Amino acid dipepetide frequency for Ruminococcaceae bacterium YAD3003

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	6.832AlaAla: 6.832 ± 0.123	1.234AlaCys: 1.234 ± 0.035	4.861AlaAsp: 4.861 ± 0.084	5.192AlaGlu: 5.192 ± 0.091	3.189AlaPhe: 3.189 ± 0.072	5.669AlaGly: 5.669 ± 0.082	1.02AlaHis: 1.02 ± 0.037	5.535AlaIle: 5.535 ± 0.084	5.001AlaLys: 5.001 ± 0.093	6.647AlaLeu: 6.647 ± 0.105	2.208AlaMet: 2.208 ± 0.047	2.811AlaAsn: 2.811 ± 0.063	2.504AlaPro: 2.504 ± 0.084	2.035AlaGln: 2.035 ± 0.045	2.938AlaArg: 2.938 ± 0.058	4.487AlaSer: 4.487 ± 0.074	3.588AlaThr: 3.588 ± 0.086	6.152AlaVal: 6.152 ± 0.093	0.548AlaTrp: 0.548 ± 0.025	2.709AlaTyr: 2.709 ± 0.062	0.0AlaXaa: 0.0 ± 0.0
Cys	1.221CysAla: 1.221 ± 0.043	0.265CysCys: 0.265 ± 0.018	1.035CysAsp: 1.035 ± 0.035	0.993CysGlu: 0.993 ± 0.039	0.732CysPhe: 0.732 ± 0.029	1.652CysGly: 1.652 ± 0.052	0.253CysHis: 0.253 ± 0.019	1.054CysIle: 1.054 ± 0.038	0.878CysLys: 0.878 ± 0.031	1.223CysLeu: 1.223 ± 0.043	0.373CysMet: 0.373 ± 0.024	0.704CysAsn: 0.704 ± 0.026	0.7CysPro: 0.7 ± 0.035	0.287CysGln: 0.287 ± 0.018	0.572CysArg: 0.572 ± 0.026	1.124CysSer: 1.124 ± 0.04	0.724CysThr: 0.724 ± 0.031	1.082CysVal: 1.082 ± 0.034	0.144CysTrp: 0.144 ± 0.014	0.686CysTyr: 0.686 ± 0.032	0.0CysXaa: 0.0 ± 0.0
Asp	4.326AspAla: 4.326 ± 0.073	1.022AspCys: 1.022 ± 0.039	4.111AspAsp: 4.111 ± 0.099	5.253AspGlu: 5.253 ± 0.081	2.995AspPhe: 2.995 ± 0.062	4.788AspGly: 4.788 ± 0.094	0.918AspHis: 0.918 ± 0.037	5.348AspIle: 5.348 ± 0.077	4.607AspLys: 4.607 ± 0.08	5.036AspLeu: 5.036 ± 0.079	1.823AspMet: 1.823 ± 0.051	2.994AspAsn: 2.994 ± 0.066	2.401AspPro: 2.401 ± 0.045	1.319AspGln: 1.319 ± 0.039	2.509AspArg: 2.509 ± 0.062	4.131AspSer: 4.131 ± 0.069	3.361AspThr: 3.361 ± 0.071	4.149AspVal: 4.149 ± 0.079	0.607AspTrp: 0.607 ± 0.028	3.279AspTyr: 3.279 ± 0.068	0.0AspXaa: 0.0 ± 0.0
Glu	5.235GluAla: 5.235 ± 0.093	0.874GluCys: 0.874 ± 0.034	4.529GluAsp: 4.529 ± 0.074	5.894GluGlu: 5.894 ± 0.106	2.925GluPhe: 2.925 ± 0.062	4.552GluGly: 4.552 ± 0.078	1.117GluHis: 1.117 ± 0.045	5.345GluIle: 5.345 ± 0.086	5.166GluLys: 5.166 ± 0.085	6.213GluLeu: 6.213 ± 0.084	2.09GluMet: 2.09 ± 0.046	3.551GluAsn: 3.551 ± 0.064	2.085GluPro: 2.085 ± 0.05	2.056GluGln: 2.056 ± 0.052	2.758GluArg: 2.758 ± 0.058	3.64GluSer: 3.64 ± 0.069	3.757GluThr: 3.757 ± 0.081	4.164GluVal: 4.164 ± 0.08	0.607GluTrp: 0.607 ± 0.029	3.156GluTyr: 3.156 ± 0.067	0.0GluXaa: 0.0 ± 0.0
