Amino acid dipepetide frequency for Paenibacillus sp. MEC069

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	13.673AlaAla: 13.673 ± 0.195	0.874AlaCys: 0.874 ± 0.025	5.519AlaAsp: 5.519 ± 0.067	6.413AlaGlu: 6.413 ± 0.093	3.549AlaPhe: 3.549 ± 0.051	8.812AlaGly: 8.812 ± 0.121	1.773AlaHis: 1.773 ± 0.032	5.0AlaIle: 5.0 ± 0.058	4.038AlaLys: 4.038 ± 0.053	10.434AlaLeu: 10.434 ± 0.103	2.394AlaMet: 2.394 ± 0.043	2.806AlaAsn: 2.806 ± 0.057	3.762AlaPro: 3.762 ± 0.063	3.731AlaGln: 3.731 ± 0.063	4.679AlaArg: 4.679 ± 0.07	5.987AlaSer: 5.987 ± 0.082	4.725AlaThr: 4.725 ± 0.084	7.564AlaVal: 7.564 ± 0.08	1.082AlaTrp: 1.082 ± 0.026	3.117AlaTyr: 3.117 ± 0.052	0.001AlaXaa: 0.001 ± 0.001
Cys	0.707CysAla: 0.707 ± 0.022	0.122CysCys: 0.122 ± 0.009	0.393CysAsp: 0.393 ± 0.015	0.464CysGlu: 0.464 ± 0.018	0.302CysPhe: 0.302 ± 0.015	0.774CysGly: 0.774 ± 0.02	0.17CysHis: 0.17 ± 0.012	0.426CysIle: 0.426 ± 0.018	0.296CysLys: 0.296 ± 0.013	0.792CysLeu: 0.792 ± 0.022	0.193CysMet: 0.193 ± 0.011	0.236CysAsn: 0.236 ± 0.015	0.374CysPro: 0.374 ± 0.016	0.224CysGln: 0.224 ± 0.012	0.538CysArg: 0.538 ± 0.021	0.521CysSer: 0.521 ± 0.019	0.393CysThr: 0.393 ± 0.017	0.517CysVal: 0.517 ± 0.02	0.1CysTrp: 0.1 ± 0.008	0.256CysTyr: 0.256 ± 0.013	0.001CysXaa: 0.001 ± 0.001
Asp	4.933AspAla: 4.933 ± 0.063	0.375AspCys: 0.375 ± 0.016	2.565AspAsp: 2.565 ± 0.046	3.678AspGlu: 3.678 ± 0.054	2.087AspPhe: 2.087 ± 0.035	4.435AspGly: 4.435 ± 0.09	1.025AspHis: 1.025 ± 0.026	3.147AspIle: 3.147 ± 0.052	2.588AspLys: 2.588 ± 0.046	4.703AspLeu: 4.703 ± 0.053	1.269AspMet: 1.269 ± 0.023	1.733AspAsn: 1.733 ± 0.04	2.387AspPro: 2.387 ± 0.04	1.763AspGln: 1.763 ± 0.03	2.804AspArg: 2.804 ± 0.046	2.787AspSer: 2.787 ± 0.048	2.597AspThr: 2.597 ± 0.046	3.647AspVal: 3.647 ± 0.047	0.837AspTrp: 0.837 ± 0.023	1.992AspTyr: 1.992 ± 0.039	0.001AspXaa: 0.001 ± 0.001
Glu	6.95GluAla: 6.95 ± 0.088	0.331GluCys: 0.331 ± 0.015	2.654GluAsp: 2.654 ± 0.047	4.38GluGlu: 4.38 ± 0.074	1.99GluPhe: 1.99 ± 0.034	3.93GluGly: 3.93 ± 0.05	1.492GluHis: 1.492 ± 0.034	3.469GluIle: 3.469 ± 0.056	2.993GluLys: 2.993 ± 0.055	7.821GluLeu: 7.821 ± 0.111	1.687GluMet: 1.687 ± 0.036	1.798GluAsn: 1.798 ± 0.034	2.547GluPro: 2.547 ± 0.046	3.749GluGln: 3.749 ± 0.065	4.754GluArg: 4.754 ± 0.076	2.997GluSer: 2.997 ± 0.045	3.125GluThr: 3.125 ± 0.051	4.047GluVal: 4.047 ± 0.054	0.804GluTrp: 0.804 ± 0.022	1.646GluTyr: 1.646 ± 0.036	0.001GluXaa: 0.001 ± 0.001
