Amino acid dipepetide frequency for Rhodobacteraceae bacterium PD-2

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	16.754AlaAla: 16.754 ± 0.167	1.212AlaCys: 1.212 ± 0.037	6.679AlaAsp: 6.679 ± 0.083	9.013AlaGlu: 9.013 ± 0.101	4.372AlaPhe: 4.372 ± 0.068	10.912AlaGly: 10.912 ± 0.104	2.322AlaHis: 2.322 ± 0.041	5.534AlaIle: 5.534 ± 0.074	3.379AlaLys: 3.379 ± 0.066	14.992AlaLeu: 14.992 ± 0.155	4.006AlaMet: 4.006 ± 0.053	2.483AlaAsn: 2.483 ± 0.047	6.145AlaPro: 6.145 ± 0.084	4.705AlaGln: 4.705 ± 0.06	9.419AlaArg: 9.419 ± 0.119	5.623AlaSer: 5.623 ± 0.068	5.939AlaThr: 5.939 ± 0.076	8.864AlaVal: 8.864 ± 0.096	1.528AlaTrp: 1.528 ± 0.038	2.518AlaTyr: 2.518 ± 0.047	0.0AlaXaa: 0.0 ± 0.0
Cys	1.174CysAla: 1.174 ± 0.031	0.126CysCys: 0.126 ± 0.01	0.63CysAsp: 0.63 ± 0.023	0.452CysGlu: 0.452 ± 0.019	0.332CysPhe: 0.332 ± 0.015	0.971CysGly: 0.971 ± 0.028	0.274CysHis: 0.274 ± 0.014	0.398CysIle: 0.398 ± 0.016	0.204CysLys: 0.204 ± 0.011	0.932CysLeu: 0.932 ± 0.028	0.187CysMet: 0.187 ± 0.012	0.202CysAsn: 0.202 ± 0.012	0.506CysPro: 0.506 ± 0.019	0.243CysGln: 0.243 ± 0.014	0.598CysArg: 0.598 ± 0.025	0.452CysSer: 0.452 ± 0.019	0.499CysThr: 0.499 ± 0.019	0.654CysVal: 0.654 ± 0.02	0.124CysTrp: 0.124 ± 0.009	0.217CysTyr: 0.217 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	7.149AspAla: 7.149 ± 0.085	0.571AspCys: 0.571 ± 0.022	3.177AspAsp: 3.177 ± 0.065	3.425AspGlu: 3.425 ± 0.061	2.296AspPhe: 2.296 ± 0.046	5.553AspGly: 5.553 ± 0.076	1.387AspHis: 1.387 ± 0.04	2.815AspIle: 2.815 ± 0.044	1.523AspLys: 1.523 ± 0.043	6.501AspLeu: 6.501 ± 0.068	1.675AspMet: 1.675 ± 0.034	1.244AspAsn: 1.244 ± 0.033	3.809AspPro: 3.809 ± 0.055	1.632AspGln: 1.632 ± 0.039	4.731AspArg: 4.731 ± 0.064	2.316AspSer: 2.316 ± 0.045	3.067AspThr: 3.067 ± 0.055	4.159AspVal: 4.159 ± 0.068	1.233AspTrp: 1.233 ± 0.036	1.532AspTyr: 1.532 ± 0.037	0.0AspXaa: 0.0 ± 0.0
Glu	9.037GluAla: 9.037 ± 0.102	0.363GluCys: 0.363 ± 0.018	3.51GluAsp: 3.51 ± 0.052	3.801GluGlu: 3.801 ± 0.067	1.597GluPhe: 1.597 ± 0.036	5.48GluGly: 5.48 ± 0.066	1.152GluHis: 1.152 ± 0.03	3.496GluIle: 3.496 ± 0.058	1.994GluLys: 1.994 ± 0.041	4.674GluLeu: 4.674 ± 0.07	1.891GluMet: 1.891 ± 0.04	1.633GluAsn: 1.633 ± 0.037	2.621GluPro: 2.621 ± 0.048	1.932GluGln: 1.932 ± 0.04	4.399GluArg: 4.399 ± 0.063	2.224GluSer: 2.224 ± 0.046	3.951GluThr: 3.951 ± 0.057	4.468GluVal: 4.468 ± 0.063	0.641GluTrp: 0.641 ± 0.023	0.999GluTyr: 0.999 ± 0.03	0.0GluXaa: 0.0 ± 0.0
