Amino acid dipepetide frequency for Alcaligenaceae bacterium

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	13.606AlaAla: 13.606 ± 0.151	1.148AlaCys: 1.148 ± 0.031	5.799AlaAsp: 5.799 ± 0.067	6.003AlaGlu: 6.003 ± 0.075	3.92AlaPhe: 3.92 ± 0.057	8.648AlaGly: 8.648 ± 0.095	2.325AlaHis: 2.325 ± 0.05	5.471AlaIle: 5.471 ± 0.076	4.28AlaLys: 4.28 ± 0.073	12.318AlaLeu: 12.318 ± 0.11	3.025AlaMet: 3.025 ± 0.058	3.213AlaAsn: 3.213 ± 0.056	4.858AlaPro: 4.858 ± 0.072	4.775AlaGln: 4.775 ± 0.065	7.34AlaArg: 7.34 ± 0.09	6.96AlaSer: 6.96 ± 0.084	5.964AlaThr: 5.964 ± 0.084	8.226AlaVal: 8.226 ± 0.092	1.575AlaTrp: 1.575 ± 0.039	2.524AlaTyr: 2.524 ± 0.043	0.0AlaXaa: 0.0 ± 0.0
Cys	1.07CysAla: 1.07 ± 0.03	0.136CysCys: 0.136 ± 0.011	0.568CysAsp: 0.568 ± 0.02	0.554CysGlu: 0.554 ± 0.023	0.366CysPhe: 0.366 ± 0.019	0.937CysGly: 0.937 ± 0.027	0.261CysHis: 0.261 ± 0.014	0.506CysIle: 0.506 ± 0.021	0.302CysLys: 0.302 ± 0.014	0.922CysLeu: 0.922 ± 0.028	0.242CysMet: 0.242 ± 0.015	0.3CysAsn: 0.3 ± 0.016	0.445CysPro: 0.445 ± 0.02	0.285CysGln: 0.285 ± 0.015	0.687CysArg: 0.687 ± 0.027	0.693CysSer: 0.693 ± 0.025	0.541CysThr: 0.541 ± 0.021	0.751CysVal: 0.751 ± 0.026	0.135CysTrp: 0.135 ± 0.01	0.235CysTyr: 0.235 ± 0.013	0.0CysXaa: 0.0 ± 0.0
Asp	6.241AspAla: 6.241 ± 0.073	0.478AspCys: 0.478 ± 0.021	2.961AspAsp: 2.961 ± 0.051	3.364AspGlu: 3.364 ± 0.055	2.257AspPhe: 2.257 ± 0.043	4.445AspGly: 4.445 ± 0.07	1.171AspHis: 1.171 ± 0.033	2.788AspIle: 2.788 ± 0.049	1.919AspLys: 1.919 ± 0.046	5.417AspLeu: 5.417 ± 0.069	1.144AspMet: 1.144 ± 0.031	1.462AspAsn: 1.462 ± 0.035	2.873AspPro: 2.873 ± 0.053	1.87AspGln: 1.87 ± 0.043	3.555AspArg: 3.555 ± 0.061	2.855AspSer: 2.855 ± 0.045	2.589AspThr: 2.589 ± 0.044	4.249AspVal: 4.249 ± 0.067	0.936AspTrp: 0.936 ± 0.03	1.471AspTyr: 1.471 ± 0.04	0.0AspXaa: 0.0 ± 0.0
Glu	6.063GluAla: 6.063 ± 0.076	0.46GluCys: 0.46 ± 0.022	2.439GluAsp: 2.439 ± 0.046	2.906GluGlu: 2.906 ± 0.053	2.027GluPhe: 2.027 ± 0.042	3.533GluGly: 3.533 ± 0.055	1.334GluHis: 1.334 ± 0.037	3.07GluIle: 3.07 ± 0.044	2.439GluLys: 2.439 ± 0.056	5.971GluLeu: 5.971 ± 0.08	1.36GluMet: 1.36 ± 0.034	1.618GluAsn: 1.618 ± 0.034	2.333GluPro: 2.333 ± 0.05	2.613GluGln: 2.613 ± 0.054	4.472GluArg: 4.472 ± 0.064	3.191GluSer: 3.191 ± 0.061	2.714GluThr: 2.714 ± 0.047	4.067GluVal: 4.067 ± 0.063	0.814GluTrp: 0.814 ± 0.033	1.256GluTyr: 1.256 ± 0.032	0.0GluXaa: 0.0 ± 0.0
