Amino acid dipepetide frequency for Shewanella violacea (strain JCM 10179 / CIP 106290 / LMG 19151 / DSS12)

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	7.488AlaAla: 7.488 ± 0.111	1.032AlaCys: 1.032 ± 0.031	4.933AlaAsp: 4.933 ± 0.113	5.156AlaGlu: 5.156 ± 0.084	3.101AlaPhe: 3.101 ± 0.056	6.093AlaGly: 6.093 ± 0.075	1.62AlaHis: 1.62 ± 0.041	5.943AlaIle: 5.943 ± 0.078	5.211AlaLys: 5.211 ± 0.074	9.309AlaLeu: 9.309 ± 0.096	2.62AlaMet: 2.62 ± 0.048	3.757AlaAsn: 3.757 ± 0.065	2.889AlaPro: 2.889 ± 0.054	3.715AlaGln: 3.715 ± 0.051	3.449AlaArg: 3.449 ± 0.056	6.211AlaSer: 6.211 ± 0.084	4.182AlaThr: 4.182 ± 0.066	5.422AlaVal: 5.422 ± 0.066	0.939AlaTrp: 0.939 ± 0.028	2.431AlaTyr: 2.431 ± 0.045	0.001AlaXaa: 0.001 ± 0.001
Cys	0.735CysAla: 0.735 ± 0.023	0.152CysCys: 0.152 ± 0.011	0.629CysAsp: 0.629 ± 0.023	0.617CysGlu: 0.617 ± 0.024	0.462CysPhe: 0.462 ± 0.019	0.874CysGly: 0.874 ± 0.027	0.341CysHis: 0.341 ± 0.016	0.676CysIle: 0.676 ± 0.025	0.411CysLys: 0.411 ± 0.017	1.034CysLeu: 1.034 ± 0.027	0.233CysMet: 0.233 ± 0.012	0.375CysAsn: 0.375 ± 0.017	0.423CysPro: 0.423 ± 0.021	0.436CysGln: 0.436 ± 0.019	0.477CysArg: 0.477 ± 0.021	0.766CysSer: 0.766 ± 0.027	0.477CysThr: 0.477 ± 0.017	0.632CysVal: 0.632 ± 0.023	0.125CysTrp: 0.125 ± 0.01	0.339CysTyr: 0.339 ± 0.016	0.0CysXaa: 0.0 ± 0.0
Asp	4.629AspAla: 4.629 ± 0.075	0.545AspCys: 0.545 ± 0.021	3.236AspAsp: 3.236 ± 0.061	3.951AspGlu: 3.951 ± 0.073	2.515AspPhe: 2.515 ± 0.051	4.167AspGly: 4.167 ± 0.108	1.04AspHis: 1.04 ± 0.031	4.367AspIle: 4.367 ± 0.068	3.72AspLys: 3.72 ± 0.064	5.501AspLeu: 5.501 ± 0.074	1.497AspMet: 1.497 ± 0.038	2.827AspAsn: 2.827 ± 0.078	2.128AspPro: 2.128 ± 0.046	1.741AspGln: 1.741 ± 0.042	2.233AspArg: 2.233 ± 0.043	3.987AspSer: 3.987 ± 0.073	3.294AspThr: 3.294 ± 0.073	3.531AspVal: 3.531 ± 0.076	0.823AspTrp: 0.823 ± 0.025	2.029AspTyr: 2.029 ± 0.042	0.0AspXaa: 0.0 ± 0.0
Glu	5.073GluAla: 5.073 ± 0.091	0.492GluCys: 0.492 ± 0.018	2.805GluAsp: 2.805 ± 0.059	3.123GluGlu: 3.123 ± 0.053	2.41GluPhe: 2.41 ± 0.049	3.422GluGly: 3.422 ± 0.062	1.47GluHis: 1.47 ± 0.034	3.828GluIle: 3.828 ± 0.062	3.132GluLys: 3.132 ± 0.051	7.344GluLeu: 7.344 ± 0.1	1.63GluMet: 1.63 ± 0.04	2.243GluAsn: 2.243 ± 0.038	1.883GluPro: 1.883 ± 0.039	3.602GluGln: 3.602 ± 0.054	2.909GluArg: 2.909 ± 0.055	3.906GluSer: 3.906 ± 0.056	3.118GluThr: 3.118 ± 0.06	4.206GluVal: 4.206 ± 0.066	0.652GluTrp: 0.652 ± 0.025	1.772GluTyr: 1.772 ± 0.041	0.0GluXaa: 0.0 ± 0.0
