Amino acid dipepetide frequency for Rhodomicrobium vannielii (strain ATCC 17100 / ATH 3.1.1 / DSM 162 / LMG 4299)

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	18.155AlaAla: 18.155 ± 0.193	1.148AlaCys: 1.148 ± 0.037	6.774AlaAsp: 6.774 ± 0.096	8.014AlaGlu: 8.014 ± 0.112	4.919AlaPhe: 4.919 ± 0.076	9.59AlaGly: 9.59 ± 0.102	2.24AlaHis: 2.24 ± 0.041	6.602AlaIle: 6.602 ± 0.075	5.052AlaLys: 5.052 ± 0.079	13.76AlaLeu: 13.76 ± 0.141	3.076AlaMet: 3.076 ± 0.058	3.044AlaAsn: 3.044 ± 0.051	6.082AlaPro: 6.082 ± 0.1	3.994AlaGln: 3.994 ± 0.074	8.929AlaArg: 8.929 ± 0.118	7.238AlaSer: 7.238 ± 0.102	6.03AlaThr: 6.03 ± 0.146	8.523AlaVal: 8.523 ± 0.091	1.448AlaTrp: 1.448 ± 0.035	2.691AlaTyr: 2.691 ± 0.055	0.0AlaXaa: 0.0 ± 0.0
Cys	1.023CysAla: 1.023 ± 0.035	0.115CysCys: 0.115 ± 0.012	0.529CysAsp: 0.529 ± 0.026	0.497CysGlu: 0.497 ± 0.02	0.351CysPhe: 0.351 ± 0.018	0.922CysGly: 0.922 ± 0.034	0.245CysHis: 0.245 ± 0.019	0.419CysIle: 0.419 ± 0.021	0.276CysLys: 0.276 ± 0.019	0.854CysLeu: 0.854 ± 0.026	0.172CysMet: 0.172 ± 0.011	0.245CysAsn: 0.245 ± 0.016	0.5CysPro: 0.5 ± 0.025	0.234CysGln: 0.234 ± 0.014	0.616CysArg: 0.616 ± 0.024	0.496CysSer: 0.496 ± 0.024	0.375CysThr: 0.375 ± 0.018	0.689CysVal: 0.689 ± 0.023	0.109CysTrp: 0.109 ± 0.01	0.215CysTyr: 0.215 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	7.32AspAla: 7.32 ± 0.102	0.483AspCys: 0.483 ± 0.022	3.018AspAsp: 3.018 ± 0.067	3.692AspGlu: 3.692 ± 0.063	2.297AspPhe: 2.297 ± 0.046	4.843AspGly: 4.843 ± 0.069	1.097AspHis: 1.097 ± 0.032	3.123AspIle: 3.123 ± 0.056	2.023AspLys: 2.023 ± 0.05	5.566AspLeu: 5.566 ± 0.078	1.141AspMet: 1.141 ± 0.033	1.286AspAsn: 1.286 ± 0.04	2.953AspPro: 2.953 ± 0.052	1.458AspGln: 1.458 ± 0.042	3.947AspArg: 3.947 ± 0.063	2.139AspSer: 2.139 ± 0.048	2.535AspThr: 2.535 ± 0.051	4.081AspVal: 4.081 ± 0.054	0.838AspTrp: 0.838 ± 0.029	1.517AspTyr: 1.517 ± 0.035	0.0AspXaa: 0.0 ± 0.0
Glu	8.399GluAla: 8.399 ± 0.11	0.399GluCys: 0.399 ± 0.018	2.968GluAsp: 2.968 ± 0.055	3.393GluGlu: 3.393 ± 0.075	1.821GluPhe: 1.821 ± 0.04	4.451GluGly: 4.451 ± 0.061	1.212GluHis: 1.212 ± 0.032	3.533GluIle: 3.533 ± 0.061	2.978GluLys: 2.978 ± 0.059	5.259GluLeu: 5.259 ± 0.069	1.397GluMet: 1.397 ± 0.041	1.732GluAsn: 1.732 ± 0.044	3.062GluPro: 3.062 ± 0.06	1.992GluGln: 1.992 ± 0.049	5.416GluArg: 5.416 ± 0.082	2.54GluSer: 2.54 ± 0.05	3.831GluThr: 3.831 ± 0.057	3.881GluVal: 3.881 ± 0.064	0.738GluTrp: 0.738 ± 0.027	1.004GluTyr: 1.004 ± 0.03	0.0GluXaa: 0.0 ± 0.0
