Amino acid dipepetide frequency for Pseudomonas yangmingensis

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	12.397AlaAla: 12.397 ± 0.168	1.267AlaCys: 1.267 ± 0.039	6.308AlaAsp: 6.308 ± 0.094	7.795AlaGlu: 7.795 ± 0.101	3.398AlaPhe: 3.398 ± 0.057	9.499AlaGly: 9.499 ± 0.134	2.114AlaHis: 2.114 ± 0.048	4.95AlaIle: 4.95 ± 0.081	2.526AlaLys: 2.526 ± 0.062	13.901AlaLeu: 13.901 ± 0.169	2.816AlaMet: 2.816 ± 0.057	2.734AlaAsn: 2.734 ± 0.063	4.028AlaPro: 4.028 ± 0.075	4.507AlaGln: 4.507 ± 0.07	7.507AlaArg: 7.507 ± 0.099	6.16AlaSer: 6.16 ± 0.078	4.303AlaThr: 4.303 ± 0.073	7.048AlaVal: 7.048 ± 0.104	1.541AlaTrp: 1.541 ± 0.047	1.941AlaTyr: 1.941 ± 0.05	0.0AlaXaa: 0.0 ± 0.0
Cys	1.028CysAla: 1.028 ± 0.037	0.16CysCys: 0.16 ± 0.012	0.588CysAsp: 0.588 ± 0.024	0.568CysGlu: 0.568 ± 0.025	0.395CysPhe: 0.395 ± 0.021	0.978CysGly: 0.978 ± 0.037	0.316CysHis: 0.316 ± 0.022	0.496CysIle: 0.496 ± 0.025	0.265CysLys: 0.265 ± 0.018	1.208CysLeu: 1.208 ± 0.038	0.242CysMet: 0.242 ± 0.015	0.318CysAsn: 0.318 ± 0.021	0.549CysPro: 0.549 ± 0.028	0.457CysGln: 0.457 ± 0.022	0.824CysArg: 0.824 ± 0.03	0.658CysSer: 0.658 ± 0.027	0.447CysThr: 0.447 ± 0.023	0.671CysVal: 0.671 ± 0.029	0.16CysTrp: 0.16 ± 0.012	0.242CysTyr: 0.242 ± 0.017	0.0CysXaa: 0.0 ± 0.0
Asp	5.471AspAla: 5.471 ± 0.082	0.707AspCys: 0.707 ± 0.032	2.962AspAsp: 2.962 ± 0.063	3.412AspGlu: 3.412 ± 0.066	1.928AspPhe: 1.928 ± 0.047	4.426AspGly: 4.426 ± 0.082	1.086AspHis: 1.086 ± 0.03	2.894AspIle: 2.894 ± 0.067	1.679AspLys: 1.679 ± 0.047	6.01AspLeu: 6.01 ± 0.094	1.46AspMet: 1.46 ± 0.037	1.778AspAsn: 1.778 ± 0.051	2.885AspPro: 2.885 ± 0.059	2.72AspGln: 2.72 ± 0.051	3.285AspArg: 3.285 ± 0.06	3.475AspSer: 3.475 ± 0.068	2.373AspThr: 2.373 ± 0.054	3.392AspVal: 3.392 ± 0.072	1.238AspTrp: 1.238 ± 0.041	1.714AspTyr: 1.714 ± 0.046	0.0AspXaa: 0.0 ± 0.0
Glu	6.468GluAla: 6.468 ± 0.085	0.493GluCys: 0.493 ± 0.022	2.848GluAsp: 2.848 ± 0.06	3.174GluGlu: 3.174 ± 0.071	1.869GluPhe: 1.869 ± 0.047	3.797GluGly: 3.797 ± 0.066	1.628GluHis: 1.628 ± 0.043	2.846GluIle: 2.846 ± 0.062	1.854GluLys: 1.854 ± 0.052	7.731GluLeu: 7.731 ± 0.091	1.417GluMet: 1.417 ± 0.039	1.488GluAsn: 1.488 ± 0.041	2.547GluPro: 2.547 ± 0.054	5.028GluGln: 5.028 ± 0.086	5.2GluArg: 5.2 ± 0.079	2.688GluSer: 2.688 ± 0.057	2.355GluThr: 2.355 ± 0.049	4.196GluVal: 4.196 ± 0.078	0.728GluTrp: 0.728 ± 0.028	1.277GluTyr: 1.277 ± 0.039	0.0GluXaa: 0.0 ± 0.0
