Amino acid dipepetide frequency for Sodalis sp. TME1

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.

	Ala	Cys	Asp	Glu	Phe	Gly	His	Ile	Lys	Leu	Met	Asn	Pro	Gln	Arg	Ser	Thr	Val	Trp	Tyr	Xaa
Ala	11.799AlaAla: 11.799 ± 0.174	1.219AlaCys: 1.219 ± 0.045	5.587AlaAsp: 5.587 ± 0.105	5.951AlaGlu: 5.951 ± 0.112	3.507AlaPhe: 3.507 ± 0.105	8.257AlaGly: 8.257 ± 0.143	2.054AlaHis: 2.054 ± 0.064	5.836AlaIle: 5.836 ± 0.103	3.688AlaLys: 3.688 ± 0.088	13.21AlaLeu: 13.21 ± 0.165	3.068AlaMet: 3.068 ± 0.071	3.027AlaAsn: 3.027 ± 0.072	4.185AlaPro: 4.185 ± 0.088	4.855AlaGln: 4.855 ± 0.11	6.733AlaArg: 6.733 ± 0.12	5.287AlaSer: 5.287 ± 0.096	4.811AlaThr: 4.811 ± 0.096	6.962AlaVal: 6.962 ± 0.131	1.4AlaTrp: 1.4 ± 0.053	2.354AlaTyr: 2.354 ± 0.075	0.002AlaXaa: 0.002 ± 0.002
Cys	1.094CysAla: 1.094 ± 0.041	0.208CysCys: 0.208 ± 0.021	0.613CysAsp: 0.613 ± 0.037	0.574CysGlu: 0.574 ± 0.033	0.361CysPhe: 0.361 ± 0.025	1.023CysGly: 1.023 ± 0.046	0.398CysHis: 0.398 ± 0.024	0.579CysIle: 0.579 ± 0.035	0.288CysLys: 0.288 ± 0.021	1.174CysLeu: 1.174 ± 0.047	0.24CysMet: 0.24 ± 0.02	0.318CysAsn: 0.318 ± 0.024	0.572CysPro: 0.572 ± 0.028	0.51CysGln: 0.51 ± 0.03	0.867CysArg: 0.867 ± 0.041	0.593CysSer: 0.593 ± 0.034	0.437CysThr: 0.437 ± 0.026	0.686CysVal: 0.686 ± 0.035	0.171CysTrp: 0.171 ± 0.017	0.41CysTyr: 0.41 ± 0.027	0.002CysXaa: 0.002 ± 0.002
Asp	5.662AspAla: 5.662 ± 0.105	0.568AspCys: 0.568 ± 0.031	3.274AspAsp: 3.274 ± 0.093	3.466AspGlu: 3.466 ± 0.074	2.135AspPhe: 2.135 ± 0.059	4.091AspGly: 4.091 ± 0.083	1.13AspHis: 1.13 ± 0.04	3.699AspIle: 3.699 ± 0.08	2.436AspLys: 2.436 ± 0.065	4.748AspLeu: 4.748 ± 0.093	1.421AspMet: 1.421 ± 0.059	2.166AspAsn: 2.166 ± 0.061	2.325AspPro: 2.325 ± 0.065	1.672AspGln: 1.672 ± 0.058	3.272AspArg: 3.272 ± 0.078	2.855AspSer: 2.855 ± 0.079	2.531AspThr: 2.531 ± 0.057	3.826AspVal: 3.826 ± 0.084	0.767AspTrp: 0.767 ± 0.039	2.032AspTyr: 2.032 ± 0.068	0.002AspXaa: 0.002 ± 0.001