Phe	3.749PheAla: 3.749 ± 0.045	0.39PheCys: 0.39 ± 0.015	2.286PheAsp: 2.286 ± 0.045	2.157PheGlu: 2.157 ± 0.038	1.666PhePhe: 1.666 ± 0.04	3.081PheGly: 3.081 ± 0.044	0.918PheHis: 0.918 ± 0.025	2.343PheIle: 2.343 ± 0.042	1.54PheLys: 1.54 ± 0.033	3.516PheLeu: 3.516 ± 0.06	1.008PheMet: 1.008 ± 0.028	1.388PheAsn: 1.388 ± 0.029	1.523PhePro: 1.523 ± 0.029	1.361PheGln: 1.361 ± 0.03	2.079PheArg: 2.079 ± 0.038	2.593PheSer: 2.593 ± 0.046	2.385PheThr: 2.385 ± 0.046	2.948PheVal: 2.948 ± 0.047	0.479PheTrp: 0.479 ± 0.018	1.345PheTyr: 1.345 ± 0.033	0.002PheXaa: 0.002 ± 0.001
Gly	7.357GlyAla: 7.357 ± 0.119	0.748GlyCys: 0.748 ± 0.024	3.736GlyAsp: 3.736 ± 0.056	4.536GlyGlu: 4.536 ± 0.07	3.217GlyPhe: 3.217 ± 0.048	6.419GlyGly: 6.419 ± 0.096	1.504GlyHis: 1.504 ± 0.029	4.638GlyIle: 4.638 ± 0.057	4.035GlyLys: 4.035 ± 0.057	7.581GlyLeu: 7.581 ± 0.086	2.119GlyMet: 2.119 ± 0.041	2.525GlyAsn: 2.525 ± 0.057	2.223GlyPro: 2.223 ± 0.04	3.047GlyGln: 3.047 ± 0.054	4.231GlyArg: 4.231 ± 0.069	5.37GlySer: 5.37 ± 0.092	4.699GlyThr: 4.699 ± 0.093	5.491GlyVal: 5.491 ± 0.065	1.233GlyTrp: 1.233 ± 0.031	2.864GlyTyr: 2.864 ± 0.047	0.002GlyXaa: 0.002 ± 0.001
His	1.814HisAla: 1.814 ± 0.037	0.181HisCys: 0.181 ± 0.011	1.005HisAsp: 1.005 ± 0.029	1.265HisGlu: 1.265 ± 0.027	1.003HisPhe: 1.003 ± 0.024	1.541HisGly: 1.541 ± 0.035	0.585HisHis: 0.585 ± 0.025	1.309HisIle: 1.309 ± 0.032	0.819HisLys: 0.819 ± 0.023	2.054HisLeu: 2.054 ± 0.045	0.557HisMet: 0.557 ± 0.018	0.657HisAsn: 0.657 ± 0.019	1.145HisPro: 1.145 ± 0.027	0.683HisGln: 0.683 ± 0.023	1.203HisArg: 1.203 ± 0.032	1.087HisSer: 1.087 ± 0.03	1.104HisThr: 1.104 ± 0.026	1.499HisVal: 1.499 ± 0.029	0.298HisTrp: 0.298 ± 0.015	0.822HisTyr: 0.822 ± 0.023	0.0HisXaa: 0.0 ± 0.0
Ile	5.692IleAla: 5.692 ± 0.064	0.532IleCys: 0.532 ± 0.017	3.343IleAsp: 3.343 ± 0.045	3.663IleGlu: 3.663 ± 0.057	1.943IlePhe: 1.943 ± 0.038	4.749IleGly: 4.749 ± 0.058	1.272IleHis: 1.272 ± 0.031	2.928IleIle: 2.928 ± 0.05	2.384IleLys: 2.384 ± 0.048	4.378IleLeu: 4.378 ± 0.07	1.214IleMet: 1.214 ± 0.028	2.016IleAsn: 2.016 ± 0.037	2.505IlePro: 2.505 ± 0.038	2.148IleGln: 2.148 ± 0.035	3.562IleArg: 3.562 ± 0.046	3.632IleSer: 3.632 ± 0.052	3.127IleThr: 3.127 ± 0.047	4.865IleVal: 4.865 ± 0.062	0.65IleTrp: 0.65 ± 0.022	1.753IleTyr: 1.753 ± 0.036	0.001IleXaa: 0.001 ± 0.001
