Amino acid dipepetide frequency for Rhizobium sp. YS-1r

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	15.108AlaAla: 15.108 ± 0.122	0.947AlaCys: 0.947 ± 0.022	6.455AlaAsp: 6.455 ± 0.07	7.429AlaGlu: 7.429 ± 0.071	4.778AlaPhe: 4.778 ± 0.064	9.998AlaGly: 9.998 ± 0.089	2.05AlaHis: 2.05 ± 0.032	6.874AlaIle: 6.874 ± 0.066	4.218AlaLys: 4.218 ± 0.059	11.991AlaLeu: 11.991 ± 0.097	3.613AlaMet: 3.613 ± 0.049	2.933AlaAsn: 2.933 ± 0.045	4.614AlaPro: 4.614 ± 0.059	3.201AlaGln: 3.201 ± 0.047	7.668AlaArg: 7.668 ± 0.063	6.339AlaSer: 6.339 ± 0.074	5.507AlaThr: 5.507 ± 0.056	8.461AlaVal: 8.461 ± 0.068	1.388AlaTrp: 1.388 ± 0.035	2.615AlaTyr: 2.615 ± 0.038	0.0AlaXaa: 0.0 ± 0.0
Cys	0.804CysAla: 0.804 ± 0.021	0.093CysCys: 0.093 ± 0.008	0.488CysAsp: 0.488 ± 0.02	0.438CysGlu: 0.438 ± 0.017	0.348CysPhe: 0.348 ± 0.013	0.896CysGly: 0.896 ± 0.022	0.251CysHis: 0.251 ± 0.01	0.407CysIle: 0.407 ± 0.018	0.18CysLys: 0.18 ± 0.01	0.772CysLeu: 0.772 ± 0.021	0.16CysMet: 0.16 ± 0.01	0.206CysAsn: 0.206 ± 0.011	0.38CysPro: 0.38 ± 0.018	0.201CysGln: 0.201 ± 0.011	0.563CysArg: 0.563 ± 0.017	0.445CysSer: 0.445 ± 0.018	0.357CysThr: 0.357 ± 0.014	0.568CysVal: 0.568 ± 0.017	0.108CysTrp: 0.108 ± 0.008	0.199CysTyr: 0.199 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	6.091AspAla: 6.091 ± 0.058	0.44AspCys: 0.44 ± 0.015	2.939AspAsp: 2.939 ± 0.044	3.503AspGlu: 3.503 ± 0.053	2.449AspPhe: 2.449 ± 0.034	4.874AspGly: 4.874 ± 0.061	1.248AspHis: 1.248 ± 0.027	3.532AspIle: 3.532 ± 0.045	1.908AspLys: 1.908 ± 0.035	5.771AspLeu: 5.771 ± 0.061	1.514AspMet: 1.514 ± 0.029	1.444AspAsn: 1.444 ± 0.027	3.432AspPro: 3.432 ± 0.052	1.585AspGln: 1.585 ± 0.033	4.166AspArg: 4.166 ± 0.055	1.964AspSer: 1.964 ± 0.034	2.388AspThr: 2.388 ± 0.039	4.146AspVal: 4.146 ± 0.05	0.947AspTrp: 0.947 ± 0.027	1.602AspTyr: 1.602 ± 0.033	0.0AspXaa: 0.0 ± 0.0
Glu	7.528GluAla: 7.528 ± 0.069	0.351GluCys: 0.351 ± 0.015	2.972GluAsp: 2.972 ± 0.045	3.781GluGlu: 3.781 ± 0.066	1.969GluPhe: 1.969 ± 0.033	4.368GluGly: 4.368 ± 0.053	1.181GluHis: 1.181 ± 0.029	3.974GluIle: 3.974 ± 0.049	3.029GluLys: 3.029 ± 0.046	5.493GluLeu: 5.493 ± 0.062	1.69GluMet: 1.69 ± 0.032	1.958GluAsn: 1.958 ± 0.038	2.773GluPro: 2.773 ± 0.043	2.022GluGln: 2.022 ± 0.04	4.733GluArg: 4.733 ± 0.063	2.322GluSer: 2.322 ± 0.032	3.736GluThr: 3.736 ± 0.049	3.938GluVal: 3.938 ± 0.049	0.742GluTrp: 0.742 ± 0.021	1.105GluTyr: 1.105 ± 0.025	0.0GluXaa: 0.0 ± 0.0