Glu	5.328GluAla: 5.328 ± 0.099	0.48GluCys: 0.48 ± 0.03	2.459GluAsp: 2.459 ± 0.068	3.073GluGlu: 3.073 ± 0.086	1.755GluPhe: 1.755 ± 0.066	3.558GluGly: 3.558 ± 0.096	1.363GluHis: 1.363 ± 0.049	3.278GluIle: 3.278 ± 0.076	2.945GluLys: 2.945 ± 0.081	5.608GluLeu: 5.608 ± 0.118	1.741GluMet: 1.741 ± 0.055	1.967GluAsn: 1.967 ± 0.063	1.922GluPro: 1.922 ± 0.061	3.342GluGln: 3.342 ± 0.084	4.13GluArg: 4.13 ± 0.101	2.581GluSer: 2.581 ± 0.075	2.887GluThr: 2.887 ± 0.075	3.752GluVal: 3.752 ± 0.091	0.677GluTrp: 0.677 ± 0.038	1.348GluTyr: 1.348 ± 0.055	0.002GluXaa: 0.002 ± 0.002
Phe	3.551PheAla: 3.551 ± 0.085	0.584PheCys: 0.584 ± 0.033	2.363PheAsp: 2.363 ± 0.063	1.599PheGlu: 1.599 ± 0.057	1.471PhePhe: 1.471 ± 0.063	2.86PheGly: 2.86 ± 0.069	0.856PheHis: 0.856 ± 0.041	2.478PheIle: 2.478 ± 0.072	1.185PheLys: 1.185 ± 0.049	3.151PheLeu: 3.151 ± 0.08	0.938PheMet: 0.938 ± 0.034	1.602PheAsn: 1.602 ± 0.063	1.455PhePro: 1.455 ± 0.047	1.171PheGln: 1.171 ± 0.048	2.007PheArg: 2.007 ± 0.056	2.876PheSer: 2.876 ± 0.083	2.226PheThr: 2.226 ± 0.067	2.414PheVal: 2.414 ± 0.082	0.538PheTrp: 0.538 ± 0.032	1.084PheTyr: 1.084 ± 0.05	0.0PheXaa: 0.0 ± 0.0
Gly	6.783GlyAla: 6.783 ± 0.133	0.981GlyCys: 0.981 ± 0.043	3.896GlyAsp: 3.896 ± 0.086	4.621GlyGlu: 4.621 ± 0.092	3.061GlyPhe: 3.061 ± 0.074	5.358GlyGly: 5.358 ± 0.117	1.727GlyHis: 1.727 ± 0.058	4.798GlyIle: 4.798 ± 0.109	3.85GlyLys: 3.85 ± 0.09	7.419GlyLeu: 7.419 ± 0.147	2.265GlyMet: 2.265 ± 0.062	2.684GlyAsn: 2.684 ± 0.081	2.18GlyPro: 2.18 ± 0.066	3.262GlyGln: 3.262 ± 0.077	4.24GlyArg: 4.24 ± 0.083	3.974GlySer: 3.974 ± 0.074	3.537GlyThr: 3.537 ± 0.078	5.598GlyVal: 5.598 ± 0.1	1.194GlyTrp: 1.194 ± 0.046	2.519GlyTyr: 2.519 ± 0.064	0.0GlyXaa: 0.0 ± 0.0
His	2.121HisAla: 2.121 ± 0.058	0.37HisCys: 0.37 ± 0.026	1.199HisAsp: 1.199 ± 0.044	1.114HisGlu: 1.114 ± 0.041	1.114HisPhe: 1.114 ± 0.046	1.824HisGly: 1.824 ± 0.061	0.817HisHis: 0.817 ± 0.039	1.364HisIle: 1.364 ± 0.051	0.753HisLys: 0.753 ± 0.038	2.423HisLeu: 2.423 ± 0.071	0.57HisMet: 0.57 ± 0.031	0.837HisAsn: 0.837 ± 0.033	1.43HisPro: 1.43 ± 0.051	1.256HisGln: 1.256 ± 0.05	1.471HisArg: 1.471 ± 0.054	1.217HisSer: 1.217 ± 0.049	1.037HisThr: 1.037 ± 0.04	1.359HisVal: 1.359 ± 0.05	0.412HisTrp: 0.412 ± 0.031	0.981HisTyr: 0.981 ± 0.047	0.002HisXaa: 0.002 ± 0.002
