Amino acid dipepetide frequency for Sphingomonas sp. HMWF008

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	20.339AlaAla: 20.339 ± 0.222	1.028AlaCys: 1.028 ± 0.039	7.539AlaAsp: 7.539 ± 0.092	7.156AlaGlu: 7.156 ± 0.108	4.66AlaPhe: 4.66 ± 0.066	11.02AlaGly: 11.02 ± 0.115	2.398AlaHis: 2.398 ± 0.052	7.176AlaIle: 7.176 ± 0.103	4.424AlaLys: 4.424 ± 0.089	14.515AlaLeu: 14.515 ± 0.148	3.893AlaMet: 3.893 ± 0.057	3.309AlaAsn: 3.309 ± 0.074	6.723AlaPro: 6.723 ± 0.087	4.521AlaGln: 4.521 ± 0.075	9.911AlaArg: 9.911 ± 0.132	6.694AlaSer: 6.694 ± 0.094	7.776AlaThr: 7.776 ± 0.109	9.22AlaVal: 9.22 ± 0.114	1.745AlaTrp: 1.745 ± 0.049	2.714AlaTyr: 2.714 ± 0.057	0.006AlaXaa: 0.006 ± 0.002
Cys	0.972CysAla: 0.972 ± 0.033	0.088CysCys: 0.088 ± 0.011	0.48CysAsp: 0.48 ± 0.022	0.338CysGlu: 0.338 ± 0.018	0.274CysPhe: 0.274 ± 0.016	0.8CysGly: 0.8 ± 0.031	0.174CysHis: 0.174 ± 0.015	0.339CysIle: 0.339 ± 0.019	0.154CysLys: 0.154 ± 0.013	0.651CysLeu: 0.651 ± 0.027	0.13CysMet: 0.13 ± 0.011	0.164CysAsn: 0.164 ± 0.013	0.406CysPro: 0.406 ± 0.019	0.19CysGln: 0.19 ± 0.014	0.531CysArg: 0.531 ± 0.025	0.399CysSer: 0.399 ± 0.019	0.386CysThr: 0.386 ± 0.017	0.547CysVal: 0.547 ± 0.028	0.103CysTrp: 0.103 ± 0.01	0.173CysTyr: 0.173 ± 0.016	0.0CysXaa: 0.0 ± 0.0
Asp	8.117AspAla: 8.117 ± 0.109	0.42AspCys: 0.42 ± 0.024	3.242AspAsp: 3.242 ± 0.07	2.872AspGlu: 2.872 ± 0.063	2.28AspPhe: 2.28 ± 0.052	5.607AspGly: 5.607 ± 0.093	1.252AspHis: 1.252 ± 0.042	2.715AspIle: 2.715 ± 0.049	1.675AspLys: 1.675 ± 0.044	5.901AspLeu: 5.901 ± 0.083	1.291AspMet: 1.291 ± 0.035	1.277AspAsn: 1.277 ± 0.042	3.898AspPro: 3.898 ± 0.07	1.859AspGln: 1.859 ± 0.051	4.754AspArg: 4.754 ± 0.077	2.346AspSer: 2.346 ± 0.052	3.006AspThr: 3.006 ± 0.066	4.224AspVal: 4.224 ± 0.068	1.065AspTrp: 1.065 ± 0.035	1.616AspTyr: 1.616 ± 0.041	0.0AspXaa: 0.0 ± 0.0
