Amino acid dipepetide frequency for Alphaproteobacteria bacterium PA2

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	18.109AlaAla: 18.109 ± 0.173	1.168AlaCys: 1.168 ± 0.037	7.3AlaAsp: 7.3 ± 0.086	7.43AlaGlu: 7.43 ± 0.093	4.819AlaPhe: 4.819 ± 0.073	11.413AlaGly: 11.413 ± 0.114	2.309AlaHis: 2.309 ± 0.046	5.772AlaIle: 5.772 ± 0.082	4.362AlaLys: 4.362 ± 0.08	13.539AlaLeu: 13.539 ± 0.137	3.643AlaMet: 3.643 ± 0.066	3.139AlaAsn: 3.139 ± 0.058	6.861AlaPro: 6.861 ± 0.103	4.568AlaGln: 4.568 ± 0.064	9.574AlaArg: 9.574 ± 0.114	6.668AlaSer: 6.668 ± 0.086	5.985AlaThr: 5.985 ± 0.086	8.564AlaVal: 8.564 ± 0.098	1.864AlaTrp: 1.864 ± 0.051	2.892AlaTyr: 2.892 ± 0.059	0.0AlaXaa: 0.0 ± 0.0
Cys	1.02CysAla: 1.02 ± 0.031	0.085CysCys: 0.085 ± 0.009	0.52CysAsp: 0.52 ± 0.022	0.421CysGlu: 0.421 ± 0.022	0.287CysPhe: 0.287 ± 0.017	0.833CysGly: 0.833 ± 0.03	0.208CysHis: 0.208 ± 0.013	0.31CysIle: 0.31 ± 0.017	0.182CysLys: 0.182 ± 0.013	0.76CysLeu: 0.76 ± 0.028	0.134CysMet: 0.134 ± 0.011	0.19CysAsn: 0.19 ± 0.014	0.42CysPro: 0.42 ± 0.024	0.25CysGln: 0.25 ± 0.016	0.516CysArg: 0.516 ± 0.022	0.393CysSer: 0.393 ± 0.022	0.351CysThr: 0.351 ± 0.021	0.581CysVal: 0.581 ± 0.023	0.091CysTrp: 0.091 ± 0.009	0.165CysTyr: 0.165 ± 0.011	0.0CysXaa: 0.0 ± 0.0
Asp	6.728AspAla: 6.728 ± 0.079	0.41AspCys: 0.41 ± 0.021	2.891AspAsp: 2.891 ± 0.06	3.196AspGlu: 3.196 ± 0.06	2.322AspPhe: 2.322 ± 0.052	5.172AspGly: 5.172 ± 0.082	1.321AspHis: 1.321 ± 0.04	2.826AspIle: 2.826 ± 0.058	1.674AspLys: 1.674 ± 0.047	7.138AspLeu: 7.138 ± 0.087	1.443AspMet: 1.443 ± 0.035	1.236AspAsn: 1.236 ± 0.039	4.026AspPro: 4.026 ± 0.061	2.291AspGln: 2.291 ± 0.046	4.408AspArg: 4.408 ± 0.064	2.287AspSer: 2.287 ± 0.059	2.433AspThr: 2.433 ± 0.057	3.911AspVal: 3.911 ± 0.064	0.993AspTrp: 0.993 ± 0.029	1.527AspTyr: 1.527 ± 0.038	0.0AspXaa: 0.0 ± 0.0
Glu	8.178GluAla: 8.178 ± 0.106	0.273GluCys: 0.273 ± 0.016	2.973GluAsp: 2.973 ± 0.054	2.483GluGlu: 2.483 ± 0.067	1.681GluPhe: 1.681 ± 0.045	4.591GluGly: 4.591 ± 0.073	0.989GluHis: 0.989 ± 0.033	3.203GluIle: 3.203 ± 0.067	2.008GluLys: 2.008 ± 0.053	4.69GluLeu: 4.69 ± 0.066	1.286GluMet: 1.286 ± 0.04	1.427GluAsn: 1.427 ± 0.04	2.587GluPro: 2.587 ± 0.047	1.643GluGln: 1.643 ± 0.047	3.958GluArg: 3.958 ± 0.07	2.417GluSer: 2.417 ± 0.051	3.495GluThr: 3.495 ± 0.056	4.157GluVal: 4.157 ± 0.065	0.621GluTrp: 0.621 ± 0.024	0.91GluTyr: 0.91 ± 0.035	0.0GluXaa: 0.0 ± 0.0