Phe	4.652PheAla: 4.652 ± 0.053	0.396PheCys: 0.396 ± 0.015	2.82PheAsp: 2.82 ± 0.044	2.332PheGlu: 2.332 ± 0.04	1.714PhePhe: 1.714 ± 0.037	3.898PheGly: 3.898 ± 0.05	0.86PheHis: 0.86 ± 0.021	2.065PheIle: 2.065 ± 0.038	1.157PheLys: 1.157 ± 0.024	3.724PheLeu: 3.724 ± 0.053	0.947PheMet: 0.947 ± 0.025	1.176PheAsn: 1.176 ± 0.028	1.783PhePro: 1.783 ± 0.031	1.105PheGln: 1.105 ± 0.028	2.428PheArg: 2.428 ± 0.035	2.68PheSer: 2.68 ± 0.034	2.095PheThr: 2.095 ± 0.035	2.974PheVal: 2.974 ± 0.05	0.613PheTrp: 0.613 ± 0.02	1.038PheTyr: 1.038 ± 0.028	0.0PheXaa: 0.0 ± 0.0
Gly	8.179GlyAla: 8.179 ± 0.075	0.818GlyCys: 0.818 ± 0.024	4.193GlyAsp: 4.193 ± 0.049	4.956GlyGlu: 4.956 ± 0.061	3.819GlyPhe: 3.819 ± 0.049	6.934GlyGly: 6.934 ± 0.087	1.789GlyHis: 1.789 ± 0.036	5.294GlyIle: 5.294 ± 0.055	3.66GlyLys: 3.66 ± 0.053	8.684GlyLeu: 8.684 ± 0.085	2.421GlyMet: 2.421 ± 0.039	2.321GlyAsn: 2.321 ± 0.037	3.331GlyPro: 3.331 ± 0.044	2.664GlyGln: 2.664 ± 0.038	5.891GlyArg: 5.891 ± 0.059	4.646GlySer: 4.646 ± 0.057	4.408GlyThr: 4.408 ± 0.055	5.743GlyVal: 5.743 ± 0.064	1.292GlyTrp: 1.292 ± 0.029	2.416GlyTyr: 2.416 ± 0.04	0.0GlyXaa: 0.0 ± 0.0
His	2.124HisAla: 2.124 ± 0.035	0.22HisCys: 0.22 ± 0.012	1.179HisAsp: 1.179 ± 0.027	1.112HisGlu: 1.112 ± 0.027	0.932HisPhe: 0.932 ± 0.022	1.88HisGly: 1.88 ± 0.035	0.575HisHis: 0.575 ± 0.021	1.048HisIle: 1.048 ± 0.023	0.493HisLys: 0.493 ± 0.017	2.042HisLeu: 2.042 ± 0.035	0.552HisMet: 0.552 ± 0.019	0.493HisAsn: 0.493 ± 0.018	1.328HisPro: 1.328 ± 0.029	0.615HisGln: 0.615 ± 0.016	1.381HisArg: 1.381 ± 0.035	0.979HisSer: 0.979 ± 0.022	0.809HisThr: 0.809 ± 0.022	1.537HisVal: 1.537 ± 0.033	0.305HisTrp: 0.305 ± 0.013	0.558HisTyr: 0.558 ± 0.02	0.0HisXaa: 0.0 ± 0.0
Ile	7.769IleAla: 7.769 ± 0.084	0.562IleCys: 0.562 ± 0.019	3.829IleAsp: 3.829 ± 0.053	3.901IleGlu: 3.901 ± 0.051	2.225IlePhe: 2.225 ± 0.035	5.441IleGly: 5.441 ± 0.066	1.038IleHis: 1.038 ± 0.027	2.834IleIle: 2.834 ± 0.044	1.635IleLys: 1.635 ± 0.034	5.151IleLeu: 5.151 ± 0.061	1.23IleMet: 1.23 ± 0.025	1.614IleAsn: 1.614 ± 0.028	2.677IlePro: 2.677 ± 0.041	1.301IleGln: 1.301 ± 0.025	3.802IleArg: 3.802 ± 0.046	3.469IleSer: 3.469 ± 0.048	2.898IleThr: 2.898 ± 0.044	4.728IleVal: 4.728 ± 0.054	0.676IleTrp: 0.676 ± 0.02	1.321IleTyr: 1.321 ± 0.026	0.0IleXaa: 0.0 ± 0.0
