Amino acid dipepetide frequency for Sphingomonas sp. AP4-R1

Apart from single amino acid frequencies one can also calculate so called amino acid dipeptide frequency.

There is 400 possibilites (441 if we consider Xaa as additional 21st amino acid representing all non-standard or unknown amino acids). Thus, if the dipeptides would be present randomly in proteins each amino acid dipeptide should be present with 0.25% frequency. As it is not the case in the nature, for better visablity all more than expected dipepetides are marked by red, and those which are underrepresented are marked by blue in the table.

All values are presented as per milles (‰), therefore need to be multiplied by 10-3.

For more information see sequence space article on Wikipedia.

AlaCysAspGluPheGlyHisIleLysLeuMetAsnProGlnArgSerThrValTrpTyrXaa
Ala
19.913AlaAla: 19.913 ± 0.184
1.026AlaCys: 1.026 ± 0.03
7.714AlaAsp: 7.714 ± 0.082
7.362AlaGlu: 7.362 ± 0.089
4.464AlaPhe: 4.464 ± 0.052
11.942AlaGly: 11.942 ± 0.128
2.438AlaHis: 2.438 ± 0.042
7.278AlaIle: 7.278 ± 0.083
4.054AlaLys: 4.054 ± 0.057
14.235AlaLeu: 14.235 ± 0.128
3.773AlaMet: 3.773 ± 0.063
3.091AlaAsn: 3.091 ± 0.051
6.918AlaPro: 6.918 ± 0.098
4.199AlaGln: 4.199 ± 0.056
9.974AlaArg: 9.974 ± 0.092
7.109AlaSer: 7.109 ± 0.089
7.498AlaThr: 7.498 ± 0.101
8.559AlaVal: 8.559 ± 0.081
1.646AlaTrp: 1.646 ± 0.04
2.682AlaTyr: 2.682 ± 0.041
0.0AlaXaa: 0.0 ± 0.0
Cys
0.907CysAla: 0.907 ± 0.028
0.094CysCys: 0.094 ± 0.009
0.44CysAsp: 0.44 ± 0.02
0.327CysGlu: 0.327 ± 0.013
0.245CysPhe: 0.245 ± 0.014
0.78CysGly: 0.78 ± 0.025
0.199CysHis: 0.199 ± 0.016
0.3CysIle: 0.3 ± 0.014
0.123CysLys: 0.123 ± 0.009
0.67CysLeu: 0.67 ± 0.02
0.128CysMet: 0.128 ± 0.01
0.159CysAsn: 0.159 ± 0.01
0.413CysPro: 0.413 ± 0.019
0.179CysGln: 0.179 ± 0.011
0.553CysArg: 0.553 ± 0.019
0.417CysSer: 0.417 ± 0.018
0.377CysThr: 0.377 ± 0.015
0.539CysVal: 0.539 ± 0.02
0.112CysTrp: 0.112 ± 0.01
0.176CysTyr: 0.176 ± 0.012
0.0CysXaa: 0.0 ± 0.0
Asp
7.684AspAla: 7.684 ± 0.089
0.415AspCys: 0.415 ± 0.016
3.098AspAsp: 3.098 ± 0.047
3.059AspGlu: 3.059 ± 0.053
2.001AspPhe: 2.001 ± 0.038
5.708AspGly: 5.708 ± 0.073
1.427AspHis: 1.427 ± 0.035
