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1.I.1.1.1
Nuclear Pore Complex (NPC) (Tran and Wente, 2006).  The structure of the NPC core (400kD) has been determined at 7.4 Å resolution revealing a curved Y-shaped architecture with the coat nucleoporin interactions forming the central ""triskeleton"".  32 copies of the coat neucloporin complex (CNC) structure dock into the cryoelectron tomographic reconstruction of the assembled human NPC, thus accounting for ~16 MDa of it's mass (Stuwe et al. 2015).  Import of integral membrane proteins (mono- and polytopic) into the the inner nuclear membrane occurs by an active, transport factor-dependent process (Laba et al. 2015). Ndc1 and Pom52 are partially redundant NPC components that are essential for proper assembly of the NPC. The absence of Ndc1p and Pom152p results in aberrant pores that have enlarged diameters and lack proteinaceous material, leading to increased diffusion between the cytoplasm and the nucleus (Madrid et al. 2006). Pom152 is a transmembrane protein within the nuclear pore complex (NPC) of fungi that is important for NPC assembly and structure. Pom152 is comprised of a short amino-terminal region that remains on the cytosolic side of the nuclear envelope (NE) and interacts with NPC proteins, a transmembrane domain, and a large, glycosylated carboxy-terminal domain within the NE lumen. Here we show that the N-terminal 200 amino acids of Pom152 that include only the amino-terminal and transmembrane regions are sufficient for localization to the NPC (Brown et al. 2021). Atg39 selectively captures the inner nuclear membrane into lumenal vesicles for delivery to the autophagosome (Chandra et al. 2021). The inner nuclear membrane (INM) changes its protein composition during gametogenesis, sheding light on mechanisms used to shape the INM proteome of spores (Shelton et al. 2021). Several nucleoporins with FG-repeats (phenylalanine-glycine repeats) (barrier nucleoporins) possess potential amyloidogenic properties (Danilov et al. 2023).  A multiscale structure of the yeast nuclear pore complex has been described, and its implications have been discussed (Akey et al. 2023).  NPCs direct the nucleocytoplasmic transport of macromolecules, and Akey et al. 2023 provided a composite multiscale structure of the yeast NPC, based on improved 3D density maps from cryoEM and AlphaFold2 models. Key features of the inner and outer rings were integrated into a comprehensive model. The authors resolved flexible connectors that tie together the core scaffold, along with equatorial transmembrane complexes and a lumenal ring that anchor this channel within the pore membrane. The organization of the nuclear double outer ring revealed an architecture that may be shared with ancestral NPCs. Additional connections between the core scaffold and the central transporter suggest that under certain conditions, a degree of local organization is present at the periphery of the transport machinery. These connectors may couple conformational changes in the scaffold to the central transporter to modulate transport. Collectively, this analysis provides insights into assembly, transport, and NPC evolution (Akey et al. 2023).

Accession Number:P46673
Protein Name:Nucleoporin NUP85
Length:744
Molecular Weight:84898.00
Species:Saccharomyces cerevisiae (Baker's yeast) [4932]
Location1 / Topology2 / Orientation3: Nucleus1 / Peripheral membrane protein2 / Cytoplasmic side3
Substrate

Cross database links:

DIP: DIP-5818N DIP-5818N DIP-5818N DIP-5818N
RefSeq: NP_012576.1   
Entrez Gene ID: 853499   
Pfam: PF07575   
KEGG: sce:YJR042W    sce:YJR042W    sce:YJR042W    sce:YJR042W   

