Amino acid dipepetide frequency for Rhodopseudomonas palustris (strain BisA53)

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	18.683AlaAla: 18.683 ± 0.176	1.084AlaCys: 1.084 ± 0.03	6.873AlaAsp: 6.873 ± 0.064	7.282AlaGlu: 7.282 ± 0.086	4.232AlaPhe: 4.232 ± 0.054	10.245AlaGly: 10.245 ± 0.136	2.177AlaHis: 2.177 ± 0.038	6.756AlaIle: 6.756 ± 0.079	4.929AlaLys: 4.929 ± 0.079	13.671AlaLeu: 13.671 ± 0.131	3.535AlaMet: 3.535 ± 0.05	3.098AlaAsn: 3.098 ± 0.048	6.042AlaPro: 6.042 ± 0.095	4.39AlaGln: 4.39 ± 0.052	8.75AlaArg: 8.75 ± 0.097	7.142AlaSer: 7.142 ± 0.077	6.716AlaThr: 6.716 ± 0.074	8.985AlaVal: 8.985 ± 0.083	1.404AlaTrp: 1.404 ± 0.034	2.403AlaTyr: 2.403 ± 0.038	0.0AlaXaa: 0.0 ± 0.0
Cys	1.006CysAla: 1.006 ± 0.026	0.127CysCys: 0.127 ± 0.01	0.564CysAsp: 0.564 ± 0.02	0.446CysGlu: 0.446 ± 0.016	0.308CysPhe: 0.308 ± 0.014	0.927CysGly: 0.927 ± 0.027	0.231CysHis: 0.231 ± 0.013	0.38CysIle: 0.38 ± 0.017	0.233CysLys: 0.233 ± 0.013	0.783CysLeu: 0.783 ± 0.026	0.163CysMet: 0.163 ± 0.01	0.239CysAsn: 0.239 ± 0.014	0.472CysPro: 0.472 ± 0.017	0.224CysGln: 0.224 ± 0.012	0.645CysArg: 0.645 ± 0.021	0.517CysSer: 0.517 ± 0.017	0.393CysThr: 0.393 ± 0.018	0.64CysVal: 0.64 ± 0.023	0.107CysTrp: 0.107 ± 0.008	0.209CysTyr: 0.209 ± 0.013	0.0CysXaa: 0.0 ± 0.0
Asp	7.064AspAla: 7.064 ± 0.07	0.507AspCys: 0.507 ± 0.015	3.436AspAsp: 3.436 ± 0.059	3.223AspGlu: 3.223 ± 0.055	2.175AspPhe: 2.175 ± 0.038	5.015AspGly: 5.015 ± 0.062	1.29AspHis: 1.29 ± 0.035	2.958AspIle: 2.958 ± 0.048	1.854AspLys: 1.854 ± 0.039	5.828AspLeu: 5.828 ± 0.075	1.107AspMet: 1.107 ± 0.027	1.406AspAsn: 1.406 ± 0.036	3.411AspPro: 3.411 ± 0.05	1.903AspGln: 1.903 ± 0.036	4.336AspArg: 4.336 ± 0.064	2.523AspSer: 2.523 ± 0.042	2.44AspThr: 2.44 ± 0.04	4.102AspVal: 4.102 ± 0.051	0.853AspTrp: 0.853 ± 0.03	1.466AspTyr: 1.466 ± 0.033	0.0AspXaa: 0.0 ± 0.0
Glu	7.144GluAla: 7.144 ± 0.087	0.344GluCys: 0.344 ± 0.017	2.312GluAsp: 2.312 ± 0.037	2.491GluGlu: 2.491 ± 0.055	1.871GluPhe: 1.871 ± 0.037	3.527GluGly: 3.527 ± 0.062	1.125GluHis: 1.125 ± 0.027	3.578GluIle: 3.578 ± 0.06	1.951GluLys: 1.951 ± 0.043	5.551GluLeu: 5.551 ± 0.066	1.432GluMet: 1.432 ± 0.035	1.305GluAsn: 1.305 ± 0.031	2.673GluPro: 2.673 ± 0.054	2.342GluGln: 2.342 ± 0.043	4.642GluArg: 4.642 ± 0.067	2.433GluSer: 2.433 ± 0.04	3.079GluThr: 3.079 ± 0.05	3.765GluVal: 3.765 ± 0.051	0.628GluTrp: 0.628 ± 0.021	0.857GluTyr: 0.857 ± 0.024	0.0GluXaa: 0.0 ± 0.0
