Amino acid dipepetide frequency for Pseudomonas indica

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	13.176AlaAla: 13.176 ± 0.133	1.284AlaCys: 1.284 ± 0.034	6.022AlaAsp: 6.022 ± 0.065	7.941AlaGlu: 7.941 ± 0.093	3.933AlaPhe: 3.933 ± 0.056	9.316AlaGly: 9.316 ± 0.093	2.179AlaHis: 2.179 ± 0.041	5.046AlaIle: 5.046 ± 0.052	3.46AlaLys: 3.46 ± 0.067	14.364AlaLeu: 14.364 ± 0.108	2.725AlaMet: 2.725 ± 0.047	2.924AlaAsn: 2.924 ± 0.049	4.785AlaPro: 4.785 ± 0.074	4.647AlaGln: 4.647 ± 0.062	7.811AlaArg: 7.811 ± 0.082	5.988AlaSer: 5.988 ± 0.067	4.772AlaThr: 4.772 ± 0.056	7.393AlaVal: 7.393 ± 0.08	1.704AlaTrp: 1.704 ± 0.035	2.554AlaTyr: 2.554 ± 0.045	0.001AlaXaa: 0.001 ± 0.001
Cys	1.105CysAla: 1.105 ± 0.029	0.14CysCys: 0.14 ± 0.01	0.541CysAsp: 0.541 ± 0.018	0.578CysGlu: 0.578 ± 0.02	0.345CysPhe: 0.345 ± 0.015	0.989CysGly: 0.989 ± 0.031	0.284CysHis: 0.284 ± 0.014	0.413CysIle: 0.413 ± 0.017	0.239CysLys: 0.239 ± 0.011	1.19CysLeu: 1.19 ± 0.031	0.189CysMet: 0.189 ± 0.012	0.257CysAsn: 0.257 ± 0.014	0.552CysPro: 0.552 ± 0.019	0.375CysGln: 0.375 ± 0.015	0.749CysArg: 0.749 ± 0.024	0.578CysSer: 0.578 ± 0.022	0.434CysThr: 0.434 ± 0.018	0.638CysVal: 0.638 ± 0.02	0.156CysTrp: 0.156 ± 0.011	0.261CysTyr: 0.261 ± 0.014	0.0CysXaa: 0.0 ± 0.0
Asp	6.055AspAla: 6.055 ± 0.068	0.547AspCys: 0.547 ± 0.019	3.184AspAsp: 3.184 ± 0.068	3.78AspGlu: 3.78 ± 0.053	2.101AspPhe: 2.101 ± 0.043	4.926AspGly: 4.926 ± 0.115	1.133AspHis: 1.133 ± 0.03	2.642AspIle: 2.642 ± 0.047	1.804AspLys: 1.804 ± 0.037	6.255AspLeu: 6.255 ± 0.071	1.138AspMet: 1.138 ± 0.024	1.564AspAsn: 1.564 ± 0.038	3.004AspPro: 3.004 ± 0.047	1.937AspGln: 1.937 ± 0.039	3.529AspArg: 3.529 ± 0.05	2.95AspSer: 2.95 ± 0.05	2.471AspThr: 2.471 ± 0.061	3.522AspVal: 3.522 ± 0.053	1.048AspTrp: 1.048 ± 0.028	1.753AspTyr: 1.753 ± 0.034	0.0AspXaa: 0.0 ± 0.0
Glu	7.415GluAla: 7.415 ± 0.079	0.475GluCys: 0.475 ± 0.018	2.8GluAsp: 2.8 ± 0.048	3.662GluGlu: 3.662 ± 0.061	1.777GluPhe: 1.777 ± 0.035	4.355GluGly: 4.355 ± 0.06	1.637GluHis: 1.637 ± 0.034	2.8GluIle: 2.8 ± 0.051	2.192GluLys: 2.192 ± 0.045	7.507GluLeu: 7.507 ± 0.081	1.311GluMet: 1.311 ± 0.027	1.58GluAsn: 1.58 ± 0.035	2.875GluPro: 2.875 ± 0.048	3.579GluGln: 3.579 ± 0.055	5.957GluArg: 5.957 ± 0.084	2.865GluSer: 2.865 ± 0.041	2.826GluThr: 2.826 ± 0.047	4.295GluVal: 4.295 ± 0.056	0.807GluTrp: 0.807 ± 0.021	1.238GluTyr: 1.238 ± 0.032	0.001GluXaa: 0.001 ± 0.001