Gene Ontology

GO:0031965 C:nuclear membrane
GO:0031080 C:Nup107-160 complex
GO:0005515 F:protein binding
GO:0005198 F:structural molecule activity
GO:0006406 P:mRNA export from nucleus
GO:0006609 P:mRNA-binding (hnRNP) protein import into nu...
GO:0006607 P:NLS-bearing substrate import into nucleus
GO:0006998 P:nuclear envelope organization
GO:0006999 P:nuclear pore organization
GO:0006611 P:protein export from nucleus
GO:0006610 P:ribosomal protein import into nucleus
GO:0006407 P:rRNA export from nucleus
GO:0006408 P:snRNA export from nucleus
GO:0006608 P:snRNP protein import into nucleus
GO:0055085 P:transmembrane transport
GO:0006409 P:tRNA export from nucleus
GO:0006609 P:mRNA-binding (hnRNP) protein import into nucleus
GO:0000055 P:ribosomal large subunit export from nucleus

References (48)

[1] “Pleiotropic nuclear defects associated with a conditional allele of the novel nucleoporin Rat9p/Nup85p.”  Goldstein A.L.et.al.   8816998
[2] “A novel complex of nucleoporins, which includes Sec13p and a Sec13p homolog, is essential for normal nuclear pores.”  Siniossoglou S.et.al.   8565072
[3] “Analysis of a 42.5 kb DNA sequence of chromosome X reveals three tRNA genes and 14 new open reading frames including a gene most probably belonging to the family of ubiquitin-protein ligases.”  Huang M.-E.et.al.   7668047
[4] “Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X.”  Galibert F.et.al.   8641269
[5] “Nuclear mRNA export requires complex formation between Mex67p and Mtr2p at the nuclear pores.”  Santos-Rosa H.et.al.   9774696
[6] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[7] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[8] “Deciphering networks of protein interactions at the nuclear pore complex.”  Allen N.P.et.al.   12543930
[9] “Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins.”  Lutzmann M.et.al.   11823431
[10] “Nuclear accumulation of the small GTPase Gsp1p depends on nucleoporins Nup133p, Rat2p/Nup120p, Nup85p, Nic96p, and the acetyl-CoA carboxylase Acc1p.”  Gao H.et.al.   12730220
[11] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[12] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[13] “Pleiotropic nuclear defects associated with a conditional allele of the novel nucleoporin Rat9p/Nup85p.”  Goldstein A.L.et.al.   8816998
[14] “A novel complex of nucleoporins, which includes Sec13p and a Sec13p homolog, is essential for normal nuclear pores.”  Siniossoglou S.et.al.   8565072
[15] “Analysis of a 42.5 kb DNA sequence of chromosome X reveals three tRNA genes and 14 new open reading frames including a gene most probably belonging to the family of ubiquitin-protein ligases.”  Huang M.-E.et.al.   7668047
[16] “Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X.”  Galibert F.et.al.   8641269
[17] “Nuclear mRNA export requires complex formation between Mex67p and Mtr2p at the nuclear pores.”  Santos-Rosa H.et.al.   9774696
[18] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[19] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[20] “Deciphering networks of protein interactions at the nuclear pore complex.”  Allen N.P.et.al.   12543930
[21] “Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins.”  Lutzmann M.et.al.   11823431
[22] “Nuclear accumulation of the small GTPase Gsp1p depends on nucleoporins Nup133p, Rat2p/Nup120p, Nup85p, Nic96p, and the acetyl-CoA carboxylase Acc1p.”  Gao H.et.al.   12730220
[23] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[24] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[25] “Pleiotropic nuclear defects associated with a conditional allele of the novel nucleoporin Rat9p/Nup85p.”  Goldstein A.L.et.al.   8816998
[26] “A novel complex of nucleoporins, which includes Sec13p and a Sec13p homolog, is essential for normal nuclear pores.”  Siniossoglou S.et.al.   8565072
[27] “Analysis of a 42.5 kb DNA sequence of chromosome X reveals three tRNA genes and 14 new open reading frames including a gene most probably belonging to the family of ubiquitin-protein ligases.”  Huang M.-E.et.al.   7668047
[28] “Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X.”  Galibert F.et.al.   8641269
[29] “Nuclear mRNA export requires complex formation between Mex67p and Mtr2p at the nuclear pores.”  Santos-Rosa H.et.al.   9774696
[30] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[31] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[32] “Deciphering networks of protein interactions at the nuclear pore complex.”  Allen N.P.et.al.   12543930
[33] “Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins.”  Lutzmann M.et.al.   11823431
[34] “Nuclear accumulation of the small GTPase Gsp1p depends on nucleoporins Nup133p, Rat2p/Nup120p, Nup85p, Nic96p, and the acetyl-CoA carboxylase Acc1p.”  Gao H.et.al.   12730220
[35] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[36] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[37] “Pleiotropic nuclear defects associated with a conditional allele of the novel nucleoporin Rat9p/Nup85p.”  Goldstein A.L.et.al.   8816998
[38] “A novel complex of nucleoporins, which includes Sec13p and a Sec13p homolog, is essential for normal nuclear pores.”  Siniossoglou S.et.al.   8565072
[39] “Analysis of a 42.5 kb DNA sequence of chromosome X reveals three tRNA genes and 14 new open reading frames including a gene most probably belonging to the family of ubiquitin-protein ligases.”  Huang M.-E.et.al.   7668047
[40] “Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X.”  Galibert F.et.al.   8641269
[41] “Nuclear mRNA export requires complex formation between Mex67p and Mtr2p at the nuclear pores.”  Santos-Rosa H.et.al.   9774696
[42] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[43] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[44] “Deciphering networks of protein interactions at the nuclear pore complex.”  Allen N.P.et.al.   12543930
[45] “Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins.”  Lutzmann M.et.al.   11823431
[46] “Nuclear accumulation of the small GTPase Gsp1p depends on nucleoporins Nup133p, Rat2p/Nup120p, Nup85p, Nic96p, and the acetyl-CoA carboxylase Acc1p.”  Gao H.et.al.   12730220
[47] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[48] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
Structure:
3EWE   3F3F   3F3G   3F3P   4XMM   4XMN     