Ile	6.528IleAla: 6.528 ± 0.119	0.625IleCys: 0.625 ± 0.031	3.661IleAsp: 3.661 ± 0.093	3.123IleGlu: 3.123 ± 0.078	1.913IlePhe: 1.913 ± 0.066	4.571IleGly: 4.571 ± 0.091	1.206IleHis: 1.206 ± 0.049	3.356IleIle: 3.356 ± 0.091	2.329IleLys: 2.329 ± 0.07	4.789IleLeu: 4.789 ± 0.094	1.27IleMet: 1.27 ± 0.048	2.366IleAsn: 2.366 ± 0.071	2.503IlePro: 2.503 ± 0.062	1.844IleGln: 1.844 ± 0.048	3.32IleArg: 3.32 ± 0.088	3.565IleSer: 3.565 ± 0.088	3.5IleThr: 3.5 ± 0.076	3.709IleVal: 3.709 ± 0.086	0.636IleTrp: 0.636 ± 0.029	1.485IleTyr: 1.485 ± 0.055	0.002IleXaa: 0.002 ± 0.002
Lys	3.93LysAla: 3.93 ± 0.086	0.234LysCys: 0.234 ± 0.019	2.0LysAsp: 2.0 ± 0.063	2.126LysGlu: 2.126 ± 0.073	1.077LysPhe: 1.077 ± 0.044	2.73LysGly: 2.73 ± 0.077	0.796LysHis: 0.796 ± 0.038	2.263LysIle: 2.263 ± 0.06	2.009LysLys: 2.009 ± 0.07	3.922LysLeu: 3.922 ± 0.087	1.137LysMet: 1.137 ± 0.039	1.48LysAsn: 1.48 ± 0.053	1.844LysPro: 1.844 ± 0.06	1.991LysGln: 1.991 ± 0.066	2.814LysArg: 2.814 ± 0.07	2.174LysSer: 2.174 ± 0.076	2.37LysThr: 2.37 ± 0.063	2.761LysVal: 2.761 ± 0.088	0.439LysTrp: 0.439 ± 0.027	1.013LysTyr: 1.013 ± 0.041	0.002LysXaa: 0.002 ± 0.002
Leu	12.54LeuAla: 12.54 ± 0.175	1.395LeuCys: 1.395 ± 0.053	5.742LeuAsp: 5.742 ± 0.101	5.452LeuGlu: 5.452 ± 0.115	3.949LeuPhe: 3.949 ± 0.092	7.387LeuGly: 7.387 ± 0.132	2.425LeuHis: 2.425 ± 0.064	5.793LeuIle: 5.793 ± 0.121	4.162LeuLys: 4.162 ± 0.087	12.393LeuLeu: 12.393 ± 0.221	2.995LeuMet: 2.995 ± 0.075	3.917LeuAsn: 3.917 ± 0.093	5.878LeuPro: 5.878 ± 0.095	4.448LeuGln: 4.448 ± 0.088	6.957LeuArg: 6.957 ± 0.127	7.358LeuSer: 7.358 ± 0.134	6.573LeuThr: 6.573 ± 0.118	6.928LeuVal: 6.928 ± 0.117	1.315LeuTrp: 1.315 ± 0.053	2.72LeuTyr: 2.72 ± 0.076	0.004LeuXaa: 0.004 ± 0.002
