Amino acid dipepetide frequency for Amycolatopsis mediterranei (strain S699) (Nocardia mediterranei)

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	21.925AlaAla: 21.925 ± 0.13	1.024AlaCys: 1.024 ± 0.02	8.41AlaAsp: 8.41 ± 0.056	9.052AlaGlu: 9.052 ± 0.073	3.775AlaPhe: 3.775 ± 0.037	14.427AlaGly: 14.427 ± 0.088	2.692AlaHis: 2.692 ± 0.034	4.263AlaIle: 4.263 ± 0.037	3.386AlaLys: 3.386 ± 0.045	14.144AlaLeu: 14.144 ± 0.106	2.45AlaMet: 2.45 ± 0.029	2.406AlaAsn: 2.406 ± 0.033	6.505AlaPro: 6.505 ± 0.051	3.653AlaGln: 3.653 ± 0.035	9.605AlaArg: 9.605 ± 0.066	5.971AlaSer: 5.971 ± 0.051	7.343AlaThr: 7.343 ± 0.055	12.091AlaVal: 12.091 ± 0.086	1.944AlaTrp: 1.944 ± 0.03	2.516AlaTyr: 2.516 ± 0.032	0.0AlaXaa: 0.0 ± 0.0
Cys	1.017CysAla: 1.017 ± 0.018	0.1CysCys: 0.1 ± 0.006	0.42CysAsp: 0.42 ± 0.011	0.372CysGlu: 0.372 ± 0.01	0.239CysPhe: 0.239 ± 0.009	0.916CysGly: 0.916 ± 0.017	0.189CysHis: 0.189 ± 0.009	0.142CysIle: 0.142 ± 0.007	0.11CysLys: 0.11 ± 0.007	0.692CysLeu: 0.692 ± 0.014	0.097CysMet: 0.097 ± 0.005	0.13CysAsn: 0.13 ± 0.007	0.497CysPro: 0.497 ± 0.014	0.163CysGln: 0.163 ± 0.008	0.568CysArg: 0.568 ± 0.014	0.45CysSer: 0.45 ± 0.013	0.483CysThr: 0.483 ± 0.013	0.629CysVal: 0.629 ± 0.015	0.132CysTrp: 0.132 ± 0.007	0.186CysTyr: 0.186 ± 0.009	0.0CysXaa: 0.0 ± 0.0
Asp	7.474AspAla: 7.474 ± 0.057	0.383AspCys: 0.383 ± 0.012	3.55AspAsp: 3.55 ± 0.043	3.68AspGlu: 3.68 ± 0.042	1.691AspPhe: 1.691 ± 0.028	6.234AspGly: 6.234 ± 0.058	1.38AspHis: 1.38 ± 0.026	1.761AspIle: 1.761 ± 0.027	1.057AspLys: 1.057 ± 0.025	6.34AspLeu: 6.34 ± 0.048	0.643AspMet: 0.643 ± 0.015	1.026AspAsn: 1.026 ± 0.024	4.4AspPro: 4.4 ± 0.045	1.608AspGln: 1.608 ± 0.028	4.727AspArg: 4.727 ± 0.045	2.305AspSer: 2.305 ± 0.03	2.953AspThr: 2.953 ± 0.031	5.581AspVal: 5.581 ± 0.047	0.941AspTrp: 0.941 ± 0.019	1.183AspTyr: 1.183 ± 0.021	0.0AspXaa: 0.0 ± 0.0
Glu	6.869GluAla: 6.869 ± 0.061	0.317GluCys: 0.317 ± 0.01	2.584GluAsp: 2.584 ± 0.036	2.805GluGlu: 2.805 ± 0.037	1.787GluPhe: 1.787 ± 0.024	3.478GluGly: 3.478 ± 0.036	1.594GluHis: 1.594 ± 0.025	2.305GluIle: 2.305 ± 0.029	1.369GluLys: 1.369 ± 0.022	7.306GluLeu: 7.306 ± 0.062	0.759GluMet: 0.759 ± 0.017	1.113GluAsn: 1.113 ± 0.019	3.509GluPro: 3.509 ± 0.042	2.131GluGln: 2.131 ± 0.029	4.899GluArg: 4.899 ± 0.043	2.264GluSer: 2.264 ± 0.03	2.868GluThr: 2.868 ± 0.029	4.581GluVal: 4.581 ± 0.047	0.751GluTrp: 0.751 ± 0.017	1.07GluTyr: 1.07 ± 0.021	0.0GluXaa: 0.0 ± 0.0