Phe	4.912PheAla: 4.912 ± 0.075	0.459PheCys: 0.459 ± 0.02	2.623PheAsp: 2.623 ± 0.05	2.445PheGlu: 2.445 ± 0.051	1.61PhePhe: 1.61 ± 0.038	3.669PheGly: 3.669 ± 0.056	0.795PheHis: 0.795 ± 0.025	1.889PheIle: 1.889 ± 0.04	1.208PheLys: 1.208 ± 0.033	3.581PheLeu: 3.581 ± 0.062	0.782PheMet: 0.782 ± 0.027	1.051PheAsn: 1.051 ± 0.03	1.668PhePro: 1.668 ± 0.042	1.058PheGln: 1.058 ± 0.034	2.535PheArg: 2.535 ± 0.052	2.32PheSer: 2.32 ± 0.043	1.958PheThr: 1.958 ± 0.044	2.886PheVal: 2.886 ± 0.055	0.524PheTrp: 0.524 ± 0.025	0.97PheTyr: 0.97 ± 0.027	0.0PheXaa: 0.0 ± 0.0
Gly	9.292GlyAla: 9.292 ± 0.162	0.867GlyCys: 0.867 ± 0.032	4.425GlyAsp: 4.425 ± 0.075	4.979GlyGlu: 4.979 ± 0.078	3.635GlyPhe: 3.635 ± 0.056	7.261GlyGly: 7.261 ± 0.118	1.714GlyHis: 1.714 ± 0.04	4.302GlyIle: 4.302 ± 0.079	3.528GlyLys: 3.528 ± 0.066	8.003GlyLeu: 8.003 ± 0.087	1.741GlyMet: 1.741 ± 0.045	2.174GlyAsn: 2.174 ± 0.091	3.17GlyPro: 3.17 ± 0.06	2.619GlyGln: 2.619 ± 0.052	5.759GlyArg: 5.759 ± 0.076	4.515GlySer: 4.515 ± 0.085	4.146GlyThr: 4.146 ± 0.069	6.217GlyVal: 6.217 ± 0.07	1.205GlyTrp: 1.205 ± 0.036	2.206GlyTyr: 2.206 ± 0.046	0.0GlyXaa: 0.0 ± 0.0
His	2.329HisAla: 2.329 ± 0.046	0.244HisCys: 0.244 ± 0.015	1.092HisAsp: 1.092 ± 0.034	1.126HisGlu: 1.126 ± 0.034	0.853HisPhe: 0.853 ± 0.031	1.816HisGly: 1.816 ± 0.043	0.509HisHis: 0.509 ± 0.027	1.025HisIle: 1.025 ± 0.031	0.603HisLys: 0.603 ± 0.025	2.011HisLeu: 2.011 ± 0.05	0.466HisMet: 0.466 ± 0.023	0.486HisAsn: 0.486 ± 0.02	1.247HisPro: 1.247 ± 0.036	0.522HisGln: 0.522 ± 0.021	1.435HisArg: 1.435 ± 0.036	0.97HisSer: 0.97 ± 0.032	0.862HisThr: 0.862 ± 0.027	1.457HisVal: 1.457 ± 0.038	0.309HisTrp: 0.309 ± 0.017	0.565HisTyr: 0.565 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	7.43IleAla: 7.43 ± 0.083	0.505IleCys: 0.505 ± 0.021	3.314IleAsp: 3.314 ± 0.065	3.843IleGlu: 3.843 ± 0.064	1.791IlePhe: 1.791 ± 0.038	4.613IleGly: 4.613 ± 0.075	0.933IleHis: 0.933 ± 0.03	2.308IleIle: 2.308 ± 0.052	1.746IleLys: 1.746 ± 0.043	4.585IleLeu: 4.585 ± 0.075	0.99IleMet: 0.99 ± 0.033	1.375IleAsn: 1.375 ± 0.036	2.434IlePro: 2.434 ± 0.049	1.207IleGln: 1.207 ± 0.035	3.318IleArg: 3.318 ± 0.057	2.892IleSer: 2.892 ± 0.062	2.53IleThr: 2.53 ± 0.052	4.326IleVal: 4.326 ± 0.067	0.608IleTrp: 0.608 ± 0.023	1.212IleTyr: 1.212 ± 0.034	0.0IleXaa: 0.0 ± 0.0