Phe	3.728PheAla: 3.728 ± 0.066	0.452PheCys: 0.452 ± 0.023	2.312PheAsp: 2.312 ± 0.054	2.084PheGlu: 2.084 ± 0.055	1.298PhePhe: 1.298 ± 0.047	2.863PheGly: 2.863 ± 0.059	0.676PheHis: 0.676 ± 0.028	1.738PheIle: 1.738 ± 0.046	1.015PheLys: 1.015 ± 0.031	3.009PheLeu: 3.009 ± 0.064	0.888PheMet: 0.888 ± 0.029	1.292PheAsn: 1.292 ± 0.038	1.3PhePro: 1.3 ± 0.035	1.099PheGln: 1.099 ± 0.035	1.982PheArg: 1.982 ± 0.045	2.393PheSer: 2.393 ± 0.053	1.692PheThr: 1.692 ± 0.039	2.406PheVal: 2.406 ± 0.053	0.54PheTrp: 0.54 ± 0.027	0.954PheTyr: 0.954 ± 0.026	0.0PheXaa: 0.0 ± 0.0
Gly	6.596GlyAla: 6.596 ± 0.095	1.06GlyCys: 1.06 ± 0.036	3.874GlyAsp: 3.874 ± 0.062	4.812GlyGlu: 4.812 ± 0.068	3.185GlyPhe: 3.185 ± 0.07	5.688GlyGly: 5.688 ± 0.097	1.874GlyHis: 1.874 ± 0.046	4.213GlyIle: 4.213 ± 0.076	3.048GlyLys: 3.048 ± 0.062	9.306GlyLeu: 9.306 ± 0.121	2.439GlyMet: 2.439 ± 0.048	2.596GlyAsn: 2.596 ± 0.061	2.416GlyPro: 2.416 ± 0.052	3.849GlyGln: 3.849 ± 0.069	5.347GlyArg: 5.347 ± 0.088	4.787GlySer: 4.787 ± 0.085	3.384GlyThr: 3.384 ± 0.071	5.764GlyVal: 5.764 ± 0.096	1.412GlyTrp: 1.412 ± 0.039	2.273GlyTyr: 2.273 ± 0.054	0.0GlyXaa: 0.0 ± 0.0
His	2.432HisAla: 2.432 ± 0.06	0.347HisCys: 0.347 ± 0.023	1.248HisAsp: 1.248 ± 0.037	1.172HisGlu: 1.172 ± 0.038	0.89HisPhe: 0.89 ± 0.028	2.0HisGly: 2.0 ± 0.047	0.574HisHis: 0.574 ± 0.027	1.09HisIle: 1.09 ± 0.031	0.621HisLys: 0.621 ± 0.027	2.558HisLeu: 2.558 ± 0.053	0.532HisMet: 0.532 ± 0.026	0.731HisAsn: 0.731 ± 0.032	1.499HisPro: 1.499 ± 0.041	1.151HisGln: 1.151 ± 0.032	1.389HisArg: 1.389 ± 0.036	1.421HisSer: 1.421 ± 0.04	0.953HisThr: 0.953 ± 0.033	1.281HisVal: 1.281 ± 0.041	0.493HisTrp: 0.493 ± 0.026	0.79HisTyr: 0.79 ± 0.031	0.0HisXaa: 0.0 ± 0.0
Ile	5.545IleAla: 5.545 ± 0.077	0.504IleCys: 0.504 ± 0.024	3.43IleAsp: 3.43 ± 0.067	3.698IleGlu: 3.698 ± 0.066	1.388IlePhe: 1.388 ± 0.04	4.292IleGly: 4.292 ± 0.084	1.002IleHis: 1.002 ± 0.03	2.25IleIle: 2.25 ± 0.056	1.483IleLys: 1.483 ± 0.044	4.166IleLeu: 4.166 ± 0.079	0.867IleMet: 0.867 ± 0.029	1.889IleAsn: 1.889 ± 0.053	2.188IlePro: 2.188 ± 0.053	1.673IleGln: 1.673 ± 0.042	3.355IleArg: 3.355 ± 0.062	3.122IleSer: 3.122 ± 0.054	2.505IleThr: 2.505 ± 0.05	2.773IleVal: 2.773 ± 0.066	0.487IleTrp: 0.487 ± 0.025	1.071IleTyr: 1.071 ± 0.033	0.0IleXaa: 0.0 ± 0.0
