Amino acid dipepetide frequency for Nocardioides sp. Root122

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	19.529AlaAla: 19.529 ± 0.207	0.952AlaCys: 0.952 ± 0.026	8.674AlaAsp: 8.674 ± 0.089	7.914AlaGlu: 7.914 ± 0.103	3.482AlaPhe: 3.482 ± 0.052	12.279AlaGly: 12.279 ± 0.098	2.669AlaHis: 2.669 ± 0.042	4.326AlaIle: 4.326 ± 0.057	2.373AlaLys: 2.373 ± 0.06	13.387AlaLeu: 13.387 ± 0.13	2.867AlaMet: 2.867 ± 0.052	1.933AlaAsn: 1.933 ± 0.04	6.187AlaPro: 6.187 ± 0.079	3.527AlaGln: 3.527 ± 0.05	9.732AlaArg: 9.732 ± 0.098	6.638AlaSer: 6.638 ± 0.076	7.779AlaThr: 7.779 ± 0.087	11.847AlaVal: 11.847 ± 0.113	2.149AlaTrp: 2.149 ± 0.039	2.455AlaTyr: 2.455 ± 0.043	0.003AlaXaa: 0.003 ± 0.002
Cys	0.799CysAla: 0.799 ± 0.026	0.083CysCys: 0.083 ± 0.008	0.497CysAsp: 0.497 ± 0.018	0.36CysGlu: 0.36 ± 0.018	0.203CysPhe: 0.203 ± 0.014	0.81CysGly: 0.81 ± 0.024	0.189CysHis: 0.189 ± 0.011	0.194CysIle: 0.194 ± 0.012	0.098CysLys: 0.098 ± 0.008	0.647CysLeu: 0.647 ± 0.021	0.098CysMet: 0.098 ± 0.009	0.129CysAsn: 0.129 ± 0.009	0.437CysPro: 0.437 ± 0.018	0.161CysGln: 0.161 ± 0.011	0.544CysArg: 0.544 ± 0.019	0.398CysSer: 0.398 ± 0.018	0.458CysThr: 0.458 ± 0.02	0.595CysVal: 0.595 ± 0.022	0.101CysTrp: 0.101 ± 0.008	0.144CysTyr: 0.144 ± 0.009	0.0CysXaa: 0.0 ± 0.0
Asp	8.356AspAla: 8.356 ± 0.09	0.365AspCys: 0.365 ± 0.017	5.134AspAsp: 5.134 ± 0.081	4.579AspGlu: 4.579 ± 0.064	1.752AspPhe: 1.752 ± 0.04	6.532AspGly: 6.532 ± 0.085	1.696AspHis: 1.696 ± 0.038	1.929AspIle: 1.929 ± 0.043	1.159AspLys: 1.159 ± 0.034	7.776AspLeu: 7.776 ± 0.075	0.959AspMet: 0.959 ± 0.03	1.085AspAsn: 1.085 ± 0.03	4.579AspPro: 4.579 ± 0.064	1.871AspGln: 1.871 ± 0.039	5.099AspArg: 5.099 ± 0.06	2.591AspSer: 2.591 ± 0.043	3.158AspThr: 3.158 ± 0.05	6.592AspVal: 6.592 ± 0.072	1.067AspTrp: 1.067 ± 0.03	1.282AspTyr: 1.282 ± 0.037	0.0AspXaa: 0.0 ± 0.0
Glu	7.391GluAla: 7.391 ± 0.096	0.331GluCys: 0.331 ± 0.014	3.299GluAsp: 3.299 ± 0.05	3.356GluGlu: 3.356 ± 0.058	1.348GluPhe: 1.348 ± 0.039	4.324GluGly: 4.324 ± 0.061	1.782GluHis: 1.782 ± 0.04	2.215GluIle: 2.215 ± 0.045	1.314GluLys: 1.314 ± 0.036	6.452GluLeu: 6.452 ± 0.08	1.085GluMet: 1.085 ± 0.03	0.801GluAsn: 0.801 ± 0.026	3.124GluPro: 3.124 ± 0.055	2.253GluGln: 2.253 ± 0.047	5.062GluArg: 5.062 ± 0.07	2.81GluSer: 2.81 ± 0.047	2.961GluThr: 2.961 ± 0.051	5.993GluVal: 5.993 ± 0.071	0.87GluTrp: 0.87 ± 0.029	0.779GluTyr: 0.779 ± 0.026	0.0GluXaa: 0.0 ± 0.0
