Human Gene SHPRH (ENST00000367505.6) from GENCODE V44
  Description: Homo sapiens SNF2 histone linker PHD RING helicase (SHPRH), transcript variant 4, mRNA. (from RefSeq NM_001370328)
RefSeq Summary (NM_001370327): SHPRH is a ubiquitously expressed protein that contains motifs characteristics of several DNA repair proteins, transcription factors, and helicases. SHPRH is a functional homolog of S. cerevisiae RAD5 (Unk et al., 2006 [PubMed 17108083]).[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.
Gencode Transcript: ENST00000367505.6
Gencode Gene: ENSG00000146414.17
Transcript (Including UTRs)
   Position: hg38 chr6:145,884,807-145,964,389 Size: 79,583 Total Exon Count: 30 Strand: -
Coding Region
   Position: hg38 chr6:145,886,691-145,955,322 Size: 68,632 Coding Exon Count: 29 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:145,884,807-145,964,389)mRNA (may differ from genome)Protein (1683 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SHPRH_HUMAN
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase SHPRH; EC=3.6.4.-; EC=6.3.2.-; AltName: Full=SNF2, histone-linker, PHD and RING finger domain-containing helicase;
FUNCTION: E3 ubiquitin-protein ligase involved in DNA repair. Upon genotoxic stress, accepts ubiquitin from the UBE2N-UBE2V2 E2 complex and transfers it to 'Lys-164' of PCNA which had been monoubiquitinated by UBE2A/B-RAD18, promoting the formation of non-canonical poly-ubiquitin chains linked through 'Lys-63'.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Homodimer. Interacts with HLTF, PCNA, UBE2N and RAD18.
TISSUE SPECIFICITY: Broadly expressed.
DOMAIN: The RING finger mediates E3 ubiquitin ligase activity.
SIMILARITY: Belongs to the SNF2/RAD54 helicase family.
SIMILARITY: Contains 1 H15 (linker histone H1/H5 globular) domain.
SIMILARITY: Contains 1 helicase ATP-binding domain.
SIMILARITY: Contains 1 helicase C-terminal domain.
SIMILARITY: Contains 1 PHD-type zinc finger.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=AAI13090.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing; Sequence=AAI17686.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing; Sequence=BAC04459.1; Type=Erroneous initiation; Sequence=BAC23119.1; Type=Erroneous translation; Note=Wrong choice of frame; Sequence=CAH18145.1; Type=Frameshift; Positions=762, 997;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 3.91 RPKM in Ovary
Total median expression: 91.52 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 -103.90265-0.392 Picture PostScript Text
3' UTR -415.601884-0.221 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
IPR014001 - Helicase_ATP-bd
IPR001650 - Helicase_C
IPR005818 - Histone_H1/H5
IPR000330 - SNF2_N
IPR011991 - WHTH_trsnscrt_rep_DNA-bd
IPR019786 - Zinc_finger_PHD-type_CS
IPR011011 - Znf_FYVE_PHD
IPR001965 - Znf_PHD
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00271 - Helicase conserved C-terminal domain
PF00538 - linker histone H1 and H5 family
PF00176 - SNF2 family N-terminal domain
PF13639 - Ring finger domain

ModBase Predicted Comparative 3D Structure on Q149N8
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-  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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003677 DNA binding
GO:0004386 helicase activity
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity
GO:0016787 hydrolase activity
GO:0031625 ubiquitin protein ligase binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0006281 DNA repair
GO:0006334 nucleosome assembly
GO:0006974 cellular response to DNA damage stimulus
GO:0016567 protein ubiquitination