Glu	6.937GluAla: 6.937 ± 0.11	0.276GluCys: 0.276 ± 0.016	2.412GluAsp: 2.412 ± 0.055	2.31GluGlu: 2.31 ± 0.065	1.361GluPhe: 1.361 ± 0.038	3.843GluGly: 3.843 ± 0.068	1.077GluHis: 1.077 ± 0.037	2.864GluIle: 2.864 ± 0.053	1.576GluLys: 1.576 ± 0.05	4.464GluLeu: 4.464 ± 0.066	1.276GluMet: 1.276 ± 0.038	1.157GluAsn: 1.157 ± 0.038	2.273GluPro: 2.273 ± 0.058	1.878GluGln: 1.878 ± 0.046	4.462GluArg: 4.462 ± 0.073	2.19GluSer: 2.19 ± 0.052	3.171GluThr: 3.171 ± 0.056	3.277GluVal: 3.277 ± 0.069	0.689GluTrp: 0.689 ± 0.029	0.911GluTyr: 0.911 ± 0.031	0.0GluXaa: 0.0 ± 0.0
Phe	4.989PheAla: 4.989 ± 0.073	0.297PheCys: 0.297 ± 0.015	2.9PheAsp: 2.9 ± 0.061	1.948PheGlu: 1.948 ± 0.049	1.308PhePhe: 1.308 ± 0.039	3.833PheGly: 3.833 ± 0.07	0.71PheHis: 0.71 ± 0.028	1.391PheIle: 1.391 ± 0.041	0.95PheLys: 0.95 ± 0.033	3.106PheLeu: 3.106 ± 0.065	0.699PheMet: 0.699 ± 0.029	1.123PheAsn: 1.123 ± 0.043	1.496PhePro: 1.496 ± 0.038	0.92PheGln: 0.92 ± 0.033	2.178PheArg: 2.178 ± 0.051	1.956PheSer: 1.956 ± 0.05	2.121PheThr: 2.121 ± 0.053	2.794PheVal: 2.794 ± 0.059	0.515PheTrp: 0.515 ± 0.025	0.944PheTyr: 0.944 ± 0.038	0.0PheXaa: 0.0 ± 0.0
Gly	10.28GlyAla: 10.28 ± 0.118	0.757GlyCys: 0.757 ± 0.029	4.957GlyAsp: 4.957 ± 0.075	4.281GlyGlu: 4.281 ± 0.065	3.755GlyPhe: 3.755 ± 0.058	8.325GlyGly: 8.325 ± 0.138	1.74GlyHis: 1.74 ± 0.048	4.504GlyIle: 4.504 ± 0.074	3.234GlyLys: 3.234 ± 0.06	8.378GlyLeu: 8.378 ± 0.092	2.211GlyMet: 2.211 ± 0.054	2.337GlyAsn: 2.337 ± 0.071	3.687GlyPro: 3.687 ± 0.068	2.941GlyGln: 2.941 ± 0.052	5.867GlyArg: 5.867 ± 0.092	5.039GlySer: 5.039 ± 0.086	5.427GlyThr: 5.427 ± 0.101	6.732GlyVal: 6.732 ± 0.08	1.683GlyTrp: 1.683 ± 0.046	2.429GlyTyr: 2.429 ± 0.053	0.006GlyXaa: 0.006 ± 0.003
His	2.382HisAla: 2.382 ± 0.059	0.174HisCys: 0.174 ± 0.013	1.23HisAsp: 1.23 ± 0.039	0.841HisGlu: 0.841 ± 0.032	0.841HisPhe: 0.841 ± 0.028	1.893HisGly: 1.893 ± 0.052	0.543HisHis: 0.543 ± 0.029	0.905HisIle: 0.905 ± 0.03	0.409HisLys: 0.409 ± 0.021	1.823HisLeu: 1.823 ± 0.053	0.357HisMet: 0.357 ± 0.019	0.409HisAsn: 0.409 ± 0.022	1.267HisPro: 1.267 ± 0.039	0.513HisGln: 0.513 ± 0.024	1.374HisArg: 1.374 ± 0.043	0.92HisSer: 0.92 ± 0.033	0.77HisThr: 0.77 ± 0.026	1.526HisVal: 1.526 ± 0.037	0.306HisTrp: 0.306 ± 0.019	0.544HisTyr: 0.544 ± 0.024	0.0HisXaa: 0.0 ± 0.0