Phe	3.203PheAla: 3.203 ± 0.053	0.475PheCys: 0.475 ± 0.018	2.827PheAsp: 2.827 ± 0.05	2.489PheGlu: 2.489 ± 0.038	1.641PhePhe: 1.641 ± 0.046	3.009PheGly: 3.009 ± 0.056	0.806PheHis: 0.806 ± 0.025	2.944PheIle: 2.944 ± 0.06	2.062PheLys: 2.062 ± 0.049	3.121PheLeu: 3.121 ± 0.057	1.076PheMet: 1.076 ± 0.032	2.159PheAsn: 2.159 ± 0.044	1.336PhePro: 1.336 ± 0.028	1.115PheGln: 1.115 ± 0.034	1.43PheArg: 1.43 ± 0.036	3.598PheSer: 3.598 ± 0.062	2.469PheThr: 2.469 ± 0.059	2.51PheVal: 2.51 ± 0.045	0.508PheTrp: 0.508 ± 0.021	1.407PheTyr: 1.407 ± 0.035	0.0PheXaa: 0.0 ± 0.0
Gly	5.399GlyAla: 5.399 ± 0.074	0.797GlyCys: 0.797 ± 0.024	3.959GlyAsp: 3.959 ± 0.072	4.373GlyGlu: 4.373 ± 0.075	3.261GlyPhe: 3.261 ± 0.059	4.815GlyGly: 4.815 ± 0.081	1.599GlyHis: 1.599 ± 0.035	4.976GlyIle: 4.976 ± 0.066	3.955GlyLys: 3.955 ± 0.06	7.334GlyLeu: 7.334 ± 0.089	1.978GlyMet: 1.978 ± 0.041	2.707GlyAsn: 2.707 ± 0.07	1.663GlyPro: 1.663 ± 0.039	2.89GlyGln: 2.89 ± 0.054	3.0GlyArg: 3.0 ± 0.048	4.492GlySer: 4.492 ± 0.072	3.745GlyThr: 3.745 ± 0.12	5.083GlyVal: 5.083 ± 0.069	0.888GlyTrp: 0.888 ± 0.025	2.587GlyTyr: 2.587 ± 0.048	0.0GlyXaa: 0.0 ± 0.0
His	1.438HisAla: 1.438 ± 0.035	0.293HisCys: 0.293 ± 0.015	1.048HisAsp: 1.048 ± 0.029	1.113HisGlu: 1.113 ± 0.031	1.084HisPhe: 1.084 ± 0.029	1.603HisGly: 1.603 ± 0.036	0.669HisHis: 0.669 ± 0.023	1.366HisIle: 1.366 ± 0.031	1.193HisLys: 1.193 ± 0.031	2.414HisLeu: 2.414 ± 0.042	0.524HisMet: 0.524 ± 0.019	0.827HisAsn: 0.827 ± 0.023	1.048HisPro: 1.048 ± 0.029	1.136HisGln: 1.136 ± 0.033	1.04HisArg: 1.04 ± 0.029	1.44HisSer: 1.44 ± 0.03	1.04HisThr: 1.04 ± 0.026	1.13HisVal: 1.13 ± 0.03	0.39HisTrp: 0.39 ± 0.014	0.837HisTyr: 0.837 ± 0.027	0.0HisXaa: 0.0 ± 0.0
Ile	6.306IleAla: 6.306 ± 0.08	0.743IleCys: 0.743 ± 0.024	4.572IleAsp: 4.572 ± 0.068	4.68IleGlu: 4.68 ± 0.065	2.419IlePhe: 2.419 ± 0.052	4.704IleGly: 4.704 ± 0.072	1.279IleHis: 1.279 ± 0.032	4.099IleIle: 4.099 ± 0.064	3.741IleLys: 3.741 ± 0.05	5.681IleLeu: 5.681 ± 0.082	1.439IleMet: 1.439 ± 0.041	3.275IleAsn: 3.275 ± 0.06	2.66IlePro: 2.66 ± 0.045	2.335IleGln: 2.335 ± 0.045	2.756IleArg: 2.756 ± 0.051	5.218IleSer: 5.218 ± 0.072	3.868IleThr: 3.868 ± 0.062	3.727IleVal: 3.727 ± 0.059	0.719IleTrp: 0.719 ± 0.026	1.86IleTyr: 1.86 ± 0.037	0.0IleXaa: 0.0 ± 0.0
