Information on NBN

Basic details

Alt. symbols: NBS | NBS1 | ATV | AT-V2 | AT-V1

Approved name: nibrin
Alt. names: Nijmegen breakage syndrome 1 (nibrin)

Location: 8q21.3: 89924515 - 90003228 (-)
Gene type: protein_coding, 38 transcripts.

Scores: LoFtool: 0.811000 | pLI: 0.00000000 | LOEUF: 1.010

HGNC: 7652

NCBI: 4683, RefSeq: NG_008860.1

Ensembl: ENSG00000104320.15

LRG_158 | Status: public

OMIM: 602667

Expression | ProteinAtlas

Normal function

The NBN gene encodes the nibrin protein. Nibrin is involved in several critical cellular functions, including the repair of damaged DNA. To this end, nibrin interacts with the proteins encoded by the MRE11A and RAD50 genes, as part of a larger protein complex. Nibrin regulates the activity of this complex by carrying the MRE11A and RAD50 proteins into the cell’s nucleus and guiding them to sites of DNA damage. The proteins work together to mend broken strands of DNA. DNA can be damaged by agents such as toxic chemicals or radiation, and breaks in DNA strands also occur naturally when chromosomes exchange genetic material in preparation for cell division. Repairing DNA prevents cells from accumulating genetic damage that may cause them to die or to divide uncontrollably. The MRE11A/RAD50/NBN complex interacts with the protein produced from the ATM gene, which plays an essential role in recognizing broken strands of DNA and coordinating their repair. The MRE11A/RAD50/NBN complex helps maintain the stability of a cell’s genetic information through its roles in repairing damaged DNA and regulating cell division. Because these functions are critical for preventing the formation of cancerous tumors, nibrin is described as a tumor suppressor.

Dysfunction and disease

Biallelic mutations in the gene cause autosomal recessive Nijmegen breakage syndrome (NBS) [MIM:251260]. The most common mutation is the c.657del5 (p.K219NfsX16), which was initially identified in homozygosity in 58 patients and in one heterozygous carrier (Varon et al., 1998, Matsuura et al., 1998). In addition, the homozygous mutation p.I171V was reported to cause aplastic anemia (Shimada et al. 2004). Heterozygous mutations may also predispose to the development of various types of cancers, i ncluding cancers of breast, colon, prostate and hematological cancers, such as acute lymphoblastic leukemia [MIM:613065]. Moreover, 13 heterozygous NBN frameshift mutation carriers from three unrelated NBS families (c.657del5, c.835del4 and c.900del25) were shown to be affected by chromosomal breakages and rearrangements in peripheral blood lymphocytes (Tanzarella et al., 2003). [Load More]

[Reviewed by Laura Crisponi on 2022-05-30 10:14:02]

Associated conditions

Acronym Condition's_name MOI Mode_of_actionwww icon OMIM_ID No.cases
NBS Nijmegen breakage syndrome ARdict. icon 251260www icon 0 (0 fams)

Please mind that full curation (inclusion of all published patients) of this gene has not started yet. Please contact us if you want to volunteer.

Transcripts of NBN

Name ENSEMBL_ID LRG_ID CCDS_ID MANE Transcript.type Exons Canonical CDS_length REFSEQ_ID
203 ENST00000409330.5 CCDS43753 protein_coding 16 No 4523 XM_024447163
206 ENST00000517337.2 protein_coding 17 No 565 XM_011517045
201 ENST00000265433.8 1 CCDS6249 Select protein_coding 16 Yes 4622 NM_002485
210 ENST00000523444.2 nonsense_mediated_decay 17 No 593 NM_001024688
219 ENST00000697299.1 protein_coding No XM_047421795
227 ENST00000697307.1 protein_coding No XM_011517046
238 ENST00000697318.1 retained_intron No XM_047421796

Published variants

Found 2 variants

Var.name Exon/Intron cDNA_pos. CDS_change Prot.change Var.type Var.class. Patients
P381* EX10 1248 c.1142del p.Pro381GlnfsTer23 frameshift_variant Likely Pathogenic 0
KQI219-221N* EX6 763-767 c.657_661del p.Lys219AsnfsTer16 frameshift_variant Risk allele 0

Please mind that full curation (inclusion of all published variants) of this gene has not started yet. Please contact us if you want to volunteer.

Diagnostic pitfalls & paradigms

Considerations to take into account when analyzing this gene

Year Paradigm ⓘ PMID Notes
- Regions of Homology -
-Cryptic splicing-Unreported or not recorded in our DB.
-Uniparental disomy-Unreported or not recorded in our DB.
-Mosaicism-Unreported or not recorded in our DB.
-Incomplete penetrance-Unreported or not recorded in our DB.
-Di-/oligo-genic inheritance-Unreported or not recorded in our DB.
-Somatic reversion-Unreported or not recorded in our DB.

References linked to variants in NBN

ID Year Title Journal PMID Variants
267 1998 Nibrin, a novel DNA double-strand break repair protein, is m... Cell 9590180 2
268 2000 Clinical ascertainment of Nijmegen breakage syndrome (NBS) a... Eur. J. Hum. Genet. 11093281 1
269 2001 An alternative mode of translation permits production of a v... Nat. Genet. 11279524 1
270 2002 657de15 mutation in the NBS1 gene is associated with Nijmege... Clin. Gen. 12123493 1
271 2002 Frequency of 657del(5) mutation of the NBS1 gene in the Czec... Cancer Gen. 12505263 1
272 2003 657del5 mutation in the gene for Nijmegen breakage syndrome ... Am. J. Med. Genet. 12833396 1
273 2009 Clinical variability and expression of the NBN c.657del5 all... Gene 19635536 1
274 2012 Cleavage of the BRCT tandem domains of nibrin by the 657del5... IUBMB Life 22941933 1
275 2013 Significant association between Nijmegen breakage syndrome 1... Tumor Biol. 23765759 1
276 2013 Functional variants in NBS1 and cancer risk: evidence from a... Mutagen. 24113799 1
277 1950 Identification of the interactors of human nibrin (NBN) and ... Plos one 25485873 1
278 2016 The c.657del5 variant in the NBN gene predisposes to pancrea... Gene 27150568 1

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