Human Gene XRCC2 (ENST00000359321.2) from GENCODE V44
  Description: Homo sapiens X-ray repair cross complementing 2 (XRCC2), mRNA. (from RefSeq NM_005431)
RefSeq Summary (NM_005431): This gene encodes a member of the RecA/Rad51-related protein family that participates in homologous recombination to maintain chromosome stability and repair DNA damage. This gene is involved in the repair of DNA double-strand breaks by homologous recombination and it functionally complements Chinese hamster irs1, a repair-deficient mutant that exhibits hypersensitivity to a number of different DNA-damaging agents. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000359321.2
Gencode Gene: ENSG00000196584.4
Transcript (Including UTRs)
   Position: hg38 chr7:152,644,776-152,676,141 Size: 31,366 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg38 chr7:152,648,642-152,676,079 Size: 27,438 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:152,644,776-152,676,141)mRNA (may differ from genome)Protein (280 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: XRCC2_HUMAN
DESCRIPTION: RecName: Full=DNA repair protein XRCC2; AltName: Full=X-ray repair cross-complementing protein 2;
FUNCTION: Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA, thought to repair chromosomal fragmentation, translocations and deletions. The BCDX2 complex binds single-stranded DNA, single-stranded gaps in duplex DNA and specifically to nicks in duplex DNA.
SUBUNIT: Interacts with RAD51D. Part of a BCDX2 complex consisting of RAD51B, RAD51C, RAD51D and XRCC2. Part of a complex consisting of RAD51B, RAD51C, RAD51D, XRCC2 and XRCC3. In the absence of DNA, XRCC2-RAD51D formed a multimeric ring structure. In the presence of single-stranded DNA, XRCC2-RAD51D formed a filamentous structure.
SUBCELLULAR LOCATION: Nucleus.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the RecA family. RAD51 subfamily.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/xrcc2/";

-  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: XRCC2
Diseases sorted by gene-association score: fanconi anemia, complementation group u* (559), fanconi anemia, complementation group a* (80), breast cancer* (9), lynch syndrome (3), breast disease (2), female reproductive organ cancer (1), differentiated thyroid carcinoma (1), lig4 syndrome (1)
* = Manually curated disease association

-  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: 4.84 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 16.78 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 -24.9062-0.402 Picture PostScript Text
3' UTR -1220.203866-0.316 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
IPR013632 - DNA_recomb/repair_Rad51_C
IPR020588 - DNA_recomb_RecA/RadB_ATP-bd

Pfam Domains:
PF08423 - Rad51

ModBase Predicted Comparative 3D Structure on O43543
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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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000150 recombinase activity
GO:0003677 DNA binding
GO:0003690 double-stranded DNA binding
GO:0003697 single-stranded DNA binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008094 DNA-dependent ATPase activity
GO:0000400 four-way junction DNA binding
GO:0004520 endodeoxyribonuclease activity