Lys	4.769LysAla: 4.769 ± 0.079	0.347LysCys: 0.347 ± 0.019	2.845LysAsp: 2.845 ± 0.054	2.818LysGlu: 2.818 ± 0.051	1.715LysPhe: 1.715 ± 0.043	3.45LysGly: 3.45 ± 0.054	1.317LysHis: 1.317 ± 0.034	3.306LysIle: 3.306 ± 0.056	2.639LysLys: 2.639 ± 0.048	6.193LysLeu: 6.193 ± 0.082	1.463LysMet: 1.463 ± 0.035	1.975LysAsn: 1.975 ± 0.041	2.403LysPro: 2.403 ± 0.051	3.143LysGln: 3.143 ± 0.061	2.742LysArg: 2.742 ± 0.047	3.588LysSer: 3.588 ± 0.063	2.777LysThr: 2.777 ± 0.053	3.776LysVal: 3.776 ± 0.066	0.499LysTrp: 0.499 ± 0.019	1.505LysTyr: 1.505 ± 0.038	0.0LysXaa: 0.0 ± 0.0
Leu	10.381LeuAla: 10.381 ± 0.091	1.148LeuCys: 1.148 ± 0.033	6.314LeuAsp: 6.314 ± 0.073	5.885LeuGlu: 5.885 ± 0.075	4.13LeuPhe: 4.13 ± 0.075	7.256LeuGly: 7.256 ± 0.088	2.034LeuHis: 2.034 ± 0.047	6.69LeuIle: 6.69 ± 0.086	5.595LeuLys: 5.595 ± 0.081	10.876LeuLeu: 10.876 ± 0.134	2.834LeuMet: 2.834 ± 0.057	4.752LeuAsn: 4.752 ± 0.07	4.672LeuPro: 4.672 ± 0.066	3.548LeuGln: 3.548 ± 0.055	3.982LeuArg: 3.982 ± 0.063	8.54LeuSer: 8.54 ± 0.096	6.578LeuThr: 6.578 ± 0.106	7.511LeuVal: 7.511 ± 0.096	1.078LeuTrp: 1.078 ± 0.033	2.763LeuTyr: 2.763 ± 0.051	0.0LeuXaa: 0.0 ± 0.0
Met	2.63MetAla: 2.63 ± 0.05	0.195MetCys: 0.195 ± 0.013	1.318MetAsp: 1.318 ± 0.034	1.29MetGlu: 1.29 ± 0.033	0.967MetPhe: 0.967 ± 0.029	1.874MetGly: 1.874 ± 0.039	0.466MetHis: 0.466 ± 0.019	1.555MetIle: 1.555 ± 0.038	1.554MetLys: 1.554 ± 0.035	2.973MetLeu: 2.973 ± 0.054	0.868MetMet: 0.868 ± 0.027	1.161MetAsn: 1.161 ± 0.027	1.252MetPro: 1.252 ± 0.031	1.124MetGln: 1.124 ± 0.029	1.139MetArg: 1.139 ± 0.035	2.083MetSer: 2.083 ± 0.04	1.697MetThr: 1.697 ± 0.038	1.769MetVal: 1.769 ± 0.037	0.214MetTrp: 0.214 ± 0.013	0.536MetTyr: 0.536 ± 0.02	0.0MetXaa: 0.0 ± 0.0
Asn	3.312AsnAla: 3.312 ± 0.063	0.427AsnCys: 0.427 ± 0.019	2.444AsnAsp: 2.444 ± 0.08	2.232AsnGlu: 2.232 ± 0.04	1.608AsnPhe: 1.608 ± 0.036	2.878AsnGly: 2.878 ± 0.059	0.939AsnHis: 0.939 ± 0.028	3.048AsnIle: 3.048 ± 0.057	2.51AsnLys: 2.51 ± 0.048	4.256AsnLeu: 4.256 ± 0.059	1.03AsnMet: 1.03 ± 0.03	1.974AsnAsn: 1.974 ± 0.056	2.017AsnPro: 2.017 ± 0.039	2.014AsnGln: 2.014 ± 0.04	1.963AsnArg: 1.963 ± 0.042	2.912AsnSer: 2.912 ± 0.069	2.418AsnThr: 2.418 ± 0.06	2.338AsnVal: 2.338 ± 0.049	0.602AsnTrp: 0.602 ± 0.022	1.382AsnTyr: 1.382 ± 0.034	0.0AsnXaa: 0.0 ± 0.0