2.818AspIle: 2.818 ± 0.047
1.524AspLys: 1.524 ± 0.035
5.87AspLeu: 5.87 ± 0.067
1.285AspMet: 1.285 ± 0.032
1.233AspAsn: 1.233 ± 0.036
3.982AspPro: 3.982 ± 0.057
1.888AspGln: 1.888 ± 0.038
5.105AspArg: 5.105 ± 0.071
2.096AspSer: 2.096 ± 0.04
2.623AspThr: 2.623 ± 0.039
4.144AspVal: 4.144 ± 0.055
1.065AspTrp: 1.065 ± 0.029
1.614AspTyr: 1.614 ± 0.035
0.0AspXaa: 0.0 ± 0.0
Glu
7.494GluAla: 7.494 ± 0.094
0.261GluCys: 0.261 ± 0.012
2.536GluAsp: 2.536 ± 0.047
2.725GluGlu: 2.725 ± 0.058
1.282GluPhe: 1.282 ± 0.034
4.372GluGly: 4.372 ± 0.057
1.015GluHis: 1.015 ± 0.028
2.775GluIle: 2.775 ± 0.046
1.776GluLys: 1.776 ± 0.041
4.52GluLeu: 4.52 ± 0.058
1.348GluMet: 1.348 ± 0.031
1.135GluAsn: 1.135 ± 0.028
2.515GluPro: 2.515 ± 0.043
1.949GluGln: 1.949 ± 0.043
4.705GluArg: 4.705 ± 0.069
2.041GluSer: 2.041 ± 0.038
3.145GluThr: 3.145 ± 0.051
3.238GluVal: 3.238 ± 0.054
0.706GluTrp: 0.706 ± 0.023
0.845GluTyr: 0.845 ± 0.027
0.0GluXaa: 0.0 ± 0.0
Phe
4.723PheAla: 4.723 ± 0.05
0.302PheCys: 0.302 ± 0.016
2.613PheAsp: 2.613 ± 0.042
1.816PheGlu: 1.816 ± 0.039
1.219PhePhe: 1.219 ± 0.034
3.662PheGly: 3.662 ± 0.053
0.714PheHis: 0.714 ± 0.022
1.289PheIle: 1.289 ± 0.032
0.78PheLys: 0.78 ± 0.027
3.097PheLeu: 3.097 ± 0.051
0.649PheMet: 0.649 ± 0.019
0.989PheAsn: 0.989 ± 0.028
1.515PhePro: 1.515 ± 0.029
0.923PheGln: 0.923 ± 0.025
2.217PheArg: 2.217 ± 0.038
2.055PheSer: 2.055 ± 0.041
2.06PheThr: 2.06 ± 0.04
2.669PheVal: 2.669 ± 0.041
0.479PheTrp: 0.479 ± 0.02
0.911PheTyr: 0.911 ± 0.028
0.0PheXaa: 0.0 ± 0.0
Gly
10.675GlyAla: 10.675 ± 0.118
0.744GlyCys: 0.744 ± 0.025
4.867GlyAsp: 4.867 ± 0.068
4.618GlyGlu: 4.618 ± 0.057
3.679GlyPhe: 3.679 ± 0.052
8.612GlyGly: 8.612 ± 0.14
1.994GlyHis: 1.994 ± 0.039
4.525GlyIle: 4.525 ± 0.057
3.08GlyLys: 3.08 ± 0.059
8.949GlyLeu: 8.949 ± 0.089
2.255GlyMet: 2.255 ± 0.04
2.26GlyAsn: 2.26 ± 0.045
3.763GlyPro: 3.763 ± 0.056
3.044GlyGln: 3.044 ± 0.056
6.85GlyArg: 6.85 ± 0.072
5.072GlySer: 5.072 ± 0.075
5.319GlyThr: 5.319 ± 0.119
6.389GlyVal: 6.389 ± 0.066
1.634GlyTrp: 1.634 ± 0.033
2.363GlyTyr: 2.363 ± 0.043
0.0GlyXaa: 0.0 ± 0.0
His
2.407HisAla: 2.407 ± 0.041
0.185HisCys: 0.185 ± 0.012
