Shimia sp. SK013

Taxonomy: cellular organisms; Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Shimia; unclassified Shimia

Average proteome isoelectric point is 6.03

Get precalculated fractions of proteins

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



Virtual 2D-PAGE plot for 3979 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|A0A0M9EK91|A0A0M9EK91_9RHOB Murein hydrolase activator NlpD OS=Shimia sp. SK013 OX=1389006 GN=nlpD PE=4 SV=1
MM1 pKa = 7.23PTYY4 pKa = 9.89FQHH7 pKa = 5.68EE8 pKa = 4.78QYY10 pKa = 11.45GLAHH14 pKa = 7.17LFSEE18 pKa = 4.88HH19 pKa = 7.0FADD22 pKa = 3.67RR23 pKa = 11.84WNTAFVTEE31 pKa = 4.27TMNGEE36 pKa = 3.97VRR38 pKa = 11.84IGFSPSSPIVYY49 pKa = 10.11GVMQLNGDD57 pKa = 4.15DD58 pKa = 3.72LVVINGEE65 pKa = 4.53LISGTITSIDD75 pKa = 3.9FYY77 pKa = 11.38YY78 pKa = 10.13PGYY81 pKa = 9.7PSGGSFGVGFLDD93 pKa = 4.78GQLTGLNWGAQDD105 pKa = 4.13FQSQLAAFAAGDD117 pKa = 3.62YY118 pKa = 11.06SGFNQAILDD127 pKa = 3.94TVTTVICVDD136 pKa = 3.44TRR138 pKa = 11.84PTVHH142 pKa = 6.78SGDD145 pKa = 3.71YY146 pKa = 11.09ANANSFVLGNNDD158 pKa = 2.9GTFSFEE164 pKa = 3.76HH165 pKa = 6.3SALGTSVPITINGGHH180 pKa = 6.85GYY182 pKa = 10.49DD183 pKa = 3.1IFSVSWYY190 pKa = 9.94VPPPTPLSPAPTFTIDD206 pKa = 4.02LEE208 pKa = 5.26AGTFTDD214 pKa = 5.74LYY216 pKa = 9.32GTTHH220 pKa = 7.48RR221 pKa = 11.84ILNFEE226 pKa = 4.12EE227 pKa = 4.86VIGSSANNHH236 pKa = 3.89ITGYY240 pKa = 10.28EE241 pKa = 4.04NVSNALTGGVGDD253 pKa = 4.25DD254 pKa = 3.8TLLGGNQSDD263 pKa = 4.06TLVGGSGNDD272 pKa = 3.5LLVAGDD278 pKa = 4.01GDD280 pKa = 4.4DD281 pKa = 5.09VIMGSDD287 pKa = 3.63NFSDD291 pKa = 5.71DD292 pKa = 4.7DD293 pKa = 3.85DD294 pKa = 4.93TINGGDD300 pKa = 3.95GIDD303 pKa = 3.76TYY305 pKa = 10.22RR306 pKa = 11.84TSYY309 pKa = 11.15SSDD312 pKa = 3.02HH313 pKa = 6.76FVDD316 pKa = 4.07LTNTYY321 pKa = 7.75STPHH325 pKa = 6.09GNTRR329 pKa = 11.84TFIDD333 pKa = 3.47IEE335 pKa = 4.27NVITRR340 pKa = 11.84SGDD343 pKa = 3.17DD344 pKa = 3.6TIIGNGVDD352 pKa = 3.69NRR354 pKa = 11.84IEE356 pKa = 3.93SWAGEE361 pKa = 4.06DD362 pKa = 4.92LILAGGGNDD371 pKa = 3.53TVIGGSGNDD380 pKa = 3.21ILVGGTGEE388 pKa = 4.14NEE390 pKa = 3.9LTGGRR395 pKa = 11.84DD396 pKa = 2.88EE397 pKa = 4.57DD398 pKa = 3.61QFVFVTLNASDD409 pKa = 4.62TITDD413 pKa = 3.97FTMSEE418 pKa = 4.06DD419 pKa = 3.69TLDD422 pKa = 4.08FSSLAADD429 pKa = 3.33SGIFSVTMNGLEE441 pKa = 4.4TIRR444 pKa = 11.84INCFDD449 pKa = 4.0DD450 pKa = 3.63TASGILALSIVQSGDD465 pKa = 2.91AVEE468 pKa = 4.96IYY470 pKa = 9.1VTSGGIAASGSTPLATLLDD489 pKa = 3.97VNLADD494 pKa = 5.72LSWDD498 pKa = 3.52DD499 pKa = 5.39FIFF502 pKa = 4.5

Molecular weight: 52.98 kDa
Isoelectric point according different methods:





Protein with the highest isoelectric point:
>tr|A0A0M9EFS2|A0A0M9EFS2_9RHOB Pseudouridine synthase OS=Shimia sp. SK013 OX=1389006 GN=rluC PE=3 SV=1
MM1 pKa = 7.35KK2 pKa = 9.44RR3 pKa = 11.84TYY5 pKa = 10.31QPSNLVRR12 pKa = 11.84KK13 pKa = 8.96RR14 pKa = 11.84RR15 pKa = 11.84HH16 pKa = 4.62GFRR19 pKa = 11.84SRR21 pKa = 11.84MATKK25 pKa = 10.45AGRR28 pKa = 11.84KK29 pKa = 8.54ILNARR34 pKa = 11.84RR35 pKa = 11.84ARR37 pKa = 11.84GRR39 pKa = 11.84KK40 pKa = 9.07SLSAA44 pKa = 3.93

Molecular weight: 5.17 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

3979

0

3979

1221488

29

2145

307.0

33.37

Amino acid frequency

Ala

Cys

Asp

Glu

Phe

Gly

His

Ile

Lys

Leu

11.701 ± 0.041

0.907 ± 0.013

6.265 ± 0.036

5.818 ± 0.034

3.957 ± 0.023

8.536 ± 0.042

2.098 ± 0.021

5.188 ± 0.029

3.631 ± 0.03

9.767 ± 0.046

Met

Asn

Gln

Pro

Arg

Ser

Thr

Val

Trp

Tyr

2.964 ± 0.017

2.907 ± 0.02

4.749 ± 0.025

3.261 ± 0.019

6.015 ± 0.033

5.428 ± 0.025

5.626 ± 0.028

7.557 ± 0.035

1.39 ± 0.016

2.234 ± 0.017
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