Amycolatopsis mediterranei (strain S699) (Nocardia mediterranei)

Taxonomy: cellular organisms; Bacteria; Terrabacteria group; Actinobacteria; Actinomycetia; Pseudonocardiales; Pseudonocardiaceae; Amycolatopsis; Amycolatopsis mediterranei

Average proteome isoelectric point is 6.38

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 9551 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|G0FPV3|G0FPV3_AMYMS Cellulose/chitin-binding protein OS=Amycolatopsis mediterranei (strain S699) OX=713604 GN=RAM_17675 PE=4 SV=1
MM1 pKa = 7.61IKK3 pKa = 10.1QLGFVATALAAGMAVLGGSASATSVSVAGHH33 pKa = 6.41PVDD36 pKa = 3.54TTDD39 pKa = 4.1QFGLVGNVQNLDD51 pKa = 3.24AVHH54 pKa = 6.34NLNVVGGVCDD64 pKa = 4.76DD65 pKa = 5.35DD66 pKa = 5.46INVLGVQVPIHH77 pKa = 6.38DD78 pKa = 3.94TANGIGVPVLSPGEE92 pKa = 4.05HH93 pKa = 5.96EE94 pKa = 4.67AAGEE98 pKa = 4.1NPDD101 pKa = 3.19NCAAGEE107 pKa = 4.07IADD110 pKa = 4.51GGTTQGNN117 pKa = 3.47

Molecular weight: 11.46 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|G0G206|G0G206_AMYMS Osmotically inducible periplasmic protein OsmY OS=Amycolatopsis mediterranei (strain S699) OX=713604 GN=RAM_28425 PE=4 SV=1
MM1 pKa = 7.53SKK3 pKa = 10.53GKK5 pKa = 8.66RR6 pKa = 11.84TFQPNNRR13 pKa = 11.84RR14 pKa = 11.84RR15 pKa = 11.84AKK17 pKa = 8.7THH19 pKa = 5.15GFRR22 pKa = 11.84LRR24 pKa = 11.84MRR26 pKa = 11.84TRR28 pKa = 11.84AGRR31 pKa = 11.84AILAARR37 pKa = 11.84RR38 pKa = 11.84RR39 pKa = 11.84KK40 pKa = 10.12GRR42 pKa = 11.84GALSAA47 pKa = 4.3

Molecular weight: 5.42 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

9551

0

9551

3046683

27

6646

319.0

34.08

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

13.758 ± 0.036

0.753 ± 0.007

5.892 ± 0.021

5.436 ± 0.028

2.995 ± 0.014

9.46 ± 0.029

2.208 ± 0.011

3.306 ± 0.017

2.169 ± 0.017

10.511 ± 0.031

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

1.566 ± 0.009

1.921 ± 0.017

6.025 ± 0.022

2.741 ± 0.015

7.697 ± 0.035

4.985 ± 0.022

6.157 ± 0.026

8.808 ± 0.024

1.552 ± 0.011

2.058 ± 0.013
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