Phe	3.582PheAla: 3.582 ± 0.072	0.853PheCys: 0.853 ± 0.036	3.385PheAsp: 3.385 ± 0.059	3.114PheGlu: 3.114 ± 0.056	2.247PhePhe: 2.247 ± 0.065	3.328PheGly: 3.328 ± 0.063	0.652PheHis: 0.652 ± 0.024	3.34PheIle: 3.34 ± 0.075	2.582PheLys: 2.582 ± 0.059	3.614PheLeu: 3.614 ± 0.073	1.229PheMet: 1.229 ± 0.038	1.947PheAsn: 1.947 ± 0.05	1.461PhePro: 1.461 ± 0.044	0.835PheGln: 0.835 ± 0.031	1.707PheArg: 1.707 ± 0.05	3.061PheSer: 3.061 ± 0.059	2.701PheThr: 2.701 ± 0.058	3.293PheVal: 3.293 ± 0.064	0.426PheTrp: 0.426 ± 0.024	1.908PheTyr: 1.908 ± 0.05	0.0PheXaa: 0.0 ± 0.0
Gly	4.656GlyAla: 4.656 ± 0.083	1.217GlyCys: 1.217 ± 0.05	4.21GlyAsp: 4.21 ± 0.08	4.354GlyGlu: 4.354 ± 0.075	3.541GlyPhe: 3.541 ± 0.067	4.757GlyGly: 4.757 ± 0.109	1.165GlyHis: 1.165 ± 0.041	6.147GlyIle: 6.147 ± 0.097	5.217GlyLys: 5.217 ± 0.083	5.72GlyLeu: 5.72 ± 0.085	2.214GlyMet: 2.214 ± 0.053	3.254GlyAsn: 3.254 ± 0.078	1.481GlyPro: 1.481 ± 0.043	1.74GlyGln: 1.74 ± 0.05	2.916GlyArg: 2.916 ± 0.066	4.592GlySer: 4.592 ± 0.085	4.241GlyThr: 4.241 ± 0.079	4.893GlyVal: 4.893 ± 0.081	0.693GlyTrp: 0.693 ± 0.029	3.287GlyTyr: 3.287 ± 0.059	0.0GlyXaa: 0.0 ± 0.0
His	0.943HisAla: 0.943 ± 0.039	0.292HisCys: 0.292 ± 0.016	0.985HisAsp: 0.985 ± 0.036	0.974HisGlu: 0.974 ± 0.039	0.778HisPhe: 0.778 ± 0.036	1.174HisGly: 1.174 ± 0.045	0.322HisHis: 0.322 ± 0.04	1.24HisIle: 1.24 ± 0.038	0.885HisLys: 0.885 ± 0.034	1.159HisLeu: 1.159 ± 0.036	0.431HisMet: 0.431 ± 0.023	0.659HisAsn: 0.659 ± 0.033	0.732HisPro: 0.732 ± 0.033	0.346HisGln: 0.346 ± 0.021	0.621HisArg: 0.621 ± 0.027	0.939HisSer: 0.939 ± 0.035	0.813HisThr: 0.813 ± 0.032	1.013HisVal: 1.013 ± 0.036	0.142HisTrp: 0.142 ± 0.013	0.713HisTyr: 0.713 ± 0.029	0.0HisXaa: 0.0 ± 0.0
Ile	6.201IleAla: 6.201 ± 0.099	1.428IleCys: 1.428 ± 0.046	5.14IleAsp: 5.14 ± 0.087	4.928IleGlu: 4.928 ± 0.079	3.006IlePhe: 3.006 ± 0.073	4.978IleGly: 4.978 ± 0.084	1.042IleHis: 1.042 ± 0.037	5.812IleIle: 5.812 ± 0.105	4.842IleLys: 4.842 ± 0.078	6.45IleLeu: 6.45 ± 0.101	1.924IleMet: 1.924 ± 0.06	3.722IleAsn: 3.722 ± 0.065	3.236IlePro: 3.236 ± 0.068	1.439IleGln: 1.439 ± 0.045	3.442IleArg: 3.442 ± 0.068	5.413IleSer: 5.413 ± 0.096	4.761IleThr: 4.761 ± 0.085	5.739IleVal: 5.739 ± 0.096	0.604IleTrp: 0.604 ± 0.026	2.979IleTyr: 2.979 ± 0.059	0.0IleXaa: 0.0 ± 0.0
