Amino acid dipepetide frequency for Pseudomonas mendocina (strain ymp)

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	14.008AlaAla: 14.008 ± 0.145	1.318AlaCys: 1.318 ± 0.034	5.963AlaAsp: 5.963 ± 0.066	8.169AlaGlu: 8.169 ± 0.093	3.91AlaPhe: 3.91 ± 0.054	9.469AlaGly: 9.469 ± 0.097	2.256AlaHis: 2.256 ± 0.044	5.119AlaIle: 5.119 ± 0.066	3.567AlaLys: 3.567 ± 0.068	15.018AlaLeu: 15.018 ± 0.144	2.971AlaMet: 2.971 ± 0.047	2.808AlaAsn: 2.808 ± 0.048	5.012AlaPro: 5.012 ± 0.076	5.581AlaGln: 5.581 ± 0.07	7.826AlaArg: 7.826 ± 0.091	6.373AlaSer: 6.373 ± 0.066	4.483AlaThr: 4.483 ± 0.054	7.437AlaVal: 7.437 ± 0.081	1.728AlaTrp: 1.728 ± 0.04	2.55AlaTyr: 2.55 ± 0.041	0.0AlaXaa: 0.0 ± 0.0
Cys	1.18CysAla: 1.18 ± 0.029	0.142CysCys: 0.142 ± 0.009	0.53CysAsp: 0.53 ± 0.019	0.554CysGlu: 0.554 ± 0.018	0.322CysPhe: 0.322 ± 0.013	0.96CysGly: 0.96 ± 0.028	0.278CysHis: 0.278 ± 0.014	0.424CysIle: 0.424 ± 0.017	0.281CysLys: 0.281 ± 0.016	1.19CysLeu: 1.19 ± 0.029	0.184CysMet: 0.184 ± 0.011	0.262CysAsn: 0.262 ± 0.013	0.53CysPro: 0.53 ± 0.021	0.442CysGln: 0.442 ± 0.018	0.688CysArg: 0.688 ± 0.025	0.64CysSer: 0.64 ± 0.02	0.41CysThr: 0.41 ± 0.02	0.647CysVal: 0.647 ± 0.021	0.152CysTrp: 0.152 ± 0.011	0.252CysTyr: 0.252 ± 0.014	0.0CysXaa: 0.0 ± 0.0
Asp	5.96AspAla: 5.96 ± 0.063	0.554AspCys: 0.554 ± 0.021	2.897AspAsp: 2.897 ± 0.053	3.752AspGlu: 3.752 ± 0.058	2.108AspPhe: 2.108 ± 0.039	4.659AspGly: 4.659 ± 0.082	1.16AspHis: 1.16 ± 0.033	2.512AspIle: 2.512 ± 0.043	1.852AspLys: 1.852 ± 0.046	5.925AspLeu: 5.925 ± 0.071	1.126AspMet: 1.126 ± 0.028	1.507AspAsn: 1.507 ± 0.037	2.757AspPro: 2.757 ± 0.043	1.993AspGln: 1.993 ± 0.038	2.961AspArg: 2.961 ± 0.056	2.957AspSer: 2.957 ± 0.046	2.118AspThr: 2.118 ± 0.042	3.225AspVal: 3.225 ± 0.055	1.033AspTrp: 1.033 ± 0.026	1.756AspTyr: 1.756 ± 0.036	0.0AspXaa: 0.0 ± 0.0
Glu	7.216GluAla: 7.216 ± 0.093	0.443GluCys: 0.443 ± 0.017	2.626GluAsp: 2.626 ± 0.044	3.437GluGlu: 3.437 ± 0.058	1.786GluPhe: 1.786 ± 0.036	4.232GluGly: 4.232 ± 0.056	1.679GluHis: 1.679 ± 0.03	2.715GluIle: 2.715 ± 0.049	1.991GluLys: 1.991 ± 0.041	8.024GluLeu: 8.024 ± 0.08	1.33GluMet: 1.33 ± 0.028	1.447GluAsn: 1.447 ± 0.031	2.696GluPro: 2.696 ± 0.052	4.226GluGln: 4.226 ± 0.07	5.646GluArg: 5.646 ± 0.077	2.617GluSer: 2.617 ± 0.049	2.377GluThr: 2.377 ± 0.039	4.57GluVal: 4.57 ± 0.058	0.713GluTrp: 0.713 ± 0.023	1.235GluTyr: 1.235 ± 0.028	0.0GluXaa: 0.0 ± 0.0