Ile	8.589IleAla: 8.589 ± 0.105	0.411IleCys: 0.411 ± 0.022	4.202IleAsp: 4.202 ± 0.066	3.377IleGlu: 3.377 ± 0.061	1.488IlePhe: 1.488 ± 0.044	5.351IleGly: 5.351 ± 0.083	0.787IleHis: 0.787 ± 0.029	1.946IleIle: 1.946 ± 0.047	1.275IleLys: 1.275 ± 0.045	4.028IleLeu: 4.028 ± 0.071	0.802IleMet: 0.802 ± 0.033	1.27IleAsn: 1.27 ± 0.042	2.265IlePro: 2.265 ± 0.047	1.128IleGln: 1.128 ± 0.038	3.051IleArg: 3.051 ± 0.051	2.558IleSer: 2.558 ± 0.059	2.744IleThr: 2.744 ± 0.06	4.553IleVal: 4.553 ± 0.073	0.541IleTrp: 0.541 ± 0.024	0.954IleTyr: 0.954 ± 0.028	0.0IleXaa: 0.0 ± 0.0
Lys	3.955LysAla: 3.955 ± 0.082	0.147LysCys: 0.147 ± 0.012	1.472LysAsp: 1.472 ± 0.045	1.053LysGlu: 1.053 ± 0.039	0.894LysPhe: 0.894 ± 0.034	2.523LysGly: 2.523 ± 0.053	0.489LysHis: 0.489 ± 0.023	1.593LysIle: 1.593 ± 0.044	0.978LysLys: 0.978 ± 0.04	3.297LysLeu: 3.297 ± 0.063	0.746LysMet: 0.746 ± 0.032	0.689LysAsn: 0.689 ± 0.025	2.031LysPro: 2.031 ± 0.051	0.918LysGln: 0.918 ± 0.033	2.286LysArg: 2.286 ± 0.05	1.471LysSer: 1.471 ± 0.039	1.837LysThr: 1.837 ± 0.051	2.177LysVal: 2.177 ± 0.05	0.376LysTrp: 0.376 ± 0.019	0.633LysTyr: 0.633 ± 0.028	0.0LysXaa: 0.0 ± 0.0
Leu	13.926LeuAla: 13.926 ± 0.141	0.772LeuCys: 0.772 ± 0.029	6.158LeuAsp: 6.158 ± 0.089	4.233LeuGlu: 4.233 ± 0.066	3.611LeuPhe: 3.611 ± 0.072	8.564LeuGly: 8.564 ± 0.097	1.829LeuHis: 1.829 ± 0.049	4.993LeuIle: 4.993 ± 0.078	3.015LeuLys: 3.015 ± 0.061	9.323LeuLeu: 9.323 ± 0.136	1.951LeuMet: 1.951 ± 0.046	2.531LeuAsn: 2.531 ± 0.056	5.515LeuPro: 5.515 ± 0.07	2.612LeuGln: 2.612 ± 0.06	6.756LeuArg: 6.756 ± 0.106	6.001LeuSer: 6.001 ± 0.085	5.982LeuThr: 5.982 ± 0.08	7.074LeuVal: 7.074 ± 0.106	1.28LeuTrp: 1.28 ± 0.047	2.118LeuTyr: 2.118 ± 0.045	0.006LeuXaa: 0.006 ± 0.003
Met	3.004MetAla: 3.004 ± 0.057	0.129MetCys: 0.129 ± 0.011	0.966MetAsp: 0.966 ± 0.033	0.9MetGlu: 0.9 ± 0.033	0.667MetPhe: 0.667 ± 0.024	1.667MetGly: 1.667 ± 0.043	0.4MetHis: 0.4 ± 0.022	1.429MetIle: 1.429 ± 0.039	0.854MetLys: 0.854 ± 0.031	2.522MetLeu: 2.522 ± 0.058	0.589MetMet: 0.589 ± 0.025	0.639MetAsn: 0.639 ± 0.022	1.382MetPro: 1.382 ± 0.038	0.665MetGln: 0.665 ± 0.026	1.676MetArg: 1.676 ± 0.042	1.356MetSer: 1.356 ± 0.036	1.757MetThr: 1.757 ± 0.042	1.628MetVal: 1.628 ± 0.044	0.205MetTrp: 0.205 ± 0.014	0.282MetTyr: 0.282 ± 0.017	0.0MetXaa: 0.0 ± 0.0