Phe	3.964PheAla: 3.964 ± 0.064	0.422PheCys: 0.422 ± 0.019	2.569PheAsp: 2.569 ± 0.046	2.257PheGlu: 2.257 ± 0.039	1.457PhePhe: 1.457 ± 0.037	3.212PheGly: 3.212 ± 0.059	0.779PheHis: 0.779 ± 0.026	1.706PheIle: 1.706 ± 0.038	1.447PheLys: 1.447 ± 0.036	3.325PheLeu: 3.325 ± 0.059	0.788PheMet: 0.788 ± 0.026	1.31PheAsn: 1.31 ± 0.036	1.614PhePro: 1.614 ± 0.037	1.193PheGln: 1.193 ± 0.031	2.054PheArg: 2.054 ± 0.041	2.539PheSer: 2.539 ± 0.056	2.007PheThr: 2.007 ± 0.044	2.807PheVal: 2.807 ± 0.053	0.608PheTrp: 0.608 ± 0.025	1.017PheTyr: 1.017 ± 0.034	0.0PheXaa: 0.0 ± 0.0
Gly	7.554GlyAla: 7.554 ± 0.096	0.83GlyCys: 0.83 ± 0.025	3.703GlyAsp: 3.703 ± 0.061	3.914GlyGlu: 3.914 ± 0.057	3.107GlyPhe: 3.107 ± 0.048	5.833GlyGly: 5.833 ± 0.083	1.768GlyHis: 1.768 ± 0.039	3.912GlyIle: 3.912 ± 0.054	3.566GlyLys: 3.566 ± 0.054	7.588GlyLeu: 7.588 ± 0.086	2.194GlyMet: 2.194 ± 0.044	2.479GlyAsn: 2.479 ± 0.058	2.866GlyPro: 2.866 ± 0.051	2.948GlyGln: 2.948 ± 0.058	4.88GlyArg: 4.88 ± 0.081	4.982GlySer: 4.982 ± 0.066	4.414GlyThr: 4.414 ± 0.075	5.876GlyVal: 5.876 ± 0.085	1.362GlyTrp: 1.362 ± 0.038	2.341GlyTyr: 2.341 ± 0.047	0.0GlyXaa: 0.0 ± 0.0
His	2.462HisAla: 2.462 ± 0.047	0.294HisCys: 0.294 ± 0.016	1.213HisAsp: 1.213 ± 0.034	1.2HisGlu: 1.2 ± 0.028	0.907HisPhe: 0.907 ± 0.032	1.802HisGly: 1.802 ± 0.033	0.669HisHis: 0.669 ± 0.028	1.026HisIle: 1.026 ± 0.03	0.661HisLys: 0.661 ± 0.021	2.236HisLeu: 2.236 ± 0.043	0.523HisMet: 0.523 ± 0.023	0.572HisAsn: 0.572 ± 0.023	1.355HisPro: 1.355 ± 0.031	0.825HisGln: 0.825 ± 0.028	1.58HisArg: 1.58 ± 0.041	1.306HisSer: 1.306 ± 0.034	1.045HisThr: 1.045 ± 0.03	1.594HisVal: 1.594 ± 0.038	0.43HisTrp: 0.43 ± 0.019	0.651HisTyr: 0.651 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	6.162IleAla: 6.162 ± 0.078	0.549IleCys: 0.549 ± 0.019	3.47IleAsp: 3.47 ± 0.054	3.437IleGlu: 3.437 ± 0.053	1.591IlePhe: 1.591 ± 0.04	4.058IleGly: 4.058 ± 0.056	0.934IleHis: 0.934 ± 0.032	1.855IleIle: 1.855 ± 0.041	1.978IleLys: 1.978 ± 0.044	3.844IleLeu: 3.844 ± 0.062	0.828IleMet: 0.828 ± 0.028	1.674IleAsn: 1.674 ± 0.038	2.241IlePro: 2.241 ± 0.042	1.613IleGln: 1.613 ± 0.039	3.081IleArg: 3.081 ± 0.049	3.241IleSer: 3.241 ± 0.057	2.766IleThr: 2.766 ± 0.044	3.719IleVal: 3.719 ± 0.058	0.565IleTrp: 0.565 ± 0.019	1.185IleTyr: 1.185 ± 0.031	0.0IleXaa: 0.0 ± 0.0