Lys	4.085LysAla: 4.085 ± 0.052	0.204LysCys: 0.204 ± 0.012	2.386LysAsp: 2.386 ± 0.054	3.327LysGlu: 3.327 ± 0.056	1.33LysPhe: 1.33 ± 0.032	3.034LysGly: 3.034 ± 0.05	0.953LysHis: 0.953 ± 0.025	2.426LysIle: 2.426 ± 0.046	2.52LysLys: 2.52 ± 0.051	5.406LysLeu: 5.406 ± 0.082	1.297LysMet: 1.297 ± 0.032	1.617LysAsn: 1.617 ± 0.041	2.154LysPro: 2.154 ± 0.04	2.235LysGln: 2.235 ± 0.042	2.658LysArg: 2.658 ± 0.045	2.545LysSer: 2.545 ± 0.047	2.538LysThr: 2.538 ± 0.049	3.031LysVal: 3.031 ± 0.051	0.591LysTrp: 0.591 ± 0.02	1.389LysTyr: 1.389 ± 0.032	0.0LysXaa: 0.0 ± 0.0
Leu	10.335LeuAla: 10.335 ± 0.129	0.858LeuCys: 0.858 ± 0.024	5.314LeuAsp: 5.314 ± 0.063	6.354LeuGlu: 6.354 ± 0.086	4.309LeuPhe: 4.309 ± 0.07	7.213LeuGly: 7.213 ± 0.086	2.385LeuHis: 2.385 ± 0.044	5.785LeuIle: 5.785 ± 0.078	4.596LeuLys: 4.596 ± 0.067	12.245LeuLeu: 12.245 ± 0.155	2.308LeuMet: 2.308 ± 0.05	3.544LeuAsn: 3.544 ± 0.054	4.907LeuPro: 4.907 ± 0.067	4.718LeuGln: 4.718 ± 0.059	5.855LeuArg: 5.855 ± 0.08	6.591LeuSer: 6.591 ± 0.062	5.996LeuThr: 5.996 ± 0.061	6.58LeuVal: 6.58 ± 0.08	1.096LeuTrp: 1.096 ± 0.029	3.244LeuTyr: 3.244 ± 0.049	0.0LeuXaa: 0.0 ± 0.0
Met	2.144MetAla: 2.144 ± 0.034	0.152MetCys: 0.152 ± 0.011	1.344MetAsp: 1.344 ± 0.025	1.642MetGlu: 1.642 ± 0.032	0.908MetPhe: 0.908 ± 0.026	1.574MetGly: 1.574 ± 0.033	0.454MetHis: 0.454 ± 0.016	1.466MetIle: 1.466 ± 0.033	1.667MetLys: 1.667 ± 0.031	2.775MetLeu: 2.775 ± 0.044	0.744MetMet: 0.744 ± 0.028	1.333MetAsn: 1.333 ± 0.029	1.086MetPro: 1.086 ± 0.03	1.069MetGln: 1.069 ± 0.028	1.317MetArg: 1.317 ± 0.03	1.723MetSer: 1.723 ± 0.041	1.609MetThr: 1.609 ± 0.036	1.515MetVal: 1.515 ± 0.034	0.234MetTrp: 0.234 ± 0.011	0.751MetTyr: 0.751 ± 0.023	0.0MetXaa: 0.0 ± 0.0
Asn	3.11AsnAla: 3.11 ± 0.053	0.224AsnCys: 0.224 ± 0.012	1.74AsnAsp: 1.74 ± 0.038	2.06AsnGlu: 2.06 ± 0.04	1.192AsnPhe: 1.192 ± 0.032	3.236AsnGly: 3.236 ± 0.065	0.685AsnHis: 0.685 ± 0.023	1.85AsnIle: 1.85 ± 0.041	1.632AsnLys: 1.632 ± 0.039	2.958AsnLeu: 2.958 ± 0.049	0.892AsnMet: 0.892 ± 0.026	1.41AsnAsn: 1.41 ± 0.04	1.895AsnPro: 1.895 ± 0.035	1.32AsnGln: 1.32 ± 0.031	2.007AsnArg: 2.007 ± 0.04	1.782AsnSer: 1.782 ± 0.045	1.822AsnThr: 1.822 ± 0.049	2.55AsnVal: 2.55 ± 0.053	0.503AsnTrp: 0.503 ± 0.022	1.207AsnTyr: 1.207 ± 0.029	0.0AsnXaa: 0.0 ± 0.0
Pro	4.606ProAla: 4.606 ± 0.071	0.26ProCys: 0.26 ± 0.013	2.681ProAsp: 2.681 ± 0.049	3.135ProGlu: 3.135 ± 0.051	1.759ProPhe: 1.759 ± 0.033	3.442ProGly: 3.442 ± 0.056	0.922ProHis: 0.922 ± 0.025	2.119ProIle: 2.119 ± 0.034	1.541ProLys: 1.541 ± 0.033	4.473ProLeu: 4.473 ± 0.059	0.949ProMet: 0.949 ± 0.026	1.405ProAsn: 1.405 ± 0.037	1.531ProPro: 1.531 ± 0.042	1.873ProGln: 1.873 ± 0.039	1.704ProArg: 1.704 ± 0.037	2.531ProSer: 2.531 ± 0.045	2.578ProThr: 2.578 ± 0.102	3.402ProVal: 3.402 ± 0.049	0.51ProTrp: 0.51 ± 0.019	1.545ProTyr: 1.545 ± 0.035	0.0ProXaa: 0.0 ± 0.0
