Herbaspirillum seropedicae (strain SmR1)

Taxonomy: cellular organisms; Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Oxalobacteraceae; Herbaspirillum; Herbaspirillum seropedicae

Average proteome isoelectric point is 6.85

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 4732 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|D8IZ45|D8IZ45_HERSS Outer membrane lipoprotein Blc OS=Herbaspirillum seropedicae (strain SmR1) OX=757424 GN=blc PE=3 SV=1
MM1 pKa = 7.89SDD3 pKa = 3.54TDD5 pKa = 5.22SITADD10 pKa = 3.22APLIFTDD17 pKa = 3.62SAVAKK22 pKa = 9.83VSEE25 pKa = 4.82LISEE29 pKa = 4.35EE30 pKa = 4.33GNTEE34 pKa = 3.93LKK36 pKa = 10.68LRR38 pKa = 11.84IYY40 pKa = 10.88VSGGGCSGFEE50 pKa = 3.63YY51 pKa = 10.93GFAFDD56 pKa = 5.23DD57 pKa = 4.86AVNEE61 pKa = 4.19DD62 pKa = 4.12DD63 pKa = 5.65FCIEE67 pKa = 4.04RR68 pKa = 11.84NGVSLLVDD76 pKa = 4.13AMSMQYY82 pKa = 11.33LNGAEE87 pKa = 3.73IGYY90 pKa = 10.29EE91 pKa = 3.86EE92 pKa = 4.56GLEE95 pKa = 3.96GSRR98 pKa = 11.84FIIKK102 pKa = 10.18NPNATTTCGCGSSFSVV118 pKa = 3.54

Molecular weight: 12.55 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|D8IVK8|D8IVK8_HERSS Oxidoreductase protein OS=Herbaspirillum seropedicae (strain SmR1) OX=757424 GN=Hsero_4348 PE=4 SV=1
MM1 pKa = 7.35KK2 pKa = 9.36RR3 pKa = 11.84TYY5 pKa = 9.97QPSVVRR11 pKa = 11.84RR12 pKa = 11.84KK13 pKa = 8.57RR14 pKa = 11.84THH16 pKa = 5.79GFRR19 pKa = 11.84ARR21 pKa = 11.84MATRR25 pKa = 11.84GGRR28 pKa = 11.84AVINARR34 pKa = 11.84RR35 pKa = 11.84AKK37 pKa = 9.74GRR39 pKa = 11.84KK40 pKa = 8.8RR41 pKa = 11.84LAAVV45 pKa = 3.52

Molecular weight: 5.19 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

4732

0

4732

1618924

30

9160

342.1

37.26

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

12.316 ± 0.053

0.897 ± 0.012

5.143 ± 0.029

5.298 ± 0.042

3.523 ± 0.03

7.963 ± 0.039

2.246 ± 0.021

4.94 ± 0.028

3.553 ± 0.037

10.86 ± 0.045

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.571 ± 0.022

2.913 ± 0.031

4.913 ± 0.028

4.512 ± 0.029

6.52 ± 0.037

5.87 ± 0.035

4.984 ± 0.034

7.221 ± 0.03

1.324 ± 0.015

2.433 ± 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