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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:P32500
Protein Name:Nucleoporin NDC1
Length:655
Molecular Weight:74134.00
Species:Saccharomyces cerevisiae (Baker's yeast) [4932]
Number of TMSs:5
Location1 / Topology2 / Orientation3: Nucleus1 / Multi-pass membrane protein2
Substrate

Cross database links:

DIP: DIP-1465N DIP-1465N DIP-1465N DIP-1465N
RefSeq: NP_013681.1   
Entrez Gene ID: 854977   
Pfam: PF09531   
KEGG: sce:YML031W    sce:YML031W    sce:YML031W    sce:YML031W   

Gene Ontology

GO:0070762 C:NDC1 complex
GO:0031965 C:nuclear membrane
GO:0005816 C:spindle pole body
GO:0042802 F:identical protein binding
GO:0005200 F:structural constituent of cytoskeleton
GO:0007020 P:microtubule nucleation
GO:0051028 P:mRNA transport
GO:0006606 P:protein import into nucleus
GO:0006405 P:RNA export from nucleus
GO:0007103 P:spindle pole body duplication in nuclear en...
GO:0055085 P:transmembrane transport
GO:0006999 P:nuclear pore organization
GO:0015031 P:protein transport
GO:0007103 P:spindle pole body duplication in nuclear envelope
GO:0005515 F:protein binding
GO:0006913 P:nucleocytoplasmic transport

References (60)

[1] “NDC1: a nuclear periphery component required for yeast spindle pole body duplication.”  Winey M.et.al.   8349727
[2] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[3] “Saccharomyces cerevisiae Ndc1p is a shared component of nuclear pore complexes and spindle pole bodies.”  Chial H.J.et.al.   9864355
[4] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[5] “A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.”  Uetz P.et.al.   10688190
[6] “A link between the synthesis of nucleoporins and the biogenesis of the nuclear envelope.”  Marelli M.et.al.   11352933
[7] “A comprehensive two-hybrid analysis to explore the yeast protein interactome.”  Ito T.et.al.   11283351
[8] “Composition of the spindle pole body of Saccharomyces cerevisiae and the proteins involved in its duplication.”  Helfant A.H.et.al.   11935220
[9] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[10] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[11] “A novel allele of Saccharomyces cerevisiae NDC1 reveals a potential role for the spindle pole body component Ndc1p in nuclear pore assembly.”  Lau C.K.et.al.   15075274
[12] “The Saccharomyces cerevisiae spindle pole body (SPB) component Nbp1p is required for SPB membrane insertion and interacts with the integral membrane proteins Ndc1p and Mps2p.”  Araki Y.et.al.   16436507
[13] “A global topology map of the Saccharomyces cerevisiae membrane proteome.”  Kim H.et.al.   16847258
[14] “Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.”  Smolka M.B.et.al.   17563356
[15] “A multidimensional chromatography technology for in-depth phosphoproteome analysis.”  Albuquerque C.P.et.al.   18407956
[16] “NDC1: a nuclear periphery component required for yeast spindle pole body duplication.”  Winey M.et.al.   8349727
[17] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[18] “Saccharomyces cerevisiae Ndc1p is a shared component of nuclear pore complexes and spindle pole bodies.”  Chial H.J.et.al.   9864355
[19] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[20] “A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.”  Uetz P.et.al.   10688190
[21] “A link between the synthesis of nucleoporins and the biogenesis of the nuclear envelope.”  Marelli M.et.al.   11352933
[22] “A comprehensive two-hybrid analysis to explore the yeast protein interactome.”  Ito T.et.al.   11283351
[23] “Composition of the spindle pole body of Saccharomyces cerevisiae and the proteins involved in its duplication.”  Helfant A.H.et.al.   11935220
[24] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[25] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[26] “A novel allele of Saccharomyces cerevisiae NDC1 reveals a potential role for the spindle pole body component Ndc1p in nuclear pore assembly.”  Lau C.K.et.al.   15075274
[27] “The Saccharomyces cerevisiae spindle pole body (SPB) component Nbp1p is required for SPB membrane insertion and interacts with the integral membrane proteins Ndc1p and Mps2p.”  Araki Y.et.al.   16436507
[28] “A global topology map of the Saccharomyces cerevisiae membrane proteome.”  Kim H.et.al.   16847258
[29] “Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.”  Smolka M.B.et.al.   17563356
[30] “A multidimensional chromatography technology for in-depth phosphoproteome analysis.”  Albuquerque C.P.et.al.   18407956
[31] “NDC1: a nuclear periphery component required for yeast spindle pole body duplication.”  Winey M.et.al.   8349727
[32] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[33] “Saccharomyces cerevisiae Ndc1p is a shared component of nuclear pore complexes and spindle pole bodies.”  Chial H.J.et.al.   9864355
[34] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[35] “A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.”  Uetz P.et.al.   10688190
[36] “A link between the synthesis of nucleoporins and the biogenesis of the nuclear envelope.”  Marelli M.et.al.   11352933
[37] “A comprehensive two-hybrid analysis to explore the yeast protein interactome.”  Ito T.et.al.   11283351
[38] “Composition of the spindle pole body of Saccharomyces cerevisiae and the proteins involved in its duplication.”  Helfant A.H.et.al.   11935220
[39] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[40] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[41] “A novel allele of Saccharomyces cerevisiae NDC1 reveals a potential role for the spindle pole body component Ndc1p in nuclear pore assembly.”  Lau C.K.et.al.   15075274
[42] “The Saccharomyces cerevisiae spindle pole body (SPB) component Nbp1p is required for SPB membrane insertion and interacts with the integral membrane proteins Ndc1p and Mps2p.”  Araki Y.et.al.   16436507
[43] “A global topology map of the Saccharomyces cerevisiae membrane proteome.”  Kim H.et.al.   16847258
[44] “Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.”  Smolka M.B.et.al.   17563356
[45] “A multidimensional chromatography technology for in-depth phosphoproteome analysis.”  Albuquerque C.P.et.al.   18407956
[46] “NDC1: a nuclear periphery component required for yeast spindle pole body duplication.”  Winey M.et.al.   8349727
[47] “The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.”  Bowman S.et.al.   9169872
[48] “Saccharomyces cerevisiae Ndc1p is a shared component of nuclear pore complexes and spindle pole bodies.”  Chial H.J.et.al.   9864355
[49] “The yeast nuclear pore complex: composition, architecture, and transport mechanism.”  Rout M.P.et.al.   10684247
[50] “A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.”  Uetz P.et.al.   10688190
[51] “A link between the synthesis of nucleoporins and the biogenesis of the nuclear envelope.”  Marelli M.et.al.   11352933
[52] “A comprehensive two-hybrid analysis to explore the yeast protein interactome.”  Ito T.et.al.   11283351
[53] “Composition of the spindle pole body of Saccharomyces cerevisiae and the proteins involved in its duplication.”  Helfant A.H.et.al.   11935220
[54] “Peering through the pore: nuclear pore complex structure, assembly, and function.”  Suntharalingam M.et.al.   12791264
[55] “Global analysis of protein expression in yeast.”  Ghaemmaghami S.et.al.   14562106
[56] “A novel allele of Saccharomyces cerevisiae NDC1 reveals a potential role for the spindle pole body component Ndc1p in nuclear pore assembly.”  Lau C.K.et.al.   15075274
[57] “The Saccharomyces cerevisiae spindle pole body (SPB) component Nbp1p is required for SPB membrane insertion and interacts with the integral membrane proteins Ndc1p and Mps2p.”  Araki Y.et.al.   16436507
[58] “A global topology map of the Saccharomyces cerevisiae membrane proteome.”  Kim H.et.al.   16847258
[59] “Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.”  Smolka M.B.et.al.   17563356
[60] “A multidimensional chromatography technology for in-depth phosphoproteome analysis.”  Albuquerque C.P.et.al.   18407956