Phe	4.367PheAla: 4.367 ± 0.039	0.289PheCys: 0.289 ± 0.01	2.219PheAsp: 2.219 ± 0.029	1.529PheGlu: 1.529 ± 0.026	0.947PhePhe: 0.947 ± 0.018	3.581PheGly: 3.581 ± 0.04	0.616PheHis: 0.616 ± 0.015	0.649PheIle: 0.649 ± 0.016	0.503PheLys: 0.503 ± 0.013	2.794PheLeu: 2.794 ± 0.032	0.328PheMet: 0.328 ± 0.011	0.573PheAsn: 0.573 ± 0.014	1.51PhePro: 1.51 ± 0.023	0.66PheGln: 0.66 ± 0.016	1.964PheArg: 1.964 ± 0.025	1.591PheSer: 1.591 ± 0.027	2.212PheThr: 2.212 ± 0.028	2.544PheVal: 2.544 ± 0.029	0.453PheTrp: 0.453 ± 0.012	0.626PheTyr: 0.626 ± 0.014	0.0PheXaa: 0.0 ± 0.0
Gly	10.609GlyAla: 10.609 ± 0.072	0.814GlyCys: 0.814 ± 0.017	5.17GlyAsp: 5.17 ± 0.047	5.144GlyGlu: 5.144 ± 0.047	3.282GlyPhe: 3.282 ± 0.036	8.776GlyGly: 8.776 ± 0.084	2.255GlyHis: 2.255 ± 0.032	3.586GlyIle: 3.586 ± 0.036	2.616GlyLys: 2.616 ± 0.036	9.643GlyLeu: 9.643 ± 0.063	1.857GlyMet: 1.857 ± 0.029	1.953GlyAsn: 1.953 ± 0.035	4.885GlyPro: 4.885 ± 0.047	2.793GlyGln: 2.793 ± 0.04	7.25GlyArg: 7.25 ± 0.053	5.226GlySer: 5.226 ± 0.053	6.273GlyThr: 6.273 ± 0.056	8.105GlyVal: 8.105 ± 0.064	1.844GlyTrp: 1.844 ± 0.027	2.522GlyTyr: 2.522 ± 0.034	0.0GlyXaa: 0.0 ± 0.0
His	2.666HisAla: 2.666 ± 0.032	0.207HisCys: 0.207 ± 0.008	1.396HisAsp: 1.396 ± 0.022	1.202HisGlu: 1.202 ± 0.021	0.674HisPhe: 0.674 ± 0.014	2.294HisGly: 2.294 ± 0.032	0.67HisHis: 0.67 ± 0.018	0.591HisIle: 0.591 ± 0.013	0.319HisLys: 0.319 ± 0.01	2.363HisLeu: 2.363 ± 0.031	0.262HisMet: 0.262 ± 0.009	0.411HisAsn: 0.411 ± 0.014	1.695HisPro: 1.695 ± 0.024	0.64HisGln: 0.64 ± 0.017	1.982HisArg: 1.982 ± 0.026	0.919HisSer: 0.919 ± 0.018	1.13HisThr: 1.13 ± 0.02	1.775HisVal: 1.775 ± 0.026	0.378HisTrp: 0.378 ± 0.012	0.506HisTyr: 0.506 ± 0.014	0.0HisXaa: 0.0 ± 0.0
Ile	5.197IleAla: 5.197 ± 0.046	0.265IleCys: 0.265 ± 0.009	2.32IleAsp: 2.32 ± 0.03	2.081IleGlu: 2.081 ± 0.03	0.767IlePhe: 0.767 ± 0.017	3.733IleGly: 3.733 ± 0.044	0.614IleHis: 0.614 ± 0.014	0.895IleIle: 0.895 ± 0.02	0.72IleLys: 0.72 ± 0.019	2.453IleLeu: 2.453 ± 0.036	0.434IleMet: 0.434 ± 0.012	0.692IleAsn: 0.692 ± 0.018	1.849IlePro: 1.849 ± 0.027	0.707IleGln: 0.707 ± 0.014	2.319IleArg: 2.319 ± 0.029	1.777IleSer: 1.777 ± 0.027	2.367IleThr: 2.367 ± 0.033	2.922IleVal: 2.922 ± 0.033	0.396IleTrp: 0.396 ± 0.011	0.551IleTyr: 0.551 ± 0.014	0.0IleXaa: 0.0 ± 0.0
