Amino acid dipepetide frequency for Pseudomonas oryzae

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	16.26AlaAla: 16.26 ± 0.17	1.555AlaCys: 1.555 ± 0.035	6.283AlaAsp: 6.283 ± 0.093	8.59AlaGlu: 8.59 ± 0.117	3.857AlaPhe: 3.857 ± 0.058	10.817AlaGly: 10.817 ± 0.101	2.407AlaHis: 2.407 ± 0.049	5.182AlaIle: 5.182 ± 0.066	3.183AlaLys: 3.183 ± 0.06	15.202AlaLeu: 15.202 ± 0.148	2.878AlaMet: 2.878 ± 0.048	2.706AlaAsn: 2.706 ± 0.048	5.479AlaPro: 5.479 ± 0.09	5.199AlaGln: 5.199 ± 0.069	9.151AlaArg: 9.151 ± 0.113	6.436AlaSer: 6.436 ± 0.077	4.812AlaThr: 4.812 ± 0.062	7.995AlaVal: 7.995 ± 0.082	1.82AlaTrp: 1.82 ± 0.037	2.393AlaTyr: 2.393 ± 0.044	0.0AlaXaa: 0.0 ± 0.0
Cys	1.378CysAla: 1.378 ± 0.031	0.164CysCys: 0.164 ± 0.012	0.575CysAsp: 0.575 ± 0.021	0.575CysGlu: 0.575 ± 0.021	0.339CysPhe: 0.339 ± 0.018	1.122CysGly: 1.122 ± 0.029	0.291CysHis: 0.291 ± 0.016	0.45CysIle: 0.45 ± 0.019	0.257CysLys: 0.257 ± 0.015	1.179CysLeu: 1.179 ± 0.032	0.201CysMet: 0.201 ± 0.012	0.254CysAsn: 0.254 ± 0.014	0.598CysPro: 0.598 ± 0.022	0.435CysGln: 0.435 ± 0.018	0.811CysArg: 0.811 ± 0.025	0.642CysSer: 0.642 ± 0.023	0.473CysThr: 0.473 ± 0.019	0.725CysVal: 0.725 ± 0.023	0.167CysTrp: 0.167 ± 0.012	0.267CysTyr: 0.267 ± 0.014	0.0CysXaa: 0.0 ± 0.0
Asp	6.121AspAla: 6.121 ± 0.076	0.63AspCys: 0.63 ± 0.024	2.778AspAsp: 2.778 ± 0.068	3.578AspGlu: 3.578 ± 0.056	2.041AspPhe: 2.041 ± 0.041	4.885AspGly: 4.885 ± 0.1	1.118AspHis: 1.118 ± 0.028	2.414AspIle: 2.414 ± 0.042	1.696AspLys: 1.696 ± 0.038	5.989AspLeu: 5.989 ± 0.066	1.164AspMet: 1.164 ± 0.031	1.498AspAsn: 1.498 ± 0.033	2.806AspPro: 2.806 ± 0.042	1.781AspGln: 1.781 ± 0.035	3.113AspArg: 3.113 ± 0.056	2.857AspSer: 2.857 ± 0.066	2.18AspThr: 2.18 ± 0.048	3.183AspVal: 3.183 ± 0.062	1.038AspTrp: 1.038 ± 0.029	1.72AspTyr: 1.72 ± 0.043	0.0AspXaa: 0.0 ± 0.0
Glu	7.485GluAla: 7.485 ± 0.096	0.459GluCys: 0.459 ± 0.018	2.597GluAsp: 2.597 ± 0.046	3.681GluGlu: 3.681 ± 0.07	1.933GluPhe: 1.933 ± 0.043	4.153GluGly: 4.153 ± 0.057	1.653GluHis: 1.653 ± 0.037	2.793GluIle: 2.793 ± 0.049	1.833GluLys: 1.833 ± 0.044	8.211GluLeu: 8.211 ± 0.092	1.306GluMet: 1.306 ± 0.032	1.325GluAsn: 1.325 ± 0.033	2.561GluPro: 2.561 ± 0.048	3.862GluGln: 3.862 ± 0.062	5.758GluArg: 5.758 ± 0.088	2.544GluSer: 2.544 ± 0.05	2.382GluThr: 2.382 ± 0.048	4.504GluVal: 4.504 ± 0.068	0.756GluTrp: 0.756 ± 0.021	1.218GluTyr: 1.218 ± 0.033	0.0GluXaa: 0.0 ± 0.0
