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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:Q02630
Protein Name:Nucleoporin NUP116/NSP116
Length:1113
Molecular Weight:116234.00
Species:Saccharomyces cerevisiae (Baker's yeast) [4932]
Location1 / Topology2 / Orientation3: Nucleus1 / Peripheral membrane protein2 / Cytoplasmic side3
Substrate

Cross database links:

DIP: DIP-2389N DIP-2389N DIP-2389N DIP-2389N
RefSeq: NP_013762.1   
Entrez Gene ID: 855066   
Pfam: PF04096   
KEGG: sce:YMR047C    sce:YMR047C    sce:YMR047C    sce:YMR047C   

Gene Ontology

GO:0031965 C:nuclear membrane
GO:0055126 C:Nup82 complex
GO:0042802 F:identical 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: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:0006388 P:tRNA splicing, via endonucleolytic cleavage...
GO:0016973 P:poly(A)+ mRNA export from nucleus
GO:0006606 P:protein import into nucleus
GO:0000055 P:ribosomal large subunit export from nucleus

References (79)

[1] “A new family of yeast nuclear pore complex proteins.”  Wente S.R.et.al.   1385442
[2] “A new subclass of nucleoporins that functionally interact with nuclear pore protein NSP1.”  Wimmer C.et.al.   1464327
[3] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[4] “Nup145p is required for nuclear export of mRNA and binds homopolymeric RNA in vitro via a novel conserved motif.”  Fabre E.et.al.   8044840
[5] “Yeast nucleoporin mutants are defective in pre-tRNA splicing.”  Sharma K.et.al.   8524308
[6] “Nup116p and nup100p are interchangeable through a conserved motif which constitutes a docking site for the mRNA transport factor gle2p.”  Bailer S.M.et.al.   9463388
[7] “Interactions between a nuclear transporter and a subset of nuclear pore complex proteins depend on Ran GTPase.”  Seedorf M.et.al.   9891088
[8] “Assembly and preferential localization of Nup116p on the cytoplasmic face of the nuclear pore complex by interaction with Nup82p.”  Ho A.K.et.al.   10891509
[9] “Binding of the Mex67p/Mtr2p heterodimer to FXFG, GLFG, and FG repeat nucleoporins is essential for nuclear mRNA export.”  Straesser K.et.al.   10952996
[10] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[11] “Nup116p associates with the Nup82p-Nsp1p-Nup159p nucleoporin complex.”  Bailer S.M.et.al.   10801828
[12] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[13] “Proteomic analysis of nucleoporin interacting proteins.”  Allen N.P.et.al.   11387327
[14] “The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport.”  Bailer S.M.et.al.   11689687
[15] “The GLFG regions of Nup116p and Nup100p serve as binding sites for both Kap95p and Mex67p at the nuclear pore complex.”  Strawn L.A.et.al.   11104765
[16] “GLFG and FxFG nucleoporins bind to overlapping sites on importin-beta.”  Bayliss R.et.al.   12372823
[17] “Disorder in the nuclear pore complex: the FG repeat regions of nucleoporins are natively unfolded.”  Denning D.P.et.al.   12604785
[18] “Minimal nuclear pore complexes define FG repeat domains essential for transport.”  Strawn L.A.et.al.   15039779
[19] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[20] “A new family of yeast nuclear pore complex proteins.”  Wente S.R.et.al.   1385442
[21] “A new subclass of nucleoporins that functionally interact with nuclear pore protein NSP1.”  Wimmer C.et.al.   1464327
[22] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[23] “Nup145p is required for nuclear export of mRNA and binds homopolymeric RNA in vitro via a novel conserved motif.”  Fabre E.et.al.   8044840
[24] “Yeast nucleoporin mutants are defective in pre-tRNA splicing.”  Sharma K.et.al.   8524308
[25] “Nup116p and nup100p are interchangeable through a conserved motif which constitutes a docking site for the mRNA transport factor gle2p.”  Bailer S.M.et.al.   9463388
[26] “Interactions between a nuclear transporter and a subset of nuclear pore complex proteins depend on Ran GTPase.”  Seedorf M.et.al.   9891088
[27] “Assembly and preferential localization of Nup116p on the cytoplasmic face of the nuclear pore complex by interaction with Nup82p.”  Ho A.K.et.al.   10891509
[28] “Binding of the Mex67p/Mtr2p heterodimer to FXFG, GLFG, and FG repeat nucleoporins is essential for nuclear mRNA export.”  Straesser K.et.al.   10952996
[29] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[30] “Nup116p associates with the Nup82p-Nsp1p-Nup159p nucleoporin complex.”  Bailer S.M.et.al.   10801828
[31] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[32] “Proteomic analysis of nucleoporin interacting proteins.”  Allen N.P.et.al.   11387327
[33] “The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport.”  Bailer S.M.et.al.   11689687
[34] “The GLFG regions of Nup116p and Nup100p serve as binding sites for both Kap95p and Mex67p at the nuclear pore complex.”  Strawn L.A.et.al.   11104765
[35] “GLFG and FxFG nucleoporins bind to overlapping sites on importin-beta.”  Bayliss R.et.al.   12372823
[36] “Disorder in the nuclear pore complex: the FG repeat regions of nucleoporins are natively unfolded.”  Denning D.P.et.al.   12604785