Lys	2.851LysAla: 2.851 ± 0.038	0.136LysCys: 0.136 ± 0.007	1.1LysAsp: 1.1 ± 0.022	0.95LysGlu: 0.95 ± 0.02	0.604LysPhe: 0.604 ± 0.016	1.433LysGly: 1.433 ± 0.025	0.484LysHis: 0.484 ± 0.013	1.024LysIle: 1.024 ± 0.022	0.68LysLys: 0.68 ± 0.019	2.484LysLeu: 2.484 ± 0.035	0.372LysMet: 0.372 ± 0.012	0.534LysAsn: 0.534 ± 0.014	1.542LysPro: 1.542 ± 0.026	0.753LysGln: 0.753 ± 0.017	1.466LysArg: 1.466 ± 0.022	1.113LysSer: 1.113 ± 0.022	1.425LysThr: 1.425 ± 0.027	1.929LysVal: 1.929 ± 0.034	0.302LysTrp: 0.302 ± 0.01	0.51LysTyr: 0.51 ± 0.016	0.0LysXaa: 0.0 ± 0.0
Leu	16.243LeuAla: 16.243 ± 0.111	0.774LeuCys: 0.774 ± 0.017	6.927LeuAsp: 6.927 ± 0.056	4.733LeuGlu: 4.733 ± 0.047	2.809LeuPhe: 2.809 ± 0.032	9.835LeuGly: 9.835 ± 0.08	2.18LeuHis: 2.18 ± 0.032	3.27LeuIle: 3.27 ± 0.035	1.969LeuLys: 1.969 ± 0.031	11.081LeuLeu: 11.081 ± 0.092	1.365LeuMet: 1.365 ± 0.023	1.81LeuAsn: 1.81 ± 0.026	6.485LeuPro: 6.485 ± 0.061	2.256LeuGln: 2.256 ± 0.03	8.591LeuArg: 8.591 ± 0.067	5.35LeuSer: 5.35 ± 0.048	6.939LeuThr: 6.939 ± 0.053	9.481LeuVal: 9.481 ± 0.067	1.294LeuTrp: 1.294 ± 0.023	1.721LeuTyr: 1.721 ± 0.023	0.0LeuXaa: 0.0 ± 0.0
Met	2.003MetAla: 2.003 ± 0.03	0.109MetCys: 0.109 ± 0.006	0.731MetAsp: 0.731 ± 0.015	0.538MetGlu: 0.538 ± 0.014	0.461MetPhe: 0.461 ± 0.014	1.105MetGly: 1.105 ± 0.021	0.32MetHis: 0.32 ± 0.011	0.702MetIle: 0.702 ± 0.015	0.412MetLys: 0.412 ± 0.012	1.645MetLeu: 1.645 ± 0.025	0.246MetMet: 0.246 ± 0.009	0.398MetAsn: 0.398 ± 0.012	1.002MetPro: 1.002 ± 0.019	0.4MetGln: 0.4 ± 0.012	1.232MetArg: 1.232 ± 0.02	1.152MetSer: 1.152 ± 0.02	1.537MetThr: 1.537 ± 0.023	1.214MetVal: 1.214 ± 0.02	0.178MetTrp: 0.178 ± 0.007	0.276MetTyr: 0.276 ± 0.009	0.0MetXaa: 0.0 ± 0.0
Asn	2.421AsnAla: 2.421 ± 0.034	0.168AsnCys: 0.168 ± 0.008	1.009AsnAsp: 1.009 ± 0.019	0.812AsnGlu: 0.812 ± 0.017	0.591AsnPhe: 0.591 ± 0.015	2.07AsnGly: 2.07 ± 0.039	0.426AsnHis: 0.426 ± 0.013	0.611AsnIle: 0.611 ± 0.016	0.362AsnLys: 0.362 ± 0.013	1.896AsnLeu: 1.896 ± 0.028	0.275AsnMet: 0.275 ± 0.009	0.479AsnAsn: 0.479 ± 0.016	1.518AsnPro: 1.518 ± 0.022	0.636AsnGln: 0.636 ± 0.018	1.35AsnArg: 1.35 ± 0.024	1.012AsnSer: 1.012 ± 0.019	1.211AsnThr: 1.211 ± 0.022	1.538AsnVal: 1.538 ± 0.026	0.336AsnTrp: 0.336 ± 0.012	0.483AsnTyr: 0.483 ± 0.013	0.0AsnXaa: 0.0 ± 0.0
