Os02g0115900 - Revision history

Xysj1980 at 02:17, 8 March 2017

2017-03-08T02:17:12Z

Xysj1980: /* Evolution */

2017-03-08T02:16:52Z

‎Evolution

Xysj1980 at 02:16, 8 March 2017

2017-03-08T02:16:15Z

192.168.72.52 at 06:24, 14 May 2015

2015-05-14T06:24:29Z

Donglaiyan665: /* References */

2014-05-28T12:41:16Z

‎References

Donglaiyan665: /* Labs working on this gene */

2014-05-28T12:39:37Z

‎Labs working on this gene

Donglaiyan665: OsBip1,also named BiP3,has functions to assist folding seed storage proteins and has effect on seed phenotype,seed starch and protein accumulation

2014-05-28T12:35:14Z

OsBip1,also named BiP3,has functions to assist folding seed storage proteins and has effect on seed phenotype,seed starch and protein accumulation

Donglaiyan665: /* Annotated Information */

2014-05-28T12:15:36Z

‎Annotated Information

Donglaiyan665: /* Annotated Information */

2014-05-28T09:00:04Z

‎Annotated Information

124.16.129.48 at 19:07, 22 July 2012

2012-07-22T19:07:32Z

@@ Line 9: / Line 9: @@
 * The accumulation process is mediated by ER chaperones such as luminal binding protein (BiP) and protein disulfi de isomerase (PDI)
 * The PB-like structure ('''''BiP''''') may be formed in the ER lumen, resulting in inhibition of translation, folding and transport of seed proteins.
 ===Phenotypic analysis===

@@ Line 17: / Line 17: @@
 ===Evolution===
-.BiP is one of the major ER chaperones and belongs to the heat shock protein 70 (HSP70) family.Rice BiP3 (OsBiP3) shows the greatest similarity to ArabidopsisBiP1 and BiP2 with 89.2% and 89.3% identity.
+* BiP is one of the major ER chaperones and belongs to the heat shock protein 70 (HSP70) family.Rice BiP3 (OsBiP3) shows the greatest similarity to ArabidopsisBiP1 and BiP2 with 89.2% and 89.3% identity.
-.BiP with an ATPase domain at its N-terminus and a protein-binding domain at its C-terminus allows BiP to cycle between ATP hydrolysis and ADP exchange, and it is coupled to binding and release of the unfolded protein.
+* BiP with an ATPase domain at its N-terminus and a protein-binding domain at its C-terminus allows BiP to cycle between ATP hydrolysis and ADP exchange, and it is coupled to binding and release of the unfolded protein.
-.BiP protein has a KDEL ER retention signal at the C-terminus and is retained in the ER lumen. BiP interacts with nascent immature secretory proteins synthesized from membrane-bound polysomes on the ER,and assists in protein folding in concert with other chaperones and folding helpers such as calnexin and protein disulfide isomerase-like proteins in the ER lumen. BiP not only participates in assistence of protein folding but also take part in the protein degradation process known as ER-associated degradation.
+* BiP protein has a KDEL ER retention signal at the C-terminus and is retained in the ER lumen.
 ==Labs working on this gene==