Phe	4.906PheAla: 4.906 ± 0.061	0.43PheCys: 0.43 ± 0.016	2.62PheAsp: 2.62 ± 0.04	2.088PheGlu: 2.088 ± 0.038	1.373PhePhe: 1.373 ± 0.035	3.673PheGly: 3.673 ± 0.054	0.679PheHis: 0.679 ± 0.025	1.611PheIle: 1.611 ± 0.034	1.138PheLys: 1.138 ± 0.031	3.116PheLeu: 3.116 ± 0.05	0.729PheMet: 0.729 ± 0.021	1.103PheAsn: 1.103 ± 0.031	1.494PhePro: 1.494 ± 0.033	0.958PheGln: 0.958 ± 0.026	2.271PheArg: 2.271 ± 0.042	2.133PheSer: 2.133 ± 0.039	1.83PheThr: 1.83 ± 0.032	2.887PheVal: 2.887 ± 0.051	0.494PheTrp: 0.494 ± 0.02	0.814PheTyr: 0.814 ± 0.024	0.0PheXaa: 0.0 ± 0.0
Gly	9.3GlyAla: 9.3 ± 0.099	0.852GlyCys: 0.852 ± 0.027	4.41GlyAsp: 4.41 ± 0.063	4.366GlyGlu: 4.366 ± 0.06	3.609GlyPhe: 3.609 ± 0.044	7.235GlyGly: 7.235 ± 0.136	1.81GlyHis: 1.81 ± 0.037	4.368GlyIle: 4.368 ± 0.058	3.222GlyLys: 3.222 ± 0.055	8.496GlyLeu: 8.496 ± 0.078	1.913GlyMet: 1.913 ± 0.038	2.244GlyAsn: 2.244 ± 0.055	3.374GlyPro: 3.374 ± 0.045	2.755GlyGln: 2.755 ± 0.046	5.872GlyArg: 5.872 ± 0.066	4.847GlySer: 4.847 ± 0.098	4.3GlyThr: 4.3 ± 0.089	6.041GlyVal: 6.041 ± 0.068	1.216GlyTrp: 1.216 ± 0.026	2.241GlyTyr: 2.241 ± 0.046	0.0GlyXaa: 0.0 ± 0.0
His	2.294HisAla: 2.294 ± 0.047	0.25HisCys: 0.25 ± 0.012	1.268HisAsp: 1.268 ± 0.035	0.949HisGlu: 0.949 ± 0.029	0.86HisPhe: 0.86 ± 0.027	1.931HisGly: 1.931 ± 0.043	0.611HisHis: 0.611 ± 0.024	0.846HisIle: 0.846 ± 0.024	0.509HisLys: 0.509 ± 0.019	1.992HisLeu: 1.992 ± 0.042	0.408HisMet: 0.408 ± 0.017	0.468HisAsn: 0.468 ± 0.017	1.308HisPro: 1.308 ± 0.033	0.662HisGln: 0.662 ± 0.02	1.55HisArg: 1.55 ± 0.034	1.01HisSer: 1.01 ± 0.028	0.767HisThr: 0.767 ± 0.02	1.374HisVal: 1.374 ± 0.033	0.314HisTrp: 0.314 ± 0.014	0.512HisTyr: 0.512 ± 0.018	0.0HisXaa: 0.0 ± 0.0
Ile	7.975IleAla: 7.975 ± 0.08	0.481IleCys: 0.481 ± 0.02	4.044IleAsp: 4.044 ± 0.056	3.778IleGlu: 3.778 ± 0.055	1.549IlePhe: 1.549 ± 0.037	5.34IleGly: 5.34 ± 0.067	0.894IleHis: 0.894 ± 0.028	2.184IleIle: 2.184 ± 0.039	1.761IleLys: 1.761 ± 0.037	4.005IleLeu: 4.005 ± 0.056	0.867IleMet: 0.867 ± 0.026	1.55IleAsn: 1.55 ± 0.035	2.196IlePro: 2.196 ± 0.041	1.249IleGln: 1.249 ± 0.023	3.152IleArg: 3.152 ± 0.046	2.977IleSer: 2.977 ± 0.044	2.705IleThr: 2.705 ± 0.057	4.518IleVal: 4.518 ± 0.06	0.585IleTrp: 0.585 ± 0.022	1.152IleTyr: 1.152 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	