Amino acid dipepetide frequency for Rhodopseudomonas palustris (strain BisB18)

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	19.94AlaAla: 19.94 ± 0.202	1.103AlaCys: 1.103 ± 0.028	6.906AlaAsp: 6.906 ± 0.076	7.485AlaGlu: 7.485 ± 0.09	4.261AlaPhe: 4.261 ± 0.053	10.308AlaGly: 10.308 ± 0.095	2.252AlaHis: 2.252 ± 0.038	6.934AlaIle: 6.934 ± 0.061	4.89AlaLys: 4.89 ± 0.088	13.912AlaLeu: 13.912 ± 0.127	3.582AlaMet: 3.582 ± 0.054	3.037AlaAsn: 3.037 ± 0.052	6.162AlaPro: 6.162 ± 0.103	4.445AlaGln: 4.445 ± 0.058	8.728AlaArg: 8.728 ± 0.089	7.02AlaSer: 7.02 ± 0.085	6.693AlaThr: 6.693 ± 0.073	9.357AlaVal: 9.357 ± 0.081	1.364AlaTrp: 1.364 ± 0.034	2.432AlaTyr: 2.432 ± 0.045	0.0AlaXaa: 0.0 ± 0.0
Cys	1.056CysAla: 1.056 ± 0.027	0.121CysCys: 0.121 ± 0.009	0.567CysAsp: 0.567 ± 0.019	0.453CysGlu: 0.453 ± 0.019	0.319CysPhe: 0.319 ± 0.013	0.969CysGly: 0.969 ± 0.026	0.246CysHis: 0.246 ± 0.015	0.404CysIle: 0.404 ± 0.016	0.249CysLys: 0.249 ± 0.014	0.775CysLeu: 0.775 ± 0.023	0.175CysMet: 0.175 ± 0.01	0.249CysAsn: 0.249 ± 0.012	0.474CysPro: 0.474 ± 0.018	0.241CysGln: 0.241 ± 0.013	0.661CysArg: 0.661 ± 0.024	0.507CysSer: 0.507 ± 0.02	0.402CysThr: 0.402 ± 0.019	0.644CysVal: 0.644 ± 0.022	0.116CysTrp: 0.116 ± 0.008	0.212CysTyr: 0.212 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	7.127AspAla: 7.127 ± 0.072	0.519AspCys: 0.519 ± 0.021	3.373AspAsp: 3.373 ± 0.052	3.139AspGlu: 3.139 ± 0.06	2.079AspPhe: 2.079 ± 0.038	5.012AspGly: 5.012 ± 0.056	1.278AspHis: 1.278 ± 0.035	2.961AspIle: 2.961 ± 0.052	1.863AspLys: 1.863 ± 0.038	5.791AspLeu: 5.791 ± 0.067	1.111AspMet: 1.111 ± 0.025	1.368AspAsn: 1.368 ± 0.034	3.373AspPro: 3.373 ± 0.054	1.854AspGln: 1.854 ± 0.032	4.262AspArg: 4.262 ± 0.06	2.446AspSer: 2.446 ± 0.04	2.402AspThr: 2.402 ± 0.048	4.19AspVal: 4.19 ± 0.052	0.832AspTrp: 0.832 ± 0.024	1.502AspTyr: 1.502 ± 0.034	0.0AspXaa: 0.0 ± 0.0
Glu	6.977GluAla: 6.977 ± 0.085	0.333GluCys: 0.333 ± 0.017	2.302GluAsp: 2.302 ± 0.044	2.299GluGlu: 2.299 ± 0.051	1.822GluPhe: 1.822 ± 0.035	3.412GluGly: 3.412 ± 0.05	1.103GluHis: 1.103 ± 0.028	3.53GluIle: 3.53 ± 0.056	1.917GluLys: 1.917 ± 0.042	5.557GluLeu: 5.557 ± 0.072	1.38GluMet: 1.38 ± 0.031	1.254GluAsn: 1.254 ± 0.027	2.615GluPro: 2.615 ± 0.051	2.354GluGln: 2.354 ± 0.048	4.677GluArg: 4.677 ± 0.064	2.332GluSer: 2.332 ± 0.041	3.03GluThr: 3.03 ± 0.043	3.689GluVal: 3.689 ± 0.05	0.575GluTrp: 0.575 ± 0.018	0.825GluTyr: 0.825 ± 0.023	0.0GluXaa: 0.0 ± 0.0
