Amino acid dipepetide frequency for Pseudomonas sp. PGPPP3

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	14.235AlaAla: 14.235 ± 0.192	1.418AlaCys: 1.418 ± 0.038	6.358AlaAsp: 6.358 ± 0.079	7.764AlaGlu: 7.764 ± 0.087	3.712AlaPhe: 3.712 ± 0.064	9.167AlaGly: 9.167 ± 0.113	2.283AlaHis: 2.283 ± 0.048	5.06AlaIle: 5.06 ± 0.086	3.969AlaLys: 3.969 ± 0.073	14.781AlaLeu: 14.781 ± 0.155	2.817AlaMet: 2.817 ± 0.051	3.259AlaAsn: 3.259 ± 0.051	4.897AlaPro: 4.897 ± 0.078	5.853AlaGln: 5.853 ± 0.091	7.16AlaArg: 7.16 ± 0.085	6.651AlaSer: 6.651 ± 0.091	4.7AlaThr: 4.7 ± 0.069	7.751AlaVal: 7.751 ± 0.099	1.651AlaTrp: 1.651 ± 0.038	2.644AlaTyr: 2.644 ± 0.054	0.001AlaXaa: 0.001 ± 0.001
Cys	1.188CysAla: 1.188 ± 0.037	0.159CysCys: 0.159 ± 0.014	0.58CysAsp: 0.58 ± 0.026	0.55CysGlu: 0.55 ± 0.023	0.355CysPhe: 0.355 ± 0.02	1.032CysGly: 1.032 ± 0.034	0.293CysHis: 0.293 ± 0.016	0.417CysIle: 0.417 ± 0.022	0.319CysLys: 0.319 ± 0.018	1.239CysLeu: 1.239 ± 0.04	0.222CysMet: 0.222 ± 0.015	0.311CysAsn: 0.311 ± 0.016	0.581CysPro: 0.581 ± 0.025	0.452CysGln: 0.452 ± 0.02	0.675CysArg: 0.675 ± 0.026	0.676CysSer: 0.676 ± 0.025	0.474CysThr: 0.474 ± 0.021	0.708CysVal: 0.708 ± 0.028	0.169CysTrp: 0.169 ± 0.015	0.256CysTyr: 0.256 ± 0.017	0.0CysXaa: 0.0 ± 0.0
Asp	5.712AspAla: 5.712 ± 0.085	0.564AspCys: 0.564 ± 0.027	2.808AspAsp: 2.808 ± 0.058	3.469AspGlu: 3.469 ± 0.066	2.115AspPhe: 2.115 ± 0.042	4.425AspGly: 4.425 ± 0.081	1.003AspHis: 1.003 ± 0.035	2.422AspIle: 2.422 ± 0.059	1.885AspLys: 1.885 ± 0.044	6.102AspLeu: 6.102 ± 0.09	1.17AspMet: 1.17 ± 0.036	1.65AspAsn: 1.65 ± 0.05	2.647AspPro: 2.647 ± 0.05	2.107AspGln: 2.107 ± 0.05	2.601AspArg: 2.601 ± 0.047	3.108AspSer: 3.108 ± 0.061	2.184AspThr: 2.184 ± 0.047	3.413AspVal: 3.413 ± 0.066	1.0AspTrp: 1.0 ± 0.033	1.707AspTyr: 1.707 ± 0.042	0.0AspXaa: 0.0 ± 0.0