Phe	4.535PheAla: 4.535 ± 0.066	0.437PheCys: 0.437 ± 0.019	2.383PheAsp: 2.383 ± 0.043	1.939PheGlu: 1.939 ± 0.041	1.343PhePhe: 1.343 ± 0.035	3.242PheGly: 3.242 ± 0.056	0.772PheHis: 0.772 ± 0.023	1.494PheIle: 1.494 ± 0.036	0.984PheLys: 0.984 ± 0.027	3.248PheLeu: 3.248 ± 0.059	0.715PheMet: 0.715 ± 0.025	1.066PheAsn: 1.066 ± 0.029	1.439PhePro: 1.439 ± 0.035	1.119PheGln: 1.119 ± 0.027	1.993PheArg: 1.993 ± 0.037	2.139PheSer: 2.139 ± 0.042	1.726PheThr: 1.726 ± 0.038	2.558PheVal: 2.558 ± 0.044	0.497PheTrp: 0.497 ± 0.021	0.947PheTyr: 0.947 ± 0.026	0.0PheXaa: 0.0 ± 0.0
Gly	8.573GlyAla: 8.573 ± 0.105	1.092GlyCys: 1.092 ± 0.027	4.136GlyAsp: 4.136 ± 0.07	5.644GlyGlu: 5.644 ± 0.07	3.19GlyPhe: 3.19 ± 0.056	6.776GlyGly: 6.776 ± 0.087	1.965GlyHis: 1.965 ± 0.04	4.01GlyIle: 4.01 ± 0.059	3.059GlyLys: 3.059 ± 0.058	9.867GlyLeu: 9.867 ± 0.103	2.272GlyMet: 2.272 ± 0.047	2.328GlyAsn: 2.328 ± 0.058	2.75GlyPro: 2.75 ± 0.047	3.69GlyGln: 3.69 ± 0.06	5.698GlyArg: 5.698 ± 0.076	4.726GlySer: 4.726 ± 0.085	3.526GlyThr: 3.526 ± 0.1	6.319GlyVal: 6.319 ± 0.081	1.399GlyTrp: 1.399 ± 0.033	2.426GlyTyr: 2.426 ± 0.042	0.0GlyXaa: 0.0 ± 0.0
His	2.645HisAla: 2.645 ± 0.051	0.377HisCys: 0.377 ± 0.016	1.242HisAsp: 1.242 ± 0.032	1.273HisGlu: 1.273 ± 0.033	0.981HisPhe: 0.981 ± 0.032	2.2HisGly: 2.2 ± 0.042	0.622HisHis: 0.622 ± 0.027	0.94HisIle: 0.94 ± 0.029	0.59HisLys: 0.59 ± 0.021	2.65HisLeu: 2.65 ± 0.051	0.518HisMet: 0.518 ± 0.02	0.589HisAsn: 0.589 ± 0.019	1.485HisPro: 1.485 ± 0.037	0.894HisGln: 0.894 ± 0.029	1.406HisArg: 1.406 ± 0.035	1.22HisSer: 1.22 ± 0.032	0.914HisThr: 0.914 ± 0.023	1.364HisVal: 1.364 ± 0.035	0.455HisTrp: 0.455 ± 0.018	0.737HisTyr: 0.737 ± 0.026	0.0HisXaa: 0.0 ± 0.0
Ile	5.778IleAla: 5.778 ± 0.064	0.44IleCys: 0.44 ± 0.019	3.129IleAsp: 3.129 ± 0.047	3.073IleGlu: 3.073 ± 0.052	1.201IlePhe: 1.201 ± 0.032	4.183IleGly: 4.183 ± 0.062	0.981IleHis: 0.981 ± 0.028	1.62IleIle: 1.62 ± 0.043	1.353IleLys: 1.353 ± 0.036	3.99IleLeu: 3.99 ± 0.062	0.748IleMet: 0.748 ± 0.025	1.359IleAsn: 1.359 ± 0.034	2.198IlePro: 2.198 ± 0.044	1.35IleGln: 1.35 ± 0.031	3.007IleArg: 3.007 ± 0.049	2.301IleSer: 2.301 ± 0.044	2.101IleThr: 2.101 ± 0.05	3.013IleVal: 3.013 ± 0.059	0.415IleTrp: 0.415 ± 0.019	1.018IleTyr: 1.018 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	3.499LysAla: 3.499 ± 0.073	