1.273HisAsp: 1.273 ± 0.03
0.909HisGlu: 0.909 ± 0.025
0.775HisPhe: 0.775 ± 0.024
1.946HisGly: 1.946 ± 0.039
0.517HisHis: 0.517 ± 0.019
0.903HisIle: 0.903 ± 0.028
0.437HisLys: 0.437 ± 0.016
1.92HisLeu: 1.92 ± 0.041
0.481HisMet: 0.481 ± 0.019
0.413HisAsn: 0.413 ± 0.018
1.311HisPro: 1.311 ± 0.032
0.576HisGln: 0.576 ± 0.02
1.493HisArg: 1.493 ± 0.03
0.903HisSer: 0.903 ± 0.025
0.727HisThr: 0.727 ± 0.02
1.581HisVal: 1.581 ± 0.032
0.364HisTrp: 0.364 ± 0.015
0.577HisTyr: 0.577 ± 0.018
0.0HisXaa: 0.0 ± 0.0
Ile
7.955IleAla: 7.955 ± 0.078
0.405IleCys: 0.405 ± 0.019
3.923IleAsp: 3.923 ± 0.05
3.435IleGlu: 3.435 ± 0.056
1.5IlePhe: 1.5 ± 0.033
5.498IleGly: 5.498 ± 0.065
0.871IleHis: 0.871 ± 0.026
1.845IleIle: 1.845 ± 0.037
1.114IleLys: 1.114 ± 0.033
4.245IleLeu: 4.245 ± 0.066
0.794IleMet: 0.794 ± 0.023
1.282IleAsn: 1.282 ± 0.031
2.239IlePro: 2.239 ± 0.042
1.208IleGln: 1.208 ± 0.031
3.304IleArg: 3.304 ± 0.044
2.752IleSer: 2.752 ± 0.05
2.679IleThr: 2.679 ± 0.053
4.506IleVal: 4.506 ± 0.053
0.598IleTrp: 0.598 ± 0.023
0.975IleTyr: 0.975 ± 0.028
0.0IleXaa: 0.0 ± 0.0
Lys
4.043LysAla: 4.043 ± 0.062
0.122LysCys: 0.122 ± 0.01
1.508LysAsp: 1.508 ± 0.04
1.104LysGlu: 1.104 ± 0.031
0.702LysPhe: 0.702 ± 0.027
2.563LysGly: 2.563 ± 0.041
0.441LysHis: 0.441 ± 0.019
1.445LysIle: 1.445 ± 0.034
0.952LysLys: 0.952 ± 0.033
2.971LysLeu: 2.971 ± 0.047
0.677LysMet: 0.677 ± 0.023
0.669LysAsn: 0.669 ± 0.026
2.0LysPro: 2.0 ± 0.045
0.818LysGln: 0.818 ± 0.025
2.031LysArg: 2.031 ± 0.04
1.512LysSer: 1.512 ± 0.038
1.731LysThr: 1.731 ± 0.033
2.086LysVal: 2.086 ± 0.043
0.373LysTrp: 0.373 ± 0.015
0.508LysTyr: 0.508 ± 0.017
0.0LysXaa: 0.0 ± 0.0
Leu
14.43LeuAla: 14.43 ± 0.153
0.755LeuCys: 0.755 ± 0.027
6.16LeuAsp: 6.16 ± 0.072
4.339LeuGlu: 4.339 ± 0.062
3.621LeuPhe: 3.621 ± 0.055
8.492LeuGly: 8.492 ± 0.08
1.803LeuHis: 1.803 ± 0.035
5.056LeuIle: 5.056 ± 0.066
2.834LeuLys: 2.834 ± 0.05
9.589LeuLeu: 9.589 ± 0.113
1.987LeuMet: 1.987 ± 0.038
2.293LeuAsn: 2.293 ± 0.038
5.803LeuPro: 5.803 ± 0.068
2.482LeuGln: 2.482 ± 0.049
6.879LeuArg: 6.879 ± 0.073
6.25LeuSer: 6.25 ± 0.073
5.721LeuThr: 5.721 ± 0.104
7.134LeuVal: 7.134 ± 0.07
1.194LeuTrp: 1.194 ± 0.029