Gln	4.588GlnAla: 4.588 ± 0.075	0.186GlnCys: 0.186 ± 0.011	1.642GlnAsp: 1.642 ± 0.033	2.612GlnGlu: 2.612 ± 0.041	1.451GlnPhe: 1.451 ± 0.026	2.65GlnGly: 2.65 ± 0.044	0.838GlnHis: 0.838 ± 0.024	2.395GlnIle: 2.395 ± 0.041	1.691GlnLys: 1.691 ± 0.034	4.865GlnLeu: 4.865 ± 0.075	1.197GlnMet: 1.197 ± 0.028	1.215GlnAsn: 1.215 ± 0.034	1.927GlnPro: 1.927 ± 0.032	2.233GlnGln: 2.233 ± 0.049	2.502GlnArg: 2.502 ± 0.053	2.269GlnSer: 2.269 ± 0.042	2.426GlnThr: 2.426 ± 0.045	2.772GlnVal: 2.772 ± 0.042	0.552GlnTrp: 0.552 ± 0.022	1.218GlnTyr: 1.218 ± 0.028	0.002GlnXaa: 0.002 ± 0.001
Arg	4.324ArgAla: 4.324 ± 0.069	0.449ArgCys: 0.449 ± 0.017	2.602ArgAsp: 2.602 ± 0.04	4.201ArgGlu: 4.201 ± 0.062	2.417ArgPhe: 2.417 ± 0.039	3.415ArgGly: 3.415 ± 0.048	1.198ArgHis: 1.198 ± 0.03	3.608ArgIle: 3.608 ± 0.056	2.962ArgLys: 2.962 ± 0.044	6.415ArgLeu: 6.415 ± 0.088	1.752ArgMet: 1.752 ± 0.038	1.751ArgAsn: 1.751 ± 0.038	2.118ArgPro: 2.118 ± 0.038	2.493ArgGln: 2.493 ± 0.048	3.555ArgArg: 3.555 ± 0.06	3.412ArgSer: 3.412 ± 0.053	2.96ArgThr: 2.96 ± 0.047	3.606ArgVal: 3.606 ± 0.052	0.818ArgTrp: 0.818 ± 0.022	1.997ArgTyr: 1.997 ± 0.042	0.0ArgXaa: 0.0 ± 0.0
Ser	5.855SerAla: 5.855 ± 0.073	0.461SerCys: 0.461 ± 0.016	3.0SerAsp: 3.0 ± 0.047	3.337SerGlu: 3.337 ± 0.047	2.767SerPhe: 2.767 ± 0.041	6.245SerGly: 6.245 ± 0.079	1.086SerHis: 1.086 ± 0.028	3.399SerIle: 3.399 ± 0.05	2.711SerLys: 2.711 ± 0.046	5.995SerLeu: 5.995 ± 0.063	1.532SerMet: 1.532 ± 0.033	2.028SerAsn: 2.028 ± 0.049	2.563SerPro: 2.563 ± 0.046	2.049SerGln: 2.049 ± 0.039	3.304SerArg: 3.304 ± 0.049	4.141SerSer: 4.141 ± 0.069	3.086SerThr: 3.086 ± 0.059	4.311SerVal: 4.311 ± 0.062	0.865SerTrp: 0.865 ± 0.029	2.152SerTyr: 2.152 ± 0.045	0.001SerXaa: 0.001 ± 0.001
Thr	5.822ThrAla: 5.822 ± 0.081	0.369ThrCys: 0.369 ± 0.017	2.887ThrAsp: 2.887 ± 0.051	2.867ThrGlu: 2.867 ± 0.044	2.162ThrPhe: 2.162 ± 0.047	4.817ThrGly: 4.817 ± 0.092	0.966ThrHis: 0.966 ± 0.025	3.422ThrIle: 3.422 ± 0.057	2.126ThrLys: 2.126 ± 0.047	5.843ThrLeu: 5.843 ± 0.068	1.344ThrMet: 1.344 ± 0.025	2.006ThrAsn: 2.006 ± 0.046	3.26ThrPro: 3.26 ± 0.098	1.756ThrGln: 1.756 ± 0.037	2.428ThrArg: 2.428 ± 0.041	3.263ThrSer: 3.263 ± 0.066	3.237ThrThr: 3.237 ± 0.069	4.578ThrVal: 4.578 ± 0.084	0.645ThrTrp: 0.645 ± 0.022	1.986ThrTyr: 1.986 ± 0.056	0.001ThrXaa: 0.001 ± 0.001
