Amino acid dipepetide frequency for Methylobacterium nodulans (strain LMG 21967 / CNCM I-2342 / ORS 2060)

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	22.395AlaAla: 22.395 ± 0.17	1.371AlaCys: 1.371 ± 0.03	6.95AlaAsp: 6.95 ± 0.073	8.894AlaGlu: 8.894 ± 0.074	4.561AlaPhe: 4.561 ± 0.052	12.448AlaGly: 12.448 ± 0.103	2.407AlaHis: 2.407 ± 0.032	5.998AlaIle: 5.998 ± 0.064	3.331AlaLys: 3.331 ± 0.052	15.634AlaLeu: 15.634 ± 0.132	3.364AlaMet: 3.364 ± 0.036	2.462AlaAsn: 2.462 ± 0.043	7.259AlaPro: 7.259 ± 0.076	4.262AlaGln: 4.262 ± 0.055	11.667AlaArg: 11.667 ± 0.095	6.524AlaSer: 6.524 ± 0.067	6.441AlaThr: 6.441 ± 0.082	10.424AlaVal: 10.424 ± 0.087	1.87AlaTrp: 1.87 ± 0.033	2.743AlaTyr: 2.743 ± 0.039	0.0AlaXaa: 0.0 ± 0.0
Cys	1.146CysAla: 1.146 ± 0.028	0.12CysCys: 0.12 ± 0.009	0.536CysAsp: 0.536 ± 0.018	0.498CysGlu: 0.498 ± 0.016	0.3CysPhe: 0.3 ± 0.012	0.998CysGly: 0.998 ± 0.025	0.242CysHis: 0.242 ± 0.011	0.357CysIle: 0.357 ± 0.013	0.156CysLys: 0.156 ± 0.01	0.932CysLeu: 0.932 ± 0.024	0.167CysMet: 0.167 ± 0.008	0.196CysAsn: 0.196 ± 0.01	0.535CysPro: 0.535 ± 0.017	0.219CysGln: 0.219 ± 0.011	0.863CysArg: 0.863 ± 0.021	0.465CysSer: 0.465 ± 0.014	0.462CysThr: 0.462 ± 0.015	0.639CysVal: 0.639 ± 0.018	0.12CysTrp: 0.12 ± 0.007	0.187CysTyr: 0.187 ± 0.01	0.0CysXaa: 0.0 ± 0.0
Asp	7.165AspAla: 7.165 ± 0.059	0.439AspCys: 0.439 ± 0.016	2.57AspAsp: 2.57 ± 0.037	3.224AspGlu: 3.224 ± 0.044	1.825AspPhe: 1.825 ± 0.029	5.137AspGly: 5.137 ± 0.078	1.156AspHis: 1.156 ± 0.025	2.141AspIle: 2.141 ± 0.029	1.144AspLys: 1.144 ± 0.025	6.654AspLeu: 6.654 ± 0.062	0.858AspMet: 0.858 ± 0.019	0.885AspAsn: 0.885 ± 0.019	4.167AspPro: 4.167 ± 0.044	1.481AspGln: 1.481 ± 0.027	4.809AspArg: 4.809 ± 0.051	1.748AspSer: 1.748 ± 0.027	2.319AspThr: 2.319 ± 0.035	3.714AspVal: 3.714 ± 0.045	0.872AspTrp: 0.872 ± 0.02	1.213AspTyr: 1.213 ± 0.026	0.0AspXaa: 0.0 ± 0.0
Glu	9.189GluAla: 9.189 ± 0.088	0.321GluCys: 0.321 ± 0.012	2.552GluAsp: 2.552 ± 0.035	3.046GluGlu: 3.046 ± 0.047	1.441GluPhe: 1.441 ± 0.028	4.491GluGly: 4.491 ± 0.049	1.13GluHis: 1.13 ± 0.022	3.074GluIle: 3.074 ± 0.037	1.424GluLys: 1.424 ± 0.028	4.45GluLeu: 4.45 ± 0.049	1.256GluMet: 1.256 ± 0.025	1.091GluAsn: 1.091 ± 0.026	3.238GluPro: 3.238 ± 0.043	1.791GluGln: 1.791 ± 0.033	5.814GluArg: 5.814 ± 0.068	2.146GluSer: 2.146 ± 0.032	3.413GluThr: 3.413 ± 0.043	4.025GluVal: 4.025 ± 0.043	0.654GluTrp: 0.654 ± 0.016	0.83GluTyr: 0.83 ± 0.024	0.0GluXaa: 0.0 ± 0.0