Pro	9.245ProAla: 9.245 ± 0.066	0.334ProCys: 0.334 ± 0.012	4.402ProAsp: 4.402 ± 0.044	4.038ProGlu: 4.038 ± 0.047	1.625ProPhe: 1.625 ± 0.025	6.802ProGly: 6.802 ± 0.058	1.173ProHis: 1.173 ± 0.021	1.627ProIle: 1.627 ± 0.026	1.29ProLys: 1.29 ± 0.022	5.127ProLeu: 5.127 ± 0.046	0.963ProMet: 0.963 ± 0.02	1.039ProAsn: 1.039 ± 0.024	3.773ProPro: 3.773 ± 0.067	1.565ProGln: 1.565 ± 0.028	3.748ProArg: 3.748 ± 0.041	3.174ProSer: 3.174 ± 0.036	2.85ProThr: 2.85 ± 0.03	5.492ProVal: 5.492 ± 0.044	0.867ProTrp: 0.867 ± 0.018	1.121ProTyr: 1.121 ± 0.021	0.0ProXaa: 0.0 ± 0.0
Gln	3.834GlnAla: 3.834 ± 0.039	0.177GlnCys: 0.177 ± 0.009	1.277GlnAsp: 1.277 ± 0.022	1.152GlnGlu: 1.152 ± 0.021	0.814GlnPhe: 0.814 ± 0.019	2.017GlnGly: 2.017 ± 0.033	0.62GlnHis: 0.62 ± 0.015	1.015GlnIle: 1.015 ± 0.018	0.562GlnLys: 0.562 ± 0.015	3.336GlnLeu: 3.336 ± 0.037	0.385GlnMet: 0.385 ± 0.013	0.613GlnAsn: 0.613 ± 0.02	1.766GlnPro: 1.766 ± 0.031	1.262GlnGln: 1.262 ± 0.033	2.367GlnArg: 2.367 ± 0.031	1.197GlnSer: 1.197 ± 0.021	1.334GlnThr: 1.334 ± 0.025	2.558GlnVal: 2.558 ± 0.031	0.51GlnTrp: 0.51 ± 0.014	0.614GlnTyr: 0.614 ± 0.016	0.0GlnXaa: 0.0 ± 0.0
Arg	9.354ArgAla: 9.354 ± 0.077	0.567ArgCys: 0.567 ± 0.014	4.071ArgAsp: 4.071 ± 0.042	4.529ArgGlu: 4.529 ± 0.044	2.496ArgPhe: 2.496 ± 0.031	5.594ArgGly: 5.594 ± 0.053	1.962ArgHis: 1.962 ± 0.028	3.099ArgIle: 3.099 ± 0.027	1.714ArgLys: 1.714 ± 0.026	8.53ArgLeu: 8.53 ± 0.072	1.646ArgMet: 1.646 ± 0.024	1.4ArgAsn: 1.4 ± 0.026	4.674ArgPro: 4.674 ± 0.047	2.217ArgGln: 2.217 ± 0.028	7.384ArgArg: 7.384 ± 0.077	3.72ArgSer: 3.72 ± 0.036	4.818ArgThr: 4.818 ± 0.043	5.956ArgVal: 5.956 ± 0.052	1.413ArgTrp: 1.413 ± 0.026	1.827ArgTyr: 1.827 ± 0.024	0.0ArgXaa: 0.0 ± 0.0
Ser	6.735SerAla: 6.735 ± 0.059	0.436SerCys: 0.436 ± 0.015	2.477SerAsp: 2.477 ± 0.033	2.207SerGlu: 2.207 ± 0.029	1.61SerPhe: 1.61 ± 0.025	5.862SerGly: 5.862 ± 0.056	0.902SerHis: 0.902 ± 0.017	1.62SerIle: 1.62 ± 0.022	0.953SerLys: 0.953 ± 0.02	4.738SerLeu: 4.738 ± 0.041	1.046SerMet: 1.046 ± 0.021	0.886SerAsn: 0.886 ± 0.021	3.091SerPro: 3.091 ± 0.033	1.162SerGln: 1.162 ± 0.023	3.514SerArg: 3.514 ± 0.039	2.874SerSer: 2.874 ± 0.036	3.248SerThr: 3.248 ± 0.036	4.309SerVal: 4.309 ± 0.042	0.996SerTrp: 0.996 ± 0.021	1.182SerTyr: 1.182 ± 0.022	0.0SerXaa: 0.0 ± 0.0
