Stichopus japonicus (Sea cucumber)

Taxonomy: cellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Echinodermata; Eleutherozoa; Echinozoa; Holothuroidea; Aspidochirotacea; Aspidochirotida; Stichopodidae; Apostichopus

Average proteome isoelectric point is 6.5

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 30032 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|A0A2G8JD69|A0A2G8JD69_STIJA Uncharacterized protein OS=Stichopus japonicus OX=307972 GN=BSL78_29499 PE=4 SV=1
MM1 pKa = 7.68AVRR4 pKa = 11.84ILWMIYY10 pKa = 9.75ILFFVISVVNCCTCKK25 pKa = 10.68APTSNRR31 pKa = 11.84QQFCDD36 pKa = 3.41SDD38 pKa = 4.27ADD40 pKa = 4.2DD41 pKa = 5.03GAGCVNEE48 pKa = 4.72DD49 pKa = 3.39VVLVTFVVVDD59 pKa = 3.89DD60 pKa = 4.13VFGTFFDD67 pKa = 4.54DD68 pKa = 5.1HH69 pKa = 7.94DD70 pKa = 5.65HH71 pKa = 7.95DD72 pKa = 5.33DD73 pKa = 4.72HH74 pKa = 8.01DD75 pKa = 5.16DD76 pKa = 4.11HH77 pKa = 7.94DD78 pKa = 4.64DD79 pKa = 4.17HH80 pKa = 7.94DD81 pKa = 4.64DD82 pKa = 4.78HH83 pKa = 8.02DD84 pKa = 4.82DD85 pKa = 4.27HH86 pKa = 9.16DD87 pKa = 5.81DD88 pKa = 4.8DD89 pKa = 6.83HH90 pKa = 8.98DD91 pKa = 5.71DD92 pKa = 4.29DD93 pKa = 6.4HH94 pKa = 7.83NDD96 pKa = 3.52HH97 pKa = 7.71DD98 pKa = 6.56DD99 pKa = 5.42DD100 pKa = 6.6DD101 pKa = 5.36DD102 pKa = 6.65HH103 pKa = 7.9DD104 pKa = 4.66DD105 pKa = 5.49HH106 pKa = 8.0DD107 pKa = 5.38DD108 pKa = 3.75HH109 pKa = 9.15DD110 pKa = 5.9DD111 pKa = 4.42DD112 pKa = 6.17HH113 pKa = 8.75DD114 pKa = 5.93HH115 pKa = 8.04DD116 pKa = 6.77DD117 pKa = 5.44DD118 pKa = 5.56DD119 pKa = 6.8HH120 pKa = 7.67DD121 pKa = 5.51DD122 pKa = 4.99HH123 pKa = 9.17DD124 pKa = 7.04DD125 pKa = 5.06DD126 pKa = 7.59DD127 pKa = 7.23DD128 pKa = 7.57DD129 pKa = 6.45DD130 pKa = 5.82DD131 pKa = 5.94HH132 pKa = 8.95DD133 pKa = 5.34HH134 pKa = 7.52DD135 pKa = 6.23HH136 pKa = 7.94DD137 pKa = 5.33DD138 pKa = 4.33HH139 pKa = 9.03DD140 pKa = 6.1DD141 pKa = 3.92DD142 pKa = 6.28HH143 pKa = 8.84DD144 pKa = 5.62HH145 pKa = 8.12DD146 pKa = 6.32DD147 pKa = 5.66DD148 pKa = 6.53NDD150 pKa = 3.81DD151 pKa = 5.53HH152 pKa = 8.72DD153 pKa = 7.0DD154 pKa = 5.52DD155 pKa = 7.51DD156 pKa = 7.3DD157 pKa = 7.26DD158 pKa = 7.17DD159 pKa = 7.68DD160 pKa = 5.92IMMMTMTMMMMMTMMMIMMIMIMIMMIMMMIMNDD194 pKa = 3.17HH195 pKa = 7.55DD196 pKa = 5.46DD197 pKa = 4.57DD198 pKa = 5.54HH199 pKa = 8.74DD200 pKa = 5.32HH201 pKa = 8.03DD202 pKa = 6.11DD203 pKa = 5.12DD204 pKa = 5.79HH205 pKa = 8.95DD206 pKa = 4.61HH207 pKa = 7.47DD208 pKa = 5.96HH209 pKa = 7.94DD210 pKa = 5.68DD211 pKa = 3.81DD212 pKa = 4.29HH213 pKa = 9.69VSS215 pKa = 3.0

