Os09g0244900

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Annotated Information

Function

The TRAPP complexes, large multimeric assemblies that function in membrane traffic, are guanine nucleotide exchange factors (GEF) that activate the Rab GTPase Ypt1p.Ypt1p is activated by a large multisubunit complex called TRAPP that also functions in tethering. TRAPP is found in two forms: TRAPPI mediates traffic from the ER to the early Golgi, while TRAPPII plays a role in transport to the late Golgi. The two TRAPP complexes share seven subunits (Bet3p, Bet5p, Trs31p, Trs33p, Trs23p, Trs20p, and Trs85p), of which four (Bet3p, Bet5p, Trs23p, Trs31p) are required for the activation of Ypt1p.TRAPP is thus an unusual GEF in that its activity does not reside in a single subunit but instead requires a minimal five-subunit subcomplex comprising four different proteins.

Expression

Ypt/Rabs are activated by guanine-nucleotide exchange factors (GEFs) and the GEF for Ypt1 and Ypt31/32 is the TRAPP complex. TRAPP is a multisubunit modular complex (Sacher et al. 2008), which exists in at least three forms. TRAPP I, which contains five essential subunits, acts as a GEF for Ypt1 (Jones et al. 2000; Wang et al. 2000), and is required for ER-to-Golgi transport (Sacher et al. 1998). Trs85, a TRAPP subunit, nonessential for cell viability, plays a role in autophagy (Meiling-Wesse et al. 2005; Nazarko et al. 2005). A Trs85-containing TRAPP complex, termed TRAPP III, also acts as a Ypt1 GEF (Lynch-Day et al. 2010). TRAPP II, which contains Trs120 and Trs130 in addition to TRAPP I subunits, functions at the trans-Golgi (Sacher et al. 2001). However, currently the Ypt GEF specificity of the TRAPP II complex is under dispute..

Extention

The interaction of Ypt1p with guanine nucleotides (GDP or GTP) and TRAPP, as with other GTPases and exchange factors,2 is defined by the following closed, cyclic reaction scheme of linked equilibria (Figure 1

Figure 1(from reference ).

): where GNP represents either GDP or GTP and Ki represent the overall dissociation equilibrium constants for binding of a given ligand. The results in the following sections are discussed in terms of this Scheme, which has been used in characterizing other exchange factors.

Labs working on this gene

1 Yale University, Department of Molecular Biophysics & Biochemistry, 260 Whitney Avenue, New Haven 06520

2 Department of Cell Biology, Yale University School of Medicine, 333 Cedar Street, New Haven, Connecticut 06520

3 The Howard Hughes Medical Institute and the Department of Cellular and Molecular Medicine, University of California at San Diego, La Jolla, CA 92093-0668

