBRPT.
SMART	SM00320. WD40. 6 hits. [Graphical view]
PROSITE	PS00678. WD_REPEATS_1. 1 hit. PS50082. WD_REPEATS_2. 5 hits. PS50294. WD_REPEATS_REGION. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	34259.

Entry information

Entry name

U3IP2_HUMAN

Accession

Primary (citable) accession number: O43818
Secondary accession number(s): B2R996, Q8IZ30

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 10, 2003
Last sequence update:	June 1, 1998
Last modified:	January 19, 2010
This is version 85 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

Disclaimer

Any 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.