Amino acid dipepetide frequency for Sphingomonas sp. (strain SKA58)

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	18.282AlaAla: 18.282 ± 0.193	1.087AlaCys: 1.087 ± 0.031	8.191AlaAsp: 8.191 ± 0.086	6.79AlaGlu: 6.79 ± 0.094	4.229AlaPhe: 4.229 ± 0.062	11.025AlaGly: 11.025 ± 0.099	2.512AlaHis: 2.512 ± 0.051	6.929AlaIle: 6.929 ± 0.072	3.945AlaLys: 3.945 ± 0.08	14.138AlaLeu: 14.138 ± 0.147	4.315AlaMet: 4.315 ± 0.062	3.074AlaAsn: 3.074 ± 0.052	6.335AlaPro: 6.335 ± 0.096	5.406AlaGln: 5.406 ± 0.084	9.96AlaArg: 9.96 ± 0.111	6.542AlaSer: 6.542 ± 0.076	6.349AlaThr: 6.349 ± 0.071	8.278AlaVal: 8.278 ± 0.083	1.64AlaTrp: 1.64 ± 0.04	2.725AlaTyr: 2.725 ± 0.051	0.0AlaXaa: 0.0 ± 0.0
Cys	1.051CysAla: 1.051 ± 0.029	0.106CysCys: 0.106 ± 0.011	0.53CysAsp: 0.53 ± 0.021	0.39CysGlu: 0.39 ± 0.021	0.301CysPhe: 0.301 ± 0.015	0.855CysGly: 0.855 ± 0.025	0.224CysHis: 0.224 ± 0.014	0.368CysIle: 0.368 ± 0.019	0.16CysLys: 0.16 ± 0.012	0.751CysLeu: 0.751 ± 0.027	0.153CysMet: 0.153 ± 0.012	0.206CysAsn: 0.206 ± 0.015	0.447CysPro: 0.447 ± 0.02	0.221CysGln: 0.221 ± 0.015	0.548CysArg: 0.548 ± 0.027	0.412CysSer: 0.412 ± 0.022	0.39CysThr: 0.39 ± 0.021	0.56CysVal: 0.56 ± 0.025	0.131CysTrp: 0.131 ± 0.012	0.166CysTyr: 0.166 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	8.309AspAla: 8.309 ± 0.076	0.485AspCys: 0.485 ± 0.023	3.49AspAsp: 3.49 ± 0.062	3.239AspGlu: 3.239 ± 0.053	2.29AspPhe: 2.29 ± 0.045	5.989AspGly: 5.989 ± 0.082	1.56AspHis: 1.56 ± 0.04	3.365AspIle: 3.365 ± 0.052	1.773AspLys: 1.773 ± 0.047	6.007AspLeu: 6.007 ± 0.076	1.81AspMet: 1.81 ± 0.039	1.519AspAsn: 1.519 ± 0.042	3.854AspPro: 3.854 ± 0.05	2.072AspGln: 2.072 ± 0.042	5.277AspArg: 5.277 ± 0.068	2.509AspSer: 2.509 ± 0.048	2.531AspThr: 2.531 ± 0.053	4.1AspVal: 4.1 ± 0.051	1.174AspTrp: 1.174 ± 0.036	1.731AspTyr: 1.731 ± 0.042	0.0AspXaa: 0.0 ± 0.0
Glu	7.188GluAla: 7.188 ± 0.102	0.319GluCys: 0.319 ± 0.017	2.796GluAsp: 2.796 ± 0.051	2.869GluGlu: 2.869 ± 0.067	1.382GluPhe: 1.382 ± 0.035	4.385GluGly: 4.385 ± 0.063	1.001GluHis: 1.001 ± 0.03	2.687GluIle: 2.687 ± 0.053	2.002GluLys: 2.002 ± 0.042	4.402GluLeu: 4.402 ± 0.062	1.454GluMet: 1.454 ± 0.039	1.268GluAsn: 1.268 ± 0.034	2.431GluPro: 2.431 ± 0.045	2.172GluGln: 2.172 ± 0.049	4.719GluArg: 4.719 ± 0.079	2.299GluSer: 2.299 ± 0.047	2.897GluThr: 2.897 ± 0.053	3.131GluVal: 3.131 ± 0.059	0.702GluTrp: 0.702 ± 0.022	0.895GluTyr: 0.895 ± 0.026	0.0GluXaa: 0.0 ± 0.0
