Oryza sativa subsp. japonica (Rice)

Taxonomy: cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliopsida; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae;

Average proteome isoelectric point is 7.1

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 49223 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|A3AWC7|A3AWC7_ORYSJ Os04g0559550 protein OS=Oryza sativa subsp. japonica OX=39947 GN=Os04g0559550 PE=4 SV=1
MM1 pKa = 7.92DD2 pKa = 5.37GDD4 pKa = 4.52GYY6 pKa = 11.54GDD8 pKa = 3.59GSGTRR13 pKa = 11.84DD14 pKa = 3.65FMSQSDD20 pKa = 3.53SHH22 pKa = 7.69ADD24 pKa = 3.39HH25 pKa = 7.84DD26 pKa = 4.48EE27 pKa = 4.18LDD29 pKa = 4.37PYY31 pKa = 10.81TDD33 pKa = 3.02SLYY36 pKa = 9.55YY37 pKa = 9.49TGSRR41 pKa = 11.84SGSASRR47 pKa = 11.84IGMAALDD54 pKa = 4.47LNSGGDD60 pKa = 3.55GWPDD64 pKa = 3.06LGSYY68 pKa = 10.11EE69 pKa = 4.31GLLL72 pKa = 3.76

Molecular weight: 7.57 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A0P0WL01|A0A0P0WL01_ORYSJ Os05g0338900 protein OS=Oryza sativa subsp. japonica OX=39947 GN=Os05g0338900 PE=3 SV=1
MM1 pKa = 7.3LRR3 pKa = 11.84NHH5 pKa = 7.76RR6 pKa = 11.84ILTKK10 pKa = 10.17IGIIEE15 pKa = 4.35SPSPSSSPSSWPWRR29 pKa = 11.84RR30 pKa = 11.84ASPSPSPASRR40 pKa = 11.84SRR42 pKa = 11.84RR43 pKa = 11.84GRR45 pKa = 11.84RR46 pKa = 11.84GGGRR50 pKa = 11.84RR51 pKa = 11.84SPRR54 pKa = 11.84GGRR57 pKa = 11.84GGRR60 pKa = 11.84PRR62 pKa = 11.84RR63 pKa = 11.84GPGRR67 pKa = 11.84RR68 pKa = 11.84GRR70 pKa = 11.84GGGAPRR76 pKa = 11.84RR77 pKa = 11.84PRR79 pKa = 11.84GGRR82 pKa = 11.84RR83 pKa = 11.84GRR85 pKa = 11.84RR86 pKa = 11.84WPWRR90 pKa = 3.51

Molecular weight: 10.03 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

43672

5551

49223

15125169

14

5342

307.3

33.73

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

9.549 ± 0.019

1.927 ± 0.006

5.311 ± 0.009

5.864 ± 0.015

3.537 ± 0.009

7.641 ± 0.016

2.595 ± 0.007

4.232 ± 0.01

4.585 ± 0.014

9.395 ± 0.017

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.388 ± 0.006

3.346 ± 0.01

5.845 ± 0.015

3.35 ± 0.009

6.863 ± 0.016

8.201 ± 0.014

4.738 ± 0.007

6.841 ± 0.01

1.327 ± 0.005

2.461 ± 0.007
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