SAFB

Protein identityUniProt · HPA

UniProt accession

Q15424

Gene

SAFB

Ensembl

ENSG00000160633

Chromosome

19

Canonical length

915 aa

Protein class

Plasma proteins, Predicted intracellular proteins

Subcellular location

Nucleoplasm,Midbody

Quaternary structure

Homodimer

OverviewNCBI Gene

This gene encodes a DNA-binding protein which has high 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 is conflicting evidence as to whether this protein is a component of chromatin or a nuclear matrix protein. Scaffold attachment factors are a specific subset of nuclear matrix proteins (NMP) that specifically bind to S/MAR. The encoded 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 heat shock protein 27 transcription, can act as an estrogen receptor co-repressor and is a candidate for breast tumorigenesis. This gene is arranged head-to-head with a similar gene whose product has the same functions. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jan 2011]

Canonical amino-acid sequenceUniProt

915 residues, UniProt reviewed canonical sequence.

>Q15424|SAFB
     1  MAETLSGLGD SGAAGAAALS SASSETGTRR LSDLRVIDLR AELRKRNVDS SGNKSVLMER
    61  LKKAIEDEGG NPDEIEITSE GNKKTSKRSS KGRKPEEEGV EDNGLEENSG DGQEDVETSL
   121  ENLQDIDIMD ISVLDEAEID NGSVADCVED DDADNLQESL SDSRELVEGE MKELPEQLQE
   181  HAIEDKETIN NLDTSSSDFT ILQEIEEPSL EPENEKILDI LGETCKSEPV KEESSELEQP
   241  FAQDTSSVGP DRKLAEEEDL FDSAHPEEGD LDLASESTAH AQSSKADSLL AVVKREPAEQ
   301  PGDGERTDCE PVGLEPAVEQ SSAASELAEA SSEELAEAPT EAPSPEARDS KEDGRKFDFD
   361  ACNEVPPAPK ESSTSEGADQ KMSSPEDDSD TKRLSKEEKG RSSCGRNFWV SGLSSTTRAT
   421  DLKNLFSKYG KVVGAKVVTN ARSPGARCYG FVTMSTAEEA TKCINHLHKT ELHGKMISVE
   481  KAKNEPVGKK TSDKRDSDGK KEKSSNSDRS TNLKRDDKCD RKDDAKKGDD GSGEKSKDQD
   541  DQKPGPSERS RATKSGSRGT ERTVVMDKSK GVPVISVKTS GSKERASKSQ DRKSASREKR
   601  SVVSFDKVKE PRKSRDSESH SRVRERSERE QRMQAQWERE ERERLEIARE RLAFQRQRLE
   661  RERMERERLE RERMHVEHER RREQERIHRE REELRRQQEL RYEQERRPAV RRPYDLDRRD
   721  DAYWPEAKRA ALDERYHSDF NRQDRFHDFD HRDRGRYPDH SVDRREGSRS MMGEREGQHY
   781  PERHGGPERH GRDSRDGWGG YGSDKRMSEG RGLPPPPRRD WGDHGRREDD RSWQGTADGG
   841  MMDRDHKRWQ GGERSMSGHS GPGHMMNRGG MSGRGSFAPG GASRGHPIPH GGMQGGFGGQ
   901  SRGSRPSDAR FTRRY

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SAFB can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability

Intracellular

Secreted

No

Transmembrane segments

0

Mean surface accessibility (rSASA)

0.64

Highest tissue expression

81 nTPM

Expression across tissuesHPA

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)

0.14

gnomAD pLI

1

gnomAD missense Z

2.14

DepMap mean gene effect

-0.27

DepMap dependency class

selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

• chromatin organization
• estrogen receptor signaling pathway
• regulation of androgen receptor signaling pathway
• regulation of mRNA processing
• regulation of transcription by RNA polymerase II

Molecular functions

• chromatin binding
• double-stranded DNA binding
• RNA binding
• RNA polymerase II cis-regulatory region sequence-specific DNA binding
• sequence-specific DNA binding

Cellular components

• midbody
• nucleoplasm
• nucleus

Protein domainsUniProt · Pfam · InterPro

• RNA recognition motif domain
• SAP domain
• Nucleotide-binding alpha-beta plait domain superfamily
• Scaffold attachment factor B1/2, RNA binding domain
• RNA-binding domain superfamily
• SAP domain superfamily
• Scaffold Attachment Factor and Modulators
• RNA recognition motif
• SAP domain

KeywordsUniProt

• Acetylation
• DNA-binding
• Isopeptide bond
• Methylation
• Nucleus
• Phosphoprotein
• Repressor
• RNA-binding
• Transcription
• Transcription regulation
• Ubl conjugation

InteractionsUniProt · HPA

Protein binding partners of SAFB in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

• CLK2
• FUS
• KHDRBS3
• POLR2A
• RBMX
• ZBED4
• TJP2
• KHDRBS2
• CHD1
• CPSF6
• MAP1LC3B
• SAFB2