Phe	4.703PheAla: 4.703 ± 0.069	0.338PheCys: 0.338 ± 0.018	2.624PheAsp: 2.624 ± 0.049	1.894PheGlu: 1.894 ± 0.042	1.238PhePhe: 1.238 ± 0.039	3.363PheGly: 3.363 ± 0.067	0.728PheHis: 0.728 ± 0.025	1.436PheIle: 1.436 ± 0.034	0.835PheLys: 0.835 ± 0.026	3.185PheLeu: 3.185 ± 0.054	0.74PheMet: 0.74 ± 0.024	0.949PheAsn: 0.949 ± 0.027	1.524PhePro: 1.524 ± 0.04	0.921PheGln: 0.921 ± 0.028	2.246PheArg: 2.246 ± 0.048	2.006PheSer: 2.006 ± 0.041	1.944PheThr: 1.944 ± 0.043	2.423PheVal: 2.423 ± 0.048	0.516PheTrp: 0.516 ± 0.023	0.886PheTyr: 0.886 ± 0.03	0.0PheXaa: 0.0 ± 0.0
Gly	10.024GlyAla: 10.024 ± 0.101	0.82GlyCys: 0.82 ± 0.031	5.243GlyAsp: 5.243 ± 0.071	4.604GlyGlu: 4.604 ± 0.069	3.513GlyPhe: 3.513 ± 0.056	7.838GlyGly: 7.838 ± 0.099	1.941GlyHis: 1.941 ± 0.04	4.381GlyIle: 4.381 ± 0.067	3.287GlyLys: 3.287 ± 0.072	8.684GlyLeu: 8.684 ± 0.095	2.418GlyMet: 2.418 ± 0.05	2.27GlyAsn: 2.27 ± 0.06	3.544GlyPro: 3.544 ± 0.052	3.295GlyGln: 3.295 ± 0.057	6.555GlyArg: 6.555 ± 0.085	4.718GlySer: 4.718 ± 0.076	4.493GlyThr: 4.493 ± 0.069	6.107GlyVal: 6.107 ± 0.077	1.629GlyTrp: 1.629 ± 0.04	2.361GlyTyr: 2.361 ± 0.044	0.0GlyXaa: 0.0 ± 0.0
His	2.404HisAla: 2.404 ± 0.044	0.228HisCys: 0.228 ± 0.013	1.331HisAsp: 1.331 ± 0.032	0.942HisGlu: 0.942 ± 0.029	0.849HisPhe: 0.849 ± 0.026	2.094HisGly: 2.094 ± 0.043	0.654HisHis: 0.654 ± 0.024	0.993HisIle: 0.993 ± 0.029	0.503HisLys: 0.503 ± 0.023	2.054HisLeu: 2.054 ± 0.044	0.574HisMet: 0.574 ± 0.025	0.472HisAsn: 0.472 ± 0.021	1.304HisPro: 1.304 ± 0.036	0.617HisGln: 0.617 ± 0.023	1.514HisArg: 1.514 ± 0.037	0.973HisSer: 0.973 ± 0.031	0.603HisThr: 0.603 ± 0.023	1.638HisVal: 1.638 ± 0.04	0.378HisTrp: 0.378 ± 0.018	0.621HisTyr: 0.621 ± 0.025	0.0HisXaa: 0.0 ± 0.0
Ile	7.976IleAla: 7.976 ± 0.087	0.478IleCys: 0.478 ± 0.02	4.151IleAsp: 4.151 ± 0.055	3.241IleGlu: 3.241 ± 0.057	1.748IlePhe: 1.748 ± 0.043	5.079IleGly: 5.079 ± 0.072	0.949IleHis: 0.949 ± 0.029	2.288IleIle: 2.288 ± 0.042	1.253IleLys: 1.253 ± 0.036	4.396IleLeu: 4.396 ± 0.074	1.054IleMet: 1.054 ± 0.032	1.365IleAsn: 1.365 ± 0.037	2.197IlePro: 2.197 ± 0.044	1.227IleGln: 1.227 ± 0.033	3.224IleArg: 3.224 ± 0.054	2.721IleSer: 2.721 ± 0.044	2.416IleThr: 2.416 ± 0.049	4.118IleVal: 4.118 ± 0.061	0.652IleTrp: 0.652 ± 0.024	0.998IleTyr: 0.998 ± 0.029	0.0IleXaa: 0.0 ± 0.0