1.997LeuTyr: 1.997 ± 0.037
0.0LeuXaa: 0.0 ± 0.0
Met
3.174MetAla: 3.174 ± 0.049
0.139MetCys: 0.139 ± 0.009
0.986MetAsp: 0.986 ± 0.024
0.986MetGlu: 0.986 ± 0.028
0.655MetPhe: 0.655 ± 0.02
1.745MetGly: 1.745 ± 0.036
0.373MetHis: 0.373 ± 0.015
1.43MetIle: 1.43 ± 0.032
0.835MetLys: 0.835 ± 0.026
2.541MetLeu: 2.541 ± 0.042
0.705MetMet: 0.705 ± 0.025
0.594MetAsn: 0.594 ± 0.021
1.526MetPro: 1.526 ± 0.031
0.621MetGln: 0.621 ± 0.022
1.771MetArg: 1.771 ± 0.032
1.453MetSer: 1.453 ± 0.032
1.631MetThr: 1.631 ± 0.031
1.435MetVal: 1.435 ± 0.031
0.227MetTrp: 0.227 ± 0.013
0.233MetTyr: 0.233 ± 0.012
0.0MetXaa: 0.0 ± 0.0
Asn
3.147AsnAla: 3.147 ± 0.063
0.193AsnCys: 0.193 ± 0.014
1.34AsnAsp: 1.34 ± 0.032
1.063AsnGlu: 1.063 ± 0.026
0.907AsnPhe: 0.907 ± 0.031
2.436AsnGly: 2.436 ± 0.061
0.44AsnHis: 0.44 ± 0.016
1.254AsnIle: 1.254 ± 0.03
0.572AsnLys: 0.572 ± 0.023
2.471AsnLeu: 2.471 ± 0.051
0.514AsnMet: 0.514 ± 0.018
0.718AsnAsn: 0.718 ± 0.026
1.677AsnPro: 1.677 ± 0.032
0.696AsnGln: 0.696 ± 0.024
1.746AsnArg: 1.746 ± 0.035
1.256AsnSer: 1.256 ± 0.033
1.213AsnThr: 1.213 ± 0.039
1.879AsnVal: 1.879 ± 0.04
0.387AsnTrp: 0.387 ± 0.018
0.706AsnTyr: 0.706 ± 0.025
0.0AsnXaa: 0.0 ± 0.0
Pro
7.686ProAla: 7.686 ± 0.089
0.299ProCys: 0.299 ± 0.014
3.871ProAsp: 3.871 ± 0.061
3.365ProGlu: 3.365 ± 0.047
1.927ProPhe: 1.927 ± 0.035
4.905ProGly: 4.905 ± 0.069
1.109ProHis: 1.109 ± 0.03
2.755ProIle: 2.755 ± 0.045
1.63ProLys: 1.63 ± 0.031
5.026ProLeu: 5.026 ± 0.064
1.143ProMet: 1.143 ± 0.032
1.369ProAsn: 1.369 ± 0.032
3.062ProPro: 3.062 ± 0.068
1.632ProGln: 1.632 ± 0.039
3.099ProArg: 3.099 ± 0.048
2.929ProSer: 2.929 ± 0.047
2.873ProThr: 2.873 ± 0.045
4.328ProVal: 4.328 ± 0.055
0.683ProTrp: 0.683 ± 0.023
1.172ProTyr: 1.172 ± 0.033
0.0ProXaa: 0.0 ± 0.0
Gln
4.198GlnAla: 4.198 ± 0.059
0.186GlnCys: 0.186 ± 0.01
1.342GlnAsp: 1.342 ± 0.029
1.198GlnGlu: 1.198 ± 0.029
0.993GlnPhe: 0.993 ± 0.026
2.394GlnGly: 2.394 ± 0.039
0.58GlnHis: 0.58 ± 0.02
1.859GlnIle: 1.859 ± 0.043
0.865GlnLys: 0.865 ± 0.023
2.943GlnLeu: 2.943 ± 0.048
0.774GlnMet: 0.774 ± 0.024
0.782GlnAsn: 0.782 ± 0.025
1.849GlnPro: 1.849 ± 0.038
1.119GlnGln: 1.119 ± 0.033
2.449GlnArg: 2.449 ± 0.045