[37] “Minimal nuclear pore complexes define FG repeat domains essential for transport.”  Strawn L.A.et.al.   15039779
[38] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[39] “Cex1p is a novel cytoplasmic component of the Saccharomyces cerevisiae nuclear tRNA export machinery.”  McGuire A.T.et.al.   17203074
[40] “A new family of yeast nuclear pore complex proteins.”  Wente S.R.et.al.   1385442
[41] “A new subclass of nucleoporins that functionally interact with nuclear pore protein NSP1.”  Wimmer C.et.al.   1464327
[42] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[43] “Nup145p is required for nuclear export of mRNA and binds homopolymeric RNA in vitro via a novel conserved motif.”  Fabre E.et.al.   8044840
[44] “Yeast nucleoporin mutants are defective in pre-tRNA splicing.”  Sharma K.et.al.   8524308
[45] “Nup116p and nup100p are interchangeable through a conserved motif which constitutes a docking site for the mRNA transport factor gle2p.”  Bailer S.M.et.al.   9463388
[46] “Interactions between a nuclear transporter and a subset of nuclear pore complex proteins depend on Ran GTPase.”  Seedorf M.et.al.   9891088
[47] “Assembly and preferential localization of Nup116p on the cytoplasmic face of the nuclear pore complex by interaction with Nup82p.”  Ho A.K.et.al.   10891509
[48] “Binding of the Mex67p/Mtr2p heterodimer to FXFG, GLFG, and FG repeat nucleoporins is essential for nuclear mRNA export.”  Straesser K.et.al.   10952996
[49] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[50] “Nup116p associates with the Nup82p-Nsp1p-Nup159p nucleoporin complex.”  Bailer S.M.et.al.   10801828
[51] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[52] “Proteomic analysis of nucleoporin interacting proteins.”  Allen N.P.et.al.   11387327
[53] “The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport.”  Bailer S.M.et.al.   11689687
[54] “The GLFG regions of Nup116p and Nup100p serve as binding sites for both Kap95p and Mex67p at the nuclear pore complex.”  Strawn L.A.et.al.   11104765
[55] “GLFG and FxFG nucleoporins bind to overlapping sites on importin-beta.”  Bayliss R.et.al.   12372823
[56] “Disorder in the nuclear pore complex: the FG repeat regions of nucleoporins are natively unfolded.”  Denning D.P.et.al.   12604785
[57] “Minimal nuclear pore complexes define FG repeat domains essential for transport.”  Strawn L.A.et.al.   15039779
[58] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[59] “Cex1p is a novel cytoplasmic component of the Saccharomyces cerevisiae nuclear tRNA export machinery.”  McGuire A.T.et.al.   17203074
[60] “A new family of yeast nuclear pore complex proteins.”  Wente S.R.et.al.   1385442
[61] “A new subclass of nucleoporins that functionally interact with nuclear pore protein NSP1.”  Wimmer C.et.al.   1464327
[62] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[63] “Nup145p is required for nuclear export of mRNA and binds homopolymeric RNA in vitro via a novel conserved motif.”  Fabre E.et.al.   8044840
[64] “Yeast nucleoporin mutants are defective in pre-tRNA splicing.”  Sharma K.et.al.   8524308
[65] “Nup116p and nup100p are interchangeable through a conserved motif which constitutes a docking site for the mRNA transport factor gle2p.”  Bailer S.M.et.al.   9463388
[66] “Interactions between a nuclear transporter and a subset of nuclear pore complex proteins depend on Ran GTPase.”  Seedorf M.et.al.   9891088
[67] “Assembly and preferential localization of Nup116p on the cytoplasmic face of the nuclear pore complex by interaction with Nup82p.”  Ho A.K.et.al.   10891509
[68] “Binding of the Mex67p/Mtr2p heterodimer to FXFG, GLFG, and FG repeat nucleoporins is essential for nuclear mRNA export.”  Straesser K.et.al.   10952996
[69] “Factors affecting nuclear export of the 60S ribosomal subunit in vivo.”  Stage-Zimmermann T.et.al.   11071906
[70] “Nup116p associates with the Nup82p-Nsp1p-Nup159p nucleoporin complex.”  Bailer S.M.et.al.   10801828
[71] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[72] “Proteomic analysis of nucleoporin interacting proteins.”  Allen N.P.et.al.   11387327
[73] “The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport.”  Bailer S.M.et.al.   11689687
[74] “The GLFG regions of Nup116p and Nup100p serve as binding sites for both Kap95p and Mex67p at the nuclear pore complex.”  Strawn L.A.et.al.   11104765
[75] “GLFG and FxFG nucleoporins bind to overlapping sites on importin-beta.”  Bayliss R.et.al.   12372823
[76] “Disorder in the nuclear pore complex: the FG repeat regions of nucleoporins are natively unfolded.”  Denning D.P.et.al.   12604785
[77] “Minimal nuclear pore complexes define FG repeat domains essential for transport.”  Strawn L.A.et.al.   15039779
[78] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[79] “Cex1p is a novel cytoplasmic component of the Saccharomyces cerevisiae nuclear tRNA export machinery.”  McGuire A.T.et.al.   17203074
Structure:
2AIV   3PBP   1O6P     