Lys	4.312LysAla: 4.312 ± 0.089	0.148LysCys: 0.148 ± 0.012	1.813LysAsp: 1.813 ± 0.047	1.269LysGlu: 1.269 ± 0.035	0.762LysPhe: 0.762 ± 0.029	2.811LysGly: 2.811 ± 0.057	0.488LysHis: 0.488 ± 0.019	1.465LysIle: 1.465 ± 0.037	1.082LysLys: 1.082 ± 0.038	3.04LysLeu: 3.04 ± 0.051	0.809LysMet: 0.809 ± 0.03	0.692LysAsn: 0.692 ± 0.028	1.924LysPro: 1.924 ± 0.043	0.946LysGln: 0.946 ± 0.025	2.148LysArg: 2.148 ± 0.04	1.624LysSer: 1.624 ± 0.033	1.649LysThr: 1.649 ± 0.04	2.158LysVal: 2.158 ± 0.044	0.373LysTrp: 0.373 ± 0.018	0.552LysTyr: 0.552 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	13.655LeuAla: 13.655 ± 0.13	0.865LeuCys: 0.865 ± 0.029	6.251LeuAsp: 6.251 ± 0.077	4.696LeuGlu: 4.696 ± 0.067	3.646LeuPhe: 3.646 ± 0.052	8.178LeuGly: 8.178 ± 0.091	1.862LeuHis: 1.862 ± 0.039	5.03LeuIle: 5.03 ± 0.067	3.05LeuLys: 3.05 ± 0.046	9.879LeuLeu: 9.879 ± 0.132	2.355LeuMet: 2.355 ± 0.043	2.421LeuAsn: 2.421 ± 0.049	5.714LeuPro: 5.714 ± 0.072	2.514LeuGln: 2.514 ± 0.051	6.968LeuArg: 6.968 ± 0.081	6.256LeuSer: 6.256 ± 0.08	5.658LeuThr: 5.658 ± 0.074	6.95LeuVal: 6.95 ± 0.078	1.31LeuTrp: 1.31 ± 0.035	2.059LeuTyr: 2.059 ± 0.047	0.0LeuXaa: 0.0 ± 0.0
Met	3.639MetAla: 3.639 ± 0.052	0.147MetCys: 0.147 ± 0.011	1.389MetAsp: 1.389 ± 0.034	1.231MetGlu: 1.231 ± 0.033	0.692MetPhe: 0.692 ± 0.022	2.088MetGly: 2.088 ± 0.041	0.467MetHis: 0.467 ± 0.019	1.444MetIle: 1.444 ± 0.035	0.961MetLys: 0.961 ± 0.03	2.978MetLeu: 2.978 ± 0.048	0.854MetMet: 0.854 ± 0.029	0.696MetAsn: 0.696 ± 0.025	1.598MetPro: 1.598 ± 0.045	0.888MetGln: 0.888 ± 0.024	1.938MetArg: 1.938 ± 0.045	1.446MetSer: 1.446 ± 0.032	1.996MetThr: 1.996 ± 0.039	1.816MetVal: 1.816 ± 0.041	0.219MetTrp: 0.219 ± 0.012	0.256MetTyr: 0.256 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	3.208AsnAla: 3.208 ± 0.054	0.23AsnCys: 0.23 ± 0.015	1.468AsnAsp: 1.468 ± 0.045	1.108AsnGlu: 1.108 ± 0.035	0.896AsnPhe: 0.896 ± 0.032	2.463AsnGly: 2.463 ± 0.049	0.479AsnHis: 0.479 ± 0.018	1.373AsnIle: 1.373 ± 0.034	0.644AsnLys: 0.644 ± 0.024	2.433AsnLeu: 2.433 ± 0.046	0.617AsnMet: 0.617 ± 0.022	0.662AsnAsn: 0.662 ± 0.027	1.676AsnPro: 1.676 ± 0.038	0.789AsnGln: 0.789 ± 0.025	1.831AsnArg: 1.831 ± 0.042	1.306AsnSer: 1.306 ± 0.042	0.945AsnThr: 0.945 ± 0.034	1.853AsnVal: 1.853 ± 0.039	0.433AsnTrp: 0.433 ± 0.02	0.669AsnTyr: 0.669 ± 0.026	0.0AsnXaa: 0.0 ± 0.0