1.733GlnSer: 1.733 ± 0.039
1.831GlnThr: 1.831 ± 0.042
2.15GlnVal: 2.15 ± 0.036
0.381GlnTrp: 0.381 ± 0.016
0.596GlnTyr: 0.596 ± 0.022
0.0GlnXaa: 0.0 ± 0.0
Arg
9.144ArgAla: 9.144 ± 0.088
0.482ArgCys: 0.482 ± 0.021
4.335ArgAsp: 4.335 ± 0.06
3.771ArgGlu: 3.771 ± 0.057
3.088ArgPhe: 3.088 ± 0.047
5.164ArgGly: 5.164 ± 0.056
1.634ArgHis: 1.634 ± 0.036
4.378ArgIle: 4.378 ± 0.057
1.916ArgLys: 1.916 ± 0.039
8.34ArgLeu: 8.34 ± 0.094
1.991ArgMet: 1.991 ± 0.038
1.719ArgAsn: 1.719 ± 0.033
3.939ArgPro: 3.939 ± 0.064
2.434ArgGln: 2.434 ± 0.045
6.086ArgArg: 6.086 ± 0.073
3.91ArgSer: 3.91 ± 0.053
3.843ArgThr: 3.843 ± 0.046
4.793ArgVal: 4.793 ± 0.063
1.239ArgTrp: 1.239 ± 0.03
1.889ArgTyr: 1.889 ± 0.035
0.0ArgXaa: 0.0 ± 0.0
Ser
7.03SerAla: 7.03 ± 0.088
0.372SerCys: 0.372 ± 0.016
3.024SerAsp: 3.024 ± 0.045
2.434SerGlu: 2.434 ± 0.046
2.237SerPhe: 2.237 ± 0.035
5.733SerGly: 5.733 ± 0.088
1.003SerHis: 1.003 ± 0.023
2.836SerIle: 2.836 ± 0.053
1.364SerLys: 1.364 ± 0.033
5.405SerLeu: 5.405 ± 0.071
1.1SerMet: 1.1 ± 0.028
1.415SerAsn: 1.415 ± 0.035
2.928SerPro: 2.928 ± 0.048
1.568SerGln: 1.568 ± 0.035
3.642SerArg: 3.642 ± 0.046
2.997SerSer: 2.997 ± 0.058
2.817SerThr: 2.817 ± 0.053
3.883SerVal: 3.883 ± 0.053
0.807SerTrp: 0.807 ± 0.025
1.462SerTyr: 1.462 ± 0.04
0.0SerXaa: 0.0 ± 0.0
Thr
6.989ThrAla: 6.989 ± 0.107
0.365ThrCys: 0.365 ± 0.018
3.08ThrAsp: 3.08 ± 0.05
2.277ThrGlu: 2.277 ± 0.042
1.963ThrPhe: 1.963 ± 0.041
5.795ThrGly: 5.795 ± 0.123
0.998ThrHis: 0.998 ± 0.026
3.399ThrIle: 3.399 ± 0.058
1.416ThrLys: 1.416 ± 0.028
6.059ThrLeu: 6.059 ± 0.096
1.161ThrMet: 1.161 ± 0.026
1.455ThrAsn: 1.455 ± 0.042
3.65ThrPro: 3.65 ± 0.054
1.508ThrGln: 1.508 ± 0.03
3.542ThrArg: 3.542 ± 0.053
2.96ThrSer: 2.96 ± 0.06
3.188ThrThr: 3.188 ± 0.073
4.322ThrVal: 4.322 ± 0.07
0.659ThrTrp: 0.659 ± 0.02
1.313ThrTyr: 1.313 ± 0.042
0.0ThrXaa: 0.0 ± 0.0
Val
10.124ValAla: 10.124 ± 0.09
0.516ValCys: 0.516 ± 0.018
4.251ValAsp: 4.251 ± 0.064
3.967ValGlu: 3.967 ± 0.051
2.074ValPhe: 2.074 ± 0.041
5.837ValGly: 5.837 ± 0.063
1.3ValHis: 1.3 ± 0.032
3.525ValIle: 3.525 ± 0.048
1.99ValLys: 1.99 ± 0.039
6.23ValLeu: 6.23 ± 0.069
1.571ValMet: 1.571 ± 0.036
1.943ValAsn: 1.943 ± 0.049
