Gene Gene information from NCBI Gene database.
Entrez ID 4683
Gene name Nibrin
Gene symbol NBN
Synonyms (NCBI Gene)
AT-V1AT-V2ATVNBSNBS1P95hNbs1
Chromosome 8
Chromosome location 8q21.3
Summary Mutations in this gene are associated with Nijmegen breakage syndrome, an autosomal recessive chromosomal instability syndrome characterized by microcephaly, growth retardation, immunodeficiency, and cancer predisposition. The encoded protein is a member
SNPs SNP information provided by dbSNP.
259
SNP ID Visualize variation Clinical significance Consequence
rs769414 T>C Conflicting-interpretations-of-pathogenicity, uncertain-significance Missense variant, 5 prime UTR variant, coding sequence variant
rs12721593 G>A Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, missense variant, 5 prime UTR variant
rs34767364 G>A,C Uncertain-significance, conflicting-interpretations-of-pathogenicity Coding sequence variant, 5 prime UTR variant, missense variant
rs61753717 C>T Likely-pathogenic Genic downstream transcript variant, splice acceptor variant
rs61753720 C>A,G,T Likely-benign, uncertain-significance, conflicting-interpretations-of-pathogenicity, benign-likely-benign Coding sequence variant, 5 prime UTR variant, missense variant
miRNA miRNA information provided by mirtarbase database.
253
miRTarBase ID miRNA Experiments Reference
MIRT021833 hsa-miR-132-3p Microarray 17612493
MIRT024642 hsa-miR-215-5p Microarray 19074876
MIRT026789 hsa-miR-192-5p Microarray 19074876
MIRT1174808 hsa-miR-101 CLIP-seq
MIRT1174809 hsa-miR-1243 CLIP-seq
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
SIRT1 Activation 18692496
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
89
GO ID Ontology Definition Evidence Reference
GO:0000077 Process DNA damage checkpoint signaling IDA 12529385
GO:0000723 Process Telomere maintenance IDA 28216226
GO:0000723 Process Telomere maintenance IEA
GO:0000723 Process Telomere maintenance IMP 11448772
GO:0000724 Process Double-strand break repair via homologous recombination IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
602667 7652 ENSG00000104320
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
O60934
Protein name Nibrin (Cell cycle regulatory protein p95) (Nijmegen breakage syndrome protein 1) (hNbs1)
Protein function Component of the MRN complex, which plays a central role in double-strand break (DSB) repair, DNA recombination, maintenance of telomere integrity and meiosis (PubMed:10888888, PubMed:15616588, PubMed:18411307, PubMed:18583988, PubMed:18678890,
PDB 5WQD , 7SID , 8BAH
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00498 FHA 24 100 FHA domain Family
PF16508 NIBRIN_BRCT_II 216 325 Second BRCT domain on Nijmegen syndrome breakage protein Domain
PF08599 Nbs1_C 683 746 DNA damage repair protein Nbs1 Family
Tissue specificity TISSUE SPECIFICITY: Ubiquitous (PubMed:9590180). Expressed at high levels in testis (PubMed:9590180). {ECO:0000269|PubMed:9590180}.
Sequence
MWKLLPAAGPAGGEPYRLLTGVEYVVGRKNCAILIENDQSISRNHAVLTANFSVTNLSQT
DEIPVLTLKDNSKYGTFVNEEKMQNGFSRTLKSGDGITFG
VFGSKFRIEYEPLVACSSCL
DVSGKTALNQAILQLGGFTVNNWTEECTHLVMVSVKVTIKTICALICGRPIVKPEYFTEF
LKAVESKKQPPQIESFYPPLDEPSIGSKNVDLSGRQERKQIFKGKTFIFLNAKQHKKLSS
AVVFGGGEARLITEENEEEHNFFLAPGTCVVDTGITNSQTLIPDCQKKWIQSIMDMLQRQ
GLRPIPEAEIGLAVIFMTTKNYCDP
QGHPSTGLKTTTPGPSLSQGVSVDEKLMPSAPVNT
TTYVADTESEQADTWDLSERPKEIKVSKMEQKFRMLSQDAPTVKESCKTSSNNNSMVSNT
LAKMRIPNYQLSPTKLPSINKSKDRASQQQQTNSIRNYFQPSTKKRERDEENQEMSSCKS
ARIETSCSLLEQTQPATPSLWKNKEQHLSENEPVDTNSDNNLFTDTDLKSIVKNSASKSH
AAEKLRSNKKREMDDVAIEDEVLEQLFKDTKPELEIDVKVQKQEEDVNVRKRPRMDIETN
DTFSDEAVPESSKISQENEIGKKRELKEDSLWSAKEISNNDKLQDDSEMLPKKLLLTEFR
SLVIKNSTSRNPSGINDDYGQLKNFKKFKKVTYPGAGKLPHIIGGSDLIAHHARKNTELE
EWLRQEMEVQNQHAKEESLADDLFRY
NPYLKRRR
Sequence length 754
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Homologous recombination
Cellular senescence
  DNA Damage/Telomere Stress Induced Senescence
HDR through Single Strand Annealing (SSA)
HDR through MMEJ (alt-NHEJ)
HDR through Homologous Recombination (HRR)
Sensing of DNA Double Strand Breaks
Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA)
Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
Resolution of D-loop Structures through Holliday Junction Intermediates
Nonhomologous End-Joining (NHEJ)
Homologous DNA Pairing and Strand Exchange
Processing of DNA double-strand break ends
Presynaptic phase of homologous DNA pairing and strand exchange
Regulation of TP53 Activity through Phosphorylation
G2/M DNA damage checkpoint
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
6085
