Pedobacter duraquae

Taxonomy: cellular organisms; Bacteria; FCB group; Bacteroidetes/Chlorobi group; Bacteroidetes; Sphingobacteriia; Sphingobacteriales; Sphingobacteriaceae; Pedobacter

Average proteome isoelectric point is 6.93

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 4663 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|A0A4V3C343|A0A4V3C343_9SPHI tRNA-specific 2-thiouridylase MnmA OS=Pedobacter duraquae OX=425511 GN=mnmA PE=3 SV=1
MM1 pKa = 8.01EE2 pKa = 6.27DD3 pKa = 3.13NNITVSVQNPDD14 pKa = 3.0GTLTALEE21 pKa = 4.75APVDD25 pKa = 3.68MGLSLMEE32 pKa = 3.89FLKK35 pKa = 10.92ACEE38 pKa = 3.8YY39 pKa = 10.98DD40 pKa = 3.51ILATCGGMALCATCCVDD57 pKa = 3.54VLEE60 pKa = 5.31GEE62 pKa = 4.35EE63 pKa = 4.53KK64 pKa = 10.73LNEE67 pKa = 4.07MSDD70 pKa = 3.95DD71 pKa = 3.99EE72 pKa = 4.73YY73 pKa = 11.97AMLDD77 pKa = 3.8TLPDD81 pKa = 4.06LLPNSRR87 pKa = 11.84LACQLRR93 pKa = 11.84LSPEE97 pKa = 3.59MDD99 pKa = 3.16GLVVKK104 pKa = 9.93LHH106 pKa = 6.6GEE108 pKa = 3.91

Molecular weight: 11.71 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A4R6II27|A0A4R6II27_9SPHI ATP synthase subunit delta OS=Pedobacter duraquae OX=425511 GN=atpH PE=3 SV=1
MM1 pKa = 7.84PSGKK5 pKa = 9.39KK6 pKa = 9.62RR7 pKa = 11.84KK8 pKa = 6.72RR9 pKa = 11.84HH10 pKa = 5.17KK11 pKa = 10.05MATHH15 pKa = 6.02KK16 pKa = 10.34RR17 pKa = 11.84KK18 pKa = 9.84KK19 pKa = 9.28RR20 pKa = 11.84LRR22 pKa = 11.84KK23 pKa = 9.26NRR25 pKa = 11.84HH26 pKa = 4.71KK27 pKa = 10.87KK28 pKa = 9.36KK29 pKa = 10.77

Molecular weight: 3.68 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

4663

0

4663

1620024

29

3096

347.4

38.86

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

7.722 ± 0.042

0.732 ± 0.01

5.328 ± 0.024

5.453 ± 0.034

4.983 ± 0.031

6.802 ± 0.033

1.78 ± 0.016

7.342 ± 0.034

6.927 ± 0.034

9.741 ± 0.042

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.305 ± 0.017

5.518 ± 0.031

3.713 ± 0.019

3.762 ± 0.023

3.908 ± 0.021

6.489 ± 0.028

5.978 ± 0.044

6.363 ± 0.025

1.092 ± 0.013

4.063 ± 0.025
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