Lys	4.771LysAla: 4.771 ± 0.061	0.16LysCys: 0.16 ± 0.01	2.009LysAsp: 2.009 ± 0.036	1.999LysGlu: 1.999 ± 0.035	1.082LysPhe: 1.082 ± 0.026	2.898LysGly: 2.898 ± 0.049	0.641LysHis: 0.641 ± 0.018	2.167LysIle: 2.167 ± 0.036	1.572LysLys: 1.572 ± 0.036	3.82LysLeu: 3.82 ± 0.052	0.974LysMet: 0.974 ± 0.025	1.069LysAsn: 1.069 ± 0.025	2.36LysPro: 2.36 ± 0.042	1.086LysGln: 1.086 ± 0.024	2.524LysArg: 2.524 ± 0.032	2.111LysSer: 2.111 ± 0.032	2.222LysThr: 2.222 ± 0.032	2.653LysVal: 2.653 ± 0.04	0.426LysTrp: 0.426 ± 0.015	0.704LysTyr: 0.704 ± 0.022	0.0LysXaa: 0.0 ± 0.0
Leu	12.532LeuAla: 12.532 ± 0.101	0.831LeuCys: 0.831 ± 0.021	5.908LeuAsp: 5.908 ± 0.061	5.333LeuGlu: 5.333 ± 0.061	3.807LeuPhe: 3.807 ± 0.051	7.979LeuGly: 7.979 ± 0.066	1.751LeuHis: 1.751 ± 0.035	5.51LeuIle: 5.51 ± 0.07	4.213LeuLys: 4.213 ± 0.053	9.282LeuLeu: 9.282 ± 0.098	2.562LeuMet: 2.562 ± 0.042	2.724LeuAsn: 2.724 ± 0.037	5.421LeuPro: 5.421 ± 0.057	2.724LeuGln: 2.724 ± 0.041	6.059LeuArg: 6.059 ± 0.059	6.876LeuSer: 6.876 ± 0.067	5.484LeuThr: 5.484 ± 0.048	7.303LeuVal: 7.303 ± 0.067	1.132LeuTrp: 1.132 ± 0.027	2.119LeuTyr: 2.119 ± 0.032	0.0LeuXaa: 0.0 ± 0.0
Met	3.197MetAla: 3.197 ± 0.045	0.127MetCys: 0.127 ± 0.008	1.233MetAsp: 1.233 ± 0.028	1.39MetGlu: 1.39 ± 0.028	0.772MetPhe: 0.772 ± 0.022	1.868MetGly: 1.868 ± 0.036	0.476MetHis: 0.476 ± 0.017	1.678MetIle: 1.678 ± 0.032	1.215MetLys: 1.215 ± 0.024	2.771MetLeu: 2.771 ± 0.041	0.776MetMet: 0.776 ± 0.023	0.906MetAsn: 0.906 ± 0.026	1.631MetPro: 1.631 ± 0.031	0.907MetGln: 0.907 ± 0.022	1.955MetArg: 1.955 ± 0.034	1.759MetSer: 1.759 ± 0.032	1.982MetThr: 1.982 ± 0.036	1.828MetVal: 1.828 ± 0.03	0.22MetTrp: 0.22 ± 0.011	0.355MetTyr: 0.355 ± 0.013	0.0MetXaa: 0.0 ± 0.0
Asn	3.205AsnAla: 3.205 ± 0.046	0.262AsnCys: 0.262 ± 0.012	1.443AsnAsp: 1.443 ± 0.032	1.414AsnGlu: 1.414 ± 0.03	1.14AsnPhe: 1.14 ± 0.027	2.581AsnGly: 2.581 ± 0.036	0.546AsnHis: 0.546 ± 0.019	1.601AsnIle: 1.601 ± 0.028	0.788AsnLys: 0.788 ± 0.022	2.849AsnLeu: 2.849 ± 0.046	0.74AsnMet: 0.74 ± 0.02	0.813AsnAsn: 0.813 ± 0.023	1.993AsnPro: 1.993 ± 0.032	0.803AsnGln: 0.803 ± 0.022	1.957AsnArg: 1.957 ± 0.035	1.417AsnSer: 1.417 ± 0.029	1.377AsnThr: 1.377 ± 0.028	2.011AsnVal: 2.011 ± 0.034	0.48AsnTrp: 0.48 ± 0.015	0.734AsnTyr: 0.734 ± 0.021	0.0AsnXaa: 0.0 ± 0.0
