SAFB

Scaffold attachment factor B, also known as SAFB, is a gene with homologs that have been studied in humans and mice.

SAFB
Identifiers
Aliases	SAFB, HAP, HET, SAF-B1, SAFB1, SAB-B1, SAF-B, scaffold attachment factor B
External IDs	OMIM: 602895; MGI: 2146974; HomoloGene: 2229; GeneCards: SAFB; OMA:SAFB - orthologs
Gene location (Human) Chr. Chromosome 19 (human) Band 19p13.3 Start 5,623,035 bp End 5,668,478 bp
Gene location (Mouse) Chr. Chromosome 17 (mouse) Band 17|17 D Start 56,891,825 bp End 56,913,294 bp
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in sural nerve right uterine tube canal of the cervix ventricular zone right hemisphere of cerebellum right ovary left ovary body of uterus skin of leg skin of abdomen Top expressed in neural layer of retina tail of embryo renal corpuscle ventricular zone genital tubercle yolk sac medullary collecting duct thymus dentate gyrus of hippocampal formation granule cell granulocyte More reference expression data BioGPS More reference expression data
Gene ontology Molecular function DNA binding chromatin binding protein binding nucleic acid binding double-stranded DNA binding sequence-specific DNA binding RNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding Cellular component nucleoplasm nucleus Biological process regulation of transcription, DNA-templated chromatin organization transcription, DNA-templated hormone metabolic process positive regulation of transcription by RNA polymerase II regulation of transcription by RNA polymerase II intracellular estrogen receptor signaling pathway regulation of mRNA processing growth regulation of growth Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 6294 224903 Ensembl ENSG00000160633 ENSMUSG00000071054 UniProt Q15424 D3YXK2 RefSeq (mRNA) NM_001201338 NM_001201339 NM_001201340 NM_002967 NM_001320571 NM_001320572 NM_001163300 NM_001374619 RefSeq (protein) NP_001188267 NP_001188268 NP_001188269 NP_001307500 NP_001307501 NP_002958 NP_001156772 NP_001361548 Location (UCSC) Chr 19: 5.62 – 5.67 Mb Chr 17: 56.89 – 56.91 Mb PubMed search
Wikidata
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Function

This gene encodes a DNA-binding protein that has specificity for scaffold or matrix attachment region DNA elements (S/MAR DNA). This protein is thought to be involved in attaching the base of chromatin loops to the nuclear matrix but there are conflicting views as to whether this protein is a component of chromatin, the nuclear matrix, or both. Scaffold attachment factors are a subset of nuclear matrix proteins (NMP) with enriched binding to AT-rich S/MAR sequences. The SAF-B protein is thought to serve as a molecular base to assemble a 'transcriptosome complex' in the vicinity of actively transcribed genes. It is involved in the regulation of the heat shock protein 27 transcription and also can act as an estrogen receptor corepressor. This gene is a candidate gene for breast tumorigenesis.

Interactions

SAFB has been shown to interact with:

• Estrogen receptor alpha,
• HNRPD,
• SAFB2, and
• TAF15.

