Factsheet for PGSC0003DMT400078978

Subcellular Localization

min:

: max

Winner_takes_all: cytosol

Predictor Summary:

cytosol 4
nucleus 2
mitochondrion 1

Predictors

GFP

MS/MS

Papers

Winner Takes All:	cytosol
Any Predictor:	cytosol, mitochondrion, nucleus
BaCelLo:	cytosol
EpiLoc:	cytosol
MultiLoc:	cytosol
Plant-mPloc:	nucleus
PProwler:	mitochondrion
WoLF PSORT:	cytosol
YLoc:	nucleus

cytosol: 22313117
extracellular: 28248230

msms PMID: 28248230 doi

E Elagamey, K Narula, A Sinha, PR Aggarwal, S Ghosh, N Chakraborty, S Chakraborty

National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. aggarwal.pooja28@yahoo.com., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. arunima35@gmail.com., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. gayatrinarula@gmail.com., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. nchakraborty@nipgr.ac.in., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. schakraborty@nipgr.ac.in., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. sgblackpearl@gmail.com., National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India. subhrac@hotmail.com.

msms PMID: 22313117 doi

S Lim, K Chisholm, RH Coffin, RD Peters, KI Al-Mughrabi, G Wang-Pruski, DM Pinto

Department of Plant and Animal Sciences, Nova Scotia Agricultural College, Truro, Nova Scotia, Canada.

PPI

No PPI Data

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
Solyc07g007210.2.1	Tomato	nucleus	93.21	99.46
CDY70689	Canola	cytosol	49.54	90.39
VIT_11s0118g00720.t01	Wine grape	nucleus	90.48	90.38
CDY71233	Canola	mitochondrion, nucleus	50.96	90.14
KRH03566	Soybean	nucleus	87.74	87.65
KRH20245	Soybean	nucleus	87.44	87.53
CDY15566	Canola	cytosol	72.75	86.19
Bra030642.1-P	Field mustard	cytosol	84.8	84.8
Bra024798.1-P	Field mustard	cytosol	84.4	84.65
GSMUA_Achr4P09280_001	Banana	cytosol, nucleus, plastid	82.98	84.35
AT1G06220.2	Thale cress	cytosol	83.99	83.99
CDY09982	Canola	nucleus	84.09	83.92
AT5G25230.1	Thale cress	cytosol	80.95	82.12
EER90029	Sorghum	cytosol	79.84	79.2
Zm00001d046549_P002	Maize	cytosol	78.42	79.06
Os06t0608300-01	Rice	nucleus	79.23	78.44
TraesCS7A01G380300.1	Wheat	nucleus	78.82	78.27
TraesCS7D01G376800.1	Wheat	cytosol	78.82	78.27
TraesCS7B01G282300.1	Wheat	cytosol	78.72	78.17
HORVU7Hr1G090710.6	Barley	plastid	76.7	76.46
CDY69302	Canola	cytosol	24.52	75.86
PGSC0003DMT400007735	Potato	cytosol	26.34	25.42
PGSC0003DMT400012076	Potato	cytosol, plastid	16.62	20.84
PGSC0003DMT400066962	Potato	mitochondrion	15.4	20.0
PGSC0003DMT400024321	Potato	mitochondrion	12.56	18.62
PGSC0003DMT400034344	Potato	mitochondrion	10.74	16.09
PGSC0003DMT400070154	Potato	plastid	10.64	15.4

Protein Annotations

EntrezGene:102588627	MapMan:16.4.1.4.2	Gene3D:2.40.30.10	Gene3D:3.30.230.10	Gene3D:3.30.70.240	Gene3D:3.30.70.870
Gene3D:3.40.50.300	Gene3D:3.90.1430.10	InterPro:EFG_III/V	InterPro:EFG_V-like	InterPro:EFTUD2_N	InterPro:EFTu-like_2
GO:GO:0000166	GO:GO:0003674	GO:GO:0003824	GO:GO:0003924	GO:GO:0005488	GO:GO:0005525
GO:GO:0016787	InterPro:IPR000795	InterPro:IPR014721	UniProt:M1D118	InterPro:P-loop_NTPase	PFAM:PF00009
PFAM:PF00679	PFAM:PF03144	PFAM:PF03764	PFAM:PF16004	EnsemblPlantsGene:PGSC0003DMG400030733	PGSC:PGSC0003DMG400030733
EnsemblPlants:PGSC0003DMT400078978	PRINTS:PR00315	PFscan:PS51722	PANTHER:PTHR42908	PANTHER:PTHR42908:SF6	InterPro:Ribosomal_S5_D2-typ_fold
InterPro:Ribosomal_S5_D2-typ_fold_subgr	SMART:SM00838	SMART:SM00889	SUPFAM:SSF50447	SUPFAM:SSF52540	SUPFAM:SSF54211
SUPFAM:SSF54980	InterPro:Small_GTP-bd_dom	InterPro:TF_GTP-bd_dom	TIGRFAMs:TIGR00231	InterPro:Transl_B-barrel_sf	InterPro:Transl_elong_EFG/EF2_IV
InterPro:U5-116kDa_C	UniParc:UPI0002948B45	RefSeq:XP_006359523.1	RefSeq:XP_006359524.1	SEG:seg	:

Description

116 kD U5 small nuclear ribonucleoprotein component [Source:PGSC_GENE;Acc:PGSC0003DMG400030733]

Coordinates

chr7:+:3145180..3151531

Molecular Weight (calculated)

110452.0 Da

IEP (calculated)

4.760

GRAVY (calculated)

-0.207

Length

987 amino acids

Sequence
(BLAST)