4 Department of Biochemistry and Molecular Genetics, University of Illinois, 900 S. Ashland Ave., Chicago, IL 60607.

5 College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, People’s Republic of China.

Structured Information

Gene Name	Os09g0244900
Description	Transport protein particle (TRAPP) component, Bet3 family protein
Version	NM_001069192.2 GI:297609099 GeneID:4346489
Length	6323 bp
Definition	Oryza sativa Japonica Group Os09g0244900, complete gene.
Source	Oryza sativa Japonica Group ORGANISM Oryza sativa Japonica Group Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP clade; Ehrhartoideae; Oryzeae; Oryza.
Chromosome	Chromosome 9
Location	Chromosome 9:3935276..3941598
Sequence Coding Region	3935389..3935540,3938899..3939016,3939091..3939345
Expression	GEO Profiles:Os09g0244900
Genome Context	<gbrowseImage1> name=NC_008402:3935276..3941598 source=RiceChromosome09 preset=GeneLocation </gbrowseImage1>
Gene Structure	<gbrowseImage2> name=NC_008402:3935276..3941598 source=RiceChromosome09 preset=GeneLocation </gbrowseImage2>
Coding Sequence	<cdnaseq>atggtgcgggaggttgcggagagctgtgtcgacggggtggtgatggagatggtggcggcctactgcggccgcttctacgccgccaagccggagctcgccgcccgccgcatcgaggccatcggcttccaggtcggccaccagctcacggagagatataccatggagcgccctcgatttagtgatcatcttgaagcaatcaaatttatctgcaaagacttttggtcagagctattcaagaagcagattgacaatcttaaaactaatcataggggaacatttgttcttcaagataaccgtttccggtggcttactcgtgtttctatagatccatctgtagagagcatggatgcaactgacaatgactctgcaacactaggggatagcgcagcccaaacaacaagcatgcttctgtactttccatgcgggataataagaggtgccttgaccaatttgggtatttcgtgttctgtcactgcagacatgtccaaccttccagcatgtgagttgcactactccttttcatga</cdnaseq>
Protein Sequence	<aaseq>MVREVAESCVDGVVMEMVAAYCGRFYAAKPELAARRIEAIGFQV GHQLTERYTMERPRFSDHLEAIKFICKDFWSELFKKQIDNLKTNHRGTFVLQDNRFRW LTRVSIDPSVESMDATDNDSATLGDSAAQTTSMLLYFPCGIIRGALTNLGISCSVTAD MSNLPACELHYSFS</aaseq>
Gene Sequence	<dnaseqindica>114..265#3624..3741#3816..4070#tgggttcgtgcgacgggacctcgattcgtccatccagcttccactacccctccgcgcgctgcctagatctttcctctctctcgcaccctcttattggcggaggaggaggagggatggtgcgggaggttgcggagagctgtgtcgacggggtggtgatggagatggtggcggcctactgcggccgcttctacgccgccaagccggagctcgccgcccgccgcatcgaggccatcggcttccaggtcggccaccagctcacggagaggtaaacgaatctctctctctctcttgctggatggatctgctgctgcgcccctcccccgatctttccggcgagtccgccgacgagggcctcagatcttctcagtcggcagtcgctatcggttcttgctgactccgataaattttgaaatgttgcttttagtcgccctaaataagggcttattaatcagatttcgcaacaatatcgagccttagacttgatcgcgaagcacttcttgtctttgggagcaggagtgcagggccttgcctacaatcaaaatttgggttaattggatccgctattataaatttcacggtttagaaaaataccattactatttggtaccattgccattgcaatttcataagtattatcactacagaccttttcataacattttttgttttttaagaccaaattaccccctcttcttccttcttccttcccctctctcctctcttccagccgacgaactcgtatgagttcagcagctcatgccgcaggctgcagcgctggaagagccgccgcgcaggacactgctgccgatggagctgaaggagagtggcatagagttgtgagagcttgcttgcactcatttaagctaggattcagtaatgtcgtgcggaaacgtacaacatccgttggcctatgtagtgtgtcattgtgtatatgcagagacgtacgggacatgcatttgctgcaagtattcagtgactgaaccatgccaggtaggagtgtatgtgtatacaggcttgttcctatatgctgtgtcgtatggtagggcacagcacctcaactggatcacgcctccaacaatgtggcaaacgctcttgccgtctacaacagcctttctagcacaccgtcgtcgacgtgaacggaccaactgctgccggcagcctctctgaactctgccgagactgcagtcctcgccgtgcagtccagcgccgtggccggctacacaatttcgtcggagtttgttaagctggaggacaggagattgggggaaaataagtagatgagggtagaagaaagggacaattttgtcctaaaaactcagggttaattggatccatgccattataaattttttagttttgacgtatgcaattactattcaactattcagagtcataccaatacaatttttcaggtgtggaaatatatcactacatacccctttgatgtgtttcacaaaatttttagaccaaaatgccctcatcttcttcctttgtctcatcccatctcctgtagtcctgttaatcttcttcctcctatttttccccttccggatctgaatctggcaacttgtcttcttccttctcatttcctctgtcggccatgatgccagtgttgtgctgcgccatctagttcctcttattcccttcgccggccaaccaaggagcggagctcgtcgtcggcgcatcgttgtggaaggtgctgctggtgttgttcgcctgcggcgacttcaccatggcacgtggtcgtcgatgggcacatgctgtccatgatctgacagagtggcctttttcatgtgtaatctcaaactgaacatccttttttatgtgcctaattgagttggtcaaacatcccaaaatccattccactagcttctgctgagcagcaagcaaccaactaccagactaccagtacgtccttcaacagcaggaaaccaaccatgtgcaagaaatgggaagaagaagaagatgaacagcagacaggtcgggtagctctgaccagctgctgcagtttcgtgtatatggggctggtggccggcgccaccgggaccaacaccatcgagcaatggcggttggctcggactaggtgctgcggcatccagatccgatgagcctgaacccaacgccatctttggcacagccgactcgagccagcctgtcccaatcggcaaccccttgcactgaacttgcagcaagaattgagagaaagaagatgtacaggagagatggaaggacaccaaggaagaagaagagggcattttggtctaagaattttgttaaacacattgaaggggtatgtagtggtatattttcaatacctggaaaattgtaatggcatagctcttaatagttgaatggtaatggcatatgtcagaactgaaaaaatgctgtgaaagggtatatagcggcatatctctaacacttgtaaaattgtaatggcatgatttcaaatagatgaataataatggtatatttccaaactgcgaaatttacagtggcatagatccaattaacccaccatatatattccacaattccaaatgttcattccataagttttaacttcagtacatgtctagtatttcgaacaggtcacttgtttaaccgtttactgatgtgtatacaaatttgtaattctagacagtttatctattctcttgactggtactgttgtatcagcctttattaatagatcgcataactggatgccgccagcaccaatgttctgtcagacagggtaaaaaatatatcacatgattacagccatacggagtatatatttttatttaaacaagtacaactcttttttactgcatacctggctttcagtgtagggatccgaaaatgttatcactttgaactgcagtatatcctcaaatatggtgggtactggataggttcatctcatatagccttggagatctagataacatagatcattctggagttaattactccccggcattcttcttgaaattgatgatatatttcctaaacttttgtgtgtgtgtgtgcgggaacttcaaaggactcaacgagctgaaacagttgattgaagaacctttgtaccgatactttgattcatatgcgacagagtttaataatgcttacattttatcgtatggacattttctcgtgcaatatgtatgctcattattacgaaaatcctatattccttcagtaaccattgacatccttagttaaaaggatagggtatgtttgatcgatgattgggtgcttgtttatgactattttcttgagcaaagaattttgaagctaactataaaaaaggttcaacccgtattaatcatttacaaatgtttatgatgtttgtaattatttacaaaacaaaaatgctacttagcaattttagttatagtttattctctttttattttacttttttcagaaatgtgtttgcaattgtttatataatggaagtttcattttaattgctaattaaattttgtatgtttttattgcccttggtcatttattgattgtttcctgaagtatcatattcttgagcacaaatgtaactgctgtctgaattgcatatgtgtattgggttcttacctccactccttgtagtgctgcgattaaccataatttctgttcaaaatcagatataccatggagcgccctcgatttagtgatcatcttgaagcaatcaaatttatctgcaaagacttttggtcagagctattcaagaagcagattgacaatcttaaaactaatcatagggtaatgaatttaaaattcgtaccttattttgcgcttgtgacagaactgatgttacttgacttccctatatgcagggaacatttgttcttcaagataaccgtttccggtggcttactcgtgtttctatagatccatctgtagagagcatggatgcaactgacaatgactctgcaacactaggggatagcgcagcccaaacaacaagcatgcttctgtactttccatgcgggataataagaggtgccttgaccaatttgggtatttcgtgttctgtcactgcagacatgtccaaccttccagcatgtgagttgcactactccttttcatgacctttactttgcatgcaactccatgaggttgcaaaatgcactggatggtactccttctgttttcatataattattgccattagctttatttttcaaactcattaaacatggaatacctcaagggaaaaatattaaagtattttgaatgataaatgttatagtattattctttcctactaactaaaaaaattaaaatactacttgtcaaatgttgaatagtatagtcatgctcattgctgttaaaaaaggctgggccagtacttgaattaagaaaatcagatcagataatgctcaacatgagtgtctccatatgagaaattatttggtgaaaaatcttttggtgaatatgatggataagattttcattgtggatatttagtatctcagattgaataaccttatcacttgatcacacaagcatattcaaaagcactctcatgtggccatcattgatgccccaatcatcaaaaccaagcagagaattttgagaccacctgatcaggtagcaagttccagcttagctgcttaggatagatatgtcaggaagaagcagccagtatctttctagatgattttgatttcatccagatccagttcacgcagcaaacaaagtcttccatatgcaccgtatgtggcatcgacaaaaaataagtatcccacctgccattcttatggaccactggacatgcctcccttctttagcgttatttggctgcttggagcctgcttacttagtgaactgtttggggagctccttgctaagggtgcaaggggattctcttcctattcctcgactaaatcctttctgctgatctgttaaaaaaaaatagtatctatttccgtttgcctttcctagaaggttgttcaaatgtttgtagagatattcttcttgtcatggtctttttgtttctgtactctttttaatgggattttttttttcagtccacagcttatatgtattgagctgaaagagaaattcattttgttcattgaaatgtggaagtaatattcgtacaatgaatatttgaaatcccctagggggaaagggccgtaataaatataactcctccattccaaatttaaggcattttagttttgtcctaggtgaacatctctaactctgaccaagttatagaaaaatgcactaacatctaaaacatcaatttaatttcattgaaatccaccatgaaatatgtattgatagtgcattaattgggtactccatcccattaaacaaggcgcaactgctttgtacgcaaagaccaaggaagctcatgtaacttgtgagatggatgctgcagaactagaggctttaaacaaccaaaggaaaccaaagaatagctagtgcatgcatgcgcatgaacagaaattacaggagtcaagaaggtgcagctgccgttgctgccctatattctgggacttttgaaaaaagcagttgcgtctggtataatgggatggagagagtagtgtagatgttaatatagggccaatttggattgctacctaccaaaattttggtagggtagcaaaccaaacacctctattaaaacactacctttgtcataaatttggctttgcccatgaacttgtgtcttatgggtatattttagcttcaatcctaatcaacattttcaactctttaccctacaacattttggtagggtattaatacaaacacaggcccatatttttctataaacttggtcaaggtttgagaagtttgacttataacaaaactaaaatgtcttatagtagtatggaatggagggagtacatgactctaggttaaactattcgttgatgattgcagttttgagaattataacacatttctccatttgtagttttgtaccataaattccctctgccttttgcagctatgactattatgtgaaatattgcaggttcttttgttgtgcgcataaaaacatgagctgcagattttatgcctgcttgttcgatcaagcggtttgaacattaaagagtgcaagcacgcaatagcctgggaaatacgccttgtagctgctcctttttctttctctttgttcttagaggcacctctttacttactgacttcatcataccttcctttgtgcacatcttaagattgggtgtaattttgtgattcgtgtgaacaagagaagacaaaatgtaatatttctcctgagatactggctagagccatgtaattttgttgtctagcagtggagaatgttttatcttgtatgtgatgcccgcgcacagtcacgattt</dnaseqindica>
External Link(s)	NCBI Gene:Os09g0244900, RefSeq:Os09g0244900