Amino acid dipepetide frequency for Shewanella oneidensis (strain MR-1)

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	9.177AlaAla: 9.177 ± 0.113	1.099AlaCys: 1.099 ± 0.033	5.112AlaAsp: 5.112 ± 0.069	5.769AlaGlu: 5.769 ± 0.068	3.482AlaPhe: 3.482 ± 0.055	6.334AlaGly: 6.334 ± 0.081	1.908AlaHis: 1.908 ± 0.04	6.233AlaIle: 6.233 ± 0.08	5.786AlaLys: 5.786 ± 0.073	10.912AlaLeu: 10.912 ± 0.113	2.796AlaMet: 2.796 ± 0.04	4.096AlaAsn: 4.096 ± 0.063	3.421AlaPro: 3.421 ± 0.062	4.678AlaGln: 4.678 ± 0.072	3.956AlaArg: 3.956 ± 0.061	5.857AlaSer: 5.857 ± 0.07	4.794AlaThr: 4.794 ± 0.069	6.056AlaVal: 6.056 ± 0.076	1.088AlaTrp: 1.088 ± 0.03	2.511AlaTyr: 2.511 ± 0.044	0.0AlaXaa: 0.0 ± 0.0
Cys	0.902CysAla: 0.902 ± 0.028	0.188CysCys: 0.188 ± 0.011	0.6CysAsp: 0.6 ± 0.025	0.625CysGlu: 0.625 ± 0.022	0.445CysPhe: 0.445 ± 0.018	0.898CysGly: 0.898 ± 0.028	0.46CysHis: 0.46 ± 0.026	0.604CysIle: 0.604 ± 0.021	0.416CysLys: 0.416 ± 0.017	1.076CysLeu: 1.076 ± 0.033	0.25CysMet: 0.25 ± 0.015	0.365CysAsn: 0.365 ± 0.018	0.493CysPro: 0.493 ± 0.021	0.568CysGln: 0.568 ± 0.025	0.521CysArg: 0.521 ± 0.02	0.671CysSer: 0.671 ± 0.021	0.46CysThr: 0.46 ± 0.018	0.693CysVal: 0.693 ± 0.026	0.136CysTrp: 0.136 ± 0.011	0.377CysTyr: 0.377 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	4.978AspAla: 4.978 ± 0.069	0.58AspCys: 0.58 ± 0.02	2.808AspAsp: 2.808 ± 0.053	3.538AspGlu: 3.538 ± 0.053	2.344AspPhe: 2.344 ± 0.048	3.785AspGly: 3.785 ± 0.086	1.018AspHis: 1.018 ± 0.027	3.834AspIle: 3.834 ± 0.051	3.371AspLys: 3.371 ± 0.057	5.094AspLeu: 5.094 ± 0.071	1.421AspMet: 1.421 ± 0.033	2.507AspAsn: 2.507 ± 0.05	2.128AspPro: 2.128 ± 0.043	1.635AspGln: 1.635 ± 0.033	2.152AspArg: 2.152 ± 0.046	3.17AspSer: 3.17 ± 0.062	2.802AspThr: 2.802 ± 0.057	3.543AspVal: 3.543 ± 0.056	0.841AspTrp: 0.841 ± 0.025	1.959AspTyr: 1.959 ± 0.044	0.0AspXaa: 0.0 ± 0.0
Glu	5.353GluAla: 5.353 ± 0.072	0.506GluCys: 0.506 ± 0.021	2.623GluAsp: 2.623 ± 0.051	2.92GluGlu: 2.92 ± 0.057	2.289GluPhe: 2.289 ± 0.048	3.368GluGly: 3.368 ± 0.058	1.543GluHis: 1.543 ± 0.033	3.406GluIle: 3.406 ± 0.047	2.915GluLys: 2.915 ± 0.055	7.261GluLeu: 7.261 ± 0.092	1.591GluMet: 1.591 ± 0.033	2.04GluAsn: 2.04 ± 0.037	2.047GluPro: 2.047 ± 0.039	4.043GluGln: 4.043 ± 0.07	3.307GluArg: 3.307 ± 0.06	3.173GluSer: 3.173 ± 0.056	2.936GluThr: 2.936 ± 0.052	4.037GluVal: 4.037 ± 0.053	0.661GluTrp: 0.661 ± 0.022	1.672GluTyr: 1.672 ± 0.04	0.0GluXaa: 0.0 ± 0.0
