Amino acid dipepetide frequency for delta proteobacterium NaphS2

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	7.182AlaAla: 7.182 ± 0.074	1.188AlaCys: 1.188 ± 0.028	3.894AlaAsp: 3.894 ± 0.048	5.033AlaGlu: 5.033 ± 0.061	3.811AlaPhe: 3.811 ± 0.048	6.262AlaGly: 6.262 ± 0.073	1.701AlaHis: 1.701 ± 0.031	4.86AlaIle: 4.86 ± 0.054	4.184AlaLys: 4.184 ± 0.048	8.649AlaLeu: 8.649 ± 0.08	2.389AlaMet: 2.389 ± 0.038	2.192AlaAsn: 2.192 ± 0.035	2.854AlaPro: 2.854 ± 0.054	2.497AlaGln: 2.497 ± 0.038	4.749AlaArg: 4.749 ± 0.054	4.006AlaSer: 4.006 ± 0.05	3.213AlaThr: 3.213 ± 0.044	6.046AlaVal: 6.046 ± 0.058	0.86AlaTrp: 0.86 ± 0.021	2.413AlaTyr: 2.413 ± 0.036	0.006AlaXaa: 0.006 ± 0.002
Cys	0.959CysAla: 0.959 ± 0.025	0.315CysCys: 0.315 ± 0.014	0.656CysAsp: 0.656 ± 0.021	0.725CysGlu: 0.725 ± 0.021	0.606CysPhe: 0.606 ± 0.019	1.311CysGly: 1.311 ± 0.03	0.483CysHis: 0.483 ± 0.021	0.714CysIle: 0.714 ± 0.022	0.611CysLys: 0.611 ± 0.019	1.302CysLeu: 1.302 ± 0.028	0.373CysMet: 0.373 ± 0.014	0.427CysAsn: 0.427 ± 0.015	0.904CysPro: 0.904 ± 0.026	0.383CysGln: 0.383 ± 0.015	1.16CysArg: 1.16 ± 0.026	0.812CysSer: 0.812 ± 0.024	0.624CysThr: 0.624 ± 0.019	0.71CysVal: 0.71 ± 0.021	0.149CysTrp: 0.149 ± 0.008	0.434CysTyr: 0.434 ± 0.015	0.001CysXaa: 0.001 ± 0.001
Asp	4.141AspAla: 4.141 ± 0.05	0.667AspCys: 0.667 ± 0.02	2.668AspAsp: 2.668 ± 0.038	3.483AspGlu: 3.483 ± 0.048	2.804AspPhe: 2.804 ± 0.041	3.665AspGly: 3.665 ± 0.056	1.325AspHis: 1.325 ± 0.025	3.61AspIle: 3.61 ± 0.056	2.697AspLys: 2.697 ± 0.048	6.039AspLeu: 6.039 ± 0.06	1.487AspMet: 1.487 ± 0.03	1.628AspAsn: 1.628 ± 0.034	3.04AspPro: 3.04 ± 0.05	1.724AspGln: 1.724 ± 0.029	3.453AspArg: 3.453 ± 0.047	2.381AspSer: 2.381 ± 0.038	2.301AspThr: 2.301 ± 0.034	3.458AspVal: 3.458 ± 0.042	0.77AspTrp: 0.77 ± 0.022	1.805AspTyr: 1.805 ± 0.035	0.006AspXaa: 0.006 ± 0.002