Glu	6.616GluAla: 6.616 ± 0.086	0.474GluCys: 0.474 ± 0.021	2.361GluAsp: 2.361 ± 0.051	2.921GluGlu: 2.921 ± 0.061	1.827GluPhe: 1.827 ± 0.042	3.607GluGly: 3.607 ± 0.059	1.586GluHis: 1.586 ± 0.04	2.62GluIle: 2.62 ± 0.054	1.945GluLys: 1.945 ± 0.05	7.738GluLeu: 7.738 ± 0.083	1.282GluMet: 1.282 ± 0.036	1.41GluAsn: 1.41 ± 0.045	2.367GluPro: 2.367 ± 0.055	4.31GluGln: 4.31 ± 0.077	4.735GluArg: 4.735 ± 0.087	2.508GluSer: 2.508 ± 0.051	2.305GluThr: 2.305 ± 0.051	4.248GluVal: 4.248 ± 0.064	0.702GluTrp: 0.702 ± 0.027	1.164GluTyr: 1.164 ± 0.036	0.0GluXaa: 0.0 ± 0.0
Phe	4.366PheAla: 4.366 ± 0.077	0.48PheCys: 0.48 ± 0.021	2.279PheAsp: 2.279 ± 0.044	1.918PheGlu: 1.918 ± 0.041	1.39PhePhe: 1.39 ± 0.04	3.012PheGly: 3.012 ± 0.057	0.693PheHis: 0.693 ± 0.026	1.777PheIle: 1.777 ± 0.04	1.242PheLys: 1.242 ± 0.032	3.231PheLeu: 3.231 ± 0.059	0.781PheMet: 0.781 ± 0.028	1.398PheAsn: 1.398 ± 0.041	1.333PhePro: 1.333 ± 0.042	1.302PheGln: 1.302 ± 0.036	1.776PheArg: 1.776 ± 0.036	2.498PheSer: 2.498 ± 0.058	1.742PheThr: 1.742 ± 0.043	2.375PheVal: 2.375 ± 0.054	0.519PheTrp: 0.519 ± 0.029	1.054PheTyr: 1.054 ± 0.033	0.0PheXaa: 0.0 ± 0.0
Gly	7.399GlyAla: 7.399 ± 0.094	0.965GlyCys: 0.965 ± 0.028	3.836GlyAsp: 3.836 ± 0.065	4.667GlyGlu: 4.667 ± 0.069	3.24GlyPhe: 3.24 ± 0.061	5.842GlyGly: 5.842 ± 0.089	1.864GlyHis: 1.864 ± 0.045	3.861GlyIle: 3.861 ± 0.065	3.225GlyLys: 3.225 ± 0.063	9.542GlyLeu: 9.542 ± 0.115	2.132GlyMet: 2.132 ± 0.043	2.272GlyAsn: 2.272 ± 0.056	2.501GlyPro: 2.501 ± 0.048	3.981GlyGln: 3.981 ± 0.071	4.717GlyArg: 4.717 ± 0.066	4.518GlySer: 4.518 ± 0.083	3.34GlyThr: 3.34 ± 0.06	5.776GlyVal: 5.776 ± 0.095	1.302GlyTrp: 1.302 ± 0.041	2.422GlyTyr: 2.422 ± 0.049	0.0GlyXaa: 0.0 ± 0.0
His	2.461HisAla: 2.461 ± 0.052	0.374HisCys: 0.374 ± 0.02	1.149HisAsp: 1.149 ± 0.033	1.194HisGlu: 1.194 ± 0.033	1.001HisPhe: 1.001 ± 0.031	2.035HisGly: 2.035 ± 0.043	0.601HisHis: 0.601 ± 0.026	0.968HisIle: 0.968 ± 0.029	0.64HisLys: 0.64 ± 0.025	2.798HisLeu: 2.798 ± 0.055	0.522HisMet: 0.522 ± 0.022	0.652HisAsn: 0.652 ± 0.026	1.414HisPro: 1.414 ± 0.04	0.974HisGln: 0.974 ± 0.03	1.199HisArg: 1.199 ± 0.037	1.327HisSer: 1.327 ± 0.033	0.979HisThr: 0.979 ± 0.032	1.264HisVal: 1.264 ± 0.042	0.441HisTrp: 0.441 ± 0.021	0.739HisTyr: 0.739 ± 0.029	0.0HisXaa: 0.0 ± 0.0