Met	3.127MetAla: 3.127 ± 0.078	0.195MetCys: 0.195 ± 0.02	1.242MetAsp: 1.242 ± 0.052	1.165MetGlu: 1.165 ± 0.05	0.814MetPhe: 0.814 ± 0.041	1.76MetGly: 1.76 ± 0.053	0.552MetHis: 0.552 ± 0.029	1.441MetIle: 1.441 ± 0.053	1.387MetLys: 1.387 ± 0.046	3.212MetLeu: 3.212 ± 0.085	0.911MetMet: 0.911 ± 0.04	1.05MetAsn: 1.05 ± 0.045	1.286MetPro: 1.286 ± 0.049	1.18MetGln: 1.18 ± 0.049	1.64MetArg: 1.64 ± 0.056	1.673MetSer: 1.673 ± 0.056	1.778MetThr: 1.778 ± 0.055	1.913MetVal: 1.913 ± 0.05	0.206MetTrp: 0.206 ± 0.019	0.476MetTyr: 0.476 ± 0.029	0.0MetXaa: 0.0 ± 0.0
Asn	3.358AsnAla: 3.358 ± 0.069	0.281AsnCys: 0.281 ± 0.022	2.062AsnAsp: 2.062 ± 0.057	1.784AsnGlu: 1.784 ± 0.053	1.187AsnPhe: 1.187 ± 0.043	2.873AsnGly: 2.873 ± 0.083	0.828AsnHis: 0.828 ± 0.04	2.075AsnIle: 2.075 ± 0.07	1.412AsnLys: 1.412 ± 0.057	3.304AsnLeu: 3.304 ± 0.093	0.835AsnMet: 0.835 ± 0.042	1.302AsnAsn: 1.302 ± 0.052	1.94AsnPro: 1.94 ± 0.058	1.538AsnGln: 1.538 ± 0.055	2.132AsnArg: 2.132 ± 0.068	1.657AsnSer: 1.657 ± 0.06	1.713AsnThr: 1.713 ± 0.061	2.347AsnVal: 2.347 ± 0.072	0.464AsnTrp: 0.464 ± 0.026	1.025AsnTyr: 1.025 ± 0.047	0.0AsnXaa: 0.0 ± 0.0
Pro	5.29ProAla: 5.29 ± 0.103	0.432ProCys: 0.432 ± 0.028	2.851ProAsp: 2.851 ± 0.069	2.972ProGlu: 2.972 ± 0.072	1.883ProPhe: 1.883 ± 0.062	3.416ProGly: 3.416 ± 0.08	1.135ProHis: 1.135 ± 0.044	1.942ProIle: 1.942 ± 0.065	1.309ProLys: 1.309 ± 0.047	5.402ProLeu: 5.402 ± 0.1	1.109ProMet: 1.109 ± 0.044	1.224ProAsn: 1.224 ± 0.045	2.251ProPro: 2.251 ± 0.07	2.135ProGln: 2.135 ± 0.062	2.373ProArg: 2.373 ± 0.061	2.492ProSer: 2.492 ± 0.066	2.086ProThr: 2.086 ± 0.052	3.663ProVal: 3.663 ± 0.088	0.739ProTrp: 0.739 ± 0.037	1.283ProTyr: 1.283 ± 0.051	0.004ProXaa: 0.004 ± 0.002
Gln	5.299GlnAla: 5.299 ± 0.097	0.389GlnCys: 0.389 ± 0.024	2.164GlnAsp: 2.164 ± 0.068	2.205GlnGlu: 2.205 ± 0.064	1.402GlnPhe: 1.402 ± 0.045	3.365GlnGly: 3.365 ± 0.079	1.267GlnHis: 1.267 ± 0.05	2.114GlnIle: 2.114 ± 0.06	1.577GlnLys: 1.577 ± 0.05	4.983GlnLeu: 4.983 ± 0.099	1.238GlnMet: 1.238 ± 0.043	1.231GlnAsn: 1.231 ± 0.045	2.391GlnPro: 2.391 ± 0.072	3.201GlnGln: 3.201 ± 0.108	3.665GlnArg: 3.665 ± 0.091	2.382GlnSer: 2.382 ± 0.073	2.366GlnThr: 2.366 ± 0.072	3.137GlnVal: 3.137 ± 0.07	0.666GlnTrp: 0.666 ± 0.035	1.126GlnTyr: 1.126 ± 0.043	0.0GlnXaa: 0.0 ± 0.0
