Factsheet for Solyc08g028950.1.1

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

nucleus 2
plastid 2
cytosol 3
extracellular 2
endoplasmic reticulum 2
vacuole 2
plasma membrane 2
golgi 2

Predictors

GFP

MS/MS

Papers

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

nucleus: 28394025

msms PMID: 28394025 doi

AJM Howden, R Stam, V Martinez Heredia, GB Motion, S Ten Have, K Hodge, TM Marques Monteiro Amaro, E Huitema

Cell and Molecular Sciences, JHI, Invergowrie, Dundee, DD2 5DA, UK., Division of Plant Science, School of Life Sciences, University of Dundee at the James Hutton Institute (JHI), Invergowrie, Dundee, DD2 5DA, UK., Dundee Effector Consortium, JHI, Invergowrie, Dundee, DD2 5DA, UK., Section of Population Genetics, Technische Universität München, 85354, Freising, Germany., Wellcome Trust Centre for Gene Regulation and Expression, School of Life Sciences, University of Dundee, Dow Street, Dundee, DD1 5EH, UK.

PPI

Inferred distinct locusB in Crop

locusB	locations
Solyc06g065380.2.1
Solyc11g018610.1.1

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
ATCG00180.1	Solyc06g065380.2.1	AT4G09570.1	19130088
ATCG00180.1	Solyc11g018610.1.1	AT4G09570.1	19130088

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
Solyc01g017390.1.1	Tomato	mitochondrion	25.53	78.69
Solyc01g017460.1.1	Tomato	cytosol, endoplasmic reticulum, nucleus	14.36	52.94
Solyc01g017380.1.1	Tomato	cytosol	22.87	50.59
HORVU3Hr1G023530.1	Barley	cytosol	72.87	43.49
HORVU3Hr1G023450.1	Barley	cytosol	72.87	43.08
PGSC0003DMT400076161	Potato	cytosol	91.49	41.15
KRH75289	Soybean	cytosol	13.3	35.21
Solyc07g021220.1.1	Tomato	cytosol	30.85	34.52
Solyc12g062580.1.1	Tomato	cytosol	29.79	33.33
Solyc01g017470.1.1	Tomato	mitochondrion	25.0	33.33
ATCG00180.1	Thale cress	cytosol, mitochondrion	88.3	24.41
CAA33987	Rice	cytosol	76.06	20.97
GRMZM5G899366_P01	Maize	plastid	76.06	20.94
AGP50746	Barley	cytosol	75.53	20.82
Solyc07g021210.1.1	Tomato	cytosol, extracellular, plastid	10.11	20.0
Solyc07g039230.1.1	Tomato	cytosol	10.11	16.67
Zm00001d036307_P001	Maize	nucleus	76.6	12.77
Solyc10g031560.1.1	Tomato	nucleus	4.26	7.08
Solyc01g017370.1.1	Tomato	cytosol	1.06	1.21

Protein Annotations

KEGG:00230+2.7.7.6	KEGG:00240+2.7.7.6	Gene3D:1.10.40.90	Gene3D:2.40.40.20	MapMan:35.1	GO:GO:0000428
GO:GO:0003674	GO:GO:0003676	GO:GO:0003677	GO:GO:0003824	GO:GO:0003899	GO:GO:0005488
GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005737	GO:GO:0006139	GO:GO:0006351
GO:GO:0008150	GO:GO:0008152	GO:GO:0009058	GO:GO:0009507	GO:GO:0009536	GO:GO:0009987
GO:GO:0016740	GO:GO:0016779	UniProt:K4CJV9	PFAM:PF00623	PFAM:PF04997	PANTHER:PTHR19376
InterPro:RNA_pol_N	InterPro:RNA_pol_Rpb1_1	InterPro:RNA_pol_asu	SMART:SM00663	SUPFAM:SSF64484	EnsemblPlantsGene:Solyc08g028950.1
EnsemblPlants:Solyc08g028950.1.1	UniParc:UPI000276BE80	SEG:seg	:	:	:

Description

DNA-directed RNA polymerase subunit [Source:UniProtKB/TrEMBL;Acc:K4CJV9]

Coordinates

chr8:+:39145563..39146274

Molecular Weight (calculated)

21297.0 Da

IEP (calculated)

8.485

GRAVY (calculated)

-0.213

Length

188 amino acids

Sequence
(BLAST)

001: MVLYLLPVIP PELRPIIQID GGKLMSSDSN ELYRRVIYRN NTLTNLLTTS RSTQGELVMC QEKFVQKVVD TLLDNGIRGR PMRDGHNKFY KSFSDVIEGK
101: EGRFRETLLG VTKSKNQDKE PIVWEIVQEV MQGHPVLLNR APTLHRLGIQ AFQPVLVEGR AICLHPLVCK GFNADFDGDQ MAVHVPLS

Best Arabidopsis Sequence Match ( ATCG00180.1 )
(BLAST)

001: MIDRYKHQQL RIGLVSPQQI SAWATKIIPN GEIVGEVTKP YTFHYKTNKP EKDGLFCERI FGPIKSGICA CGNYRVIGDE KEDPKFCEQC GVEFVDSRIR
101: RYQMGYIKLT CPVTHVWYLK RLPSYIANLL DKPLKELEGL VYCDFSFARP ITKKPTFLRL RGSFEYEIQS WKYSIPLFFT TQGFDIFRNR EISTGAGAIR
201: EQLADLDLRI IIENSLVEWK QLGEEGPTGN EWEDRKIVRR KDFLVRRMEL AKHFIRTNIE PEWMVLCLLP VLPPELRPII QIEGGKLMSS DINELYRRVI
301: YRNNTLTDLL TTSRSTPGEL VMCQEKLVQE AVDTLLDNGI RGQPMRDGHN KVYKSFSDVI EGKEGRFRET LLGKRVDYSG RSVIVVGPSL SLHRCGLPRE
401: IAIELFQTFV IRGLIRQHLA SNIGVAKSQI REKKPIVWEI LQEVMQGHPV LLNRAPTLHR LGIQSFQPIL VEGRTICLHP LVCKGFNADF DGDQMAVHVP
501: LSLEAQAEAR LLMFSHMNLL SPAIGDPISV PTQDMLIGLY VLTSGTRRGI CANRYNPCNR KNYQNERIYE TNYKYTKEPF FCNSYDAIGA YRQKKINLDS
601: PLWLRWQLDQ RVIASREVPI EVHYESFGNY HEIYAHYLIV RSVKKENFCI YIRTTVGHIS FYREIEEAIQ GFSQACSYDT

Arabidopsis Description

RPOC1DNA-directed RNA polymerase subunit beta' [Source:UniProtKB/Swiss-Prot;Acc:P56763]
SUBAcon: [mitochondrion,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.