001: MDDSLYDEFG NYIGPEIESD QESDREEEDD ELPDRSDDER VASDGEQPGA SNGWLATQDD IDMDNQVILA EDKKYYPTAE EVYGEEVETL VMDEDEQPLE
101: MPIIKPVKNL KFELGVKDSS TYVSTQFLLG LMSNPALVRN VALVGHIHHG KTLFMDMLVE QTHHISTFDQ NSEKHMRYTD TRIDEQERRI SIKSVPMSLV
201: LEDSNSKSYL CNIMDAPGHV NFSDEMSAAL RLADGAVLIV DAVEGVMVNT ERAIRHAILE RIPIVLVINK VDRLITELKL PPKDAYFKLK HIVETVNNQI
301: TAASSTAGNA QVIDPVLGNV CFASATAGWS FTLQSFAKLY VKLHGIAFDA NKFASRLWGD FYFDPDTRSF KKKPPASGVE RSFVQFVLEP LYKIYSQVIG
401: EHKKSVEATL AELGVTLSNA AYRLNVRPLL RLACSAVFGT ATGFTDMLVH HIPSAKAAAA RKVEHIYTGP KDSAIYKAME NCDSAGPLMV NVTKLYPKPD
501: CSVFDAFGRV YSGEIMTGQT VRVLGEGYSP DDEEDMTVKE VTKLWVYQAR YRIPISKAPP GAWVLIEGVD ASIMKTATLC NLEFDEDVYI FRPLQFNTLS
601: VVKTATEPLN PSELPKMVEG LRKISKSYPL AITKVEESGE HTILGTGELY LDSIMKDLRE LYSEVEVKVA DPVVSFCETV VESSSMKCFA ETPNKKNKIT
701: MIAEPLERGL AEDIENGVVS IDWPRKKLGE FFQTKYDWDL LAARSIWAFG PDKQGPNILL DDTLSSEVDK SLLNAVKDSI VQGFQWGARE GPLCDEPIRN
801: VKFKIVDAKI APEPLHRGTG QIIPTARRVA YSAFLMATPR LMEPVYYVEI QTPMDCLSAI YTVLSRRRGH VTADVPQPGT PAYIVKAFLP VIESFGFETD
901: LRYHTQGQAF CLSVFDHWAI VPGDPLDKSI VLRPLEPAPI QHLAREFMVK TRRRKGMSED VSINKFFDEA MMVELAQQDA DLHLQMM

Best Arabidopsis Sequence Match ( AT1G06220.2 )
(BLAST)

001: MESSLYDEFG NYVGPEIESD RDSDDEVEDE DLQDKHLEEN GSDGEQGPGG SNGWITTIND VEMENQIVLP EDKKYYPTAE EVYGEDVETL VMDEDEQPLE
101: QPIIKPVRDI RFEVGVKDQA TYVSTQFLIG LMSNPALVRN VALVGHLQHG KTVFMDMLVE QTHHMSTFNA KNEKHMKYTD TRVDEQERNI SIKAVPMSLV
201: LEDSRSKSYL CNIMDTPGHV NFSDEMTASL RLADGAVLIV DAAEGVMVNT ERAIRHAIQD HLPIVVVINK VDRLITELKL PPRDAYYKLR HTIEVINNHI
301: SAASTTAGDL PLIDPAAGNV CFASGTAGWS FTLQSFAKMY AKLHGVAMDV DKFASRLWGD VYYHSDTRVF KRSPPVGGGE RAFVQFILEP LYKIYSQVIG
401: EHKKSVETTL AELGVTLSNS AYKLNVRPLL RLACSSVFGS ASGFTDMLVK HIPSPREAAA RKVDHSYTGT KDSPIYESMV ECDPSGPLMV NVTKLYPKSD
501: TSVFDVFGRV YSGRLQTGQS VRVLGEGYSP EDEEDMTIKE VTKLWIYQAR YRIPVSSAPP GSWVLIEGVD ASIMKTATLC NASYDEDVYI FRALQFNTLP
601: VVKTATEPLN PSELPKMVEG LRKISKSYPL AITKVEESGE HTILGTGELY LDSIMKDLRE LYSEVEVKVA DPVVSFCETV VESSSMKCFA ETPNKKNKIT
701: MIAEPLDRGL AEDIENGVVS IDWNRKQLGD FFRTKYDWDL LAARSIWAFG PDKQGPNILL DDTLPTEVDR NLMMAVKDSI VQGFQWGARE GPLCDEPIRN
801: VKFKIVDARI APEPLHRGSG QMIPTARRVA YSAFLMATPR LMEPVYYVEI QTPIDCVTAI YTVLSRRRGH VTSDVPQPGT PAYIVKAFLP VIESFGFETD
901: LRYHTQGQAF CLSVFDHWAI VPGDPLDKAI QLRPLEPAPI QHLAREFMVK TRRRKGMSED VSGNKFFDEA MMVELAQQTG DLHLQMI

Arabidopsis Description

CLO110 kDa U5 small nuclear ribonucleoprotein component CLO [Source:UniProtKB/Swiss-Prot;Acc:Q9LNC5]
SUBAcon: [cytosol]

Hydropathy Plot

About CropPAL

The Protein Annotated Locations Database (CropPAL) houses large scale proteomic and GFP localization data from published experimental studies in Soybean (Glycine max), Maize (Zea mays), Wheat (Triticum aestivum), Barley (Hordeum vulgare), Rice (Oryza sativa), Field mustard (Brassica rapa), Canola (Brassica napus), Sorghum (Sorghum bicolor), Potato (Solanum tuberosum), Tomato (Solanum lycopersicum), Banana (Musa acuminata) and Wine grape (Vitis vinifera) as well as precomputed predictions for protein subcellular localizations using protein sequences.