Human Gene ERCC5 (ENST00000652225.2_9) from GENCODE V47lift37
  Description: ERCC excision repair 5, endonuclease (from RefSeq NM_000123.4)
Gencode Transcript: ENST00000652225.2_9
Gencode Gene: ENSG00000134899.24_15
Transcript (Including UTRs)
   Position: hg19 chr13:103,498,382-103,528,345 Size: 29,964 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr13:103,498,617-103,528,253 Size: 29,637 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:103,498,382-103,528,345)mRNA (may differ from genome)Protein (1186 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ERCC5_HUMAN
DESCRIPTION: RecName: Full=DNA repair protein complementing XP-G cells; EC=3.1.-.-; AltName: Full=DNA excision repair protein ERCC-5; AltName: Full=Xeroderma pigmentosum group G-complementing protein;
FUNCTION: Single-stranded structure-specific DNA endonuclease involved in DNA excision repair. Makes the 3'incision in DNA nucleotide excision repair (NER). Acts as a cofactor for a DNA glycosylase that removes oxidized pyrimidines from DNA. May also be involved in transcription-coupled repair of this kind of damage, in transcription by RNA polymerase II, and perhaps in other processes too.
COFACTOR: Binds 2 magnesium ions per subunit. They probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding (By similarity).
SUBUNIT: Interacts with PCNA.
SUBCELLULAR LOCATION: Nucleus.
DISEASE: Defects in ERCC5 are the cause of xeroderma pigmentosum complementation group G (XP-G) [MIM:278780]; also known as xeroderma pigmentosum VII (XP7). Xeroderma pigmentosum is an autosomal recessive pigmentary skin disorder characterized by solar hypersensitivity of the skin, high predisposition for developing cancers on areas exposed to sunlight and, in some cases, neurological abnormalities. Some XP-G patients present features of Cockayne syndrome, including dwarfism, sensorineural deafness, microcephaly, mental retardation, pigmentary retinopathy, ataxia, decreased nerve conduction velocities.
SIMILARITY: Belongs to the XPG/RAD2 endonuclease family. XPG subfamily.
WEB RESOURCE: Name=Allelic variations of the XP genes; URL="http://www.xpmutations.org/";
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/XPGID300.html";
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/ERCC5";
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/ercc5/";

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: ERCC5
Diseases sorted by gene-association score: xeroderma pigmentosum, group g* (1261), cerebrooculofacioskeletal syndrome 3* (900), ercc5-related xeroderma pigmentosum* (100), cockayne syndrome (31), cerebro-oculo-facio-skeletal syndrome (15), xeroderma pigmentosum, variant type (14), cerebrooculofacioskeletal syndrome 1 (12), acoustic neuroma (9), pediatric ependymoma (9), pellagra (9), trichothiodystrophy 1, photosensitive (7), female breast cancer (6), malignant ependymoma (6), xeroderma pigmentosum, group f (6), uv-sensitive syndrome (5)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

+  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 -87.60235-0.373 Picture PostScript Text
3' UTR -13.8092-0.150 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
IPR020045 - 5-3_exonuclease_C
IPR008918 - HhH2
IPR006086 - XPG/RAD2_endonuclease
IPR019974 - XPG_CS
IPR006085 - XPG_DNA_repair_N
IPR001044 - XPGC_DNA_repair
IPR006084 - XPGC_Rad_DNA_repair

Pfam Domains:
PF00752 - XPG N-terminal domain
PF00867 - XPG I-region

SCOP Domains:
47807 - 5' to 3' exonuclease, C-terminal subdomain
88723 - PIN domain-like

ModBase Predicted Comparative 3D Structure on P28715
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGD  WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000405 bubble DNA binding
GO:0003677 DNA binding
GO:0003690 double-stranded DNA binding
GO:0003697 single-stranded DNA binding
GO:0003824 catalytic activity
GO:0004518 nuclease activity
GO:0004519 endonuclease activity
GO:0004520 endodeoxyribonuclease activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0016788 hydrolase activity, acting on ester bonds
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
GO:0047485 protein N-terminus binding