Phe	4.905PheAla: 4.905 ± 0.06	0.411PheCys: 0.411 ± 0.018	2.598PheAsp: 2.598 ± 0.039	2.022PheGlu: 2.022 ± 0.033	1.346PhePhe: 1.346 ± 0.036	3.726PheGly: 3.726 ± 0.053	0.704PheHis: 0.704 ± 0.023	1.623PheIle: 1.623 ± 0.035	1.1PheLys: 1.1 ± 0.027	3.103PheLeu: 3.103 ± 0.057	0.747PheMet: 0.747 ± 0.024	1.111PheAsn: 1.111 ± 0.031	1.501PhePro: 1.501 ± 0.034	1.001PheGln: 1.001 ± 0.026	2.179PheArg: 2.179 ± 0.042	2.171PheSer: 2.171 ± 0.034	1.829PheThr: 1.829 ± 0.037	2.896PheVal: 2.896 ± 0.047	0.483PheTrp: 0.483 ± 0.018	0.78PheTyr: 0.78 ± 0.024	0.0PheXaa: 0.0 ± 0.0
Gly	9.413GlyAla: 9.413 ± 0.102	0.931GlyCys: 0.931 ± 0.027	4.352GlyAsp: 4.352 ± 0.052	4.388GlyGlu: 4.388 ± 0.056	3.627GlyPhe: 3.627 ± 0.051	7.052GlyGly: 7.052 ± 0.109	1.791GlyHis: 1.791 ± 0.034	4.429GlyIle: 4.429 ± 0.059	3.226GlyLys: 3.226 ± 0.052	8.651GlyLeu: 8.651 ± 0.083	1.986GlyMet: 1.986 ± 0.039	2.159GlyAsn: 2.159 ± 0.046	3.335GlyPro: 3.335 ± 0.051	2.665GlyGln: 2.665 ± 0.046	5.925GlyArg: 5.925 ± 0.065	4.811GlySer: 4.811 ± 0.069	4.248GlyThr: 4.248 ± 0.066	6.209GlyVal: 6.209 ± 0.07	1.201GlyTrp: 1.201 ± 0.029	2.276GlyTyr: 2.276 ± 0.047	0.0GlyXaa: 0.0 ± 0.0
His	2.307HisAla: 2.307 ± 0.045	0.24HisCys: 0.24 ± 0.012	1.284HisAsp: 1.284 ± 0.031	0.898HisGlu: 0.898 ± 0.025	0.811HisPhe: 0.811 ± 0.024	1.98HisGly: 1.98 ± 0.039	0.599HisHis: 0.599 ± 0.024	0.86HisIle: 0.86 ± 0.025	0.485HisLys: 0.485 ± 0.021	1.944HisLeu: 1.944 ± 0.038	0.402HisMet: 0.402 ± 0.018	0.477HisAsn: 0.477 ± 0.017	1.354HisPro: 1.354 ± 0.032	0.653HisGln: 0.653 ± 0.021	1.548HisArg: 1.548 ± 0.036	1.001HisSer: 1.001 ± 0.029	0.766HisThr: 0.766 ± 0.025	1.373HisVal: 1.373 ± 0.028	0.316HisTrp: 0.316 ± 0.015	0.517HisTyr: 0.517 ± 0.019	0.0HisXaa: 0.0 ± 0.0
Ile	7.981IleAla: 7.981 ± 0.074	0.517IleCys: 0.517 ± 0.021	3.889IleAsp: 3.889 ± 0.057	3.661IleGlu: 3.661 ± 0.056	1.616IlePhe: 1.616 ± 0.035	5.374IleGly: 5.374 ± 0.068	0.917IleHis: 0.917 ± 0.024	2.202IleIle: 2.202 ± 0.039	1.747IleLys: 1.747 ± 0.034	4.151IleLeu: 4.151 ± 0.056	0.954IleMet: 0.954 ± 0.024	1.492IleAsn: 1.492 ± 0.034	2.247IlePro: 2.247 ± 0.043	1.236IleGln: 1.236 ± 0.032	3.148IleArg: 3.148 ± 0.047	3.0IleSer: 3.0 ± 0.047	2.713IleThr: 2.713 ± 0.048	4.558IleVal: 4.558 ± 0.059	0.578IleTrp: 0.578 ± 0.022	1.126IleTyr: 1.126 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	