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Protein

Integrator complex subunit 4

Gene

INTS4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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.

GO - Biological processi

  • snRNA processing Source: HGNC
  • snRNA transcription from RNA polymerase II promoter Source: Reactome
Complete GO annotation...

Enzyme and pathway databases

ReactomeiR-HSA-6807505. RNA polymerase II transcribes snRNA genes.

Names & Taxonomyi

Protein namesi
Recommended name:
Integrator complex subunit 4
Short name:
Int4
Gene namesi
Name:INTS4
ORF Names:MSTP093
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

HGNCiHGNC:25048. INTS4.

Subcellular locationi

GO - Cellular componenti

  • integrator complex Source: HGNC
  • nucleoplasm Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA144596421.

Polymorphism and mutation databases

BioMutaiINTS4.
DMDMi118572560.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 963963Integrator complex subunit 4PRO_0000259538Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei26 – 261N6-acetyllysineBy similarity
Cross-linki791 – 791Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1)Combined sources
Cross-linki791 – 791Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Keywords - PTMi

Acetylation, Isopeptide bond, Ubl conjugation

Proteomic databases

EPDiQ96HW7.
MaxQBiQ96HW7.
PaxDbiQ96HW7.
PeptideAtlasiQ96HW7.
PRIDEiQ96HW7.

PTM databases

iPTMnetiQ96HW7.
PhosphoSiteiQ96HW7.
SwissPalmiQ96HW7.

Expressioni

Gene expression databases

BgeeiQ96HW7.
CleanExiHS_INTS4.
ExpressionAtlasiQ96HW7. baseline and differential.
GenevisibleiQ96HW7. HS.

Organism-specific databases

HPAiHPA042378.

Interactioni

Subunit structurei

Belongs to the multiprotein complex Integrator, at least composed of INTS1, INTS2, INTS3, INTS4, INTS5, INTS6, INTS7, INTS8, INTS9/RC74, INTS10, CPSF3L/INTS11 and INTS12.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
HGSO149643EBI-5663129,EBI-740220
USHBP1Q8N6Y03EBI-5663129,EBI-739895
ZMIZ2Q8NF64-23EBI-5663129,EBI-10182121

Protein-protein interaction databases

BioGridi124909. 45 interactions.
IntActiQ96HW7. 10 interactions.
STRINGi9606.ENSP00000434466.

Structurei

3D structure databases

ProteinModelPortaliQ96HW7.
SMRiQ96HW7. Positions 51-311, 377-473.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati66 – 10540HEAT 1Add
BLAST
Repeati145 – 18339HEAT 2Add
BLAST
Repeati190 – 22839HEAT 3Add
BLAST
Repeati229 – 26335HEAT 4Add
BLAST
Repeati277 – 31337HEAT 5Add
BLAST
Repeati369 – 40537HEAT 6Add
BLAST
Repeati406 – 44439HEAT 7Add
BLAST
Repeati446 – 48439HEAT 8Add
BLAST

Sequence similaritiesi

Belongs to the Integrator subunit 4 family.Curated
Contains 8 HEAT repeats.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG2259. Eukaryota.
ENOG410XPX8. LUCA.
GeneTreeiENSGT00390000010128.
HOVERGENiHBG081801.
InParanoidiQ96HW7.
KOiK13141.
OMAiFNAAKSC.
OrthoDBiEOG70CR6Q.
PhylomeDBiQ96HW7.
TreeFamiTF315047.

Family and domain databases

Gene3Di1.25.10.10. 4 hits.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR026003. Cohesin_HEAT.
[Graphical view]
PfamiPF12765. Cohesin_HEAT. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 2 hits.