Phe	4.062PheAla: 4.062 ± 0.051	0.456PheCys: 0.456 ± 0.017	2.484PheAsp: 2.484 ± 0.04	2.137PheGlu: 2.137 ± 0.037	1.427PhePhe: 1.427 ± 0.037	3.238PheGly: 3.238 ± 0.048	0.76PheHis: 0.76 ± 0.02	1.652PheIle: 1.652 ± 0.035	1.122PheLys: 1.122 ± 0.03	3.384PheLeu: 3.384 ± 0.055	0.75PheMet: 0.75 ± 0.022	1.187PheAsn: 1.187 ± 0.03	1.489PhePro: 1.489 ± 0.03	1.276PheGln: 1.276 ± 0.026	2.044PheArg: 2.044 ± 0.039	2.364PheSer: 2.364 ± 0.042	1.784PheThr: 1.784 ± 0.029	2.55PheVal: 2.55 ± 0.04	0.588PheTrp: 0.588 ± 0.021	1.026PheTyr: 1.026 ± 0.028	0.0PheXaa: 0.0 ± 0.0
Gly	7.44GlyAla: 7.44 ± 0.084	0.961GlyCys: 0.961 ± 0.029	4.367GlyAsp: 4.367 ± 0.09	5.432GlyGlu: 5.432 ± 0.067	3.287GlyPhe: 3.287 ± 0.05	6.434GlyGly: 6.434 ± 0.112	1.858GlyHis: 1.858 ± 0.039	4.045GlyIle: 4.045 ± 0.055	3.137GlyLys: 3.137 ± 0.054	9.715GlyLeu: 9.715 ± 0.094	2.233GlyMet: 2.233 ± 0.042	2.431GlyAsn: 2.431 ± 0.071	2.73GlyPro: 2.73 ± 0.043	3.674GlyGln: 3.674 ± 0.062	5.541GlyArg: 5.541 ± 0.067	4.645GlySer: 4.645 ± 0.073	3.879GlyThr: 3.879 ± 0.067	5.848GlyVal: 5.848 ± 0.07	1.412GlyTrp: 1.412 ± 0.032	2.452GlyTyr: 2.452 ± 0.034	0.0GlyXaa: 0.0 ± 0.0
His	2.307HisAla: 2.307 ± 0.042	0.34HisCys: 0.34 ± 0.016	1.202HisAsp: 1.202 ± 0.028	1.224HisGlu: 1.224 ± 0.028	1.004HisPhe: 1.004 ± 0.027	2.03HisGly: 2.03 ± 0.037	0.606HisHis: 0.606 ± 0.023	0.928HisIle: 0.928 ± 0.026	0.58HisLys: 0.58 ± 0.02	2.698HisLeu: 2.698 ± 0.05	0.441HisMet: 0.441 ± 0.017	0.574HisAsn: 0.574 ± 0.015	1.543HisPro: 1.543 ± 0.031	0.838HisGln: 0.838 ± 0.024	1.462HisArg: 1.462 ± 0.035	1.156HisSer: 1.156 ± 0.027	0.914HisThr: 0.914 ± 0.023	1.285HisVal: 1.285 ± 0.028	0.468HisTrp: 0.468 ± 0.018	0.746HisTyr: 0.746 ± 0.019	0.0HisXaa: 0.0 ± 0.0
Ile	5.587IleAla: 5.587 ± 0.065	0.447IleCys: 0.447 ± 0.017	3.177IleAsp: 3.177 ± 0.039	3.325IleGlu: 3.325 ± 0.046	1.277IlePhe: 1.277 ± 0.029	4.343IleGly: 4.343 ± 0.07	0.99IleHis: 0.99 ± 0.026	1.603IleIle: 1.603 ± 0.041	1.431IleLys: 1.431 ± 0.031	4.041IleLeu: 4.041 ± 0.068	0.673IleMet: 0.673 ± 0.022	1.455IleAsn: 1.455 ± 0.031	2.273IlePro: 2.273 ± 0.037	1.6IleGln: 1.6 ± 0.031	3.049IleArg: 3.049 ± 0.04	2.414IleSer: 2.414 ± 0.04	2.234IleThr: 2.234 ± 0.037	2.973IleVal: 2.973 ± 0.044	0.456IleTrp: 0.456 ± 0.018	1.075IleTyr: 1.075 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	3.881LysAla: 3.881 ± 0.061	0.187LysCys: 0.187 ± 0.011	