Phe	4.355PheAla: 4.355 ± 0.057	0.415PheCys: 0.415 ± 0.015	2.893PheAsp: 2.893 ± 0.046	2.151PheGlu: 2.151 ± 0.038	1.401PhePhe: 1.401 ± 0.039	3.661PheGly: 3.661 ± 0.056	0.755PheHis: 0.755 ± 0.025	1.535PheIle: 1.535 ± 0.039	0.82PheLys: 0.82 ± 0.026	3.398PheLeu: 3.398 ± 0.055	0.845PheMet: 0.845 ± 0.024	0.973PheAsn: 0.973 ± 0.027	1.557PhePro: 1.557 ± 0.034	1.005PheGln: 1.005 ± 0.026	2.245PheArg: 2.245 ± 0.044	1.989PheSer: 1.989 ± 0.044	2.052PheThr: 2.052 ± 0.04	2.719PheVal: 2.719 ± 0.049	0.582PheTrp: 0.582 ± 0.024	0.884PheTyr: 0.884 ± 0.028	0.0PheXaa: 0.0 ± 0.0
Gly	10.732GlyAla: 10.732 ± 0.102	0.903GlyCys: 0.903 ± 0.025	4.838GlyAsp: 4.838 ± 0.074	4.805GlyGlu: 4.805 ± 0.064	3.734GlyPhe: 3.734 ± 0.053	7.779GlyGly: 7.779 ± 0.106	1.988GlyHis: 1.988 ± 0.047	4.43GlyIle: 4.43 ± 0.062	2.889GlyLys: 2.889 ± 0.055	9.813GlyLeu: 9.813 ± 0.107	2.643GlyMet: 2.643 ± 0.041	2.083GlyAsn: 2.083 ± 0.05	3.815GlyPro: 3.815 ± 0.056	3.242GlyGln: 3.242 ± 0.052	5.945GlyArg: 5.945 ± 0.072	4.311GlySer: 4.311 ± 0.067	4.995GlyThr: 4.995 ± 0.076	6.606GlyVal: 6.606 ± 0.078	1.589GlyTrp: 1.589 ± 0.034	2.407GlyTyr: 2.407 ± 0.046	0.0GlyXaa: 0.0 ± 0.0
His	2.424HisAla: 2.424 ± 0.049	0.266HisCys: 0.266 ± 0.015	1.278HisAsp: 1.278 ± 0.034	1.042HisGlu: 1.042 ± 0.032	0.79HisPhe: 0.79 ± 0.026	2.046HisGly: 2.046 ± 0.046	0.551HisHis: 0.551 ± 0.021	0.89HisIle: 0.89 ± 0.026	0.458HisLys: 0.458 ± 0.018	2.119HisLeu: 2.119 ± 0.044	0.583HisMet: 0.583 ± 0.021	0.433HisAsn: 0.433 ± 0.019	1.4HisPro: 1.4 ± 0.031	0.551HisGln: 0.551 ± 0.018	1.466HisArg: 1.466 ± 0.033	0.884HisSer: 0.884 ± 0.023	0.821HisThr: 0.821 ± 0.024	1.628HisVal: 1.628 ± 0.033	0.343HisTrp: 0.343 ± 0.016	0.567HisTyr: 0.567 ± 0.023	0.0HisXaa: 0.0 ± 0.0
Ile	6.719IleAla: 6.719 ± 0.068	0.555IleCys: 0.555 ± 0.021	3.272IleAsp: 3.272 ± 0.049	3.304IleGlu: 3.304 ± 0.055	1.676IlePhe: 1.676 ± 0.043	4.583IleGly: 4.583 ± 0.066	0.892IleHis: 0.892 ± 0.027	1.903IleIle: 1.903 ± 0.041	1.173IleLys: 1.173 ± 0.035	4.573IleLeu: 4.573 ± 0.068	1.019IleMet: 1.019 ± 0.03	1.175IleAsn: 1.175 ± 0.032	2.34IlePro: 2.34 ± 0.042	1.098IleGln: 1.098 ± 0.028	3.158IleArg: 3.158 ± 0.055	2.564IleSer: 2.564 ± 0.048	2.649IleThr: 2.649 ± 0.059	3.787IleVal: 3.787 ± 0.068	0.631IleTrp: 0.631 ± 0.021	0.987IleTyr: 0.987 ± 0.028	0.0IleXaa: 0.0 ± 0.0