Phe	4.335PheAla: 4.335 ± 0.057	0.43PheCys: 0.43 ± 0.017	2.409PheAsp: 2.409 ± 0.045	2.162PheGlu: 2.162 ± 0.037	1.4PhePhe: 1.4 ± 0.036	3.155PheGly: 3.155 ± 0.052	0.717PheHis: 0.717 ± 0.023	1.708PheIle: 1.708 ± 0.035	1.117PheLys: 1.117 ± 0.03	3.274PheLeu: 3.274 ± 0.048	0.771PheMet: 0.771 ± 0.024	1.239PheAsn: 1.239 ± 0.03	1.384PhePro: 1.384 ± 0.035	1.166PheGln: 1.166 ± 0.029	1.903PheArg: 1.903 ± 0.04	2.335PheSer: 2.335 ± 0.039	1.761PheThr: 1.761 ± 0.037	2.457PheVal: 2.457 ± 0.046	0.534PheTrp: 0.534 ± 0.022	1.022PheTyr: 1.022 ± 0.025	0.0PheXaa: 0.0 ± 0.0
Gly	7.605GlyAla: 7.605 ± 0.083	0.954GlyCys: 0.954 ± 0.028	4.138GlyAsp: 4.138 ± 0.072	5.416GlyGlu: 5.416 ± 0.065	3.231GlyPhe: 3.231 ± 0.051	6.26GlyGly: 6.26 ± 0.091	1.85GlyHis: 1.85 ± 0.039	4.051GlyIle: 4.051 ± 0.062	3.163GlyLys: 3.163 ± 0.055	9.815GlyLeu: 9.815 ± 0.093	2.178GlyMet: 2.178 ± 0.044	2.337GlyAsn: 2.337 ± 0.056	2.522GlyPro: 2.522 ± 0.043	3.8GlyGln: 3.8 ± 0.05	5.289GlyArg: 5.289 ± 0.06	4.669GlySer: 4.669 ± 0.066	3.435GlyThr: 3.435 ± 0.048	5.841GlyVal: 5.841 ± 0.064	1.34GlyTrp: 1.34 ± 0.033	2.433GlyTyr: 2.433 ± 0.041	0.0GlyXaa: 0.0 ± 0.0
His	2.422HisAla: 2.422 ± 0.045	0.337HisCys: 0.337 ± 0.017	1.221HisAsp: 1.221 ± 0.034	1.239HisGlu: 1.239 ± 0.029	0.978HisPhe: 0.978 ± 0.026	2.023HisGly: 2.023 ± 0.045	0.603HisHis: 0.603 ± 0.025	0.946HisIle: 0.946 ± 0.022	0.606HisLys: 0.606 ± 0.021	2.759HisLeu: 2.759 ± 0.043	0.491HisMet: 0.491 ± 0.018	0.631HisAsn: 0.631 ± 0.021	1.404HisPro: 1.404 ± 0.03	0.961HisGln: 0.961 ± 0.026	1.374HisArg: 1.374 ± 0.032	1.237HisSer: 1.237 ± 0.031	0.848HisThr: 0.848 ± 0.023	1.298HisVal: 1.298 ± 0.033	0.451HisTrp: 0.451 ± 0.017	0.753HisTyr: 0.753 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	5.794IleAla: 5.794 ± 0.063	0.493IleCys: 0.493 ± 0.02	3.127IleAsp: 3.127 ± 0.05	3.435IleGlu: 3.435 ± 0.048	1.322IlePhe: 1.322 ± 0.035	4.351IleGly: 4.351 ± 0.053	0.941IleHis: 0.941 ± 0.026	1.773IleIle: 1.773 ± 0.041	1.525IleLys: 1.525 ± 0.035	4.1IleLeu: 4.1 ± 0.067	0.739IleMet: 0.739 ± 0.024	1.53IleAsn: 1.53 ± 0.032	2.082IlePro: 2.082 ± 0.037	1.498IleGln: 1.498 ± 0.032	2.97IleArg: 2.97 ± 0.049	2.632IleSer: 2.632 ± 0.048	2.255IleThr: 2.255 ± 0.045	2.961IleVal: 2.961 ± 0.054	0.495IleTrp: 0.495 ± 0.02	1.047IleTyr: 1.047 ± 0.026	0.0IleXaa: 0.0 ± 0.0