Glu	5.666GluAla: 5.666 ± 0.054	0.601GluCys: 0.601 ± 0.019	3.251GluAsp: 3.251 ± 0.044	4.648GluGlu: 4.648 ± 0.056	2.052GluPhe: 2.052 ± 0.037	4.277GluGly: 4.277 ± 0.052	1.211GluHis: 1.211 ± 0.027	5.151GluIle: 5.151 ± 0.054	6.137GluLys: 6.137 ± 0.077	5.724GluLeu: 5.724 ± 0.065	2.2GluMet: 2.2 ± 0.038	3.316GluAsn: 3.316 ± 0.048	2.226GluPro: 2.226 ± 0.036	2.317GluGln: 2.317 ± 0.038	4.129GluArg: 4.129 ± 0.05	3.412GluSer: 3.412 ± 0.043	3.952GluThr: 3.952 ± 0.046	3.884GluVal: 3.884 ± 0.051	0.658GluTrp: 0.658 ± 0.021	1.776GluTyr: 1.776 ± 0.035	0.004GluXaa: 0.004 ± 0.001
Phe	2.894PheAla: 2.894 ± 0.039	0.77PheCys: 0.77 ± 0.022	2.713PheAsp: 2.713 ± 0.04	2.838PheGlu: 2.838 ± 0.042	2.466PhePhe: 2.466 ± 0.046	3.23PheGly: 3.23 ± 0.044	1.089PheHis: 1.089 ± 0.026	2.544PheIle: 2.544 ± 0.042	2.322PheLys: 2.322 ± 0.039	4.868PheLeu: 4.868 ± 0.059	1.285PheMet: 1.285 ± 0.025	1.531PheAsn: 1.531 ± 0.03	2.008PhePro: 2.008 ± 0.031	1.554PheGln: 1.554 ± 0.026	2.602PheArg: 2.602 ± 0.04	3.473PheSer: 3.473 ± 0.045	2.112PheThr: 2.112 ± 0.035	2.878PheVal: 2.878 ± 0.038	0.587PheTrp: 0.587 ± 0.019	1.413PheTyr: 1.413 ± 0.027	0.001PheXaa: 0.001 ± 0.001
Gly	5.344GlyAla: 5.344 ± 0.07	1.299GlyCys: 1.299 ± 0.033	3.505GlyAsp: 3.505 ± 0.048	4.281GlyGlu: 4.281 ± 0.059	3.776GlyPhe: 3.776 ± 0.05	5.432GlyGly: 5.432 ± 0.064	1.69GlyHis: 1.69 ± 0.028	5.41GlyIle: 5.41 ± 0.054	5.182GlyLys: 5.182 ± 0.055	7.316GlyLeu: 7.316 ± 0.068	2.354GlyMet: 2.354 ± 0.038	2.693GlyAsn: 2.693 ± 0.046	2.493GlyPro: 2.493 ± 0.035	2.185GlyGln: 2.185 ± 0.035	4.779GlyArg: 4.779 ± 0.058	4.139GlySer: 4.139 ± 0.057	3.747GlyThr: 3.747 ± 0.044	5.076GlyVal: 5.076 ± 0.062	0.941GlyTrp: 0.941 ± 0.024	2.609GlyTyr: 2.609 ± 0.04	0.004GlyXaa: 0.004 ± 0.001
His	1.558HisAla: 1.558 ± 0.028	0.34HisCys: 0.34 ± 0.015	1.097HisAsp: 1.097 ± 0.025	1.301HisGlu: 1.301 ± 0.028	1.123HisPhe: 1.123 ± 0.024	1.711HisGly: 1.711 ± 0.029	0.649HisHis: 0.649 ± 0.019	1.44HisIle: 1.44 ± 0.028	1.047HisLys: 1.047 ± 0.027	2.505HisLeu: 2.505 ± 0.036	0.622HisMet: 0.622 ± 0.022	0.697HisAsn: 0.697 ± 0.02	1.362HisPro: 1.362 ± 0.033	0.786HisGln: 0.786 ± 0.022	1.586HisArg: 1.586 ± 0.033	1.025HisSer: 1.025 ± 0.025	0.981HisThr: 0.981 ± 0.027	1.437HisVal: 1.437 ± 0.033	0.311HisTrp: 0.311 ± 0.012	0.819HisTyr: 0.819 ± 0.021	0.001HisXaa: 0.001 ± 0.001