Biological Process:
GO:0000278 mitotic cell cycle
GO:0000707 meiotic DNA recombinase assembly
GO:0000724 double-strand break repair via homologous recombination
GO:0001701 in utero embryonic development
GO:0001756 somitogenesis
GO:0006281 DNA repair
GO:0006310 DNA recombination
GO:0006312 mitotic recombination
GO:0006974 cellular response to DNA damage stimulus
GO:0007098 centrosome cycle
GO:0007131 reciprocal meiotic recombination
GO:0010165 response to X-ray
GO:0010212 response to ionizing radiation
GO:0010332 response to gamma radiation
GO:0022008 neurogenesis
GO:0035264 multicellular organism growth
GO:0042148 strand invasion
GO:0043524 negative regulation of neuron apoptotic process
GO:0050769 positive regulation of neurogenesis
GO:0051321 meiotic cell cycle
GO:2000269 regulation of fibroblast apoptotic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005657 replication fork
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005815 microtubule organizing center
GO:0005856 cytoskeleton
GO:0033063 Rad51B-Rad51C-Rad51D-XRCC2 complex
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  CR749256 - Homo sapiens mRNA; cDNA DKFZp781P0919 (from clone DKFZp781P0919).
JD542516 - Sequence 523540 from Patent EP1572962.
JD497640 - Sequence 478664 from Patent EP1572962.
JD497641 - Sequence 478665 from Patent EP1572962.
DQ573726 - Homo sapiens piRNA piR-41838, complete sequence.
AF035587 - Homo sapiens X-ray repair cross-complementing protein 2 (XRCC2) mRNA, complete cds.
JD461451 - Sequence 442475 from Patent EP1572962.
JD406767 - Sequence 387791 from Patent EP1572962.
JD523430 - Sequence 504454 from Patent EP1572962.
JD351744 - Sequence 332768 from Patent EP1572962.
JD448343 - Sequence 429367 from Patent EP1572962.
JD332357 - Sequence 313381 from Patent EP1572962.
JD175916 - Sequence 156940 from Patent EP1572962.
JD531541 - Sequence 512565 from Patent EP1572962.
JD559470 - Sequence 540494 from Patent EP1572962.
JD063476 - Sequence 44500 from Patent EP1572962.
JD196476 - Sequence 177500 from Patent EP1572962.
JD233055 - Sequence 214079 from Patent EP1572962.
JD222268 - Sequence 203292 from Patent EP1572962.
JD194942 - Sequence 175966 from Patent EP1572962.
JD546465 - Sequence 527489 from Patent EP1572962.
JD089588 - Sequence 70612 from Patent EP1572962.
JD277589 - Sequence 258613 from Patent EP1572962.
JD425296 - Sequence 406320 from Patent EP1572962.
JD340426 - Sequence 321450 from Patent EP1572962.
JD406889 - Sequence 387913 from Patent EP1572962.
JD129526 - Sequence 110550 from Patent EP1572962.
JD231561 - Sequence 212585 from Patent EP1572962.
JD148379 - Sequence 129403 from Patent EP1572962.
JD463896 - Sequence 444920 from Patent EP1572962.
JD478644 - Sequence 459668 from Patent EP1572962.
JD543362 - Sequence 524386 from Patent EP1572962.
JD222932 - Sequence 203956 from Patent EP1572962.
JD543363 - Sequence 524387 from Patent EP1572962.
JD222933 - Sequence 203957 from Patent EP1572962.
JD249977 - Sequence 231001 from Patent EP1572962.
JD502604 - Sequence 483628 from Patent EP1572962.
JD305710 - Sequence 286734 from Patent EP1572962.
JD305800 - Sequence 286824 from Patent EP1572962.
JD305799 - Sequence 286823 from Patent EP1572962.
JD304332 - Sequence 285356 from Patent EP1572962.
JD370795 - Sequence 351819 from Patent EP1572962.
JD316461 - Sequence 297485 from Patent EP1572962.
JD316716 - Sequence 297740 from Patent EP1572962.
JD303852 - Sequence 284876 from Patent EP1572962.
JD043272 - Sequence 24296 from Patent EP1572962.
JD119992 - Sequence 101016 from Patent EP1572962.
JD453755 - Sequence 434779 from Patent EP1572962.
JD468420 - Sequence 449444 from Patent EP1572962.
JD158132 - Sequence 139156 from Patent EP1572962.
JD333585 - Sequence 314609 from Patent EP1572962.
Y08837 - Homo sapiens mRNA for RAD51-like protein (XRCC2).
BC042137 - Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 2, mRNA (cDNA clone MGC:52225 IMAGE:5801996), complete cds.
GQ901032 - Homo sapiens clone HEL-T-144 epididymis secretory sperm binding protein mRNA, complete cds.
JD358715 - Sequence 339739 from Patent EP1572962.
JD172136 - Sequence 153160 from Patent EP1572962.
JD210712 - Sequence 191736 from Patent EP1572962.
JD210610 - Sequence 191634 from Patent EP1572962.
JD142286 - Sequence 123310 from Patent EP1572962.
JD152109 - Sequence 133133 from Patent EP1572962.
JD352881 - Sequence 333905 from Patent EP1572962.
JD536119 - Sequence 517143 from Patent EP1572962.
JD274559 - Sequence 255583 from Patent EP1572962.
JD388788 - Sequence 369812 from Patent EP1572962.
JD525360 - Sequence 506384 from Patent EP1572962.
JD228417 - Sequence 209441 from Patent EP1572962.
JD547956 - Sequence 528980 from Patent EP1572962.
JD161825 - Sequence 142849 from Patent EP1572962.
JD527765 - Sequence 508789 from Patent EP1572962.
JD153375 - Sequence 134399 from Patent EP1572962.
JD388787 - Sequence 369811 from Patent EP1572962.
JD415608 - Sequence 396632 from Patent EP1572962.
JD228416 - Sequence 209440 from Patent EP1572962.
JD325963 - Sequence 306987 from Patent EP1572962.
JD241048 - Sequence 222072 from Patent EP1572962.
JD429296 - Sequence 410320 from Patent EP1572962.
JD107647 - Sequence 88671 from Patent EP1572962.
JD505949 - Sequence 486973 from Patent EP1572962.
JD081182 - Sequence 62206 from Patent EP1572962.
JD180960 - Sequence 161984 from Patent EP1572962.
JD150183 - Sequence 131207 from Patent EP1572962.
JD398362 - Sequence 379386 from Patent EP1572962.
JD536766 - Sequence 517790 from Patent EP1572962.
JD282167 - Sequence 263191 from Patent EP1572962.
JD150182 - Sequence 131206 from Patent EP1572962.
JD056956 - Sequence 37980 from Patent EP1572962.
AK313607 - Homo sapiens cDNA, FLJ94176, Homo sapiens X-ray repair complementing defective repair in Chinesehamster cells 2 (XRCC2), mRNA.
KJ892391 - Synthetic construct Homo sapiens clone ccsbBroadEn_01785 XRCC2 gene, encodes complete protein.
AB590731 - Synthetic construct DNA, clone: pFN21AE1773, Homo sapiens XRCC2 gene for X-ray repair complementing defective repair in Chinese hamster cells 2, without stop codon, in Flexi system.
CU692064 - Synthetic construct Homo sapiens gateway clone IMAGE:100022452 5' read XRCC2 mRNA.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03440 - Homologous recombination

