Apbb1 amyloid beta precursor protein binding family B member 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Apbb1provided by RGD
Official Full Name: amyloid beta precursor protein binding family B member 1provided by RGD
Primary source: RGD:2122
See related: EnsemblRapid:ENSRNOG00000018020 AllianceGenome:RGD:2122
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: FE65
Summary: Enables DNA-binding transcription factor binding activity; amyloid-beta binding activity; and tau protein binding activity. Involved in several processes, including DNA repair-dependent chromatin remodeling; negative regulation of cell cycle G1/S phase transition; and regulation of transcription by RNA polymerase II. Located in several cellular components, including axon; dendritic spine; and synaptic membrane. Part of protein-containing complex. Is active in Schaffer collateral - CA1 synapse; postsynaptic density; and presynapse. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human APBB1 (amyloid beta precursor protein binding family B member 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 606.0), Heart (RPKM 139.2) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (169308719..169332372, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (159896889..159920505, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (170387625..170411263, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Fe65 is the bridging protein to amyloid-beta protein precursor in the complex formed and thus we simultaneously describe another PP1 binding protein
Title: Identification of a novel complex AβPP:Fe65:PP1 that regulates AβPP Thr668 phosphorylation levels.
our data suggest that FE65 serves as a link between VLDLR and APP
Title: FE65 as a link between VLDLR and APP to regulate their trafficking and processing.
A novel Fe65 isoform and the regulation of the splicing events leading to its production may contribute to clarification of neuronal-specific roles of Fe65 and its contribution to Alzheimer disease pathology.
Title: Identification and characterization of a neuronal enriched novel transcript encoding the previously described p60Fe65 isoform.
Data show that APP nuclear signaling is altered by Abeta, affecting not only AICD production but also its nuclear translocation and complex formation with Fe65.
Title: Alphabeta hinders nuclear targeting of AICD and Fe65 in primary neuronal cultures.
Dexras1 functions as a suppressor of FE65-APP-mediated transcription, and FE65 tyrosine 547 phosphorylation enhances FE65-APP-mediated transcription, at least in part, by modulating the interaction between FE65 and Dexras1
Title: Dexras1 interacts with FE65 to regulate FE65-amyloid precursor protein-dependent transcription.
These data suggest that SGK1 phosphorylates the Ser(566) residue of Fe65 and that this phosphorylation promotes the migration of Fe65 to the nucleus of the cell.
Title: Regulation Fe65 localization to the nucleus by SGK1 phosphorylation of its Ser566 residue.
Secondary structure of the recombinant proteins showed a different degree of unordered structures, the PTB2 domain being the higher organised region
Title: Probing the secondary structure of a recombinant neuronal adaptor protein and its phosphotyrosine binding domains.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Apbb1 (e-PCR), detects polymorphism
- UniSTS:141099

AF206720 (e-PCR)
- UniSTS:208174

RH125131 (e-PCR)
- UniSTS:161953

RH134756 (e-PCR)
- UniSTS:218034

RH130448 (e-PCR)
- UniSTS:213732

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables amyloid-beta binding	IBA Inferred from Biological aspect of Ancestor more info
enables amyloid-beta binding	IEA Inferred from Electronic Annotation more info
enables amyloid-beta binding	IPI Inferred from Physical Interaction more info	PubMed
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone binding	IEA Inferred from Electronic Annotation more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables molecular adaptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables molecular adaptor activity	IEA Inferred from Electronic Annotation more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables proline-rich region binding	IEA Inferred from Electronic Annotation more info
enables proline-rich region binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables tau protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA damage response	IEA Inferred from Electronic Annotation more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA repair-dependent chromatin remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within extracellular matrix organization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell cycle G1/S phase transition	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neuron projection development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein secretion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to iron ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in smooth muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in smooth muscle contraction	ISS Inferred from Sequence or Structural Similarity more info
involved_in synapse organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in growth cone	IEA Inferred from Electronic Annotation more info
located_in growth cone	ISO Inferred from Sequence Orthology more info
located_in growth cone	ISS Inferred from Sequence or Structural Similarity more info
located_in growth cone filopodium	IDA Inferred from Direct Assay more info	PubMed
located_in growth cone lamellipodium	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	IEA Inferred from Electronic Annotation more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	ISS Inferred from Sequence or Structural Similarity more info
located_in main axon	IDA Inferred from Direct Assay more info	PubMed
is_active_in neuromuscular junction	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynapse	IDA Inferred from Direct Assay more info	PubMed
located_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	IEA Inferred from Electronic Annotation more info
located_in synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: amyloid beta precursor protein binding family B member 1

Names: amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65); amyloid beta A4 precursor protein-binding family B member 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_080478.2 → NP_536726.1 amyloid beta precursor protein binding family B member 1

See identical proteins and their annotated locations for NP_536726.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

P46933, Q99MK3

UniProtKB/TrEMBL

A0A8I5ZS47

Conserved Domains (3) summary

cd01271
Location:536 → 661

PTB2_Fe65; Fe65 C-terminal Phosphotyrosine-binding (PTB) domain

cd01272
Location:369 → 508

PTB1_Fe65; Fe65 N-terminal Phosphotyrosine-binding (PTB) domain

pfam00397
Location:256 → 284

WW; WW domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

169308719..169332372 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287919.1 → XP_063143989.1 amyloid beta precursor protein binding family B member 1 isoform X2

Related

ENSRNOP00000081663.2, ENSRNOT00000101195.2
XM_006229935.2 → XP_006229997.1 amyloid beta precursor protein binding family B member 1 isoform X1

UniProtKB/TrEMBL

A0A8I5ZS47, A0A8L2QDX1

Related

ENSRNOP00000024402.5, ENSRNOT00000024402.6

Conserved Domains (3) summary

cd01271
Location:653 → 778

PTB2_Fe65; Fe65 C-terminal Phosphotyrosine-binding (PTB) domain

cd01272
Location:488 → 625

PTB1_Fe65; Fe65 N-terminal Phosphotyrosine-binding (PTB) domain

pfam00397
Location:375 → 403

WW; WW domain
XM_063287918.1 → XP_063143988.1 amyloid beta precursor protein binding family B member 1 isoform X2
XM_063287939.1 → XP_063144009.1 amyloid beta precursor protein binding family B member 1 isoform X5
XM_063287933.1 → XP_063144003.1 amyloid beta precursor protein binding family B member 1 isoform X5
XM_063287936.1 → XP_063144006.1 amyloid beta precursor protein binding family B member 1 isoform X5
XM_063287931.1 → XP_063144001.1 amyloid beta precursor protein binding family B member 1 isoform X5
XM_063287922.1 → XP_063143992.1 amyloid beta precursor protein binding family B member 1 isoform X3
XM_008759717.4 → XP_008757939.1 amyloid beta precursor protein binding family B member 1 isoform X4

Related

ENSRNOP00000072751.2, ENSRNOT00000090181.3

Conserved Domains (3) summary

cd01271
Location:310 → 435

PTB2_Fe65; Fe65 C-terminal Phosphotyrosine-binding (PTB) domain

cd01272
Location:145 → 282

PTB1_Fe65; Fe65 N-terminal Phosphotyrosine-binding (PTB) domain

pfam00397
Location:32 → 60

WW; WW domain