Ile	4.744IleAla: 4.744 ± 0.054	0.915IleCys: 0.915 ± 0.024	3.592IleAsp: 3.592 ± 0.047	4.307IleGlu: 4.307 ± 0.053	2.937IlePhe: 2.937 ± 0.048	4.319IleGly: 4.319 ± 0.058	1.495IleHis: 1.495 ± 0.026	3.998IleIle: 3.998 ± 0.059	3.597IleLys: 3.597 ± 0.049	6.732IleLeu: 6.732 ± 0.067	1.53IleMet: 1.53 ± 0.032	2.508IleAsn: 2.508 ± 0.038	3.514IlePro: 3.514 ± 0.044	2.052IleGln: 2.052 ± 0.035	4.205IleArg: 4.205 ± 0.053	4.304IleSer: 4.304 ± 0.052	3.142IleThr: 3.142 ± 0.041	3.919IleVal: 3.919 ± 0.048	0.632IleTrp: 0.632 ± 0.019	1.972IleTyr: 1.972 ± 0.035	0.003IleXaa: 0.003 ± 0.001
Lys	5.111LysAla: 5.111 ± 0.06	0.668LysCys: 0.668 ± 0.022	3.516LysAsp: 3.516 ± 0.048	4.93LysGlu: 4.93 ± 0.062	1.749LysPhe: 1.749 ± 0.035	5.038LysGly: 5.038 ± 0.054	1.156LysHis: 1.156 ± 0.026	4.26LysIle: 4.26 ± 0.054	5.457LysLys: 5.457 ± 0.073	4.711LysLeu: 4.711 ± 0.06	1.784LysMet: 1.784 ± 0.032	2.695LysAsn: 2.695 ± 0.048	2.754LysPro: 2.754 ± 0.038	1.978LysGln: 1.978 ± 0.038	4.159LysArg: 4.159 ± 0.047	3.504LysSer: 3.504 ± 0.044	3.816LysThr: 3.816 ± 0.05	3.813LysVal: 3.813 ± 0.046	0.787LysTrp: 0.787 ± 0.023	1.714LysTyr: 1.714 ± 0.034	0.007LysXaa: 0.007 ± 0.002
Leu	7.917LeuAla: 7.917 ± 0.082	1.284LeuCys: 1.284 ± 0.029	5.528LeuAsp: 5.528 ± 0.052	6.78LeuGlu: 6.78 ± 0.061	4.745LeuPhe: 4.745 ± 0.06	6.907LeuGly: 6.907 ± 0.074	1.874LeuHis: 1.874 ± 0.03	5.834LeuIle: 5.834 ± 0.058	7.32LeuLys: 7.32 ± 0.062	9.627LeuLeu: 9.627 ± 0.097	2.712LeuMet: 2.712 ± 0.038	4.087LeuAsn: 4.087 ± 0.05	4.796LeuPro: 4.796 ± 0.056	3.005LeuGln: 3.005 ± 0.05	5.703LeuArg: 5.703 ± 0.057	6.882LeuSer: 6.882 ± 0.058	4.779LeuThr: 4.779 ± 0.058	6.228LeuVal: 6.228 ± 0.065	1.096LeuTrp: 1.096 ± 0.028	2.598LeuTyr: 2.598 ± 0.044	0.005LeuXaa: 0.005 ± 0.002