Phe	3.872PheAla: 3.872 ± 0.06	0.521PheCys: 0.521 ± 0.019	2.653PheAsp: 2.653 ± 0.049	2.457PheGlu: 2.457 ± 0.044	1.529PhePhe: 1.529 ± 0.038	3.137PheGly: 3.137 ± 0.054	0.746PheHis: 0.746 ± 0.025	2.68PheIle: 2.68 ± 0.045	1.911PheLys: 1.911 ± 0.044	3.01PheLeu: 3.01 ± 0.058	1.091PheMet: 1.091 ± 0.025	2.034PheAsn: 2.034 ± 0.038	1.377PhePro: 1.377 ± 0.033	1.073PheGln: 1.073 ± 0.026	1.442PheArg: 1.442 ± 0.032	3.191PheSer: 3.191 ± 0.053	2.367PheThr: 2.367 ± 0.05	2.584PheVal: 2.584 ± 0.037	0.547PheTrp: 0.547 ± 0.023	1.369PheTyr: 1.369 ± 0.035	0.0PheXaa: 0.0 ± 0.0
Gly	5.579GlyAla: 5.579 ± 0.072	0.896GlyCys: 0.896 ± 0.029	3.573GlyAsp: 3.573 ± 0.058	4.257GlyGlu: 4.257 ± 0.065	3.29GlyPhe: 3.29 ± 0.058	4.557GlyGly: 4.557 ± 0.081	1.707GlyHis: 1.707 ± 0.037	4.687GlyIle: 4.687 ± 0.068	3.957GlyLys: 3.957 ± 0.057	7.21GlyLeu: 7.21 ± 0.088	2.045GlyMet: 2.045 ± 0.042	2.621GlyAsn: 2.621 ± 0.048	1.71GlyPro: 1.71 ± 0.035	3.215GlyGln: 3.215 ± 0.069	3.18GlyArg: 3.18 ± 0.052	4.006GlySer: 4.006 ± 0.073	3.531GlyThr: 3.531 ± 0.075	5.167GlyVal: 5.167 ± 0.066	0.917GlyTrp: 0.917 ± 0.027	2.523GlyTyr: 2.523 ± 0.05	0.0GlyXaa: 0.0 ± 0.0
His	1.748HisAla: 1.748 ± 0.04	0.364HisCys: 0.364 ± 0.018	1.094HisAsp: 1.094 ± 0.03	1.143HisGlu: 1.143 ± 0.032	1.184HisPhe: 1.184 ± 0.03	1.653HisGly: 1.653 ± 0.042	0.711HisHis: 0.711 ± 0.027	1.434HisIle: 1.434 ± 0.037	1.067HisLys: 1.067 ± 0.031	2.46HisLeu: 2.46 ± 0.046	0.482HisMet: 0.482 ± 0.02	0.873HisAsn: 0.873 ± 0.024	1.202HisPro: 1.202 ± 0.034	1.284HisGln: 1.284 ± 0.031	1.064HisArg: 1.064 ± 0.032	1.509HisSer: 1.509 ± 0.033	1.111HisThr: 1.111 ± 0.029	1.187HisVal: 1.187 ± 0.031	0.415HisTrp: 0.415 ± 0.019	0.905HisTyr: 0.905 ± 0.03	0.0HisXaa: 0.0 ± 0.0
Ile	6.732IleAla: 6.732 ± 0.084	0.702IleCys: 0.702 ± 0.024	3.997IleAsp: 3.997 ± 0.05	4.236IleGlu: 4.236 ± 0.056	1.976IlePhe: 1.976 ± 0.043	4.47IleGly: 4.47 ± 0.058	1.236IleHis: 1.236 ± 0.029	3.357IleIle: 3.357 ± 0.061	3.137IleLys: 3.137 ± 0.054	5.185IleLeu: 5.185 ± 0.064	1.233IleMet: 1.233 ± 0.039	3.01IleAsn: 3.01 ± 0.052	2.57IlePro: 2.57 ± 0.051	2.221IleGln: 2.221 ± 0.044	2.799IleArg: 2.799 ± 0.037	4.281IleSer: 4.281 ± 0.057	3.409IleThr: 3.409 ± 0.057	3.759IleVal: 3.759 ± 0.058	0.616IleTrp: 0.616 ± 0.026	1.759IleTyr: 1.759 ± 0.038	0.0IleXaa: 0.0 ± 0.0
