Amino acid dipepetide frequency for Rhodobacteraceae bacterium SH-1

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	18.747AlaAla: 18.747 ± 0.186	1.158AlaCys: 1.158 ± 0.034	7.774AlaAsp: 7.774 ± 0.098	8.041AlaGlu: 8.041 ± 0.092	4.032AlaPhe: 4.032 ± 0.061	12.048AlaGly: 12.048 ± 0.114	2.399AlaHis: 2.399 ± 0.048	5.878AlaIle: 5.878 ± 0.067	2.683AlaLys: 2.683 ± 0.06	14.198AlaLeu: 14.198 ± 0.137	3.819AlaMet: 3.819 ± 0.057	2.57AlaAsn: 2.57 ± 0.048	6.198AlaPro: 6.198 ± 0.091	4.221AlaGln: 4.221 ± 0.064	10.453AlaArg: 10.453 ± 0.118	5.28AlaSer: 5.28 ± 0.076	6.104AlaThr: 6.104 ± 0.084	8.847AlaVal: 8.847 ± 0.095	1.475AlaTrp: 1.475 ± 0.039	2.465AlaTyr: 2.465 ± 0.051	0.0AlaXaa: 0.0 ± 0.0
Cys	1.227CysAla: 1.227 ± 0.036	0.127CysCys: 0.127 ± 0.011	0.661CysAsp: 0.661 ± 0.026	0.413CysGlu: 0.413 ± 0.017	0.343CysPhe: 0.343 ± 0.017	0.985CysGly: 0.985 ± 0.031	0.303CysHis: 0.303 ± 0.017	0.405CysIle: 0.405 ± 0.018	0.188CysLys: 0.188 ± 0.014	0.828CysLeu: 0.828 ± 0.029	0.168CysMet: 0.168 ± 0.012	0.232CysAsn: 0.232 ± 0.012	0.543CysPro: 0.543 ± 0.022	0.22CysGln: 0.22 ± 0.014	0.661CysArg: 0.661 ± 0.024	0.492CysSer: 0.492 ± 0.022	0.452CysThr: 0.452 ± 0.019	0.621CysVal: 0.621 ± 0.022	0.139CysTrp: 0.139 ± 0.011	0.203CysTyr: 0.203 ± 0.011	0.0CysXaa: 0.0 ± 0.0
Asp	7.917AspAla: 7.917 ± 0.108	0.6AspCys: 0.6 ± 0.021	3.929AspAsp: 3.929 ± 0.069	3.629AspGlu: 3.629 ± 0.064	2.282AspPhe: 2.282 ± 0.044	6.247AspGly: 6.247 ± 0.088	1.466AspHis: 1.466 ± 0.032	3.145AspIle: 3.145 ± 0.05	1.533AspLys: 1.533 ± 0.041	6.908AspLeu: 6.908 ± 0.09	1.77AspMet: 1.77 ± 0.042	1.305AspAsn: 1.305 ± 0.034	4.206AspPro: 4.206 ± 0.067	1.763AspGln: 1.763 ± 0.037	5.666AspArg: 5.666 ± 0.079	2.171AspSer: 2.171 ± 0.044	3.165AspThr: 3.165 ± 0.065	4.023AspVal: 4.023 ± 0.058	1.243AspTrp: 1.243 ± 0.027	1.572AspTyr: 1.572 ± 0.038	0.0AspXaa: 0.0 ± 0.0
Glu	7.486GluAla: 7.486 ± 0.102	0.336GluCys: 0.336 ± 0.015	3.081GluAsp: 3.081 ± 0.049	2.781GluGlu: 2.781 ± 0.057	1.819GluPhe: 1.819 ± 0.042	4.171GluGly: 4.171 ± 0.143	1.054GluHis: 1.054 ± 0.034	3.666GluIle: 3.666 ± 0.054	1.809GluLys: 1.809 ± 0.046	5.1GluLeu: 5.1 ± 0.068	1.671GluMet: 1.671 ± 0.041	1.643GluAsn: 1.643 ± 0.036	2.709GluPro: 2.709 ± 0.047	1.956GluGln: 1.956 ± 0.045	4.268GluArg: 4.268 ± 0.058	1.998GluSer: 1.998 ± 0.038	4.094GluThr: 4.094 ± 0.064	3.888GluVal: 3.888 ± 0.053	0.613GluTrp: 0.613 ± 0.021	0.974GluTyr: 0.974 ± 0.029	0.0GluXaa: 0.0 ± 0.0
