Human Gene ING4 (uc001qpw.4) Description and Page Index
  Description: Homo sapiens inhibitor of growth family, member 4 (ING4), transcript variant 9, mRNA.
RefSeq Summary (NM_001127582): This gene encodes a tumor suppressor protein that contains a PHD-finger, which is a common motif in proteins involved in chromatin remodeling. This protein can bind TP53 and EP300/p300, a component of the histone acetyl transferase complex, suggesting its involvement in the TP53-dependent regulatory pathway. Multiple alternatively spliced transcript variants have been observed that encode distinct proteins. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr12:6,759,704-6,772,308 Size: 12,605 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr12:6,760,361-6,772,267 Size: 11,907 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:6,759,704-6,772,308)mRNA (may differ from genome)Protein (249 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: ING4_HUMAN
DESCRIPTION: RecName: Full=Inhibitor of growth protein 4; AltName: Full=p29ING4;
FUNCTION: Component of the HBO1 complex which has a histone H4- specific acetyltransferase activity, a reduced activity toward histone H3 and is responsible for the bulk of histone H4 acetylation in vivo. Through chromatin acetylation it may function in DNA replication. May inhibit tumor progression by modulating the transcriptional output of signaling pathways which regulate cell proliferation. Can suppress brain tumor angiogenesis through transcriptional repression of RELA/NFKB3 target genes when complexed with RELA. May also specifically suppress loss of contact inhibition elicited by activated oncogenes such as MYC. Represses hypoxia inducible factor's (HIF) activity by interacting with HIF prolyl hydroxylase 2 (EGLN1).
SUBUNIT: Interacts with H3K4me3 and to a lesser extent with H3K4me2. Component of the HBO1 complex composed at least of ING4 or ING5, KAT7/HBO1, MEAF6, and one of PHF15, PHF16 and PHF17. Interacts with EP300, RELA and TP53; these interactions may be indirect. Interacts with EGLN1.
SUBCELLULAR LOCATION: Nucleus.
DOMAIN: The PHD-type zinc finger mediates the binding to H3K4me3.
SIMILARITY: Belongs to the ING family.
SIMILARITY: Contains 1 PHD-type zinc finger.
SEQUENCE CAUTION: Sequence=AAG43153.1; Type=Frameshift; Positions=240, 243;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 31.94 RPKM in Brain - Cerebellum
Total median expression: 907.86 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -11.8041-0.288 Picture PostScript Text
3' UTR -269.60657-0.410 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR024610 - ING_N
IPR019786 - Zinc_finger_PHD-type_CS
IPR011011 - Znf_FYVE_PHD
IPR001965 - Znf_PHD
IPR019787 - Znf_PHD-finger
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF12998 - Inhibitor of growth proteins N-terminal histone-binding

SCOP Domains:
57903 - FYVE/PHD zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2K1J
- NMR MuPIT

2PNX
- X-ray MuPIT

2VNF
- X-ray MuPIT
To conserve bandwidth, only the images from the first 3 structures are shown.
4AFL - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UNL4
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003713 transcription coactivator activity
GO:0005515 protein binding
GO:0035064 methylated histone binding
GO:0046872 metal ion binding

Biological Process:
GO:0006260 DNA replication
GO:0006325 chromatin organization
GO:0006473 protein acetylation
GO:0006915 apoptotic process
GO:0006978 DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator
GO:0007049 cell cycle
GO:0007050 cell cycle arrest
GO:0008285 negative regulation of cell proliferation
GO:0016573 histone acetylation
GO:0043065 positive regulation of apoptotic process
GO:0043966 histone H3 acetylation
GO:0043981 histone H4-K5 acetylation
GO:0043982 histone H4-K8 acetylation
GO:0043983 histone H4-K12 acetylation
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045926 negative regulation of growth
GO:0043984 histone H4-K16 acetylation

