Human Gene RNF167 (uc002fzs.3) Description and Page Index
  Description: Homo sapiens ring finger protein 167 (RNF167), mRNA.
RefSeq Summary (NM_015528): RNF167 is an E3 ubiquitin ligase that interacts with TSSC5 (SLC22A18; MIM 602631) and, together with UBCH6 (UBE2E1; MIM 602916), facilitates TSSC5 polyubiquitylation (Yamada and Gorbsky, 2006 [PubMed 16314844]).[supplied by OMIM, Mar 2008]. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##Evidence-Data-START## Transcript exon combination :: SRR3476690.360103.1, AK025329.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## RefSeq Select criteria :: based on conservation, expression ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr17:4,843,630-4,848,517 Size: 4,888 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr17:4,844,205-4,848,311 Size: 4,107 Coding Exon Count: 9 

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

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr17:4,843,630-4,848,517)mRNA (may differ from genome)Protein (350 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase RNF167; EC=6.3.2.-; AltName: Full=RING finger protein 167; AltName: Full=RING105; Flags: Precursor;
FUNCTION: May act as an E3 ubiquitin-protein ligase, or as part of the E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, such as UBE2E1, and then transfers it to substrates, such as SLC22A18. May play a role in growth regulation involved in G1/S transition.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with SLC22A18.
SUBCELLULAR LOCATION: Endomembrane system; Single-pass membrane protein. Note=Targeted to cytoplasmic membranes.
TISSUE SPECIFICITY: Strongly expressed in the kidney and liver (at protein level).
PTM: Auto-ubiquitinated in vitro in the presence of UBE2D1 and UBE2E1.
SIMILARITY: Contains 1 PA (protease associated) domain.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=AAP34453.1; Type=Frameshift; Positions=65;

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 90.04 RPKM in Whole Blood
Total median expression: 2594.08 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 -172.54449-0.384 Picture PostScript Text
3' UTR -69.75206-0.339 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
IPR003137 - Protease-assoc_domain
IPR001841 - Znf_RING

Pfam Domains:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF02225 - PA domain
PF13445 - RING-type zinc-finger
PF13639 - Ring finger domain
PF13923 - Zinc finger, C3HC4 type (RING finger)
PF14634 - zinc-RING finger domain
PF17123 - RING-like zinc finger

SCOP Domains:
52025 - Transferrin receptor ectodomain, apical domain
57850 - RING/U-box
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q9H6Y7
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 BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 Protein SequenceProtein Sequence   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0000209 protein polyubiquitination
GO:0016567 protein ubiquitination
GO:0045786 negative regulation of cell cycle

Cellular Component:
GO:0005737 cytoplasm
GO:0012505 endomembrane system
GO:0016020 membrane
GO:0016021 integral component of membrane

-  Descriptions from all associated GenBank mRNAs
  AK025329 - Homo sapiens cDNA: FLJ21676 fis, clone COL09164.
JD127378 - Sequence 108402 from Patent EP1572962.
JD554086 - Sequence 535110 from Patent EP1572962.
JD342015 - Sequence 323039 from Patent EP1572962.
JD252120 - Sequence 233144 from Patent EP1572962.
JD399084 - Sequence 380108 from Patent EP1572962.
AL834284 - Homo sapiens mRNA; cDNA DKFZp566H073 (from clone DKFZp566H073).
JD171186 - Sequence 152210 from Patent EP1572962.
AY203930 - Homo sapiens LP2254 mRNA, complete cds.
BC013222 - Homo sapiens ring finger protein 167, mRNA (cDNA clone IMAGE:3453597).
JD341102 - Sequence 322126 from Patent EP1572962.
BC010139 - Homo sapiens ring finger protein 167, mRNA (cDNA clone MGC:19468 IMAGE:4128232), complete cds.
JD122815 - Sequence 103839 from Patent EP1572962.
JD508785 - Sequence 489809 from Patent EP1572962.
JD277427 - Sequence 258451 from Patent EP1572962.
JD077251 - Sequence 58275 from Patent EP1572962.
JD201153 - Sequence 182177 from Patent EP1572962.
JD477010 - Sequence 458034 from Patent EP1572962.
JD262743 - Sequence 243767 from Patent EP1572962.
JD416397 - Sequence 397421 from Patent EP1572962.
KJ893506 - Synthetic construct Homo sapiens clone ccsbBroadEn_02900 RNF167 gene, encodes complete protein.
KJ898582 - Synthetic construct Homo sapiens clone ccsbBroadEn_07976 RNF167 gene, encodes complete protein.
CR457340 - Homo sapiens full open reading frame cDNA clone RZPDo834B0918D for gene DKFZP566H073, DKFZP566H073 protein; complete cds, incl. stopcodon.
AY960626 - Homo sapiens antigen MMSA-11 mRNA sequence.
AL050060 - Homo sapiens mRNA; cDNA DKFZp566H073 (from clone DKFZp566H073); partial cds.
AL079315 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 436011.
JD257571 - Sequence 238595 from Patent EP1572962.
JD113396 - Sequence 94420 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DTK8, LP2254, NM_015528, NP_056343, Q6XYE0, Q8NDC1, Q9H6Y7, Q9Y3V1, RN167_HUMAN
UCSC ID: uc002fzs.3
RefSeq Accession: NM_015528
Protein: Q9H6Y7 (aka RN167_HUMAN)
CCDS: CCDS11060.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_015528.1
exon count: 10CDS single in 3' UTR: no RNA size: 1723
ORF size: 1053CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2294.00frame shift in genome: no % Coverage: 99.13
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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.