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1.C.50.1.1
Alzheimer''s disease (AD) amyloid β-protein (amino acids 1-42) (Abeta protein or AβP or Aβ42).  Aβ pores may consist of tetrameric and hexameric beta-sheet subunits (Strodel et al. 2010).  Residues 22 - 35 in the peptide binds cholesterol to form Ca2+-permeable pores (Di Scala et al. 2014).  Cholesterol promotes the insertion of Abeta in the plasma membrane, induces alpha-helical structure formation, and forces the peptide to adopt a tilted topology that favours oligomerization. Bexarotene, an amphipathic drug for the treatment of neurodegenerative diseases, competes with cholesterol for binding to Abeta and prevents oligomeric channel formation (Di Scala et al. 2014). The beta-amyloid protein is involved in the activation of the nAChRalpha7 receptor (Hassan et al. 2019). Tryptophan enantiomers (d/l-Trp) introduced into artificial nanochannels regulate the chiral selective transport of Abeta proteins; the l-Trp channel shows selectivity for the transport of Abeta protein (Zhu et al. 2020). The prevalence, presentation, and progression of Alzheimer's disease (AD) differ between men and women, although β-amyloid (Aβ) deposition is a pathological hallmark of AD in both sexes. Aβ-induced activation of the neuronal glutamate receptor mGluR5 is linked to AD progression. However, mGluR5 exhibits distinct sex-dependent profiles (Abd-Elrahman et al. 2020). mGluR5 isolated from male mouse cortical and hippocampal tissues bound with high affinity to Aβ oligomers, whereas mGluR5 from female mice exhibited no such affinity. This sex-selective Aβ-mGluR5 interaction is not depend on estrogen, but rather Aβ interaction with cellular prion protein (PrPC), which was detected only in male mouse brain homogenates. The ternary complex between mGluR5, Aβ oligomers, and PrPC was essential to elicit mGluR5-dependent pathological suppression of autophagy in primary neuronal cultures. Pharmacological inhibition of mGluR5 reactivated autophagy, mitigated Aβ pathology, and reversed cognitive decline in male APPswe/PS1ΔE9 mice, but not in their female counterparts. Aβ oligomers also bound with high affinity to human mGluR5 isolated from postmortem donor male cortical brain tissue, but not that from female samples, suggesting that this mechanism may be relevant to patients. mGluR5 does not contribute to Aβ pathology in females, highlighting the complexity of mGluR5 pharmacology and Aβ signaling that supports the need for sex-specific stratification in clinical trials assessing AD therapeutics (Abd-Elrahman et al. 2020). Proteins associated with or anchored to the plasma membrane are associated with cerebrospinal fluid biomarkers of amyloid and tau pathology in AD (Remnestål et al. 2021). The architecture of the Alzheimer's A beta P ion channel pore has been determined (Arispe 2004). A transmembrane annular polymeric structure may be responsible for the ion channel properties of the membrane-bound A beta P (Arispe 2004). Arispe 2004 synthesized peptides that encompass the histidine dyad (H-H) hypothesized to line the pore and showed that peptides designed to most closely match the proposed pore are the most effective at blocking ion currents through the membrane-incorporated A beta P channel. Abeta) proteins can form ion pores in the cell membrane, and the structure of the transmembrane domain of Abeta ion channels is known. Substances that block or inhibit the formation of Abeta ion channels are known, and zinc ions are considered as potential inhibitors of AD (Kim et al. 2021).  The spatial distribution of rare missense variants within protein structures identifies Alzheimer's disease-related patterns (Jin et al. 2022). The folding/misfolding of membrane-permiable Amyloid beta (Abeta) peptides is likely associated with advancing stages of Alzheimer's disease (AD) by disrupting Ca2+ homeostasis (Ngo et al. 2023). The aggregation of four TMS Abeta(17-42) peptides suggested that the secondary structures of transmembrane Abeta peptides tends to have different propensities compared to those in solution. The residues favorably forming beta-structure were interleaved by residues rigidly adopting turn-structure. A combination of beta and turn regions likely forms a pore structure. Six morphologies of 4Abeta were found over the free energy landscape and clustering analyses. Among these, the morphologies include (1) Abeta binding onto the membrane surface and three transmembrane Abeta; (2) three helical and coil transmembrane Abeta; (3) four helical transmembrane Abeta; (4) three helical and one beta-hairpin transmembrane Abeta; (5) two helical and two beta-strand transmembrane Abeta; and (6) three beta-strand and one helical transmembrane Abd-Elrahman et al. 2020). mGluR5 isolated from male mouse cortical and hippocampal tissues bound with high affinity to Aβ oligomers, whereas mGluR5 from female mice exhibited no such affinity. This sex-selective Aβ-mGluR5 interaction is not depend on estrogen, but rather Aβ interaction with cellular prion protein (PrPC), which was detected only in male mouse brain homogenates. The ternary complex between mGluR5, Aβ oligomers, and PrPC was essential to elicit mGluR5-dependent pathological suppression of autophagy in primary neuronal cultures. Pharmacological inhibition of mGluR5 reactivated autophagy, mitigated Aβ pathology, and reversed cognitive decline in male APPswe/PS1ΔE9 mice, but not in their female counterparts. Aβ oligomers also bound with high affinity to human mGluR5 isolated from postmortem donor male cortical brain tissue, but not that from female samples, suggesting that this mechanism may be relevant to patients. mGluR5 does not contribute to Aβ pathology in females, highlighting the complexity of mGluR5 pharmacology and Aβ signaling that supports the need for sex-specific stratification in clinical trials assessing AD therapeutics (Abd-Elrahman et al. 2020). Proteins associated with or anchored to the plasma membrane are associated with cerebrospinal fluid biomarkers of amyloid and tau pathology in AD (Remnestål et al. 2021). The architecture of the Alzheimer's A beta P ion channel pore has been determined (Arispe 2004). A transmembrane annular polymeric structure may be responsible for the ion channel properties of the membrane-bound A beta P (Arispe 2004). Arispe 2004 synthesized peptides that encompass the histidine dyad (H-H) hypothesized to line the pore and showed that peptides designed to most closely match the proposed pore are the most effective at blocking ion currents through the membrane-incorporated A beta P channel. Abeta) proteins can form ion pores in the cell membrane, and the structure of the transmembrane domain of Abeta ion channels is known. Substances that block or inhibit the formation of Abeta ion channels are known, and zinc ions are considered as potential inhibitors of AD (Kim et al. 2021).  The spatial distribution of rare missense variants within protein structures identifies Alzheimer's disease-related patterns (Jin et al. 2022). The folding/misfolding of membrane-permiable Amyloid beta (Abeta) peptides is likely associated with advancing stages of Alzheimer's disease (AD) by disrupting Ca2+ homeostasis (Ngo et al. 2023). The aggregation of four TMS Abeta(17-42) peptides suggested that the secondary structures of transmembrane Abeta peptides tends to have different propensities compared to those in solution. The residues favorably forming beta-structure were interleaved by residues rigidly adopting turn-structure. A combination of beta and turn regions likely forms a pore structure. Six morphologies of 4Abeta were found over the free energy landscape and clustering analyses. Among these, the morphologies include (1) Abeta binding onto the membrane surface and three transmembrane Abeta; (2) three helical and coil transmembrane Abeta; (3) four helical transmembrane Abeta; (4) three helical and one beta-hairpin transmembrane Abeta; (5) two helical and two beta-strand transmembrane Abeta; and (6) three beta-strand and one helical transmembrane Abeta (Ngo et al. 2023).