Met	3.126MetAla: 3.126 ± 0.045	0.257MetCys: 0.257 ± 0.012	1.795MetAsp: 1.795 ± 0.034	2.042MetGlu: 2.042 ± 0.032	0.866MetPhe: 0.866 ± 0.023	2.547MetGly: 2.547 ± 0.043	0.43MetHis: 0.43 ± 0.017	1.703MetIle: 1.703 ± 0.032	2.012MetLys: 2.012 ± 0.035	2.431MetLeu: 2.431 ± 0.035	0.744MetMet: 0.744 ± 0.024	1.091MetAsn: 1.091 ± 0.027	1.322MetPro: 1.322 ± 0.027	0.663MetGln: 0.663 ± 0.02	1.371MetArg: 1.371 ± 0.03	1.444MetSer: 1.444 ± 0.033	1.552MetThr: 1.552 ± 0.03	2.244MetVal: 2.244 ± 0.033	0.202MetTrp: 0.202 ± 0.012	0.46MetTyr: 0.46 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	2.98AsnAla: 2.98 ± 0.043	0.555AsnCys: 0.555 ± 0.019	1.695AsnAsp: 1.695 ± 0.029	2.017AsnGlu: 2.017 ± 0.029	1.462AsnPhe: 1.462 ± 0.029	2.747AsnGly: 2.747 ± 0.046	0.932AsnHis: 0.932 ± 0.022	2.471AsnIle: 2.471 ± 0.043	1.785AsnLys: 1.785 ± 0.032	3.784AsnLeu: 3.784 ± 0.044	1.0AsnMet: 1.0 ± 0.026	1.242AsnAsn: 1.242 ± 0.026	2.358AsnPro: 2.358 ± 0.038	1.326AsnGln: 1.326 ± 0.03	2.873AsnArg: 2.873 ± 0.039	1.721AsnSer: 1.721 ± 0.028	1.81AsnThr: 1.81 ± 0.03	2.304AsnVal: 2.304 ± 0.031	0.487AsnTrp: 0.487 ± 0.016	0.991AsnTyr: 0.991 ± 0.024	0.002AsnXaa: 0.002 ± 0.001
Pro	3.171ProAla: 3.171 ± 0.036	0.572ProCys: 0.572 ± 0.017	3.047ProAsp: 3.047 ± 0.041	4.111ProGlu: 4.111 ± 0.049	2.338ProPhe: 2.338 ± 0.04	3.692ProGly: 3.692 ± 0.041	1.209ProHis: 1.209 ± 0.027	2.38ProIle: 2.38 ± 0.036	2.589ProLys: 2.589 ± 0.042	4.366ProLeu: 4.366 ± 0.057	1.162ProMet: 1.162 ± 0.024	1.361ProAsn: 1.361 ± 0.031	2.103ProPro: 2.103 ± 0.037	1.322ProGln: 1.322 ± 0.03	2.232ProArg: 2.232 ± 0.033	2.642ProSer: 2.642 ± 0.04	1.843ProThr: 1.843 ± 0.036	3.65ProVal: 3.65 ± 0.046	0.633ProTrp: 0.633 ± 0.02	1.373ProTyr: 1.373 ± 0.027	0.002ProXaa: 0.002 ± 0.001
Gln	2.656GlnAla: 2.656 ± 0.039	0.401GlnCys: 0.401 ± 0.015	1.559GlnAsp: 1.559 ± 0.029	2.167GlnGlu: 2.167 ± 0.034	1.165GlnPhe: 1.165 ± 0.023	2.181GlnGly: 2.181 ± 0.037	0.586GlnHis: 0.586 ± 0.017	2.188GlnIle: 2.188 ± 0.04	2.538GlnLys: 2.538 ± 0.041	2.892GlnLeu: 2.892 ± 0.042	1.0GlnMet: 1.0 ± 0.021	1.405GlnAsn: 1.405 ± 0.029	1.159GlnPro: 1.159 ± 0.028	1.033GlnGln: 1.033 ± 0.027	1.82GlnArg: 1.82 ± 0.034	1.681GlnSer: 1.681 ± 0.027	1.703GlnThr: 1.703 ± 0.033	2.103GlnVal: 2.103 ± 0.04	0.506GlnTrp: 0.506 ± 0.017	1.035GlnTyr: 1.035 ± 0.026	0.002GlnXaa: 0.002 ± 0.001