Thr	8.696ThrAla: 8.696 ± 0.061	0.448ThrCys: 0.448 ± 0.015	3.414ThrAsp: 3.414 ± 0.035	3.25ThrGlu: 3.25 ± 0.039	1.842ThrPhe: 1.842 ± 0.027	6.839ThrGly: 6.839 ± 0.053	1.109ThrHis: 1.109 ± 0.021	2.034ThrIle: 2.034 ± 0.028	1.292ThrLys: 1.292 ± 0.027	5.789ThrLeu: 5.789 ± 0.044	0.924ThrMet: 0.924 ± 0.019	1.093ThrAsn: 1.093 ± 0.024	4.017ThrPro: 4.017 ± 0.045	1.43ThrGln: 1.43 ± 0.027	3.847ThrArg: 3.847 ± 0.035	3.291ThrSer: 3.291 ± 0.039	4.187ThrThr: 4.187 ± 0.057	5.788ThrVal: 5.788 ± 0.051	0.976ThrTrp: 0.976 ± 0.019	1.301ThrTyr: 1.301 ± 0.025	0.0ThrXaa: 0.0 ± 0.0
Val	11.795ValAla: 11.795 ± 0.081	0.662ValCys: 0.662 ± 0.016	5.238ValAsp: 5.238 ± 0.051	4.659ValGlu: 4.659 ± 0.043	2.657ValPhe: 2.657 ± 0.032	6.486ValGly: 6.486 ± 0.055	1.986ValHis: 1.986 ± 0.03	2.855ValIle: 2.855 ± 0.034	1.758ValLys: 1.758 ± 0.032	10.515ValLeu: 10.515 ± 0.078	1.154ValMet: 1.154 ± 0.023	1.769ValAsn: 1.769 ± 0.022	5.495ValPro: 5.495 ± 0.05	2.126ValGln: 2.126 ± 0.028	6.915ValArg: 6.915 ± 0.061	4.501ValSer: 4.501 ± 0.036	6.018ValThr: 6.018 ± 0.05	8.874ValVal: 8.874 ± 0.078	1.092ValTrp: 1.092 ± 0.021	1.527ValTyr: 1.527 ± 0.022	0.0ValXaa: 0.0 ± 0.0
Trp	1.718TrpAla: 1.718 ± 0.029	0.151TrpCys: 0.151 ± 0.007	0.817TrpAsp: 0.817 ± 0.018	0.62TrpGlu: 0.62 ± 0.015	0.549TrpPhe: 0.549 ± 0.015	1.045TrpGly: 1.045 ± 0.021	0.41TrpHis: 0.41 ± 0.013	0.578TrpIle: 0.578 ± 0.014	0.312TrpLys: 0.312 ± 0.011	1.96TrpLeu: 1.96 ± 0.031	0.26TrpMet: 0.26 ± 0.009	0.429TrpAsn: 0.429 ± 0.013	0.901TrpPro: 0.901 ± 0.018	0.601TrpGln: 0.601 ± 0.014	1.334TrpArg: 1.334 ± 0.022	0.929TrpSer: 0.929 ± 0.019	1.138TrpThr: 1.138 ± 0.023	1.071TrpVal: 1.071 ± 0.018	0.35TrpTrp: 0.35 ± 0.011	0.351TrpTyr: 0.351 ± 0.012	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.566TyrAla: 2.566 ± 0.026	0.174TyrCys: 0.174 ± 0.008	1.387TyrAsp: 1.387 ± 0.029	1.009TyrGlu: 1.009 ± 0.018	0.733TyrPhe: 0.733 ± 0.016	2.074TyrGly: 2.074 ± 0.027	0.498TyrHis: 0.498 ± 0.012	0.431TyrIle: 0.431 ± 0.012	0.309TyrLys: 0.309 ± 0.012	2.279TyrLeu: 2.279 ± 0.024	0.196TyrMet: 0.196 ± 0.009	0.452TyrAsn: 0.452 ± 0.014	1.138TyrPro: 1.138 ± 0.022	0.646TyrGln: 0.646 ± 0.015	1.908TyrArg: 1.908 ± 0.028	1.029TyrSer: 1.029 ± 0.022	1.232TyrThr: 1.232 ± 0.024	1.642TyrVal: 1.642 ± 0.026	0.371TyrTrp: 0.371 ± 0.012	0.51TyrTyr: 0.51 ± 0.014	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 9551 proteins (3046683 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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