Lys	5.235LysAla: 5.235 ± 0.079	0.225LysCys: 0.225 ± 0.014	2.033LysAsp: 2.033 ± 0.044	2.11LysGlu: 2.11 ± 0.047	1.067LysPhe: 1.067 ± 0.036	3.023LysGly: 3.023 ± 0.058	0.742LysHis: 0.742 ± 0.025	2.022LysIle: 2.022 ± 0.045	1.92LysLys: 1.92 ± 0.055	3.957LysLeu: 3.957 ± 0.076	0.763LysMet: 0.763 ± 0.023	1.084LysAsn: 1.084 ± 0.03	2.734LysPro: 2.734 ± 0.051	1.166LysGln: 1.166 ± 0.033	2.942LysArg: 2.942 ± 0.057	2.24LysSer: 2.24 ± 0.046	2.45LysThr: 2.45 ± 0.048	2.564LysVal: 2.564 ± 0.05	0.41LysTrp: 0.41 ± 0.02	0.769LysTyr: 0.769 ± 0.029	0.0LysXaa: 0.0 ± 0.0
Leu	13.434LeuAla: 13.434 ± 0.142	0.926LeuCys: 0.926 ± 0.031	5.863LeuAsp: 5.863 ± 0.088	5.309LeuGlu: 5.309 ± 0.068	3.822LeuPhe: 3.822 ± 0.066	7.828LeuGly: 7.828 ± 0.102	1.892LeuHis: 1.892 ± 0.04	5.082LeuIle: 5.082 ± 0.073	4.374LeuLys: 4.374 ± 0.071	8.965LeuLeu: 8.965 ± 0.117	2.015LeuMet: 2.015 ± 0.049	2.693LeuAsn: 2.693 ± 0.053	5.499LeuPro: 5.499 ± 0.069	2.685LeuGln: 2.685 ± 0.048	6.85LeuArg: 6.85 ± 0.083	6.646LeuSer: 6.646 ± 0.088	5.268LeuThr: 5.268 ± 0.078	6.755LeuVal: 6.755 ± 0.086	1.051LeuTrp: 1.051 ± 0.034	2.159LeuTyr: 2.159 ± 0.044	0.0LeuXaa: 0.0 ± 0.0
Met	2.613MetAla: 2.613 ± 0.059	0.158MetCys: 0.158 ± 0.013	0.972MetAsp: 0.972 ± 0.027	1.008MetGlu: 1.008 ± 0.027	0.632MetPhe: 0.632 ± 0.023	1.5MetGly: 1.5 ± 0.04	0.449MetHis: 0.449 ± 0.018	1.178MetIle: 1.178 ± 0.032	0.98MetLys: 0.98 ± 0.03	2.076MetLeu: 2.076 ± 0.046	0.537MetMet: 0.537 ± 0.026	0.66MetAsn: 0.66 ± 0.024	1.376MetPro: 1.376 ± 0.039	0.756MetGln: 0.756 ± 0.027	1.776MetArg: 1.776 ± 0.035	1.41MetSer: 1.41 ± 0.036	1.591MetThr: 1.591 ± 0.04	1.305MetVal: 1.305 ± 0.035	0.183MetTrp: 0.183 ± 0.013	0.269MetTyr: 0.269 ± 0.014	0.0MetXaa: 0.0 ± 0.0
Asn	3.505AsnAla: 3.505 ± 0.056	0.288AsnCys: 0.288 ± 0.018	1.384AsnAsp: 1.384 ± 0.035	1.435AsnGlu: 1.435 ± 0.039	0.985AsnPhe: 0.985 ± 0.031	2.466AsnGly: 2.466 ± 0.053	0.458AsnHis: 0.458 ± 0.02	1.467AsnIle: 1.467 ± 0.036	0.821AsnLys: 0.821 ± 0.032	2.474AsnLeu: 2.474 ± 0.054	0.583AsnMet: 0.583 ± 0.022	0.727AsnAsn: 0.727 ± 0.032	1.823AsnPro: 1.823 ± 0.038	0.713AsnGln: 0.713 ± 0.027	1.925AsnArg: 1.925 ± 0.04	1.284AsnSer: 1.284 ± 0.041	1.32AsnThr: 1.32 ± 0.041	1.902AsnVal: 1.902 ± 0.044	0.407AsnTrp: 0.407 ± 0.019	0.73AsnTyr: 0.73 ± 0.026	0.0AsnXaa: 0.0 ± 0.0