1.62LysAsp: 1.62 ± 0.036	1.655LysGlu: 1.655 ± 0.035	0.784LysPhe: 0.784 ± 0.023	2.526LysGly: 2.526 ± 0.046	0.638LysHis: 0.638 ± 0.021	1.341LysIle: 1.341 ± 0.032	1.195LysLys: 1.195 ± 0.033	3.47LysLeu: 3.47 ± 0.048	0.609LysMet: 0.609 ± 0.022	0.89LysAsn: 0.89 ± 0.025	2.039LysPro: 2.039 ± 0.043	1.388LysGln: 1.388 ± 0.031	2.323LysArg: 2.323 ± 0.042	1.614LysSer: 1.614 ± 0.034	1.664LysThr: 1.664 ± 0.034	2.509LysVal: 2.509 ± 0.046	0.316LysTrp: 0.316 ± 0.013	0.634LysTyr: 0.634 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	15.148LeuAla: 15.148 ± 0.124	1.254LeuCys: 1.254 ± 0.033	7.465LeuAsp: 7.465 ± 0.075	7.175LeuGlu: 7.175 ± 0.074	4.37LeuPhe: 4.37 ± 0.065	9.552LeuGly: 9.552 ± 0.099	2.55LeuHis: 2.55 ± 0.043	5.333LeuIle: 5.333 ± 0.062	4.048LeuLys: 4.048 ± 0.061	14.453LeuLeu: 14.453 ± 0.147	2.385LeuMet: 2.385 ± 0.041	3.421LeuAsn: 3.421 ± 0.046	6.808LeuPro: 6.808 ± 0.084	4.348LeuGln: 4.348 ± 0.065	8.38LeuArg: 8.38 ± 0.088	7.048LeuSer: 7.048 ± 0.074	5.597LeuThr: 5.597 ± 0.069	8.119LeuVal: 8.119 ± 0.08	1.5LeuTrp: 1.5 ± 0.035	2.712LeuTyr: 2.712 ± 0.041	0.0LeuXaa: 0.0 ± 0.0
Met	2.585MetAla: 2.585 ± 0.044	0.141MetCys: 0.141 ± 0.009	0.975MetAsp: 0.975 ± 0.026	0.998MetGlu: 0.998 ± 0.028	0.571MetPhe: 0.571 ± 0.02	1.5MetGly: 1.5 ± 0.031	0.463MetHis: 0.463 ± 0.017	0.932MetIle: 0.932 ± 0.027	0.816MetLys: 0.816 ± 0.022	2.518MetLeu: 2.518 ± 0.045	0.431MetMet: 0.431 ± 0.018	0.785MetAsn: 0.785 ± 0.021	1.346MetPro: 1.346 ± 0.03	0.966MetGln: 0.966 ± 0.027	1.558MetArg: 1.558 ± 0.035	1.531MetSer: 1.531 ± 0.033	1.321MetThr: 1.321 ± 0.03	1.349MetVal: 1.349 ± 0.029	0.154MetTrp: 0.154 ± 0.009	0.32MetTyr: 0.32 ± 0.012	0.0MetXaa: 0.0 ± 0.0
Asn	2.996AsnAla: 2.996 ± 0.047	0.293AsnCys: 0.293 ± 0.013	1.564AsnAsp: 1.564 ± 0.053	1.426AsnGlu: 1.426 ± 0.029	0.982AsnPhe: 0.982 ± 0.027	2.654AsnGly: 2.654 ± 0.057	0.59AsnHis: 0.59 ± 0.019	1.253AsnIle: 1.253 ± 0.031	0.775AsnLys: 0.775 ± 0.029	3.364AsnLeu: 3.364 ± 0.044	0.504AsnMet: 0.504 ± 0.02	0.853AsnAsn: 0.853 ± 0.032	1.907AsnPro: 1.907 ± 0.036	1.173AsnGln: 1.173 ± 0.03	2.03AsnArg: 2.03 ± 0.04	1.37AsnSer: 1.37 ± 0.031	1.339AsnThr: 1.339 ± 0.033	1.792AsnVal: 1.792 ± 0.035	0.431AsnTrp: 0.431 ± 0.018	0.759AsnTyr: 0.759 ± 0.024	0.0AsnXaa: 0.0 ± 0.0
