Novosphingobium sp. MD-1

Taxonomy: cellular organisms; Bacteria; Proteobacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Novosphingobium; unclassified Novosphingobium

Average proteome isoelectric point is 6.58

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 4161 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|A0A1W7MDW7|A0A1W7MDW7_9SPHN Transcriptional regulator of asnC family OS=Novosphingobium sp. MD-1 OX=1630648 GN=NMD1_04071 PE=4 SV=1
MM1 pKa = 7.26IAEE4 pKa = 4.43EE5 pKa = 4.77LRR7 pKa = 11.84ICLLEE12 pKa = 5.28AGADD16 pKa = 3.6VIGPVGVLEE25 pKa = 5.12DD26 pKa = 4.07ALNLAGSEE34 pKa = 3.89QDD36 pKa = 3.2IACALVDD43 pKa = 3.44IGLEE47 pKa = 3.95GGMTYY52 pKa = 10.93AVAEE56 pKa = 4.3YY57 pKa = 10.1LDD59 pKa = 4.0EE60 pKa = 5.48HH61 pKa = 7.0SIPYY65 pKa = 10.42LFTTGYY71 pKa = 9.65SPAAIPDD78 pKa = 3.61RR79 pKa = 11.84FGGIGNFQKK88 pKa = 10.37PIRR91 pKa = 11.84MAALLRR97 pKa = 11.84GIGDD101 pKa = 5.15LIDD104 pKa = 3.33AA105 pKa = 5.22

Molecular weight: 11.04 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A1W7M5V2|A0A1W7M5V2_9SPHN 8-amino-7-oxononanoate synthase OS=Novosphingobium sp. MD-1 OX=1630648 GN=NMD1_02056 PE=3 SV=1
MM1 pKa = 7.45KK2 pKa = 9.56RR3 pKa = 11.84TFQPSRR9 pKa = 11.84LVRR12 pKa = 11.84ARR14 pKa = 11.84RR15 pKa = 11.84HH16 pKa = 4.54GFRR19 pKa = 11.84ARR21 pKa = 11.84TATVGGRR28 pKa = 11.84KK29 pKa = 8.17VLRR32 pKa = 11.84ARR34 pKa = 11.84RR35 pKa = 11.84ARR37 pKa = 11.84GRR39 pKa = 11.84KK40 pKa = 8.79NLSAA44 pKa = 4.73

Molecular weight: 5.1 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

4161

0

4161

1363674

37

5425

327.7

35.31

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

13.68 ± 0.058

0.836 ± 0.013

5.866 ± 0.029

5.207 ± 0.036

3.597 ± 0.023

9.109 ± 0.042

2.067 ± 0.02

4.745 ± 0.02

2.776 ± 0.027

9.875 ± 0.04

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.368 ± 0.021

2.561 ± 0.025

5.486 ± 0.028

3.096 ± 0.019

7.393 ± 0.038

5.071 ± 0.035

5.283 ± 0.034

7.305 ± 0.027

1.454 ± 0.017

2.224 ± 0.02
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