Pro	7.061ProAla: 7.061 ± 0.092	0.332ProCys: 0.332 ± 0.017	4.165ProAsp: 4.165 ± 0.064	3.09ProGlu: 3.09 ± 0.052	1.909ProPhe: 1.909 ± 0.038	4.637ProGly: 4.637 ± 0.065	1.105ProHis: 1.105 ± 0.03	2.585ProIle: 2.585 ± 0.047	1.418ProLys: 1.418 ± 0.04	4.976ProLeu: 4.976 ± 0.07	1.376ProMet: 1.376 ± 0.033	1.207ProAsn: 1.207 ± 0.032	2.815ProPro: 2.815 ± 0.071	1.859ProGln: 1.859 ± 0.041	3.048ProArg: 3.048 ± 0.05	2.679ProSer: 2.679 ± 0.052	2.585ProThr: 2.585 ± 0.045	4.382ProVal: 4.382 ± 0.062	0.705ProTrp: 0.705 ± 0.028	1.073ProTyr: 1.073 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	4.774GlnAla: 4.774 ± 0.08	0.27GlnCys: 0.27 ± 0.016	1.853GlnAsp: 1.853 ± 0.036	1.445GlnGlu: 1.445 ± 0.034	1.081GlnPhe: 1.081 ± 0.033	2.887GlnGly: 2.887 ± 0.049	0.616GlnHis: 0.616 ± 0.024	1.941GlnIle: 1.941 ± 0.042	1.034GlnLys: 1.034 ± 0.031	3.206GlnLeu: 3.206 ± 0.058	0.978GlnMet: 0.978 ± 0.029	0.78GlnAsn: 0.78 ± 0.027	1.97GlnPro: 1.97 ± 0.046	1.323GlnGln: 1.323 ± 0.04	2.742GlnArg: 2.742 ± 0.056	1.876GlnSer: 1.876 ± 0.045	1.677GlnThr: 1.677 ± 0.039	2.421GlnVal: 2.421 ± 0.05	0.538GlnTrp: 0.538 ± 0.025	0.639GlnTyr: 0.639 ± 0.021	0.0GlnXaa: 0.0 ± 0.0
Arg	9.002ArgAla: 9.002 ± 0.096	0.509ArgCys: 0.509 ± 0.023	4.547ArgAsp: 4.547 ± 0.063	3.641ArgGlu: 3.641 ± 0.069	3.028ArgPhe: 3.028 ± 0.063	4.963ArgGly: 4.963 ± 0.074	1.891ArgHis: 1.891 ± 0.05	4.247ArgIle: 4.247 ± 0.066	2.143ArgLys: 2.143 ± 0.047	8.245ArgLeu: 8.245 ± 0.105	2.03ArgMet: 2.03 ± 0.043	1.883ArgAsn: 1.883 ± 0.04	3.87ArgPro: 3.87 ± 0.054	2.844ArgGln: 2.844 ± 0.056	5.799ArgArg: 5.799 ± 0.081	3.78ArgSer: 3.78 ± 0.058	3.697ArgThr: 3.697 ± 0.064	4.567ArgVal: 4.567 ± 0.059	1.218ArgTrp: 1.218 ± 0.035	1.95ArgTyr: 1.95 ± 0.041	0.0ArgXaa: 0.0 ± 0.0
Ser	6.543SerAla: 6.543 ± 0.081	0.394SerCys: 0.394 ± 0.021	3.299SerAsp: 3.299 ± 0.054	2.399SerGlu: 2.399 ± 0.046	2.164SerPhe: 2.164 ± 0.043	5.322SerGly: 5.322 ± 0.074	1.013SerHis: 1.013 ± 0.031	2.756SerIle: 2.756 ± 0.051	1.424SerLys: 1.424 ± 0.039	5.292SerLeu: 5.292 ± 0.075	1.268SerMet: 1.268 ± 0.036	1.359SerAsn: 1.359 ± 0.041	2.887SerPro: 2.887 ± 0.049	1.7SerGln: 1.7 ± 0.037	3.617SerArg: 3.617 ± 0.055	2.743SerSer: 2.743 ± 0.069	2.554SerThr: 2.554 ± 0.051	3.646SerVal: 3.646 ± 0.056	0.78SerTrp: 0.78 ± 0.024	1.324SerTyr: 1.324 ± 0.038	0.0SerXaa: 0.0 ± 0.0