Pro	5.987ProAla: 5.987 ± 0.072	0.388ProCys: 0.388 ± 0.015	3.142ProAsp: 3.142 ± 0.05	3.717ProGlu: 3.717 ± 0.051	1.862ProPhe: 1.862 ± 0.031	4.196ProGly: 4.196 ± 0.055	1.077ProHis: 1.077 ± 0.027	1.969ProIle: 1.969 ± 0.037	1.497ProLys: 1.497 ± 0.029	6.184ProLeu: 6.184 ± 0.071	1.105ProMet: 1.105 ± 0.028	1.336ProAsn: 1.336 ± 0.033	2.277ProPro: 2.277 ± 0.044	2.139ProGln: 2.139 ± 0.037	3.023ProArg: 3.023 ± 0.053	2.708ProSer: 2.708 ± 0.046	2.272ProThr: 2.272 ± 0.042	3.865ProVal: 3.865 ± 0.05	0.781ProTrp: 0.781 ± 0.027	1.259ProTyr: 1.259 ± 0.027	0.0ProXaa: 0.0 ± 0.0
Gln	5.711GlnAla: 5.711 ± 0.07	0.297GlnCys: 0.297 ± 0.015	1.826GlnAsp: 1.826 ± 0.036	2.093GlnGlu: 2.093 ± 0.033	1.237GlnPhe: 1.237 ± 0.028	3.438GlnGly: 3.438 ± 0.062	1.023GlnHis: 1.023 ± 0.026	1.751GlnIle: 1.751 ± 0.034	1.12GlnLys: 1.12 ± 0.028	5.069GlnLeu: 5.069 ± 0.065	0.924GlnMet: 0.924 ± 0.024	1.0GlnAsn: 1.0 ± 0.022	2.586GlnPro: 2.586 ± 0.046	2.304GlnGln: 2.304 ± 0.043	3.765GlnArg: 3.765 ± 0.058	1.974GlnSer: 1.974 ± 0.038	1.743GlnThr: 1.743 ± 0.034	3.335GlnVal: 3.335 ± 0.055	0.599GlnTrp: 0.599 ± 0.02	0.913GlnTyr: 0.913 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	6.592ArgAla: 6.592 ± 0.075	0.697ArgCys: 0.697 ± 0.023	3.904ArgAsp: 3.904 ± 0.058	4.828ArgGlu: 4.828 ± 0.069	3.078ArgPhe: 3.078 ± 0.046	4.471ArgGly: 4.471 ± 0.055	1.972ArgHis: 1.972 ± 0.037	3.62ArgIle: 3.62 ± 0.052	1.995ArgLys: 1.995 ± 0.036	9.974ArgLeu: 9.974 ± 0.097	1.636ArgMet: 1.636 ± 0.032	1.956ArgAsn: 1.956 ± 0.036	3.242ArgPro: 3.242 ± 0.055	3.761ArgGln: 3.761 ± 0.054	5.236ArgArg: 5.236 ± 0.071	3.644ArgSer: 3.644 ± 0.046	2.856ArgThr: 2.856 ± 0.04	4.733ArgVal: 4.733 ± 0.058	1.181ArgTrp: 1.181 ± 0.026	2.303ArgTyr: 2.303 ± 0.044	0.0ArgXaa: 0.0 ± 0.0
Ser	5.846SerAla: 5.846 ± 0.072	0.473SerCys: 0.473 ± 0.019	2.816SerAsp: 2.816 ± 0.059	3.078SerGlu: 3.078 ± 0.044	2.03SerPhe: 2.03 ± 0.039	5.213SerGly: 5.213 ± 0.063	1.211SerHis: 1.211 ± 0.026	2.327SerIle: 2.327 ± 0.043	1.523SerLys: 1.523 ± 0.033	7.18SerLeu: 7.18 ± 0.08	1.203SerMet: 1.203 ± 0.027	1.53SerAsn: 1.53 ± 0.038	2.711SerPro: 2.711 ± 0.045	2.251SerGln: 2.251 ± 0.041	3.754SerArg: 3.754 ± 0.045	3.021SerSer: 3.021 ± 0.053	2.471SerThr: 2.471 ± 0.046	3.729SerVal: 3.729 ± 0.054	0.77SerTrp: 0.77 ± 0.02	1.339SerTyr: 1.339 ± 0.03	0.0SerXaa: 0.0 ± 0.0