External Searches:

Analyze:

Predict TMSs (Predict number of transmembrane segments)
Window Size: Angle:  
FASTA formatted sequence
1:	MFGVSRGAFP SATTQPFGST GSTFGGQQQQ QQPVANTSAF GLSQQTNTTQ APAFGNFGNQ 
61:	TSNSPFGMSG STTANGTPFG QSQLTNNNAS GSIFGGMGNN TALSAGSASV VPNSTAGTSI 
121:	KPFTTFEEKD PTTGVINVFQ SITCMPEYRN FSFEELRFQD YQAGRKFGTS QNGTGTTFNN 
181:	PQGTTNTGFG IMGNNNSTTS ATTGGLFGQK PATGMFGTGT GSGGGFGSGA TNSTGLFGSS 
241:	TNLSGNSAFG ANKPATSGGL FGNTTNNPTN GTNNTGLFGQ QNSNTNGGLF GQQQNSFGAN 
301:	NVSNGGAFGQ VNRGAFPQQQ TQQGSGGIFG QSNANANGGA FGQQQGTGAL FGAKPASGGL 
361:	FGQSAGSKAF GMNTNPTGTT GGLFGQTNQQ QSGGGLFGQQ QNSNAGGLFG QNNQSQNQSG 
421:	LFGQQNSSNA FGQPQQQGGL FGSKPAGGLF GQQQGASTFA SGNAQNNSIF GQNNQQQQST 
481:	GGLFGQQNNQ SQSQPGGLFG QTNQNNNQPF GQNGLQQPQQ NNSLFGAKPT GFGNTSLFSN 
541:	STTNQSNGIS GNNLQQQSGG LFQNKQQPAS GGLFGSKPSN TVGGGLFGNN QVANQNNPAS 
601:	TSGGLFGSKP ATGSLFGGTN STAPNASSGG IFGSNNASNT AATTNSTGLF GNKPVGAGAS 
661:	TSAGGLFGNN NNSSLNNSNG STGLFGSNNT SQSTNAGGLF QNNTSTNTSG GGLFSQPSQS 
721:	MAQSQNALQQ QQQQQRLQIQ NNNPYGTNEL FSKATVTNTV SYPIQPSATK IKADERKKAS 
781:	LTNAYKMIPK TLFTAKLKTN NSVMDKAQIK VDPKLSISID KKNNQIAISN QQEENLDESI 
841:	LKASELLFNP DKRSFKNLIN NRKMLIASEE KNNGSQNNDM NFKSKSEEQE TILGKPKMDE 
901:	KETANGGERM VLSSKNDGED SATKHHSRNM DEENKENVAD LQKQEYSEDD KKAVFADVAE 
961:	KDASFINENY YISPSLDTLS SYSLLQLRKV PHLVVGHKSY GKIEFLEPVD LAGIPLTSLG 
1021:	GVIITFEPKT CIIYANLPNR PKRGEGINVR ARITCFNCYP VDKSTRKPIK DPNHQLVKRH 
1081:	IERLKKNPNS KFESYDADSG TYVFIVNHAA EQT