Cellular Component:
GO:0000123 histone acetyltransferase complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:0045111 intermediate filament cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  LF213911 - JP 2014500723-A/21414: Polycomb-Associated Non-Coding RNAs.
BC013038 - Homo sapiens inhibitor of growth family, member 4, mRNA (cDNA clone IMAGE:3537459), partial cds.
BC095434 - Homo sapiens inhibitor of growth family, member 4, mRNA (cDNA clone MGC:111114 IMAGE:30365729), complete cds.
AF110645 - Homo sapiens candidate tumor suppressor p33 ING1 homolog mRNA, complete cds.
AF156552 - Homo sapiens p29ING4 (ING4) mRNA, complete cds.
AF063594 - Homo sapiens brain my036 protein mRNA, complete cds.
BC007781 - Homo sapiens inhibitor of growth family, member 4, mRNA (cDNA clone MGC:12557 IMAGE:4309278), complete cds.
JD380564 - Sequence 361588 from Patent EP1572962.
JD484225 - Sequence 465249 from Patent EP1572962.
AK293169 - Homo sapiens cDNA FLJ52468 complete cds, highly similar to Inhibitor of growth protein 4.
JD329561 - Sequence 310585 from Patent EP1572962.
JD484508 - Sequence 465532 from Patent EP1572962.
JD231783 - Sequence 212807 from Patent EP1572962.
JD231130 - Sequence 212154 from Patent EP1572962.
JD371092 - Sequence 352116 from Patent EP1572962.
JD381403 - Sequence 362427 from Patent EP1572962.
JD520058 - Sequence 501082 from Patent EP1572962.
AK303354 - Homo sapiens cDNA FLJ53613 complete cds, highly similar to Inhibitor of growth protein 4.
JD346930 - Sequence 327954 from Patent EP1572962.
JD426202 - Sequence 407226 from Patent EP1572962.
JD354366 - Sequence 335390 from Patent EP1572962.
JD146526 - Sequence 127550 from Patent EP1572962.
JD133980 - Sequence 115004 from Patent EP1572962.
JD477750 - Sequence 458774 from Patent EP1572962.
AB197695 - Homo sapiens ING4 mRNA for ING4 exon 4-5 boundary 3 bp skip variant, complete cds.
AB197696 - Homo sapiens ING4 mRNA for ING4 exon 4-5 boundary 9 bp skip variant, complete cds.
AB197697 - Homo sapiens ING4 mRNA for ING4 exon 4-5 boundary 12 bp skip variant, complete cds.
EF152349 - Homo sapiens inhibitor of growth family member 4 variant deltaEx2 (ING4) mRNA, complete cds, alternatively spliced.
EF152350 - Homo sapiens inhibitor of growth family member 4 variant deltaEx3 (ING4) mRNA, complete cds, alternatively spliced.
EF152351 - Homo sapiens inhibitor of growth family member 4 variant deltaEx6A (ING4) mRNA, complete cds, alternatively spliced.
EF152352 - Homo sapiens inhibitor of growth family member 4 variant deltaEx6B (ING4) mRNA, complete cds, alternatively spliced.
AK313621 - Homo sapiens cDNA, FLJ94191.
JF432448 - Synthetic construct Homo sapiens clone IMAGE:100073658 inhibitor of growth family, member 4 (ING4) gene, encodes complete protein.
KJ893834 - Synthetic construct Homo sapiens clone ccsbBroadEn_03228 ING4 gene, encodes complete protein.
AB463779 - Synthetic construct DNA, clone: pF1KB7524, Homo sapiens ING4 gene for inhibitor of growth family, member 4, without stop codon, in Flexi system.
LF365874 - JP 2014500723-A/173377: Polycomb-Associated Non-Coding RNAs.
LF365873 - JP 2014500723-A/173376: Polycomb-Associated Non-Coding RNAs.
LF365867 - JP 2014500723-A/173370: Polycomb-Associated Non-Coding RNAs.
MA449488 - JP 2018138019-A/21414: Polycomb-Associated Non-Coding RNAs.
MA601451 - JP 2018138019-A/173377: Polycomb-Associated Non-Coding RNAs.
MA601450 - JP 2018138019-A/173376: Polycomb-Associated Non-Coding RNAs.
MA601444 - JP 2018138019-A/173370: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UNL4 (Reactome details) participates in the following event(s):

R-HSA-3318413 KAT7-containing ING4/5 complexes acetylate Me3K-histone H3
R-HSA-3214847 HATs acetylate histones
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-4839726 Chromatin organization

-  Other Names for This Gene
  Alternate Gene Symbols: A4KYM4, A4KYM6, D3DUR8, ING4_HUMAN, My036, NM_001127582, NP_001121054, Q0EF62, Q0EF63, Q4VBQ6, Q96E15, Q9H3J0, Q9UNL4
UCSC ID: uc001qpw.4
RefSeq Accession: NM_001127582
Protein: Q9UNL4 (aka ING4_HUMAN)
CCDS: CCDS8555.1, CCDS44813.1, CCDS44814.1, CCDS44815.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001127582.1
exon count: 8CDS single in 3' UTR: no RNA size: 1461
ORF size: 750CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1700.00frame shift in genome: no % Coverage: 99.11
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.