Lys	5.346LysAla: 5.346 ± 0.098	0.81LysCys: 0.81 ± 0.037	4.322LysAsp: 4.322 ± 0.076	5.041LysGlu: 5.041 ± 0.094	2.335LysPhe: 2.335 ± 0.053	3.95LysGly: 3.95 ± 0.062	1.023LysHis: 1.023 ± 0.036	4.953LysIle: 4.953 ± 0.081	5.535LysLys: 5.535 ± 0.098	5.387LysLeu: 5.387 ± 0.089	1.9LysMet: 1.9 ± 0.048	3.439LysAsn: 3.439 ± 0.065	2.364LysPro: 2.364 ± 0.066	1.726LysGln: 1.726 ± 0.048	2.884LysArg: 2.884 ± 0.062	3.814LysSer: 3.814 ± 0.063	4.056LysThr: 4.056 ± 0.075	4.085LysVal: 4.085 ± 0.078	0.529LysTrp: 0.529 ± 0.026	2.975LysTyr: 2.975 ± 0.06	0.0LysXaa: 0.0 ± 0.0
Leu	6.516LeuAla: 6.516 ± 0.103	1.376LeuCys: 1.376 ± 0.043	5.036LeuAsp: 5.036 ± 0.074	5.196LeuGlu: 5.196 ± 0.086	3.998LeuPhe: 3.998 ± 0.094	5.626LeuGly: 5.626 ± 0.083	1.167LeuHis: 1.167 ± 0.04	6.758LeuIle: 6.758 ± 0.106	5.659LeuLys: 5.659 ± 0.077	7.304LeuLeu: 7.304 ± 0.137	2.471LeuMet: 2.471 ± 0.057	3.841LeuAsn: 3.841 ± 0.071	3.26LeuPro: 3.26 ± 0.071	1.74LeuGln: 1.74 ± 0.047	3.394LeuArg: 3.394 ± 0.068	6.071LeuSer: 6.071 ± 0.109	5.034LeuThr: 5.034 ± 0.065	5.637LeuVal: 5.637 ± 0.096	0.72LeuTrp: 0.72 ± 0.034	3.17LeuTyr: 3.17 ± 0.057	0.0LeuXaa: 0.0 ± 0.0
Met	2.245MetAla: 2.245 ± 0.051	0.411MetCys: 0.411 ± 0.023	1.659MetAsp: 1.659 ± 0.05	1.64MetGlu: 1.64 ± 0.048	1.12MetPhe: 1.12 ± 0.044	1.858MetGly: 1.858 ± 0.049	0.453MetHis: 0.453 ± 0.023	2.148MetIle: 2.148 ± 0.057	2.025MetLys: 2.025 ± 0.053	2.493MetLeu: 2.493 ± 0.055	0.883MetMet: 0.883 ± 0.034	1.485MetAsn: 1.485 ± 0.048	1.191MetPro: 1.191 ± 0.039	0.72MetGln: 0.72 ± 0.028	1.266MetArg: 1.266 ± 0.045	2.091MetSer: 2.091 ± 0.056	1.784MetThr: 1.784 ± 0.045	1.698MetVal: 1.698 ± 0.05	0.219MetTrp: 0.219 ± 0.016	0.923MetTyr: 0.923 ± 0.039	0.0MetXaa: 0.0 ± 0.0
Asn	3.282AsnAla: 3.282 ± 0.069	0.825AsnCys: 0.825 ± 0.032	2.784AsnAsp: 2.784 ± 0.059	3.033AsnGlu: 3.033 ± 0.068	1.799AsnPhe: 1.799 ± 0.049	3.701AsnGly: 3.701 ± 0.074	0.68AsnHis: 0.68 ± 0.034	3.557AsnIle: 3.557 ± 0.064	2.866AsnLys: 2.866 ± 0.063	3.604AsnLeu: 3.604 ± 0.068	1.305AsnMet: 1.305 ± 0.038	2.35AsnAsn: 2.35 ± 0.076	2.225AsnPro: 2.225 ± 0.055	1.079AsnGln: 1.079 ± 0.036	1.929AsnArg: 1.929 ± 0.051	2.811AsnSer: 2.811 ± 0.058	2.463AsnThr: 2.463 ± 0.059	3.121AsnVal: 3.121 ± 0.062	0.457AsnTrp: 0.457 ± 0.022	1.971AsnTyr: 1.971 ± 0.05	0.0AsnXaa: 0.0 ± 0.0