Lys	5.36LysAla: 5.36 ± 0.085	0.295LysCys: 0.295 ± 0.017	2.639LysAsp: 2.639 ± 0.05	2.626LysGlu: 2.626 ± 0.056	1.449LysPhe: 1.449 ± 0.035	3.418LysGly: 3.418 ± 0.052	1.222LysHis: 1.222 ± 0.032	2.723LysIle: 2.723 ± 0.045	2.319LysLys: 2.319 ± 0.051	5.784LysLeu: 5.784 ± 0.065	1.332LysMet: 1.332 ± 0.034	1.865LysAsn: 1.865 ± 0.038	2.376LysPro: 2.376 ± 0.051	3.009LysGln: 3.009 ± 0.054	2.638LysArg: 2.638 ± 0.047	2.981LysSer: 2.981 ± 0.053	2.817LysThr: 2.817 ± 0.048	3.843LysVal: 3.843 ± 0.051	0.57LysTrp: 0.57 ± 0.024	1.296LysTyr: 1.296 ± 0.034	0.0LysXaa: 0.0 ± 0.0
Leu	11.523LeuAla: 11.523 ± 0.113	1.248LeuCys: 1.248 ± 0.033	5.778LeuAsp: 5.778 ± 0.072	5.792LeuGlu: 5.792 ± 0.079	4.273LeuPhe: 4.273 ± 0.063	7.429LeuGly: 7.429 ± 0.092	2.133LeuHis: 2.133 ± 0.049	6.115LeuIle: 6.115 ± 0.08	5.695LeuLys: 5.695 ± 0.064	11.712LeuLeu: 11.712 ± 0.158	2.796LeuMet: 2.796 ± 0.047	4.658LeuAsn: 4.658 ± 0.066	5.112LeuPro: 5.112 ± 0.067	4.116LeuGln: 4.116 ± 0.066	4.551LeuArg: 4.551 ± 0.061	8.07LeuSer: 8.07 ± 0.081	6.793LeuThr: 6.793 ± 0.073	7.361LeuVal: 7.361 ± 0.083	1.175LeuTrp: 1.175 ± 0.03	2.78LeuTyr: 2.78 ± 0.051	0.001LeuXaa: 0.001 ± 0.001
Met	2.828MetAla: 2.828 ± 0.048	0.191MetCys: 0.191 ± 0.011	1.208MetAsp: 1.208 ± 0.033	1.194MetGlu: 1.194 ± 0.033	0.863MetPhe: 0.863 ± 0.029	1.838MetGly: 1.838 ± 0.041	0.449MetHis: 0.449 ± 0.017	1.242MetIle: 1.242 ± 0.037	1.303MetLys: 1.303 ± 0.034	3.022MetLeu: 3.022 ± 0.054	0.777MetMet: 0.777 ± 0.027	1.012MetAsn: 1.012 ± 0.03	1.323MetPro: 1.323 ± 0.035	1.311MetGln: 1.311 ± 0.031	1.247MetArg: 1.247 ± 0.029	1.911MetSer: 1.911 ± 0.035	1.632MetThr: 1.632 ± 0.035	1.716MetVal: 1.716 ± 0.036	0.239MetTrp: 0.239 ± 0.014	0.492MetTyr: 0.492 ± 0.02	0.0MetXaa: 0.0 ± 0.0
Asn	3.936AsnAla: 3.936 ± 0.061	0.425AsnCys: 0.425 ± 0.017	2.075AsnAsp: 2.075 ± 0.041	2.191AsnGlu: 2.191 ± 0.038	1.396AsnPhe: 1.396 ± 0.032	3.044AsnGly: 3.044 ± 0.069	0.966AsnHis: 0.966 ± 0.028	2.557AsnIle: 2.557 ± 0.042	2.021AsnLys: 2.021 ± 0.038	4.105AsnLeu: 4.105 ± 0.051	0.977AsnMet: 0.977 ± 0.028	1.736AsnAsn: 1.736 ± 0.04	2.123AsnPro: 2.123 ± 0.038	2.215AsnGln: 2.215 ± 0.043	1.986AsnArg: 1.986 ± 0.04	2.457AsnSer: 2.457 ± 0.041	2.3AsnThr: 2.3 ± 0.051	2.525AsnVal: 2.525 ± 0.048	0.568AsnTrp: 0.568 ± 0.022	1.279AsnTyr: 1.279 ± 0.034	0.0AsnXaa: 0.0 ± 0.0