4.292LysAla: 4.292 ± 0.072	0.186LysCys: 0.186 ± 0.011	1.74LysAsp: 1.74 ± 0.036	1.559LysGlu: 1.559 ± 0.041	1.052LysPhe: 1.052 ± 0.029	2.443LysGly: 2.443 ± 0.047	0.677LysHis: 0.677 ± 0.022	1.98LysIle: 1.98 ± 0.042	1.472LysLys: 1.472 ± 0.056	3.92LysLeu: 3.92 ± 0.059	0.888LysMet: 0.888 ± 0.025	0.91LysAsn: 0.91 ± 0.025	2.453LysPro: 2.453 ± 0.051	1.238LysGln: 1.238 ± 0.029	2.518LysArg: 2.518 ± 0.043	2.047LysSer: 2.047 ± 0.04	2.122LysThr: 2.122 ± 0.038	2.479LysVal: 2.479 ± 0.047	0.373LysTrp: 0.373 ± 0.017	0.701LysTyr: 0.701 ± 0.024	0.0LysXaa: 0.0 ± 0.0
Leu	13.742LeuAla: 13.742 ± 0.128	0.889LeuCys: 0.889 ± 0.026	5.84LeuAsp: 5.84 ± 0.065	4.674LeuGlu: 4.674 ± 0.064	3.522LeuPhe: 3.522 ± 0.056	8.048LeuGly: 8.048 ± 0.079	1.903LeuHis: 1.903 ± 0.043	5.307LeuIle: 5.307 ± 0.065	3.803LeuLys: 3.803 ± 0.052	9.816LeuLeu: 9.816 ± 0.11	2.26LeuMet: 2.26 ± 0.038	2.599LeuAsn: 2.599 ± 0.047	5.645LeuPro: 5.645 ± 0.067	3.168LeuGln: 3.168 ± 0.046	7.169LeuArg: 7.169 ± 0.079	6.391LeuSer: 6.391 ± 0.065	5.79LeuThr: 5.79 ± 0.071	7.277LeuVal: 7.277 ± 0.088	1.165LeuTrp: 1.165 ± 0.03	1.912LeuTyr: 1.912 ± 0.035	0.0LeuXaa: 0.0 ± 0.0
Met	2.868MetAla: 2.868 ± 0.042	0.147MetCys: 0.147 ± 0.009	0.93MetAsp: 0.93 ± 0.025	0.875MetGlu: 0.875 ± 0.025	0.743MetPhe: 0.743 ± 0.023	1.405MetGly: 1.405 ± 0.03	0.405MetHis: 0.405 ± 0.017	1.398MetIle: 1.398 ± 0.032	0.928MetLys: 0.928 ± 0.026	2.477MetLeu: 2.477 ± 0.044	0.647MetMet: 0.647 ± 0.023	0.714MetAsn: 0.714 ± 0.022	1.492MetPro: 1.492 ± 0.03	0.848MetGln: 0.848 ± 0.022	1.719MetArg: 1.719 ± 0.036	1.649MetSer: 1.649 ± 0.033	1.823MetThr: 1.823 ± 0.034	1.657MetVal: 1.657 ± 0.036	0.206MetTrp: 0.206 ± 0.012	0.314MetTyr: 0.314 ± 0.014	0.0MetXaa: 0.0 ± 0.0
Asn	3.376AsnAla: 3.376 ± 0.052	0.275AsnCys: 0.275 ± 0.014	1.534AsnAsp: 1.534 ± 0.027	1.344AsnGlu: 1.344 ± 0.036	0.981AsnPhe: 0.981 ± 0.025	2.444AsnGly: 2.444 ± 0.056	0.495AsnHis: 0.495 ± 0.017	1.381AsnIle: 1.381 ± 0.036	0.826AsnLys: 0.826 ± 0.025	2.541AsnLeu: 2.541 ± 0.042	0.566AsnMet: 0.566 ± 0.02	0.778AsnAsn: 0.778 ± 0.026	1.696AsnPro: 1.696 ± 0.034	0.805AsnGln: 0.805 ± 0.025	1.81AsnArg: 1.81 ± 0.032	1.425AsnSer: 1.425 ± 0.033	1.228AsnThr: 1.228 ± 0.031	2.102AsnVal: 2.102 ± 0.045	0.43AsnTrp: 0.43 ± 0.02	0.695AsnTyr: 0.695 ± 0.025	0.0AsnXaa: 0.0 ± 0.0