Arg	5.841ArgAla: 5.841 ± 0.11	0.725ArgCys: 0.725 ± 0.038	3.475ArgAsp: 3.475 ± 0.087	3.931ArgGlu: 3.931 ± 0.096	2.773ArgPhe: 2.773 ± 0.067	3.992ArgGly: 3.992 ± 0.089	2.045ArgHis: 2.045 ± 0.057	3.588ArgIle: 3.588 ± 0.075	2.356ArgLys: 2.356 ± 0.063	7.584ArgLeu: 7.584 ± 0.117	1.816ArgMet: 1.816 ± 0.062	1.958ArgAsn: 1.958 ± 0.057	2.782ArgPro: 2.782 ± 0.089	4.061ArgGln: 4.061 ± 0.083	4.969ArgArg: 4.969 ± 0.099	2.921ArgSer: 2.921 ± 0.079	2.649ArgThr: 2.649 ± 0.066	4.4ArgVal: 4.4 ± 0.096	1.029ArgTrp: 1.029 ± 0.048	2.457ArgTyr: 2.457 ± 0.083	0.002ArgXaa: 0.002 ± 0.002
Ser	5.907SerAla: 5.907 ± 0.113	0.545SerCys: 0.545 ± 0.028	2.874SerAsp: 2.874 ± 0.078	2.883SerGlu: 2.883 ± 0.076	2.062SerPhe: 2.062 ± 0.062	4.99SerGly: 4.99 ± 0.095	1.439SerHis: 1.439 ± 0.052	2.78SerIle: 2.78 ± 0.066	1.862SerLys: 1.862 ± 0.057	6.543SerLeu: 6.543 ± 0.133	1.395SerMet: 1.395 ± 0.047	1.624SerAsn: 1.624 ± 0.063	2.537SerPro: 2.537 ± 0.062	2.512SerGln: 2.512 ± 0.073	3.718SerArg: 3.718 ± 0.089	3.116SerSer: 3.116 ± 0.08	2.736SerThr: 2.736 ± 0.079	3.976SerVal: 3.976 ± 0.076	0.732SerTrp: 0.732 ± 0.037	1.53SerTyr: 1.53 ± 0.054	0.0SerXaa: 0.0 ± 0.0
Thr	4.997ThrAla: 4.997 ± 0.089	0.497ThrCys: 0.497 ± 0.029	2.603ThrAsp: 2.603 ± 0.074	2.515ThrGlu: 2.515 ± 0.071	1.945ThrPhe: 1.945 ± 0.059	4.445ThrGly: 4.445 ± 0.096	1.172ThrHis: 1.172 ± 0.043	2.491ThrIle: 2.491 ± 0.075	1.382ThrLys: 1.382 ± 0.053	7.886ThrLeu: 7.886 ± 0.127	1.077ThrMet: 1.077 ± 0.039	1.37ThrAsn: 1.37 ± 0.047	3.405ThrPro: 3.405 ± 0.088	2.061ThrGln: 2.061 ± 0.057	3.354ThrArg: 3.354 ± 0.077	2.53ThrSer: 2.53 ± 0.061	2.716ThrThr: 2.716 ± 0.07	3.816ThrVal: 3.816 ± 0.086	0.6ThrTrp: 0.6 ± 0.034	1.149ThrTyr: 1.149 ± 0.05	0.002ThrXaa: 0.002 ± 0.002
Val	7.31ValAla: 7.31 ± 0.14	0.759ValCys: 0.759 ± 0.035	3.953ValAsp: 3.953 ± 0.073	3.919ValGlu: 3.919 ± 0.085	2.34ValPhe: 2.34 ± 0.062	4.507ValGly: 4.507 ± 0.104	1.183ValHis: 1.183 ± 0.047	4.395ValIle: 4.395 ± 0.089	2.981ValLys: 2.981 ± 0.073	7.152ValLeu: 7.152 ± 0.122	2.082ValMet: 2.082 ± 0.068	2.734ValAsn: 2.734 ± 0.078	3.07ValPro: 3.07 ± 0.079	2.382ValGln: 2.382 ± 0.067	4.072ValArg: 4.072 ± 0.089	4.287ValSer: 4.287 ± 0.092	4.232ValThr: 4.232 ± 0.092	5.461ValVal: 5.461 ± 0.112	0.823ValTrp: 0.823 ± 0.044	1.668ValTyr: 1.668 ± 0.058	0.004ValXaa: 0.004 ± 0.003