Phe	4.546PheAla: 4.546 ± 0.078	0.388PheCys: 0.388 ± 0.019	2.663PheAsp: 2.663 ± 0.059	2.178PheGlu: 2.178 ± 0.044	1.312PhePhe: 1.312 ± 0.037	3.727PheGly: 3.727 ± 0.07	0.765PheHis: 0.765 ± 0.025	1.524PheIle: 1.524 ± 0.036	1.109PheLys: 1.109 ± 0.034	3.199PheLeu: 3.199 ± 0.06	0.878PheMet: 0.878 ± 0.028	1.186PheAsn: 1.186 ± 0.033	1.594PhePro: 1.594 ± 0.043	1.184PheGln: 1.184 ± 0.037	2.182PheArg: 2.182 ± 0.044	2.209PheSer: 2.209 ± 0.044	2.088PheThr: 2.088 ± 0.043	2.552PheVal: 2.552 ± 0.047	0.568PheTrp: 0.568 ± 0.026	0.871PheTyr: 0.871 ± 0.031	0.0PheXaa: 0.0 ± 0.0
Gly	10.705GlyAla: 10.705 ± 0.117	0.758GlyCys: 0.758 ± 0.032	4.96GlyAsp: 4.96 ± 0.081	4.852GlyGlu: 4.852 ± 0.068	3.723GlyPhe: 3.723 ± 0.068	8.419GlyGly: 8.419 ± 0.144	1.788GlyHis: 1.788 ± 0.043	3.422GlyIle: 3.422 ± 0.062	3.444GlyLys: 3.444 ± 0.061	9.951GlyLeu: 9.951 ± 0.11	2.31GlyMet: 2.31 ± 0.054	1.934GlyAsn: 1.934 ± 0.086	4.347GlyPro: 4.347 ± 0.06	3.501GlyGln: 3.501 ± 0.058	6.477GlyArg: 6.477 ± 0.079	4.64GlySer: 4.64 ± 0.081	3.495GlyThr: 3.495 ± 0.069	7.402GlyVal: 7.402 ± 0.085	1.528GlyTrp: 1.528 ± 0.039	2.371GlyTyr: 2.371 ± 0.055	0.0GlyXaa: 0.0 ± 0.0
His	2.23HisAla: 2.23 ± 0.05	0.185HisCys: 0.185 ± 0.014	1.044HisAsp: 1.044 ± 0.033	0.961HisGlu: 0.961 ± 0.033	0.692HisPhe: 0.692 ± 0.026	1.807HisGly: 1.807 ± 0.044	0.524HisHis: 0.524 ± 0.024	0.874HisIle: 0.874 ± 0.034	0.496HisLys: 0.496 ± 0.022	1.972HisLeu: 1.972 ± 0.046	0.492HisMet: 0.492 ± 0.02	0.431HisAsn: 0.431 ± 0.022	1.278HisPro: 1.278 ± 0.032	0.604HisGln: 0.604 ± 0.026	1.26HisArg: 1.26 ± 0.035	0.85HisSer: 0.85 ± 0.03	0.785HisThr: 0.785 ± 0.029	1.347HisVal: 1.347 ± 0.038	0.328HisTrp: 0.328 ± 0.018	0.493HisTyr: 0.493 ± 0.02	0.0HisXaa: 0.0 ± 0.0
Ile	6.344IleAla: 6.344 ± 0.079	0.506IleCys: 0.506 ± 0.022	3.102IleAsp: 3.102 ± 0.048	2.944IleGlu: 2.944 ± 0.057	1.621IlePhe: 1.621 ± 0.046	4.306IleGly: 4.306 ± 0.07	0.806IleHis: 0.806 ± 0.03	2.045IleIle: 2.045 ± 0.047	1.424IleLys: 1.424 ± 0.038	4.555IleLeu: 4.555 ± 0.074	0.95IleMet: 0.95 ± 0.029	1.372IleAsn: 1.372 ± 0.034	2.257IlePro: 2.257 ± 0.046	1.346IleGln: 1.346 ± 0.035	2.918IleArg: 2.918 ± 0.056	3.024IleSer: 3.024 ± 0.056	2.456IleThr: 2.456 ± 0.05	3.373IleVal: 3.373 ± 0.058	0.661IleTrp: 0.661 ± 0.023	1.1IleTyr: 1.1 ± 0.027	0.0IleXaa: 0.0 ± 0.0