Lys	4.346LysAla: 4.346 ± 0.075	0.265LysCys: 0.265 ± 0.015	1.977LysAsp: 1.977 ± 0.039	2.038LysGlu: 2.038 ± 0.045	1.247LysPhe: 1.247 ± 0.032	2.689LysGly: 2.689 ± 0.054	0.879LysHis: 0.879 ± 0.029	1.864LysIle: 1.864 ± 0.04	1.838LysLys: 1.838 ± 0.053	3.895LysLeu: 3.895 ± 0.054	0.97LysMet: 0.97 ± 0.027	1.324LysAsn: 1.324 ± 0.039	2.23LysPro: 2.23 ± 0.048	1.587LysGln: 1.587 ± 0.037	2.723LysArg: 2.723 ± 0.049	2.535LysSer: 2.535 ± 0.049	2.427LysThr: 2.427 ± 0.051	2.827LysVal: 2.827 ± 0.044	0.492LysTrp: 0.492 ± 0.019	0.974LysTyr: 0.974 ± 0.031	0.0LysXaa: 0.0 ± 0.0
Leu	12.107LeuAla: 12.107 ± 0.103	1.04LeuCys: 1.04 ± 0.03	5.438LeuAsp: 5.438 ± 0.074	5.311LeuGlu: 5.311 ± 0.085	3.506LeuPhe: 3.506 ± 0.06	7.574LeuGly: 7.574 ± 0.089	2.222LeuHis: 2.222 ± 0.048	4.838LeuIle: 4.838 ± 0.075	3.989LeuLys: 3.989 ± 0.055	10.085LeuLeu: 10.085 ± 0.126	2.331LeuMet: 2.331 ± 0.047	3.117LeuAsn: 3.117 ± 0.051	5.274LeuPro: 5.274 ± 0.079	3.836LeuGln: 3.836 ± 0.066	7.239LeuArg: 7.239 ± 0.088	6.958LeuSer: 6.958 ± 0.088	5.739LeuThr: 5.739 ± 0.077	7.318LeuVal: 7.318 ± 0.085	1.21LeuTrp: 1.21 ± 0.033	2.193LeuTyr: 2.193 ± 0.044	0.0LeuXaa: 0.0 ± 0.0
Met	2.739MetAla: 2.739 ± 0.045	0.203MetCys: 0.203 ± 0.014	1.07MetAsp: 1.07 ± 0.032	1.072MetGlu: 1.072 ± 0.028	0.767MetPhe: 0.767 ± 0.026	1.639MetGly: 1.639 ± 0.036	0.572MetHis: 0.572 ± 0.024	1.072MetIle: 1.072 ± 0.031	1.163MetLys: 1.163 ± 0.036	2.484MetLeu: 2.484 ± 0.052	0.551MetMet: 0.551 ± 0.022	0.906MetAsn: 0.906 ± 0.026	1.41MetPro: 1.41 ± 0.04	1.048MetGln: 1.048 ± 0.029	1.778MetArg: 1.778 ± 0.039	1.811MetSer: 1.811 ± 0.037	1.632MetThr: 1.632 ± 0.033	1.569MetVal: 1.569 ± 0.042	0.242MetTrp: 0.242 ± 0.016	0.445MetTyr: 0.445 ± 0.016	0.001MetXaa: 0.001 ± 0.001
Asn	3.463AsnAla: 3.463 ± 0.056	0.326AsnCys: 0.326 ± 0.018	1.586AsnAsp: 1.586 ± 0.042	1.535AsnGlu: 1.535 ± 0.039	1.123AsnPhe: 1.123 ± 0.037	2.551AsnGly: 2.551 ± 0.05	0.643AsnHis: 0.643 ± 0.023	1.574AsnIle: 1.574 ± 0.041	1.169AsnLys: 1.169 ± 0.034	2.976AsnLeu: 2.976 ± 0.051	0.655AsnMet: 0.655 ± 0.022	0.961AsnAsn: 0.961 ± 0.031	2.007AsnPro: 2.007 ± 0.042	1.08AsnGln: 1.08 ± 0.028	1.999AsnArg: 1.999 ± 0.041	1.862AsnSer: 1.862 ± 0.039	1.683AsnThr: 1.683 ± 0.041	2.275AsnVal: 2.275 ± 0.043	0.496AsnTrp: 0.496 ± 0.02	0.933AsnTyr: 0.933 ± 0.027	0.001AsnXaa: 0.001 ± 0.001
