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Q9NV88 (INT9_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 91. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Integrator complex subunit 9

Short name=Int9
Alternative name(s):
Protein related to CPSF subunits of 74 kDa
Short name=RC-74
Gene names
Name:INTS9
Synonyms:RC74
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length658 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

Subunit structure

Belongs to the multiprotein complex Integrator, at least composed of INTS1, INTS2, INTS3, INTS4, INTS5, INTS6, INTS7, INTS8, INTS9/RC74, INTS10, CPSF3L/INTS11 and INTS12. Ref.5

Subcellular location

Nucleus Ref.6.

Miscellaneous

Although strongly related to RNA-specific endonuclease proteins, it lacks the HXHXDH motif that binds zinc and participates in the catalytic center. Its function as endonuclease is therefore unsure.

Sequence similarities

Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like family. INTS9 subfamily.

Sequence caution

The sequence AAB67601.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processsnRNA processing

Inferred from direct assay Ref.5. Source: HGNC

   Cellular_componentcytoplasm

Inferred from direct assay. Source: HPA

integrator complex

Inferred from direct assay Ref.5. Source: HGNC

nucleus

Inferred from direct assay. Source: HPA

   Molecular_functionhydrolase activity

Inferred from electronic annotation. Source: InterPro

protein binding

Inferred from physical interaction Ref.5. Source: UniProtKB

Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9NV88-1)

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.
Isoform 2 (identifier: Q9NV88-2)

The sequence of this isoform differs from the canonical sequence as follows:
     67-87: Missing.
Note: No experimental confirmation available.
Isoform 3 (identifier: Q9NV88-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-24: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 658658Integrator complex subunit 9
PRO_0000259557

Natural variations

Alternative sequence1 – 2424Missing in isoform 3.
VSP_044306
Alternative sequence67 – 8721Missing in isoform 2.
VSP_043011

Experimental info

Sequence conflict3241V → A in BAA91867. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified October 31, 2006. Version 2.
Checksum: 81F1A24B99704684

FASTA65873,814
        10         20         30         40         50         60 
MKLYCLSGHP TLPCNVLKFK STTIMLDCGL DMTSTLNFLP LPLVQSPRLS NLPGWSLKDG 

        70         80         90        100        110        120 
NAFLDKELKE CSGHVFVDSV PEFCLPETEL IDLSTVDVIL ISNYHCMMAL PYITEHTGFT 

       130        140        150        160        170        180 
GTVYATEPTV QIGRLLMEEL VNFIERVPKA QSASLWKNKD IQRLLPSPLK DAVEVSTWRR 

       190        200        210        220        230        240 
CYTMQEVNSA LSKIQLVGYS QKIELFGAVQ VTPLSSGYAL GSSNWIIQSH YEKVSYVSGS 

       250        260        270        280        290        300 
SLLTTHPQPM DQASLKNSDV LVLTGLTQIP TANPDGMVGE FCSNLALTVR NGGNVLVPCY 

       310        320        330        340        350        360 
PSGVIYDLLE CLYQYIDSAG LSSVPLYFIS PVANSSLEFS QIFAEWLCHN KQSKVYLPEP 

       370        380        390        400        410        420 
PFPHAELIQT NKLKHYPSIH GDFSNDFRQP CVVFTGHPSL RFGDVVHFME LWGKSSLNTV 

       430        440        450        460        470        480 
IFTEPDFSYL EALAPYQPLA MKCIYCPIDT RLNFIQVSKL LKEVQPLHVV CPEQYTQPPP 

       490        500        510        520        530        540 
AQSHRMDLMI DCQPPAMSYR RAEVLALPFK RRYEKIEIMP ELADSLVPME IKPGISLATV 

       550        560        570        580        590        600 
SAVLHTKDNK HLLQPPPRPA QPTSGKKRKR VSDDVPDCKV LKPLLSGSIP VEQFVQTLEK 

       610        620        630        640        650 
HGFSDIKVED TAKGHIVLLQ EAETLIQIEE DSTHIICDND EMLRVRLRDL VLKFLQKF 

« Hide

Isoform 2 [UniParc].

Checksum: DF93CBBDE1A6061E
Show »

FASTA63771,468
Isoform 3 [UniParc].

Checksum: 327CFB70D6AB0649
Show »

