Amino acid dipepetide frequency for Pseudomonas pharmacofabricae

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	14.128AlaAla: 14.128 ± 0.162	1.545AlaCys: 1.545 ± 0.044	6.035AlaAsp: 6.035 ± 0.087	8.443AlaGlu: 8.443 ± 0.113	3.554AlaPhe: 3.554 ± 0.066	9.619AlaGly: 9.619 ± 0.106	2.325AlaHis: 2.325 ± 0.05	4.913AlaIle: 4.913 ± 0.078	3.276AlaLys: 3.276 ± 0.078	15.386AlaLeu: 15.386 ± 0.156	2.837AlaMet: 2.837 ± 0.052	2.811AlaAsn: 2.811 ± 0.054	4.671AlaPro: 4.671 ± 0.084	6.33AlaGln: 6.33 ± 0.109	8.385AlaArg: 8.385 ± 0.108	6.594AlaSer: 6.594 ± 0.085	4.207AlaThr: 4.207 ± 0.074	7.418AlaVal: 7.418 ± 0.096	1.863AlaTrp: 1.863 ± 0.046	2.522AlaTyr: 2.522 ± 0.047	0.0AlaXaa: 0.0 ± 0.0
Cys	1.32CysAla: 1.32 ± 0.043	0.162CysCys: 0.162 ± 0.013	0.506CysAsp: 0.506 ± 0.024	0.582CysGlu: 0.582 ± 0.026	0.365CysPhe: 0.365 ± 0.021	1.008CysGly: 1.008 ± 0.036	0.309CysHis: 0.309 ± 0.019	0.463CysIle: 0.463 ± 0.022	0.293CysLys: 0.293 ± 0.016	1.459CysLeu: 1.459 ± 0.043	0.201CysMet: 0.201 ± 0.014	0.298CysAsn: 0.298 ± 0.017	0.58CysPro: 0.58 ± 0.025	0.652CysGln: 0.652 ± 0.03	0.75CysArg: 0.75 ± 0.027	0.693CysSer: 0.693 ± 0.029	0.434CysThr: 0.434 ± 0.024	0.708CysVal: 0.708 ± 0.03	0.179CysTrp: 0.179 ± 0.014	0.268CysTyr: 0.268 ± 0.016	0.0CysXaa: 0.0 ± 0.0
Asp	5.385AspAla: 5.385 ± 0.076	0.659AspCys: 0.659 ± 0.029	2.671AspAsp: 2.671 ± 0.059	3.649AspGlu: 3.649 ± 0.07	1.909AspPhe: 1.909 ± 0.043	4.106AspGly: 4.106 ± 0.066	0.986AspHis: 0.986 ± 0.033	2.479AspIle: 2.479 ± 0.057	1.774AspLys: 1.774 ± 0.055	5.846AspLeu: 5.846 ± 0.085	1.23AspMet: 1.23 ± 0.036	1.649AspAsn: 1.649 ± 0.049	2.571AspPro: 2.571 ± 0.05	2.074AspGln: 2.074 ± 0.044	2.731AspArg: 2.731 ± 0.053	3.234AspSer: 3.234 ± 0.061	1.982AspThr: 1.982 ± 0.045	3.083AspVal: 3.083 ± 0.064	1.046AspTrp: 1.046 ± 0.035	1.731AspTyr: 1.731 ± 0.04	0.0AspXaa: 0.0 ± 0.0
Glu	7.108GluAla: 7.108 ± 0.112	0.444GluCys: 0.444 ± 0.022	2.45GluAsp: 2.45 ± 0.052	3.531GluGlu: 3.531 ± 0.076	1.758GluPhe: 1.758 ± 0.048	3.813GluGly: 3.813 ± 0.074	1.62GluHis: 1.62 ± 0.039	2.693GluIle: 2.693 ± 0.055	1.974GluLys: 1.974 ± 0.051	7.845GluLeu: 7.845 ± 0.098	1.291GluMet: 1.291 ± 0.038	1.345GluAsn: 1.345 ± 0.039	2.385GluPro: 2.385 ± 0.061	5.29GluGln: 5.29 ± 0.086	5.152GluArg: 5.152 ± 0.089	2.48GluSer: 2.48 ± 0.059	2.183GluThr: 2.183 ± 0.053	4.223GluVal: 4.223 ± 0.067	0.717GluTrp: 0.717 ± 0.024	1.19GluTyr: 1.19 ± 0.034	0.0GluXaa: 0.0 ± 0.0