Lys	3.941LysAla: 3.941 ± 0.066	0.155LysCys: 0.155 ± 0.011	1.608LysAsp: 1.608 ± 0.039	1.446LysGlu: 1.446 ± 0.038	0.769LysPhe: 0.769 ± 0.025	2.611LysGly: 2.611 ± 0.049	0.551LysHis: 0.551 ± 0.021	1.374LysIle: 1.374 ± 0.035	1.016LysLys: 1.016 ± 0.036	2.644LysLeu: 2.644 ± 0.049	0.747LysMet: 0.747 ± 0.024	0.621LysAsn: 0.621 ± 0.023	1.721LysPro: 1.721 ± 0.041	0.818LysGln: 0.818 ± 0.025	2.086LysArg: 2.086 ± 0.046	1.451LysSer: 1.451 ± 0.037	1.826LysThr: 1.826 ± 0.039	2.153LysVal: 2.153 ± 0.04	0.336LysTrp: 0.336 ± 0.019	0.561LysTyr: 0.561 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	13.067LeuAla: 13.067 ± 0.132	1.1LeuCys: 1.1 ± 0.029	6.272LeuAsp: 6.272 ± 0.066	5.385LeuGlu: 5.385 ± 0.074	3.548LeuPhe: 3.548 ± 0.063	8.769LeuGly: 8.769 ± 0.093	1.967LeuHis: 1.967 ± 0.039	4.886LeuIle: 4.886 ± 0.071	3.155LeuLys: 3.155 ± 0.057	9.223LeuLeu: 9.223 ± 0.126	2.864LeuMet: 2.864 ± 0.046	2.617LeuAsn: 2.617 ± 0.048	5.785LeuPro: 5.785 ± 0.073	2.758LeuGln: 2.758 ± 0.046	7.395LeuArg: 7.395 ± 0.084	6.775LeuSer: 6.775 ± 0.076	6.374LeuThr: 6.374 ± 0.074	6.998LeuVal: 6.998 ± 0.088	1.348LeuTrp: 1.348 ± 0.037	2.045LeuTyr: 2.045 ± 0.045	0.0LeuXaa: 0.0 ± 0.0
Met	3.732MetAla: 3.732 ± 0.058	0.179MetCys: 0.179 ± 0.012	1.481MetAsp: 1.481 ± 0.033	1.384MetGlu: 1.384 ± 0.036	0.768MetPhe: 0.768 ± 0.025	2.356MetGly: 2.356 ± 0.045	0.482MetHis: 0.482 ± 0.018	1.507MetIle: 1.507 ± 0.034	1.034MetLys: 1.034 ± 0.03	2.688MetLeu: 2.688 ± 0.048	0.771MetMet: 0.771 ± 0.025	0.812MetAsn: 0.812 ± 0.025	1.592MetPro: 1.592 ± 0.032	1.03MetGln: 1.03 ± 0.029	1.955MetArg: 1.955 ± 0.039	1.643MetSer: 1.643 ± 0.032	2.216MetThr: 2.216 ± 0.035	1.893MetVal: 1.893 ± 0.035	0.233MetTrp: 0.233 ± 0.013	0.36MetTyr: 0.36 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	3.077AsnAla: 3.077 ± 0.055	0.252AsnCys: 0.252 ± 0.014	1.249AsnAsp: 1.249 ± 0.039	1.081AsnGlu: 1.081 ± 0.029	0.847AsnPhe: 0.847 ± 0.024	2.305AsnGly: 2.305 ± 0.048	0.496AsnHis: 0.496 ± 0.021	1.235AsnIle: 1.235 ± 0.034	0.581AsnLys: 0.581 ± 0.02	2.405AsnLeu: 2.405 ± 0.047	0.66AsnMet: 0.66 ± 0.023	0.611AsnAsn: 0.611 ± 0.022	1.765AsnPro: 1.765 ± 0.039	0.614AsnGln: 0.614 ± 0.021	1.695AsnArg: 1.695 ± 0.036	1.001AsnSer: 1.001 ± 0.029	1.257AsnThr: 1.257 ± 0.03	1.724AsnVal: 1.724 ± 0.046	0.379AsnTrp: 0.379 ± 0.016	0.56AsnTyr: 0.56 ± 0.02	0.0AsnXaa: 0.0 ± 0.0