Val	6.105ValAla: 6.105 ± 0.068	0.702ValCys: 0.702 ± 0.022	3.846ValAsp: 3.846 ± 0.059	4.281ValGlu: 4.281 ± 0.056	2.823ValPhe: 2.823 ± 0.041	4.657ValGly: 4.657 ± 0.058	1.461ValHis: 1.461 ± 0.03	4.109ValIle: 4.109 ± 0.057	3.555ValLys: 3.555 ± 0.055	7.237ValLeu: 7.237 ± 0.079	1.781ValMet: 1.781 ± 0.036	2.73ValAsn: 2.73 ± 0.057	3.138ValPro: 3.138 ± 0.047	2.981ValGln: 2.981 ± 0.041	4.077ValArg: 4.077 ± 0.057	4.756ValSer: 4.756 ± 0.058	4.585ValThr: 4.585 ± 0.076	5.299ValVal: 5.299 ± 0.071	0.954ValTrp: 0.954 ± 0.027	2.495ValTyr: 2.495 ± 0.044	0.001ValXaa: 0.001 ± 0.001
Trp	0.955TrpAla: 0.955 ± 0.027	0.098TrpCys: 0.098 ± 0.008	0.598TrpAsp: 0.598 ± 0.02	0.723TrpGlu: 0.723 ± 0.024	0.506TrpPhe: 0.506 ± 0.018	0.926TrpGly: 0.926 ± 0.027	0.285TrpHis: 0.285 ± 0.016	0.763TrpIle: 0.763 ± 0.022	0.584TrpLys: 0.584 ± 0.022	1.585TrpLeu: 1.585 ± 0.038	0.414TrpMet: 0.414 ± 0.015	0.608TrpAsn: 0.608 ± 0.022	0.451TrpPro: 0.451 ± 0.017	0.592TrpGln: 0.592 ± 0.019	0.692TrpArg: 0.692 ± 0.019	0.927TrpSer: 0.927 ± 0.027	0.796TrpThr: 0.796 ± 0.025	0.802TrpVal: 0.802 ± 0.022	0.185TrpTrp: 0.185 ± 0.01	0.41TrpTyr: 0.41 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	3.126TyrAla: 3.126 ± 0.045	0.283TyrCys: 0.283 ± 0.014	1.81TyrAsp: 1.81 ± 0.044	2.068TyrGlu: 2.068 ± 0.038	1.374TyrPhe: 1.374 ± 0.03	2.624TyrGly: 2.624 ± 0.045	0.655TyrHis: 0.655 ± 0.023	1.755TyrIle: 1.755 ± 0.037	1.449TyrLys: 1.449 ± 0.031	3.159TyrLeu: 3.159 ± 0.053	0.852TyrMet: 0.852 ± 0.024	1.272TyrAsn: 1.272 ± 0.031	1.468TyrPro: 1.468 ± 0.03	1.207TyrGln: 1.207 ± 0.032	2.106TyrArg: 2.106 ± 0.04	1.972TyrSer: 1.972 ± 0.043	1.997TyrThr: 1.997 ± 0.053	2.547TyrVal: 2.547 ± 0.041	0.465TyrTrp: 0.465 ± 0.017	1.291TyrTyr: 1.291 ± 0.035	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.002XaaAla: 0.002 ± 0.001	0.0XaaCys: 0.0 ± 0.0	0.001XaaAsp: 0.001 ± 0.001	0.0XaaGlu: 0.0 ± 0.0	0.001XaaPhe: 0.001 ± 0.001	0.0XaaGly: 0.0 ± 0.0	0.002XaaHis: 0.002 ± 0.001	0.0XaaIle: 0.0 ± 0.0	0.001XaaLys: 0.001 ± 0.001	0.0XaaLeu: 0.0 ± 0.0	0.001XaaMet: 0.001 ± 0.001	0.0XaaAsn: 0.0 ± 0.0	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.001XaaArg: 0.001 ± 0.001	0.001XaaSer: 0.001 ± 0.001	0.001XaaThr: 0.001 ± 0.001	0.001XaaVal: 0.001 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.001XaaTyr: 0.001 ± 0.001	0.001XaaXaa: 0.001 ± 0.001

Statistics based on 4841 proteins (1608848 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

---