Biological Process:
GO:0006281 DNA repair
GO:0006283 transcription-coupled nucleotide-excision repair
GO:0006289 nucleotide-excision repair
GO:0006293 nucleotide-excision repair, preincision complex stabilization
GO:0006294 nucleotide-excision repair, preincision complex assembly
GO:0006295 nucleotide-excision repair, DNA incision, 3'-to lesion
GO:0006296 nucleotide-excision repair, DNA incision, 5'-to lesion
GO:0006974 cellular response to DNA damage stimulus
GO:0009411 response to UV
GO:0009650 UV protection
GO:0010225 response to UV-C
GO:0033683 nucleotide-excision repair, DNA incision
GO:0043066 negative regulation of apoptotic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005662 DNA replication factor A complex
GO:0005675 holo TFIIH complex
GO:0016591 DNA-directed RNA polymerase II, holoenzyme


-  Descriptions from all associated GenBank mRNAs
  LM994822 - Homo sapiens mRNA for Splicevariant, conjoined gene of BIVM + XPG endonuclease (ERCC5-202 gene).
AB209312 - Homo sapiens mRNA for DNA-repair protein complementing XP-G cells variant protein.
LF383603 - JP 2014500723-A/191106: Polycomb-Associated Non-Coding RNAs.
BC031522 - Homo sapiens excision repair cross-complementing rodent repair deficiency, complementation group 5, mRNA (cDNA clone MGC:9055 IMAGE:3869893), complete cds.
AF462447 - Homo sapiens excision repair protein ERCC5 mRNA, complete cds.
AK294708 - Homo sapiens cDNA FLJ51835 complete cds, highly similar to DNA-repair protein complementing XP-G cells.
BX647399 - Homo sapiens mRNA; cDNA DKFZp686N20144 (from clone DKFZp686N20144).
AK303558 - Homo sapiens cDNA FLJ53844 complete cds, highly similar to DNA-repair protein complementing XP-G cells.
X69978 - H.sapiens mRNA for XP-G factor.
AK299758 - Homo sapiens cDNA FLJ61372 complete cds, highly similar to DNA-repair protein complementing XP-G cells.
JD520788 - Sequence 501812 from Patent EP1572962.
JD224873 - Sequence 205897 from Patent EP1572962.
L20046 - Human ERCC5 excision repair protein mRNA, complete cds.
JD241544 - Sequence 222568 from Patent EP1572962.
D16305 - Homo sapiens ERCC5 mRNA, complete cds.
CU689168 - Synthetic construct Homo sapiens gateway clone IMAGE:100020583 5' read ERCC5 mRNA.
DQ895006 - Synthetic construct Homo sapiens clone IMAGE:100009466; FLH180237.01L; RZPDo839H11131D excision repair cross-complementing rodent repair deficiency, complementation group 5 (xeroderma pigmentosum, complementation > (ERCC5) gene, encodes complete protein.
DQ891818 - Synthetic construct clone IMAGE:100004448; FLH180241.01X; RZPDo839H11132D excision repair cross-complementing rodent repair deficiency, complementation group 5 (xeroderma pigmentosum, complementation > (ERCC5) gene, encodes complete protein.
KJ896784 - Synthetic construct Homo sapiens clone ccsbBroadEn_06178 ERCC5 gene, encodes complete protein.
KR709587 - Synthetic construct Homo sapiens clone CCSBHm_00003718 ERCC5 (ERCC5) mRNA, encodes complete protein.
KR709588 - Synthetic construct Homo sapiens clone CCSBHm_00003724 ERCC5 (ERCC5) mRNA, encodes complete protein.
LF317578 - JP 2014500723-A/125081: Polycomb-Associated Non-Coding RNAs.
LF317581 - JP 2014500723-A/125084: Polycomb-Associated Non-Coding RNAs.
LM994821 - Homo sapiens mRNA for Splicevariant of XPG endonuclease (ERCC5-201 gene).
LF317582 - JP 2014500723-A/125085: Polycomb-Associated Non-Coding RNAs.
LF317583 - JP 2014500723-A/125086: Polycomb-Associated Non-Coding RNAs.
LF317584 - JP 2014500723-A/125087: Polycomb-Associated Non-Coding RNAs.
LF317585 - JP 2014500723-A/125088: Polycomb-Associated Non-Coding RNAs.
LF317587 - JP 2014500723-A/125090: Polycomb-Associated Non-Coding RNAs.
LF317588 - JP 2014500723-A/125091: Polycomb-Associated Non-Coding RNAs.
LF317592 - JP 2014500723-A/125095: Polycomb-Associated Non-Coding RNAs.
MA619180 - JP 2018138019-A/191106: Polycomb-Associated Non-Coding RNAs.
MA553155 - JP 2018138019-A/125081: Polycomb-Associated Non-Coding RNAs.
MA553158 - JP 2018138019-A/125084: Polycomb-Associated Non-Coding RNAs.
MA553159 - JP 2018138019-A/125085: Polycomb-Associated Non-Coding RNAs.
MA553160 - JP 2018138019-A/125086: Polycomb-Associated Non-Coding RNAs.
MA553161 - JP 2018138019-A/125087: Polycomb-Associated Non-Coding RNAs.
MA553162 - JP 2018138019-A/125088: Polycomb-Associated Non-Coding RNAs.
MA553164 - JP 2018138019-A/125090: Polycomb-Associated Non-Coding RNAs.
MA553165 - JP 2018138019-A/125091: Polycomb-Associated Non-Coding RNAs.
MA553169 - JP 2018138019-A/125095: Polycomb-Associated Non-Coding RNAs.