Cellular Component:
GO:0000786 nucleosome
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  LF208698 - JP 2014500723-A/16201: Polycomb-Associated Non-Coding RNAs.
MA444275 - JP 2018138019-A/16201: Polycomb-Associated Non-Coding RNAs.
BX648322 - Homo sapiens mRNA; cDNA DKFZp686E02163 (from clone DKFZp686E02163).
LF213962 - JP 2014500723-A/21465: Polycomb-Associated Non-Coding RNAs.
MA449539 - JP 2018138019-A/21465: Polycomb-Associated Non-Coding RNAs.
AL833521 - Homo sapiens mRNA; cDNA DKFZp686G0637 (from clone DKFZp686G0637).
AY163808 - Homo sapiens helicase-like protein mRNA, complete cds.
AK094944 - Homo sapiens cDNA FLJ37625 fis, clone BRCOC2014400, weakly similar to DNA REPAIR PROTEIN RAD8.
AK126959 - Homo sapiens cDNA FLJ45012 fis, clone BRAWH3013264, highly similar to Homo sapiens SNF2 histone linker PHD RING helicase (SHPRH), mRNA.
JD280616 - Sequence 261640 from Patent EP1572962.
LF321692 - JP 2014500723-A/129195: Polycomb-Associated Non-Coding RNAs.
MA557269 - JP 2018138019-A/129195: Polycomb-Associated Non-Coding RNAs.
JD347941 - Sequence 328965 from Patent EP1572962.
BC113089 - Homo sapiens SNF2 histone linker PHD RING helicase, mRNA (cDNA clone IMAGE:40071862), complete cds.
BC117685 - Homo sapiens SNF2 histone linker PHD RING helicase, mRNA (cDNA clone IMAGE:40071170), complete cds.
BC117686 - Homo sapiens SNF2 histone linker PHD RING helicase, mRNA (cDNA clone MGC:134886 IMAGE:40071177), complete cds.
AY161136 - Homo sapiens SNF2 histone linker PHD RING helicase (SHPRH) gene, complete cds.
JD316065 - Sequence 297089 from Patent EP1572962.
JD078276 - Sequence 59300 from Patent EP1572962.
LF321691 - JP 2014500723-A/129194: Polycomb-Associated Non-Coding RNAs.
MA557268 - JP 2018138019-A/129194: Polycomb-Associated Non-Coding RNAs.
LF321690 - JP 2014500723-A/129193: Polycomb-Associated Non-Coding RNAs.
MA557267 - JP 2018138019-A/129193: Polycomb-Associated Non-Coding RNAs.
LF321686 - JP 2014500723-A/129189: Polycomb-Associated Non-Coding RNAs.
MA557263 - JP 2018138019-A/129189: Polycomb-Associated Non-Coding RNAs.
AB095943 - Homo sapiens mRNA for KIAA2023 protein.
CR749290 - Homo sapiens mRNA; cDNA DKFZp686L17246 (from clone DKFZp686L17246).
AK130768 - Homo sapiens cDNA FLJ27258 fis, clone TLV02954.
LF321683 - JP 2014500723-A/129186: Polycomb-Associated Non-Coding RNAs.
MA557260 - JP 2018138019-A/129186: Polycomb-Associated Non-Coding RNAs.
LF321682 - JP 2014500723-A/129185: Polycomb-Associated Non-Coding RNAs.
MA557259 - JP 2018138019-A/129185: Polycomb-Associated Non-Coding RNAs.
LF321676 - JP 2014500723-A/129179: Polycomb-Associated Non-Coding RNAs.
MA557253 - JP 2018138019-A/129179: Polycomb-Associated Non-Coding RNAs.
LF321673 - JP 2014500723-A/129176: Polycomb-Associated Non-Coding RNAs.
MA557250 - JP 2018138019-A/129176: Polycomb-Associated Non-Coding RNAs.
LF321672 - JP 2014500723-A/129175: Polycomb-Associated Non-Coding RNAs.
MA557249 - JP 2018138019-A/129175: Polycomb-Associated Non-Coding RNAs.