Ile	5.51IleAla: 5.51 ± 0.082	0.491IleCys: 0.491 ± 0.021	3.082IleAsp: 3.082 ± 0.065	3.194IleGlu: 3.194 ± 0.062	1.356IlePhe: 1.356 ± 0.04	4.121IleGly: 4.121 ± 0.075	0.898IleHis: 0.898 ± 0.029	2.01IleIle: 2.01 ± 0.049	1.627IleLys: 1.627 ± 0.043	4.06IleLeu: 4.06 ± 0.076	0.777IleMet: 0.777 ± 0.03	1.72IleAsn: 1.72 ± 0.046	2.023IlePro: 2.023 ± 0.051	1.605IleGln: 1.605 ± 0.046	2.768IleArg: 2.768 ± 0.049	3.172IleSer: 3.172 ± 0.062	2.284IleThr: 2.284 ± 0.047	2.842IleVal: 2.842 ± 0.055	0.428IleTrp: 0.428 ± 0.02	1.052IleTyr: 1.052 ± 0.032	0.0IleXaa: 0.0 ± 0.0
Lys	4.038LysAla: 4.038 ± 0.07	0.183LysCys: 0.183 ± 0.014	1.609LysAsp: 1.609 ± 0.048	1.454LysGlu: 1.454 ± 0.041	0.85LysPhe: 0.85 ± 0.03	2.453LysGly: 2.453 ± 0.06	0.768LysHis: 0.768 ± 0.028	1.562LysIle: 1.562 ± 0.039	1.251LysLys: 1.251 ± 0.043	3.828LysLeu: 3.828 ± 0.066	0.673LysMet: 0.673 ± 0.027	1.004LysAsn: 1.004 ± 0.032	2.0LysPro: 2.0 ± 0.05	1.629LysGln: 1.629 ± 0.043	2.3LysArg: 2.3 ± 0.048	1.817LysSer: 1.817 ± 0.048	1.687LysThr: 1.687 ± 0.048	2.591LysVal: 2.591 ± 0.059	0.352LysTrp: 0.352 ± 0.019	0.652LysTyr: 0.652 ± 0.024	0.0LysXaa: 0.0 ± 0.0
Leu	15.872LeuAla: 15.872 ± 0.162	1.348LeuCys: 1.348 ± 0.041	6.956LeuAsp: 6.956 ± 0.092	6.555LeuGlu: 6.555 ± 0.097	4.139LeuPhe: 4.139 ± 0.075	9.513LeuGly: 9.513 ± 0.11	2.817LeuHis: 2.817 ± 0.052	5.451LeuIle: 5.451 ± 0.083	4.288LeuLys: 4.288 ± 0.066	16.056LeuLeu: 16.056 ± 0.212	2.409LeuMet: 2.409 ± 0.053	3.763LeuAsn: 3.763 ± 0.067	6.863LeuPro: 6.863 ± 0.092	6.369LeuGln: 6.369 ± 0.098	7.895LeuArg: 7.895 ± 0.11	7.877LeuSer: 7.877 ± 0.091	5.846LeuThr: 5.846 ± 0.08	7.687LeuVal: 7.687 ± 0.088	1.549LeuTrp: 1.549 ± 0.038	2.631LeuTyr: 2.631 ± 0.052	0.001LeuXaa: 0.001 ± 0.001
Met	2.656MetAla: 2.656 ± 0.046	0.147MetCys: 0.147 ± 0.011	1.02MetAsp: 1.02 ± 0.031	0.891MetGlu: 0.891 ± 0.031	0.626MetPhe: 0.626 ± 0.025	1.514MetGly: 1.514 ± 0.043	0.531MetHis: 0.531 ± 0.023	0.965MetIle: 0.965 ± 0.038	0.738MetLys: 0.738 ± 0.028	2.743MetLeu: 2.743 ± 0.064	0.455MetMet: 0.455 ± 0.022	0.747MetAsn: 0.747 ± 0.025	1.28MetPro: 1.28 ± 0.037	1.161MetGln: 1.161 ± 0.03	1.527MetArg: 1.527 ± 0.036	1.679MetSer: 1.679 ± 0.04	1.288MetThr: 1.288 ± 0.035	1.389MetVal: 1.389 ± 0.038	0.16MetTrp: 0.16 ± 0.014	0.364MetTyr: 0.364 ± 0.021	0.0MetXaa: 0.0 ± 0.0
Asn	3.235AsnAla: 3.235 ± 0.062	0.35AsnCys: 0.35 ± 0.017	1.53AsnAsp: 1.53 ± 0.042	1.403AsnGlu: 1.403 ± 0.037	1.088AsnPhe: 1.088 ± 0.034	2.478AsnGly: 2.478 ± 0.068	0.621AsnHis: 0.621 ± 0.025	1.345AsnIle: 1.345 ± 0.038	0.949AsnLys: 0.949 ± 0.033	3.67AsnLeu: 3.67 ± 0.062	0.551AsnMet: 0.551 ± 0.024	0.925AsnAsn: 0.925 ± 0.03	1.975AsnPro: 1.975 ± 0.047	1.431AsnGln: 1.431 ± 0.041	1.766AsnArg: 1.766 ± 0.04	1.74AsnSer: 1.74 ± 0.041	1.378AsnThr: 1.378 ± 0.033	1.863AsnVal: 1.863 ± 0.051	0.488AsnTrp: 0.488 ± 0.021	0.808AsnTyr: 0.808 ± 0.03	0.0AsnXaa: 0.0 ± 0.0
Pro	6.233ProAla: 6.233 ± 0.097	0.398ProCys: 0.398 ± 0.02	2.552ProAsp: 2.552 ± 0.056	3.071ProGlu: 3.071 ± 0.051	1.704ProPhe: 1.704 ± 0.039	3.726ProGly: 3.726 ± 0.055	1.076ProHis: 1.076 ± 0.029	1.881ProIle: 1.881 ± 0.048	1.414ProLys: 1.414 ± 0.041	6.182ProLeu: 6.182 ± 0.082	1.126ProMet: 1.126 ± 0.034	1.344ProAsn: 1.344 ± 0.039	1.899ProPro: 1.899 ± 0.051	2.671ProGln: 2.671 ± 0.057	2.586ProArg: 2.586 ± 0.057	2.601ProSer: 2.601 ± 0.056	2.139ProThr: 2.139 ± 0.05	3.609ProVal: 3.609 ± 0.064	0.766ProTrp: 0.766 ± 0.025	1.168ProTyr: 1.168 ± 0.034	0.001ProXaa: 0.001 ± 0.001
Gln	7.004GlnAla: 7.004 ± 0.104	0.367GlnCys: 0.367 ± 0.02	1.878GlnAsp: 1.878 ± 0.045	2.046GlnGlu: 2.046 ± 0.047	1.468GlnPhe: 1.468 ± 0.043	3.675GlnGly: 3.675 ± 0.06	1.42GlnHis: 1.42 ± 0.036	2.233GlnIle: 2.233 ± 0.045	1.195GlnLys: 1.195 ± 0.038	7.12GlnLeu: 7.12 ± 0.105	1.087GlnMet: 1.087 ± 0.035	1.12GlnAsn: 1.12 ± 0.037	2.819GlnPro: 2.819 ± 0.067	3.681GlnGln: 3.681 ± 0.084	4.383GlnArg: 4.383 ± 0.065	2.353GlnSer: 2.353 ± 0.052	1.977GlnThr: 1.977 ± 0.049	4.019GlnVal: 4.019 ± 0.072	0.704GlnTrp: 0.704 ± 0.03	1.024GlnTyr: 1.024 ± 0.029	0.0GlnXaa: 0.0 ± 0.0