External Searches:

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Predict TMSs (Predict number of transmembrane segments)
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FASTA formatted sequence
1:	MIQTPRELLN PRYTYHTIFS DVCKTRFNHL VTRLFFICSI IQTVVISLLA LPHSPLWELA 
61:	LAFIPNILAL NLVSLLIIVT RKNYMHVKNF GFANSLTFIL GQLLSVKFLV YQGVYSMGSI 
121:	LLSFVLGVVF GRGGSGWKPY YKLFIWLVVP TIYNLQHHVT DADKLSFNCE NFFQAPQDYV 
181:	LERVKRIMEK SVILSVISMF VLPIFTTVFF SRQKSGLFDS FTNGVLAVTN LLIISCIIFI 
241:	TFEFINIAFD AHMSIGCLHK GKLISNLSST PMETLLSGLS ADKPFTRLTA YQELAYRATS 
301:	LDPSLRAPIY HSKFRSSSGN TWSLILNECL KTIQINNEKV VQYLRSVQDL GGSATARHKK 
361:	KVENLDYMYE NGKLTSANER LFGNRPSMMA PLRDNGLLDE SPNRLRVRTD DSVLLNRGNK 
421:	KRHRSSYYDN DLDETTQTFN GSIFTHETTF MTAMRLMLKK LKNSIMSFIF PSYAERQSSD 
481:	ESDNYRLLPN GSNKAQISII DIWSISKKRQ AEKLVPLPIC HANSVVALTG LLIRSKTEDP 
541:	KGGIIASVGD ILKTLERSIC ALGEFADWDP ESMAYTAFQT QRTAQDRVQQ DSEDEDSMKD 
601:	TTDMISVLYQ LSTSAFMEIV LEYNVALNDV YLDADVAKLA NWFLEVYASG NPNAT