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Acute lymphoid leukemia Likely pathogenic; Pathogenic rs1391598284, rs2129744741, rs1275657359, rs2129695663, rs587780100, rs2129721628, rs587781969, rs587782545, rs730881864, rs1554559152, rs786201745, rs764884516, rs786202494, rs574673404, rs767215758
View all (32 more)
RCV005040241
RCV002476731
RCV005040268
RCV005040406
RCV002498497
RCV005042594
RCV005042256
RCV000763606
RCV000515171
RCV005050571
RCV005042327
RCV002485031
RCV005042331
RCV005042333
RCV000763607
RCV005042367
RCV002503780
RCV005050700
RCV005041999
RCV002478725
RCV002057048
RCV005049492
RCV005044459
RCV002505995
RCV002504201
RCV000502852
RCV002496787
RCV005044708
RCV002497023
RCV005044853
RCV005044852
RCV001328957
RCV002491128
RCV005044839
RCV005049609
RCV005051712
RCV005044867
RCV005044868
RCV005044924
RCV005046845
RCV005046963
RCV004796811
RCV005049686
RCV005047025
RCV005049697
RCV005047201
RCV005047214
RCV005047271
Aplastic anemia Likely pathogenic; Pathogenic rs1554562083, rs1811497703, rs1391598284, rs1586040200, rs2129720196, rs2129744741, rs1554566610, rs1275657359, rs2129915767, rs772909239, rs2129695663, rs587780100, rs2129938178, rs2129721628, rs12721593
View all (126 more)
RCV003471373
RCV003473905
RCV005040241
RCV003469707
RCV003469745
RCV002476731
RCV003469651
RCV003469758
RCV003470849
RCV003470874
RCV005040406
RCV002498497
RCV003475213
RCV005042594
RCV003470998
RCV004571457
RCV003464286
RCV003475215
RCV003470979
RCV003475133
RCV004571430
RCV003467101
RCV003460916
RCV003467143
RCV003467153
RCV000763606
RCV004572273
RCV000515171
RCV003467263
RCV003467262
RCV003467257
RCV004572330
RCV004572399
RCV003474858
RCV005042327
RCV002485031
RCV003462169
RCV005042331
RCV003468774
RCV003468760
RCV003465729
RCV004572726
RCV003474919
RCV003468849
RCV002503780
RCV005050700
RCV003460432
RCV004566687
RCV003472997
RCV002478725
RCV002057048
RCV003474983
RCV003468934
RCV004567540
RCV003469077
RCV003469104
RCV003475021
RCV003475023
RCV003463095
RCV003476513
RCV003470290
RCV003470291
RCV003470292
RCV003470294
RCV003470295
RCV003470296
RCV003470300
RCV003470304
RCV003476518
RCV003476519
RCV003470306
RCV003476520
RCV003470307
RCV003476521
RCV003470308
RCV003470309
RCV003470310
RCV003463096
RCV003470311
RCV003463097
RCV003471375
RCV003471376
RCV003471377
RCV003471378
RCV004576295
RCV004576299
RCV004576301
RCV004576304
RCV004576308
RCV003470351
RCV003470329
RCV003470328
RCV002505995
RCV002504201
RCV003475956
RCV003475941
RCV002502428
RCV003470374
RCV003470491
RCV003470490
RCV004568079
RCV003470579
RCV005044708
RCV002497023
RCV003470737
RCV003459221
RCV003465242
RCV004569156
RCV005044852
RCV003470830
RCV003476333
RCV002491128
RCV004569121
RCV003476332
RCV003471930
RCV005051712
RCV003471931
RCV005044868
RCV003465314
RCV003459460
RCV003471944
RCV003471998
RCV003465395
RCV003459521
RCV003472056
RCV003465426
RCV003472052
RCV003472198
RCV004568588
RCV003472227
RCV005046963
RCV003465613
RCV003470297
RCV003465700
RCV003465698
RCV004569734
RCV003467379
RCV003467574
RCV003467575
RCV004569961
RCV005047201
RCV003467683
RCV003473674
RCV003467785
RCV003462589
RCV003462754
RCV003462739
RCV003473744
RCV003469334
Breast and/or ovarian cancer Likely pathogenic; Pathogenic rs574673404, rs587776650, rs876659592, rs1810540992, rs1563530658, rs1812244679 RCV001270989
RCV001270991
RCV001270988
RCV001270950
RCV001270949
RCV001270990
Breast carcinoma Pathogenic rs587776650, rs748513310, rs748453607 RCV001574072
RCV001554322
RCV001564018
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Breast cancer, susceptibility to Uncertain significance rs1283330641 RCV001535627
Breast-ovarian cancer, familial, susceptibility to, 2 Conflicting classifications of pathogenicity rs34767364 RCV005623282
Carcinoma of colon Conflicting classifications of pathogenicity rs61754966 RCV001358233
Colon adenocarcinoma Benign; Likely benign rs116735828, rs587780555 RCV005886896
RCV005870715
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Abortion Spontaneous Associate 27936167
Alternating hemiplegia of childhood Associate 17693401
Arthritis Rheumatoid Associate 19451263, 36835215
Ataxia Telangiectasia Associate 11850399, 11981817, 14747472
Ataxia Telangiectasia Like Disorder Associate 12966088, 15234984, 19409520, 32212377
ATR X syndrome Associate 23329831
Biliary Tract Neoplasms Associate 32012241
Bloom Syndrome Associate 11916980, 14517203
Brain Neoplasms Associate 30943920
Breast Neoplasms Associate 12433983, 12679336, 16474176, 16620382, 17292821, 17526493, 17695489, 18701435, 19383352, 19523210, 20003265, 21599985, 21700777, 21799032, 22806884
View all (28 more)