Amino acid dipepetide frequency for Pseudomonas rhizosphaerae

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	13.378AlaAla: 13.378 ± 0.145	1.233AlaCys: 1.233 ± 0.038	6.207AlaAsp: 6.207 ± 0.084	6.465AlaGlu: 6.465 ± 0.086	3.8AlaPhe: 3.8 ± 0.056	9.164AlaGly: 9.164 ± 0.113	2.38AlaHis: 2.38 ± 0.047	5.244AlaIle: 5.244 ± 0.068	3.647AlaLys: 3.647 ± 0.071	13.906AlaLeu: 13.906 ± 0.129	3.003AlaMet: 3.003 ± 0.053	2.981AlaAsn: 2.981 ± 0.062	4.873AlaPro: 4.873 ± 0.083	5.917AlaGln: 5.917 ± 0.077	7.304AlaArg: 7.304 ± 0.085	6.411AlaSer: 6.411 ± 0.081	5.208AlaThr: 5.208 ± 0.088	8.046AlaVal: 8.046 ± 0.09	1.587AlaTrp: 1.587 ± 0.036	2.564AlaTyr: 2.564 ± 0.042	0.0AlaXaa: 0.0 ± 0.0
Cys	1.128CysAla: 1.128 ± 0.031	0.108CysCys: 0.108 ± 0.009	0.544CysAsp: 0.544 ± 0.021	0.568CysGlu: 0.568 ± 0.024	0.33CysPhe: 0.33 ± 0.015	0.939CysGly: 0.939 ± 0.03	0.248CysHis: 0.248 ± 0.015	0.446CysIle: 0.446 ± 0.018	0.26CysLys: 0.26 ± 0.015	1.076CysLeu: 1.076 ± 0.035	0.192CysMet: 0.192 ± 0.012	0.26CysAsn: 0.26 ± 0.014	0.436CysPro: 0.436 ± 0.021	0.367CysGln: 0.367 ± 0.019	0.585CysArg: 0.585 ± 0.023	0.572CysSer: 0.572 ± 0.023	0.47CysThr: 0.47 ± 0.019	0.679CysVal: 0.679 ± 0.023	0.155CysTrp: 0.155 ± 0.011	0.24CysTyr: 0.24 ± 0.014	0.0CysXaa: 0.0 ± 0.0
Asp	5.984AspAla: 5.984 ± 0.079	0.523AspCys: 0.523 ± 0.021	2.924AspAsp: 2.924 ± 0.06	3.42AspGlu: 3.42 ± 0.061	2.116AspPhe: 2.116 ± 0.046	4.461AspGly: 4.461 ± 0.082	1.135AspHis: 1.135 ± 0.034	2.82AspIle: 2.82 ± 0.052	1.961AspLys: 1.961 ± 0.047	5.888AspLeu: 5.888 ± 0.077	1.262AspMet: 1.262 ± 0.029	1.625AspAsn: 1.625 ± 0.044	2.839AspPro: 2.839 ± 0.052	2.131AspGln: 2.131 ± 0.038	3.247AspArg: 3.247 ± 0.059	2.891AspSer: 2.891 ± 0.051	2.691AspThr: 2.691 ± 0.053	3.834AspVal: 3.834 ± 0.055	0.912AspTrp: 0.912 ± 0.028	1.629AspTyr: 1.629 ± 0.039	0.0AspXaa: 0.0 ± 0.0
Glu	6.108GluAla: 6.108 ± 0.072	0.399GluCys: 0.399 ± 0.019	2.434GluAsp: 2.434 ± 0.051	2.875GluGlu: 2.875 ± 0.066	1.753GluPhe: 1.753 ± 0.046	3.804GluGly: 3.804 ± 0.062	1.785GluHis: 1.785 ± 0.04	2.655GluIle: 2.655 ± 0.052	1.964GluLys: 1.964 ± 0.043	6.541GluLeu: 6.541 ± 0.09	1.252GluMet: 1.252 ± 0.03	1.468GluAsn: 1.468 ± 0.031	2.51GluPro: 2.51 ± 0.048	3.664GluGln: 3.664 ± 0.063	4.653GluArg: 4.653 ± 0.061	2.473GluSer: 2.473 ± 0.048	2.52GluThr: 2.52 ± 0.039	4.173GluVal: 4.173 ± 0.059	0.67GluTrp: 0.67 ± 0.023	1.202GluTyr: 1.202 ± 0.034	0.0GluXaa: 0.0 ± 0.0