0.189LysCys: 0.189 ± 0.012	1.43LysAsp: 1.43 ± 0.041	1.419LysGlu: 1.419 ± 0.038	0.773LysPhe: 0.773 ± 0.027	2.197LysGly: 2.197 ± 0.048	0.644LysHis: 0.644 ± 0.02	1.295LysIle: 1.295 ± 0.031	1.099LysLys: 1.099 ± 0.039	3.289LysLeu: 3.289 ± 0.067	0.614LysMet: 0.614 ± 0.025	0.82LysAsn: 0.82 ± 0.025	1.75LysPro: 1.75 ± 0.039	1.287LysGln: 1.287 ± 0.035	2.053LysArg: 2.053 ± 0.044	1.562LysSer: 1.562 ± 0.038	1.452LysThr: 1.452 ± 0.035	2.445LysVal: 2.445 ± 0.052	0.309LysTrp: 0.309 ± 0.016	0.665LysTyr: 0.665 ± 0.029	0.0LysXaa: 0.0 ± 0.0
Leu	17.131LeuAla: 17.131 ± 0.151	1.344LeuCys: 1.344 ± 0.032	7.17LeuAsp: 7.17 ± 0.096	7.254LeuGlu: 7.254 ± 0.091	4.144LeuPhe: 4.144 ± 0.068	10.126LeuGly: 10.126 ± 0.115	2.652LeuHis: 2.652 ± 0.05	5.015LeuIle: 5.015 ± 0.057	3.746LeuLys: 3.746 ± 0.066	15.522LeuLeu: 15.522 ± 0.211	2.337LeuMet: 2.337 ± 0.041	3.033LeuAsn: 3.033 ± 0.043	6.808LeuPro: 6.808 ± 0.082	4.743LeuGln: 4.743 ± 0.077	8.563LeuArg: 8.563 ± 0.106	6.433LeuSer: 6.433 ± 0.084	5.3LeuThr: 5.3 ± 0.082	8.101LeuVal: 8.101 ± 0.096	1.479LeuTrp: 1.479 ± 0.037	2.616LeuTyr: 2.616 ± 0.048	0.0LeuXaa: 0.0 ± 0.0
Met	2.548MetAla: 2.548 ± 0.041	0.168MetCys: 0.168 ± 0.011	0.967MetAsp: 0.967 ± 0.027	0.94MetGlu: 0.94 ± 0.032	0.55MetPhe: 0.55 ± 0.02	1.619MetGly: 1.619 ± 0.039	0.554MetHis: 0.554 ± 0.02	0.977MetIle: 0.977 ± 0.028	0.738MetLys: 0.738 ± 0.023	2.569MetLeu: 2.569 ± 0.047	0.441MetMet: 0.441 ± 0.019	0.735MetAsn: 0.735 ± 0.024	1.285MetPro: 1.285 ± 0.031	0.98MetGln: 0.98 ± 0.031	1.496MetArg: 1.496 ± 0.034	1.643MetSer: 1.643 ± 0.033	1.281MetThr: 1.281 ± 0.035	1.406MetVal: 1.406 ± 0.034	0.149MetTrp: 0.149 ± 0.011	0.334MetTyr: 0.334 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	2.869AsnAla: 2.869 ± 0.065	0.266AsnCys: 0.266 ± 0.015	1.309AsnAsp: 1.309 ± 0.047	1.211AsnGlu: 1.211 ± 0.031	0.935AsnPhe: 0.935 ± 0.026	2.204AsnGly: 2.204 ± 0.05	0.555AsnHis: 0.555 ± 0.021	1.148AsnIle: 1.148 ± 0.031	0.726AsnLys: 0.726 ± 0.024	3.122AsnLeu: 3.122 ± 0.05	0.537AsnMet: 0.537 ± 0.021	0.727AsnAsn: 0.727 ± 0.027	1.885AsnPro: 1.885 ± 0.04	1.078AsnGln: 1.078 ± 0.028	1.793AsnArg: 1.793 ± 0.038	1.259AsnSer: 1.259 ± 0.038	1.132AsnThr: 1.132 ± 0.036	1.738AsnVal: 1.738 ± 0.043	0.383AsnTrp: 0.383 ± 0.017	0.725AsnTyr: 0.725 ± 0.025	0.0AsnXaa: 0.0 ± 0.0