Phe	4.1PheAla: 4.1 ± 0.073	0.47PheCys: 0.47 ± 0.023	2.177PheAsp: 2.177 ± 0.051	1.877PheGlu: 1.877 ± 0.043	1.299PhePhe: 1.299 ± 0.043	2.75PheGly: 2.75 ± 0.051	0.664PheHis: 0.664 ± 0.027	1.592PheIle: 1.592 ± 0.041	1.051PheLys: 1.051 ± 0.036	3.174PheLeu: 3.174 ± 0.063	0.731PheMet: 0.731 ± 0.03	1.206PheAsn: 1.206 ± 0.036	1.284PhePro: 1.284 ± 0.037	1.254PheGln: 1.254 ± 0.037	1.853PheArg: 1.853 ± 0.044	2.399PheSer: 2.399 ± 0.058	1.652PheThr: 1.652 ± 0.042	2.263PheVal: 2.263 ± 0.05	0.459PheTrp: 0.459 ± 0.023	0.947PheTyr: 0.947 ± 0.035	0.0PheXaa: 0.0 ± 0.0
Gly	6.914GlyAla: 6.914 ± 0.092	1.036GlyCys: 1.036 ± 0.033	3.645GlyAsp: 3.645 ± 0.064	5.15GlyGlu: 5.15 ± 0.081	2.922GlyPhe: 2.922 ± 0.058	5.528GlyGly: 5.528 ± 0.097	1.864GlyHis: 1.864 ± 0.048	3.778GlyIle: 3.778 ± 0.065	3.136GlyLys: 3.136 ± 0.063	9.863GlyLeu: 9.863 ± 0.117	2.136GlyMet: 2.136 ± 0.047	2.283GlyAsn: 2.283 ± 0.058	2.331GlyPro: 2.331 ± 0.053	4.445GlyGln: 4.445 ± 0.084	5.099GlyArg: 5.099 ± 0.074	4.445GlySer: 4.445 ± 0.079	3.104GlyThr: 3.104 ± 0.061	5.431GlyVal: 5.431 ± 0.087	1.318GlyTrp: 1.318 ± 0.039	2.372GlyTyr: 2.372 ± 0.047	0.0GlyXaa: 0.0 ± 0.0
His	2.541HisAla: 2.541 ± 0.062	0.373HisCys: 0.373 ± 0.018	1.141HisAsp: 1.141 ± 0.031	1.194HisGlu: 1.194 ± 0.038	0.947HisPhe: 0.947 ± 0.031	2.018HisGly: 2.018 ± 0.053	0.548HisHis: 0.548 ± 0.023	0.999HisIle: 0.999 ± 0.036	0.665HisLys: 0.665 ± 0.027	2.732HisLeu: 2.732 ± 0.056	0.515HisMet: 0.515 ± 0.022	0.685HisAsn: 0.685 ± 0.03	1.368HisPro: 1.368 ± 0.04	1.011HisGln: 1.011 ± 0.036	1.306HisArg: 1.306 ± 0.041	1.488HisSer: 1.488 ± 0.042	0.948HisThr: 0.948 ± 0.03	1.286HisVal: 1.286 ± 0.036	0.537HisTrp: 0.537 ± 0.026	0.817HisTyr: 0.817 ± 0.032	0.0HisXaa: 0.0 ± 0.0
Ile	5.373IleAla: 5.373 ± 0.08	0.433IleCys: 0.433 ± 0.021	3.007IleAsp: 3.007 ± 0.059	3.27IleGlu: 3.27 ± 0.063	1.178IlePhe: 1.178 ± 0.038	3.835IleGly: 3.835 ± 0.063	0.93IleHis: 0.93 ± 0.032	1.875IleIle: 1.875 ± 0.053	1.501IleLys: 1.501 ± 0.05	3.994IleLeu: 3.994 ± 0.066	0.736IleMet: 0.736 ± 0.03	1.556IleAsn: 1.556 ± 0.047	1.997IlePro: 1.997 ± 0.045	1.596IleGln: 1.596 ± 0.04	2.909IleArg: 2.909 ± 0.05	2.77IleSer: 2.77 ± 0.055	2.141IleThr: 2.141 ± 0.053	2.689IleVal: 2.689 ± 0.064	0.402IleTrp: 0.402 ± 0.021	0.996IleTyr: 0.996 ± 0.032	0.0IleXaa: 0.0 ± 0.0