Pro	2.773ProAla: 2.773 ± 0.074	0.431ProCys: 0.431 ± 0.024	2.983ProAsp: 2.983 ± 0.06	3.517ProGlu: 3.517 ± 0.071	1.787ProPhe: 1.787 ± 0.051	2.387ProGly: 2.387 ± 0.06	0.551ProHis: 0.551 ± 0.023	2.083ProIle: 2.083 ± 0.051	1.924ProLys: 1.924 ± 0.054	2.647ProLeu: 2.647 ± 0.058	0.885ProMet: 0.885 ± 0.034	1.353ProAsn: 1.353 ± 0.042	0.754ProPro: 0.754 ± 0.033	0.944ProGln: 0.944 ± 0.04	1.012ProArg: 1.012 ± 0.039	2.165ProSer: 2.165 ± 0.054	1.739ProThr: 1.739 ± 0.065	3.588ProVal: 3.588 ± 0.071	0.323ProTrp: 0.323 ± 0.02	1.577ProTyr: 1.577 ± 0.045	0.0ProXaa: 0.0 ± 0.0
Gln	1.939GlnAla: 1.939 ± 0.055	0.279GlnCys: 0.279 ± 0.02	1.255GlnAsp: 1.255 ± 0.037	1.569GlnGlu: 1.569 ± 0.04	0.942GlnPhe: 0.942 ± 0.033	1.507GlnGly: 1.507 ± 0.049	0.343GlnHis: 0.343 ± 0.022	1.993GlnIle: 1.993 ± 0.048	1.728GlnLys: 1.728 ± 0.046	2.021GlnLeu: 2.021 ± 0.046	0.898GlnMet: 0.898 ± 0.035	1.171GlnAsn: 1.171 ± 0.042	0.831GlnPro: 0.831 ± 0.047	0.819GlnGln: 0.819 ± 0.044	1.046GlnArg: 1.046 ± 0.038	1.399GlnSer: 1.399 ± 0.039	1.368GlnThr: 1.368 ± 0.042	1.51GlnVal: 1.51 ± 0.046	0.21GlnTrp: 0.21 ± 0.017	1.125GlnTyr: 1.125 ± 0.037	0.0GlnXaa: 0.0 ± 0.0
Arg	2.731ArgAla: 2.731 ± 0.062	0.507ArgCys: 0.507 ± 0.025	2.483ArgAsp: 2.483 ± 0.061	2.945ArgGlu: 2.945 ± 0.071	1.983ArgPhe: 1.983 ± 0.053	2.372ArgGly: 2.372 ± 0.065	0.711ArgHis: 0.711 ± 0.028	3.275ArgIle: 3.275 ± 0.062	3.01ArgLys: 3.01 ± 0.067	3.504ArgLeu: 3.504 ± 0.075	1.213ArgMet: 1.213 ± 0.042	1.963ArgAsn: 1.963 ± 0.044	1.31ArgPro: 1.31 ± 0.043	1.259ArgGln: 1.259 ± 0.037	1.87ArgArg: 1.87 ± 0.052	2.337ArgSer: 2.337 ± 0.053	2.156ArgThr: 2.156 ± 0.056	2.565ArgVal: 2.565 ± 0.06	0.334ArgTrp: 0.334 ± 0.019	1.78ArgTyr: 1.78 ± 0.045	0.0ArgXaa: 0.0 ± 0.0
Ser	4.427SerAla: 4.427 ± 0.074	0.988SerCys: 0.988 ± 0.036	4.575SerAsp: 4.575 ± 0.078	4.473SerGlu: 4.473 ± 0.077	3.25SerPhe: 3.25 ± 0.078	5.462SerGly: 5.462 ± 0.084	1.03SerHis: 1.03 ± 0.037	4.508SerIle: 4.508 ± 0.081	3.97SerLys: 3.97 ± 0.071	5.528SerLeu: 5.528 ± 0.104	1.742SerMet: 1.742 ± 0.047	2.694SerAsn: 2.694 ± 0.061	1.999SerPro: 1.999 ± 0.063	1.492SerGln: 1.492 ± 0.052	2.602SerArg: 2.602 ± 0.053	4.273SerSer: 4.273 ± 0.102	3.12SerThr: 3.12 ± 0.061	4.828SerVal: 4.828 ± 0.078	0.527SerTrp: 0.527 ± 0.026	2.764SerTyr: 2.764 ± 0.06	0.0SerXaa: 0.0 ± 0.0