Pro	6.048ProAla: 6.048 ± 0.08	0.39ProCys: 0.39 ± 0.017	3.963ProAsp: 3.963 ± 0.063	4.505ProGlu: 4.505 ± 0.062	1.962ProPhe: 1.962 ± 0.037	4.918ProGly: 4.918 ± 0.073	1.101ProHis: 1.101 ± 0.029	2.029ProIle: 2.029 ± 0.04	1.504ProLys: 1.504 ± 0.036	4.87ProLeu: 4.87 ± 0.064	1.354ProMet: 1.354 ± 0.033	1.179ProAsn: 1.179 ± 0.032	2.305ProPro: 2.305 ± 0.053	1.705ProGln: 1.705 ± 0.039	3.006ProArg: 3.006 ± 0.054	2.359ProSer: 2.359 ± 0.042	2.308ProThr: 2.308 ± 0.04	4.489ProVal: 4.489 ± 0.054	0.706ProTrp: 0.706 ± 0.022	1.154ProTyr: 1.154 ± 0.03	0.0ProXaa: 0.0 ± 0.0
Gln	4.261GlnAla: 4.261 ± 0.055	0.225GlnCys: 0.225 ± 0.013	1.808GlnAsp: 1.808 ± 0.04	1.603GlnGlu: 1.603 ± 0.036	1.002GlnPhe: 1.002 ± 0.026	2.775GlnGly: 2.775 ± 0.046	0.595GlnHis: 0.595 ± 0.02	1.838GlnIle: 1.838 ± 0.039	0.992GlnLys: 0.992 ± 0.03	2.645GlnLeu: 2.645 ± 0.046	1.02GlnMet: 1.02 ± 0.028	0.766GlnAsn: 0.766 ± 0.023	1.705GlnPro: 1.705 ± 0.037	1.073GlnGln: 1.073 ± 0.028	2.231GlnArg: 2.231 ± 0.045	1.613GlnSer: 1.613 ± 0.034	1.805GlnThr: 1.805 ± 0.035	2.421GlnVal: 2.421 ± 0.044	0.39GlnTrp: 0.39 ± 0.017	0.591GlnTyr: 0.591 ± 0.018	0.0GlnXaa: 0.0 ± 0.0
Arg	8.856ArgAla: 8.856 ± 0.102	0.495ArgCys: 0.495 ± 0.02	4.476ArgAsp: 4.476 ± 0.064	4.028ArgGlu: 4.028 ± 0.061	2.78ArgPhe: 2.78 ± 0.044	5.037ArgGly: 5.037 ± 0.064	1.627ArgHis: 1.627 ± 0.037	3.761ArgIle: 3.761 ± 0.051	2.064ArgLys: 2.064 ± 0.044	7.873ArgLeu: 7.873 ± 0.101	2.102ArgMet: 2.102 ± 0.033	1.694ArgAsn: 1.694 ± 0.039	3.466ArgPro: 3.466 ± 0.054	2.353ArgGln: 2.353 ± 0.043	5.337ArgArg: 5.337 ± 0.072	3.228ArgSer: 3.228 ± 0.05	3.155ArgThr: 3.155 ± 0.054	5.025ArgVal: 5.025 ± 0.063	0.963ArgTrp: 0.963 ± 0.027	1.543ArgTyr: 1.543 ± 0.037	0.0ArgXaa: 0.0 ± 0.0
Ser	5.715SerAla: 5.715 ± 0.067	0.412SerCys: 0.412 ± 0.018	3.104SerAsp: 3.104 ± 0.052	2.796SerGlu: 2.796 ± 0.044	2.13SerPhe: 2.13 ± 0.037	5.387SerGly: 5.387 ± 0.067	1.03SerHis: 1.03 ± 0.025	2.272SerIle: 2.272 ± 0.047	1.352SerLys: 1.352 ± 0.035	4.943SerLeu: 4.943 ± 0.065	1.304SerMet: 1.304 ± 0.032	1.173SerAsn: 1.173 ± 0.031	2.359SerPro: 2.359 ± 0.041	1.476SerGln: 1.476 ± 0.035	3.234SerArg: 3.234 ± 0.053	2.368SerSer: 2.368 ± 0.05	2.494SerThr: 2.494 ± 0.044	3.855SerVal: 3.855 ± 0.06	0.711SerTrp: 0.711 ± 0.022	1.258SerTyr: 1.258 ± 0.033	0.0SerXaa: 0.0 ± 0.0