@@ Line 1: / Line 1: @@
-OsBip1,also named BiP3,has functions to assist folding seed storage proteins and has effect on seed phenotype,seed starch and protein accumulation
+The rice '''''Os02g0115900''''' was reported as '''''BiP''''' in 2009 <ref name="ref1" /> by researchers from Japan.
 ==Annotated Information==
 ===Function===
-Binding protein (BiP) is enssential in folding of secretory proteins. Bip has a function in folding seed storage proteins in the ER lumen. ''OsBip1'' reported by Park and his colleagues and ''BiP3'' reported by Wakasa,Yasuda,et al are the same gene.
+* Seed storage proteins are specifi cally and highly synthesized during seed maturation and are deposited into protein bodies (PBs) via the endoplasmic reticulum (ER) lumen.
-In rice overpressing BiP1 , XA21-mediated immunity is compromised, XA21 stability is significantly decreased, and XA21 proteolytic cleavage is inhibited. Meanwhile,Wakasa,Yasuda, et al believe that severe suppression (BiP1 KD) or significant over-expression (BiP1 OEmax) of BiP1 can alter seed phenotype and the intracellular structure of endosperm cells and reduce seed storage protein content, starch accumulation and grain weight.
+* The accumulation process is mediated by ER chaperones such as luminal binding protein (BiP) and protein disulfi de isomerase (PDI)
-===Expression===
+===Phenotypic analysis===
-. Researchers conclude that the peptides from the 140 kDa proteins can match XA21 from the N-terminal LRR region to the C-terminal kinase domain.However,the peptides from the 110 kDa protein match the LRR, but not the kinase domain.
+* The seed phenotype of the PDI-overexpressing transformant was almost identical to that of the wild type, whereas overexpression of '''''BiP''''' resulted in transgenic rice seed that displayed an opaque phenotype with fl oury and shrunken features.
-.Gene BiP3,predicted to encode a 666 amino acid protein with a molecular mass of 73.4 kDa ,has a 1,998 bp open reading frame which consists of 7 introns and 8 exons.In overall structure,BiP3 is similar to other known HSP70s in plants and animals.It has an approximately 45 kDa domain at the N-terminus that is predicted to have ATPase activity and a domain of approximately 25 kDa at the C-terminus having a predicted substrate-binding domain.
+* In the BiP-overexpressing line, the levels of accumulation of seed storage proteins and starch contents were signifi cantly lower compared with the wild type.
 ===Evolution===
@@ Line 14: / Line 20: @@
 .BiP with an ATPase domain at its N-terminus and a protein-binding domain at its C-terminus allows BiP to cycle between ATP hydrolysis and ADP exchange, and it is coupled to binding and release of the unfolded protein.
 .BiP protein has a KDEL ER retention signal at the C-terminus and is retained in the ER lumen. BiP interacts with nascent immature secretory proteins synthesized from membrane-bound polysomes on the ER,and assists in protein folding in concert with other chaperones and folding helpers such as calnexin and protein disulfide isomerase-like proteins in the ER lumen. BiP not only participates in assistence of protein folding but also take part in the protein degradation process known as ER-associated degradation.
 ==Labs working on this gene==
-Transgenic Crop Research and Development Center, National Institute of Agrobiological Sciences;
+* Transgenic Crop Research and Development Center, National Institute of Agrobiological Sciences, Kannondai 2-1-2, Tsukuba, Ibaraki, 305-8602 Japan
-Department of Plant Pathology, University of California Davis
+* Research Team for Crop Cold Tolerance, National Agricultural Research Center for Hokkaido region, Hitsujigaoka 1, Toyohira-ku, Sapporo,Hokkaido, 062-8555 Japan
 ==References==
-.Chang-Jin Park; Rebecca Bart; Mawsheng Chern; Patrick E. Canlas; Wei Bai; Pamela C. Ronald.Overexpression of the Endoplasmic Reticulum Chaperone BiP3 Regulates XA21-Mediated Innate Immunity in Rice.PLoS ONE, 2010, 5(2): e9262.
+<references>
-.Yuhya Wakasa; Hiroshi Yasuda; Youko Oono; Taiji Kawakatsu; Sakiko Hirose; Hideyuki Takahashi; Shimpei Hayashi; Lijun Yang; Fumio Takaiwa.Expression of ER quality control-related genes in response to changes in BiP1 levels in developing rice endosperm.The Plant Journal, 2011, 65(5): 675-689.
+</ref>
 ==Structured Information==
       [[Category:Genes]][[Category:Oryza Sativa Japonica Group]][[Category:Japonica Chromosome 2]]

← Older revision		Revision as of 06:24, 14 May 2015
Line 26:		Line 26:

	==Structured Information==		==Structured Information==
−	~~{{JaponicaGene\|~~	+	[[Category:Genes]][[Category:Oryza Sativa Japonica Group]][[Category:Japonica Chromosome 2]]
−	~~GeneName = Os02g0115900\|~~
−	~~Description = Endosperm lumenal binding protein\|~~
−	~~Version = NM_001052210.1 GI:115443790 GeneID:4328075\|~~
−	~~Length = 3896 bp\|~~
−	~~Definition = Oryza sativa Japonica Group Os02g0115900, 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 = [[:category:Japonica Chromosome 2\|Chromosome 2]]\|~~
−	~~AP = Chromosome 2:838743..842638\|~~
−	~~CDS = 839048..839552,839638..839720,839828..839982,840078..840557,840855..841097<br>,841189..841403,841489..841756,842477..842525\|~~
−	~~GCID = <gbrowseImage1>~~
−	~~name=NC_008395:838743..842638~~
−	~~source=RiceChromosome02~~
−	~~preset=GeneLocation~~
−	~~</gbrowseImage1>\|~~
−	~~GSID = <gbrowseImage2>~~
−	~~name=NC_008395:838743..842638~~
−	~~source=RiceChromosome02~~
−	~~preset=GeneLocation~~
−	~~</gbrowseImage2>\|~~
−	CDNA = <cdnaseq>atggatcgggttcgcggatgcgcgttcctgctcggcgtcctgctcgcaggatccctgtttgcattttctgttgcgaaggaggagaccaagaagctcggtaccgtgatcggtattgatcttggtacaacctactcgtgtgtcggtgtgtacaagaatggtcatgtcgagattatcgccaatgaccagggtaaccgtatcacaccctcatgggttgcattcaccgatagcgagaggctcatcggtgaggctgccaagaaccaggcagctgtgaacccagagaggaccatcttcgatgtcaaacgtctcattggaagaaagtttgaagacaaggaagttcagagggacatgaaacttgtcccctacaagattgtgaacaaggacggtaagccctacattcaggtcaagatcaaggatggagagaacaaggtcttcagccctgaggaggtcagtgctatgatccttggaaagatgaaggagactgctgaggcataccttggcaagaagatcaacgatgctgtcgtgactgttcctgcgtacttcaatgacgcgcagaggcaggcaaccaaggatgccggtgtcattgctggcctgaatgttgctaggatcatcaatgagccaactgctgctgctattgcgtacggtttggacaagaagggtggtgagaagaacatccttgtctttgaccttggtggtgggacattcgatgtcagtatcttgaccattgacaacggtgtgtttgaggtgttggccaccaatggtgacactcatcttggaggtgaggactttgaccagagaatcatggagtacttcatcaagttgatcaagaagaagtacagcaaggacatcagcaaggacaaccgtgctcttggaaagctgaggagggaagctgagcgtgccaagagggccctcagcaaccagcaccaggtccgtgttgagattgagtccctctttgacgggaccgatttctcggagccgctgacccgtgccagatttgaggagttgaacaatgatctgttccgcaagaccatgggacctgtcaagaaggctatggacgatgctggccttgagaagagccagattcatgagattgttcttgtcggtggtagcaccaggattcccaaggttcagcagctcctcagagactacttcgagggcaaggagcccaacaagggtgtcaaccctgatgaggctgttgcctatggtgctgcggttcagggaagcattctcagcggcgagggcggtgacgaaaccaaagatatccttctcctggatgtggcaccccttaccctcggtatcgagactgtcggtggagtcatgaccaagttgatccccaggaacaccgtcatccccaccaagaagtcccaggtgttcaccacctaccaggatcagcagacaaccgtctccatccaggtctttgagggtgagcgcagcatgaccaaggactgccgtcttctcggcaagttcgacctatctggcattccagcagcaccaaggggcaccccccagattgaggtgaccttcgaggtggacgccaacggcatcctgaacgtgaaggctgaggacaagggcaccggcaagtcggagaagatcacgatcacgaacgagaaggggcgcctgagccaggaggagatcgaccggatggtgcgcgaggcggaggagtttgcggaggaggacaagaaggtgaaggagcggatcgacgcccgcaaccagctcgagacctacgtgtacaacatgaagaacaccgtcggcgacaaggacaagctggcggacaagctggagagcgaggagaaggagaaggtggaggaggccctcaaggaggccctcgagtggctggacgagaaccagaccgccgagaaggaggagtacgaggagaagctcaaggaggtcgaggccgtctgcaaccccatcatctccgccgtctaccagaggaccggtggcgccccgggtggcggcgccgacggcgagggcggcgtcgacgacgagcatgacgagctgtag</cdnaseq>\|
−	AA = <aaseq>MDRVRGCAFLLGVLLAGSLFAFSVAKEETKKLGTVIGIDLGTTY SCVGVYKNGHVEIIANDQGNRITPSWVAFTDSERLIGEAAKNQAAVNPERTIFDVKRL IGRKFEDKEVQRDMKLVPYKIVNKDGKPYIQVKIKDGENKVFSPEEVSAMILGKMKET AEAYLGKKINDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKK GGEKNILVFDLGGGTFDVSILTIDNGVFEVLATNGDTHLGGEDFDQRIMEYFIKLIKK KYSKDISKDNRALGKLRREAERAKRALSNQHQVRVEIESLFDGTDFSEPLTRARFEEL NNDLFRKTMGPVKKAMDDAGLEKSQIHEIVLVGGSTRIPKVQQLLRDYFEGKEPNKGV NPDEAVAYGAAVQGSILSGEGGDETKDILLLDVAPLTLGIETVGGVMTKLIPRNTVIP TKKSQVFTTYQDQQTTVSIQVFEGERSMTKDCRLLGKFDLSGIPAAPRGTPQIEVTFE VDANGILNVKAEDKGTGKSEKITITNEKGRLSQEEIDRMVREAEEFAEEDKKVKERID ARNQLETYVYNMKNTVGDKDKLADKLESEEKEKVEEALKEALEWLDENQTAEKEEYEE KLKEVEAVCNPIISAVYQRTGGAPGGGADGEGGVDDEHDEL</aaseq>\|