4.309LysAla: 4.309 ± 0.064	0.205LysCys: 0.205 ± 0.011	1.761LysAsp: 1.761 ± 0.04	1.409LysGlu: 1.409 ± 0.038	1.088LysPhe: 1.088 ± 0.025	2.356LysGly: 2.356 ± 0.049	0.662LysHis: 0.662 ± 0.022	1.94LysIle: 1.94 ± 0.039	1.431LysLys: 1.431 ± 0.043	3.829LysLeu: 3.829 ± 0.051	0.815LysMet: 0.815 ± 0.024	0.87LysAsn: 0.87 ± 0.024	2.36LysPro: 2.36 ± 0.052	1.215LysGln: 1.215 ± 0.032	2.418LysArg: 2.418 ± 0.046	2.084LysSer: 2.084 ± 0.035	2.113LysThr: 2.113 ± 0.044	2.428LysVal: 2.428 ± 0.047	0.354LysTrp: 0.354 ± 0.013	0.67LysTyr: 0.67 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	13.931LeuAla: 13.931 ± 0.113	0.921LeuCys: 0.921 ± 0.026	5.902LeuAsp: 5.902 ± 0.072	4.671LeuGlu: 4.671 ± 0.067	3.503LeuPhe: 3.503 ± 0.049	8.357LeuGly: 8.357 ± 0.091	1.883LeuHis: 1.883 ± 0.033	5.427LeuIle: 5.427 ± 0.073	3.606LeuLys: 3.606 ± 0.057	10.134LeuLeu: 10.134 ± 0.124	2.191LeuMet: 2.191 ± 0.044	2.657LeuAsn: 2.657 ± 0.043	5.596LeuPro: 5.596 ± 0.074	3.364LeuGln: 3.364 ± 0.048	7.26LeuArg: 7.26 ± 0.085	6.468LeuSer: 6.468 ± 0.068	5.607LeuThr: 5.607 ± 0.076	7.395LeuVal: 7.395 ± 0.077	1.098LeuTrp: 1.098 ± 0.029	1.896LeuTyr: 1.896 ± 0.036	0.0LeuXaa: 0.0 ± 0.0
Met	2.841MetAla: 2.841 ± 0.045	0.152MetCys: 0.152 ± 0.01	0.927MetAsp: 0.927 ± 0.026	0.874MetGlu: 0.874 ± 0.024	0.751MetPhe: 0.751 ± 0.022	1.436MetGly: 1.436 ± 0.033	0.422MetHis: 0.422 ± 0.018	1.416MetIle: 1.416 ± 0.03	0.849MetLys: 0.849 ± 0.028	2.485MetLeu: 2.485 ± 0.045	0.651MetMet: 0.651 ± 0.023	0.689MetAsn: 0.689 ± 0.021	1.513MetPro: 1.513 ± 0.032	0.88MetGln: 0.88 ± 0.022	1.633MetArg: 1.633 ± 0.032	1.642MetSer: 1.642 ± 0.033	1.85MetThr: 1.85 ± 0.035	1.653MetVal: 1.653 ± 0.034	0.217MetTrp: 0.217 ± 0.011	0.33MetTyr: 0.33 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	3.344AsnAla: 3.344 ± 0.046	0.258AsnCys: 0.258 ± 0.014	1.445AsnAsp: 1.445 ± 0.031	1.261AsnGlu: 1.261 ± 0.031	0.982AsnPhe: 0.982 ± 0.025	2.311AsnGly: 2.311 ± 0.043	0.498AsnHis: 0.498 ± 0.021	1.377AsnIle: 1.377 ± 0.036	0.795AsnLys: 0.795 ± 0.025	2.528AsnLeu: 2.528 ± 0.045	0.542AsnMet: 0.542 ± 0.021	0.768AsnAsn: 0.768 ± 0.026	1.696AsnPro: 1.696 ± 0.036	0.801AsnGln: 0.801 ± 0.022	1.751AsnArg: 1.751 ± 0.035	1.324AsnSer: 1.324 ± 0.03	1.218AsnThr: 1.218 ± 0.031	2.08AsnVal: 2.08 ± 0.043	0.403AsnTrp: 0.403 ± 0.016	0.722AsnTyr: 0.722 ± 0.022	0.0AsnXaa: 0.0 ± 0.0