Lys	3.656LysAla: 3.656 ± 0.087	0.196LysCys: 0.196 ± 0.014	1.426LysAsp: 1.426 ± 0.043	1.461LysGlu: 1.461 ± 0.044	0.745LysPhe: 0.745 ± 0.03	2.253LysGly: 2.253 ± 0.057	0.657LysHis: 0.657 ± 0.026	1.344LysIle: 1.344 ± 0.044	1.169LysLys: 1.169 ± 0.052	3.34LysLeu: 3.34 ± 0.07	0.591LysMet: 0.591 ± 0.025	0.884LysAsn: 0.884 ± 0.034	1.821LysPro: 1.821 ± 0.045	1.531LysGln: 1.531 ± 0.042	2.291LysArg: 2.291 ± 0.053	1.543LysSer: 1.543 ± 0.054	1.546LysThr: 1.546 ± 0.047	2.425LysVal: 2.425 ± 0.054	0.271LysTrp: 0.271 ± 0.016	0.597LysTyr: 0.597 ± 0.026	0.0LysXaa: 0.0 ± 0.0
Leu	17.099LeuAla: 17.099 ± 0.21	1.546LeuCys: 1.546 ± 0.049	7.18LeuAsp: 7.18 ± 0.1	6.61LeuGlu: 6.61 ± 0.095	4.336LeuPhe: 4.336 ± 0.073	9.75LeuGly: 9.75 ± 0.108	3.009LeuHis: 3.009 ± 0.063	5.129LeuIle: 5.129 ± 0.072	3.838LeuLys: 3.838 ± 0.064	17.828LeuLeu: 17.828 ± 0.275	2.304LeuMet: 2.304 ± 0.058	3.369LeuAsn: 3.369 ± 0.059	7.112LeuPro: 7.112 ± 0.1	7.684LeuGln: 7.684 ± 0.136	9.041LeuArg: 9.041 ± 0.105	7.194LeuSer: 7.194 ± 0.085	4.993LeuThr: 4.993 ± 0.069	7.849LeuVal: 7.849 ± 0.103	1.681LeuTrp: 1.681 ± 0.051	2.813LeuTyr: 2.813 ± 0.062	0.0LeuXaa: 0.0 ± 0.0
Met	2.654MetAla: 2.654 ± 0.056	0.152MetCys: 0.152 ± 0.011	0.922MetAsp: 0.922 ± 0.03	0.884MetGlu: 0.884 ± 0.035	0.554MetPhe: 0.554 ± 0.024	1.534MetGly: 1.534 ± 0.04	0.517MetHis: 0.517 ± 0.022	0.88MetIle: 0.88 ± 0.033	0.737MetLys: 0.737 ± 0.032	2.604MetLeu: 2.604 ± 0.058	0.381MetMet: 0.381 ± 0.02	0.696MetAsn: 0.696 ± 0.029	1.301MetPro: 1.301 ± 0.037	1.266MetGln: 1.266 ± 0.037	1.555MetArg: 1.555 ± 0.04	1.582MetSer: 1.582 ± 0.043	1.156MetThr: 1.156 ± 0.032	1.316MetVal: 1.316 ± 0.036	0.165MetTrp: 0.165 ± 0.014	0.336MetTyr: 0.336 ± 0.019	0.0MetXaa: 0.0 ± 0.0
Asn	2.894AsnAla: 2.894 ± 0.064	0.283AsnCys: 0.283 ± 0.017	1.369AsnAsp: 1.369 ± 0.045	1.324AsnGlu: 1.324 ± 0.042	0.89AsnPhe: 0.89 ± 0.033	2.169AsnGly: 2.169 ± 0.055	0.594AsnHis: 0.594 ± 0.023	1.241AsnIle: 1.241 ± 0.04	0.802AsnLys: 0.802 ± 0.031	3.453AsnLeu: 3.453 ± 0.06	0.519AsnMet: 0.519 ± 0.027	0.745AsnAsn: 0.745 ± 0.031	1.914AsnPro: 1.914 ± 0.045	1.372AsnGln: 1.372 ± 0.042	1.798AsnArg: 1.798 ± 0.051	1.464AsnSer: 1.464 ± 0.042	1.19AsnThr: 1.19 ± 0.034	1.621AsnVal: 1.621 ± 0.046	0.365AsnTrp: 0.365 ± 0.019	0.719AsnTyr: 0.719 ± 0.03	0.0AsnXaa: 0.0 ± 0.0