Phe	4.105PheAla: 4.105 ± 0.063	0.436PheCys: 0.436 ± 0.019	2.52PheAsp: 2.52 ± 0.047	2.04PheGlu: 2.04 ± 0.043	1.429PhePhe: 1.429 ± 0.039	3.149PheGly: 3.149 ± 0.057	0.754PheHis: 0.754 ± 0.023	1.836PheIle: 1.836 ± 0.042	1.306PheLys: 1.306 ± 0.037	3.169PheLeu: 3.169 ± 0.061	0.859PheMet: 0.859 ± 0.028	1.262PheAsn: 1.262 ± 0.032	1.402PhePro: 1.402 ± 0.034	1.212PheGln: 1.212 ± 0.03	1.721PheArg: 1.721 ± 0.038	2.473PheSer: 2.473 ± 0.043	1.993PheThr: 1.993 ± 0.039	2.619PheVal: 2.619 ± 0.047	0.508PheTrp: 0.508 ± 0.023	1.008PheTyr: 1.008 ± 0.032	0.0PheXaa: 0.0 ± 0.0
Gly	7.661GlyAla: 7.661 ± 0.103	0.912GlyCys: 0.912 ± 0.03	3.987GlyAsp: 3.987 ± 0.061	4.677GlyGlu: 4.677 ± 0.068	3.302GlyPhe: 3.302 ± 0.053	6.018GlyGly: 6.018 ± 0.094	1.91GlyHis: 1.91 ± 0.041	4.181GlyIle: 4.181 ± 0.059	3.348GlyLys: 3.348 ± 0.061	9.326GlyLeu: 9.326 ± 0.087	2.283GlyMet: 2.283 ± 0.045	2.424GlyAsn: 2.424 ± 0.073	2.734GlyPro: 2.734 ± 0.044	3.774GlyGln: 3.774 ± 0.069	4.879GlyArg: 4.879 ± 0.07	4.703GlySer: 4.703 ± 0.064	4.064GlyThr: 4.064 ± 0.109	6.231GlyVal: 6.231 ± 0.071	1.331GlyTrp: 1.331 ± 0.032	2.49GlyTyr: 2.49 ± 0.042	0.0GlyXaa: 0.0 ± 0.0
His	2.407HisAla: 2.407 ± 0.048	0.296HisCys: 0.296 ± 0.015	1.297HisAsp: 1.297 ± 0.033	1.269HisGlu: 1.269 ± 0.032	0.955HisPhe: 0.955 ± 0.027	2.05HisGly: 2.05 ± 0.047	0.584HisHis: 0.584 ± 0.023	0.962HisIle: 0.962 ± 0.027	0.659HisLys: 0.659 ± 0.022	2.58HisLeu: 2.58 ± 0.055	0.529HisMet: 0.529 ± 0.019	0.651HisAsn: 0.651 ± 0.021	1.424HisPro: 1.424 ± 0.036	0.924HisGln: 0.924 ± 0.029	1.36HisArg: 1.36 ± 0.035	1.289HisSer: 1.289 ± 0.029	1.043HisThr: 1.043 ± 0.033	1.493HisVal: 1.493 ± 0.04	0.45HisTrp: 0.45 ± 0.02	0.717HisTyr: 0.717 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	6.115IleAla: 6.115 ± 0.086	0.489IleCys: 0.489 ± 0.02	3.447IleAsp: 3.447 ± 0.05	3.287IleGlu: 3.287 ± 0.057	1.441IlePhe: 1.441 ± 0.035	4.564IleGly: 4.564 ± 0.075	0.936IleHis: 0.936 ± 0.027	2.104IleIle: 2.104 ± 0.044	1.772IleLys: 1.772 ± 0.045	4.111IleLeu: 4.111 ± 0.064	0.869IleMet: 0.869 ± 0.027	1.676IleAsn: 1.676 ± 0.037	2.166IlePro: 2.166 ± 0.045	1.62IleGln: 1.62 ± 0.035	2.666IleArg: 2.666 ± 0.045	2.863IleSer: 2.863 ± 0.043	2.641IleThr: 2.641 ± 0.047	3.445IleVal: 3.445 ± 0.051	0.481IleTrp: 0.481 ± 0.016	1.119IleTyr: 1.119 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	