Lys	3.3LysAla: 3.3 ± 0.07	0.168LysCys: 0.168 ± 0.014	1.427LysAsp: 1.427 ± 0.043	1.273LysGlu: 1.273 ± 0.041	0.716LysPhe: 0.716 ± 0.03	2.24LysGly: 2.24 ± 0.055	0.655LysHis: 0.655 ± 0.027	1.349LysIle: 1.349 ± 0.043	1.155LysLys: 1.155 ± 0.044	3.145LysLeu: 3.145 ± 0.071	0.617LysMet: 0.617 ± 0.029	0.826LysAsn: 0.826 ± 0.033	1.731LysPro: 1.731 ± 0.043	1.452LysGln: 1.452 ± 0.036	2.218LysArg: 2.218 ± 0.057	1.535LysSer: 1.535 ± 0.044	1.535LysThr: 1.535 ± 0.049	2.209LysVal: 2.209 ± 0.054	0.275LysTrp: 0.275 ± 0.018	0.619LysTyr: 0.619 ± 0.029	0.0LysXaa: 0.0 ± 0.0
Leu	14.532LeuAla: 14.532 ± 0.158	1.357LeuCys: 1.357 ± 0.045	7.221LeuAsp: 7.221 ± 0.089	7.015LeuGlu: 7.015 ± 0.092	4.112LeuPhe: 4.112 ± 0.081	9.341LeuGly: 9.341 ± 0.126	2.768LeuHis: 2.768 ± 0.06	5.487LeuIle: 5.487 ± 0.089	3.542LeuLys: 3.542 ± 0.073	16.462LeuLeu: 16.462 ± 0.261	2.696LeuMet: 2.696 ± 0.053	3.346LeuAsn: 3.346 ± 0.061	6.842LeuPro: 6.842 ± 0.11	7.095LeuGln: 7.095 ± 0.144	8.753LeuArg: 8.753 ± 0.124	6.736LeuSer: 6.736 ± 0.094	5.292LeuThr: 5.292 ± 0.078	8.147LeuVal: 8.147 ± 0.101	1.622LeuTrp: 1.622 ± 0.045	2.406LeuTyr: 2.406 ± 0.051	0.0LeuXaa: 0.0 ± 0.0
Met	2.709MetAla: 2.709 ± 0.054	0.181MetCys: 0.181 ± 0.014	1.174MetAsp: 1.174 ± 0.035	0.976MetGlu: 0.976 ± 0.036	0.61MetPhe: 0.61 ± 0.026	1.718MetGly: 1.718 ± 0.052	0.628MetHis: 0.628 ± 0.024	1.149MetIle: 1.149 ± 0.037	0.819MetLys: 0.819 ± 0.03	3.188MetLeu: 3.188 ± 0.063	0.504MetMet: 0.504 ± 0.025	0.774MetAsn: 0.774 ± 0.029	1.417MetPro: 1.417 ± 0.042	1.482MetGln: 1.482 ± 0.038	1.699MetArg: 1.699 ± 0.046	1.581MetSer: 1.581 ± 0.043	1.384MetThr: 1.384 ± 0.036	1.59MetVal: 1.59 ± 0.044	0.16MetTrp: 0.16 ± 0.014	0.367MetTyr: 0.367 ± 0.018	0.0MetXaa: 0.0 ± 0.0
Asn	3.047AsnAla: 3.047 ± 0.062	0.294AsnCys: 0.294 ± 0.017	1.45AsnAsp: 1.45 ± 0.043	1.456AsnGlu: 1.456 ± 0.039	0.949AsnPhe: 0.949 ± 0.032	2.247AsnGly: 2.247 ± 0.051	0.678AsnHis: 0.678 ± 0.027	1.485AsnIle: 1.485 ± 0.041	0.797AsnLys: 0.797 ± 0.032	3.481AsnLeu: 3.481 ± 0.074	0.675AsnMet: 0.675 ± 0.029	0.955AsnAsn: 0.955 ± 0.038	2.019AsnPro: 2.019 ± 0.054	1.442AsnGln: 1.442 ± 0.044	2.166AsnArg: 2.166 ± 0.054	1.593AsnSer: 1.593 ± 0.039	1.505AsnThr: 1.505 ± 0.037	1.651AsnVal: 1.651 ± 0.042	0.46AsnTrp: 0.46 ± 0.023	0.759AsnTyr: 0.759 ± 0.029	0.0AsnXaa: 0.0 ± 0.0
