Pedobacter sp. RP-3-15

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

Average proteome isoelectric point is 6.91

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 3967 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|A0A4U1CMU1|A0A4U1CMU1_9SPHI Probable endolytic peptidoglycan transglycosylase RlpA OS=Pedobacter sp. RP-3-15 OX=2571272 GN=rlpA PE=3 SV=1
MM1 pKa = 7.79ISINNIQPLSPEE13 pKa = 4.05ALFDD17 pKa = 4.36LLKK20 pKa = 10.18TDD22 pKa = 4.4FPTYY26 pKa = 10.4INEE29 pKa = 4.13QLGSNLNVEE38 pKa = 4.92FAHH41 pKa = 6.67VSDD44 pKa = 4.07VVNISFPEE52 pKa = 4.29VIEE55 pKa = 4.42GNAYY59 pKa = 8.46TLTIGDD65 pKa = 4.24DD66 pKa = 3.54QIEE69 pKa = 4.58ITDD72 pKa = 3.57HH73 pKa = 5.51TAEE76 pKa = 3.95EE77 pKa = 4.97TYY79 pKa = 9.53NTEE82 pKa = 4.08LLEE85 pKa = 4.03QHH87 pKa = 6.59LVAFLTIKK95 pKa = 10.76AGG97 pKa = 3.39

Molecular weight: 10.81 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A4V5NYP4|A0A4V5NYP4_9SPHI Putative pre-16S rRNA nuclease OS=Pedobacter sp. RP-3-15 OX=2571272 GN=ruvX PE=3 SV=1
MM1 pKa = 7.37YY2 pKa = 8.21LTLLPLHH9 pKa = 6.66SLLRR13 pKa = 11.84WLVLICLVASIICAYY28 pKa = 10.34RR29 pKa = 11.84GWLTKK34 pKa = 10.45QRR36 pKa = 11.84FSRR39 pKa = 11.84FANFLRR45 pKa = 11.84IMTVNVLQIQFCIGLGLYY63 pKa = 9.58FLSPLVSYY71 pKa = 9.03FLNNFKK77 pKa = 10.21TGIHH81 pKa = 4.96MRR83 pKa = 11.84EE84 pKa = 3.37IRR86 pKa = 11.84FFGMEE91 pKa = 5.21HH92 pKa = 5.47ITMMVIAVGVISVGSGKK109 pKa = 9.79INKK112 pKa = 6.91MTDD115 pKa = 2.74DD116 pKa = 3.48RR117 pKa = 11.84LKK119 pKa = 10.42YY120 pKa = 9.28KK121 pKa = 10.51TMAIWFTVALLIIFSSIPWSFSPLTSRR148 pKa = 11.84PNFRR152 pKa = 11.84PFF154 pKa = 3.09

Molecular weight: 17.9 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

3967

0

3967

1413291

25

4162

356.3

39.93

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

7.246 ± 0.043

0.751 ± 0.011

5.375 ± 0.024

5.799 ± 0.043

4.879 ± 0.032

6.873 ± 0.036

1.712 ± 0.018

7.368 ± 0.039

7.453 ± 0.04

9.39 ± 0.041

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.31 ± 0.019

5.841 ± 0.037

3.67 ± 0.021

3.572 ± 0.023

3.803 ± 0.024

6.568 ± 0.032

5.78 ± 0.051

6.356 ± 0.029

1.119 ± 0.014

4.135 ± 0.027
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