Pro	6.156ProAla: 6.156 ± 0.104	0.385ProCys: 0.385 ± 0.018	3.409ProAsp: 3.409 ± 0.056	3.756ProGlu: 3.756 ± 0.056	2.131ProPhe: 2.131 ± 0.045	4.3ProGly: 4.3 ± 0.068	1.112ProHis: 1.112 ± 0.033	2.275ProIle: 2.275 ± 0.05	2.179ProLys: 2.179 ± 0.047	4.847ProLeu: 4.847 ± 0.064	1.012ProMet: 1.012 ± 0.027	1.379ProAsn: 1.379 ± 0.037	2.726ProPro: 2.726 ± 0.075	1.781ProGln: 1.781 ± 0.043	3.134ProArg: 3.134 ± 0.064	3.029ProSer: 3.029 ± 0.049	2.37ProThr: 2.37 ± 0.045	4.207ProVal: 4.207 ± 0.066	0.662ProTrp: 0.662 ± 0.029	1.269ProTyr: 1.269 ± 0.037	0.0ProXaa: 0.0 ± 0.0
Gln	3.704GlnAla: 3.704 ± 0.065	0.191GlnCys: 0.191 ± 0.014	1.318GlnAsp: 1.318 ± 0.037	1.513GlnGlu: 1.513 ± 0.038	1.08GlnPhe: 1.08 ± 0.03	2.266GlnGly: 2.266 ± 0.05	0.634GlnHis: 0.634 ± 0.026	1.72GlnIle: 1.72 ± 0.042	1.361GlnLys: 1.361 ± 0.039	2.733GlnLeu: 2.733 ± 0.053	0.738GlnMet: 0.738 ± 0.026	0.947GlnAsn: 0.947 ± 0.029	1.825GlnPro: 1.825 ± 0.053	1.154GlnGln: 1.154 ± 0.041	2.392GlnArg: 2.392 ± 0.055	1.83GlnSer: 1.83 ± 0.047	1.79GlnThr: 1.79 ± 0.046	2.009GlnVal: 2.009 ± 0.045	0.339GlnTrp: 0.339 ± 0.019	0.591GlnTyr: 0.591 ± 0.031	0.0GlnXaa: 0.0 ± 0.0
Arg	8.397ArgAla: 8.397 ± 0.095	0.559ArgCys: 0.559 ± 0.023	4.159ArgAsp: 4.159 ± 0.07	4.624ArgGlu: 4.624 ± 0.07	3.163ArgPhe: 3.163 ± 0.064	4.912ArgGly: 4.912 ± 0.076	1.681ArgHis: 1.681 ± 0.045	3.945ArgIle: 3.945 ± 0.074	2.613ArgLys: 2.613 ± 0.053	7.87ArgLeu: 7.87 ± 0.101	1.711ArgMet: 1.711 ± 0.037	1.849ArgAsn: 1.849 ± 0.045	3.351ArgPro: 3.351 ± 0.061	2.413ArgGln: 2.413 ± 0.048	5.682ArgArg: 5.682 ± 0.102	3.811ArgSer: 3.811 ± 0.06	3.258ArgThr: 3.258 ± 0.051	4.95ArgVal: 4.95 ± 0.073	0.926ArgTrp: 0.926 ± 0.028	1.834ArgTyr: 1.834 ± 0.047	0.0ArgXaa: 0.0 ± 0.0
Ser	6.634SerAla: 6.634 ± 0.083	0.46SerCys: 0.46 ± 0.022	3.007SerAsp: 3.007 ± 0.054	3.18SerGlu: 3.18 ± 0.055	2.396SerPhe: 2.396 ± 0.052	5.504SerGly: 5.504 ± 0.11	1.123SerHis: 1.123 ± 0.034	2.8SerIle: 2.8 ± 0.052	1.9SerLys: 1.9 ± 0.049	5.663SerLeu: 5.663 ± 0.072	1.088SerMet: 1.088 ± 0.028	1.485SerAsn: 1.485 ± 0.043	3.004SerPro: 3.004 ± 0.059	1.692SerGln: 1.692 ± 0.036	3.879SerArg: 3.879 ± 0.069	3.32SerSer: 3.32 ± 0.056	2.748SerThr: 2.748 ± 0.058	4.113SerVal: 4.113 ± 0.067	0.753SerTrp: 0.753 ± 0.026	1.338SerTyr: 1.338 ± 0.034	0.0SerXaa: 0.0 ± 0.0