Further reading

• Oesterreich S (2004). "Scaffold attachment factors SAFB1 and SAFB2: Innocent bystanders or critical players in breast tumorigenesis?". J. Cell. Biochem. 90 (4): 653–61. doi:10.1002/jcb.10685. PMID 14587024. S2CID 39178501.
• Romig H, Fackelmayer FO, Renz A, Ramsperger U, Richter A (1992). "Characterization of SAF-A, a novel nuclear DNA binding protein from HeLa cells with high affinity for nuclear matrix/scaffold attachment DNA elements". EMBO J. 11 (9): 3431–40. doi:10.1002/j.1460-2075.1992.tb05422.x. PMC 556878. PMID 1324173.
• Renz A, Fackelmayer FO (1996). "Purification and molecular cloning of the scaffold attachment factor B (SAF-B), a novel human nuclear protein that specifically binds to S/MAR-DNA". Nucleic Acids Res. 24 (5): 843–9. doi:10.1093/nar/24.5.843. PMC 145707. PMID 8600450.
• Oesterreich S, Lee AV, Sullivan TM, Samuel SK, Davie JR, Fuqua SA (1997). "Novel nuclear matrix protein HET binds to and influences activity of the HSP27 promoter in human breast cancer cells". J. Cell. Biochem. 67 (2): 275–86. doi:10.1002/(SICI)1097-4644(19971101)67:2<275::AID-JCB13>3.0.CO;2-E. PMID 9328833. S2CID 29247141.
• DuPont BR, Garcia DK, Sullivan TM, Naylor SL, Oesterreich S (1998). "Assignment of SAFB encoding Hsp27 ERE-TATA binding protein (HET)/scaffold attachment factor B (SAF-B) to human chromosome 19 band p13". Cytogenet. Cell Genet. 79 (3–4): 284–5. doi:10.1159/000134744. PMID 9605873.
• Nayler O, Strätling W, Bourquin JP, Stagljar I, Lindemann L, Jasper H, Hartmann AM, Fackelmayer FO, Ullrich A, Stamm S (1998). "SAF-B protein couples transcription and pre-mRNA splicing to SAR/MAR elements". Nucleic Acids Res. 26 (15): 3542–9. doi:10.1093/nar/26.15.3542. PMC 147731. PMID 9671816.
• Weighardt F, Cobianchi F, Cartegni L, Chiodi I, Villa A, Riva S, Biamonti G (1999). "A novel hnRNP protein (HAP/SAF-B) enters a subset of hnRNP complexes and relocates in nuclear granules in response to heat shock". J. Cell Sci. 112 (10): 1465–76. doi:10.1242/jcs.112.10.1465. PMID 10212141.
• Oesterreich S, Zhang Q, Hopp T, Fuqua SA, Michaelis M, Zhao HH, Davie JR, Osborne CK, Lee AV (2000). "Tamoxifen-bound estrogen receptor (ER) strongly interacts with the nuclear matrix protein HET/SAF-B, a novel inhibitor of ER-mediated transactivation". Mol. Endocrinol. 14 (3): 369–81. doi:10.1210/mend.14.3.0432. PMID 10707955.
• Shnyreva M, Schullery DS, Suzuki H, Higaki Y, Bomsztyk K (2000). "Interaction of two multifunctional proteins. Heterogeneous nuclear ribonucleoprotein K and Y-box-binding protein". J. Biol. Chem. 275 (20): 15498–503. doi:10.1074/jbc.275.20.15498. PMID 10809782.
• Arao Y, Kuriyama R, Kayama F, Kato S (2000). "A nuclear matrix-associated factor, SAF-B, interacts with specific isoforms of AUF1/hnRNP D". Arch. Biochem. Biophys. 380 (2): 228–36. doi:10.1006/abbi.2000.1938. PMID 10933876.
• Stoss O, Olbrich M, Hartmann AM, Konig H, Memmott J, Andreadis A, Stamm S (2001). "The STAR/GSG family protein rSLM-2 regulates the selection of alternative splice sites". J. Biol. Chem. 276 (12): 8665–73. doi:10.1074/jbc.M006851200. PMID 11118435.
• Oesterreich S, Allredl DC, Mohsin SK, Zhang Q, Wong H, Lee AV, Osborne CK, O'Connell P (2001). "High rates of loss of heterozygosity on chromosome 19p13 in human breast cancer". Br. J. Cancer. 84 (4): 493–8. doi:10.1054/bjoc.2000.1606. PMC 2363776. PMID 11207044.
• Nikolakaki E, Kohen R, Hartmann AM, Stamm S, Georgatsou E, Giannakouros T (2001). "Cloning and characterization of an alternatively spliced form of SR protein kinase 1 that interacts specifically with scaffold attachment factor-B". J. Biol. Chem. 276 (43): 40175–82. doi:10.1074/jbc.M104755200. PMID 11509566.
• Paul C, Manero F, Gonin S, Kretz-Remy C, Virot S, Arrigo AP (2002). "Hsp27 as a Negative Regulator of Cytochrome c Release". Mol. Cell. Biol. 22 (3): 816–34. doi:10.1128/MCB.22.3.816-834.2002. PMC 133538. PMID 11784858.
• Traweger A, Fuchs R, Krizbai IA, Weiger TM, Bauer HC, Bauer H (2003). "The tight junction protein ZO-2 localizes to the nucleus and interacts with the heterogeneous nuclear ribonucleoprotein scaffold attachment factor-B". J. Biol. Chem. 278 (4): 2692–700. doi:10.1074/jbc.M206821200. PMID 12403786.
• Townson SM, Dobrzycka KM, Lee AV, Air M, Deng W, Kang K, Jiang S, Kioka N, Michaelis K, Oesterreich S (2003). "SAFB2, a new scaffold attachment factor homolog and estrogen receptor corepressor". J. Biol. Chem. 278 (22): 20059–68. doi:10.1074/jbc.M212988200. PMID 12660241.
• van den IJssel P, Wheelock R, Prescott A, Russell P, Quinlan RA (2003). "Nuclear speckle localisation of the small heat shock protein alpha B-crystallin and its inhibition by the R120G cardiomyopathy-linked mutation". Exp. Cell Res. 287 (2): 249–61. doi:10.1016/S0014-4827(03)00092-2. PMID 12837281.
• Tai HH, Geisterfer M, Bell JC, Moniwa M, Davie JR, Boucher L, McBurney MW (2003). "CHD1 associates with NCoR and histone deacetylase as well as with RNA splicing proteins". Biochem. Biophys. Res. Commun. 308 (1): 170–6. doi:10.1016/S0006-291X(03)01354-8. PMID 12890497.
• Li J, Hawkins IC, Harvey CD, Jennings JL, Link AJ, Patton JG (2003). "Regulation of Alternative Splicing by SRrp86 and Its Interacting Proteins". Mol. Cell. Biol. 23 (21): 7437–47. doi:10.1128/MCB.23.21.7437-7447.2003. PMC 207616. PMID 14559993.