Pro	3.462ProAla: 3.462 ± 0.062	0.318ProCys: 0.318 ± 0.015	2.237ProAsp: 2.237 ± 0.04	3.108ProGlu: 3.108 ± 0.054	1.719ProPhe: 1.719 ± 0.039	2.238ProGly: 2.238 ± 0.045	0.925ProHis: 0.925 ± 0.031	2.497ProIle: 2.497 ± 0.043	2.277ProLys: 2.277 ± 0.041	4.593ProLeu: 4.593 ± 0.065	1.104ProMet: 1.104 ± 0.032	1.824ProAsn: 1.824 ± 0.036	1.205ProPro: 1.205 ± 0.032	2.069ProGln: 2.069 ± 0.039	1.487ProArg: 1.487 ± 0.035	2.647ProSer: 2.647 ± 0.046	2.253ProThr: 2.253 ± 0.042	3.07ProVal: 3.07 ± 0.057	0.565ProTrp: 0.565 ± 0.022	1.215ProTyr: 1.215 ± 0.034	0.0ProXaa: 0.0 ± 0.0
Gln	5.122GlnAla: 5.122 ± 0.077	0.435GlnCys: 0.435 ± 0.019	2.227GlnAsp: 2.227 ± 0.044	2.303GlnGlu: 2.303 ± 0.044	1.923GlnPhe: 1.923 ± 0.04	3.497GlnGly: 3.497 ± 0.061	1.312GlnHis: 1.312 ± 0.041	2.761GlnIle: 2.761 ± 0.044	2.024GlnLys: 2.024 ± 0.04	6.302GlnLeu: 6.302 ± 0.092	1.223GlnMet: 1.223 ± 0.032	1.538GlnAsn: 1.538 ± 0.036	1.806GlnPro: 1.806 ± 0.039	3.322GlnGln: 3.322 ± 0.067	2.371GlnArg: 2.371 ± 0.048	2.855GlnSer: 2.855 ± 0.053	2.624GlnThr: 2.624 ± 0.052	3.434GlnVal: 3.434 ± 0.058	0.734GlnTrp: 0.734 ± 0.023	1.499GlnTyr: 1.499 ± 0.036	0.0GlnXaa: 0.0 ± 0.0
Arg	3.713ArgAla: 3.713 ± 0.061	0.492ArgCys: 0.492 ± 0.019	2.467ArgAsp: 2.467 ± 0.045	2.763ArgGlu: 2.763 ± 0.048	2.231ArgPhe: 2.231 ± 0.043	2.717ArgGly: 2.717 ± 0.048	1.208ArgHis: 1.208 ± 0.032	3.077ArgIle: 3.077 ± 0.055	2.131ArgLys: 2.131 ± 0.047	5.219ArgLeu: 5.219 ± 0.073	1.191ArgMet: 1.191 ± 0.033	1.774ArgAsn: 1.774 ± 0.041	1.672ArgPro: 1.672 ± 0.035	2.545ArgGln: 2.545 ± 0.044	2.497ArgArg: 2.497 ± 0.054	2.583ArgSer: 2.583 ± 0.044	2.066ArgThr: 2.066 ± 0.039	3.132ArgVal: 3.132 ± 0.047	0.654ArgTrp: 0.654 ± 0.026	1.854ArgTyr: 1.854 ± 0.041	0.0ArgXaa: 0.0 ± 0.0
Ser	5.89SerAla: 5.89 ± 0.08	0.684SerCys: 0.684 ± 0.026	3.242SerAsp: 3.242 ± 0.06	3.582SerGlu: 3.582 ± 0.047	2.742SerPhe: 2.742 ± 0.04	4.709SerGly: 4.709 ± 0.077	1.672SerHis: 1.672 ± 0.039	3.865SerIle: 3.865 ± 0.053	2.831SerLys: 2.831 ± 0.054	7.434SerLeu: 7.434 ± 0.084	1.631SerMet: 1.631 ± 0.029	2.452SerAsn: 2.452 ± 0.05	2.661SerPro: 2.661 ± 0.047	3.342SerGln: 3.342 ± 0.055	2.956SerArg: 2.956 ± 0.046	4.207SerSer: 4.207 ± 0.074	3.301SerThr: 3.301 ± 0.057	4.338SerVal: 4.338 ± 0.068	0.764SerTrp: 0.764 ± 0.023	2.046SerTyr: 2.046 ± 0.044	0.0SerXaa: 0.0 ± 0.0