Pro	6.7ProAla: 6.7 ± 0.09	0.344ProCys: 0.344 ± 0.015	3.522ProAsp: 3.522 ± 0.053	3.163ProGlu: 3.163 ± 0.05	1.888ProPhe: 1.888 ± 0.036	4.37ProGly: 4.37 ± 0.063	1.053ProHis: 1.053 ± 0.031	2.441ProIle: 2.441 ± 0.048	1.839ProLys: 1.839 ± 0.041	4.914ProLeu: 4.914 ± 0.07	1.145ProMet: 1.145 ± 0.028	1.423ProAsn: 1.423 ± 0.03	3.082ProPro: 3.082 ± 0.1	2.02ProGln: 2.02 ± 0.043	3.314ProArg: 3.314 ± 0.058	3.089ProSer: 3.089 ± 0.054	2.693ProThr: 2.693 ± 0.045	3.863ProVal: 3.863 ± 0.057	0.675ProTrp: 0.675 ± 0.021	1.107ProTyr: 1.107 ± 0.028	0.0ProXaa: 0.0 ± 0.0
Gln	4.358GlnAla: 4.358 ± 0.063	0.266GlnCys: 0.266 ± 0.015	1.604GlnAsp: 1.604 ± 0.034	1.26GlnGlu: 1.26 ± 0.033	1.18GlnPhe: 1.18 ± 0.029	2.392GlnGly: 2.392 ± 0.037	0.723GlnHis: 0.723 ± 0.023	2.027GlnIle: 2.027 ± 0.029	1.045GlnLys: 1.045 ± 0.024	3.45GlnLeu: 3.45 ± 0.049	0.83GlnMet: 0.83 ± 0.022	0.868GlnAsn: 0.868 ± 0.027	2.07GlnPro: 2.07 ± 0.037	1.573GlnGln: 1.573 ± 0.044	2.915GlnArg: 2.915 ± 0.047	2.065GlnSer: 2.065 ± 0.04	1.808GlnThr: 1.808 ± 0.038	2.297GlnVal: 2.297 ± 0.044	0.466GlnTrp: 0.466 ± 0.02	0.623GlnTyr: 0.623 ± 0.019	0.0GlnXaa: 0.0 ± 0.0
Arg	8.364ArgAla: 8.364 ± 0.08	0.624ArgCys: 0.624 ± 0.022	4.278ArgAsp: 4.278 ± 0.059	3.88ArgGlu: 3.88 ± 0.065	2.774ArgPhe: 2.774 ± 0.042	5.135ArgGly: 5.135 ± 0.065	1.592ArgHis: 1.592 ± 0.035	3.875ArgIle: 3.875 ± 0.047	2.378ArgLys: 2.378 ± 0.042	7.939ArgLeu: 7.939 ± 0.086	1.738ArgMet: 1.738 ± 0.032	1.883ArgAsn: 1.883 ± 0.035	3.609ArgPro: 3.609 ± 0.056	2.602ArgGln: 2.602 ± 0.048	5.771ArgArg: 5.771 ± 0.083	4.004ArgSer: 4.004 ± 0.061	3.076ArgThr: 3.076 ± 0.043	4.728ArgVal: 4.728 ± 0.065	0.959ArgTrp: 0.959 ± 0.028	1.665ArgTyr: 1.665 ± 0.036	0.0ArgXaa: 0.0 ± 0.0
Ser	6.85SerAla: 6.85 ± 0.075	0.501SerCys: 0.501 ± 0.019	3.098SerAsp: 3.098 ± 0.048	2.869SerGlu: 2.869 ± 0.043	2.419SerPhe: 2.419 ± 0.04	5.393SerGly: 5.393 ± 0.061	1.116SerHis: 1.116 ± 0.026	3.016SerIle: 3.016 ± 0.05	1.842SerLys: 1.842 ± 0.038	5.478SerLeu: 5.478 ± 0.066	1.271SerMet: 1.271 ± 0.029	1.592SerAsn: 1.592 ± 0.034	2.862SerPro: 2.862 ± 0.039	1.758SerGln: 1.758 ± 0.032	3.904SerArg: 3.904 ± 0.056	3.657SerSer: 3.657 ± 0.072	2.912SerThr: 2.912 ± 0.05	4.163SerVal: 4.163 ± 0.054	0.737SerTrp: 0.737 ± 0.024	1.407SerTyr: 1.407 ± 0.032	0.0SerXaa: 0.0 ± 0.0