Thr	4.407ThrAla: 4.407 ± 0.084	0.797ThrCys: 0.797 ± 0.033	3.939ThrAsp: 3.939 ± 0.071	3.858ThrGlu: 3.858 ± 0.087	2.351ThrPhe: 2.351 ± 0.058	4.835ThrGly: 4.835 ± 0.075	0.867ThrHis: 0.867 ± 0.034	3.961ThrIle: 3.961 ± 0.077	3.037ThrLys: 3.037 ± 0.069	4.576ThrLeu: 4.576 ± 0.073	1.306ThrMet: 1.306 ± 0.037	2.146ThrAsn: 2.146 ± 0.055	2.525ThrPro: 2.525 ± 0.081	1.299ThrGln: 1.299 ± 0.041	1.954ThrArg: 1.954 ± 0.046	3.433ThrSer: 3.433 ± 0.071	3.254ThrThr: 3.254 ± 0.084	4.666ThrVal: 4.666 ± 0.079	0.464ThrTrp: 0.464 ± 0.026	2.316ThrTyr: 2.316 ± 0.061	0.0ThrXaa: 0.0 ± 0.0
Val	5.177ValAla: 5.177 ± 0.093	1.224ValCys: 1.224 ± 0.036	4.159ValAsp: 4.159 ± 0.074	4.201ValGlu: 4.201 ± 0.078	3.805ValPhe: 3.805 ± 0.072	3.976ValGly: 3.976 ± 0.075	0.965ValHis: 0.965 ± 0.033	6.185ValIle: 6.185 ± 0.104	4.391ValLys: 4.391 ± 0.08	6.421ValLeu: 6.421 ± 0.11	2.062ValMet: 2.062 ± 0.055	3.218ValAsn: 3.218 ± 0.069	2.69ValPro: 2.69 ± 0.054	1.38ValGln: 1.38 ± 0.046	2.776ValArg: 2.776 ± 0.066	5.023ValSer: 5.023 ± 0.094	4.407ValThr: 4.407 ± 0.085	5.185ValVal: 5.185 ± 0.098	0.57ValTrp: 0.57 ± 0.025	2.893ValTyr: 2.893 ± 0.061	0.0ValXaa: 0.0 ± 0.0
Trp	0.543TrpAla: 0.543 ± 0.027	0.146TrpCys: 0.146 ± 0.012	0.57TrpAsp: 0.57 ± 0.028	0.516TrpGlu: 0.516 ± 0.023	0.456TrpPhe: 0.456 ± 0.025	0.648TrpGly: 0.648 ± 0.032	0.181TrpHis: 0.181 ± 0.015	0.689TrpIle: 0.689 ± 0.033	0.554TrpLys: 0.554 ± 0.026	0.841TrpLeu: 0.841 ± 0.03	0.259TrpMet: 0.259 ± 0.016	0.523TrpAsn: 0.523 ± 0.025	0.221TrpPro: 0.221 ± 0.017	0.28TrpGln: 0.28 ± 0.019	0.286TrpArg: 0.286 ± 0.018	0.503TrpSer: 0.503 ± 0.025	0.442TrpThr: 0.442 ± 0.02	0.462TrpVal: 0.462 ± 0.026	0.113TrpTrp: 0.113 ± 0.011	0.42TrpTyr: 0.42 ± 0.025	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.779TyrAla: 2.779 ± 0.063	0.72TyrCys: 0.72 ± 0.034	2.953TyrAsp: 2.953 ± 0.061	3.022TyrGlu: 3.022 ± 0.072	2.027TyrPhe: 2.027 ± 0.056	3.077TyrGly: 3.077 ± 0.064	0.702TyrHis: 0.702 ± 0.032	3.154TyrIle: 3.154 ± 0.065	2.601TyrLys: 2.601 ± 0.061	3.588TyrLeu: 3.588 ± 0.066	1.093TyrMet: 1.093 ± 0.038	2.016TyrAsn: 2.016 ± 0.053	1.453TyrPro: 1.453 ± 0.045	1.157TyrGln: 1.157 ± 0.048	1.826TyrArg: 1.826 ± 0.049	2.947TyrSer: 2.947 ± 0.06	2.223TyrThr: 2.223 ± 0.053	2.877TyrVal: 2.877 ± 0.067	0.417TyrTrp: 0.417 ± 0.025	2.121TyrTyr: 2.121 ± 0.055	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 2342 proteins (814396 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

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