Phe	4.519PheAla: 4.519 ± 0.051	0.356PheCys: 0.356 ± 0.014	2.222PheAsp: 2.222 ± 0.031	1.839PheGlu: 1.839 ± 0.031	1.186PhePhe: 1.186 ± 0.026	3.578PheGly: 3.578 ± 0.047	0.627PheHis: 0.627 ± 0.016	1.208PheIle: 1.208 ± 0.026	0.736PheLys: 0.736 ± 0.019	3.171PheLeu: 3.171 ± 0.041	0.568PheMet: 0.568 ± 0.016	0.801PheAsn: 0.801 ± 0.021	1.578PhePro: 1.578 ± 0.027	0.871PheGln: 0.871 ± 0.02	2.518PheArg: 2.518 ± 0.037	1.881PheSer: 1.881 ± 0.036	1.836PheThr: 1.836 ± 0.03	2.679PheVal: 2.679 ± 0.036	0.496PheTrp: 0.496 ± 0.013	0.801PheTyr: 0.801 ± 0.022	0.0PheXaa: 0.0 ± 0.0
Gly	10.501GlyAla: 10.501 ± 0.092	0.927GlyCys: 0.927 ± 0.02	4.134GlyAsp: 4.134 ± 0.051	4.848GlyGlu: 4.848 ± 0.057	3.456GlyPhe: 3.456 ± 0.042	7.632GlyGly: 7.632 ± 0.088	1.868GlyHis: 1.868 ± 0.029	4.241GlyIle: 4.241 ± 0.052	2.217GlyLys: 2.217 ± 0.036	10.147GlyLeu: 10.147 ± 0.089	1.939GlyMet: 1.939 ± 0.032	1.776GlyAsn: 1.776 ± 0.045	4.718GlyPro: 4.718 ± 0.052	2.965GlyGln: 2.965 ± 0.051	8.048GlyArg: 8.048 ± 0.078	4.731GlySer: 4.731 ± 0.06	4.931GlyThr: 4.931 ± 0.055	6.019GlyVal: 6.019 ± 0.064	1.422GlyTrp: 1.422 ± 0.032	2.196GlyTyr: 2.196 ± 0.034	0.0GlyXaa: 0.0 ± 0.0
His	2.553HisAla: 2.553 ± 0.041	0.251HisCys: 0.251 ± 0.01	1.136HisAsp: 1.136 ± 0.025	0.958HisGlu: 0.958 ± 0.02	0.704HisPhe: 0.704 ± 0.018	1.972HisGly: 1.972 ± 0.034	0.573HisHis: 0.573 ± 0.019	0.679HisIle: 0.679 ± 0.017	0.355HisLys: 0.355 ± 0.013	2.149HisLeu: 2.149 ± 0.039	0.411HisMet: 0.411 ± 0.016	0.381HisAsn: 0.381 ± 0.015	1.535HisPro: 1.535 ± 0.028	0.527HisGln: 0.527 ± 0.017	1.76HisArg: 1.76 ± 0.032	0.783HisSer: 0.783 ± 0.02	0.759HisThr: 0.759 ± 0.022	1.473HisVal: 1.473 ± 0.025	0.314HisTrp: 0.314 ± 0.011	0.495HisTyr: 0.495 ± 0.014	0.0HisXaa: 0.0 ± 0.0
Ile	6.799IleAla: 6.799 ± 0.075	0.466IleCys: 0.466 ± 0.016	2.92IleAsp: 2.92 ± 0.037	2.962IleGlu: 2.962 ± 0.04	1.238IlePhe: 1.238 ± 0.027	4.579IleGly: 4.579 ± 0.051	0.787IleHis: 0.787 ± 0.019	1.566IleIle: 1.566 ± 0.028	0.995IleLys: 0.995 ± 0.023	4.083IleLeu: 4.083 ± 0.05	0.676IleMet: 0.676 ± 0.017	1.032IleAsn: 1.032 ± 0.025	2.199IlePro: 2.199 ± 0.032	1.113IleGln: 1.113 ± 0.029	3.394IleArg: 3.394 ± 0.033	2.136IleSer: 2.136 ± 0.039	2.459IleThr: 2.459 ± 0.054	3.712IleVal: 3.712 ± 0.047	0.509IleTrp: 0.509 ± 0.016	0.889IleTyr: 0.889 ± 0.021	0.0IleXaa: 0.0 ± 0.0