Thr	6.013ThrAla: 6.013 ± 0.076	0.391ThrCys: 0.391 ± 0.022	2.99ThrAsp: 2.99 ± 0.057	2.099ThrGlu: 2.099 ± 0.046	1.601ThrPhe: 1.601 ± 0.04	5.216ThrGly: 5.216 ± 0.074	0.978ThrHis: 0.978 ± 0.027	3.018ThrIle: 3.018 ± 0.053	1.318ThrLys: 1.318 ± 0.036	5.738ThrLeu: 5.738 ± 0.073	1.279ThrMet: 1.279 ± 0.032	1.263ThrAsn: 1.263 ± 0.034	3.486ThrPro: 3.486 ± 0.061	1.711ThrGln: 1.711 ± 0.042	3.315ThrArg: 3.315 ± 0.053	2.553ThrSer: 2.553 ± 0.056	2.502ThrThr: 2.502 ± 0.054	3.964ThrVal: 3.964 ± 0.056	0.564ThrTrp: 0.564 ± 0.025	1.094ThrTyr: 1.094 ± 0.037	0.0ThrXaa: 0.0 ± 0.0
Val	9.484ValAla: 9.484 ± 0.1	0.48ValCys: 0.48 ± 0.019	4.548ValAsp: 4.548 ± 0.063	4.392ValGlu: 4.392 ± 0.067	1.877ValPhe: 1.877 ± 0.042	5.38ValGly: 5.38 ± 0.081	1.377ValHis: 1.377 ± 0.037	3.644ValIle: 3.644 ± 0.058	2.147ValLys: 2.147 ± 0.052	5.977ValLeu: 5.977 ± 0.073	1.771ValMet: 1.771 ± 0.037	1.931ValAsn: 1.931 ± 0.043	3.669ValPro: 3.669 ± 0.055	2.258ValGln: 2.258 ± 0.049	5.054ValArg: 5.054 ± 0.071	3.989ValSer: 3.989 ± 0.06	4.41ValThr: 4.41 ± 0.062	4.888ValVal: 4.888 ± 0.07	0.754ValTrp: 0.754 ± 0.023	1.353ValTyr: 1.353 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	1.425TrpAla: 1.425 ± 0.036	0.111TrpCys: 0.111 ± 0.01	0.8TrpAsp: 0.8 ± 0.028	0.566TrpGlu: 0.566 ± 0.022	0.487TrpPhe: 0.487 ± 0.022	0.987TrpGly: 0.987 ± 0.025	0.349TrpHis: 0.349 ± 0.016	0.699TrpIle: 0.699 ± 0.025	0.467TrpLys: 0.467 ± 0.021	1.749TrpLeu: 1.749 ± 0.042	0.403TrpMet: 0.403 ± 0.018	0.433TrpAsn: 0.433 ± 0.02	0.744TrpPro: 0.744 ± 0.028	0.592TrpGln: 0.592 ± 0.021	1.387TrpArg: 1.387 ± 0.035	0.891TrpSer: 0.891 ± 0.026	0.865TrpThr: 0.865 ± 0.027	0.831TrpVal: 0.831 ± 0.031	0.259TrpTrp: 0.259 ± 0.016	0.297TrpTyr: 0.297 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.699TyrAla: 2.699 ± 0.05	0.233TyrCys: 0.233 ± 0.016	1.605TyrAsp: 1.605 ± 0.042	1.092TyrGlu: 1.092 ± 0.031	0.803TyrPhe: 0.803 ± 0.028	2.166TyrGly: 2.166 ± 0.048	0.554TyrHis: 0.554 ± 0.024	0.883TyrIle: 0.883 ± 0.028	0.617TyrLys: 0.617 ± 0.025	2.186TyrLeu: 2.186 ± 0.047	0.487TyrMet: 0.487 ± 0.018	0.633TyrAsn: 0.633 ± 0.025	1.018TyrPro: 1.018 ± 0.031	0.694TyrGln: 0.694 ± 0.025	1.966TyrArg: 1.966 ± 0.042	1.162TyrSer: 1.162 ± 0.032	0.933TyrThr: 0.933 ± 0.032	1.553TyrVal: 1.553 ± 0.032	0.365TyrTrp: 0.365 ± 0.017	0.626TyrTyr: 0.626 ± 0.024	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 3892 proteins (1183197 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

---