Lys	5.135LysAla: 5.135 ± 0.078	0.143LysCys: 0.143 ± 0.012	1.862LysAsp: 1.862 ± 0.046	1.321LysGlu: 1.321 ± 0.04	1.005LysPhe: 1.005 ± 0.033	3.135LysGly: 3.135 ± 0.054	0.527LysHis: 0.527 ± 0.022	1.661LysIle: 1.661 ± 0.044	1.002LysLys: 1.002 ± 0.037	3.201LysLeu: 3.201 ± 0.056	0.763LysMet: 0.763 ± 0.029	0.7LysAsn: 0.7 ± 0.024	2.258LysPro: 2.258 ± 0.051	0.83LysGln: 0.83 ± 0.03	2.125LysArg: 2.125 ± 0.051	2.001LysSer: 2.001 ± 0.051	2.164LysThr: 2.164 ± 0.044	2.872LysVal: 2.872 ± 0.055	0.429LysTrp: 0.429 ± 0.021	0.625LysTyr: 0.625 ± 0.026	0.0LysXaa: 0.0 ± 0.0
Leu	14.467LeuAla: 14.467 ± 0.156	0.79LeuCys: 0.79 ± 0.026	6.065LeuAsp: 6.065 ± 0.082	5.333LeuGlu: 5.333 ± 0.077	3.283LeuPhe: 3.283 ± 0.063	8.698LeuGly: 8.698 ± 0.112	1.704LeuHis: 1.704 ± 0.042	4.945LeuIle: 4.945 ± 0.078	4.238LeuLys: 4.238 ± 0.062	8.22LeuLeu: 8.22 ± 0.122	2.412LeuMet: 2.412 ± 0.051	2.857LeuAsn: 2.857 ± 0.055	5.094LeuPro: 5.094 ± 0.074	2.866LeuGln: 2.866 ± 0.05	6.116LeuArg: 6.116 ± 0.09	6.428LeuSer: 6.428 ± 0.087	6.236LeuThr: 6.236 ± 0.071	7.199LeuVal: 7.199 ± 0.099	1.125LeuTrp: 1.125 ± 0.038	1.958LeuTyr: 1.958 ± 0.044	0.0LeuXaa: 0.0 ± 0.0
Met	3.521MetAla: 3.521 ± 0.068	0.147MetCys: 0.147 ± 0.011	1.349MetAsp: 1.349 ± 0.039	1.144MetGlu: 1.144 ± 0.035	0.749MetPhe: 0.749 ± 0.025	2.203MetGly: 2.203 ± 0.047	0.389MetHis: 0.389 ± 0.018	1.233MetIle: 1.233 ± 0.035	0.961MetLys: 0.961 ± 0.033	2.061MetLeu: 2.061 ± 0.045	0.626MetMet: 0.626 ± 0.025	0.714MetAsn: 0.714 ± 0.026	1.313MetPro: 1.313 ± 0.033	0.677MetGln: 0.677 ± 0.025	1.583MetArg: 1.583 ± 0.038	1.781MetSer: 1.781 ± 0.045	2.04MetThr: 2.04 ± 0.047	1.768MetVal: 1.768 ± 0.04	0.208MetTrp: 0.208 ± 0.013	0.269MetTyr: 0.269 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	3.055AsnAla: 3.055 ± 0.059	0.226AsnCys: 0.226 ± 0.016	1.377AsnAsp: 1.377 ± 0.065	1.047AsnGlu: 1.047 ± 0.032	1.009AsnPhe: 1.009 ± 0.031	2.388AsnGly: 2.388 ± 0.055	0.507AsnHis: 0.507 ± 0.022	1.215AsnIle: 1.215 ± 0.031	0.601AsnLys: 0.601 ± 0.026	2.911AsnLeu: 2.911 ± 0.059	0.601AsnMet: 0.601 ± 0.025	0.684AsnAsn: 0.684 ± 0.033	1.975AsnPro: 1.975 ± 0.039	0.772AsnGln: 0.772 ± 0.031	1.73AsnArg: 1.73 ± 0.042	1.313AsnSer: 1.313 ± 0.039	1.277AsnThr: 1.277 ± 0.042	1.794AsnVal: 1.794 ± 0.051	0.418AsnTrp: 0.418 ± 0.021	0.69AsnTyr: 0.69 ± 0.028	0.0AsnXaa: 0.0 ± 0.0