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

Protein P28715 (Reactome details) participates in the following event(s):

R-HSA-5689317 Formation of the pre-incision complex in GG-NER
R-HSA-6782138 ERCC5 and RPA bind TC-NER site
R-HSA-5690988 3'-incision of DNA by ERCC5 (XPG) in GG-NER
R-HSA-6782224 3' incision by ERCC5 (XPG) in TC-NER
R-HSA-5690213 DNA polymerases delta, epsilon or kappa bind the GG-NER site
R-HSA-5690991 Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in GG-NER
R-HSA-5690990 5'- incision of DNA by ERCC1:ERCC4 in GG-NER
R-HSA-6782141 Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in TC-NER
R-HSA-6782211 DNA polymerases delta, epsilon or kappa bind the TC-NER site
R-HSA-6782204 5' incision of damaged DNA strand by ERCC1:ERCC4 in TC-NER
R-HSA-5696395 Formation of Incision Complex in GG-NER
R-HSA-6782135 Dual incision in TC-NER
R-HSA-5696400 Dual Incision in GG-NER
R-HSA-5696399 Global Genome Nucleotide Excision Repair (GG-NER)
R-HSA-6781827 Transcription-Coupled Nucleotide Excision Repair (TC-NER)
R-HSA-5696398 Nucleotide Excision Repair
R-HSA-73894 DNA Repair

-  Other Names for This Gene
  Alternate Gene Symbols: A6NGT4, ENST00000652225.1, ERCC5_HUMAN, ERCM2, NM_000123, P28715, Q5JUS4, Q5JUS5, Q7Z2V3, Q8IZL6, Q8N1B7, Q9HD59, Q9HD60, uc328uan.1, uc328uan.2, XPG, XPGC
UCSC ID: ENST00000652225.2_9
RefSeq Accession: NM_000123.4
Protein: P28715 (aka ERCC5_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene ERCC5:
xp (Xeroderma Pigmentosum)

-  Gene Model Information
  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.