Pro	2.975ProAla: 2.975 ± 0.053	0.304ProCys: 0.304 ± 0.016	2.293ProAsp: 2.293 ± 0.044	2.939ProGlu: 2.939 ± 0.049	1.592ProPhe: 1.592 ± 0.033	2.482ProGly: 2.482 ± 0.054	0.784ProHis: 0.784 ± 0.026	2.54ProIle: 2.54 ± 0.046	2.145ProLys: 2.145 ± 0.037	4.094ProLeu: 4.094 ± 0.067	1.085ProMet: 1.085 ± 0.03	1.591ProAsn: 1.591 ± 0.035	1.036ProPro: 1.036 ± 0.033	1.696ProGln: 1.696 ± 0.039	1.37ProArg: 1.37 ± 0.033	2.552ProSer: 2.552 ± 0.05	1.937ProThr: 1.937 ± 0.037	2.919ProVal: 2.919 ± 0.053	0.485ProTrp: 0.485 ± 0.019	1.175ProTyr: 1.175 ± 0.028	0.0ProXaa: 0.0 ± 0.0
Gln	4.754GlnAla: 4.754 ± 0.085	0.358GlnCys: 0.358 ± 0.018	2.405GlnAsp: 2.405 ± 0.039	2.435GlnGlu: 2.435 ± 0.054	1.686GlnPhe: 1.686 ± 0.037	3.229GlnGly: 3.229 ± 0.049	1.016GlnHis: 1.016 ± 0.029	2.633GlnIle: 2.633 ± 0.048	1.805GlnLys: 1.805 ± 0.034	5.246GlnLeu: 5.246 ± 0.079	1.124GlnMet: 1.124 ± 0.033	1.366GlnAsn: 1.366 ± 0.036	1.378GlnPro: 1.378 ± 0.031	2.517GlnGln: 2.517 ± 0.067	1.995GlnArg: 1.995 ± 0.04	2.767GlnSer: 2.767 ± 0.048	2.274GlnThr: 2.274 ± 0.053	3.491GlnVal: 3.491 ± 0.055	0.595GlnTrp: 0.595 ± 0.028	1.343GlnTyr: 1.343 ± 0.034	0.0GlnXaa: 0.0 ± 0.0
Arg	3.218ArgAla: 3.218 ± 0.054	0.445ArgCys: 0.445 ± 0.02	2.493ArgAsp: 2.493 ± 0.048	2.652ArgGlu: 2.652 ± 0.051	2.027ArgPhe: 2.027 ± 0.038	2.56ArgGly: 2.56 ± 0.05	1.065ArgHis: 1.065 ± 0.028	2.949ArgIle: 2.949 ± 0.052	2.114ArgLys: 2.114 ± 0.041	4.999ArgLeu: 4.999 ± 0.084	1.144ArgMet: 1.144 ± 0.028	1.701ArgAsn: 1.701 ± 0.037	1.559ArgPro: 1.559 ± 0.041	2.043ArgGln: 2.043 ± 0.05	2.207ArgArg: 2.207 ± 0.051	2.556ArgSer: 2.556 ± 0.047	1.976ArgThr: 1.976 ± 0.038	3.18ArgVal: 3.18 ± 0.058	0.577ArgTrp: 0.577 ± 0.022	1.735ArgTyr: 1.735 ± 0.038	0.0ArgXaa: 0.0 ± 0.0