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q96HW7-1) [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
MAAHLKKRVY EEFTKVVQPQ EEIATKKLRL TKPSKSAALH IDLCKATSPA
60 70 80 90 100
DALQYLLQFA RKPVEAESVE GVVRILLEHY YKENDPSVRL KIASLLGLLS
110 120 130 140 150
KTAGFSPDCI MDDAINILQN EKSHQVLAQL LDTLLAIGTK LPENQAIQMR
160 170 180 190 200
LVDVACKHLT DTSHGVRNKC LQLLGNLGSL EKSVTKDAEG LAARDVQKII
210 220 230 240 250
GDYFSDQDPR VRTAAIKAML QLHERGLKLH QTIYNQACKL LSDDYEQVRS
260 270 280 290 300
AAVQLIWVVS QLYPESIVPI PSSNEEIRLV DDAFGKICHM VSDGSWVVRV
310 320 330 340 350
QAAKLLGSME QVSSHFLEQT LDKKLMSDLR RKRTAHERAK ELYSSGEFSS
360 370 380 390 400
GRKWGDDAPK EEVDTGAVNL IESGACGAFV HGLEDEMYEV RIAAVEALCM
410 420 430 440 450
LAQSSPSFAE KCLDFLVDMF NDEIEEVRLQ SIHTMRKISN NITLREDQLD
460 470 480 490 500
TVLAVLEDSS RDIREALHEL LCCTNVSTKE GIHLALVELL KNLTKYPTDR
510 520 530 540 550
DSIWKCLKFL GSRHPTLVLP LVPELLSTHP FFDTAEPDMD DPAYIAVLVL
560 570 580 590 600
IFNAAKTCPT MPALFSDHTF RHYAYLRDSL SHLVPALRLP GRKLVSSAVS
610 620 630 640 650
PSIIPQEDPS QQFLQQSLER VYSLQHLDPQ GAQELLEFTI RDLQRLGELQ
660 670 680 690 700
SELAGVADFS ATYLRCQLLL IKALQEKLWN VAAPLYLKQS DLASAAAKQI
710 720 730 740 750
MEETYKMEFM YSGVENKQVV IIHHMRLQAK ALQLIVTART TRGLDPLFGM
760 770 780 790 800
CEKFLQEVDF FQRYFIADLP HLQDSFVDKL LDLMPRLMTS KPAEVVKILQ
810 820 830 840 850
TMLRQSAFLH LPLPEQIHKA SATIIEPAGE SDNPLRFTSG LVVALDVDAT
860 870 880 890 900
LEHVQDPQNT VKVQVLYPDG QAQMIHPKPA DFRNPGPGRH RLITQVYLSH
910 920 930 940 950
TAWTEACQVE VRLLLAYNSS ARIPKCPWME GGEMSPQVET SIEGTIPFSK
960
PVKVYIMPKP ARR
Length:963
Mass (Da):108,171
Last modified:October 31, 2006 - v2
Checksum:iD56D6480EFC962D7
GO
Isoform 2 (identifier: Q96HW7-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     506-963: Missing.

Show »
Length:505
Mass (Da):56,550
Checksum:iADA236E485D9C524
GO
Isoform 3 (identifier: Q96HW7-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-148: Missing.
     149-156: MRLVDVAC → MPSTSCRM
     642-659: DLQRLGELQSELAGVADF → VEVSPWWPGWSQTPELK
     660-963: Missing.

Note: No experimental confirmation available.
Show »
Length:510
Mass (Da):57,382
Checksum:i20099F1864BA11D5
GO
Isoform 4 (identifier: Q96HW7-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-626: Missing.
     627-640: LDPQGAQELLEFTI → MPALKQTASQVTQTL

Note: No experimental confirmation available.
Show »
Length:338
Mass (Da):38,117
Checksum:i22006C401EB45360
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti584 – 5841V → M in AAQ13616 (Ref. 1) Curated
Sequence conflicti900 – 9012HT → PP in AAQ13616 (Ref. 1) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 626626Missing in isoform 4. 1 PublicationVSP_021447Add
BLAST
Alternative sequencei1 – 148148Missing in isoform 3. 1 PublicationVSP_021448Add
BLAST
Alternative sequencei149 – 1568MRLVDVAC → MPSTSCRM in isoform 3. 1 PublicationVSP_021449
Alternative sequencei506 – 963458Missing in isoform 2. 1 PublicationVSP_021450Add
BLAST
Alternative sequencei627 – 64014LDPQG…LEFTI → MPALKQTASQVTQTL in isoform 4. 1 PublicationVSP_021451Add
BLAST
Alternative sequencei642 – 65918DLQRL…GVADF → VEVSPWWPGWSQTPELK in isoform 3. 1 PublicationVSP_021452Add
BLAST
Alternative sequencei660 – 963304Missing in isoform 3. 1 PublicationVSP_021453Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF172822 mRNA. Translation: AAQ13616.1.
BC006369 mRNA. Translation: AAH06369.1.
BC008013 mRNA. Translation: AAH08013.1.
BC009859 mRNA. Translation: AAH09859.2.
BC009995 mRNA. Translation: AAH09995.1.
BC015664 mRNA. Translation: AAH15664.1.
BK005723 mRNA. Translation: DAA05723.1.
CCDSiCCDS31644.1. [Q96HW7-1]
RefSeqiNP_291025.3. NM_033547.3. [Q96HW7-1]
UniGeneiHs.533723.

Genome annotation databases

EnsembliENST00000529807; ENSP00000433644; ENSG00000149262. [Q96HW7-2]
ENST00000534064; ENSP00000434466; ENSG00000149262. [Q96HW7-1]
ENST00000535943; ENSP00000441084; ENSG00000149262. [Q96HW7-4]
GeneIDi92105.
KEGGihsa:92105.
UCSCiuc001oys.4. human. [Q96HW7-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF172822 mRNA. Translation: AAQ13616.1.
BC006369 mRNA. Translation: AAH06369.1.
BC008013 mRNA. Translation: AAH08013.1.
BC009859 mRNA. Translation: AAH09859.2.
BC009995 mRNA. Translation: AAH09995.1.
BC015664 mRNA. Translation: AAH15664.1.
BK005723 mRNA. Translation: DAA05723.1.
CCDSiCCDS31644.1. [Q96HW7-1]
RefSeqiNP_291025.3. NM_033547.3. [Q96HW7-1]
UniGeneiHs.533723.

