Human Gene ZNF552 (uc002qqg.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 552 (ZNF552), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:58,318,450-58,326,281 Size: 7,832 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr19:58,319,408-58,326,111 Size: 6,704 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:58,318,450-58,326,281)mRNA (may differ from genome)Protein (407 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZN552_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 552;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 9 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.
SEQUENCE CAUTION: Sequence=BAB15093.1; Type=Frameshift; Positions=388;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 13.04 RPKM in Bladder
Total median expression: 128.24 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 -58.80170-0.346 Picture PostScript Text
3' UTR -331.29958-0.346 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
IPR001909 - Krueppel-associated_box
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF01352 - KRAB box
PF12874 - Zinc-finger of C2H2 type
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
109640 - KRAB domain (Kruppel-associated box, Pfam 01352)
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on Q9H707
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK025256 - Homo sapiens cDNA: FLJ21603 fis, clone COL07238.
BC017460 - Homo sapiens zinc finger protein 552, mRNA (cDNA clone IMAGE:4864067).
BC046237 - Homo sapiens zinc finger protein 552, mRNA (cDNA clone IMAGE:5455828), partial cds.
BC062982 - Homo sapiens zinc finger protein 552, mRNA (cDNA clone IMAGE:6574426), partial cds.
BC082767 - Homo sapiens zinc finger protein 552, mRNA (cDNA clone IMAGE:6480121), partial cds.
AK097041 - Homo sapiens cDNA FLJ39722 fis, clone SMINT2014480, highly similar to Homo sapiens zinc finger protein 552 (ZNF552), mRNA.
AK225219 - Homo sapiens mRNA for zinc finger protein 552 variant, clone: COL07238.
JD535810 - Sequence 516834 from Patent EP1572962.
JD092147 - Sequence 73171 from Patent EP1572962.
JD347764 - Sequence 328788 from Patent EP1572962.
JD312557 - Sequence 293581 from Patent EP1572962.
JD064591 - Sequence 45615 from Patent EP1572962.
JD242876 - Sequence 223900 from Patent EP1572962.
JD203735 - Sequence 184759 from Patent EP1572962.
JD071914 - Sequence 52938 from Patent EP1572962.
JD397975 - Sequence 378999 from Patent EP1572962.
JD070286 - Sequence 51310 from Patent EP1572962.
JD514133 - Sequence 495157 from Patent EP1572962.
JD151011 - Sequence 132035 from Patent EP1572962.
JD120062 - Sequence 101086 from Patent EP1572962.
JD463189 - Sequence 444213 from Patent EP1572962.
JD213231 - Sequence 194255 from Patent EP1572962.
JD407625 - Sequence 388649 from Patent EP1572962.
JD256814 - Sequence 237838 from Patent EP1572962.
JD059625 - Sequence 40649 from Patent EP1572962.
JD152303 - Sequence 133327 from Patent EP1572962.
JD526343 - Sequence 507367 from Patent EP1572962.
JD353036 - Sequence 334060 from Patent EP1572962.
JD213230 - Sequence 194254 from Patent EP1572962.
JD110073 - Sequence 91097 from Patent EP1572962.
JD275354 - Sequence 256378 from Patent EP1572962.
JD518757 - Sequence 499781 from Patent EP1572962.
JD375425 - Sequence 356449 from Patent EP1572962.
JD518756 - Sequence 499780 from Patent EP1572962.
JD316235 - Sequence 297259 from Patent EP1572962.
JD292256 - Sequence 273280 from Patent EP1572962.
JD411374 - Sequence 392398 from Patent EP1572962.
JD049156 - Sequence 30180 from Patent EP1572962.
JD373574 - Sequence 354598 from Patent EP1572962.
AK293445 - Homo sapiens cDNA FLJ53972 complete cds, highly similar to Homo sapiens zinc finger protein 552 (ZNF552), mRNA.
AB528918 - Synthetic construct DNA, clone: pF1KE0708, Homo sapiens ZNF552 gene for zinc finger protein 552, without stop codon, in Flexi system.
JD314815 - Sequence 295839 from Patent EP1572962.
JD335047 - Sequence 316071 from Patent EP1572962.
JD360055 - Sequence 341079 from Patent EP1572962.
JD360429 - Sequence 341453 from Patent EP1572962.

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

Protein Q9H707 (Reactome details) participates in the following event(s):

R-HSA-975040 KRAB-ZNF / KAP Interaction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B3KUE9, NM_024762, NP_079038, Q6P5A6, Q9H707, ZN552_HUMAN
UCSC ID: uc002qqg.3
RefSeq Accession: NM_024762
Protein: Q9H707 (aka ZN552_HUMAN)
CCDS: CCDS12963.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_024762.3
exon count: 3CDS single in 3' UTR: no RNA size: 2352
ORF size: 1224CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2648.00frame shift in genome: no % Coverage: 100.00
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.