Pedobacter nyackensis

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

Average proteome isoelectric point is 6.97

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 4961 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|A0A1W2D255|A0A1W2D255_9SPHI Uncharacterized protein OS=Pedobacter nyackensis OX=475255 GN=SAMN04488101_105192 PE=4 SV=1
MM1 pKa = 7.69EE2 pKa = 5.66DD3 pKa = 3.77AIKK6 pKa = 10.93GLVPHH11 pKa = 6.37VLSFIVSEE19 pKa = 4.16FCKK22 pKa = 10.69YY23 pKa = 10.7GFLIAYY29 pKa = 7.55EE30 pKa = 4.59KK31 pKa = 10.92DD32 pKa = 3.32LSDD35 pKa = 3.87LKK37 pKa = 11.43GLIEE41 pKa = 4.91PDD43 pKa = 3.85SISAEE48 pKa = 3.91DD49 pKa = 4.2FEE51 pKa = 5.61LLEE54 pKa = 4.65AVDD57 pKa = 4.69DD58 pKa = 4.29PVVQLLLRR66 pKa = 11.84SIDD69 pKa = 3.59KK70 pKa = 10.54VVNCSKK76 pKa = 10.07TYY78 pKa = 10.86FMINNLDD85 pKa = 3.7EE86 pKa = 4.8YY87 pKa = 10.83EE88 pKa = 4.16VMEE91 pKa = 4.29NEE93 pKa = 5.15EE94 pKa = 4.26YY95 pKa = 10.89NQLASDD101 pKa = 3.89NYY103 pKa = 10.3YY104 pKa = 10.19IYY106 pKa = 10.43IIDD109 pKa = 4.14WEE111 pKa = 4.35NKK113 pKa = 8.15TYY115 pKa = 10.97EE116 pKa = 4.49DD117 pKa = 5.3LLINLNAVYY126 pKa = 7.93FTIARR131 pKa = 11.84LLYY134 pKa = 10.32HH135 pKa = 7.32CATQIRR141 pKa = 11.84RR142 pKa = 11.84NEE144 pKa = 3.76IEE146 pKa = 4.95LPDD149 pKa = 3.98EE150 pKa = 4.82FYY152 pKa = 11.27DD153 pKa = 5.92DD154 pKa = 4.85EE155 pKa = 5.7FLDD158 pKa = 4.65HH159 pKa = 6.99YY160 pKa = 11.73NEE162 pKa = 4.12LLDD165 pKa = 5.37RR166 pKa = 11.84KK167 pKa = 9.99LQSEE171 pKa = 4.69DD172 pKa = 3.4KK173 pKa = 10.88NVALLYY179 pKa = 10.79DD180 pKa = 5.11LIADD184 pKa = 4.84LNLDD188 pKa = 4.77LYY190 pKa = 11.28DD191 pKa = 4.69IDD193 pKa = 4.04QLSS196 pKa = 3.06

Molecular weight: 23.07 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A1W2F517|A0A1W2F517_9SPHI AraC-type DNA-binding protein OS=Pedobacter nyackensis OX=475255 GN=SAMN04488101_12137 PE=4 SV=1
MM1 pKa = 7.35VDD3 pKa = 3.21KK4 pKa = 10.44FFSISYY10 pKa = 8.96SSCSKK15 pKa = 9.88EE16 pKa = 3.76RR17 pKa = 11.84RR18 pKa = 11.84SNAFLIATRR27 pKa = 11.84GKK29 pKa = 10.05RR30 pKa = 11.84VVNHH34 pKa = 6.61LIGRR38 pKa = 11.84ITAGMGHH45 pKa = 7.03HH46 pKa = 7.42DD47 pKa = 3.92FLFFDD52 pKa = 3.67RR53 pKa = 11.84RR54 pKa = 11.84KK55 pKa = 10.09NFPIKK60 pKa = 10.06VRR62 pKa = 11.84KK63 pKa = 9.43PNDD66 pKa = 3.11TDD68 pKa = 3.18

Molecular weight: 7.93 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

4961

0

4961

1862186

39

7858

375.4

42.02

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

7.401 ± 0.032

0.743 ± 0.01

5.306 ± 0.02

5.596 ± 0.037

4.847 ± 0.022

7.01 ± 0.04

1.686 ± 0.019

7.174 ± 0.033

7.34 ± 0.039

9.385 ± 0.035

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.299 ± 0.017

5.966 ± 0.035

3.771 ± 0.021

3.541 ± 0.018

3.771 ± 0.02

6.527 ± 0.03

5.887 ± 0.048

6.349 ± 0.021

1.204 ± 0.012

4.199 ± 0.022
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