Pro	6.669ProAla: 6.669 ± 0.097	0.343ProCys: 0.343 ± 0.016	3.554ProAsp: 3.554 ± 0.056	3.284ProGlu: 3.284 ± 0.052	1.878ProPhe: 1.878 ± 0.038	4.285ProGly: 4.285 ± 0.064	1.062ProHis: 1.062 ± 0.028	2.467ProIle: 2.467 ± 0.037	1.947ProLys: 1.947 ± 0.036	4.793ProLeu: 4.793 ± 0.067	1.165ProMet: 1.165 ± 0.027	1.462ProAsn: 1.462 ± 0.029	3.221ProPro: 3.221 ± 0.105	1.91ProGln: 1.91 ± 0.041	3.252ProArg: 3.252 ± 0.043	3.134ProSer: 3.134 ± 0.047	2.692ProThr: 2.692 ± 0.045	3.806ProVal: 3.806 ± 0.056	0.675ProTrp: 0.675 ± 0.021	1.106ProTyr: 1.106 ± 0.026	0.0ProXaa: 0.0 ± 0.0
Gln	4.31GlnAla: 4.31 ± 0.061	0.267GlnCys: 0.267 ± 0.012	1.481GlnAsp: 1.481 ± 0.029	1.375GlnGlu: 1.375 ± 0.034	1.181GlnPhe: 1.181 ± 0.027	2.427GlnGly: 2.427 ± 0.048	0.67GlnHis: 0.67 ± 0.023	2.033GlnIle: 2.033 ± 0.035	1.029GlnLys: 1.029 ± 0.028	3.372GlnLeu: 3.372 ± 0.051	0.84GlnMet: 0.84 ± 0.023	0.98GlnAsn: 0.98 ± 0.025	1.985GlnPro: 1.985 ± 0.04	1.552GlnGln: 1.552 ± 0.042	2.837GlnArg: 2.837 ± 0.045	2.038GlnSer: 2.038 ± 0.035	1.817GlnThr: 1.817 ± 0.04	2.34GlnVal: 2.34 ± 0.041	0.466GlnTrp: 0.466 ± 0.018	0.609GlnTyr: 0.609 ± 0.021	0.0GlnXaa: 0.0 ± 0.0
Arg	8.356ArgAla: 8.356 ± 0.086	0.582ArgCys: 0.582 ± 0.021	4.333ArgAsp: 4.333 ± 0.059	4.041ArgGlu: 4.041 ± 0.062	2.826ArgPhe: 2.826 ± 0.047	4.958ArgGly: 4.958 ± 0.061	1.661ArgHis: 1.661 ± 0.039	3.984ArgIle: 3.984 ± 0.055	2.413ArgLys: 2.413 ± 0.044	7.75ArgLeu: 7.75 ± 0.096	1.733ArgMet: 1.733 ± 0.037	1.93ArgAsn: 1.93 ± 0.038	3.591ArgPro: 3.591 ± 0.062	2.623ArgGln: 2.623 ± 0.04	5.753ArgArg: 5.753 ± 0.087	3.981ArgSer: 3.981 ± 0.053	3.169ArgThr: 3.169 ± 0.047	4.673ArgVal: 4.673 ± 0.055	1.002ArgTrp: 1.002 ± 0.025	1.705ArgTyr: 1.705 ± 0.04	0.0ArgXaa: 0.0 ± 0.0
Ser	6.767SerAla: 6.767 ± 0.072	0.466SerCys: 0.466 ± 0.018	3.151SerAsp: 3.151 ± 0.046	2.885SerGlu: 2.885 ± 0.05	2.373SerPhe: 2.373 ± 0.043	5.448SerGly: 5.448 ± 0.089	1.135SerHis: 1.135 ± 0.029	3.079SerIle: 3.079 ± 0.052	1.84SerLys: 1.84 ± 0.038	5.53SerLeu: 5.53 ± 0.073	1.328SerMet: 1.328 ± 0.027	1.622SerAsn: 1.622 ± 0.041	2.958SerPro: 2.958 ± 0.05	1.788SerGln: 1.788 ± 0.036	3.941SerArg: 3.941 ± 0.051	3.564SerSer: 3.564 ± 0.065	3.018SerThr: 3.018 ± 0.061	4.139SerVal: 4.139 ± 0.058	0.743SerTrp: 0.743 ± 0.02	1.452SerTyr: 1.452 ± 0.037	0.0SerXaa: 0.0 ± 0.0