Pro	6.272ProAla: 6.272 ± 0.096	0.461ProCys: 0.461 ± 0.024	2.388ProAsp: 2.388 ± 0.048	3.038ProGlu: 3.038 ± 0.056	1.658ProPhe: 1.658 ± 0.044	4.096ProGly: 4.096 ± 0.065	1.03ProHis: 1.03 ± 0.032	1.659ProIle: 1.659 ± 0.045	1.165ProLys: 1.165 ± 0.037	6.403ProLeu: 6.403 ± 0.098	1.094ProMet: 1.094 ± 0.031	1.125ProAsn: 1.125 ± 0.035	2.051ProPro: 2.051 ± 0.065	2.731ProGln: 2.731 ± 0.059	3.002ProArg: 3.002 ± 0.069	2.523ProSer: 2.523 ± 0.062	1.758ProThr: 1.758 ± 0.042	3.507ProVal: 3.507 ± 0.066	0.791ProTrp: 0.791 ± 0.029	1.154ProTyr: 1.154 ± 0.035	0.0ProXaa: 0.0 ± 0.0
Gln	8.763GlnAla: 8.763 ± 0.148	0.447GlnCys: 0.447 ± 0.021	2.046GlnAsp: 2.046 ± 0.05	2.342GlnGlu: 2.342 ± 0.052	1.504GlnPhe: 1.504 ± 0.038	4.322GlnGly: 4.322 ± 0.082	1.582GlnHis: 1.582 ± 0.045	2.108GlnIle: 2.108 ± 0.048	1.059GlnLys: 1.059 ± 0.039	7.967GlnLeu: 7.967 ± 0.141	1.062GlnMet: 1.062 ± 0.034	0.953GlnAsn: 0.953 ± 0.033	3.169GlnPro: 3.169 ± 0.066	4.519GlnGln: 4.519 ± 0.119	5.344GlnArg: 5.344 ± 0.11	2.276GlnSer: 2.276 ± 0.057	1.895GlnThr: 1.895 ± 0.044	4.306GlnVal: 4.306 ± 0.065	0.86GlnTrp: 0.86 ± 0.028	1.079GlnTyr: 1.079 ± 0.033	0.0GlnXaa: 0.0 ± 0.0
Arg	6.809ArgAla: 6.809 ± 0.098	0.733ArgCys: 0.733 ± 0.027	3.695ArgAsp: 3.695 ± 0.059	4.806ArgGlu: 4.806 ± 0.076	2.678ArgPhe: 2.678 ± 0.062	4.331ArgGly: 4.331 ± 0.062	1.98ArgHis: 1.98 ± 0.044	3.32ArgIle: 3.32 ± 0.063	1.857ArgLys: 1.857 ± 0.053	10.31ArgLeu: 10.31 ± 0.143	1.553ArgMet: 1.553 ± 0.041	1.829ArgAsn: 1.829 ± 0.047	2.983ArgPro: 2.983 ± 0.059	4.935ArgGln: 4.935 ± 0.101	5.008ArgArg: 5.008 ± 0.084	3.553ArgSer: 3.553 ± 0.056	2.402ArgThr: 2.402 ± 0.046	4.535ArgVal: 4.535 ± 0.071	1.172ArgTrp: 1.172 ± 0.04	2.148ArgTyr: 2.148 ± 0.05	0.0ArgXaa: 0.0 ± 0.0
Ser	6.006SerAla: 6.006 ± 0.086	0.569SerCys: 0.569 ± 0.028	2.67SerAsp: 2.67 ± 0.051	3.329SerGlu: 3.329 ± 0.059	1.867SerPhe: 1.867 ± 0.048	4.932SerGly: 4.932 ± 0.068	1.331SerHis: 1.331 ± 0.047	2.354SerIle: 2.354 ± 0.049	1.613SerLys: 1.613 ± 0.045	7.769SerLeu: 7.769 ± 0.104	1.22SerMet: 1.22 ± 0.037	1.56SerAsn: 1.56 ± 0.046	2.531SerPro: 2.531 ± 0.051	3.039SerGln: 3.039 ± 0.065	3.668SerArg: 3.668 ± 0.064	3.372SerSer: 3.372 ± 0.061	2.393SerThr: 2.393 ± 0.061	3.39SerVal: 3.39 ± 0.072	0.794SerTrp: 0.794 ± 0.03	1.43SerTyr: 1.43 ± 0.045	0.0SerXaa: 0.0 ± 0.0