Lys	3.819LysAla: 3.819 ± 0.072	0.179LysCys: 0.179 ± 0.012	1.549LysAsp: 1.549 ± 0.036	1.532LysGlu: 1.532 ± 0.039	0.763LysPhe: 0.763 ± 0.025	2.383LysGly: 2.383 ± 0.044	0.695LysHis: 0.695 ± 0.023	1.328LysIle: 1.328 ± 0.036	1.167LysLys: 1.167 ± 0.043	3.669LysLeu: 3.669 ± 0.055	0.61LysMet: 0.61 ± 0.022	0.86LysAsn: 0.86 ± 0.03	1.931LysPro: 1.931 ± 0.044	1.446LysGln: 1.446 ± 0.031	2.329LysArg: 2.329 ± 0.04	1.605LysSer: 1.605 ± 0.034	1.553LysThr: 1.553 ± 0.038	2.556LysVal: 2.556 ± 0.049	0.328LysTrp: 0.328 ± 0.014	0.644LysTyr: 0.644 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	16.103LeuAla: 16.103 ± 0.14	1.309LeuCys: 1.309 ± 0.034	7.091LeuAsp: 7.091 ± 0.079	6.955LeuGlu: 6.955 ± 0.076	4.315LeuPhe: 4.315 ± 0.06	9.807LeuGly: 9.807 ± 0.104	2.665LeuHis: 2.665 ± 0.047	5.575LeuIle: 5.575 ± 0.073	3.978LeuLys: 3.978 ± 0.066	15.591LeuLeu: 15.591 ± 0.179	2.491LeuMet: 2.491 ± 0.05	3.356LeuAsn: 3.356 ± 0.049	6.833LeuPro: 6.833 ± 0.075	5.651LeuGln: 5.651 ± 0.081	8.355LeuArg: 8.355 ± 0.1	7.061LeuSer: 7.061 ± 0.071	5.511LeuThr: 5.511 ± 0.058	8.032LeuVal: 8.032 ± 0.083	1.561LeuTrp: 1.561 ± 0.037	2.693LeuTyr: 2.693 ± 0.043	0.0LeuXaa: 0.0 ± 0.0
Met	2.672MetAla: 2.672 ± 0.042	0.142MetCys: 0.142 ± 0.01	0.986MetAsp: 0.986 ± 0.028	0.958MetGlu: 0.958 ± 0.027	0.613MetPhe: 0.613 ± 0.023	1.589MetGly: 1.589 ± 0.04	0.498MetHis: 0.498 ± 0.017	1.003MetIle: 1.003 ± 0.029	0.786MetLys: 0.786 ± 0.025	2.76MetLeu: 2.76 ± 0.044	0.452MetMet: 0.452 ± 0.017	0.767MetAsn: 0.767 ± 0.022	1.425MetPro: 1.425 ± 0.03	1.064MetGln: 1.064 ± 0.029	1.603MetArg: 1.603 ± 0.029	1.624MetSer: 1.624 ± 0.032	1.275MetThr: 1.275 ± 0.029	1.385MetVal: 1.385 ± 0.03	0.18MetTrp: 0.18 ± 0.012	0.328MetTyr: 0.328 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	3.024AsnAla: 3.024 ± 0.044	0.286AsnCys: 0.286 ± 0.014	1.452AsnAsp: 1.452 ± 0.041	1.4AsnGlu: 1.4 ± 0.035	0.994AsnPhe: 0.994 ± 0.025	2.279AsnGly: 2.279 ± 0.04	0.579AsnHis: 0.579 ± 0.022	1.251AsnIle: 1.251 ± 0.032	0.845AsnLys: 0.845 ± 0.028	3.48AsnLeu: 3.48 ± 0.053	0.572AsnMet: 0.572 ± 0.022	0.819AsnAsn: 0.819 ± 0.031	1.89AsnPro: 1.89 ± 0.034	1.232AsnGln: 1.232 ± 0.027	1.798AsnArg: 1.798 ± 0.037	1.372AsnSer: 1.372 ± 0.036	1.235AsnThr: 1.235 ± 0.032	1.708AsnVal: 1.708 ± 0.037	0.446AsnTrp: 0.446 ± 0.017	0.753AsnTyr: 0.753 ± 0.02	0.0AsnXaa: 0.0 ± 0.0
