Factsheet for Solyc03g025540.2.1

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

nucleus 4
plastid 1
cytosol 2
mitochondrion 1

Predictors

GFP

MS/MS

Papers

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
Solyc02g021760.2.1
Solyc02g070240.2.1
Solyc03g007100.2.1
Solyc03g025540.2.1
Solyc04g008030.1.1
Solyc09g005330.2.1
Solyc09g005340.2.1
Solyc12g038540.1.1

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT5G23880.1	Solyc02g021760.2.1	AT1G30460.1	16897494
AT5G23880.1	Solyc02g070240.2.1	AT1G30460.1	16897494
AT5G23880.1	Solyc02g021760.2.1	AT1G30460.1	18479511
AT5G23880.1	Solyc02g070240.2.1	AT1G30460.1	18479511
AT5G23880.1	Solyc04g008030.1.1	AT2G01730.1	16897494
AT5G23880.1	Solyc04g008030.1.1	AT2G01730.1	18479511
AT5G23880.1	Solyc09g005330.2.1	AT5G01400.1	17008405
AT5G23880.1	Solyc09g005340.2.1	AT5G01400.1	17008405
AT5G23880.1	Solyc03g025540.2.1	AT5G23880.1	16897494
AT5G23880.1	Solyc03g007100.2.1	AT5G51660.1	16897494
AT5G23880.1	Solyc03g007100.2.1	AT5G51660.1	17008405
AT5G23880.1	Solyc03g007100.2.1	AT5G51660.1	18479511
AT5G23880.1	Solyc12g038540.1.1	AT5G60940.1	18479511

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
VIT_16s0050g00590.t01	Wine grape	cytosol	81.19	81.08
KRH08941	Soybean	cytosol, nucleus	79.57	79.67
KRH38460	Soybean	cytosol	79.57	79.57
AT5G23880.1	Thale cress	cytosol	77.0	77.0
KRH30256	Soybean	cytosol	69.82	76.33
Bra009712.1-P	Field mustard	cytosol	75.78	75.78
CDX80392	Canola	cytosol	75.64	75.64
CDX88053	Canola	cytosol	75.51	75.51
GSMUA_Achr1P15280_001	Banana	cytosol	74.42	74.83
Os09t0569400-01	Rice	cytosol	70.91	71.0
EER93127	Sorghum	cytosol	70.64	70.73
TraesCS5D01G464200.1	Wheat	cytosol	69.96	70.05
TraesCS5B01G462500.2	Wheat	cytosol	69.96	69.96
TraesCS5A01G453700.5	Wheat	cytosol	69.69	69.69
Zm00001d044552_P006	Maize	cytosol, plasma membrane	69.55	67.1
KRH30262	Soybean	cytosol	50.07	66.43
HORVU5Hr1G109220.1	Barley	plastid	70.77	66.37
Solyc07g049480.2.1	Tomato	nucleus	17.73	17.92
Solyc04g008030.1.1	Tomato	cytosol	14.48	16.49

Protein Annotations

MapMan:16.2.1.2.2	Gene3D:3.60.15.10	InterPro:Beta_Casp	InterPro:CPSF2	InterPro:CPSF2_MBL	ncoils:Coil
InterPro:Cpsf2_C	GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0005488	GO:GO:0005575
GO:GO:0005622	GO:GO:0005623	GO:GO:0005634	GO:GO:0005654	GO:GO:0005737	GO:GO:0005847
GO:GO:0006139	GO:GO:0006378	GO:GO:0006379	GO:GO:0006397	GO:GO:0008150	GO:GO:0008152
GO:GO:0009506	GO:GO:0009987	GO:GO:0035194	GO:GO:0040029	InterPro:IPR036866	UniProt:K4BF27
InterPro:Metallo-B-lactamas	PFAM:PF07521	PFAM:PF10996	PFAM:PF13299	PFAM:PF16661	PANTHER:PTHR11203
PANTHER:PTHR11203:SF5	InterPro:RMMBL	InterPro:RibonucZ/Hydroxyglut_hydro	SMART:SM00849	SMART:SM01027	SUPFAM:SSF56281
EnsemblPlantsGene:Solyc03g025540.2	EnsemblPlants:Solyc03g025540.2.1	UniParc:UPI0002768C97	SEG:seg	:	:

Description

Cleavage and polyadenylation specificity factor subunit 2 [Source:Projected from Arabidopsis thaliana (AT5G23880) UniProtKB/Swiss-Prot;Acc:Q9LKF9]

Coordinates

chr3:-:2922278..2941429

Molecular Weight (calculated)

82026.6 Da

IEP (calculated)

4.785

GRAVY (calculated)

-0.147

Length

739 amino acids

Sequence
(BLAST)

001: MGTSVQVTPL CGVYNENPLS YLVSIDGFNF LVDCGWNDHF DTSLLQPLSR VASTVDAVLI SHSDTFHLGA LPYAMKQLGL SAPIYATEPV YRLGLLTMYD
101: QYLSRKQVSE FDLFTLDDID SAFQNVTRLT YSQNHYMSGK GEGIVIAPLV AGHLLGGTTW RITKDGEDVI YAVDFNHRKE RHLNGTVLES FVRPAVLITD
201: AFNALNNQPP RRQRDQEFLD AIERTLNVGG NVLLPVDTAG RVLELILTLE QHWTQKQLST PIYFLSYVSS STIDYVKSFL EWMSDSIAKS FEHTRDNAFL
301: LRKIKLVINK SALEEAPGPK VVMASMASLE AGFSHDLFVE WAADPKNLVM FTERGQFGTL ARILQSDPPP KAVKVTMSRR IPLVGEELAA YEEEQNRIKR
401: EEALKATLVK EEESKASVGA EVVTDDPMAV DTNVTHPSSN ASGLHSGAFK DVLIDGFVTT SSSIAPMFPF YDNTSEWDDF GEVINPDDYV VKDDNMEQSF
501: MHVDGDLNGK LDEGSANLIL DTTPSKVESS ELTVQVKCSL LYMDFEGRSD GRSIKSILAH VAPLKLVLVH GSAEATEHLK QHCLKHVCPQ VYAPQLEETI
601: DVTSDLCAYK VQLSEKLMSQ VLFKKLGDYE IAWVDAEVGK TENDMFSLLP LSGPSPPHKT VLVGDLKMSD FKQFLASKGV QVEFGGGALR CGEYVTIRKV
701: GDASQKVGGA AIQQIVLEGP LSEEYYKIRE YLYSHFYSL

Best Arabidopsis Sequence Match ( AT5G23880.1 )
(BLAST)

001: MGTSVQVTPL CGVYNENPLS YLVSIDGFNF LIDCGWNDLF DTSLLEPLSR VASTIDAVLL SHPDTLHIGA LPYAMKQLGL SAPVYATEPV HRLGLLTMYD
101: QFLSRKQVSD FDLFTLDDID SAFQNVIRLT YSQNYHLSGK GEGIVIAPHV AGHMLGGSIW RITKDGEDVI YAVDYNHRKE RHLNGTVLQS FVRPAVLITD
201: AYHALYTNQT ARQQRDKEFL DTISKHLEVG GNVLLPVDTA GRVLELLLIL EQHWSQRGFS FPIYFLTYVS SSTIDYVKSF LEWMSDSISK SFETSRDNAF
301: LLRHVTLLIN KTDLDNAPPG PKVVLASMAS LEAGFAREIF VEWANDPRNL VLFTETGQFG TLARMLQSAP PPKFVKVTMS KRVPLAGEEL IAYEEEQNRL
401: KREEALRASL VKEEETKASH GSDDNSSEPM IIDTKTTHDV IGSHGPAYKD ILIDGFVPPS SSVAPMFPYY DNTSEWDDFG EIINPDDYVI KDEDMDRGAM
501: HNGGDVDGRL DEATASLMLD TRPSKVMSNE LIVTVSCSLV KMDYEGRSDG RSIKSMIAHV SPLKLVLVHA IAEATEHLKQ HCLNNICPHV YAPQIEETVD
601: VTSDLCAYKV QLSEKLMSNV IFKKLGDSEV AWVDSEVGKT ERDMRSLLPM PGAASPHKPV LVGDLKIADF KQFLSSKGVQ VEFAGGGALR CGEYVTLRKV
701: GPTGQKGGAS GPQQILIEGP LCEDYYKIRD YLYSQFYLL

Arabidopsis Description

CPSF100Cleavage and polyadenylation specificity factor subunit 2 [Source:UniProtKB/Swiss-Prot;Acc:Q9LKF9]
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.