Phe	3.613PheAla: 3.613 ± 0.061	0.259PheCys: 0.259 ± 0.014	2.113PheAsp: 2.113 ± 0.043	1.53PheGlu: 1.53 ± 0.032	0.917PhePhe: 0.917 ± 0.03	2.959PheGly: 2.959 ± 0.054	0.6PheHis: 0.6 ± 0.023	0.822PheIle: 0.822 ± 0.029	0.479PheLys: 0.479 ± 0.024	2.536PheLeu: 2.536 ± 0.052	0.428PheMet: 0.428 ± 0.019	0.576PheAsn: 0.576 ± 0.023	1.319PhePro: 1.319 ± 0.03	0.6PheGln: 0.6 ± 0.023	1.753PheArg: 1.753 ± 0.04	1.476PheSer: 1.476 ± 0.036	1.878PheThr: 1.878 ± 0.032	2.668PheVal: 2.668 ± 0.048	0.431PheTrp: 0.431 ± 0.022	0.573PheTyr: 0.573 ± 0.02	0.001PheXaa: 0.001 ± 0.001
Gly	10.425GlyAla: 10.425 ± 0.105	0.804GlyCys: 0.804 ± 0.028	5.846GlyAsp: 5.846 ± 0.08	5.097GlyGlu: 5.097 ± 0.076	2.924GlyPhe: 2.924 ± 0.044	7.95GlyGly: 7.95 ± 0.095	2.209GlyHis: 2.209 ± 0.042	3.592GlyIle: 3.592 ± 0.054	2.114GlyLys: 2.114 ± 0.048	9.362GlyLeu: 9.362 ± 0.087	2.08GlyMet: 2.08 ± 0.045	1.7GlyAsn: 1.7 ± 0.041	4.338GlyPro: 4.338 ± 0.058	2.553GlyGln: 2.553 ± 0.041	7.149GlyArg: 7.149 ± 0.082	5.353GlySer: 5.353 ± 0.064	6.041GlyThr: 6.041 ± 0.086	8.123GlyVal: 8.123 ± 0.092	1.756GlyTrp: 1.756 ± 0.04	2.068GlyTyr: 2.068 ± 0.043	0.001GlyXaa: 0.001 ± 0.001
His	2.671HisAla: 2.671 ± 0.043	0.184HisCys: 0.184 ± 0.012	1.733HisAsp: 1.733 ± 0.036	1.352HisGlu: 1.352 ± 0.031	0.579HisPhe: 0.579 ± 0.021	2.345HisGly: 2.345 ± 0.041	0.713HisHis: 0.713 ± 0.024	0.509HisIle: 0.509 ± 0.02	0.324HisLys: 0.324 ± 0.015	2.524HisLeu: 2.524 ± 0.049	0.304HisMet: 0.304 ± 0.014	0.356HisAsn: 0.356 ± 0.018	1.654HisPro: 1.654 ± 0.036	0.663HisGln: 0.663 ± 0.024	1.927HisArg: 1.927 ± 0.041	0.899HisSer: 0.899 ± 0.025	1.181HisThr: 1.181 ± 0.032	2.168HisVal: 2.168 ± 0.041	0.369HisTrp: 0.369 ± 0.015	0.439HisTyr: 0.439 ± 0.018	0.0HisXaa: 0.0 ± 0.0
Ile	4.775IleAla: 4.775 ± 0.067	0.245IleCys: 0.245 ± 0.013	2.666IleAsp: 2.666 ± 0.046	2.265IleGlu: 2.265 ± 0.041	0.79IlePhe: 0.79 ± 0.028	3.626IleGly: 3.626 ± 0.057	0.662IleHis: 0.662 ± 0.022	0.98IleIle: 0.98 ± 0.033	0.699IleLys: 0.699 ± 0.023	2.387IleLeu: 2.387 ± 0.048	0.47IleMet: 0.47 ± 0.022	0.741IleAsn: 0.741 ± 0.023	1.646IlePro: 1.646 ± 0.035	0.744IleGln: 0.744 ± 0.025	2.132IleArg: 2.132 ± 0.046	1.804IleSer: 1.804 ± 0.032	2.247IleThr: 2.247 ± 0.047	3.031IleVal: 3.031 ± 0.047	0.4IleTrp: 0.4 ± 0.018	0.534IleTyr: 0.534 ± 0.02	0.0IleXaa: 0.0 ± 0.0