Pro	6.757ProAla: 6.757 ± 0.087	0.444ProCys: 0.444 ± 0.017	2.729ProAsp: 2.729 ± 0.046	3.371ProGlu: 3.371 ± 0.051	1.761ProPhe: 1.761 ± 0.039	4.274ProGly: 4.274 ± 0.054	1.092ProHis: 1.092 ± 0.028	1.778ProIle: 1.778 ± 0.034	1.229ProLys: 1.229 ± 0.032	6.37ProLeu: 6.37 ± 0.085	1.024ProMet: 1.024 ± 0.026	1.14ProAsn: 1.14 ± 0.029	2.216ProPro: 2.216 ± 0.059	2.462ProGln: 2.462 ± 0.044	3.041ProArg: 3.041 ± 0.057	2.415ProSer: 2.415 ± 0.049	2.033ProThr: 2.033 ± 0.041	3.833ProVal: 3.833 ± 0.069	0.798ProTrp: 0.798 ± 0.025	1.119ProTyr: 1.119 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	5.893GlnAla: 5.893 ± 0.082	0.346GlnCys: 0.346 ± 0.016	1.721GlnAsp: 1.721 ± 0.034	1.949GlnGlu: 1.949 ± 0.041	1.261GlnPhe: 1.261 ± 0.031	3.306GlnGly: 3.306 ± 0.045	1.087GlnHis: 1.087 ± 0.031	1.812GlnIle: 1.812 ± 0.038	1.027GlnLys: 1.027 ± 0.027	5.818GlnLeu: 5.818 ± 0.09	0.94GlnMet: 0.94 ± 0.028	0.865GlnAsn: 0.865 ± 0.029	2.624GlnPro: 2.624 ± 0.046	2.572GlnGln: 2.572 ± 0.066	3.945GlnArg: 3.945 ± 0.067	1.891GlnSer: 1.891 ± 0.048	1.736GlnThr: 1.736 ± 0.038	3.276GlnVal: 3.276 ± 0.051	0.608GlnTrp: 0.608 ± 0.02	0.915GlnTyr: 0.915 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	7.45ArgAla: 7.45 ± 0.1	0.699ArgCys: 0.699 ± 0.021	3.713ArgAsp: 3.713 ± 0.059	5.039ArgGlu: 5.039 ± 0.074	2.884ArgPhe: 2.884 ± 0.05	4.705ArgGly: 4.705 ± 0.067	2.065ArgHis: 2.065 ± 0.043	3.511ArgIle: 3.511 ± 0.051	1.935ArgLys: 1.935 ± 0.036	9.972ArgLeu: 9.972 ± 0.109	1.592ArgMet: 1.592 ± 0.033	1.772ArgAsn: 1.772 ± 0.037	3.163ArgPro: 3.163 ± 0.053	3.915ArgGln: 3.915 ± 0.071	5.361ArgArg: 5.361 ± 0.079	3.498ArgSer: 3.498 ± 0.058	2.646ArgThr: 2.646 ± 0.042	4.841ArgVal: 4.841 ± 0.07	1.105ArgTrp: 1.105 ± 0.032	2.067ArgTyr: 2.067 ± 0.04	0.0ArgXaa: 0.0 ± 0.0
Ser	6.152SerAla: 6.152 ± 0.077	0.528SerCys: 0.528 ± 0.02	2.607SerAsp: 2.607 ± 0.066	2.909SerGlu: 2.909 ± 0.053	2.01SerPhe: 2.01 ± 0.048	5.211SerGly: 5.211 ± 0.075	1.293SerHis: 1.293 ± 0.028	2.205SerIle: 2.205 ± 0.043	1.381SerLys: 1.381 ± 0.031	6.733SerLeu: 6.733 ± 0.075	1.127SerMet: 1.127 ± 0.033	1.319SerAsn: 1.319 ± 0.032	2.556SerPro: 2.556 ± 0.046	1.993SerGln: 1.993 ± 0.043	3.692SerArg: 3.692 ± 0.057	2.913SerSer: 2.913 ± 0.053	2.365SerThr: 2.365 ± 0.049	3.596SerVal: 3.596 ± 0.092	0.793SerTrp: 0.793 ± 0.024	1.346SerTyr: 1.346 ± 0.035	0.0SerXaa: 0.0 ± 0.0