Thr	4.891ThrAla: 4.891 ± 0.058	0.465ThrCys: 0.465 ± 0.019	2.32ThrAsp: 2.32 ± 0.041	2.372ThrGlu: 2.372 ± 0.038	1.703ThrPhe: 1.703 ± 0.037	4.102ThrGly: 4.102 ± 0.061	1.015ThrHis: 1.015 ± 0.021	1.763ThrIle: 1.763 ± 0.037	0.986ThrLys: 0.986 ± 0.023	6.643ThrLeu: 6.643 ± 0.076	0.711ThrMet: 0.711 ± 0.021	1.137ThrAsn: 1.137 ± 0.03	3.121ThrPro: 3.121 ± 0.045	1.774ThrGln: 1.774 ± 0.035	3.135ThrArg: 3.135 ± 0.048	2.422ThrSer: 2.422 ± 0.043	2.291ThrThr: 2.291 ± 0.045	3.28ThrVal: 3.28 ± 0.053	0.678ThrTrp: 0.678 ± 0.021	1.195ThrTyr: 1.195 ± 0.033	0.0ThrXaa: 0.0 ± 0.0
Val	7.528ValAla: 7.528 ± 0.082	0.719ValCys: 0.719 ± 0.023	3.918ValAsp: 3.918 ± 0.058	4.603ValGlu: 4.603 ± 0.063	2.507ValPhe: 2.507 ± 0.043	5.192ValGly: 5.192 ± 0.067	1.399ValHis: 1.399 ± 0.029	3.54ValIle: 3.54 ± 0.05	2.234ValLys: 2.234 ± 0.042	8.134ValLeu: 8.134 ± 0.076	1.545ValMet: 1.545 ± 0.033	2.031ValAsn: 2.031 ± 0.04	3.414ValPro: 3.414 ± 0.047	2.505ValGln: 2.505 ± 0.044	4.712ValArg: 4.712 ± 0.056	3.981ValSer: 3.981 ± 0.047	3.403ValThr: 3.403 ± 0.059	5.112ValVal: 5.112 ± 0.063	0.862ValTrp: 0.862 ± 0.024	1.554ValTyr: 1.554 ± 0.031	0.0ValXaa: 0.0 ± 0.0
Trp	1.191TrpAla: 1.191 ± 0.031	0.172TrpCys: 0.172 ± 0.01	0.658TrpAsp: 0.658 ± 0.019	0.646TrpGlu: 0.646 ± 0.019	0.545TrpPhe: 0.545 ± 0.019	0.907TrpGly: 0.907 ± 0.023	0.381TrpHis: 0.381 ± 0.015	0.605TrpIle: 0.605 ± 0.019	0.415TrpLys: 0.415 ± 0.018	2.358TrpLeu: 2.358 ± 0.048	0.348TrpMet: 0.348 ± 0.014	0.452TrpAsn: 0.452 ± 0.015	0.722TrpPro: 0.722 ± 0.023	0.946TrpGln: 0.946 ± 0.025	1.263TrpArg: 1.263 ± 0.031	0.8TrpSer: 0.8 ± 0.021	0.64TrpThr: 0.64 ± 0.019	0.938TrpVal: 0.938 ± 0.025	0.249TrpTrp: 0.249 ± 0.014	0.349TrpTyr: 0.349 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.523TyrAla: 2.523 ± 0.039	0.28TyrCys: 0.28 ± 0.014	1.359TyrAsp: 1.359 ± 0.031	1.282TyrGlu: 1.282 ± 0.029	0.961TyrPhe: 0.961 ± 0.025	2.14TyrGly: 2.14 ± 0.04	0.578TyrHis: 0.578 ± 0.02	0.859TyrIle: 0.859 ± 0.023	0.714TyrLys: 0.714 ± 0.024	3.164TyrLeu: 3.164 ± 0.047	0.398TyrMet: 0.398 ± 0.017	0.692TyrAsn: 0.692 ± 0.023	1.361TyrPro: 1.361 ± 0.03	1.225TyrGln: 1.225 ± 0.03	2.36TyrArg: 2.36 ± 0.038	1.403TyrSer: 1.403 ± 0.034	1.091TyrThr: 1.091 ± 0.023	1.628TyrVal: 1.628 ± 0.037	0.423TyrTrp: 0.423 ± 0.014	0.754TyrTyr: 0.754 ± 0.023	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	0.001XaaGlu: 0.001 ± 0.001	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	0.009XaaXaa: 0.009 ± 0.007

Statistics based on 5180 proteins (1715093 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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