Phe	4.56PheAla: 4.56 ± 0.062	0.441PheCys: 0.441 ± 0.019	2.969PheAsp: 2.969 ± 0.047	2.06PheGlu: 2.06 ± 0.034	1.371PhePhe: 1.371 ± 0.038	3.638PheGly: 3.638 ± 0.053	0.791PheHis: 0.791 ± 0.024	1.429PheIle: 1.429 ± 0.033	0.736PheLys: 0.736 ± 0.025	3.293PheLeu: 3.293 ± 0.057	0.818PheMet: 0.818 ± 0.026	0.978PheAsn: 0.978 ± 0.033	1.522PhePro: 1.522 ± 0.037	0.946PheGln: 0.946 ± 0.028	2.389PheArg: 2.389 ± 0.046	2.017PheSer: 2.017 ± 0.044	1.971PheThr: 1.971 ± 0.043	2.611PheVal: 2.611 ± 0.045	0.568PheTrp: 0.568 ± 0.019	0.866PheTyr: 0.866 ± 0.027	0.0PheXaa: 0.0 ± 0.0
Gly	10.547GlyAla: 10.547 ± 0.094	0.956GlyCys: 0.956 ± 0.031	5.571GlyAsp: 5.571 ± 0.082	4.583GlyGlu: 4.583 ± 0.057	3.788GlyPhe: 3.788 ± 0.059	7.954GlyGly: 7.954 ± 0.111	2.027GlyHis: 2.027 ± 0.044	4.552GlyIle: 4.552 ± 0.059	2.79GlyLys: 2.79 ± 0.051	9.717GlyLeu: 9.717 ± 0.102	2.75GlyMet: 2.75 ± 0.048	2.317GlyAsn: 2.317 ± 0.117	3.909GlyPro: 3.909 ± 0.063	3.154GlyGln: 3.154 ± 0.052	6.667GlyArg: 6.667 ± 0.083	4.271GlySer: 4.271 ± 0.071	4.697GlyThr: 4.697 ± 0.058	6.247GlyVal: 6.247 ± 0.071	1.605GlyTrp: 1.605 ± 0.038	2.303GlyTyr: 2.303 ± 0.046	0.0GlyXaa: 0.0 ± 0.0
His	2.41HisAla: 2.41 ± 0.04	0.245HisCys: 0.245 ± 0.014	1.524HisAsp: 1.524 ± 0.033	1.064HisGlu: 1.064 ± 0.033	0.794HisPhe: 0.794 ± 0.026	2.048HisGly: 2.048 ± 0.045	0.555HisHis: 0.555 ± 0.02	0.862HisIle: 0.862 ± 0.023	0.428HisLys: 0.428 ± 0.02	2.1HisLeu: 2.1 ± 0.043	0.554HisMet: 0.554 ± 0.02	0.439HisAsn: 0.439 ± 0.02	1.45HisPro: 1.45 ± 0.037	0.562HisGln: 0.562 ± 0.021	1.569HisArg: 1.569 ± 0.037	0.857HisSer: 0.857 ± 0.026	0.783HisThr: 0.783 ± 0.026	1.602HisVal: 1.602 ± 0.04	0.344HisTrp: 0.344 ± 0.017	0.505HisTyr: 0.505 ± 0.019	0.0HisXaa: 0.0 ± 0.0
Ile	7.046IleAla: 7.046 ± 0.078	0.618IleCys: 0.618 ± 0.024	3.596IleAsp: 3.596 ± 0.06	3.324IleGlu: 3.324 ± 0.047	1.549IlePhe: 1.549 ± 0.039	4.886IleGly: 4.886 ± 0.063	0.908IleHis: 0.908 ± 0.026	1.917IleIle: 1.917 ± 0.052	1.125IleLys: 1.125 ± 0.032	4.57IleLeu: 4.57 ± 0.073	1.014IleMet: 1.014 ± 0.028	1.233IleAsn: 1.233 ± 0.037	2.28IlePro: 2.28 ± 0.045	1.018IleGln: 1.018 ± 0.027	3.521IleArg: 3.521 ± 0.053	2.633IleSer: 2.633 ± 0.047	2.679IleThr: 2.679 ± 0.047	3.673IleVal: 3.673 ± 0.059	0.699IleTrp: 0.699 ± 0.024	1.116IleTyr: 1.116 ± 0.03	0.0IleXaa: 0.0 ± 0.0