4.067LysAla: 4.067 ± 0.072	0.18LysCys: 0.18 ± 0.012	1.696LysAsp: 1.696 ± 0.039	1.556LysGlu: 1.556 ± 0.043	0.869LysPhe: 0.869 ± 0.027	2.633LysGly: 2.633 ± 0.056	0.779LysHis: 0.779 ± 0.026	1.512LysIle: 1.512 ± 0.039	1.287LysLys: 1.287 ± 0.039	3.641LysLeu: 3.641 ± 0.063	0.713LysMet: 0.713 ± 0.023	0.987LysAsn: 0.987 ± 0.03	2.046LysPro: 2.046 ± 0.043	1.519LysGln: 1.519 ± 0.034	2.32LysArg: 2.32 ± 0.052	1.82LysSer: 1.82 ± 0.046	1.837LysThr: 1.837 ± 0.041	2.897LysVal: 2.897 ± 0.052	0.382LysTrp: 0.382 ± 0.018	0.658LysTyr: 0.658 ± 0.025	0.0LysXaa: 0.0 ± 0.0
Leu	14.433LeuAla: 14.433 ± 0.144	1.202LeuCys: 1.202 ± 0.032	6.822LeuAsp: 6.822 ± 0.078	6.182LeuGlu: 6.182 ± 0.073	4.004LeuPhe: 4.004 ± 0.076	9.237LeuGly: 9.237 ± 0.104	2.568LeuHis: 2.568 ± 0.049	5.465LeuIle: 5.465 ± 0.077	4.015LeuLys: 4.015 ± 0.07	12.962LeuLeu: 12.962 ± 0.148	2.657LeuMet: 2.657 ± 0.048	3.571LeuAsn: 3.571 ± 0.058	6.213LeuPro: 6.213 ± 0.07	4.904LeuGln: 4.904 ± 0.069	7.229LeuArg: 7.229 ± 0.09	7.092LeuSer: 7.092 ± 0.078	5.681LeuThr: 5.681 ± 0.082	7.985LeuVal: 7.985 ± 0.093	1.318LeuTrp: 1.318 ± 0.036	2.426LeuTyr: 2.426 ± 0.05	0.0LeuXaa: 0.0 ± 0.0
Met	2.738MetAla: 2.738 ± 0.055	0.165MetCys: 0.165 ± 0.012	1.066MetAsp: 1.066 ± 0.027	0.96MetGlu: 0.96 ± 0.027	0.722MetPhe: 0.722 ± 0.024	1.785MetGly: 1.785 ± 0.037	0.493MetHis: 0.493 ± 0.019	1.225MetIle: 1.225 ± 0.034	0.894MetLys: 0.894 ± 0.028	2.756MetLeu: 2.756 ± 0.048	0.536MetMet: 0.536 ± 0.022	0.872MetAsn: 0.872 ± 0.025	1.369MetPro: 1.369 ± 0.037	1.071MetGln: 1.071 ± 0.028	1.575MetArg: 1.575 ± 0.033	1.761MetSer: 1.761 ± 0.033	1.484MetThr: 1.484 ± 0.038	1.629MetVal: 1.629 ± 0.036	0.192MetTrp: 0.192 ± 0.013	0.387MetTyr: 0.387 ± 0.017	0.0MetXaa: 0.0 ± 0.0
Asn	3.249AsnAla: 3.249 ± 0.059	0.281AsnCys: 0.281 ± 0.015	1.569AsnAsp: 1.569 ± 0.044	1.362AsnGlu: 1.362 ± 0.033	1.056AsnPhe: 1.056 ± 0.027	2.606AsnGly: 2.606 ± 0.088	0.619AsnHis: 0.619 ± 0.024	1.392AsnIle: 1.392 ± 0.036	0.919AsnLys: 0.919 ± 0.026	3.43AsnLeu: 3.43 ± 0.056	0.622AsnMet: 0.622 ± 0.021	0.869AsnAsn: 0.869 ± 0.025	1.918AsnPro: 1.918 ± 0.042	1.216AsnGln: 1.216 ± 0.033	1.833AsnArg: 1.833 ± 0.04	1.512AsnSer: 1.512 ± 0.037	1.519AsnThr: 1.519 ± 0.035	2.153AsnVal: 2.153 ± 0.061	0.437AsnTrp: 0.437 ± 0.016	0.753AsnTyr: 0.753 ± 0.024	0.0AsnXaa: 0.0 ± 0.0