Thr	6.335ThrAla: 6.335 ± 0.085	0.504ThrCys: 0.504 ± 0.02	3.183ThrAsp: 3.183 ± 0.058	3.156ThrGlu: 3.156 ± 0.043	2.025ThrPhe: 2.025 ± 0.039	5.698ThrGly: 5.698 ± 0.08	1.142ThrHis: 1.142 ± 0.026	2.508ThrIle: 2.508 ± 0.059	1.252ThrLys: 1.252 ± 0.032	6.415ThrLeu: 6.415 ± 0.079	1.297ThrMet: 1.297 ± 0.03	1.195ThrAsn: 1.195 ± 0.03	3.42ThrPro: 3.42 ± 0.054	1.559ThrGln: 1.559 ± 0.035	3.716ThrArg: 3.716 ± 0.054	2.526ThrSer: 2.526 ± 0.044	2.72ThrThr: 2.72 ± 0.051	4.604ThrVal: 4.604 ± 0.076	0.75ThrTrp: 0.75 ± 0.026	1.224ThrTyr: 1.224 ± 0.035	0.0ThrXaa: 0.0 ± 0.0
Val	9.062ValAla: 9.062 ± 0.092	0.686ValCys: 0.686 ± 0.024	4.049ValAsp: 4.049 ± 0.061	4.578ValGlu: 4.578 ± 0.068	2.815ValPhe: 2.815 ± 0.045	5.54ValGly: 5.54 ± 0.072	1.376ValHis: 1.376 ± 0.034	4.071ValIle: 4.071 ± 0.056	2.044ValLys: 2.044 ± 0.051	7.807ValLeu: 7.807 ± 0.085	2.24ValMet: 2.24 ± 0.048	1.924ValAsn: 1.924 ± 0.037	3.738ValPro: 3.738 ± 0.048	2.252ValGln: 2.252 ± 0.038	4.508ValArg: 4.508 ± 0.064	4.17ValSer: 4.17 ± 0.054	5.139ValThr: 5.139 ± 0.082	5.834ValVal: 5.834 ± 0.077	0.951ValTrp: 0.951 ± 0.028	1.496ValTyr: 1.496 ± 0.034	0.0ValXaa: 0.0 ± 0.0
Trp	1.389TrpAla: 1.389 ± 0.033	0.131TrpCys: 0.131 ± 0.01	0.768TrpAsp: 0.768 ± 0.026	0.698TrpGlu: 0.698 ± 0.025	0.548TrpPhe: 0.548 ± 0.02	1.05TrpGly: 1.05 ± 0.032	0.373TrpHis: 0.373 ± 0.017	0.661TrpIle: 0.661 ± 0.022	0.444TrpLys: 0.444 ± 0.018	1.667TrpLeu: 1.667 ± 0.04	0.414TrpMet: 0.414 ± 0.017	0.408TrpAsn: 0.408 ± 0.018	0.727TrpPro: 0.727 ± 0.024	0.683TrpGln: 0.683 ± 0.025	1.106TrpArg: 1.106 ± 0.028	0.766TrpSer: 0.766 ± 0.025	0.789TrpThr: 0.789 ± 0.024	0.887TrpVal: 0.887 ± 0.028	0.213TrpTrp: 0.213 ± 0.012	0.277TrpTyr: 0.277 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.572TyrAla: 2.572 ± 0.046	0.234TyrCys: 0.234 ± 0.013	1.556TyrAsp: 1.556 ± 0.035	1.209TyrGlu: 1.209 ± 0.033	0.844TyrPhe: 0.844 ± 0.026	2.117TyrGly: 2.117 ± 0.04	0.482TyrHis: 0.482 ± 0.02	0.909TyrIle: 0.909 ± 0.025	0.559TyrLys: 0.559 ± 0.022	2.153TyrLeu: 2.153 ± 0.046	0.496TyrMet: 0.496 ± 0.02	0.568TyrAsn: 0.568 ± 0.021	1.081TyrPro: 1.081 ± 0.03	0.629TyrGln: 0.629 ± 0.022	1.63TyrArg: 1.63 ± 0.035	1.108TyrSer: 1.108 ± 0.029	1.173TyrThr: 1.173 ± 0.037	1.514TyrVal: 1.514 ± 0.033	0.347TyrTrp: 0.347 ± 0.018	0.568TyrTyr: 0.568 ± 0.025	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 4616 proteins (1370329 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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