LF321671 - JP 2014500723-A/129174: Polycomb-Associated Non-Coding RNAs.
MA557248 - JP 2018138019-A/129174: Polycomb-Associated Non-Coding RNAs.
LF321670 - JP 2014500723-A/129173: Polycomb-Associated Non-Coding RNAs.
MA557247 - JP 2018138019-A/129173: Polycomb-Associated Non-Coding RNAs.
AK075318 - Homo sapiens cDNA FLJ90837 fis, clone Y79AA1002121, weakly similar to HISTONE H1.
LF321669 - JP 2014500723-A/129172: Polycomb-Associated Non-Coding RNAs.
MA557246 - JP 2018138019-A/129172: Polycomb-Associated Non-Coding RNAs.
LF321668 - JP 2014500723-A/129171: Polycomb-Associated Non-Coding RNAs.
MA557245 - JP 2018138019-A/129171: Polycomb-Associated Non-Coding RNAs.
LF321667 - JP 2014500723-A/129170: Polycomb-Associated Non-Coding RNAs.
MA557244 - JP 2018138019-A/129170: Polycomb-Associated Non-Coding RNAs.
LF321666 - JP 2014500723-A/129169: Polycomb-Associated Non-Coding RNAs.
MA557243 - JP 2018138019-A/129169: Polycomb-Associated Non-Coding RNAs.
LF321665 - JP 2014500723-A/129168: Polycomb-Associated Non-Coding RNAs.
MA557242 - JP 2018138019-A/129168: Polycomb-Associated Non-Coding RNAs.
LF321661 - JP 2014500723-A/129164: Polycomb-Associated Non-Coding RNAs.
MA557238 - JP 2018138019-A/129164: Polycomb-Associated Non-Coding RNAs.
LF321660 - JP 2014500723-A/129163: Polycomb-Associated Non-Coding RNAs.
MA557237 - JP 2018138019-A/129163: Polycomb-Associated Non-Coding RNAs.
LF321658 - JP 2014500723-A/129161: Polycomb-Associated Non-Coding RNAs.
MA557235 - JP 2018138019-A/129161: Polycomb-Associated Non-Coding RNAs.
LF321656 - JP 2014500723-A/129159: Polycomb-Associated Non-Coding RNAs.
MA557233 - JP 2018138019-A/129159: Polycomb-Associated Non-Coding RNAs.
LF321655 - JP 2014500723-A/129158: Polycomb-Associated Non-Coding RNAs.
MA557232 - JP 2018138019-A/129158: Polycomb-Associated Non-Coding RNAs.
LF321654 - JP 2014500723-A/129157: Polycomb-Associated Non-Coding RNAs.
MA557231 - JP 2018138019-A/129157: Polycomb-Associated Non-Coding RNAs.
LF321653 - JP 2014500723-A/129156: Polycomb-Associated Non-Coding RNAs.
MA557230 - JP 2018138019-A/129156: Polycomb-Associated Non-Coding RNAs.
LF321652 - JP 2014500723-A/129155: Polycomb-Associated Non-Coding RNAs.
MA557229 - JP 2018138019-A/129155: Polycomb-Associated Non-Coding RNAs.

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

Protein Q149N8 (Reactome details) participates in the following event(s):

R-HSA-8943007 SHPRH binds monoUb-K164-PCNA, RAD6:RAD18, UBE2V2:Ub:UBE2N
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-8852135 Protein ubiquitination
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000367505.1, ENST00000367505.2, ENST00000367505.3, ENST00000367505.4, ENST00000367505.5, KIAA2023, NM_001370328, Q149N8, Q149N9, Q5VV79, Q68DS5, Q7Z5J5, Q8IVE8, Q8IWQ9, Q8N1S8, Q8NBR7, SHPRH_HUMAN, uc063sbq.1
UCSC ID: ENST00000367505.6
RefSeq Accession: NM_001370327
Protein: Q149N8 (aka SHPRH_HUMAN)
CCDS: CCDS43513.2, CCDS47496.1

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