Accession Number:P08592
Protein Name:A4 aka ABP aka APP
Length:770
Molecular Weight:86704.00
Species:Rattus norvegicus (Rat) [10116]
Number of TMSs:1
Location1 / Topology2 / Orientation3: Membrane1 / Single-pass type I membrane protein2
Substrate

Cross database links:

DIP: DIP-685N
RefSeq: NP_062161.1   
Entrez Gene ID: 54226   
Pfam: PF02177    PF10515    PF03494    PF00014   
KEGG: rno:54226   

Gene Ontology

GO:0030424 C:axon
GO:0005905 C:coated pit
GO:0005794 C:Golgi apparatus
GO:0016021 C:integral to membrane
GO:0019717 C:synaptosome
GO:0003677 F:DNA binding
GO:0008201 F:heparin binding
GO:0046872 F:metal ion binding
GO:0016504 F:peptidase activator activity
GO:0004867 F:serine-type endopeptidase inhibitor activity
GO:0008344 P:adult locomotory behavior
GO:0008088 P:axon cargo transport
GO:0016199 P:axon midline choice point recognition
GO:0007155 P:cell adhesion
GO:0006878 P:cellular copper ion homeostasis
GO:0048669 P:collateral sprouting in the absence of injury
GO:0016358 P:dendrite development
GO:0006897 P:endocytosis
GO:0030198 P:extracellular matrix organization
GO:0000085 P:G2 phase of mitotic cell cycle
GO:0006917 P:induction of apoptosis
GO:0035235 P:ionotropic glutamate receptor signaling pat...
GO:0007617 P:mating behavior
GO:0006378 P:mRNA polyadenylation
GO:0016322 P:neuron remodeling
GO:0007219 P:Notch signaling pathway
GO:0045931 P:positive regulation of mitotic cell cycle
GO:0006468 P:protein amino acid phosphorylation
GO:0007176 P:regulation of epidermal growth factor recep...
GO:0040014 P:regulation of multicellular organism growth
GO:0050803 P:regulation of synapse structure and activity
GO:0006417 P:regulation of translation
GO:0008542 P:visual learning

References (20)