−	DNA = <dnaseqindica>3087..3591#2919..3001#2657..2811#2082..2561#1542..1784#1236..1450#883..1150#114..162#acttgaaggttttcggatcgcaacccaaactcgcacaagggagaagagaagagaagcttcgagagagaggtggaggaggagacgagcgcgtggtggtggtggtgttggcggcgatggatcgggttcgcggatgcgcgttcctgctcggcgtcctgctcgcaggtgcgatctccccgttcctcgtttggatctgtgcttgcgcgcgcttagatttgtctatttgatgttgtgctggagttcgatctaagatgggctgtgaatgttcgttccactggatcacggatccgggagtagtttttttttttctcaacgagatggtccggtaaatggttttagagtgacactgatggatcgtatggatcgtggtagttagttaggagatatttgatatttgttttttttgtactacttcacaaattgaggtgcgattaaacttagatgccaccaataggtgaaggcggcgagtctggcgactccaagaaatatgtgatctggggtttatttatgatttatcctagtagtgctcagtgattttgttggaattcgtttgttagatactggtttaattgcagtgatgccatgatctgtcctgtgcattggtagcggtagagtttttaccttcacaattatgctgaatatgctagtagtaaaatatttctagggcaacactgaatagtttagaggcgcaaaatgtgctagaatggcatgaatgaaacgggctgcctagattttcaccttagaaacttacttggtctcataattcatgttactgttttaaaatcacatgaattatatgcctgtgtatatgtgtgccaatacacgataaatggtgaattgatagaacatgtagcttacatactgccactgctcctctgtttgcaggatccctgtttgcattttctgttgcgaaggaggagaccaagaagctcggtaccgtgatcggtattgatcttggtacaacctactcgtgtgtcggtgtgtacaagaatggtcatgtcgagattatcgccaatgaccagggtaaccgtatcacaccctcatgggttgcattcaccgatagcgagaggctcatcggtgaggctgccaagaaccaggcagctgtgaacccagagaggaccatcttcgatgtcaaacgtctcattggaagaaagtaatggcactttaccctatgctcgctcttatttcctgttgttgatcactgctgcctgatctgacctgtataattattcttgcaggtttgaagacaaggaagttcagagggacatgaaacttgtcccctacaagattgtgaacaaggacggtaagccctacattcaggtcaagatcaaggatggagagaacaaggtcttcagccctgaggaggtcagtgctatgatccttggaaagatgaaggagactgctgaggcataccttggcaagaagatcaacgatgctgtcgtgactgttcctggttagtaatgacaagacattcatgtgcttagttaactcaagcggtgattctgtggaagccattgctcacttctgctctttcatgttttcagcgtacttcaatgacgcgcagaggcaggcaaccaaggatgccggtgtcattgctggcctgaatgttgctaggatcatcaatgagccaactgctgctgctattgcgtacggtttggacaagaagggtggtgagaagaacatccttgtctttgaccttggtggtgggacattcgatgtcagtatcttgaccattgacaacggtgtgtttgaggtgttggccaccaatggtgacactcatcttggaggtatgactgcttttatttgcccttaggtactaaatatctgcttctgtacaacatcacagttgtagagtactgtagtttgattcaatgattttcatgcaacacatcatggtaaattggttatcttatacctgcacattctcattagacttttcagtaaaggcacgctgtcttttagaagattggcactattcatttgcttttaaactaatgacatgccttttgtagttagttggtcgtcttgattatctggatagtgcactgtgattcatatttgactgaactgtctcatctcttcaggtgaggactttgaccagagaatcatggagtacttcatcaagttgatcaagaagaagtacagcaaggacatcagcaaggacaaccgtgctcttggaaagctgaggagggaagctgagcgtgccaagagggccctcagcaaccagcaccaggtccgtgttgagattgagtccctctttgacgggaccgatttctcggagccgctgacccgtgccagatttgaggagttgaacaatgatctgttccgcaagaccatgggacctgtcaagaaggctatggacgatgctggccttgagaagagccagattcatgagattgttcttgtcggtggtagcaccaggattcccaaggttcagcagctcctcagagactacttcgagggcaaggagcccaacaagggtgtcaaccctgatgaggctgttgcctatggtgctgcggttcagggaagcattctcagcggcgagggcggtgacgaaaccaaaggttcgaccttgatcacatacatagtcctttgggttggtaacaactgcgatcatctgtcttgcatatacttatcgtgctttgattttggtacgcagatatccttctcctggatgtggcaccccttaccctcggtatcgagactgtcggtggagtcatgaccaagttgatccccaggaacaccgtcatccccaccaagaagtcccaggtgttcaccacctaccaggatcagcagacaaccgtctccatccaggtaacagacataagcaaactttcttctttgagtcctgacattacatcctggtcagaaaatttcagctcagaccacctaacgcctctgaatctcgccttgtggtgtaggtctttgagggtgagcgcagcatgaccaaggactgccgtcttctcggcaagttcgacctatctggcattccagcagcaccaaggtttgctcatgtccagaaaaaaatgttagcttactcaaatggataaatgaatccagcgcctgatatctgttggttaaacttgcaggggcaccccccagattgaggtgaccttcgaggtggacgccaacggcatcctgaacgtgaaggctgaggacaagggcaccggcaagtcggagaagatcacgatcacgaacgagaaggggcgcctgagccaggaggagatcgaccggatggtgcgcgaggcggaggagtttgcggaggaggacaagaaggtgaaggagcggatcgacgcccgcaaccagctcgagacctacgtgtacaacatgaagaacaccgtcggcgacaaggacaagctggcggacaagctggagagcgaggagaaggagaaggtggaggaggccctcaaggaggccctcgagtggctggacgagaaccagaccgccgagaaggaggagtacgaggagaagctcaaggaggtcgaggccgtctgcaaccccatcatctccgccgtctaccagaggaccggtggcgccccgggtggcggcgccgacggcgagggcggcgtcgacgacgagcatgacgagctgtagatgatgatgatgatgatctgattcgattgattcaaaggagacagccaatttttgtaagagatggccggttacttttagtggggtgacttactactaccttgggttggggtttaggggtagcaagaggggagagttttatttgcagaacaccagaaaagagactaaatctctcctcttgttacttgtgttgctctcttagtttgttactctgtcgagtgtagaacagctcttccttttgctacttccttctgatttccatgtgaactgtgaagaagaagaagaaacataagtaaattttaattact</dnaseqindica>\|
−	~~Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001052210.1 RefSeq:Os02g0115900]\|~~
−	}}
−	[[Category:Genes]]
−	~~[[Category:Japonica mRNA]]~~
−	[[Category:Oryza Sativa Japonica Group]]
−	[[Category:Japonica ~~Genes]]~~
−	~~[[Category:Japonica Chromosome 2]]~~
−	~~[[Category:~~Chromosome 2]]