Asn	3.489AsnAla: 3.489 ± 0.074	0.215AsnCys: 0.215 ± 0.014	1.453AsnAsp: 1.453 ± 0.047	0.969AsnGlu: 0.969 ± 0.034	1.007AsnPhe: 1.007 ± 0.04	2.483AsnGly: 2.483 ± 0.066	0.453AsnHis: 0.453 ± 0.026	1.311AsnIle: 1.311 ± 0.04	0.632AsnLys: 0.632 ± 0.03	2.44AsnLeu: 2.44 ± 0.058	0.506AsnMet: 0.506 ± 0.021	0.668AsnAsn: 0.668 ± 0.033	1.86AsnPro: 1.86 ± 0.041	0.776AsnGln: 0.776 ± 0.034	1.765AsnArg: 1.765 ± 0.048	1.184AsnSer: 1.184 ± 0.042	1.329AsnThr: 1.329 ± 0.05	1.962AsnVal: 1.962 ± 0.049	0.407AsnTrp: 0.407 ± 0.02	0.748AsnTyr: 0.748 ± 0.031	0.0AsnXaa: 0.0 ± 0.0
Pro	7.032ProAla: 7.032 ± 0.101	0.289ProCys: 0.289 ± 0.016	3.733ProAsp: 3.733 ± 0.071	3.187ProGlu: 3.187 ± 0.059	1.96ProPhe: 1.96 ± 0.046	4.959ProGly: 4.959 ± 0.083	1.048ProHis: 1.048 ± 0.039	2.717ProIle: 2.717 ± 0.053	1.582ProLys: 1.582 ± 0.038	4.981ProLeu: 4.981 ± 0.079	1.127ProMet: 1.127 ± 0.031	1.42ProAsn: 1.42 ± 0.033	2.88ProPro: 2.88 ± 0.075	1.588ProGln: 1.588 ± 0.041	3.013ProArg: 3.013 ± 0.061	2.76ProSer: 2.76 ± 0.054	3.127ProThr: 3.127 ± 0.072	4.351ProVal: 4.351 ± 0.076	0.677ProTrp: 0.677 ± 0.03	1.16ProTyr: 1.16 ± 0.035	0.004ProXaa: 0.004 ± 0.002
Gln	4.155GlnAla: 4.155 ± 0.066	0.23GlnCys: 0.23 ± 0.015	1.403GlnAsp: 1.403 ± 0.039	1.094GlnGlu: 1.094 ± 0.039	1.1GlnPhe: 1.1 ± 0.032	2.31GlnGly: 2.31 ± 0.049	0.59GlnHis: 0.59 ± 0.026	1.928GlnIle: 1.928 ± 0.042	0.841GlnLys: 0.841 ± 0.034	2.868GlnLeu: 2.868 ± 0.059	0.757GlnMet: 0.757 ± 0.032	0.85GlnAsn: 0.85 ± 0.034	1.733GlnPro: 1.733 ± 0.041	1.134GlnGln: 1.134 ± 0.039	2.532GlnArg: 2.532 ± 0.054	1.779GlnSer: 1.779 ± 0.045	1.836GlnThr: 1.836 ± 0.051	2.183GlnVal: 2.183 ± 0.046	0.415GlnTrp: 0.415 ± 0.02	0.611GlnTyr: 0.611 ± 0.029	0.0GlnXaa: 0.0 ± 0.0
