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ZNF556 Gene

protein-coding   GIFtS: 48
GCID: GC19P002867

Zinc Finger Protein 556

  Search for ZNF556
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Zinc Finger Protein 5561 2

External Ids:    HGNC: 256691   Entrez Gene: 800322   Ensembl: ENSG000001720007   UniProtKB: Q9HAH13   

Export aliases for ZNF556 gene to outside databases

Previous GC identifers: GC19P002819 GC19P002820 GC19P002638


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for ZNF556 Gene:
ZNF556 (zinc finger protein 556) is a protein-coding gene. An important paralog of this gene is ZNF669.

UniProtKB/Swiss-Prot: ZN556_HUMAN, Q9HAH1
Function: May be involved in transcriptional regulation




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000019.10  NT_011295.12  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZNF556 gene promoter:
         HTF   LCR-F1   YY1   C/EBPalpha   ATF6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): ZNF556 promoter sequence
   Search Chromatin IP Primers for ZNF556

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF556


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19p13.3   Ensembl cytogenetic band:  19p13.3   HGNC cytogenetic band: 19p13.3

ZNF556 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF556 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P002867:  view genomic region     (about GC identifiers)

Start:
2,867,333 bp from pter      End:
2,878,515 bp from pter
Size:
11,183 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: ZN556_HUMAN, Q9HAH1 (See protein sequence)
Recommended Name: Zinc finger protein 556  
Size: 456 amino acids; 51581 Da
Secondary accessions: Q96GM3

Explore the universe of human proteins at neXtProt for ZNF556: NX_Q9HAH1

Explore proteomics data for ZNF556 at MOPED


See ZNF556 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_079243.1  
ENSEMBL proteins: 
 ENSP00000465533   ENSP00000302603   ENSP00000467366  
Reactome Protein details: Q9HAH1

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
ZNF: Zinc fingers, C2H2-type

4 InterPro protein domains:
 IPR001909 Krueppel-associated_box
 IPR015880 Znf_C2H2-like
 IPR013087 Znf_C2H2/integrase_DNA-bd
 IPR007087 Znf_C2H2

Graphical View of Domain Structure for InterPro Entry Q9HAH1

ProtoNet protein and cluster: Q9HAH1

2 Blocks protein domains:
IPB001909 KRAB box
IPB007086 C2H2-type zinc finger signature


UniProtKB/Swiss-Prot: ZN556_HUMAN, Q9HAH1
Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
Similarity: Contains 9 C2H2-type zinc fingers
Similarity: Contains 1 KRAB domain


ZNF556 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: ZN556_HUMAN, Q9HAH1
Function: May be involved in transcriptional regulation

     Gene Ontology (GO): 3 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003676nucleic acid binding ----
GO:0003677DNA binding IEA--
GO:0046872metal ion binding IEA--
     
ZNF556 for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for ZNF556:
 Synthetic lethal with Ras 

Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
ZN556_HUMAN, Q9HAH1: Nucleus (Probable)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus4
cytosol2

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005622intracellular ----
GO:0005634nucleus IEA--

ZNF556 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for ZNF556 About                                                                                                See pathways by source

SuperPathContained pathways About
1Gene Expression
Generic Transcription Pathway0.40
Gene Expression0.40

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


1 Reactome Pathway for ZNF556
    Generic Transcription Pathway



ZNF556 for pathways           About GeneDecksing

    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF556
Interactions:

    Search GeneGlobe Interaction Network for ZNF556

STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

2 Interacting proteins for ZNF556 (Q9HAH13 ENSP000003026034) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
ZBTB3Q9H5J03, ENSP000003782864I2D: score=1 STRING: ENSP00000378286
ELAVL1ENSP000003852694STRING: ENSP00000385269
About this table

Gene Ontology (GO): 2 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006351transcription, DNA-templated IEA--
GO:0006355regulation of transcription, DNA-templated IEA--

ZNF556 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for ZNF556 (ZN556)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for ZNF556 gene: 
NM_024967.1  

Unigene Cluster for ZNF556:

Zinc finger protein 556
Hs.287433  [show with all ESTs]
Unigene Representative Sequence: AK225297
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000586470 ENST00000307635(uc002lwp.1 uc002lwq.3) ENST00000586426

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Additional mRNA sequence: 