Arg	3.99ArgAla: 3.99 ± 0.049	0.809ArgCys: 0.809 ± 0.021	3.111ArgAsp: 3.111 ± 0.045	4.439ArgGlu: 4.439 ± 0.049	3.184ArgPhe: 3.184 ± 0.046	3.453ArgGly: 3.453 ± 0.05	1.378ArgHis: 1.378 ± 0.029	4.444ArgIle: 4.444 ± 0.049	4.676ArgLys: 4.676 ± 0.059	6.49ArgLeu: 6.49 ± 0.059	1.979ArgMet: 1.979 ± 0.036	2.425ArgAsn: 2.425 ± 0.039	2.543ArgPro: 2.543 ± 0.037	2.227ArgGln: 2.227 ± 0.037	3.772ArgArg: 3.772 ± 0.047	3.333ArgSer: 3.333 ± 0.044	2.713ArgThr: 2.713 ± 0.04	4.072ArgVal: 4.072 ± 0.046	0.815ArgTrp: 0.815 ± 0.02	2.182ArgTyr: 2.182 ± 0.035	0.004ArgXaa: 0.004 ± 0.001
Ser	4.185SerAla: 4.185 ± 0.052	0.719SerCys: 0.719 ± 0.021	2.956SerAsp: 2.956 ± 0.039	3.62SerGlu: 3.62 ± 0.047	2.697SerPhe: 2.697 ± 0.039	4.935SerGly: 4.935 ± 0.055	1.385SerHis: 1.385 ± 0.027	3.482SerIle: 3.482 ± 0.048	3.188SerLys: 3.188 ± 0.043	5.979SerLeu: 5.979 ± 0.057	1.697SerMet: 1.697 ± 0.032	1.846SerAsn: 1.846 ± 0.035	2.709SerPro: 2.709 ± 0.043	1.887SerGln: 1.887 ± 0.031	3.878SerArg: 3.878 ± 0.047	3.294SerSer: 3.294 ± 0.046	2.586SerThr: 2.586 ± 0.041	3.803SerVal: 3.803 ± 0.04	0.73SerTrp: 0.73 ± 0.021	1.624SerTyr: 1.624 ± 0.034	0.005SerXaa: 0.005 ± 0.002
Thr	3.981ThrAla: 3.981 ± 0.05	0.625ThrCys: 0.625 ± 0.022	2.521ThrAsp: 2.521 ± 0.038	2.828ThrGlu: 2.828 ± 0.04	2.135ThrPhe: 2.135 ± 0.037	4.553ThrGly: 4.553 ± 0.052	1.113ThrHis: 1.113 ± 0.025	3.226ThrIle: 3.226 ± 0.047	2.288ThrLys: 2.288 ± 0.039	5.274ThrLeu: 5.274 ± 0.06	1.119ThrMet: 1.119 ± 0.025	1.556ThrAsn: 1.556 ± 0.033	2.479ThrPro: 2.479 ± 0.041	1.307ThrGln: 1.307 ± 0.024	2.796ThrArg: 2.796 ± 0.042	2.596ThrSer: 2.596 ± 0.04	2.422ThrThr: 2.422 ± 0.082	3.63ThrVal: 3.63 ± 0.043	0.581ThrTrp: 0.581 ± 0.021	1.47ThrTyr: 1.47 ± 0.029	0.001ThrXaa: 0.001 ± 0.001
Val	5.231ValAla: 5.231 ± 0.059	1.007ValCys: 1.007 ± 0.025	3.749ValAsp: 3.749 ± 0.052	4.35ValGlu: 4.35 ± 0.049	3.17ValPhe: 3.17 ± 0.043	4.481ValGly: 4.481 ± 0.055	1.513ValHis: 1.513 ± 0.031	4.345ValIle: 4.345 ± 0.054	3.88ValLys: 3.88 ± 0.053	6.665ValLeu: 6.665 ± 0.057	1.9ValMet: 1.9 ± 0.028	2.399ValAsn: 2.399 ± 0.037	3.038ValPro: 3.038 ± 0.047	2.034ValGln: 2.034 ± 0.035	3.914ValArg: 3.914 ± 0.045	4.286ValSer: 4.286 ± 0.051	3.328ValThr: 3.328 ± 0.052	4.818ValVal: 4.818 ± 0.062	0.706ValTrp: 0.706 ± 0.02	1.953ValTyr: 1.953 ± 0.032	0.0ValXaa: 0.0 ± 0.0