Pro	5.794ProAla: 5.794 ± 0.094	0.393ProCys: 0.393 ± 0.023	3.058ProAsp: 3.058 ± 0.065	3.634ProGlu: 3.634 ± 0.061	1.594ProPhe: 1.594 ± 0.048	4.235ProGly: 4.235 ± 0.07	1.023ProHis: 1.023 ± 0.036	1.774ProIle: 1.774 ± 0.051	1.128ProLys: 1.128 ± 0.033	5.93ProLeu: 5.93 ± 0.097	1.173ProMet: 1.173 ± 0.037	1.149ProAsn: 1.149 ± 0.034	2.016ProPro: 2.016 ± 0.058	2.555ProGln: 2.555 ± 0.056	2.685ProArg: 2.685 ± 0.06	2.232ProSer: 2.232 ± 0.05	1.878ProThr: 1.878 ± 0.047	3.896ProVal: 3.896 ± 0.076	0.732ProTrp: 0.732 ± 0.029	0.994ProTyr: 0.994 ± 0.034	0.0ProXaa: 0.0 ± 0.0
Gln	6.62GlnAla: 6.62 ± 0.102	0.398GlnCys: 0.398 ± 0.023	1.957GlnAsp: 1.957 ± 0.047	2.021GlnGlu: 2.021 ± 0.053	1.304GlnPhe: 1.304 ± 0.038	3.656GlnGly: 3.656 ± 0.064	1.481GlnHis: 1.481 ± 0.043	2.225GlnIle: 2.225 ± 0.05	1.065GlnLys: 1.065 ± 0.037	7.425GlnLeu: 7.425 ± 0.142	1.151GlnMet: 1.151 ± 0.031	1.049GlnAsn: 1.049 ± 0.032	3.162GlnPro: 3.162 ± 0.069	4.427GlnGln: 4.427 ± 0.097	4.996GlnArg: 4.996 ± 0.098	2.58GlnSer: 2.58 ± 0.056	2.123GlnThr: 2.123 ± 0.05	3.73GlnVal: 3.73 ± 0.077	0.735GlnTrp: 0.735 ± 0.028	1.002GlnTyr: 1.002 ± 0.03	0.0GlnXaa: 0.0 ± 0.0
Arg	6.212ArgAla: 6.212 ± 0.083	0.656ArgCys: 0.656 ± 0.03	3.8ArgAsp: 3.8 ± 0.066	4.858ArgGlu: 4.858 ± 0.066	2.748ArgPhe: 2.748 ± 0.05	4.338ArgGly: 4.338 ± 0.064	2.017ArgHis: 2.017 ± 0.046	3.991ArgIle: 3.991 ± 0.065	2.047ArgLys: 2.047 ± 0.053	9.742ArgLeu: 9.742 ± 0.119	1.858ArgMet: 1.858 ± 0.043	2.184ArgAsn: 2.184 ± 0.056	2.982ArgPro: 2.982 ± 0.053	4.465ArgGln: 4.465 ± 0.092	5.141ArgArg: 5.141 ± 0.098	3.959ArgSer: 3.959 ± 0.075	2.709ArgThr: 2.709 ± 0.058	4.826ArgVal: 4.826 ± 0.078	1.2ArgTrp: 1.2 ± 0.035	2.026ArgTyr: 2.026 ± 0.046	0.0ArgXaa: 0.0 ± 0.0
Ser	5.89SerAla: 5.89 ± 0.086	0.565SerCys: 0.565 ± 0.025	2.958SerAsp: 2.958 ± 0.065	3.254SerGlu: 3.254 ± 0.06	2.07SerPhe: 2.07 ± 0.047	5.144SerGly: 5.144 ± 0.088	1.327SerHis: 1.327 ± 0.042	2.693SerIle: 2.693 ± 0.05	1.505SerLys: 1.505 ± 0.043	7.358SerLeu: 7.358 ± 0.102	1.419SerMet: 1.419 ± 0.037	1.705SerAsn: 1.705 ± 0.045	2.509SerPro: 2.509 ± 0.046	2.714SerGln: 2.714 ± 0.059	4.106SerArg: 4.106 ± 0.067	3.426SerSer: 3.426 ± 0.077	2.566SerThr: 2.566 ± 0.047	3.766SerVal: 3.766 ± 0.061	0.859SerTrp: 0.859 ± 0.032	1.361SerTyr: 1.361 ± 0.04	0.0SerXaa: 0.0 ± 0.0