Lys	3.449LysAla: 3.449 ± 0.052	0.116LysCys: 0.116 ± 0.008	1.219LysAsp: 1.219 ± 0.031	1.089LysGlu: 1.089 ± 0.023	0.573LysPhe: 0.573 ± 0.016	2.062LysGly: 2.062 ± 0.038	0.431LysHis: 0.431 ± 0.014	1.12LysIle: 1.12 ± 0.027	0.694LysLys: 0.694 ± 0.024	2.384LysLeu: 2.384 ± 0.036	0.43LysMet: 0.43 ± 0.017	0.568LysAsn: 0.568 ± 0.02	1.873LysPro: 1.873 ± 0.036	0.731LysGln: 0.731 ± 0.02	2.023LysArg: 2.023 ± 0.031	1.254LysSer: 1.254 ± 0.028	1.39LysThr: 1.39 ± 0.029	1.83LysVal: 1.83 ± 0.032	0.269LysTrp: 0.269 ± 0.01	0.451LysTyr: 0.451 ± 0.018	0.0LysXaa: 0.0 ± 0.0
Leu	16.235LeuAla: 16.235 ± 0.128	1.065LeuCys: 1.065 ± 0.025	6.287LeuAsp: 6.287 ± 0.059	4.686LeuGlu: 4.686 ± 0.051	3.42LeuPhe: 3.42 ± 0.046	8.959LeuGly: 8.959 ± 0.069	1.934LeuHis: 1.934 ± 0.035	4.562LeuIle: 4.562 ± 0.052	2.837LeuLys: 2.837 ± 0.04	9.818LeuLeu: 9.818 ± 0.099	2.088LeuMet: 2.088 ± 0.037	2.186LeuAsn: 2.186 ± 0.034	6.212LeuPro: 6.212 ± 0.056	2.695LeuGln: 2.695 ± 0.036	8.399LeuArg: 8.399 ± 0.083	6.084LeuSer: 6.084 ± 0.066	5.88LeuThr: 5.88 ± 0.053	8.078LeuVal: 8.078 ± 0.071	1.212LeuTrp: 1.212 ± 0.024	1.977LeuTyr: 1.977 ± 0.03	0.0LeuXaa: 0.0 ± 0.0
Met	2.753MetAla: 2.753 ± 0.032	0.133MetCys: 0.133 ± 0.008	0.812MetAsp: 0.812 ± 0.02	0.81MetGlu: 0.81 ± 0.022	0.478MetPhe: 0.478 ± 0.014	1.457MetGly: 1.457 ± 0.026	0.369MetHis: 0.369 ± 0.015	1.031MetIle: 1.031 ± 0.023	0.601MetLys: 0.601 ± 0.016	2.098MetLeu: 2.098 ± 0.032	0.492MetMet: 0.492 ± 0.018	0.537MetAsn: 0.537 ± 0.015	1.497MetPro: 1.497 ± 0.027	0.681MetGln: 0.681 ± 0.018	1.989MetArg: 1.989 ± 0.032	1.386MetSer: 1.386 ± 0.025	1.585MetThr: 1.585 ± 0.024	1.383MetVal: 1.383 ± 0.024	0.159MetTrp: 0.159 ± 0.008	0.246MetTyr: 0.246 ± 0.011	0.0MetXaa: 0.0 ± 0.0
Asn	2.645AsnAla: 2.645 ± 0.039	0.2AsnCys: 0.2 ± 0.009	1.09AsnAsp: 1.09 ± 0.03	0.925AsnGlu: 0.925 ± 0.024	0.679AsnPhe: 0.679 ± 0.018	2.028AsnGly: 2.028 ± 0.038	0.384AsnHis: 0.384 ± 0.017	0.858AsnIle: 0.858 ± 0.021	0.485AsnLys: 0.485 ± 0.017	2.293AsnLeu: 2.293 ± 0.036	0.367AsnMet: 0.367 ± 0.012	0.548AsnAsn: 0.548 ± 0.017	1.682AsnPro: 1.682 ± 0.036	0.635AsnGln: 0.635 ± 0.018	1.717AsnArg: 1.717 ± 0.032	0.915AsnSer: 0.915 ± 0.025	1.044AsnThr: 1.044 ± 0.023	1.512AsnVal: 1.512 ± 0.028	0.31AsnTrp: 0.31 ± 0.013	0.482AsnTyr: 0.482 ± 0.018	0.0AsnXaa: 0.0 ± 0.0