3D structure databases

ProteinModelPortaliQ96HW7.
SMRiQ96HW7. Positions 51-311, 377-473.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi124909. 45 interactions.
IntActiQ96HW7. 10 interactions.
STRINGi9606.ENSP00000434466.

PTM databases

iPTMnetiQ96HW7.
PhosphoSiteiQ96HW7.
SwissPalmiQ96HW7.

Polymorphism and mutation databases

BioMutaiINTS4.
DMDMi118572560.

Proteomic databases

EPDiQ96HW7.
MaxQBiQ96HW7.
PaxDbiQ96HW7.
PeptideAtlasiQ96HW7.
PRIDEiQ96HW7.

Protocols and materials databases

DNASUi92105.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000529807; ENSP00000433644; ENSG00000149262. [Q96HW7-2]
ENST00000534064; ENSP00000434466; ENSG00000149262. [Q96HW7-1]
ENST00000535943; ENSP00000441084; ENSG00000149262. [Q96HW7-4]
GeneIDi92105.
KEGGihsa:92105.
UCSCiuc001oys.4. human. [Q96HW7-1]

Organism-specific databases

CTDi92105.
GeneCardsiINTS4.
H-InvDBHIX0022772.
HIX0023207.
HIX0058362.
HGNCiHGNC:25048. INTS4.
HPAiHPA042378.
MIMi611348. gene.
neXtProtiNX_Q96HW7.
PharmGKBiPA144596421.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2259. Eukaryota.
ENOG410XPX8. LUCA.
GeneTreeiENSGT00390000010128.
HOVERGENiHBG081801.
InParanoidiQ96HW7.
KOiK13141.
OMAiFNAAKSC.
OrthoDBiEOG70CR6Q.
PhylomeDBiQ96HW7.
TreeFamiTF315047.

Enzyme and pathway databases

ReactomeiR-HSA-6807505. RNA polymerase II transcribes snRNA genes.

Miscellaneous databases

ChiTaRSiINTS4. human.
GenomeRNAii92105.
PROiQ96HW7.
SOURCEiSearch...

Gene expression databases

BgeeiQ96HW7.
CleanExiHS_INTS4.
ExpressionAtlasiQ96HW7. baseline and differential.
GenevisibleiQ96HW7. HS.

Family and domain databases

Gene3Di1.25.10.10. 4 hits.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR026003. Cohesin_HEAT.
[Graphical view]
PfamiPF12765. Cohesin_HEAT. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 2 hits.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4).
    Tissue: Aorta.
  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] (ISOFORMS 2 AND 3), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 174-963 (ISOFORM 1).
    Tissue: Brain, Muscle, Ovary and Uterus.
  3. "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 (ISOFORM 1), IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE INTEGRATOR COMPLEX.
  4. "Toward a comprehensive characterization of a human cancer cell phosphoproteome."
    Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J., Mohammed S.
    J. Proteome Res. 12:260-271(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Erythroleukemia.
  5. "Uncovering global SUMOylation signaling networks in a site-specific manner."
    Hendriks I.A., D'Souza R.C., Yang B., Verlaan-de Vries M., Mann M., Vertegaal A.C.
    Nat. Struct. Mol. Biol. 21:927-936(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUMOYLATION [LARGE SCALE ANALYSIS] AT LYS-791, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  6. "Mapping of SUMO sites and analysis of SUMOylation changes induced by external stimuli."
    Impens F., Radoshevich L., Cossart P., Ribet D.
    Proc. Natl. Acad. Sci. U.S.A. 111:12432-12437(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUMOYLATION [LARGE SCALE ANALYSIS] AT LYS-791, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  7. "System-wide analysis of SUMOylation dynamics in response to replication stress reveals novel small ubiquitin-like modified target proteins and acceptor lysines relevant for genome stability."
    Xiao Z., Chang J.G., Hendriks I.A., Sigurdsson J.O., Olsen J.V., Vertegaal A.C.
    Mol. Cell. Proteomics 14:1419-1434(2015) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUMOYLATION [LARGE SCALE ANALYSIS] AT LYS-791, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiINT4_HUMAN
AccessioniPrimary (citable) accession number: Q96HW7
Secondary accession number(s): Q2YD62
, Q6PJG4, Q7Z4E7, Q96G32, Q96GA1, Q9BRC0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 31, 2006
Last sequence update: October 31, 2006
Last modified: July 6, 2016
This is version 109 of the entry and version 2 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: 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. 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.