Thr	4.657ThrAla: 4.657 ± 0.074	0.413ThrCys: 0.413 ± 0.023	2.488ThrAsp: 2.488 ± 0.051	2.349ThrGlu: 2.349 ± 0.048	1.366ThrPhe: 1.366 ± 0.043	4.17ThrGly: 4.17 ± 0.064	0.944ThrHis: 0.944 ± 0.031	1.748ThrIle: 1.748 ± 0.045	0.921ThrLys: 0.921 ± 0.04	6.44ThrLeu: 6.44 ± 0.082	0.743ThrMet: 0.743 ± 0.028	1.09ThrAsn: 1.09 ± 0.036	2.812ThrPro: 2.812 ± 0.057	1.682ThrGln: 1.682 ± 0.041	3.277ThrArg: 3.277 ± 0.061	2.485ThrSer: 2.485 ± 0.055	2.078ThrThr: 2.078 ± 0.046	2.876ThrVal: 2.876 ± 0.058	0.457ThrTrp: 0.457 ± 0.024	0.897ThrTyr: 0.897 ± 0.03	0.0ThrXaa: 0.0 ± 0.0
Val	7.022ValAla: 7.022 ± 0.1	0.725ValCys: 0.725 ± 0.03	3.956ValAsp: 3.956 ± 0.079	4.432ValGlu: 4.432 ± 0.076	2.462ValPhe: 2.462 ± 0.067	4.645ValGly: 4.645 ± 0.085	1.383ValHis: 1.383 ± 0.037	3.77ValIle: 3.77 ± 0.074	2.009ValLys: 2.009 ± 0.059	8.097ValLeu: 8.097 ± 0.103	1.771ValMet: 1.771 ± 0.045	2.136ValAsn: 2.136 ± 0.055	3.023ValPro: 3.023 ± 0.065	2.738ValGln: 2.738 ± 0.053	4.57ValArg: 4.57 ± 0.07	4.236ValSer: 4.236 ± 0.073	3.244ValThr: 3.244 ± 0.065	5.191ValVal: 5.191 ± 0.08	0.868ValTrp: 0.868 ± 0.03	1.409ValTyr: 1.409 ± 0.033	0.0ValXaa: 0.0 ± 0.0
Trp	1.064TrpAla: 1.064 ± 0.041	0.158TrpCys: 0.158 ± 0.012	0.613TrpAsp: 0.613 ± 0.026	0.622TrpGlu: 0.622 ± 0.024	0.536TrpPhe: 0.536 ± 0.024	0.859TrpGly: 0.859 ± 0.033	0.442TrpHis: 0.442 ± 0.024	0.617TrpIle: 0.617 ± 0.027	0.36TrpLys: 0.36 ± 0.023	2.713TrpLeu: 2.713 ± 0.069	0.371TrpMet: 0.371 ± 0.019	0.385TrpAsn: 0.385 ± 0.019	0.735TrpPro: 0.735 ± 0.031	1.234TrpGln: 1.234 ± 0.044	1.16TrpArg: 1.16 ± 0.042	0.732TrpSer: 0.732 ± 0.029	0.532TrpThr: 0.532 ± 0.023	0.908TrpVal: 0.908 ± 0.033	0.245TrpTrp: 0.245 ± 0.018	0.342TrpTyr: 0.342 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.228TyrAla: 2.228 ± 0.056	0.274TyrCys: 0.274 ± 0.018	1.223TyrAsp: 1.223 ± 0.042	1.025TyrGlu: 1.025 ± 0.036	0.902TyrPhe: 0.902 ± 0.031	1.789TyrGly: 1.789 ± 0.043	0.554TyrHis: 0.554 ± 0.025	0.924TyrIle: 0.924 ± 0.031	0.607TyrLys: 0.607 ± 0.025	2.906TyrLeu: 2.906 ± 0.051	0.47TyrMet: 0.47 ± 0.023	0.686TyrAsn: 0.686 ± 0.027	1.213TyrPro: 1.213 ± 0.036	1.339TyrGln: 1.339 ± 0.037	2.1TyrArg: 2.1 ± 0.044	1.395TyrSer: 1.395 ± 0.036	1.035TyrThr: 1.035 ± 0.034	1.362TyrVal: 1.362 ± 0.041	0.414TyrTrp: 0.414 ± 0.021	0.631TyrTyr: 0.631 ± 0.029	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 2926 proteins (953707 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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