Pro	5.945ProAla: 5.945 ± 0.081	0.379ProCys: 0.379 ± 0.017	2.72ProAsp: 2.72 ± 0.037	3.292ProGlu: 3.292 ± 0.044	1.766ProPhe: 1.766 ± 0.036	4.108ProGly: 4.108 ± 0.056	1.04ProHis: 1.04 ± 0.031	1.934ProIle: 1.934 ± 0.035	1.355ProLys: 1.355 ± 0.033	6.216ProLeu: 6.216 ± 0.082	1.141ProMet: 1.141 ± 0.03	1.303ProAsn: 1.303 ± 0.028	1.995ProPro: 1.995 ± 0.046	2.574ProGln: 2.574 ± 0.048	2.897ProArg: 2.897 ± 0.048	2.646ProSer: 2.646 ± 0.04	2.044ProThr: 2.044 ± 0.036	3.576ProVal: 3.576 ± 0.062	0.801ProTrp: 0.801 ± 0.024	1.21ProTyr: 1.21 ± 0.028	0.0ProXaa: 0.0 ± 0.0
Gln	6.618GlnAla: 6.618 ± 0.09	0.367GlnCys: 0.367 ± 0.015	1.898GlnAsp: 1.898 ± 0.034	2.124GlnGlu: 2.124 ± 0.041	1.387GlnPhe: 1.387 ± 0.028	3.637GlnGly: 3.637 ± 0.055	1.226GlnHis: 1.226 ± 0.025	1.989GlnIle: 1.989 ± 0.031	1.082GlnLys: 1.082 ± 0.025	6.174GlnLeu: 6.174 ± 0.093	1.037GlnMet: 1.037 ± 0.027	1.038GlnAsn: 1.038 ± 0.029	2.699GlnPro: 2.699 ± 0.045	2.978GlnGln: 2.978 ± 0.063	4.369GlnArg: 4.369 ± 0.073	2.165GlnSer: 2.165 ± 0.045	1.726GlnThr: 1.726 ± 0.035	3.735GlnVal: 3.735 ± 0.055	0.738GlnTrp: 0.738 ± 0.024	0.992GlnTyr: 0.992 ± 0.027	0.0GlnXaa: 0.0 ± 0.0
Arg	6.721ArgAla: 6.721 ± 0.072	0.623ArgCys: 0.623 ± 0.02	3.713ArgAsp: 3.713 ± 0.05	4.83ArgGlu: 4.83 ± 0.065	2.836ArgPhe: 2.836 ± 0.042	4.456ArgGly: 4.456 ± 0.058	1.872ArgHis: 1.872 ± 0.039	3.491ArgIle: 3.491 ± 0.057	1.894ArgLys: 1.894 ± 0.038	9.66ArgLeu: 9.66 ± 0.1	1.603ArgMet: 1.603 ± 0.033	1.885ArgAsn: 1.885 ± 0.042	2.981ArgPro: 2.981 ± 0.049	3.961ArgGln: 3.961 ± 0.069	4.842ArgArg: 4.842 ± 0.079	3.618ArgSer: 3.618 ± 0.048	2.572ArgThr: 2.572 ± 0.045	4.677ArgVal: 4.677 ± 0.054	1.113ArgTrp: 1.113 ± 0.029	2.201ArgTyr: 2.201 ± 0.041	0.0ArgXaa: 0.0 ± 0.0
Ser	6.026SerAla: 6.026 ± 0.066	0.51SerCys: 0.51 ± 0.02	2.691SerAsp: 2.691 ± 0.047	3.265SerGlu: 3.265 ± 0.051	2.109SerPhe: 2.109 ± 0.045	5.118SerGly: 5.118 ± 0.07	1.257SerHis: 1.257 ± 0.03	2.483SerIle: 2.483 ± 0.041	1.629SerLys: 1.629 ± 0.037	7.18SerLeu: 7.18 ± 0.077	1.281SerMet: 1.281 ± 0.032	1.621SerAsn: 1.621 ± 0.032	2.59SerPro: 2.59 ± 0.041	2.367SerGln: 2.367 ± 0.04	3.698SerArg: 3.698 ± 0.054	3.194SerSer: 3.194 ± 0.053	2.461SerThr: 2.461 ± 0.046	3.543SerVal: 3.543 ± 0.049	0.8SerTrp: 0.8 ± 0.023	1.358SerTyr: 1.358 ± 0.031	0.0SerXaa: 0.0 ± 0.0