Pro	5.811ProAla: 5.811 ± 0.076	0.363ProCys: 0.363 ± 0.017	2.837ProAsp: 2.837 ± 0.054	3.034ProGlu: 3.034 ± 0.047	1.829ProPhe: 1.829 ± 0.037	4.063ProGly: 4.063 ± 0.059	1.073ProHis: 1.073 ± 0.033	2.079ProIle: 2.079 ± 0.037	1.509ProLys: 1.509 ± 0.032	5.429ProLeu: 5.429 ± 0.071	1.213ProMet: 1.213 ± 0.031	1.329ProAsn: 1.329 ± 0.035	1.859ProPro: 1.859 ± 0.054	2.292ProGln: 2.292 ± 0.045	2.592ProArg: 2.592 ± 0.053	2.709ProSer: 2.709 ± 0.04	2.437ProThr: 2.437 ± 0.047	4.002ProVal: 4.002 ± 0.062	0.731ProTrp: 0.731 ± 0.025	1.211ProTyr: 1.211 ± 0.03	0.0ProXaa: 0.0 ± 0.0
Gln	6.465GlnAla: 6.465 ± 0.081	0.342GlnCys: 0.342 ± 0.017	1.801GlnAsp: 1.801 ± 0.042	1.856GlnGlu: 1.856 ± 0.043	1.325GlnPhe: 1.325 ± 0.034	3.685GlnGly: 3.685 ± 0.057	1.06GlnHis: 1.06 ± 0.026	2.096GlnIle: 2.096 ± 0.043	1.209GlnLys: 1.209 ± 0.034	5.546GlnLeu: 5.546 ± 0.077	1.116GlnMet: 1.116 ± 0.028	1.095GlnAsn: 1.095 ± 0.031	2.499GlnPro: 2.499 ± 0.05	2.656GlnGln: 2.656 ± 0.063	3.698GlnArg: 3.698 ± 0.059	2.27GlnSer: 2.27 ± 0.049	2.195GlnThr: 2.195 ± 0.042	3.766GlnVal: 3.766 ± 0.055	0.775GlnTrp: 0.775 ± 0.025	1.027GlnTyr: 1.027 ± 0.035	0.0GlnXaa: 0.0 ± 0.0
Arg	6.045ArgAla: 6.045 ± 0.069	0.589ArgCys: 0.589 ± 0.024	3.442ArgAsp: 3.442 ± 0.056	4.029ArgGlu: 4.029 ± 0.065	2.699ArgPhe: 2.699 ± 0.047	4.097ArgGly: 4.097 ± 0.065	1.635ArgHis: 1.635 ± 0.042	3.393ArgIle: 3.393 ± 0.051	2.063ArgLys: 2.063 ± 0.04	8.258ArgLeu: 8.258 ± 0.107	1.669ArgMet: 1.669 ± 0.036	1.932ArgAsn: 1.932 ± 0.035	2.768ArgPro: 2.768 ± 0.045	3.369ArgGln: 3.369 ± 0.048	4.294ArgArg: 4.294 ± 0.071	3.426ArgSer: 3.426 ± 0.062	2.84ArgThr: 2.84 ± 0.049	4.447ArgVal: 4.447 ± 0.053	1.035ArgTrp: 1.035 ± 0.031	1.969ArgTyr: 1.969 ± 0.043	0.0ArgXaa: 0.0 ± 0.0
Ser	6.228SerAla: 6.228 ± 0.076	0.455SerCys: 0.455 ± 0.019	2.927SerAsp: 2.927 ± 0.053	2.837SerGlu: 2.837 ± 0.053	2.2SerPhe: 2.2 ± 0.044	5.186SerGly: 5.186 ± 0.076	1.318SerHis: 1.318 ± 0.032	2.79SerIle: 2.79 ± 0.054	1.812SerLys: 1.812 ± 0.04	6.805SerLeu: 6.805 ± 0.078	1.419SerMet: 1.419 ± 0.035	1.742SerAsn: 1.742 ± 0.036	2.614SerPro: 2.614 ± 0.048	2.342SerGln: 2.342 ± 0.049	3.497SerArg: 3.497 ± 0.048	3.295SerSer: 3.295 ± 0.058	3.04SerThr: 3.04 ± 0.052	4.224SerVal: 4.224 ± 0.068	0.779SerTrp: 0.779 ± 0.028	1.467SerTyr: 1.467 ± 0.038	0.0SerXaa: 0.0 ± 0.0