Thr	6.112ThrAla: 6.112 ± 0.077	0.425ThrCys: 0.425 ± 0.02	2.516ThrAsp: 2.516 ± 0.044	2.611ThrGlu: 2.611 ± 0.052	2.043ThrPhe: 2.043 ± 0.04	4.836ThrGly: 4.836 ± 0.184	1.002ThrHis: 1.002 ± 0.03	2.773ThrIle: 2.773 ± 0.055	1.804ThrLys: 1.804 ± 0.044	5.825ThrLeu: 5.825 ± 0.075	0.985ThrMet: 0.985 ± 0.032	1.374ThrAsn: 1.374 ± 0.04	3.196ThrPro: 3.196 ± 0.057	1.42ThrGln: 1.42 ± 0.037	3.231ThrArg: 3.231 ± 0.048	2.931ThrSer: 2.931 ± 0.063	2.562ThrThr: 2.562 ± 0.066	4.148ThrVal: 4.148 ± 0.065	0.583ThrTrp: 0.583 ± 0.026	1.237ThrTyr: 1.237 ± 0.034	0.0ThrXaa: 0.0 ± 0.0
Val	8.933ValAla: 8.933 ± 0.092	0.657ValCys: 0.657 ± 0.025	3.909ValAsp: 3.909 ± 0.062	4.579ValGlu: 4.579 ± 0.07	2.864ValPhe: 2.864 ± 0.05	4.942ValGly: 4.942 ± 0.07	1.317ValHis: 1.317 ± 0.033	3.89ValIle: 3.89 ± 0.066	2.781ValLys: 2.781 ± 0.058	7.213ValLeu: 7.213 ± 0.082	1.541ValMet: 1.541 ± 0.034	1.999ValAsn: 1.999 ± 0.045	3.794ValPro: 3.794 ± 0.063	1.98ValGln: 1.98 ± 0.041	4.902ValArg: 4.902 ± 0.066	4.489ValSer: 4.489 ± 0.068	4.092ValThr: 4.092 ± 0.06	5.442ValVal: 5.442 ± 0.077	0.88ValTrp: 0.88 ± 0.029	1.605ValTyr: 1.605 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	1.144TrpAla: 1.144 ± 0.034	0.123TrpCys: 0.123 ± 0.01	0.592TrpAsp: 0.592 ± 0.023	0.543TrpGlu: 0.543 ± 0.024	0.496TrpPhe: 0.496 ± 0.022	0.9TrpGly: 0.9 ± 0.031	0.299TrpHis: 0.299 ± 0.017	0.581TrpIle: 0.581 ± 0.023	0.484TrpLys: 0.484 ± 0.024	1.617TrpLeu: 1.617 ± 0.04	0.276TrpMet: 0.276 ± 0.015	0.402TrpAsn: 0.402 ± 0.022	0.637TrpPro: 0.637 ± 0.026	0.552TrpGln: 0.552 ± 0.021	1.212TrpArg: 1.212 ± 0.039	0.73TrpSer: 0.73 ± 0.03	0.752TrpThr: 0.752 ± 0.026	0.72TrpVal: 0.72 ± 0.025	0.185TrpTrp: 0.185 ± 0.013	0.282TrpTyr: 0.282 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.581TyrAla: 2.581 ± 0.047	0.265TyrCys: 0.265 ± 0.018	1.45TyrAsp: 1.45 ± 0.039	1.348TyrGlu: 1.348 ± 0.036	0.989TyrPhe: 0.989 ± 0.031	2.116TyrGly: 2.116 ± 0.045	0.469TyrHis: 0.469 ± 0.018	1.026TyrIle: 1.026 ± 0.033	0.824TyrLys: 0.824 ± 0.028	2.261TyrLeu: 2.261 ± 0.046	0.415TyrMet: 0.415 ± 0.019	0.704TyrAsn: 0.704 ± 0.028	1.04TyrPro: 1.04 ± 0.033	0.738TyrGln: 0.738 ± 0.024	1.831TyrArg: 1.831 ± 0.04	1.256TyrSer: 1.256 ± 0.036	1.148TyrThr: 1.148 ± 0.036	1.633TyrVal: 1.633 ± 0.044	0.367TyrTrp: 0.367 ± 0.019	0.696TyrTyr: 0.696 ± 0.028	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 3513 proteins (1117615 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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