Lys	3.166LysAla: 3.166 ± 0.051	0.156LysCys: 0.156 ± 0.012	1.44LysAsp: 1.44 ± 0.042	1.188LysGlu: 1.188 ± 0.038	0.771LysPhe: 0.771 ± 0.026	2.177LysGly: 2.177 ± 0.047	0.508LysHis: 0.508 ± 0.021	1.28LysIle: 1.28 ± 0.031	0.953LysLys: 0.953 ± 0.04	2.539LysLeu: 2.539 ± 0.046	0.694LysMet: 0.694 ± 0.026	0.637LysAsn: 0.637 ± 0.028	1.585LysPro: 1.585 ± 0.04	0.8LysGln: 0.8 ± 0.025	1.997LysArg: 1.997 ± 0.042	1.611LysSer: 1.611 ± 0.039	1.643LysThr: 1.643 ± 0.04	1.99LysVal: 1.99 ± 0.045	0.332LysTrp: 0.332 ± 0.017	0.556LysTyr: 0.556 ± 0.023	0.0LysXaa: 0.0 ± 0.0
Leu	13.626LeuAla: 13.626 ± 0.134	0.968LeuCys: 0.968 ± 0.03	6.684LeuAsp: 6.684 ± 0.073	5.008LeuGlu: 5.008 ± 0.077	3.553LeuPhe: 3.553 ± 0.069	8.731LeuGly: 8.731 ± 0.103	1.982LeuHis: 1.982 ± 0.043	4.919LeuIle: 4.919 ± 0.07	2.838LeuLys: 2.838 ± 0.053	9.253LeuLeu: 9.253 ± 0.128	2.577LeuMet: 2.577 ± 0.044	2.651LeuAsn: 2.651 ± 0.046	5.631LeuPro: 5.631 ± 0.078	2.666LeuGln: 2.666 ± 0.043	7.753LeuArg: 7.753 ± 0.091	6.112LeuSer: 6.112 ± 0.08	5.805LeuThr: 5.805 ± 0.066	7.154LeuVal: 7.154 ± 0.088	1.299LeuTrp: 1.299 ± 0.03	1.925LeuTyr: 1.925 ± 0.04	0.0LeuXaa: 0.0 ± 0.0
Met	3.478MetAla: 3.478 ± 0.05	0.188MetCys: 0.188 ± 0.014	1.417MetAsp: 1.417 ± 0.033	1.261MetGlu: 1.261 ± 0.036	0.805MetPhe: 0.805 ± 0.027	2.167MetGly: 2.167 ± 0.041	0.42MetHis: 0.42 ± 0.02	1.501MetIle: 1.501 ± 0.038	0.988MetLys: 0.988 ± 0.03	2.644MetLeu: 2.644 ± 0.052	0.767MetMet: 0.767 ± 0.028	0.828MetAsn: 0.828 ± 0.028	1.557MetPro: 1.557 ± 0.032	0.993MetGln: 0.993 ± 0.028	2.041MetArg: 2.041 ± 0.041	1.651MetSer: 1.651 ± 0.036	2.072MetThr: 2.072 ± 0.041	1.861MetVal: 1.861 ± 0.046	0.26MetTrp: 0.26 ± 0.012	0.328MetTyr: 0.328 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	2.996AsnAla: 2.996 ± 0.05	0.258AsnCys: 0.258 ± 0.014	1.344AsnAsp: 1.344 ± 0.035	1.23AsnGlu: 1.23 ± 0.118	0.813AsnPhe: 0.813 ± 0.025	2.329AsnGly: 2.329 ± 0.046	0.461AsnHis: 0.461 ± 0.019	1.298AsnIle: 1.298 ± 0.033	0.572AsnLys: 0.572 ± 0.021	2.446AsnLeu: 2.446 ± 0.043	0.647AsnMet: 0.647 ± 0.02	0.611AsnAsn: 0.611 ± 0.024	1.869AsnPro: 1.869 ± 0.045	0.648AsnGln: 0.648 ± 0.021	1.989AsnArg: 1.989 ± 0.041	1.09AsnSer: 1.09 ± 0.033	1.227AsnThr: 1.227 ± 0.033	1.671AsnVal: 1.671 ± 0.035	0.425AsnTrp: 0.425 ± 0.02	0.589AsnTyr: 0.589 ± 0.022	0.0AsnXaa: 0.0 ± 0.0