Lys	2.516LysAla: 2.516 ± 0.061	0.103LysCys: 0.103 ± 0.009	1.176LysAsp: 1.176 ± 0.032	1.016LysGlu: 1.016 ± 0.032	0.42LysPhe: 0.42 ± 0.017	1.604LysGly: 1.604 ± 0.037	0.416LysHis: 0.416 ± 0.017	0.724LysIle: 0.724 ± 0.026	0.736LysLys: 0.736 ± 0.036	1.593LysLeu: 1.593 ± 0.037	0.348LysMet: 0.348 ± 0.016	0.404LysAsn: 0.404 ± 0.019	1.148LysPro: 1.148 ± 0.038	0.621LysGln: 0.621 ± 0.023	1.336LysArg: 1.336 ± 0.037	1.019LysSer: 1.019 ± 0.03	1.122LysThr: 1.122 ± 0.033	2.067LysVal: 2.067 ± 0.054	0.217LysTrp: 0.217 ± 0.012	0.402LysTyr: 0.402 ± 0.019	0.0LysXaa: 0.0 ± 0.0
Leu	15.212LeuAla: 15.212 ± 0.139	0.622LeuCys: 0.622 ± 0.024	7.444LeuAsp: 7.444 ± 0.089	5.423LeuGlu: 5.423 ± 0.07	2.425LeuPhe: 2.425 ± 0.049	9.708LeuGly: 9.708 ± 0.095	2.159LeuHis: 2.159 ± 0.046	2.644LeuIle: 2.644 ± 0.054	1.661LeuLys: 1.661 ± 0.043	10.582LeuLeu: 10.582 ± 0.131	1.701LeuMet: 1.701 ± 0.042	1.472LeuAsn: 1.472 ± 0.033	5.732LeuPro: 5.732 ± 0.071	2.285LeuGln: 2.285 ± 0.04	7.701LeuArg: 7.701 ± 0.092	5.281LeuSer: 5.281 ± 0.068	6.494LeuThr: 6.494 ± 0.067	11.062LeuVal: 11.062 ± 0.122	1.244LeuTrp: 1.244 ± 0.031	1.418LeuTyr: 1.418 ± 0.038	0.001LeuXaa: 0.001 ± 0.001
Met	2.445MetAla: 2.445 ± 0.039	0.131MetCys: 0.131 ± 0.01	0.967MetAsp: 0.967 ± 0.028	0.799MetGlu: 0.799 ± 0.025	0.521MetPhe: 0.521 ± 0.023	1.45MetGly: 1.45 ± 0.031	0.359MetHis: 0.359 ± 0.017	0.624MetIle: 0.624 ± 0.025	0.457MetLys: 0.457 ± 0.019	1.905MetLeu: 1.905 ± 0.046	0.353MetMet: 0.353 ± 0.017	0.378MetAsn: 0.378 ± 0.017	1.172MetPro: 1.172 ± 0.029	0.484MetGln: 0.484 ± 0.018	1.521MetArg: 1.521 ± 0.032	1.498MetSer: 1.498 ± 0.033	1.74MetThr: 1.74 ± 0.031	1.673MetVal: 1.673 ± 0.043	0.245MetTrp: 0.245 ± 0.016	0.265MetTyr: 0.265 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	2.121AsnAla: 2.121 ± 0.039	0.123AsnCys: 0.123 ± 0.01	1.088AsnAsp: 1.088 ± 0.033	0.793AsnGlu: 0.793 ± 0.028	0.476AsnPhe: 0.476 ± 0.02	1.646AsnGly: 1.646 ± 0.039	0.365AsnHis: 0.365 ± 0.017	0.627AsnIle: 0.627 ± 0.024	0.358AsnLys: 0.358 ± 0.016	1.773AsnLeu: 1.773 ± 0.039	0.295AsnMet: 0.295 ± 0.016	0.397AsnAsn: 0.397 ± 0.021	1.278AsnPro: 1.278 ± 0.035	0.514AsnGln: 0.514 ± 0.024	1.207AsnArg: 1.207 ± 0.033	0.753AsnSer: 0.753 ± 0.028	0.951AsnThr: 0.951 ± 0.029	1.413AsnVal: 1.413 ± 0.03	0.227AsnTrp: 0.227 ± 0.014	0.374AsnTyr: 0.374 ± 0.018	0.0AsnXaa: 0.0 ± 0.0
Pro	7.132ProAla: 7.132 ± 0.096	0.299ProCys: 0.299 ± 0.017	4.6ProAsp: 4.6 ± 0.067	3.863ProGlu: 3.863 ± 0.06	1.517ProPhe: 1.517 ± 0.035	5.604ProGly: 5.604 ± 0.073	1.24ProHis: 1.24 ± 0.03	1.577ProIle: 1.577 ± 0.034	0.899ProLys: 0.899 ± 0.032	4.756ProLeu: 4.756 ± 0.062	1.074ProMet: 1.074 ± 0.031	0.769ProAsn: 0.769 ± 0.023	2.827ProPro: 2.827 ± 0.062	1.449ProGln: 1.449 ± 0.036	3.581ProArg: 3.581 ± 0.061	3.097ProSer: 3.097 ± 0.054	3.739ProThr: 3.739 ± 0.085	5.213ProVal: 5.213 ± 0.062	0.936ProTrp: 0.936 ± 0.032	1.082ProTyr: 1.082 ± 0.03	0.001ProXaa: 0.001 ± 0.001