Molecular weight: 25.43 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A2G8LMC9|A0A2G8LMC9_STIJA Putative 28S ribosomal protein S36 mitochondrial-like isoform X2 OS=Stichopus japonicus OX=307972 GN=BSL78_01694 PE=4 SV=1
MM1 pKa = 7.2ARR3 pKa = 11.84ARR5 pKa = 11.84ARR7 pKa = 11.84ARR9 pKa = 11.84GGARR13 pKa = 11.84ARR15 pKa = 11.84GGARR19 pKa = 11.84ARR21 pKa = 11.84ARR23 pKa = 11.84ARR25 pKa = 11.84ARR27 pKa = 11.84ARR29 pKa = 11.84KK30 pKa = 9.78DD31 pKa = 2.92KK32 pKa = 10.96GKK34 pKa = 10.25QGQGKK39 pKa = 9.29SRR41 pKa = 11.84NRR43 pKa = 11.84NRR45 pKa = 11.84NRR47 pKa = 11.84SRR49 pKa = 11.84SRR51 pKa = 11.84SKK53 pKa = 10.34SRR55 pKa = 11.84NRR57 pKa = 11.84NRR59 pKa = 11.84SRR61 pKa = 11.84RR62 pKa = 11.84RR63 pKa = 11.84SRR65 pKa = 11.84NRR67 pKa = 11.84SRR69 pKa = 11.84NRR71 pKa = 11.84SRR73 pKa = 11.84SRR75 pKa = 11.84NRR77 pKa = 11.84HH78 pKa = 4.66RR79 pKa = 11.84NRR81 pKa = 11.84NRR83 pKa = 11.84NRR85 pKa = 11.84NRR87 pKa = 11.84NRR89 pKa = 11.84SRR91 pKa = 11.84SRR93 pKa = 11.84SRR95 pKa = 11.84SKK97 pKa = 10.56SRR99 pKa = 11.84SRR101 pKa = 11.84SKK103 pKa = 10.51SRR105 pKa = 11.84NRR107 pKa = 11.84NRR109 pKa = 11.84SRR111 pKa = 11.84RR112 pKa = 11.84RR113 pKa = 11.84SRR115 pKa = 11.84NRR117 pKa = 11.84SRR119 pKa = 11.84SRR121 pKa = 11.84SRR123 pKa = 11.84SRR125 pKa = 11.84NRR127 pKa = 11.84HH128 pKa = 4.66RR129 pKa = 11.84NRR131 pKa = 11.84NRR133 pKa = 11.84NRR135 pKa = 11.84NMNRR139 pKa = 11.84HH140 pKa = 5.79RR141 pKa = 11.84NGNRR145 pKa = 11.84NRR147 pKa = 11.84NRR149 pKa = 11.84NRR151 pKa = 11.84NRR153 pKa = 11.84SRR155 pKa = 11.84SRR157 pKa = 11.84SRR159 pKa = 11.84SRR161 pKa = 11.84HH162 pKa = 4.96RR163 pKa = 11.84NINMNRR169 pKa = 11.84NSNRR173 pKa = 11.84NRR175 pKa = 11.84NRR177 pKa = 11.84NRR179 pKa = 11.84SRR181 pKa = 11.84GRR183 pKa = 11.84SMHH186 pKa = 6.68RR187 pKa = 11.84NMNRR191 pKa = 11.84SRR193 pKa = 11.84RR194 pKa = 11.84HH195 pKa = 5.01RR196 pKa = 11.84NKK198 pKa = 10.54NKK200 pKa = 10.5NKK202 pKa = 9.28DD203 pKa = 2.76TDD205 pKa = 4.02RR206 pKa = 11.84NHH208 pKa = 7.32KK209 pKa = 9.99ISTRR213 pKa = 11.84RR214 pKa = 11.84GKK216 pKa = 10.28DD217 pKa = 2.88KK218 pKa = 10.53EE219 pKa = 4.2QEE221 pKa = 3.95FGRR224 pKa = 4.34

Molecular weight: 27.71 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

30032

0

30032

11815549

48

4901

393.4

44.23

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

5.786 ± 0.011

2.247 ± 0.015

5.902 ± 0.018

6.883 ± 0.02

3.889 ± 0.01

6.002 ± 0.019

2.439 ± 0.008

5.337 ± 0.012

6.146 ± 0.021

8.882 ± 0.02

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.338 ± 0.007

4.498 ± 0.01

4.857 ± 0.015

4.314 ± 0.013

5.417 ± 0.013

8.285 ± 0.018

6.127 ± 0.021

6.481 ± 0.013

1.176 ± 0.006

2.993 ± 0.01
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