Raphanus sativus (Radish) (Raphanus raphanistrum var. sativus)

Taxonomy: cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliopsida; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Average proteome isoelectric point is 6.74

Get precalculated fractions of proteins

Acidic
pI < 6.8
6.8-7.4
pI > 7.4
Basic
    
All



Virtual 2D-PAGE plot for 52798 proteins (isoelectric point calculated using IPC2_protein)

Get csv file with sequences according to given criteria:
        -     Method 

     -  kDa    
                                                                                      

* You can choose from 21 different methods for calculating isoelectric point

Summary statistics related to proteome-wise predictions


    
Protein with the lowest isoelectric point:
>tr|A0A6J0MYV0|A0A6J0MYV0_RAPSA LOW QUALITY PROTEIN: uncharacterized protein LOC108848700 OS=Raphanus sativus OX=3726 GN=LOC108848700 PE=4 SV=1
MM1 pKa = 7.75LDD3 pKa = 2.88IAYY6 pKa = 9.42EE7 pKa = 4.09LVGQATSNSLLMFCFCNLIIVMIITGSSKK36 pKa = 10.6PGSTDD41 pKa = 3.12SQDD44 pKa = 3.51YY45 pKa = 8.95TFTTSVNFNMCSSLASQDD63 pKa = 4.18HH64 pKa = 7.06DD65 pKa = 4.52CCDD68 pKa = 4.43DD69 pKa = 4.91DD70 pKa = 6.41DD71 pKa = 4.84DD72 pKa = 5.83HH73 pKa = 9.48EE74 pKa = 4.38EE75 pKa = 4.08MIVIDD80 pKa = 3.87VSSAQDD86 pKa = 3.44EE87 pKa = 4.59PLTDD91 pKa = 3.58ASSISEE97 pKa = 4.23GYY99 pKa = 8.91EE100 pKa = 3.8DD101 pKa = 5.35KK102 pKa = 10.96EE103 pKa = 5.13SSHH106 pKa = 6.96CCDD109 pKa = 4.6NNGEE113 pKa = 4.8DD114 pKa = 6.06DD115 pKa = 6.38DD116 pKa = 7.62DD117 pKa = 7.38DD118 pKa = 7.53DD119 pKa = 7.02DD120 pKa = 6.61DD121 pKa = 5.33NEE123 pKa = 4.67SNEE126 pKa = 3.96TDD128 pKa = 3.43VEE130 pKa = 4.2EE131 pKa = 4.57EE132 pKa = 4.3EE133 pKa = 5.02EE134 pKa = 4.32DD135 pKa = 3.89DD136 pKa = 4.13EE137 pKa = 4.41LRR139 pKa = 11.84KK140 pKa = 9.81RR141 pKa = 11.84AEE143 pKa = 3.73EE144 pKa = 4.53FIAKK148 pKa = 9.51VNNEE152 pKa = 3.72WKK154 pKa = 10.27HH155 pKa = 4.85EE156 pKa = 3.96KK157 pKa = 10.29LRR159 pKa = 11.84ALSLVYY165 pKa = 10.61

Molecular weight: 18.55 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A6J0N5L3|A0A6J0N5L3_RAPSA putative FBD-associated F-box protein At1g05080 OS=Raphanus sativus OX=3726 GN=LOC108850995 PE=4 SV=1
MM1 pKa = 7.57ANSKK5 pKa = 10.51RR6 pKa = 11.84LFGVVRR12 pKa = 11.84RR13 pKa = 11.84NLLRR17 pKa = 11.84RR18 pKa = 11.84SPSTIRR24 pKa = 11.84SSVRR28 pKa = 11.84EE29 pKa = 3.7TSRR32 pKa = 11.84QHH34 pKa = 5.12NAAIKK39 pKa = 9.31IQAFFRR45 pKa = 11.84GHH47 pKa = 6.09LARR50 pKa = 11.84RR51 pKa = 11.84AFRR54 pKa = 11.84ALKK57 pKa = 10.68SLVKK61 pKa = 9.99LQAVARR67 pKa = 11.84GVLVRR72 pKa = 11.84RR73 pKa = 11.84QARR76 pKa = 11.84IALHH80 pKa = 6.34CMHH83 pKa = 7.36ALARR87 pKa = 11.84LQVRR91 pKa = 11.84VRR93 pKa = 11.84ARR95 pKa = 11.84QILSHH100 pKa = 6.56

Molecular weight: 11.51 kDa
Isoelectric point according different methods:





Peptides (in silico digests for buttom-up proteomics)

Below you can find in silico digests of the whole proteome with Trypsin, Chymotrypsin, Trypsin+LysC, LysN, ArgC proteases suitable for different mass spec machines.

Try
ESI
ChTry
ESI
ArgC
ESI
LysN
ESI
TryLysC
ESI

Try
MALDI
ChTry
MALDI
ArgC
MALDI
LysN
MALDI
TryLysC
MALDI

Try
LTQ
ChTry
LTQ
ArgC
LTQ
LysN
LTQ
TryLysC
LTQ

Try
MSlow
ChTry
MSlow
ArgC
MSlow
LysN
MSlow
TryLysC
MSlow

Try
MShigh
ChTry
MShigh
ArgC
MShigh
LysN
MShigh
TryLysC
MShigh

General Statistics

Number of major isoforms

Number of additional isoforms

Number of all proteins

Number of amino acids

Min. Seq. Length

Max. Seq. Length

Avg. Seq. Length

Avg. Mol. Weight

46820

5978

52798

21790941

26

5374

412.7

46.12

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

6.492 ± 0.01

1.814 ± 0.005

5.418 ± 0.008

6.799 ± 0.013

4.142 ± 0.008

6.479 ± 0.011

2.308 ± 0.005

4.987 ± 0.007

6.295 ± 0.01

9.444 ± 0.012

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.439 ± 0.004

4.257 ± 0.007

4.93 ± 0.011

3.539 ± 0.006

5.559 ± 0.009

9.114 ± 0.013

5.167 ± 0.006

6.749 ± 0.007

1.283 ± 0.004

2.78 ± 0.005
Note: For amino acid frequency statistics the error has been estimated with the bootstraping (x100) at the protein level

Most of the basic statistics you can see at this page can be downloaded from this CSV file

For dipeptide frequency statistics click here
See this proteome in: uniprot_link
Proteome-pI is available under Creative Commons Attribution-NoDerivs license, for more details see here

Reference: Kozlowski LP. Proteome-pI 2.0: Proteome Isoelectric Point Database Update. Nucleic Acids Res. 2021, doi: 10.1093/nar/gkab944 Contact: Lukasz P. Kozlowski