Arg	9.359ArgAla: 9.359 ± 0.113	0.434ArgCys: 0.434 ± 0.021	4.368ArgAsp: 4.368 ± 0.071	3.472ArgGlu: 3.472 ± 0.071	2.991ArgPhe: 2.991 ± 0.058	5.237ArgGly: 5.237 ± 0.073	1.537ArgHis: 1.537 ± 0.045	4.102ArgIle: 4.102 ± 0.06	1.916ArgLys: 1.916 ± 0.05	7.525ArgLeu: 7.525 ± 0.099	1.764ArgMet: 1.764 ± 0.048	1.745ArgAsn: 1.745 ± 0.043	3.529ArgPro: 3.529 ± 0.067	2.2ArgGln: 2.2 ± 0.054	5.41ArgArg: 5.41 ± 0.097	3.631ArgSer: 3.631 ± 0.059	3.712ArgThr: 3.712 ± 0.067	4.971ArgVal: 4.971 ± 0.077	1.176ArgTrp: 1.176 ± 0.037	1.881ArgTyr: 1.881 ± 0.043	0.003ArgXaa: 0.003 ± 0.002
Ser	6.843SerAla: 6.843 ± 0.099	0.373SerCys: 0.373 ± 0.022	3.2SerAsp: 3.2 ± 0.058	2.304SerGlu: 2.304 ± 0.045	2.14SerPhe: 2.14 ± 0.052	5.552SerGly: 5.552 ± 0.101	0.879SerHis: 0.879 ± 0.029	2.701SerIle: 2.701 ± 0.056	1.434SerLys: 1.434 ± 0.041	4.918SerLeu: 4.918 ± 0.076	1.039SerMet: 1.039 ± 0.033	1.502SerAsn: 1.502 ± 0.044	2.841SerPro: 2.841 ± 0.051	1.428SerGln: 1.428 ± 0.038	3.199SerArg: 3.199 ± 0.063	2.841SerSer: 2.841 ± 0.071	2.899SerThr: 2.899 ± 0.074	4.148SerVal: 4.148 ± 0.069	0.732SerTrp: 0.732 ± 0.028	1.44SerTyr: 1.44 ± 0.047	0.0SerXaa: 0.0 ± 0.0
Thr	7.433ThrAla: 7.433 ± 0.102	0.394ThrCys: 0.394 ± 0.023	3.084ThrAsp: 3.084 ± 0.06	2.347ThrGlu: 2.347 ± 0.049	1.935ThrPhe: 1.935 ± 0.045	5.606ThrGly: 5.606 ± 0.094	1.044ThrHis: 1.044 ± 0.032	3.42ThrIle: 3.42 ± 0.062	1.537ThrLys: 1.537 ± 0.047	6.584ThrLeu: 6.584 ± 0.093	1.295ThrMet: 1.295 ± 0.034	1.543ThrAsn: 1.543 ± 0.051	3.89ThrPro: 3.89 ± 0.072	1.621ThrGln: 1.621 ± 0.045	3.741ThrArg: 3.741 ± 0.059	2.876ThrSer: 2.876 ± 0.073	3.361ThrThr: 3.361 ± 0.094	4.669ThrVal: 4.669 ± 0.086	0.637ThrTrp: 0.637 ± 0.03	1.24ThrTyr: 1.24 ± 0.053	0.005ThrXaa: 0.005 ± 0.002
Val	10.573ValAla: 10.573 ± 0.121	0.524ValCys: 0.524 ± 0.025	4.333ValAsp: 4.333 ± 0.069	4.14ValGlu: 4.14 ± 0.071	2.388ValPhe: 2.388 ± 0.043	5.864ValGly: 5.864 ± 0.078	1.22ValHis: 1.22 ± 0.037	3.727ValIle: 3.727 ± 0.065	2.041ValLys: 2.041 ± 0.056	7.052ValLeu: 7.052 ± 0.101	1.6ValMet: 1.6 ± 0.046	1.973ValAsn: 1.973 ± 0.055	4.152ValPro: 4.152 ± 0.067	2.135ValGln: 2.135 ± 0.049	5.2ValArg: 5.2 ± 0.072	4.311ValSer: 4.311 ± 0.076	4.963ValThr: 4.963 ± 0.095	5.732ValVal: 5.732 ± 0.086	0.925ValTrp: 0.925 ± 0.031	1.427ValTyr: 1.427 ± 0.041	0.003ValXaa: 0.003 ± 0.002