Trp	0.91TrpAla: 0.91 ± 0.042	0.171TrpCys: 0.171 ± 0.017	0.558TrpAsp: 0.558 ± 0.036	0.551TrpGlu: 0.551 ± 0.031	0.551TrpPhe: 0.551 ± 0.033	0.769TrpGly: 0.769 ± 0.036	0.469TrpHis: 0.469 ± 0.031	0.668TrpIle: 0.668 ± 0.035	0.389TrpLys: 0.389 ± 0.028	2.123TrpLeu: 2.123 ± 0.075	0.341TrpMet: 0.341 ± 0.026	0.348TrpAsn: 0.348 ± 0.028	0.636TrpPro: 0.636 ± 0.034	1.039TrpGln: 1.039 ± 0.049	1.26TrpArg: 1.26 ± 0.048	0.684TrpSer: 0.684 ± 0.036	0.48TrpThr: 0.48 ± 0.026	0.942TrpVal: 0.942 ± 0.045	0.183TrpTrp: 0.183 ± 0.018	0.35TrpTyr: 0.35 ± 0.026	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.412TyrAla: 2.412 ± 0.069	0.46TyrCys: 0.46 ± 0.03	1.505TyrAsp: 1.505 ± 0.056	1.169TyrGlu: 1.169 ± 0.051	1.112TyrPhe: 1.112 ± 0.046	2.167TyrGly: 2.167 ± 0.063	0.81TyrHis: 0.81 ± 0.037	1.363TyrIle: 1.363 ± 0.051	0.812TyrLys: 0.812 ± 0.049	3.301TyrLeu: 3.301 ± 0.079	0.554TyrMet: 0.554 ± 0.029	0.911TyrAsn: 0.911 ± 0.037	1.393TyrPro: 1.393 ± 0.056	1.707TyrGln: 1.707 ± 0.059	2.356TyrArg: 2.356 ± 0.063	1.537TyrSer: 1.537 ± 0.052	1.35TyrThr: 1.35 ± 0.053	1.659TyrVal: 1.659 ± 0.052	0.43TyrTrp: 0.43 ± 0.028	0.844TyrTyr: 0.844 ± 0.039	0.002TyrXaa: 0.002 ± 0.002
Xaa	0.004XaaAla: 0.004 ± 0.002	0.0XaaCys: 0.0 ± 0.0	0.0XaaAsp: 0.0 ± 0.0	0.002XaaGlu: 0.002 ± 0.002	0.0XaaPhe: 0.0 ± 0.0	0.0XaaGly: 0.0 ± 0.0	0.0XaaHis: 0.0 ± 0.0	0.004XaaIle: 0.004 ± 0.002	0.0XaaLys: 0.0 ± 0.0	0.002XaaLeu: 0.002 ± 0.002	0.005XaaMet: 0.005 ± 0.003	0.002XaaAsn: 0.002 ± 0.002	0.005XaaPro: 0.005 ± 0.003	0.002XaaGln: 0.002 ± 0.002	0.002XaaArg: 0.002 ± 0.001	0.0XaaSer: 0.0 ± 0.0	0.0XaaThr: 0.0 ± 0.0	0.002XaaVal: 0.002 ± 0.002	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.032XaaXaa: 0.032 ± 0.009

Statistics based on 2289 proteins (562918 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

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

---