AK021699.1 AK225297.1 BC009374.2 

2 DOTS entries:

DT.95081361  DT.86847460 

6 AceView cDNA sequences:

BC009374 NM_024967 AU118770 AK021699 BF304554 AU145256 

GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for ZNF556    About this scheme

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b · 4c
SP1:                                    
SP2:                                    
SP3:                                    


ECgene alternative splicing isoforms for ZNF556

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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ZNF556 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GTTCAGAAAA
ZNF556 Expression
About this image

ZNF556 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ZNF556 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.287433
    Custom PCR Arrays for ZNF556
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In Situ
Assay Products:
 

 
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for ZNF556 gene from Selected species (see all 7)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
25(a)
1 → many
AAWZ02038665(3150-4763)
zebrafish
(Danio rerio)
Actinopterygii CT573234.26
CR388132.26
Uncharacterized protein
25(a)
25(a)
many ↔ many
many ↔ many
Zv9_scaffold3530(1425476-1452687) ENSDARG00000093555
4(28399744-28423465) ENSDARG00000092942
        Species with no ortholog for ZNF556

ENSEMBL Gene Tree for ZNF556 (if available)
TreeFam Gene Tree for ZNF556 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for ZNF556 gene
ZNF6692  ZNF5642  ZNF4902  ZNF4412  ZNF625-ZNF202  ZNF8782  ENSG000002671792  ZNF142  
ENSG000002697552  ENSG000001968262  ZNF7002  ZNF692  ZNF4402  ZNF4432  ZNF670-ZNF6952  ZNF442  
ZNF4392  ZNF8232  ENSG000001884742  ZNF4912  ZNF5552  ENSG000002688702  ZNF7092  ZNF6252  
ZNF7992  ZNF202  ZNF7882  ZNF1012  ZNF7912  ZNF4422  ZNF4332  ZNF572  
ZNF6272  ZNF5632  ENSG000002573552  ZNF1362  ZNF7632  ENSG000002687442  ZNF8442  ZNF772  
Selected SIMAP similar genes for ZNF556 using alignment to 2 protein entries:     ZN556_HUMAN (see all proteins) (see all similar genes):
ZNF625-ZNF20    ZNF114    ZNF177    LOC101928664    ZNF226    ZNF846
ZNF625    ZNF675    ZNF235    ZNF320    ZNF155    ZNF224
ZNF124    ZNF527    ZNF233    ZNF586    ZNF596    ZNF331

ZNF556 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for ZNF556 (see all 515)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 19 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1487017511,2
Cuntested12877730(+) AGACCG/ATATGA 2 /P syn11Minor allele frequency- A:0.00EU 1321
rs1127664561,2
C,F--2865339(+) GTGTTG/AGAACA 1 -- us2k13Minor allele frequency- A:0.08NA WA 240
rs1929952701,2
--2865359(+) ACAGAG/TTAAAG 1 -- us2k10--------
rs1852940271,2
C--2865397(+) GTAAGA/GAAACC 1 -- us2k10--------
rs1898246541,2
--2865441(+) CTTTTA/TAAAAT 1 -- us2k10--------
rs65107131,2
C,F,A--2865510(+) tgaagA/Gccctg 1 -- us2k16Minor allele frequency- G:0.17NA CSA 12
rs1408787411,2
--2865550(+) TAGACA/GGATAA 1 -- us2k10--------
rs2000329411,2
--2865580(+) TTTTG-/CCTTGA 1 -- us2k10--------
rs1925711951,2
--2865643(+) TCTCTA/CGCTTC 1 -- us2k10--------
rs1846018331,2
--2865677(+) GATCTC/TCCCCG 1 -- us2k10--------

HapMap Linkage Disequilibrium report for ZNF556 (2867333 - 2878515 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for ZNF556:    About this table    
Variant IDTypeSubtypePubMed ID
nsv509715CNV Insertion20534489
nsv910692CNV Loss21882294

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for ZNF556 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ZNF556)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  4. A whole genome screen for HIV restriction factors. (PubMed id 22082156)1 Liu L....McKnight A. (Retrovirology 2011)
  5. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (Cell 2010)
  6. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 80032 HGNC: 25669 AceView: ZNF556 Ensembl:ENSG00000172000 euGenes: HUgn80032
ECgene: ZNF556 H-InvDB: ZNF556

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for ZNF556 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for ZNF556 gene:
Search GeneIP for patents involving ZNF556

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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