FASTA63471,137

References

« Hide 'large scale' references
[1]"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. expand/collapse author list , 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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1; 2 AND 3).
[2]"DNA sequence and analysis of human chromosome 8."
Nusbaum C., Mikkelsen T.S., Zody M.C., Asakawa S., Taudien S., Garber M., Kodira C.D., Schueler M.G., Shimizu A., Whittaker C.A., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Yang X., Allen N.R., Anderson S., Asakawa T. expand/collapse author list , Blechschmidt K., Bloom T., Borowsky M.L., Butler J., Cook A., Corum B., DeArellano K., DeCaprio D., Dooley K.T., Dorris L. III, Engels R., Gloeckner G., Hafez N., Hagopian D.S., Hall J.L., Ishikawa S.K., Jaffe D.B., Kamat A., Kudoh J., Lehmann R., Lokitsang T., Macdonald P., Major J.E., Matthews C.D., Mauceli E., Menzel U., Mihalev A.H., Minoshima S., Murayama Y., Naylor J.W., Nicol R., Nguyen C., O'Leary S.B., O'Neill K., Parker S.C.J., Polley A., Raymond C.K., Reichwald K., Rodriguez J., Sasaki T., Schilhabel M., Siddiqui R., Smith C.L., Sneddon T.P., Talamas J.A., Tenzin P., Topham K., Venkataraman V., Wen G., Yamazaki S., Young S.K., Zeng Q., Zimmer A.R., Rosenthal A., Birren B.W., Platzer M., Shimizu N., Lander E.S.
Nature 439:331-335(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[3]"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: Brain.
[4]"Human chromosome 8 BAC clone CIT987SK-2A8 complete sequence."
Adams M.D.
Submitted (APR-1997) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] OF 163-658.
[5]"Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II."
Baillat D., Hakimi M.-A., Naeaer A.M., Shilatifard A., Cooch N., Shiekhattar R.
Cell 123:265-276(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE INTEGRATOR COMPLEX.
[6]"A CPSF-73 homologue is required for cell cycle progression but not cell growth and interacts with a protein having features of CPSF-100."
Dominski Z., Yang X.-C., Purdy M., Wagner E.J., Marzluff W.F.
Mol. Cell. Biol. 25:1489-1500(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION, SUBCELLULAR LOCATION, INTERACTION WITH CPSF3L.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AK001733 mRNA. Translation: BAA91867.1.
AK298468 mRNA. Translation: BAH12796.1.
AK300593 mRNA. Translation: BAH13311.1.
AC040975 Genomic DNA. No translation available.
AC131969 Genomic DNA. No translation available.
BC025267 mRNA. Translation: AAH25267.1.
U96629 Genomic DNA. Translation: AAB67601.1. Sequence problems.
BK005726 mRNA. Translation: DAA05726.1.
BK005674 mRNA. Translation: DAA05670.1.
CCDSCCDS34873.1. [Q9NV88-1]
CCDS55215.1. [Q9NV88-3]
CCDS55216.1. [Q9NV88-2]
RefSeqNP_001138631.1. NM_001145159.2. [Q9NV88-2]
NP_001166033.1. NM_001172562.1. [Q9NV88-3]
NP_060720.2. NM_018250.3. [Q9NV88-1]
UniGeneHs.162397.

3D structure databases

ProteinModelPortalQ9NV88.
SMRQ9NV88. Positions 91-116.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid120874. 14 interactions.
IntActQ9NV88. 1 interaction.
STRING9606.ENSP00000398208.

PTM databases

PhosphoSiteQ9NV88.

Polymorphism databases

DMDM119371246.

Proteomic databases

MaxQBQ9NV88.
PaxDbQ9NV88.
PRIDEQ9NV88.

Protocols and materials databases

DNASU55756.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000416984; ENSP00000398208; ENSG00000104299. [Q9NV88-2]
ENST00000521022; ENSP00000429065; ENSG00000104299. [Q9NV88-1]
ENST00000521777; ENSP00000430943; ENSG00000104299. [Q9NV88-3]
GeneID55756.
KEGGhsa:55756.
UCSCuc003xha.3. human. [Q9NV88-1]
uc011law.2. human. [Q9NV88-2]

Organism-specific databases

CTD55756.
GeneCardsGC08M028625.
HGNCHGNC:25592. INTS9.
HPAHPA051615.
MIM611352. gene.
neXtProtNX_Q9NV88.
PharmGKBPA162392192.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG1236.
HOGENOMHOG000045359.
HOVERGENHBG081802.
InParanoidQ9NV88.
KOK13146.
OMAPLAMKCV.
OrthoDBEOG7W41BH.
PhylomeDBQ9NV88.
TreeFamTF314100.

Gene expression databases

ArrayExpressQ9NV88.
BgeeQ9NV88.
CleanExHS_INTS9.
GenevestigatorQ9NV88.

Family and domain databases

Gene3D3.60.15.10. 3 hits.
InterProIPR001279. Beta-lactamas-like.
IPR022712. Beta_Casp.
IPR027074. Integrator_9su.
[Graphical view]
PANTHERPTHR11203:SF2. PTHR11203:SF2. 1 hit.
PfamPF10996. Beta-Casp. 1 hit.
[Graphical view]
SMARTSM01027. Beta-Casp. 1 hit.
[Graphical view]
SUPFAMSSF56281. SSF56281. 3 hits.
ProtoNetSearch...

Other

ChiTaRSINTS9. human.
GeneWikiINTS9.
GenomeRNAi55756.
NextBio60763.
PROQ9NV88.
SOURCESearch...

Entry information

Entry nameINT9_HUMAN
AccessionPrimary (citable) accession number: Q9NV88
Secondary accession number(s): B7Z560 expand/collapse secondary AC list , B7Z6M5, O00224, Q8TB16
Entry history
Integrated into UniProtKB/Swiss-Prot: October 31, 2006
Last sequence update: October 31, 2006
Last modified: July 9, 2014
This is version 91 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 8

Human chromosome 8: entries, gene names and cross-references to MIM