Treponema pallidum (strain Nichols)
Average proteome isoelectric point is 7.38
Get precalculated fractions of proteins
Acidic
pI < 6.8
6.8-7.4
pI > 7.4
Basic
All
Note: above files contain also dissociation constants (pKa)
Virtual 2D-PAGE plot for 1027 proteins (isoelectric point calculated using IPC2_protein)
Get csv file with sequences according to given criteria:
* 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|O83962|O83962_TREPA Protease IV (SppA) OS=Treponema pallidum (strain Nichols) OX=243276 GN=TP_0997 PE=4 SV=1
MM1 pKa = 6.89 GTYY4 pKa = 8.91 MCDD7 pKa = 3.14 LCGWGYY13 pKa = 10.59 NPEE16 pKa = 4.04 VGDD19 pKa = 4.09 ADD21 pKa = 3.79 GGIPAGTAFEE31 pKa = 4.32 NLPDD35 pKa = 3.34 HH36 pKa = 6.76 WEE38 pKa = 4.33 CPLCGVDD45 pKa = 2.96 KK46 pKa = 10.93 TSFVKK51 pKa = 10.71 VV52 pKa = 3.37
Molecular weight: 5.57 kDa
Isoelectric point according different methods:
IPC2.protein.svr19 3.924
IPC2_protein 4.012
IPC_protein 3.846
Toseland 3.656
ProMoST 4.05
Dawson 3.859
Bjellqvist 4.024
Wikipedia 3.834
Rodwell 3.694
Grimsley 3.592
Solomon 3.821
Lehninger 3.783
Nozaki 4.012
DTASelect 4.19
Thurlkill 3.745
EMBOSS 3.834
Sillero 3.986
Patrickios 0.121
IPC_peptide 3.821
IPC2_peptide 3.948
IPC2.peptide.svr19 3.902
Protein with the highest isoelectric point:
>tr|O83367|O83367_TREPA Uncharacterized protein OS=Treponema pallidum (strain Nichols) OX=243276 GN=TP_0347 PE=4 SV=1
MM1 pKa = 7.63 SYY3 pKa = 10.43 SCSAEE8 pKa = 4.07 STSVCSVHH16 pKa = 6.76 FSVFRR21 pKa = 11.84 IPGATCRR28 pKa = 11.84 CDD30 pKa = 3.58 VFCAEE35 pKa = 4.78 HH36 pKa = 7.07 VFFCARR42 pKa = 11.84 SQLKK46 pKa = 10.15 RR47 pKa = 11.84 IVRR50 pKa = 11.84 ALCVNGHH57 pKa = 4.91 TAKK60 pKa = 10.67 FSRR63 pKa = 11.84 PLHH66 pKa = 5.11 VRR68 pKa = 11.84 DD69 pKa = 3.09 RR70 pKa = 11.84 VSFEE74 pKa = 3.84 WVRR77 pKa = 11.84 SVPPALIPEE86 pKa = 4.68 NISLSILFEE95 pKa = 4.38 NEE97 pKa = 4.32 DD98 pKa = 3.58 IIAVNKK104 pKa = 7.63 AQGMIVHH111 pKa = 7.34 PGAGHH116 pKa = 4.79 WTGTLVQALSFYY128 pKa = 10.25 RR129 pKa = 11.84 VYY131 pKa = 10.56 RR132 pKa = 11.84 ARR134 pKa = 11.84 FEE136 pKa = 5.42 DD137 pKa = 3.8 EE138 pKa = 4.73 FSRR141 pKa = 11.84 QFQKK145 pKa = 11.01 GFPDD149 pKa = 4.22 FFSTLRR155 pKa = 11.84 QGIVHH160 pKa = 7.31 RR161 pKa = 11.84 LDD163 pKa = 3.82 KK164 pKa = 10.49 DD165 pKa = 3.56 TSGVLLTSRR174 pKa = 11.84 NMHH177 pKa = 5.44 AHH179 pKa = 5.89 EE180 pKa = 4.27 ALVRR184 pKa = 11.84 SFKK187 pKa = 10.35 KK188 pKa = 9.21 RR189 pKa = 11.84 QVRR192 pKa = 11.84 KK193 pKa = 10.21 VYY195 pKa = 10.26 LALLQGVPARR205 pKa = 11.84 GVGVIEE211 pKa = 3.98 TTIVRR216 pKa = 11.84 DD217 pKa = 3.35 RR218 pKa = 11.84 RR219 pKa = 11.84 RR220 pKa = 11.84 RR221 pKa = 11.84 TRR223 pKa = 11.84 FVASEE228 pKa = 4.17 DD229 pKa = 3.77 FSKK232 pKa = 11.1 GKK234 pKa = 9.35 YY235 pKa = 9.45 ARR237 pKa = 11.84 TRR239 pKa = 11.84 YY240 pKa = 10.07 KK241 pKa = 10.76 VMKK244 pKa = 10.03 ICGACAFVQFLLDD257 pKa = 3.09 TGRR260 pKa = 11.84 THH262 pKa = 7.41 QIRR265 pKa = 11.84 VHH267 pKa = 6.06 ARR269 pKa = 11.84 YY270 pKa = 9.46 LGCPVVGDD278 pKa = 3.73 PLYY281 pKa = 10.96 GSRR284 pKa = 11.84 NICGIPTTLMLHH296 pKa = 6.71 AYY298 pKa = 9.31 AVRR301 pKa = 11.84 FVLPRR306 pKa = 11.84 TKK308 pKa = 10.59 KK309 pKa = 10.45 RR310 pKa = 11.84 ITLVAPIPLRR320 pKa = 11.84 FVRR323 pKa = 11.84 LIHH326 pKa = 6.22 RR327 pKa = 11.84 LSVRR331 pKa = 3.29
Molecular weight: 37.74 kDa
Isoelectric point according different methods:
IPC2.protein.svr19 9.353
IPC2_protein 9.692
IPC_protein 10.613
Toseland 10.687
ProMoST 10.57
Dawson 10.789
Bjellqvist 10.555
Wikipedia 11.038
Rodwell 10.921
Grimsley 10.847
Solomon 10.935
Lehninger 10.891
Nozaki 10.716
DTASelect 10.54
Thurlkill 10.701
EMBOSS 11.096
Sillero 10.73
Patrickios 10.613
IPC_peptide 10.935
IPC2_peptide 9.853
IPC2.peptide.svr19 8.58
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
1027
0
1027
349599
30
1533
340.4
37.74
Amino acid frequency
Ala
Cys
Asp
Glu
Phe
Gly
His
Ile
Lys
Leu
10.124 ± 0.093
1.91 ± 0.041
4.528 ± 0.05
5.981 ± 0.082
4.452 ± 0.061
6.957 ± 0.073
2.757 ± 0.05
4.907 ± 0.065
3.979 ± 0.064
10.152 ± 0.073
Met
Asn
Gln
Pro
Arg
Ser
Thr
Val
Trp
Tyr
2.092 ± 0.036
2.48 ± 0.036
4.203 ± 0.057
3.845 ± 0.046
7.431 ± 0.077
6.622 ± 0.068
5.299 ± 0.049
8.26 ± 0.081
0.977 ± 0.025
3.033 ± 0.039
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