Pro	6.533ProAla: 6.533 ± 0.074	0.391ProCys: 0.391 ± 0.019	4.527ProAsp: 4.527 ± 0.071	3.847ProGlu: 3.847 ± 0.062	1.892ProPhe: 1.892 ± 0.038	5.329ProGly: 5.329 ± 0.068	1.18ProHis: 1.18 ± 0.028	2.03ProIle: 2.03 ± 0.043	1.25ProLys: 1.25 ± 0.033	4.761ProLeu: 4.761 ± 0.069	1.29ProMet: 1.29 ± 0.034	1.208ProAsn: 1.208 ± 0.033	2.674ProPro: 2.674 ± 0.05	1.589ProGln: 1.589 ± 0.039	3.286ProArg: 3.286 ± 0.052	2.311ProSer: 2.311 ± 0.044	2.243ProThr: 2.243 ± 0.044	4.783ProVal: 4.783 ± 0.06	0.689ProTrp: 0.689 ± 0.026	1.141ProTyr: 1.141 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	4.086GlnAla: 4.086 ± 0.068	0.186GlnCys: 0.186 ± 0.011	1.693GlnAsp: 1.693 ± 0.034	1.363GlnGlu: 1.363 ± 0.035	1.048GlnPhe: 1.048 ± 0.031	2.506GlnGly: 2.506 ± 0.044	0.559GlnHis: 0.559 ± 0.02	1.752GlnIle: 1.752 ± 0.035	0.938GlnLys: 0.938 ± 0.029	2.691GlnLeu: 2.691 ± 0.045	0.984GlnMet: 0.984 ± 0.028	0.736GlnAsn: 0.736 ± 0.023	1.609GlnPro: 1.609 ± 0.037	1.025GlnGln: 1.025 ± 0.03	2.248GlnArg: 2.248 ± 0.044	1.57GlnSer: 1.57 ± 0.038	1.616GlnThr: 1.616 ± 0.039	2.475GlnVal: 2.475 ± 0.045	0.381GlnTrp: 0.381 ± 0.018	0.545GlnTyr: 0.545 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	9.494ArgAla: 9.494 ± 0.116	0.578ArgCys: 0.578 ± 0.023	5.418ArgAsp: 5.418 ± 0.067	3.875ArgGlu: 3.875 ± 0.065	2.997ArgPhe: 2.997 ± 0.05	5.385ArgGly: 5.385 ± 0.07	1.791ArgHis: 1.791 ± 0.045	4.208ArgIle: 4.208 ± 0.066	2.183ArgLys: 2.183 ± 0.047	8.214ArgLeu: 8.214 ± 0.097	2.2ArgMet: 2.2 ± 0.04	1.937ArgAsn: 1.937 ± 0.04	3.883ArgPro: 3.883 ± 0.061	2.458ArgGln: 2.458 ± 0.046	5.941ArgArg: 5.941 ± 0.091	3.477ArgSer: 3.477 ± 0.059	3.207ArgThr: 3.207 ± 0.047	5.26ArgVal: 5.26 ± 0.065	1.054ArgTrp: 1.054 ± 0.035	1.646ArgTyr: 1.646 ± 0.038	0.0ArgXaa: 0.0 ± 0.0
Ser	5.517SerAla: 5.517 ± 0.074	0.473SerCys: 0.473 ± 0.019	3.147SerAsp: 3.147 ± 0.053	2.6SerGlu: 2.6 ± 0.058	2.056SerPhe: 2.056 ± 0.039	5.319SerGly: 5.319 ± 0.076	1.02SerHis: 1.02 ± 0.033	2.225SerIle: 2.225 ± 0.049	1.216SerLys: 1.216 ± 0.035	4.665SerLeu: 4.665 ± 0.074	1.282SerMet: 1.282 ± 0.031	1.218SerAsn: 1.218 ± 0.033	2.523SerPro: 2.523 ± 0.046	1.334SerGln: 1.334 ± 0.03	3.403SerArg: 3.403 ± 0.05	2.272SerSer: 2.272 ± 0.051	2.248SerThr: 2.248 ± 0.046	3.704SerVal: 3.704 ± 0.06	0.736SerTrp: 0.736 ± 0.026	1.222SerTyr: 1.222 ± 0.037	0.0SerXaa: 0.0 ± 0.0