Thr	4.856ThrAla: 4.856 ± 0.067	0.5ThrCys: 0.5 ± 0.021	2.043ThrAsp: 2.043 ± 0.051	2.126ThrGlu: 2.126 ± 0.043	1.584ThrPhe: 1.584 ± 0.037	4.001ThrGly: 4.001 ± 0.105	0.917ThrHis: 0.917 ± 0.028	1.806ThrIle: 1.806 ± 0.066	0.831ThrLys: 0.831 ± 0.03	6.116ThrLeu: 6.116 ± 0.1	0.691ThrMet: 0.691 ± 0.025	1.018ThrAsn: 1.018 ± 0.04	2.998ThrPro: 2.998 ± 0.071	1.473ThrGln: 1.473 ± 0.037	2.957ThrArg: 2.957 ± 0.05	2.276ThrSer: 2.276 ± 0.062	2.026ThrThr: 2.026 ± 0.049	3.289ThrVal: 3.289 ± 0.079	0.62ThrTrp: 0.62 ± 0.022	0.993ThrTyr: 0.993 ± 0.034	0.0ThrXaa: 0.0 ± 0.0
Val	8.429ValAla: 8.429 ± 0.09	0.774ValCys: 0.774 ± 0.026	3.915ValAsp: 3.915 ± 0.052	4.733ValGlu: 4.733 ± 0.058	2.404ValPhe: 2.404 ± 0.044	5.391ValGly: 5.391 ± 0.073	1.459ValHis: 1.459 ± 0.037	3.412ValIle: 3.412 ± 0.064	2.092ValLys: 2.092 ± 0.049	8.308ValLeu: 8.308 ± 0.092	1.523ValMet: 1.523 ± 0.034	2.004ValAsn: 2.004 ± 0.05	3.302ValPro: 3.302 ± 0.052	2.568ValGln: 2.568 ± 0.047	4.685ValArg: 4.685 ± 0.061	3.851ValSer: 3.851 ± 0.052	3.418ValThr: 3.418 ± 0.158	5.422ValVal: 5.422 ± 0.089	0.81ValTrp: 0.81 ± 0.027	1.551ValTyr: 1.551 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	1.218TrpAla: 1.218 ± 0.036	0.188TrpCys: 0.188 ± 0.012	0.601TrpAsp: 0.601 ± 0.021	0.593TrpGlu: 0.593 ± 0.023	0.484TrpPhe: 0.484 ± 0.019	0.933TrpGly: 0.933 ± 0.03	0.396TrpHis: 0.396 ± 0.02	0.545TrpIle: 0.545 ± 0.021	0.383TrpLys: 0.383 ± 0.017	2.41TrpLeu: 2.41 ± 0.048	0.326TrpMet: 0.326 ± 0.017	0.396TrpAsn: 0.396 ± 0.018	0.708TrpPro: 0.708 ± 0.024	1.019TrpGln: 1.019 ± 0.028	1.224TrpArg: 1.224 ± 0.04	0.761TrpSer: 0.761 ± 0.025	0.567TrpThr: 0.567 ± 0.02	0.876TrpVal: 0.876 ± 0.025	0.261TrpTrp: 0.261 ± 0.015	0.349TrpTyr: 0.349 ± 0.016	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.629TyrAla: 2.629 ± 0.048	0.303TyrCys: 0.303 ± 0.013	1.262TyrAsp: 1.262 ± 0.032	1.115TyrGlu: 1.115 ± 0.032	0.9TyrPhe: 0.9 ± 0.029	2.102TyrGly: 2.102 ± 0.035	0.578TyrHis: 0.578 ± 0.019	0.852TyrIle: 0.852 ± 0.025	0.646TyrLys: 0.646 ± 0.025	2.953TyrLeu: 2.953 ± 0.047	0.428TyrMet: 0.428 ± 0.019	0.649TyrAsn: 0.649 ± 0.044	1.273TyrPro: 1.273 ± 0.032	1.172TyrGln: 1.172 ± 0.034	2.187TyrArg: 2.187 ± 0.044	1.364TyrSer: 1.364 ± 0.035	1.049TyrThr: 1.049 ± 0.031	1.568TyrVal: 1.568 ± 0.039	0.376TyrTrp: 0.376 ± 0.018	0.668TyrTyr: 0.668 ± 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 4103 proteins (1362556 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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