Human Gene ZNF555 (uc002lwo.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 555 (ZNF555), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:2,841,433-2,860,472 Size: 19,040 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr19:2,841,571-2,853,950 Size: 12,380 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr19:2,841,433-2,860,472)mRNA (may differ from genome)Protein (628 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
PubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Zinc finger protein 555;
FUNCTION: May be involved in transcriptional regulation.
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 15 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZNF555
CDC HuGE Published Literature: ZNF555
Positive Disease Associations: Stroke
Related Studies:
  1. Stroke
    , , . [PubMed 0]

-  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: 3.38 RPKM in Testis
Total median expression: 40.32 RPKM

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -55.70138-0.404 Picture PostScript Text
3' UTR -2269.126522-0.348 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
PF13894 - C2H2-type zinc finger
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 Q8NEP9
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 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:0005515 protein 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

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  KJ900262 - Synthetic construct Homo sapiens clone ccsbBroadEn_09656 ZNF555 gene, encodes complete protein.
AK093163 - Homo sapiens cDNA FLJ35844 fis, clone TESTI2006748, moderately similar to ZINC FINGER PROTEIN 184.
AX747966 - Sequence 1491 from Patent EP1308459.
JD173597 - Sequence 154621 from Patent EP1572962.
AL832140 - Homo sapiens mRNA; cDNA DKFZp686O0610 (from clone DKFZp686O0610).
BX647423 - Homo sapiens mRNA; cDNA DKFZp686D10152 (from clone DKFZp686D10152).
BC022022 - Homo sapiens zinc finger protein 555, mRNA (cDNA clone MGC:26707 IMAGE:4822197), complete cds.
AK292954 - Homo sapiens cDNA FLJ77576 complete cds.
AB464403 - Synthetic construct DNA, clone: pF1KB8345, Homo sapiens ZNF555 gene for zinc finger protein 555, without stop codon, in Flexi system.
EU832270 - Synthetic construct Homo sapiens clone HAIB:100067299; DKFZo004H0826 zinc finger protein 555 protein (ZNF555) gene, encodes complete protein.
EU832177 - Synthetic construct Homo sapiens clone HAIB:100067206; DKFZo008H0825 zinc finger protein 555 protein (ZNF555) gene, encodes complete protein.
AM393867 - Synthetic construct Homo sapiens clone IMAGE:100002297 for hypothetical protein (ZNF555 gene).
EU446583 - Synthetic construct Homo sapiens clone IMAGE:100070072; IMAGE:100011792; FLH258245.01L zinc finger protein 555 (ZNF555) gene, encodes complete protein.
AK056659 - Homo sapiens cDNA FLJ32097 fis, clone OCBBF2001101.
JD082214 - Sequence 63238 from Patent EP1572962.
JD316290 - Sequence 297314 from Patent EP1572962.
JD032199 - Sequence 13223 from Patent EP1572962.
JD283811 - Sequence 264835 from Patent EP1572962.
JD090087 - Sequence 71111 from Patent EP1572962.
JD548980 - Sequence 530004 from Patent EP1572962.
JD277719 - Sequence 258743 from Patent EP1572962.
JD451152 - Sequence 432176 from Patent EP1572962.
JD463841 - Sequence 444865 from Patent EP1572962.
JD478593 - Sequence 459617 from Patent EP1572962.
JD543279 - Sequence 524303 from Patent EP1572962.
JD478592 - Sequence 459616 from Patent EP1572962.
JD463840 - Sequence 444864 from Patent EP1572962.
JD148329 - Sequence 129353 from Patent EP1572962.
JD265238 - Sequence 246262 from Patent EP1572962.
JD174090 - Sequence 155114 from Patent EP1572962.
JD324651 - Sequence 305675 from Patent EP1572962.
JD148328 - Sequence 129352 from Patent EP1572962.
JD249886 - Sequence 230910 from Patent EP1572962.
JD249887 - Sequence 230911 from Patent EP1572962.
JD249889 - Sequence 230913 from Patent EP1572962.
JD249888 - Sequence 230912 from Patent EP1572962.
JD511143 - Sequence 492167 from Patent EP1572962.
JD564476 - Sequence 545500 from Patent EP1572962.
JD319665 - Sequence 300689 from Patent EP1572962.
JD420763 - Sequence 401787 from Patent EP1572962.
JD430399 - Sequence 411423 from Patent EP1572962.
JD430398 - Sequence 411422 from Patent EP1572962.
JD557504 - Sequence 538528 from Patent EP1572962.
JD557503 - Sequence 538527 from Patent EP1572962.
JD514124 - Sequence 495148 from Patent EP1572962.
JD514123 - Sequence 495147 from Patent EP1572962.
JD070263 - Sequence 51287 from Patent EP1572962.
JD416322 - Sequence 397346 from Patent EP1572962.
AK123888 - Homo sapiens cDNA FLJ41894 fis, clone OCBBF2025451.
JD278270 - Sequence 259294 from Patent EP1572962.
JD145368 - Sequence 126392 from Patent EP1572962.
JD433554 - Sequence 414578 from Patent EP1572962.
JD120975 - Sequence 101999 from Patent EP1572962.
JD394810 - Sequence 375834 from Patent EP1572962.
JD437081 - Sequence 418105 from Patent EP1572962.
JD089295 - Sequence 70319 from Patent EP1572962.
JD318376 - Sequence 299400 from Patent EP1572962.
AF052118 - Homo sapiens clone 23822 mRNA sequence.
JD500693 - Sequence 481717 from Patent EP1572962.
JD429774 - Sequence 410798 from Patent EP1572962.
JD478798 - Sequence 459822 from Patent EP1572962.
JD252039 - Sequence 233063 from Patent EP1572962.
JD364233 - Sequence 345257 from Patent EP1572962.
JD534258 - Sequence 515282 from Patent EP1572962.
JD450889 - Sequence 431913 from Patent EP1572962.
JD110748 - Sequence 91772 from Patent EP1572962.
JD431378 - Sequence 412402 from Patent EP1572962.
JD040247 - Sequence 21271 from Patent EP1572962.
JD374153 - Sequence 355177 from Patent EP1572962.
JD521109 - Sequence 502133 from Patent EP1572962.
JD375538 - Sequence 356562 from Patent EP1572962.

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

Protein Q8NEP9 (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: NM_152791, NP_690004, Q8NA46, Q8NEP9, Q96MP1, ZN555_HUMAN
UCSC ID: uc002lwo.3
RefSeq Accession: NM_152791
Protein: Q8NEP9 (aka ZN555_HUMAN)
CCDS: CCDS12096.1, CCDS59329.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_152791.4
exon count: 4CDS single in 3' UTR: no RNA size: 8547
ORF size: 1887CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3974.00frame 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.