Pro	8.549ProAla: 8.549 ± 0.084	0.455ProCys: 0.455 ± 0.014	4.182ProAsp: 4.182 ± 0.048	4.214ProGlu: 4.214 ± 0.054	1.985ProPhe: 1.985 ± 0.031	5.652ProGly: 5.652 ± 0.065	1.192ProHis: 1.192 ± 0.025	2.273ProIle: 2.273 ± 0.038	1.478ProLys: 1.478 ± 0.03	5.371ProLeu: 5.371 ± 0.052	1.213ProMet: 1.213 ± 0.025	1.259ProAsn: 1.259 ± 0.022	3.723ProPro: 3.723 ± 0.058	1.625ProGln: 1.625 ± 0.029	3.992ProArg: 3.992 ± 0.045	3.056ProSer: 3.056 ± 0.038	2.724ProThr: 2.724 ± 0.04	4.76ProVal: 4.76 ± 0.053	0.825ProTrp: 0.825 ± 0.02	1.185ProTyr: 1.185 ± 0.024	0.0ProXaa: 0.0 ± 0.0
Gln	4.635GlnAla: 4.635 ± 0.057	0.196GlnCys: 0.196 ± 0.01	1.468GlnAsp: 1.468 ± 0.026	1.405GlnGlu: 1.405 ± 0.026	0.89GlnPhe: 0.89 ± 0.02	2.417GlnGly: 2.417 ± 0.036	0.579GlnHis: 0.579 ± 0.015	1.618GlnIle: 1.618 ± 0.043	0.754GlnLys: 0.754 ± 0.021	2.559GlnLeu: 2.559 ± 0.036	0.627GlnMet: 0.627 ± 0.017	0.703GlnAsn: 0.703 ± 0.021	1.707GlnPro: 1.707 ± 0.031	1.022GlnGln: 1.022 ± 0.03	2.426GlnArg: 2.426 ± 0.039	1.423GlnSer: 1.423 ± 0.024	1.565GlnThr: 1.565 ± 0.032	2.275GlnVal: 2.275 ± 0.035	0.34GlnTrp: 0.34 ± 0.018	0.514GlnTyr: 0.514 ± 0.016	0.0GlnXaa: 0.0 ± 0.0
Arg	10.74ArgAla: 10.74 ± 0.097	0.719ArgCys: 0.719 ± 0.019	4.482ArgAsp: 4.482 ± 0.058	4.911ArgGlu: 4.911 ± 0.06	3.158ArgPhe: 3.158 ± 0.037	5.963ArgGly: 5.963 ± 0.069	2.068ArgHis: 2.068 ± 0.035	4.28ArgIle: 4.28 ± 0.044	1.958ArgLys: 1.958 ± 0.033	9.813ArgLeu: 9.813 ± 0.084	1.858ArgMet: 1.858 ± 0.026	1.69ArgAsn: 1.69 ± 0.031	5.081ArgPro: 5.081 ± 0.062	2.641ArgGln: 2.641 ± 0.031	8.056ArgArg: 8.056 ± 0.085	4.277ArgSer: 4.277 ± 0.046	4.159ArgThr: 4.159 ± 0.045	5.643ArgVal: 5.643 ± 0.057	1.164ArgTrp: 1.164 ± 0.024	1.782ArgTyr: 1.782 ± 0.028	0.0ArgXaa: 0.0 ± 0.0
Ser	6.204SerAla: 6.204 ± 0.066	0.472SerCys: 0.472 ± 0.014	2.661SerAsp: 2.661 ± 0.036	2.497SerGlu: 2.497 ± 0.038	1.985SerPhe: 1.985 ± 0.031	5.358SerGly: 5.358 ± 0.064	0.934SerHis: 0.934 ± 0.022	2.141SerIle: 2.141 ± 0.04	1.142SerLys: 1.142 ± 0.026	5.545SerLeu: 5.545 ± 0.052	0.981SerMet: 0.981 ± 0.025	1.054SerAsn: 1.054 ± 0.029	3.04SerPro: 3.04 ± 0.037	1.329SerGln: 1.329 ± 0.028	3.993SerArg: 3.993 ± 0.043	2.606SerSer: 2.606 ± 0.055	2.432SerThr: 2.432 ± 0.037	3.665SerVal: 3.665 ± 0.054	0.684SerTrp: 0.684 ± 0.017	1.178SerTyr: 1.178 ± 0.032	0.0SerXaa: 0.0 ± 0.0