Arg	6.278ArgAla: 6.278 ± 0.085	0.643ArgCys: 0.643 ± 0.027	3.382ArgAsp: 3.382 ± 0.058	4.265ArgGlu: 4.265 ± 0.07	2.682ArgPhe: 2.682 ± 0.054	4.018ArgGly: 4.018 ± 0.063	1.706ArgHis: 1.706 ± 0.044	3.147ArgIle: 3.147 ± 0.055	1.845ArgLys: 1.845 ± 0.047	8.742ArgLeu: 8.742 ± 0.114	1.46ArgMet: 1.46 ± 0.04	1.853ArgAsn: 1.853 ± 0.042	2.652ArgPro: 2.652 ± 0.049	3.763ArgGln: 3.763 ± 0.075	4.07ArgArg: 4.07 ± 0.066	3.356ArgSer: 3.356 ± 0.057	2.468ArgThr: 2.468 ± 0.046	4.25ArgVal: 4.25 ± 0.081	1.062ArgTrp: 1.062 ± 0.036	2.024ArgTyr: 2.024 ± 0.043	0.001ArgXaa: 0.001 ± 0.001
Ser	6.7SerAla: 6.7 ± 0.086	0.563SerCys: 0.563 ± 0.023	2.891SerAsp: 2.891 ± 0.065	3.234SerGlu: 3.234 ± 0.064	2.134SerPhe: 2.134 ± 0.05	5.149SerGly: 5.149 ± 0.081	1.312SerHis: 1.312 ± 0.035	2.603SerIle: 2.603 ± 0.052	1.836SerLys: 1.836 ± 0.048	7.506SerLeu: 7.506 ± 0.097	1.274SerMet: 1.274 ± 0.035	1.83SerAsn: 1.83 ± 0.047	2.626SerPro: 2.626 ± 0.054	2.754SerGln: 2.754 ± 0.045	3.588SerArg: 3.588 ± 0.057	3.726SerSer: 3.726 ± 0.08	2.797SerThr: 2.797 ± 0.057	3.83SerVal: 3.83 ± 0.063	0.85SerTrp: 0.85 ± 0.03	1.467SerTyr: 1.467 ± 0.042	0.0SerXaa: 0.0 ± 0.0
Thr	5.021ThrAla: 5.021 ± 0.07	0.486ThrCys: 0.486 ± 0.025	2.207ThrAsp: 2.207 ± 0.044	2.29ThrGlu: 2.29 ± 0.05	1.571ThrPhe: 1.571 ± 0.041	3.747ThrGly: 3.747 ± 0.064	0.942ThrHis: 0.942 ± 0.029	1.727ThrIle: 1.727 ± 0.046	1.011ThrLys: 1.011 ± 0.038	6.437ThrLeu: 6.437 ± 0.095	0.7ThrMet: 0.7 ± 0.025	1.141ThrAsn: 1.141 ± 0.034	2.985ThrPro: 2.985 ± 0.06	1.988ThrGln: 1.988 ± 0.044	2.791ThrArg: 2.791 ± 0.052	2.483ThrSer: 2.483 ± 0.049	2.203ThrThr: 2.203 ± 0.061	3.018ThrVal: 3.018 ± 0.063	0.678ThrTrp: 0.678 ± 0.028	1.192ThrTyr: 1.192 ± 0.037	0.0ThrXaa: 0.0 ± 0.0
Val	7.758ValAla: 7.758 ± 0.1	0.756ValCys: 0.756 ± 0.031	3.744ValAsp: 3.744 ± 0.06	4.207ValGlu: 4.207 ± 0.07	2.456ValPhe: 2.456 ± 0.051	4.941ValGly: 4.941 ± 0.079	1.381ValHis: 1.381 ± 0.039	3.491ValIle: 3.491 ± 0.073	2.211ValLys: 2.211 ± 0.055	8.447ValLeu: 8.447 ± 0.11	1.633ValMet: 1.633 ± 0.044	2.098ValAsn: 2.098 ± 0.048	3.217ValPro: 3.217 ± 0.054	2.86ValGln: 2.86 ± 0.049	4.095ValArg: 4.095 ± 0.064	4.188ValSer: 4.188 ± 0.056	3.173ValThr: 3.173 ± 0.06	4.947ValVal: 4.947 ± 0.092	0.886ValTrp: 0.886 ± 0.032	1.524ValTyr: 1.524 ± 0.038	0.002ValXaa: 0.002 ± 0.001