Thr	4.988ThrAla: 4.988 ± 0.077	0.521ThrCys: 0.521 ± 0.024	3.005ThrAsp: 3.005 ± 0.07	3.141ThrGlu: 3.141 ± 0.049	1.918ThrPhe: 1.918 ± 0.037	4.122ThrGly: 4.122 ± 0.072	1.237ThrHis: 1.237 ± 0.033	3.005ThrIle: 3.005 ± 0.061	2.253ThrLys: 2.253 ± 0.04	6.529ThrLeu: 6.529 ± 0.076	1.099ThrMet: 1.099 ± 0.028	1.984ThrAsn: 1.984 ± 0.044	3.004ThrPro: 3.004 ± 0.049	3.03ThrGln: 3.03 ± 0.055	2.3ThrArg: 2.3 ± 0.037	3.351ThrSer: 3.351 ± 0.058	2.839ThrThr: 2.839 ± 0.045	3.705ThrVal: 3.705 ± 0.079	0.655ThrTrp: 0.655 ± 0.027	1.392ThrTyr: 1.392 ± 0.038	0.0ThrXaa: 0.0 ± 0.0
Val	6.557ValAla: 6.557 ± 0.075	0.733ValCys: 0.733 ± 0.028	4.024ValAsp: 4.024 ± 0.06	4.124ValGlu: 4.124 ± 0.058	2.576ValPhe: 2.576 ± 0.044	4.386ValGly: 4.386 ± 0.058	1.209ValHis: 1.209 ± 0.035	4.438ValIle: 4.438 ± 0.067	3.538ValLys: 3.538 ± 0.061	6.873ValLeu: 6.873 ± 0.074	1.876ValMet: 1.876 ± 0.042	3.031ValAsn: 3.031 ± 0.053	2.647ValPro: 2.647 ± 0.05	2.408ValGln: 2.408 ± 0.05	2.815ValArg: 2.815 ± 0.051	4.776ValSer: 4.776 ± 0.061	4.12ValThr: 4.12 ± 0.09	4.952ValVal: 4.952 ± 0.073	0.752ValTrp: 0.752 ± 0.022	1.802ValTyr: 1.802 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	0.911TrpAla: 0.911 ± 0.026	0.171TrpCys: 0.171 ± 0.012	0.603TrpAsp: 0.603 ± 0.019	0.515TrpGlu: 0.515 ± 0.018	0.571TrpPhe: 0.571 ± 0.022	0.843TrpGly: 0.843 ± 0.033	0.401TrpHis: 0.401 ± 0.018	0.627TrpIle: 0.627 ± 0.027	0.413TrpLys: 0.413 ± 0.017	1.783TrpLeu: 1.783 ± 0.042	0.313TrpMet: 0.313 ± 0.016	0.416TrpAsn: 0.416 ± 0.02	0.504TrpPro: 0.504 ± 0.021	1.099TrpGln: 1.099 ± 0.03	0.771TrpArg: 0.771 ± 0.026	0.7TrpSer: 0.7 ± 0.025	0.524TrpThr: 0.524 ± 0.021	0.8TrpVal: 0.8 ± 0.023	0.175TrpTrp: 0.175 ± 0.012	0.39TrpTyr: 0.39 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.434TyrAla: 2.434 ± 0.051	0.378TyrCys: 0.378 ± 0.016	1.543TyrAsp: 1.543 ± 0.033	1.409TyrGlu: 1.409 ± 0.038	1.394TyrPhe: 1.394 ± 0.033	2.188TyrGly: 2.188 ± 0.044	0.828TyrHis: 0.828 ± 0.023	1.54TyrIle: 1.54 ± 0.03	1.197TyrLys: 1.197 ± 0.031	3.546TyrLeu: 3.546 ± 0.048	0.569TyrMet: 0.569 ± 0.022	1.047TyrAsn: 1.047 ± 0.034	1.431TyrPro: 1.431 ± 0.034	2.129TyrGln: 2.129 ± 0.049	1.943TyrArg: 1.943 ± 0.038	1.952TyrSer: 1.952 ± 0.041	1.4TyrThr: 1.4 ± 0.035	1.738TyrVal: 1.738 ± 0.034	0.456TyrTrp: 0.456 ± 0.018	1.009TyrTyr: 1.009 ± 0.033	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.0XaaAla: 0.0 ± 0.0	0.0XaaCys: 0.0 ± 0.0	0.001XaaAsp: 0.001 ± 0.001	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 4068 proteins (1342432 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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