Thr	7.026ThrAla: 7.026 ± 0.094	0.492ThrCys: 0.492 ± 0.015	2.651ThrAsp: 2.651 ± 0.071	2.477ThrGlu: 2.477 ± 0.032	1.796ThrPhe: 1.796 ± 0.029	5.299ThrGly: 5.299 ± 0.07	0.965ThrHis: 0.965 ± 0.023	2.598ThrIle: 2.598 ± 0.044	1.157ThrLys: 1.157 ± 0.024	5.914ThrLeu: 5.914 ± 0.056	0.971ThrMet: 0.971 ± 0.025	1.132ThrAsn: 1.132 ± 0.024	3.482ThrPro: 3.482 ± 0.036	1.336ThrGln: 1.336 ± 0.029	3.747ThrArg: 3.747 ± 0.043	2.503ThrSer: 2.503 ± 0.037	2.742ThrThr: 2.742 ± 0.044	4.434ThrVal: 4.434 ± 0.053	0.731ThrTrp: 0.731 ± 0.019	1.208ThrTyr: 1.208 ± 0.027	0.0ThrXaa: 0.0 ± 0.0
Val	10.449ValAla: 10.449 ± 0.084	0.639ValCys: 0.639 ± 0.019	3.67ValAsp: 3.67 ± 0.04	4.46ValGlu: 4.46 ± 0.046	2.505ValPhe: 2.505 ± 0.038	5.637ValGly: 5.637 ± 0.053	1.352ValHis: 1.352 ± 0.029	3.43ValIle: 3.43 ± 0.038	1.712ValLys: 1.712 ± 0.029	7.807ValLeu: 7.807 ± 0.08	1.603ValMet: 1.603 ± 0.032	1.644ValAsn: 1.644 ± 0.027	4.404ValPro: 4.404 ± 0.049	2.101ValGln: 2.101 ± 0.031	5.889ValArg: 5.889 ± 0.06	4.213ValSer: 4.213 ± 0.057	4.647ValThr: 4.647 ± 0.051	6.314ValVal: 6.314 ± 0.061	0.9ValTrp: 0.9 ± 0.021	1.415ValTyr: 1.415 ± 0.03	0.0ValXaa: 0.0 ± 0.0
Trp	1.339TrpAla: 1.339 ± 0.029	0.168TrpCys: 0.168 ± 0.009	0.634TrpAsp: 0.634 ± 0.019	0.54TrpGlu: 0.54 ± 0.015	0.528TrpPhe: 0.528 ± 0.017	0.898TrpGly: 0.898 ± 0.021	0.345TrpHis: 0.345 ± 0.013	0.643TrpIle: 0.643 ± 0.016	0.34TrpLys: 0.34 ± 0.013	1.656TrpLeu: 1.656 ± 0.032	0.308TrpMet: 0.308 ± 0.012	0.348TrpAsn: 0.348 ± 0.013	0.75TrpPro: 0.75 ± 0.02	0.517TrpGln: 0.517 ± 0.021	1.409TrpArg: 1.409 ± 0.026	0.86TrpSer: 0.86 ± 0.021	0.841TrpThr: 0.841 ± 0.021	0.75TrpVal: 0.75 ± 0.022	0.226TrpTrp: 0.226 ± 0.011	0.291TrpTyr: 0.291 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.714TyrAla: 2.714 ± 0.04	0.233TyrCys: 0.233 ± 0.012	1.343TyrAsp: 1.343 ± 0.033	1.091TyrGlu: 1.091 ± 0.027	0.761TyrPhe: 0.761 ± 0.019	2.149TyrGly: 2.149 ± 0.036	0.425TyrHis: 0.425 ± 0.016	0.695TyrIle: 0.695 ± 0.019	0.444TyrLys: 0.444 ± 0.015	2.137TyrLeu: 2.137 ± 0.03	0.32TyrMet: 0.32 ± 0.012	0.508TyrAsn: 0.508 ± 0.019	1.033TyrPro: 1.033 ± 0.022	0.579TyrGln: 0.579 ± 0.019	1.929TyrArg: 1.929 ± 0.035	0.912TyrSer: 0.912 ± 0.022	1.034TyrThr: 1.034 ± 0.031	1.464TyrVal: 1.464 ± 0.028	0.313TyrTrp: 0.313 ± 0.012	0.521TyrTyr: 0.521 ± 0.016	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 8128 proteins (2306247 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

---