Thr	6.787ThrAla: 6.787 ± 0.073	0.405ThrCys: 0.405 ± 0.017	2.589ThrAsp: 2.589 ± 0.053	2.51ThrGlu: 2.51 ± 0.043	1.775ThrPhe: 1.775 ± 0.038	4.619ThrGly: 4.619 ± 0.076	0.92ThrHis: 0.92 ± 0.027	2.997ThrIle: 2.997 ± 0.053	1.633ThrLys: 1.633 ± 0.036	5.921ThrLeu: 5.921 ± 0.067	1.196ThrMet: 1.196 ± 0.028	1.28ThrAsn: 1.28 ± 0.034	3.376ThrPro: 3.376 ± 0.054	1.522ThrGln: 1.522 ± 0.035	3.156ThrArg: 3.156 ± 0.049	2.922ThrSer: 2.922 ± 0.054	3.049ThrThr: 3.049 ± 0.059	4.116ThrVal: 4.116 ± 0.051	0.545ThrTrp: 0.545 ± 0.02	1.035ThrTyr: 1.035 ± 0.027	0.0ThrXaa: 0.0 ± 0.0
Val	10.024ValAla: 10.024 ± 0.084	0.626ValCys: 0.626 ± 0.019	4.169ValAsp: 4.169 ± 0.055	4.275ValGlu: 4.275 ± 0.062	2.587ValPhe: 2.587 ± 0.049	5.671ValGly: 5.671 ± 0.075	1.309ValHis: 1.309 ± 0.032	4.087ValIle: 4.087 ± 0.055	2.396ValLys: 2.396 ± 0.045	7.408ValLeu: 7.408 ± 0.071	1.806ValMet: 1.806 ± 0.034	1.963ValAsn: 1.963 ± 0.036	3.707ValPro: 3.707 ± 0.051	2.199ValGln: 2.199 ± 0.042	4.796ValArg: 4.796 ± 0.059	4.313ValSer: 4.313 ± 0.055	4.329ValThr: 4.329 ± 0.059	6.422ValVal: 6.422 ± 0.075	0.854ValTrp: 0.854 ± 0.025	1.402ValTyr: 1.402 ± 0.033	0.0ValXaa: 0.0 ± 0.0
Trp	1.134TrpAla: 1.134 ± 0.03	0.124TrpCys: 0.124 ± 0.009	0.551TrpAsp: 0.551 ± 0.017	0.462TrpGlu: 0.462 ± 0.02	0.49TrpPhe: 0.49 ± 0.019	0.79TrpGly: 0.79 ± 0.025	0.323TrpHis: 0.323 ± 0.015	0.68TrpIle: 0.68 ± 0.023	0.412TrpLys: 0.412 ± 0.016	1.585TrpLeu: 1.585 ± 0.036	0.317TrpMet: 0.317 ± 0.017	0.389TrpAsn: 0.389 ± 0.015	0.68TrpPro: 0.68 ± 0.021	0.589TrpGln: 0.589 ± 0.02	1.119TrpArg: 1.119 ± 0.029	0.834TrpSer: 0.834 ± 0.023	0.684TrpThr: 0.684 ± 0.02	0.713TrpVal: 0.713 ± 0.021	0.202TrpTrp: 0.202 ± 0.012	0.247TrpTyr: 0.247 ± 0.013	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.465TyrAla: 2.465 ± 0.041	0.236TyrCys: 0.236 ± 0.011	1.362TyrAsp: 1.362 ± 0.032	1.005TyrGlu: 1.005 ± 0.026	0.918TyrPhe: 0.918 ± 0.027	2.011TyrGly: 2.011 ± 0.043	0.43TyrHis: 0.43 ± 0.016	0.88TyrIle: 0.88 ± 0.025	0.614TyrLys: 0.614 ± 0.019	2.314TyrLeu: 2.314 ± 0.039	0.369TyrMet: 0.369 ± 0.016	0.578TyrAsn: 0.578 ± 0.021	1.032TyrPro: 1.032 ± 0.026	0.846TyrGln: 0.846 ± 0.027	1.707TyrArg: 1.707 ± 0.035	1.155TyrSer: 1.155 ± 0.028	0.933TyrThr: 0.933 ± 0.026	1.571TyrVal: 1.571 ± 0.037	0.348TyrTrp: 0.348 ± 0.015	0.571TyrTyr: 0.571 ± 0.02	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 4864 proteins (1559608 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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