Thr	4.482ThrAla: 4.482 ± 0.069	0.471ThrCys: 0.471 ± 0.022	1.936ThrAsp: 1.936 ± 0.044	1.913ThrGlu: 1.913 ± 0.052	1.417ThrPhe: 1.417 ± 0.041	3.525ThrGly: 3.525 ± 0.063	0.863ThrHis: 0.863 ± 0.034	1.566ThrIle: 1.566 ± 0.045	0.784ThrLys: 0.784 ± 0.029	6.241ThrLeu: 6.241 ± 0.084	0.562ThrMet: 0.562 ± 0.022	0.844ThrAsn: 0.844 ± 0.031	2.738ThrPro: 2.738 ± 0.053	1.818ThrGln: 1.818 ± 0.046	2.847ThrArg: 2.847 ± 0.051	2.154ThrSer: 2.154 ± 0.048	1.873ThrThr: 1.873 ± 0.051	2.679ThrVal: 2.679 ± 0.066	0.541ThrTrp: 0.541 ± 0.025	0.945ThrTyr: 0.945 ± 0.029	0.0ThrXaa: 0.0 ± 0.0
Val	7.477ValAla: 7.477 ± 0.105	0.755ValCys: 0.755 ± 0.03	3.754ValAsp: 3.754 ± 0.059	4.496ValGlu: 4.496 ± 0.083	2.273ValPhe: 2.273 ± 0.053	4.482ValGly: 4.482 ± 0.071	1.324ValHis: 1.324 ± 0.039	3.352ValIle: 3.352 ± 0.066	2.026ValLys: 2.026 ± 0.052	8.093ValLeu: 8.093 ± 0.116	1.488ValMet: 1.488 ± 0.035	1.911ValAsn: 1.911 ± 0.049	2.998ValPro: 2.998 ± 0.07	3.08ValGln: 3.08 ± 0.052	4.494ValArg: 4.494 ± 0.067	3.929ValSer: 3.929 ± 0.072	2.89ValThr: 2.89 ± 0.062	4.799ValVal: 4.799 ± 0.081	0.789ValTrp: 0.789 ± 0.031	1.468ValTyr: 1.468 ± 0.036	0.0ValXaa: 0.0 ± 0.0
Trp	1.158TrpAla: 1.158 ± 0.038	0.171TrpCys: 0.171 ± 0.014	0.578TrpAsp: 0.578 ± 0.02	0.522TrpGlu: 0.522 ± 0.024	0.456TrpPhe: 0.456 ± 0.02	0.834TrpGly: 0.834 ± 0.031	0.411TrpHis: 0.411 ± 0.021	0.538TrpIle: 0.538 ± 0.025	0.351TrpLys: 0.351 ± 0.017	2.825TrpLeu: 2.825 ± 0.073	0.327TrpMet: 0.327 ± 0.017	0.344TrpAsn: 0.344 ± 0.02	0.802TrpPro: 0.802 ± 0.037	1.427TrpGln: 1.427 ± 0.05	1.286TrpArg: 1.286 ± 0.039	0.701TrpSer: 0.701 ± 0.025	0.474TrpThr: 0.474 ± 0.022	0.855TrpVal: 0.855 ± 0.033	0.235TrpTrp: 0.235 ± 0.019	0.348TrpTyr: 0.348 ± 0.019	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.722TyrAla: 2.722 ± 0.055	0.324TyrCys: 0.324 ± 0.022	1.199TyrAsp: 1.199 ± 0.037	1.069TyrGlu: 1.069 ± 0.028	0.893TyrPhe: 0.893 ± 0.031	1.895TyrGly: 1.895 ± 0.041	0.576TyrHis: 0.576 ± 0.027	0.905TyrIle: 0.905 ± 0.028	0.673TyrLys: 0.673 ± 0.026	3.233TyrLeu: 3.233 ± 0.062	0.413TyrMet: 0.413 ± 0.02	0.633TyrAsn: 0.633 ± 0.028	1.299TyrPro: 1.299 ± 0.037	1.547TyrGln: 1.547 ± 0.046	2.119TyrArg: 2.119 ± 0.043	1.445TyrSer: 1.445 ± 0.042	0.978TyrThr: 0.978 ± 0.034	1.497TyrVal: 1.497 ± 0.041	0.459TyrTrp: 0.459 ± 0.02	0.685TyrTyr: 0.685 ± 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 3166 proteins (1018675 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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