Thr	6.437ThrAla: 6.437 ± 0.075	0.513ThrCys: 0.513 ± 0.022	3.119ThrAsp: 3.119 ± 0.052	2.817ThrGlu: 2.817 ± 0.046	1.744ThrPhe: 1.744 ± 0.039	6.042ThrGly: 6.042 ± 0.067	1.091ThrHis: 1.091 ± 0.029	2.597ThrIle: 2.597 ± 0.051	1.05ThrLys: 1.05 ± 0.031	5.665ThrLeu: 5.665 ± 0.072	1.293ThrMet: 1.293 ± 0.03	1.119ThrAsn: 1.119 ± 0.032	3.256ThrPro: 3.256 ± 0.05	1.386ThrGln: 1.386 ± 0.035	3.89ThrArg: 3.89 ± 0.057	2.33ThrSer: 2.33 ± 0.057	2.626ThrThr: 2.626 ± 0.053	4.259ThrVal: 4.259 ± 0.059	0.676ThrTrp: 0.676 ± 0.024	1.142ThrTyr: 1.142 ± 0.031	0.0ThrXaa: 0.0 ± 0.0
Val	9.187ValAla: 9.187 ± 0.092	0.647ValCys: 0.647 ± 0.022	4.197ValAsp: 4.197 ± 0.069	4.266ValGlu: 4.266 ± 0.058	2.899ValPhe: 2.899 ± 0.046	5.326ValGly: 5.326 ± 0.075	1.332ValHis: 1.332 ± 0.031	4.222ValIle: 4.222 ± 0.059	1.832ValLys: 1.832 ± 0.048	7.658ValLeu: 7.658 ± 0.099	2.073ValMet: 2.073 ± 0.04	1.927ValAsn: 1.927 ± 0.043	3.776ValPro: 3.776 ± 0.061	2.055ValGln: 2.055 ± 0.042	4.566ValArg: 4.566 ± 0.059	4.156ValSer: 4.156 ± 0.06	4.633ValThr: 4.633 ± 0.064	5.528ValVal: 5.528 ± 0.086	0.89ValTrp: 0.89 ± 0.027	1.417ValTyr: 1.417 ± 0.033	0.0ValXaa: 0.0 ± 0.0
Trp	1.436TrpAla: 1.436 ± 0.04	0.149TrpCys: 0.149 ± 0.011	0.828TrpAsp: 0.828 ± 0.027	0.604TrpGlu: 0.604 ± 0.021	0.576TrpPhe: 0.576 ± 0.022	1.085TrpGly: 1.085 ± 0.031	0.347TrpHis: 0.347 ± 0.016	0.701TrpIle: 0.701 ± 0.025	0.435TrpLys: 0.435 ± 0.02	1.675TrpLeu: 1.675 ± 0.038	0.38TrpMet: 0.38 ± 0.018	0.405TrpAsn: 0.405 ± 0.018	0.711TrpPro: 0.711 ± 0.026	0.604TrpGln: 0.604 ± 0.022	1.154TrpArg: 1.154 ± 0.035	0.78TrpSer: 0.78 ± 0.027	0.784TrpThr: 0.784 ± 0.023	0.853TrpVal: 0.853 ± 0.027	0.217TrpTrp: 0.217 ± 0.013	0.282TrpTyr: 0.282 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.494TyrAla: 2.494 ± 0.047	0.226TyrCys: 0.226 ± 0.014	1.62TyrAsp: 1.62 ± 0.038	1.161TyrGlu: 1.161 ± 0.031	0.844TyrPhe: 0.844 ± 0.025	2.031TyrGly: 2.031 ± 0.043	0.501TyrHis: 0.501 ± 0.019	0.816TyrIle: 0.816 ± 0.024	0.475TyrLys: 0.475 ± 0.02	2.211TyrLeu: 2.211 ± 0.046	0.476TyrMet: 0.476 ± 0.019	0.519TyrAsn: 0.519 ± 0.022	1.066TyrPro: 1.066 ± 0.029	0.616TyrGln: 0.616 ± 0.025	1.746TyrArg: 1.746 ± 0.039	1.099TyrSer: 1.099 ± 0.029	1.0TyrThr: 1.0 ± 0.029	1.535TyrVal: 1.535 ± 0.041	0.358TyrTrp: 0.358 ± 0.017	0.582TyrTyr: 0.582 ± 0.022	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 3994 proteins (1272518 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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