@@ Line 22: / Line 22: @@
 ==References==
 .Chang-Jin Park; Rebecca Bart; Mawsheng Chern; Patrick E. Canlas; Wei Bai; Pamela C. Ronald.Overexpression of the Endoplasmic Reticulum Chaperone BiP3 Regulates XA21-Mediated Innate Immunity in Rice.PLoS ONE, 2010, 5(2): e9262.
 .Yuhya Wakasa; Hiroshi Yasuda; Youko Oono; Taiji Kawakatsu; Sakiko Hirose; Hideyuki Takahashi; Shimpei Hayashi; Lijun Yang; Fumio Takaiwa.Expression of ER quality control-related genes in response to changes in BiP1 levels in developing rice endosperm.The Plant Journal, 2011, 65(5): 675-689.

← Older revision		Revision as of 19:07, 22 July 2012
Line 1:		Line 1:
		+	Please input one-sentence summary here.
		+
		+	==Annotated Information==
		+	===Function===
		+	Please input function information here.
		+
		+	===Expression===
		+	Please input expression information here.
		+
		+	===Evolution===
		+	Please input evolution information here.
		+
		+	You can also add sub-section(s) at will.
		+
		+	==Labs working on this gene==
		+	Please input related labs here.
		+
		+	==References==
		+	Please input cited references here.
		+
		+	==Structured Information==
	{{JaponicaGene\|		{{JaponicaGene\|
	GeneName = Os02g0115900\|		GeneName = Os02g0115900\|