Pro	5.51ProAla: 5.51 ± 0.077	0.373ProCys: 0.373 ± 0.016	3.108ProAsp: 3.108 ± 0.055	3.128ProGlu: 3.128 ± 0.049	1.835ProPhe: 1.835 ± 0.041	3.796ProGly: 3.796 ± 0.058	1.111ProHis: 1.111 ± 0.031	2.182ProIle: 2.182 ± 0.044	1.82ProLys: 1.82 ± 0.037	4.59ProLeu: 4.59 ± 0.062	1.271ProMet: 1.271 ± 0.033	1.531ProAsn: 1.531 ± 0.037	2.281ProPro: 2.281 ± 0.053	1.875ProGln: 1.875 ± 0.036	2.728ProArg: 2.728 ± 0.051	3.283ProSer: 3.283 ± 0.053	2.722ProThr: 2.722 ± 0.05	3.768ProVal: 3.768 ± 0.063	0.692ProTrp: 0.692 ± 0.023	1.256ProTyr: 1.256 ± 0.037	0.0ProXaa: 0.0 ± 0.0
Gln	4.703GlnAla: 4.703 ± 0.068	0.374GlnCys: 0.374 ± 0.019	1.741GlnAsp: 1.741 ± 0.037	1.75GlnGlu: 1.75 ± 0.038	1.377GlnPhe: 1.377 ± 0.035	2.712GlnGly: 2.712 ± 0.051	0.926GlnHis: 0.926 ± 0.03	2.011GlnIle: 2.011 ± 0.04	1.435GlnLys: 1.435 ± 0.035	4.0GlnLeu: 4.0 ± 0.063	0.979GlnMet: 0.979 ± 0.03	1.059GlnAsn: 1.059 ± 0.029	1.901GlnPro: 1.901 ± 0.042	1.738GlnGln: 1.738 ± 0.04	2.917GlnArg: 2.917 ± 0.051	2.406GlnSer: 2.406 ± 0.042	2.083GlnThr: 2.083 ± 0.043	2.882GlnVal: 2.882 ± 0.048	0.686GlnTrp: 0.686 ± 0.025	0.934GlnTyr: 0.934 ± 0.025	0.0GlnXaa: 0.0 ± 0.0
Arg	6.92ArgAla: 6.92 ± 0.097	0.684ArgCys: 0.684 ± 0.023	3.761ArgAsp: 3.761 ± 0.064	3.948ArgGlu: 3.948 ± 0.058	2.664ArgPhe: 2.664 ± 0.057	4.21ArgGly: 4.21 ± 0.058	1.692ArgHis: 1.692 ± 0.039	3.507ArgIle: 3.507 ± 0.055	2.653ArgLys: 2.653 ± 0.05	7.262ArgLeu: 7.262 ± 0.094	1.844ArgMet: 1.844 ± 0.04	2.128ArgAsn: 2.128 ± 0.043	2.984ArgPro: 2.984 ± 0.055	2.821ArgGln: 2.821 ± 0.051	5.162ArgArg: 5.162 ± 0.083	4.362ArgSer: 4.362 ± 0.062	3.492ArgThr: 3.492 ± 0.053	4.726ArgVal: 4.726 ± 0.067	1.144ArgTrp: 1.144 ± 0.032	2.043ArgTyr: 2.043 ± 0.045	0.0ArgXaa: 0.0 ± 0.0
Ser	6.95SerAla: 6.95 ± 0.093	0.584SerCys: 0.584 ± 0.021	3.383SerAsp: 3.383 ± 0.053	3.325SerGlu: 3.325 ± 0.058	2.493SerPhe: 2.493 ± 0.042	5.443SerGly: 5.443 ± 0.074	1.367SerHis: 1.367 ± 0.034	3.215SerIle: 3.215 ± 0.057	2.423SerLys: 2.423 ± 0.045	6.301SerLeu: 6.301 ± 0.073	1.651SerMet: 1.651 ± 0.047	1.997SerAsn: 1.997 ± 0.05	3.271SerPro: 3.271 ± 0.058	2.275SerGln: 2.275 ± 0.046	4.186SerArg: 4.186 ± 0.063	4.313SerSer: 4.313 ± 0.081	3.72SerThr: 3.72 ± 0.059	4.663SerVal: 4.663 ± 0.061	0.915SerTrp: 0.915 ± 0.03	1.71SerTyr: 1.71 ± 0.042	0.0SerXaa: 0.0 ± 0.0