Reactome (by CSHL, EBI, and GO)

Protein O43543 (Reactome details) participates in the following event(s):

R-HSA-5685318 BCDX2 complex formation
R-HSA-5685341 BCDX2 complex stabilizes RAD51 filament
R-HSA-5686410 BLM mediates dissolution of double Holliday junction
R-HSA-5693589 D-loop dissociation and strand annealing
R-HSA-5693620 D-loop formation mediated by PALB2, BRCA2 and RAD51
R-HSA-5685838 CX3 complex binds D-loop structures
R-HSA-5693593 D-loop extension by DNA polymerases
R-HSA-5693584 Cleavage of Holliday junctions by GEN1 or SLX1A:SLX4:MUS81:EME1,(MUS81:EME2)
R-HSA-5686440 MUS81:EME1,EME2 cleaves D-loop
R-HSA-5693616 Presynaptic phase of homologous DNA pairing and strand exchange
R-HSA-5693568 Resolution of D-loop Structures through Holliday Junction Intermediates
R-HSA-5693554 Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA)
R-HSA-5693579 Homologous DNA Pairing and Strand Exchange
R-HSA-5693537 Resolution of D-Loop Structures
R-HSA-5685942 HDR through Homologous Recombination (HRR)
R-HSA-5693567 HDR through Homologous Recombination (HR) or Single Strand Annealing (SSA)
R-HSA-5693538 Homology Directed Repair
R-HSA-5693532 DNA Double-Strand Break Repair
R-HSA-73894 DNA Repair

-  Other Names for This Gene
  Alternate Gene Symbols: B2R925, ENST00000359321.1, NM_005431, O43543, uc003wld.1, uc003wld.2, uc003wld.3, uc003wld.4, uc003wld.5, XRCC2_HUMAN
UCSC ID: ENST00000359321.2
RefSeq Accession: NM_005431
Protein: O43543 (aka XRCC2_HUMAN or XRC2_HUMAN)
CCDS: CCDS5933.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene XRCC2:
fa (Fanconi Anemia)

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