Pro	6.753ProAla: 6.753 ± 0.081	0.327ProCys: 0.327 ± 0.018	3.953ProAsp: 3.953 ± 0.065	3.619ProGlu: 3.619 ± 0.063	2.045ProPhe: 2.045 ± 0.04	5.233ProGly: 5.233 ± 0.086	0.965ProHis: 0.965 ± 0.034	2.346ProIle: 2.346 ± 0.051	2.059ProLys: 2.059 ± 0.051	4.693ProLeu: 4.693 ± 0.077	1.39ProMet: 1.39 ± 0.035	1.402ProAsn: 1.402 ± 0.038	3.06ProPro: 3.06 ± 0.082	1.882ProGln: 1.882 ± 0.043	3.031ProArg: 3.031 ± 0.059	2.795ProSer: 2.795 ± 0.056	2.825ProThr: 2.825 ± 0.046	4.3ProVal: 4.3 ± 0.075	0.764ProTrp: 0.764 ± 0.032	1.122ProTyr: 1.122 ± 0.035	0.0ProXaa: 0.0 ± 0.0
Gln	5.039GlnAla: 5.039 ± 0.071	0.188GlnCys: 0.188 ± 0.014	1.638GlnAsp: 1.638 ± 0.038	1.367GlnGlu: 1.367 ± 0.039	1.053GlnPhe: 1.053 ± 0.033	2.973GlnGly: 2.973 ± 0.062	0.561GlnHis: 0.561 ± 0.025	1.948GlnIle: 1.948 ± 0.046	1.109GlnLys: 1.109 ± 0.031	2.742GlnLeu: 2.742 ± 0.051	0.834GlnMet: 0.834 ± 0.03	0.81GlnAsn: 0.81 ± 0.029	1.653GlnPro: 1.653 ± 0.041	0.982GlnGln: 0.982 ± 0.036	2.116GlnArg: 2.116 ± 0.051	1.905GlnSer: 1.905 ± 0.047	2.129GlnThr: 2.129 ± 0.046	2.727GlnVal: 2.727 ± 0.051	0.365GlnTrp: 0.365 ± 0.019	0.541GlnTyr: 0.541 ± 0.025	0.0GlnXaa: 0.0 ± 0.0
Arg	8.027ArgAla: 8.027 ± 0.107	0.397ArgCys: 0.397 ± 0.02	3.939ArgAsp: 3.939 ± 0.069	3.599ArgGlu: 3.599 ± 0.061	2.776ArgPhe: 2.776 ± 0.048	4.833ArgGly: 4.833 ± 0.067	1.346ArgHis: 1.346 ± 0.037	3.592ArgIle: 3.592 ± 0.058	2.368ArgLys: 2.368 ± 0.054	7.884ArgLeu: 7.884 ± 0.109	1.848ArgMet: 1.848 ± 0.041	1.866ArgAsn: 1.866 ± 0.043	3.972ArgPro: 3.972 ± 0.076	2.458ArgGln: 2.458 ± 0.049	5.35ArgArg: 5.35 ± 0.077	3.592ArgSer: 3.592 ± 0.071	3.647ArgThr: 3.647 ± 0.056	4.487ArgVal: 4.487 ± 0.062	0.983ArgTrp: 0.983 ± 0.031	1.612ArgTyr: 1.612 ± 0.039	0.0ArgXaa: 0.0 ± 0.0
Ser	6.72SerAla: 6.72 ± 0.085	0.336SerCys: 0.336 ± 0.017	3.131SerAsp: 3.131 ± 0.054	2.823SerGlu: 2.823 ± 0.05	2.123SerPhe: 2.123 ± 0.045	5.707SerGly: 5.707 ± 0.082	1.045SerHis: 1.045 ± 0.032	2.463SerIle: 2.463 ± 0.05	1.759SerLys: 1.759 ± 0.044	5.638SerLeu: 5.638 ± 0.09	1.304SerMet: 1.304 ± 0.034	1.348SerAsn: 1.348 ± 0.046	3.44SerPro: 3.44 ± 0.068	1.875SerGln: 1.875 ± 0.046	3.763SerArg: 3.763 ± 0.07	2.92SerSer: 2.92 ± 0.057	2.709SerThr: 2.709 ± 0.052	3.931SerVal: 3.931 ± 0.06	0.782SerTrp: 0.782 ± 0.026	1.213SerTyr: 1.213 ± 0.036	0.0SerXaa: 0.0 ± 0.0