Trp	1.239TrpAla: 1.239 ± 0.043	0.183TrpCys: 0.183 ± 0.013	0.601TrpAsp: 0.601 ± 0.021	0.53TrpGlu: 0.53 ± 0.022	0.496TrpPhe: 0.496 ± 0.022	0.893TrpGly: 0.893 ± 0.036	0.404TrpHis: 0.404 ± 0.022	0.572TrpIle: 0.572 ± 0.026	0.379TrpLys: 0.379 ± 0.019	2.481TrpLeu: 2.481 ± 0.061	0.366TrpMet: 0.366 ± 0.019	0.396TrpAsn: 0.396 ± 0.02	0.699TrpPro: 0.699 ± 0.028	1.173TrpGln: 1.173 ± 0.037	1.135TrpArg: 1.135 ± 0.034	0.8TrpSer: 0.8 ± 0.031	0.524TrpThr: 0.524 ± 0.026	0.913TrpVal: 0.913 ± 0.027	0.25TrpTrp: 0.25 ± 0.018	0.353TrpTyr: 0.353 ± 0.019	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.608TyrAla: 2.608 ± 0.048	0.308TyrCys: 0.308 ± 0.017	1.269TyrAsp: 1.269 ± 0.038	1.1TyrGlu: 1.1 ± 0.033	0.958TyrPhe: 0.958 ± 0.029	2.054TyrGly: 2.054 ± 0.049	0.532TyrHis: 0.532 ± 0.023	0.909TyrIle: 0.909 ± 0.031	0.734TyrLys: 0.734 ± 0.028	3.18TyrLeu: 3.18 ± 0.06	0.443TyrMet: 0.443 ± 0.021	0.701TyrAsn: 0.701 ± 0.031	1.368TyrPro: 1.368 ± 0.032	1.508TyrGln: 1.508 ± 0.039	1.898TyrArg: 1.898 ± 0.043	1.591TyrSer: 1.591 ± 0.041	1.129TyrThr: 1.129 ± 0.034	1.521TyrVal: 1.521 ± 0.041	0.434TyrTrp: 0.434 ± 0.021	0.68TyrTyr: 0.68 ± 0.03	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.002XaaAla: 0.002 ± 0.001	0.0XaaCys: 0.0 ± 0.0	0.0XaaAsp: 0.0 ± 0.0	0.0XaaGlu: 0.0 ± 0.0	0.0XaaPhe: 0.0 ± 0.0	0.001XaaGly: 0.001 ± 0.001	0.0XaaHis: 0.0 ± 0.0	0.0XaaIle: 0.0 ± 0.0	0.0XaaLys: 0.0 ± 0.0	0.001XaaLeu: 0.001 ± 0.001	0.0XaaMet: 0.0 ± 0.0	0.0XaaAsn: 0.0 ± 0.0	0.001XaaPro: 0.001 ± 0.001	0.0XaaGln: 0.0 ± 0.0	0.0XaaArg: 0.0 ± 0.0	0.0XaaSer: 0.0 ± 0.0	0.0XaaThr: 0.0 ± 0.0	0.001XaaVal: 0.001 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.012XaaXaa: 0.012 ± 0.004

Statistics based on 3785 proteins (1019170 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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