3.991ValPro: 3.991 ± 0.057
2.06ValGln: 2.06 ± 0.038
5.276ValArg: 5.276 ± 0.072
4.364ValSer: 4.364 ± 0.065
4.827ValThr: 4.827 ± 0.077
5.272ValVal: 5.272 ± 0.065
0.875ValTrp: 0.875 ± 0.024
1.344ValTyr: 1.344 ± 0.033
0.0ValXaa: 0.0 ± 0.0
Trp
1.425TrpAla: 1.425 ± 0.033
0.104TrpCys: 0.104 ± 0.008
0.711TrpAsp: 0.711 ± 0.024
0.547TrpGlu: 0.547 ± 0.018
0.517TrpPhe: 0.517 ± 0.02
0.942TrpGly: 0.942 ± 0.025
0.341TrpHis: 0.341 ± 0.016
0.704TrpIle: 0.704 ± 0.024
0.448TrpLys: 0.448 ± 0.015
1.629TrpLeu: 1.629 ± 0.037
0.36TrpMet: 0.36 ± 0.015
0.421TrpAsn: 0.421 ± 0.019
0.735TrpPro: 0.735 ± 0.026
0.587TrpGln: 0.587 ± 0.02
1.371TrpArg: 1.371 ± 0.034
0.957TrpSer: 0.957 ± 0.029
0.884TrpThr: 0.884 ± 0.022
0.8TrpVal: 0.8 ± 0.027
0.26TrpTrp: 0.26 ± 0.016
0.294TrpTyr: 0.294 ± 0.015
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.725TyrAla: 2.725 ± 0.043
0.177TyrCys: 0.177 ± 0.012
1.567TyrAsp: 1.567 ± 0.037
1.084TyrGlu: 1.084 ± 0.032
0.831TyrPhe: 0.831 ± 0.027
2.166TyrGly: 2.166 ± 0.039
0.498TyrHis: 0.498 ± 0.015
0.754TyrIle: 0.754 ± 0.026
0.546TyrLys: 0.546 ± 0.018
2.11TyrLeu: 2.11 ± 0.038
0.361TyrMet: 0.361 ± 0.017
0.677TyrAsn: 0.677 ± 0.026
1.047TyrPro: 1.047 ± 0.026
0.731TyrGln: 0.731 ± 0.023
2.002TyrArg: 2.002 ± 0.038
1.29TyrSer: 1.29 ± 0.036
1.114TyrThr: 1.114 ± 0.032
1.63TyrVal: 1.63 ± 0.035
0.348TyrTrp: 0.348 ± 0.016
0.649TyrTyr: 0.649 ± 0.024
0.0TyrXaa: 0.0 ± 0.0
Xaa
0.0XaaAla: 0.0 ± 0.0
0.0XaaCys: 0.0 ± 0.0
0.0XaaAsp: 0.0 ± 0.0
0.0XaaGlu: 0.0 ± 0.0
0.0XaaPhe: 0.0 ± 0.0
0.0XaaGly: 0.0 ± 0.0
0.0XaaHis: 0.0 ± 0.0
0.0XaaIle: 0.0 ± 0.0
0.0XaaLys: 0.0 ± 0.0
0.0XaaLeu: 0.0 ± 0.0
0.0XaaMet: 0.0 ± 0.0
0.0XaaAsn: 0.0 ± 0.0
0.0XaaPro: 0.0 ± 0.0
0.0XaaGln: 0.0 ± 0.0
0.0XaaArg: 0.0 ± 0.0
0.0XaaSer: 0.0 ± 0.0
0.0XaaThr: 0.0 ± 0.0
0.0XaaVal: 0.0 ± 0.0
0.0XaaTrp: 0.0 ± 0.0
0.0XaaTyr: 0.0 ± 0.0
0.0XaaXaa: 0.0 ± 0.0
Statistics based on 4605 proteins (1512193 amino acids)

Note: The error has been estimated with the bootstraping (x100) at the protein level

Above dipeptide statistics (among other stats for this proteome) you can download from this CSV file
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