Thr	5.474ThrAla: 5.474 ± 0.099	0.467ThrCys: 0.467 ± 0.02	2.631ThrAsp: 2.631 ± 0.059	2.32ThrGlu: 2.32 ± 0.043	1.836ThrPhe: 1.836 ± 0.043	4.319ThrGly: 4.319 ± 0.077	1.159ThrHis: 1.159 ± 0.034	1.94ThrIle: 1.94 ± 0.042	1.122ThrLys: 1.122 ± 0.032	6.906ThrLeu: 6.906 ± 0.095	0.839ThrMet: 0.839 ± 0.026	1.195ThrAsn: 1.195 ± 0.037	3.203ThrPro: 3.203 ± 0.063	2.303ThrGln: 2.303 ± 0.046	3.123ThrArg: 3.123 ± 0.052	2.728ThrSer: 2.728 ± 0.048	2.6ThrThr: 2.6 ± 0.054	4.052ThrVal: 4.052 ± 0.111	0.692ThrTrp: 0.692 ± 0.022	1.243ThrTyr: 1.243 ± 0.029	0.0ThrXaa: 0.0 ± 0.0
Val	8.177ValAla: 8.177 ± 0.092	0.747ValCys: 0.747 ± 0.028	4.174ValAsp: 4.174 ± 0.059	4.419ValGlu: 4.419 ± 0.058	2.66ValPhe: 2.66 ± 0.053	5.537ValGly: 5.537 ± 0.081	1.527ValHis: 1.527 ± 0.034	4.041ValIle: 4.041 ± 0.063	2.463ValLys: 2.463 ± 0.05	8.577ValLeu: 8.577 ± 0.09	1.863ValMet: 1.863 ± 0.043	2.203ValAsn: 2.203 ± 0.047	3.514ValPro: 3.514 ± 0.052	3.126ValGln: 3.126 ± 0.052	4.447ValArg: 4.447 ± 0.062	4.437ValSer: 4.437 ± 0.077	3.99ValThr: 3.99 ± 0.1	5.758ValVal: 5.758 ± 0.086	0.86ValTrp: 0.86 ± 0.027	1.598ValTyr: 1.598 ± 0.036	0.0ValXaa: 0.0 ± 0.0
Trp	1.216TrpAla: 1.216 ± 0.031	0.147TrpCys: 0.147 ± 0.01	0.616TrpAsp: 0.616 ± 0.025	0.547TrpGlu: 0.547 ± 0.022	0.527TrpPhe: 0.527 ± 0.021	0.885TrpGly: 0.885 ± 0.031	0.412TrpHis: 0.412 ± 0.018	0.634TrpIle: 0.634 ± 0.023	0.427TrpLys: 0.427 ± 0.019	2.116TrpLeu: 2.116 ± 0.049	0.348TrpMet: 0.348 ± 0.018	0.479TrpAsn: 0.479 ± 0.02	0.691TrpPro: 0.691 ± 0.022	0.885TrpGln: 0.885 ± 0.032	1.049TrpArg: 1.049 ± 0.03	0.782TrpSer: 0.782 ± 0.023	0.612TrpThr: 0.612 ± 0.021	0.989TrpVal: 0.989 ± 0.027	0.222TrpTrp: 0.222 ± 0.014	0.322TrpTyr: 0.322 ± 0.017	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.53TyrAla: 2.53 ± 0.045	0.271TyrCys: 0.271 ± 0.014	1.352TyrAsp: 1.352 ± 0.037	1.199TyrGlu: 1.199 ± 0.032	0.943TyrPhe: 0.943 ± 0.03	2.051TyrGly: 2.051 ± 0.046	0.565TyrHis: 0.565 ± 0.021	0.996TyrIle: 0.996 ± 0.028	0.765TyrLys: 0.765 ± 0.026	2.945TyrLeu: 2.945 ± 0.054	0.439TyrMet: 0.439 ± 0.02	0.695TyrAsn: 0.695 ± 0.024	1.324TyrPro: 1.324 ± 0.034	1.186TyrGln: 1.186 ± 0.032	1.927TyrArg: 1.927 ± 0.041	1.469TyrSer: 1.469 ± 0.04	1.285TyrThr: 1.285 ± 0.031	1.694TyrVal: 1.694 ± 0.033	0.392TyrTrp: 0.392 ± 0.016	0.677TyrTyr: 0.677 ± 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 3893 proteins (1299839 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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