Gln	3.516GlnAla: 3.516 ± 0.057	0.166GlnCys: 0.166 ± 0.011	1.368GlnAsp: 1.368 ± 0.034	1.353GlnGlu: 1.353 ± 0.037	0.677GlnPhe: 0.677 ± 0.024	2.102GlnGly: 2.102 ± 0.037	0.698GlnHis: 0.698 ± 0.023	0.957GlnIle: 0.957 ± 0.028	0.548GlnLys: 0.548 ± 0.022	2.961GlnLeu: 2.961 ± 0.045	0.535GlnMet: 0.535 ± 0.021	0.416GlnAsn: 0.416 ± 0.018	1.596GlnPro: 1.596 ± 0.037	1.155GlnGln: 1.155 ± 0.033	2.415GlnArg: 2.415 ± 0.047	1.235GlnSer: 1.235 ± 0.032	1.374GlnThr: 1.374 ± 0.032	2.991GlnVal: 2.991 ± 0.049	0.481GlnTrp: 0.481 ± 0.017	0.483GlnTyr: 0.483 ± 0.019	0.001GlnXaa: 0.001 ± 0.001
Arg	9.01ArgAla: 9.01 ± 0.09	0.458ArgCys: 0.458 ± 0.02	4.761ArgAsp: 4.761 ± 0.067	4.547ArgGlu: 4.547 ± 0.063	2.258ArgPhe: 2.258 ± 0.049	5.646ArgGly: 5.646 ± 0.068	1.919ArgHis: 1.919 ± 0.041	3.041ArgIle: 3.041 ± 0.043	1.426ArgLys: 1.426 ± 0.038	8.269ArgLeu: 8.269 ± 0.09	1.839ArgMet: 1.839 ± 0.039	1.301ArgAsn: 1.301 ± 0.032	4.203ArgPro: 4.203 ± 0.061	2.114ArgGln: 2.114 ± 0.043	7.305ArgArg: 7.305 ± 0.097	4.195ArgSer: 4.195 ± 0.06	4.932ArgThr: 4.932 ± 0.066	6.457ArgVal: 6.457 ± 0.079	1.413ArgTrp: 1.413 ± 0.032	1.419ArgTyr: 1.419 ± 0.033	0.0ArgXaa: 0.0 ± 0.0
Ser	6.449SerAla: 6.449 ± 0.074	0.362SerCys: 0.362 ± 0.019	3.092SerAsp: 3.092 ± 0.049	2.602SerGlu: 2.602 ± 0.05	1.669SerPhe: 1.669 ± 0.038	5.768SerGly: 5.768 ± 0.072	1.11SerHis: 1.11 ± 0.03	1.792SerIle: 1.792 ± 0.036	0.954SerLys: 0.954 ± 0.027	5.137SerLeu: 5.137 ± 0.066	1.26SerMet: 1.26 ± 0.032	0.897SerAsn: 0.897 ± 0.028	2.942SerPro: 2.942 ± 0.049	1.317SerGln: 1.317 ± 0.038	3.964SerArg: 3.964 ± 0.052	3.21SerSer: 3.21 ± 0.06	3.515SerThr: 3.515 ± 0.052	4.653SerVal: 4.653 ± 0.067	0.967SerTrp: 0.967 ± 0.028	1.301SerTyr: 1.301 ± 0.031	0.0SerXaa: 0.0 ± 0.0
Thr	7.512ThrAla: 7.512 ± 0.089	0.476ThrCys: 0.476 ± 0.02	3.843ThrAsp: 3.843 ± 0.054	3.107ThrGlu: 3.107 ± 0.051	1.913ThrPhe: 1.913 ± 0.038	6.116ThrGly: 6.116 ± 0.076	1.277ThrHis: 1.277 ± 0.031	2.271ThrIle: 2.271 ± 0.04	1.127ThrLys: 1.127 ± 0.035	5.891ThrLeu: 5.891 ± 0.07	1.119ThrMet: 1.119 ± 0.032	1.103ThrAsn: 1.103 ± 0.032	4.049ThrPro: 4.049 ± 0.092	1.455ThrGln: 1.455 ± 0.038	4.1ThrArg: 4.1 ± 0.063	3.889ThrSer: 3.889 ± 0.062	4.456ThrThr: 4.456 ± 0.074	5.919ThrVal: 5.919 ± 0.074	1.083ThrTrp: 1.083 ± 0.03	1.475ThrTyr: 1.475 ± 0.038	0.0ThrXaa: 0.0 ± 0.0