Thr	5.948ThrAla: 5.948 ± 0.08	0.524ThrCys: 0.524 ± 0.021	2.771ThrAsp: 2.771 ± 0.045	2.652ThrGlu: 2.652 ± 0.045	2.004ThrPhe: 2.004 ± 0.047	4.587ThrGly: 4.587 ± 0.07	1.241ThrHis: 1.241 ± 0.032	2.619ThrIle: 2.619 ± 0.045	1.836ThrLys: 1.836 ± 0.036	5.936ThrLeu: 5.936 ± 0.07	1.197ThrMet: 1.197 ± 0.027	1.558ThrAsn: 1.558 ± 0.045	3.317ThrPro: 3.317 ± 0.055	1.948ThrGln: 1.948 ± 0.041	3.441ThrArg: 3.441 ± 0.061	3.529ThrSer: 3.529 ± 0.052	3.205ThrThr: 3.205 ± 0.06	4.391ThrVal: 4.391 ± 0.07	0.773ThrTrp: 0.773 ± 0.026	1.485ThrTyr: 1.485 ± 0.042	0.0ThrXaa: 0.0 ± 0.0
Val	8.234ValAla: 8.234 ± 0.089	0.765ValCys: 0.765 ± 0.027	4.292ValAsp: 4.292 ± 0.059	4.244ValGlu: 4.244 ± 0.059	2.782ValPhe: 2.782 ± 0.051	5.449ValGly: 5.449 ± 0.079	1.594ValHis: 1.594 ± 0.037	3.752ValIle: 3.752 ± 0.07	2.699ValLys: 2.699 ± 0.052	7.728ValLeu: 7.728 ± 0.099	1.691ValMet: 1.691 ± 0.035	2.381ValAsn: 2.381 ± 0.048	3.748ValPro: 3.748 ± 0.065	2.681ValGln: 2.681 ± 0.055	5.072ValArg: 5.072 ± 0.072	4.814ValSer: 4.814 ± 0.074	4.092ValThr: 4.092 ± 0.067	6.159ValVal: 6.159 ± 0.079	0.946ValTrp: 0.946 ± 0.033	1.675ValTyr: 1.675 ± 0.037	0.0ValXaa: 0.0 ± 0.0
Trp	1.303TrpAla: 1.303 ± 0.041	0.204TrpCys: 0.204 ± 0.015	0.688TrpAsp: 0.688 ± 0.025	0.654TrpGlu: 0.654 ± 0.022	0.54TrpPhe: 0.54 ± 0.02	0.913TrpGly: 0.913 ± 0.026	0.383TrpHis: 0.383 ± 0.019	0.802TrpIle: 0.802 ± 0.027	0.575TrpLys: 0.575 ± 0.022	1.802TrpLeu: 1.802 ± 0.038	0.411TrpMet: 0.411 ± 0.019	0.543TrpAsn: 0.543 ± 0.018	0.658TrpPro: 0.658 ± 0.027	0.687TrpGln: 0.687 ± 0.026	1.202TrpArg: 1.202 ± 0.035	0.924TrpSer: 0.924 ± 0.026	0.799TrpThr: 0.799 ± 0.024	1.014TrpVal: 1.014 ± 0.028	0.26TrpTrp: 0.26 ± 0.017	0.346TrpTyr: 0.346 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.634TyrAla: 2.634 ± 0.051	0.278TyrCys: 0.278 ± 0.016	1.51TyrAsp: 1.51 ± 0.046	1.388TyrGlu: 1.388 ± 0.038	1.104TyrPhe: 1.104 ± 0.036	2.087TyrGly: 2.087 ± 0.045	0.48TyrHis: 0.48 ± 0.021	1.024TyrIle: 1.024 ± 0.029	0.933TyrLys: 0.933 ± 0.029	2.646TyrLeu: 2.646 ± 0.051	0.521TyrMet: 0.521 ± 0.02	0.762TyrAsn: 0.762 ± 0.028	1.192TyrPro: 1.192 ± 0.026	0.916TyrGln: 0.916 ± 0.028	1.91TyrArg: 1.91 ± 0.04	1.622TyrSer: 1.622 ± 0.036	1.329TyrThr: 1.329 ± 0.035	1.914TyrVal: 1.914 ± 0.04	0.425TyrTrp: 0.425 ± 0.02	0.693TyrTyr: 0.693 ± 0.028	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	0.002XaaPro: 0.002 ± 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	0.0XaaVal: 0.0 ± 0.0	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.002XaaXaa: 0.002 ± 0.001

Statistics based on 5394 proteins (1188387 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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