External Searches:

Analyze:

Predict TMSs (Predict number of transmembrane segments)
Window Size: Angle:  
FASTA formatted sequence
1:	MTIDDSNRLL MDVDQFDFLD DGTAQLSNNK TDEEEQLYKR DPVSGAILVP MTVNDQPIEK 
61:	NGDKMPLKFK LGPLSYQNMA FITAKDKYKL YPVRIPRLDT SKEFSAYVSG LFEIYRDLGD 
121:	DRVFNVPTIG VVNSNFAKEH NATVNLAMEA ILNELEVFIG RVKDQDGRVN RFYELEESLT 
181:	VLNCLRTMYF ILDGQDVEEN RSEFIESLLN WINRSDGEPD EEYIEQVFSV KDSTAGKKVF 
241:	ETQYFWKLLN QLVLRGLLSQ AIGCIERSDL LPYLSDTCAV SFDAVSDSIE LLKQYPKDSS 
301:	STFREWKNLV LKLSQAFGSS ATDISGELRD YIEDFLLVIG GNQRKILQYS RTWYESFCGF 
361:	LLYYIPSLEL SAEYLQMSLE ANVVDITNDW EQPCVDIISG KIHSILPVME SLDSCTAAFT 
421:	AMICEAKGLI ENIFEGEKNS DDYSNEDNEM LEDLFSYRNG MASYMLNSFA FELCSLGDKE 
481:	LWPVAIGLIA LSATGTRSAK KMVIAELLPH YPFVTNDDIE WMLSICVEWR LPEIAKEIYT 
541:	TLGNQMLSAH NIIESIANFS RAGKYELVKS YSWLLFEASC MEGQKLDDPV LNAIVSKNSP 
601:	AEDDVIIPQD ILDCVVTNSM RQTLAPYAVL SQFYELRDRE DWGQALRLLL LLIEFPYLPK 
661:	HYLVLLVAKF LYPIFLLDDK KLMDEDSVAT VIEVIETKWD DADEKSSNLY ETIIEADKSL 
721:	PSSMATLLKN LRKKLNFKLC QAFM