Thr	4.642ThrAla: 4.642 ± 0.061	0.455ThrCys: 0.455 ± 0.02	2.048ThrAsp: 2.048 ± 0.039	2.15ThrGlu: 2.15 ± 0.04	1.585ThrPhe: 1.585 ± 0.032	3.752ThrGly: 3.752 ± 0.057	0.927ThrHis: 0.927 ± 0.024	1.677ThrIle: 1.677 ± 0.041	0.896ThrLys: 0.896 ± 0.03	6.3ThrLeu: 6.3 ± 0.067	0.717ThrMet: 0.717 ± 0.023	0.97ThrAsn: 0.97 ± 0.026	2.935ThrPro: 2.935 ± 0.045	1.826ThrGln: 1.826 ± 0.036	3.016ThrArg: 3.016 ± 0.045	2.301ThrSer: 2.301 ± 0.047	2.019ThrThr: 2.019 ± 0.048	2.89ThrVal: 2.89 ± 0.051	0.664ThrTrp: 0.664 ± 0.02	1.08ThrTyr: 1.08 ± 0.029	0.0ThrXaa: 0.0 ± 0.0
Val	7.683ValAla: 7.683 ± 0.087	0.694ValCys: 0.694 ± 0.021	3.81ValAsp: 3.81 ± 0.054	4.566ValGlu: 4.566 ± 0.056	2.395ValPhe: 2.395 ± 0.043	5.117ValGly: 5.117 ± 0.067	1.364ValHis: 1.364 ± 0.03	3.51ValIle: 3.51 ± 0.056	2.112ValLys: 2.112 ± 0.043	8.239ValLeu: 8.239 ± 0.089	1.638ValMet: 1.638 ± 0.036	1.909ValAsn: 1.909 ± 0.041	3.213ValPro: 3.213 ± 0.049	2.792ValGln: 2.792 ± 0.045	4.546ValArg: 4.546 ± 0.063	3.894ValSer: 3.894 ± 0.055	3.204ValThr: 3.204 ± 0.05	4.97ValVal: 4.97 ± 0.066	0.799ValTrp: 0.799 ± 0.024	1.503ValTyr: 1.503 ± 0.034	0.0ValXaa: 0.0 ± 0.0
Trp	1.234TrpAla: 1.234 ± 0.032	0.161TrpCys: 0.161 ± 0.01	0.611TrpAsp: 0.611 ± 0.018	0.571TrpGlu: 0.571 ± 0.018	0.53TrpPhe: 0.53 ± 0.02	0.898TrpGly: 0.898 ± 0.028	0.395TrpHis: 0.395 ± 0.018	0.654TrpIle: 0.654 ± 0.024	0.39TrpLys: 0.39 ± 0.019	2.429TrpLeu: 2.429 ± 0.053	0.355TrpMet: 0.355 ± 0.015	0.432TrpAsn: 0.432 ± 0.017	0.725TrpPro: 0.725 ± 0.023	1.085TrpGln: 1.085 ± 0.034	1.239TrpArg: 1.239 ± 0.031	0.799TrpSer: 0.799 ± 0.021	0.548TrpThr: 0.548 ± 0.02	0.9TrpVal: 0.9 ± 0.028	0.245TrpTrp: 0.245 ± 0.013	0.349TrpTyr: 0.349 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.557TyrAla: 2.557 ± 0.042	0.294TyrCys: 0.294 ± 0.014	1.329TyrAsp: 1.329 ± 0.033	1.199TyrGlu: 1.199 ± 0.033	0.927TyrPhe: 0.927 ± 0.026	2.073TyrGly: 2.073 ± 0.046	0.578TyrHis: 0.578 ± 0.022	0.928TyrIle: 0.928 ± 0.023	0.71TyrLys: 0.71 ± 0.024	3.133TyrLeu: 3.133 ± 0.048	0.421TyrMet: 0.421 ± 0.017	0.696TyrAsn: 0.696 ± 0.022	1.336TyrPro: 1.336 ± 0.032	1.337TyrGln: 1.337 ± 0.035	2.199TyrArg: 2.199 ± 0.043	1.44TyrSer: 1.44 ± 0.033	1.016TyrThr: 1.016 ± 0.026	1.555TyrVal: 1.555 ± 0.03	0.429TyrTrp: 0.429 ± 0.018	0.719TyrTyr: 0.719 ± 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 4563 proteins (1497472 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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