[1] “Alzheimer's disease amyloidogenic glycoprotein: expression pattern in rat brain suggests a role in cell contact.”  Shivers B.D.et.al.   2900758
[2] “Amyloid beta protein precursor is possibly a heparan sulfate proteoglycan core protein.”  Schubert D.et.al.   2968652
[3] “Purification and tissue level of the beta-amyloid peptide precursor of rat brain.”  Potempska A.et.al.   1673681
[4] “The sequence of the two extra exons in rat preA4.”  Kang J.et.al.   2648331
[5] “Distinct intramembrane cleavage of the beta-amyloid precursor protein family resembling gamma-secretase-like cleavage of Notch.”  Gu Y.et.al.   11483588
[6] “APP gene family. Alternative splicing generates functionally related isoforms.”  Sandbrink R.et.al.   8624099
[7] “The Alzheimer amyloid precursor proteoglycan (appican) is present in brain and is produced by astrocytes but not by neurons in primary neural cultures.”  Shioi J.et.al.   7744833
[8] “Expression of the APP gene family in brain cells, brain development and aging.”  Sandbrink R.et.al.   8996834
[9] “A 127-kDa protein (UV-DDB) binds to the cytoplasmic domain of the Alzheimer's amyloid precursor protein.”  Watanabe T.et.al.   9930726
[10] “The amyloid precursor protein interacts with Go heterotrimeric protein within a cell compartment specialized in signal transduction.”  Brouillet E.et.al.   10024358
[11] “The beta A4 amyloid precursor protein binding to copper.”  Hesse L.et.al.   7913895
[12] “The chondroitin sulfate attachment site of appican is formed by splicing out exon 15 of the amyloid precursor gene.”  Pangalos M.N.et.al.   7737970
[13] “The A beta peptide of Alzheimer's disease directly produces hydrogen peroxide through metal ion reduction.”  Huang X.et.al.   10386999
[14] “Histidine-13 is a crucial residue in the zinc ion-induced aggregation of the A beta peptide of Alzheimer's disease.”  Liu S.T.et.al.   10413512
[15] “Role of glycine-33 and methionine-35 in Alzheimer's amyloid beta-peptide 1-42-associated oxidative stress and neurotoxicity.”  Kanski J.et.al.   11959460
[16] “The cytoplasmic domain of Alzheimer's amyloid precursor protein is phosphorylated at Thr654, Ser655, and Thr668 in adult rat brain and cultured cells.”  Oishi M.et.al.   9085254
[17] “Phosphorylation of the cytoplasmic domain of Alzheimer's beta-amyloid precursor protein at Ser655 by a novel protein kinase.”  Isohara T.et.al.   10329382
[18] “Role of phosphorylation of Alzheimer's amyloid precursor protein during neuronal differentiation.”  Ando K.et.al.   10341243
[19] “Neuron-specific phosphorylation of Alzheimer's beta-amyloid precursor protein by cyclin-dependent kinase 5.”  Iijima K.et.al.   10936190
[20] “Appican, the proteoglycan form of the amyloid precursor protein, contains chondroitin sulfate E in the repeating disaccharide region and 4-O-sulfated galactose in the linkage region.”  Tsuchida K.et.al.   11479316
Structure:
1NMJ   1OQN   1M7E   2LI9     

External Searches:

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Predict TMSs (Predict number of transmembrane segments)
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FASTA formatted sequence
1:	MLPSLALLLL AAWTVRALEV PTDGNAGLLA EPQIAMFCGK LNMHMNVQNG KWESDPSGTK 
61:	TCIGTKEGIL QYCQEVYPEL QITNVVEANQ PVTIQNWCKR GRKQCKTHTH IVIPYRCLVG 
121:	EFVSDALLVP DKCKFLHQER MDVCETHLHW HTVAKETCSE KSTNLHDYGM LLPCGIDKFR 
181:	GVEFVCCPLA EESDSIDSAD AEEDDSDVWW GGADTDYADG GEDKVVEVAE EEEVADVEEE 
241:	EAEDDEDVED GDEVEEEAEE PYEEATERTT SIATTTTTTT ESVEEVVREV CSEQAETGPC 
301:	RAMISRWYFD VTEGKCAPFF YGGCGGNRNN FDTEEYCMAV CGSVSSQSLL KTTSEPLPQD 
361:	PVKLPTTAAS TPDAVDKYLE TPGDENEHAH FQKAKERLEA KHRERMSQVM REWEEAERQA 
421:	KNLPKADKKA VIQHFQEKVE SLEQEAANER QQLVETHMAR VEAMLNDRRR LALENYITAL 
481:	QAVPPRPHHV FNMLKKYVRA EQKDRQHTLK HFEHVRMVDP KKAAQIRSQV MTHLRVIYER 
541:	MNQSLSLLYN VPAVAEEIQD EVDELLQKEQ NYSDDVLANM ISEPRISYGN DALMPSLTET 
601:	KTTVELLPVN GEFSLDDLQP WHPFGVDSVP ANTENEVEPV DARPAADRGL TTRPGSGLTN 
661:	IKTEEISEVK MDAEFGHDSG FEVRHQKLVF FAEDVGSNKG AIIGLMVGGV VIATVIVITL 
721:	VMLKKKQYTS IHHGVVEVDA AVTPEERHLS KMQQNGYENP TYKFFEQMQN