Pro	5.64ProAla: 5.64 ± 0.067	0.276ProCys: 0.276 ± 0.012	3.493ProAsp: 3.493 ± 0.048	3.776ProGlu: 3.776 ± 0.057	2.066ProPhe: 2.066 ± 0.039	4.217ProGly: 4.217 ± 0.053	1.113ProHis: 1.113 ± 0.027	2.495ProIle: 2.495 ± 0.038	1.915ProLys: 1.915 ± 0.036	4.699ProLeu: 4.699 ± 0.052	1.251ProMet: 1.251 ± 0.027	1.441ProAsn: 1.441 ± 0.03	2.36ProPro: 2.36 ± 0.048	1.617ProGln: 1.617 ± 0.032	2.643ProArg: 2.643 ± 0.036	2.817ProSer: 2.817 ± 0.04	2.372ProThr: 2.372 ± 0.037	4.293ProVal: 4.293 ± 0.054	0.63ProTrp: 0.63 ± 0.019	1.32ProTyr: 1.32 ± 0.026	0.0ProXaa: 0.0 ± 0.0
Gln	3.612GlnAla: 3.612 ± 0.048	0.164GlnCys: 0.164 ± 0.01	1.376GlnAsp: 1.376 ± 0.028	1.637GlnGlu: 1.637 ± 0.035	1.112GlnPhe: 1.112 ± 0.026	2.189GlnGly: 2.189 ± 0.033	0.595GlnHis: 0.595 ± 0.018	1.871GlnIle: 1.871 ± 0.031	1.269GlnLys: 1.269 ± 0.029	2.627GlnLeu: 2.627 ± 0.039	0.957GlnMet: 0.957 ± 0.027	0.906GlnAsn: 0.906 ± 0.027	1.696GlnPro: 1.696 ± 0.033	1.171GlnGln: 1.171 ± 0.032	2.056GlnArg: 2.056 ± 0.039	1.745GlnSer: 1.745 ± 0.032	1.623GlnThr: 1.623 ± 0.031	2.108GlnVal: 2.108 ± 0.032	0.395GlnTrp: 0.395 ± 0.015	0.642GlnTyr: 0.642 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	6.699ArgAla: 6.699 ± 0.063	0.468ArgCys: 0.468 ± 0.016	3.7ArgAsp: 3.7 ± 0.047	4.242ArgGlu: 4.242 ± 0.056	2.913ArgPhe: 2.913 ± 0.039	4.461ArgGly: 4.461 ± 0.049	1.698ArgHis: 1.698 ± 0.032	4.232ArgIle: 4.232 ± 0.053	2.642ArgLys: 2.642 ± 0.041	7.317ArgLeu: 7.317 ± 0.075	1.986ArgMet: 1.986 ± 0.031	2.098ArgAsn: 2.098 ± 0.033	3.173ArgPro: 3.173 ± 0.045	2.567ArgGln: 2.567 ± 0.039	5.126ArgArg: 5.126 ± 0.059	3.696ArgSer: 3.696 ± 0.045	3.251ArgThr: 3.251 ± 0.046	4.321ArgVal: 4.321 ± 0.05	0.867ArgTrp: 0.867 ± 0.023	1.796ArgTyr: 1.796 ± 0.029	0.0ArgXaa: 0.0 ± 0.0
Ser	6.034SerAla: 6.034 ± 0.068	0.384SerCys: 0.384 ± 0.017	3.035SerAsp: 3.035 ± 0.039	3.088SerGlu: 3.088 ± 0.043	2.562SerPhe: 2.562 ± 0.038	5.587SerGly: 5.587 ± 0.055	1.153SerHis: 1.153 ± 0.029	3.197SerIle: 3.197 ± 0.042	1.826SerLys: 1.826 ± 0.039	5.711SerLeu: 5.711 ± 0.068	1.479SerMet: 1.479 ± 0.03	1.499SerAsn: 1.499 ± 0.03	2.824SerPro: 2.824 ± 0.038	1.606SerGln: 1.606 ± 0.032	3.766SerArg: 3.766 ± 0.044	3.196SerSer: 3.196 ± 0.048	2.806SerThr: 2.806 ± 0.04	4.169SerVal: 4.169 ± 0.052	0.795SerTrp: 0.795 ± 0.022	1.365SerTyr: 1.365 ± 0.03	0.0SerXaa: 0.0 ± 0.0