Thr	6.432ThrAla: 6.432 ± 0.091	0.422ThrCys: 0.422 ± 0.02	2.912ThrAsp: 2.912 ± 0.054	2.513ThrGlu: 2.513 ± 0.049	2.038ThrPhe: 2.038 ± 0.05	5.308ThrGly: 5.308 ± 0.089	1.034ThrHis: 1.034 ± 0.029	2.33ThrIle: 2.33 ± 0.048	1.399ThrLys: 1.399 ± 0.035	5.898ThrLeu: 5.898 ± 0.075	1.035ThrMet: 1.035 ± 0.029	1.333ThrAsn: 1.333 ± 0.045	3.803ThrPro: 3.803 ± 0.071	1.631ThrGln: 1.631 ± 0.043	3.288ThrArg: 3.288 ± 0.057	3.041ThrSer: 3.041 ± 0.056	2.85ThrThr: 2.85 ± 0.06	4.016ThrVal: 4.016 ± 0.071	0.764ThrTrp: 0.764 ± 0.028	1.35ThrTyr: 1.35 ± 0.037	0.0ThrXaa: 0.0 ± 0.0
Val	8.916ValAla: 8.916 ± 0.099	0.638ValCys: 0.638 ± 0.023	4.31ValAsp: 4.31 ± 0.072	4.515ValGlu: 4.515 ± 0.073	2.773ValPhe: 2.773 ± 0.054	5.905ValGly: 5.905 ± 0.082	1.239ValHis: 1.239 ± 0.033	3.901ValIle: 3.901 ± 0.064	2.395ValLys: 2.395 ± 0.057	7.26ValLeu: 7.26 ± 0.085	1.905ValMet: 1.905 ± 0.042	1.95ValAsn: 1.95 ± 0.044	2.888ValPro: 2.888 ± 0.052	2.109ValGln: 2.109 ± 0.045	5.161ValArg: 5.161 ± 0.072	4.612ValSer: 4.612 ± 0.076	4.519ValThr: 4.519 ± 0.074	5.822ValVal: 5.822 ± 0.084	1.08ValTrp: 1.08 ± 0.03	1.518ValTyr: 1.518 ± 0.039	0.0ValXaa: 0.0 ± 0.0
Trp	1.505TrpAla: 1.505 ± 0.041	0.133TrpCys: 0.133 ± 0.012	0.721TrpAsp: 0.721 ± 0.027	0.557TrpGlu: 0.557 ± 0.021	0.557TrpPhe: 0.557 ± 0.024	1.085TrpGly: 1.085 ± 0.033	0.214TrpHis: 0.214 ± 0.016	0.693TrpIle: 0.693 ± 0.025	0.554TrpLys: 0.554 ± 0.025	1.537TrpLeu: 1.537 ± 0.041	0.393TrpMet: 0.393 ± 0.018	0.443TrpAsn: 0.443 ± 0.021	0.707TrpPro: 0.707 ± 0.026	0.394TrpGln: 0.394 ± 0.017	1.357TrpArg: 1.357 ± 0.045	0.985TrpSer: 0.985 ± 0.033	0.926TrpThr: 0.926 ± 0.029	0.904TrpVal: 0.904 ± 0.029	0.22TrpTrp: 0.22 ± 0.014	0.256TrpTyr: 0.256 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.55TyrAla: 2.55 ± 0.049	0.199TyrCys: 0.199 ± 0.015	1.521TyrAsp: 1.521 ± 0.042	1.27TyrGlu: 1.27 ± 0.034	0.854TyrPhe: 0.854 ± 0.026	2.291TyrGly: 2.291 ± 0.06	0.409TyrHis: 0.409 ± 0.026	0.808TyrIle: 0.808 ± 0.029	0.618TyrLys: 0.618 ± 0.028	2.182TyrLeu: 2.182 ± 0.053	0.487TyrMet: 0.487 ± 0.023	0.569TyrAsn: 0.569 ± 0.027	1.03TyrPro: 1.03 ± 0.034	0.817TyrGln: 0.817 ± 0.029	1.659TyrArg: 1.659 ± 0.04	1.172TyrSer: 1.172 ± 0.036	0.987TyrThr: 0.987 ± 0.033	1.707TyrVal: 1.707 ± 0.042	0.352TyrTrp: 0.352 ± 0.018	0.583TyrTyr: 0.583 ± 0.023	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 3257 proteins (1055213 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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