Thr	6.548ThrAla: 6.548 ± 0.077	0.406ThrCys: 0.406 ± 0.017	2.691ThrAsp: 2.691 ± 0.046	2.63ThrGlu: 2.63 ± 0.046	1.828ThrPhe: 1.828 ± 0.037	4.79ThrGly: 4.79 ± 0.069	0.944ThrHis: 0.944 ± 0.024	3.073ThrIle: 3.073 ± 0.054	1.695ThrLys: 1.695 ± 0.037	5.934ThrLeu: 5.934 ± 0.08	1.205ThrMet: 1.205 ± 0.031	1.339ThrAsn: 1.339 ± 0.036	3.362ThrPro: 3.362 ± 0.049	1.588ThrGln: 1.588 ± 0.037	3.224ThrArg: 3.224 ± 0.045	3.059ThrSer: 3.059 ± 0.062	3.146ThrThr: 3.146 ± 0.071	4.032ThrVal: 4.032 ± 0.057	0.565ThrTrp: 0.565 ± 0.018	1.051ThrTyr: 1.051 ± 0.027	0.0ThrXaa: 0.0 ± 0.0
Val	9.53ValAla: 9.53 ± 0.083	0.615ValCys: 0.615 ± 0.021	4.162ValAsp: 4.162 ± 0.053	4.31ValGlu: 4.31 ± 0.067	2.563ValPhe: 2.563 ± 0.044	5.492ValGly: 5.492 ± 0.065	1.341ValHis: 1.341 ± 0.035	4.008ValIle: 4.008 ± 0.062	2.419ValLys: 2.419 ± 0.045	7.408ValLeu: 7.408 ± 0.077	1.73ValMet: 1.73 ± 0.037	1.971ValAsn: 1.971 ± 0.038	3.625ValPro: 3.625 ± 0.047	2.171ValGln: 2.171 ± 0.041	4.803ValArg: 4.803 ± 0.059	4.375ValSer: 4.375 ± 0.064	4.349ValThr: 4.349 ± 0.061	6.309ValVal: 6.309 ± 0.073	0.86ValTrp: 0.86 ± 0.026	1.479ValTyr: 1.479 ± 0.036	0.0ValXaa: 0.0 ± 0.0
Trp	1.078TrpAla: 1.078 ± 0.027	0.124TrpCys: 0.124 ± 0.008	0.574TrpAsp: 0.574 ± 0.02	0.453TrpGlu: 0.453 ± 0.018	0.483TrpPhe: 0.483 ± 0.016	0.807TrpGly: 0.807 ± 0.025	0.326TrpHis: 0.326 ± 0.014	0.723TrpIle: 0.723 ± 0.021	0.46TrpLys: 0.46 ± 0.02	1.622TrpLeu: 1.622 ± 0.035	0.351TrpMet: 0.351 ± 0.014	0.428TrpAsn: 0.428 ± 0.016	0.7TrpPro: 0.7 ± 0.024	0.59TrpGln: 0.59 ± 0.021	1.12TrpArg: 1.12 ± 0.027	0.835TrpSer: 0.835 ± 0.026	0.736TrpThr: 0.736 ± 0.025	0.762TrpVal: 0.762 ± 0.023	0.218TrpTrp: 0.218 ± 0.013	0.259TrpTyr: 0.259 ± 0.013	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.49TyrAla: 2.49 ± 0.045	0.239TyrCys: 0.239 ± 0.012	1.38TyrAsp: 1.38 ± 0.031	0.999TyrGlu: 0.999 ± 0.026	0.937TyrPhe: 0.937 ± 0.024	2.033TyrGly: 2.033 ± 0.041	0.448TyrHis: 0.448 ± 0.018	0.848TyrIle: 0.848 ± 0.024	0.622TyrLys: 0.622 ± 0.02	2.315TyrLeu: 2.315 ± 0.043	0.376TyrMet: 0.376 ± 0.017	0.586TyrAsn: 0.586 ± 0.022	1.008TyrPro: 1.008 ± 0.026	0.847TyrGln: 0.847 ± 0.025	1.701TyrArg: 1.701 ± 0.035	1.145TyrSer: 1.145 ± 0.03	0.988TyrThr: 0.988 ± 0.029	1.632TyrVal: 1.632 ± 0.035	0.342TyrTrp: 0.342 ± 0.015	0.618TyrTyr: 0.618 ± 0.024	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 4851 proteins (1562097 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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