Trp	1.447TrpAla: 1.447 ± 0.043	0.12TrpCys: 0.12 ± 0.011	0.677TrpAsp: 0.677 ± 0.025	0.513TrpGlu: 0.513 ± 0.022	0.601TrpPhe: 0.601 ± 0.026	0.969TrpGly: 0.969 ± 0.034	0.378TrpHis: 0.378 ± 0.019	0.691TrpIle: 0.691 ± 0.026	0.437TrpLys: 0.437 ± 0.021	1.676TrpLeu: 1.676 ± 0.053	0.324TrpMet: 0.324 ± 0.019	0.431TrpAsn: 0.431 ± 0.024	0.709TrpPro: 0.709 ± 0.029	0.576TrpGln: 0.576 ± 0.025	1.316TrpArg: 1.316 ± 0.036	0.918TrpSer: 0.918 ± 0.032	0.863TrpThr: 0.863 ± 0.034	0.868TrpVal: 0.868 ± 0.033	0.274TrpTrp: 0.274 ± 0.02	0.314TrpTyr: 0.314 ± 0.019	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.943TyrAla: 2.943 ± 0.06	0.221TyrCys: 0.221 ± 0.016	1.603TyrAsp: 1.603 ± 0.082	1.066TyrGlu: 1.066 ± 0.037	0.917TyrPhe: 0.917 ± 0.032	2.161TyrGly: 2.161 ± 0.049	0.478TyrHis: 0.478 ± 0.023	0.867TyrIle: 0.867 ± 0.029	0.598TyrLys: 0.598 ± 0.026	2.198TyrLeu: 2.198 ± 0.047	0.357TyrMet: 0.357 ± 0.02	0.622TyrAsn: 0.622 ± 0.035	1.053TyrPro: 1.053 ± 0.034	0.746TyrGln: 0.746 ± 0.029	1.939TyrArg: 1.939 ± 0.048	1.179TyrSer: 1.179 ± 0.043	1.195TyrThr: 1.195 ± 0.041	1.645TyrVal: 1.645 ± 0.045	0.352TyrTrp: 0.352 ± 0.02	0.619TyrTyr: 0.619 ± 0.033	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.003XaaAla: 0.003 ± 0.002	0.0XaaCys: 0.0 ± 0.0	0.002XaaAsp: 0.002 ± 0.001	0.001XaaGlu: 0.001 ± 0.001	0.0XaaPhe: 0.0 ± 0.0	0.006XaaGly: 0.006 ± 0.003	0.0XaaHis: 0.0 ± 0.0	0.0XaaIle: 0.0 ± 0.0	0.002XaaLys: 0.002 ± 0.002	0.003XaaLeu: 0.003 ± 0.002	0.001XaaMet: 0.001 ± 0.001	0.001XaaAsn: 0.001 ± 0.001	0.005XaaPro: 0.005 ± 0.002	0.001XaaGln: 0.001 ± 0.001	0.002XaaArg: 0.002 ± 0.001	0.002XaaSer: 0.002 ± 0.002	0.002XaaThr: 0.002 ± 0.001	0.002XaaVal: 0.002 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.068XaaXaa: 0.068 ± 0.012

Statistics based on 3537 proteins (974285 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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