Val	13.037ValAla: 13.037 ± 0.137	0.693ValCys: 0.693 ± 0.022	6.569ValAsp: 6.569 ± 0.067	5.88ValGlu: 5.88 ± 0.081	2.494ValPhe: 2.494 ± 0.045	8.084ValGly: 8.084 ± 0.087	2.113ValHis: 2.113 ± 0.041	3.028ValIle: 3.028 ± 0.048	1.628ValLys: 1.628 ± 0.045	10.477ValLeu: 10.477 ± 0.109	1.659ValMet: 1.659 ± 0.036	1.625ValAsn: 1.625 ± 0.037	5.38ValPro: 5.38 ± 0.065	2.218ValGln: 2.218 ± 0.045	7.31ValArg: 7.31 ± 0.083	4.805ValSer: 4.805 ± 0.065	6.092ValThr: 6.092 ± 0.075	11.303ValVal: 11.303 ± 0.115	1.21ValTrp: 1.21 ± 0.026	1.396ValTyr: 1.396 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	1.697TrpAla: 1.697 ± 0.04	0.15TrpCys: 0.15 ± 0.01	0.958TrpAsp: 0.958 ± 0.027	0.725TrpGlu: 0.725 ± 0.024	0.569TrpPhe: 0.569 ± 0.026	1.117TrpGly: 1.117 ± 0.03	0.394TrpHis: 0.394 ± 0.017	0.565TrpIle: 0.565 ± 0.021	0.298TrpLys: 0.298 ± 0.016	1.918TrpLeu: 1.918 ± 0.041	0.306TrpMet: 0.306 ± 0.017	0.342TrpAsn: 0.342 ± 0.016	0.757TrpPro: 0.757 ± 0.024	0.589TrpGln: 0.589 ± 0.022	1.308TrpArg: 1.308 ± 0.038	1.095TrpSer: 1.095 ± 0.032	1.074TrpThr: 1.074 ± 0.03	1.328TrpVal: 1.328 ± 0.032	0.441TrpTrp: 0.441 ± 0.019	0.286TrpTyr: 0.286 ± 0.016	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.494TyrAla: 2.494 ± 0.039	0.139TyrCys: 0.139 ± 0.009	1.734TyrAsp: 1.734 ± 0.039	0.994TyrGlu: 0.994 ± 0.029	0.595TyrPhe: 0.595 ± 0.024	1.815TyrGly: 1.815 ± 0.042	0.322TyrHis: 0.322 ± 0.014	0.429TyrIle: 0.429 ± 0.017	0.336TyrLys: 0.336 ± 0.014	1.935TyrLeu: 1.935 ± 0.045	0.206TyrMet: 0.206 ± 0.013	0.352TyrAsn: 0.352 ± 0.018	0.888TyrPro: 0.888 ± 0.024	0.457TyrGln: 0.457 ± 0.019	1.363TyrArg: 1.363 ± 0.036	0.914TyrSer: 0.914 ± 0.028	0.985TyrThr: 0.985 ± 0.03	1.904TyrVal: 1.904 ± 0.038	0.311TyrTrp: 0.311 ± 0.015	0.417TyrTyr: 0.417 ± 0.021	0.001TyrXaa: 0.001 ± 0.001
Xaa	0.003XaaAla: 0.003 ± 0.001	0.0XaaCys: 0.0 ± 0.0	0.0XaaAsp: 0.0 ± 0.0	0.0XaaGlu: 0.0 ± 0.0	0.0XaaPhe: 0.0 ± 0.0	0.001XaaGly: 0.001 ± 0.001	0.0XaaHis: 0.0 ± 0.0	0.0XaaIle: 0.0 ± 0.0	0.0XaaLys: 0.0 ± 0.0	0.001XaaLeu: 0.001 ± 0.001	0.0XaaMet: 0.0 ± 0.0	0.0XaaAsn: 0.0 ± 0.0	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.001XaaArg: 0.001 ± 0.001	0.0XaaSer: 0.0 ± 0.0	0.001XaaThr: 0.001 ± 0.001	0.001XaaVal: 0.001 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.002XaaXaa: 0.002 ± 0.002

Statistics based on 4143 proteins (1337500 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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