Thr	5.909ThrAla: 5.909 ± 0.067	0.397ThrCys: 0.397 ± 0.015	2.794ThrAsp: 2.794 ± 0.041	2.848ThrGlu: 2.848 ± 0.044	2.208ThrPhe: 2.208 ± 0.04	4.922ThrGly: 4.922 ± 0.062	1.014ThrHis: 1.014 ± 0.023	3.146ThrIle: 3.146 ± 0.044	1.589ThrLys: 1.589 ± 0.031	5.612ThrLeu: 5.612 ± 0.057	1.261ThrMet: 1.261 ± 0.027	1.364ThrAsn: 1.364 ± 0.031	2.969ThrPro: 2.969 ± 0.044	1.291ThrGln: 1.291 ± 0.029	3.143ThrArg: 3.143 ± 0.045	2.884ThrSer: 2.884 ± 0.038	2.74ThrThr: 2.74 ± 0.044	4.43ThrVal: 4.43 ± 0.056	0.658ThrTrp: 0.658 ± 0.02	1.239ThrTyr: 1.239 ± 0.025	0.0ThrXaa: 0.0 ± 0.0
Val	8.66ValAla: 8.66 ± 0.07	0.604ValCys: 0.604 ± 0.021	3.977ValAsp: 3.977 ± 0.049	4.556ValGlu: 4.556 ± 0.052	2.998ValPhe: 2.998 ± 0.051	5.384ValGly: 5.384 ± 0.068	1.349ValHis: 1.349 ± 0.034	4.381ValIle: 4.381 ± 0.05	2.652ValLys: 2.652 ± 0.045	7.311ValLeu: 7.311 ± 0.076	2.035ValMet: 2.035 ± 0.033	2.015ValAsn: 2.015 ± 0.036	3.771ValPro: 3.771 ± 0.048	1.97ValGln: 1.97 ± 0.031	4.593ValArg: 4.593 ± 0.056	4.622ValSer: 4.622 ± 0.056	4.476ValThr: 4.476 ± 0.049	5.716ValVal: 5.716 ± 0.067	0.858ValTrp: 0.858 ± 0.023	1.515ValTyr: 1.515 ± 0.028	0.0ValXaa: 0.0 ± 0.0
Trp	1.148TrpAla: 1.148 ± 0.029	0.124TrpCys: 0.124 ± 0.008	0.593TrpAsp: 0.593 ± 0.022	0.6TrpGlu: 0.6 ± 0.019	0.57TrpPhe: 0.57 ± 0.02	0.875TrpGly: 0.875 ± 0.021	0.319TrpHis: 0.319 ± 0.014	0.712TrpIle: 0.712 ± 0.022	0.563TrpLys: 0.563 ± 0.016	1.563TrpLeu: 1.563 ± 0.034	0.377TrpMet: 0.377 ± 0.016	0.513TrpAsn: 0.513 ± 0.018	0.7TrpPro: 0.7 ± 0.02	0.585TrpGln: 0.585 ± 0.017	1.028TrpArg: 1.028 ± 0.023	0.815TrpSer: 0.815 ± 0.027	0.725TrpThr: 0.725 ± 0.021	0.788TrpVal: 0.788 ± 0.023	0.228TrpTrp: 0.228 ± 0.013	0.309TrpTyr: 0.309 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.526TyrAla: 2.526 ± 0.038	0.24TyrCys: 0.24 ± 0.012	1.506TyrAsp: 1.506 ± 0.027	1.327TyrGlu: 1.327 ± 0.028	0.994TyrPhe: 0.994 ± 0.022	2.211TyrGly: 2.211 ± 0.036	0.515TyrHis: 0.515 ± 0.016	1.081TyrIle: 1.081 ± 0.026	0.726TyrLys: 0.726 ± 0.021	2.355TyrLeu: 2.355 ± 0.034	0.521TyrMet: 0.521 ± 0.017	0.661TyrAsn: 0.661 ± 0.022	1.219TyrPro: 1.219 ± 0.028	0.73TyrGln: 0.73 ± 0.02	1.772TyrArg: 1.772 ± 0.034	1.299TyrSer: 1.299 ± 0.03	1.16TyrThr: 1.16 ± 0.025	1.729TyrVal: 1.729 ± 0.034	0.379TyrTrp: 0.379 ± 0.016	0.694TyrTyr: 0.694 ± 0.02	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 5595 proteins (1746909 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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