Trp	0.889TrpAla: 0.889 ± 0.022	0.176TrpCys: 0.176 ± 0.011	0.599TrpAsp: 0.599 ± 0.019	0.852TrpGlu: 0.852 ± 0.023	0.629TrpPhe: 0.629 ± 0.022	0.822TrpGly: 0.822 ± 0.025	0.329TrpHis: 0.329 ± 0.014	0.844TrpIle: 0.844 ± 0.024	0.795TrpLys: 0.795 ± 0.021	1.167TrpLeu: 1.167 ± 0.027	0.343TrpMet: 0.343 ± 0.013	0.438TrpAsn: 0.438 ± 0.016	0.491TrpPro: 0.491 ± 0.017	0.464TrpGln: 0.464 ± 0.015	0.729TrpArg: 0.729 ± 0.017	0.591TrpSer: 0.591 ± 0.019	0.525TrpThr: 0.525 ± 0.018	0.853TrpVal: 0.853 ± 0.022	0.187TrpTrp: 0.187 ± 0.01	0.316TrpTyr: 0.316 ± 0.015	0.001TrpXaa: 0.001 ± 0.001
Tyr	2.265TyrAla: 2.265 ± 0.04	0.492TyrCys: 0.492 ± 0.017	1.697TyrAsp: 1.697 ± 0.034	1.839TyrGlu: 1.839 ± 0.032	1.46TyrPhe: 1.46 ± 0.03	2.688TyrGly: 2.688 ± 0.034	0.848TyrHis: 0.848 ± 0.02	1.508TyrIle: 1.508 ± 0.03	1.299TyrLys: 1.299 ± 0.027	3.178TyrLeu: 3.178 ± 0.046	0.62TyrMet: 0.62 ± 0.019	1.005TyrAsn: 1.005 ± 0.027	1.643TyrPro: 1.643 ± 0.032	1.028TyrGln: 1.028 ± 0.024	2.121TyrArg: 2.121 ± 0.034	1.68TyrSer: 1.68 ± 0.031	1.347TyrThr: 1.347 ± 0.025	1.838TyrVal: 1.838 ± 0.032	0.403TyrTrp: 0.403 ± 0.016	1.067TyrTyr: 1.067 ± 0.025	0.001TyrXaa: 0.001 ± 0.001
Xaa	0.002XaaAla: 0.002 ± 0.001	0.001XaaCys: 0.001 ± 0.001	0.003XaaAsp: 0.003 ± 0.001	0.002XaaGlu: 0.002 ± 0.001	0.002XaaPhe: 0.002 ± 0.001	0.004XaaGly: 0.004 ± 0.002	0.002XaaHis: 0.002 ± 0.001	0.004XaaIle: 0.004 ± 0.001	0.004XaaLys: 0.004 ± 0.001	0.004XaaLeu: 0.004 ± 0.002	0.001XaaMet: 0.001 ± 0.0	0.003XaaAsn: 0.003 ± 0.001	0.003XaaPro: 0.003 ± 0.001	0.004XaaGln: 0.004 ± 0.002	0.007XaaArg: 0.007 ± 0.002	0.001XaaSer: 0.001 ± 0.0	0.003XaaThr: 0.003 ± 0.001	0.004XaaVal: 0.004 ± 0.002	0.0XaaTrp: 0.0 ± 0.0	0.001XaaTyr: 0.001 ± 0.0	0.0XaaXaa: 0.0 ± 0.0

Statistics based on 6687 proteins (1789710 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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