Ser	5.828SerAla: 5.828 ± 0.088	0.717SerCys: 0.717 ± 0.025	4.027SerAsp: 4.027 ± 0.068	4.141SerGlu: 4.141 ± 0.06	3.081SerPhe: 3.081 ± 0.054	5.373SerGly: 5.373 ± 0.087	1.719SerHis: 1.719 ± 0.033	4.651SerIle: 4.651 ± 0.068	3.472SerLys: 3.472 ± 0.056	8.201SerLeu: 8.201 ± 0.101	1.945SerMet: 1.945 ± 0.038	2.841SerAsn: 2.841 ± 0.049	2.768SerPro: 2.768 ± 0.043	3.48SerGln: 3.48 ± 0.051	3.141SerArg: 3.141 ± 0.048	5.148SerSer: 5.148 ± 0.08	3.44SerThr: 3.44 ± 0.066	4.899SerVal: 4.899 ± 0.076	0.939SerTrp: 0.939 ± 0.025	2.365SerTyr: 2.365 ± 0.048	0.0SerXaa: 0.0 ± 0.0
Thr	4.58ThrAla: 4.58 ± 0.076	0.554ThrCys: 0.554 ± 0.023	3.212ThrAsp: 3.212 ± 0.101	3.037ThrGlu: 3.037 ± 0.053	1.976ThrPhe: 1.976 ± 0.081	4.404ThrGly: 4.404 ± 0.077	1.15ThrHis: 1.15 ± 0.027	3.235ThrIle: 3.235 ± 0.06	2.473ThrLys: 2.473 ± 0.047	6.276ThrLeu: 6.276 ± 0.099	1.24ThrMet: 1.24 ± 0.03	2.123ThrAsn: 2.123 ± 0.05	2.741ThrPro: 2.741 ± 0.068	2.833ThrGln: 2.833 ± 0.049	2.291ThrArg: 2.291 ± 0.036	4.089ThrSer: 4.089 ± 0.079	2.599ThrThr: 2.599 ± 0.049	3.444ThrVal: 3.444 ± 0.094	0.6ThrTrp: 0.6 ± 0.023	1.493ThrTyr: 1.493 ± 0.038	0.0ThrXaa: 0.0 ± 0.0
Val	5.724ValAla: 5.724 ± 0.081	0.672ValCys: 0.672 ± 0.021	4.081ValAsp: 4.081 ± 0.07	4.164ValGlu: 4.164 ± 0.066	2.54ValPhe: 2.54 ± 0.041	4.269ValGly: 4.269 ± 0.066	1.179ValHis: 1.179 ± 0.03	4.857ValIle: 4.857 ± 0.069	3.619ValLys: 3.619 ± 0.061	6.47ValLeu: 6.47 ± 0.082	1.917ValMet: 1.917 ± 0.048	3.09ValAsn: 3.09 ± 0.054	2.374ValPro: 2.374 ± 0.047	2.289ValGln: 2.289 ± 0.051	2.616ValArg: 2.616 ± 0.047	5.192ValSer: 5.192 ± 0.073	4.449ValThr: 4.449 ± 0.105	4.442ValVal: 4.442 ± 0.067	0.672ValTrp: 0.672 ± 0.023	1.829ValTyr: 1.829 ± 0.035	0.0ValXaa: 0.0 ± 0.0
Trp	0.78TrpAla: 0.78 ± 0.027	0.145TrpCys: 0.145 ± 0.01	0.657TrpAsp: 0.657 ± 0.027	0.5TrpGlu: 0.5 ± 0.02	0.54TrpPhe: 0.54 ± 0.02	0.752TrpGly: 0.752 ± 0.028	0.349TrpHis: 0.349 ± 0.016	0.668TrpIle: 0.668 ± 0.023	0.472TrpLys: 0.472 ± 0.02	1.584TrpLeu: 1.584 ± 0.033	0.314TrpMet: 0.314 ± 0.014	0.454TrpAsn: 0.454 ± 0.021	0.442TrpPro: 0.442 ± 0.018	0.901TrpGln: 0.901 ± 0.028	0.644TrpArg: 0.644 ± 0.021	0.865TrpSer: 0.865 ± 0.027	0.554TrpThr: 0.554 ± 0.03	0.76TrpVal: 0.76 ± 0.026	0.178TrpTrp: 0.178 ± 0.011	0.357TrpTyr: 0.357 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.281TyrAla: 2.281 ± 0.05	0.372TyrCys: 0.372 ± 0.018	1.663TyrAsp: 1.663 ± 0.045	1.423TyrGlu: 1.423 ± 0.034	1.431TyrPhe: 1.431 ± 0.041	2.291TyrGly: 2.291 ± 0.049	0.792TyrHis: 0.792 ± 0.023	1.752TyrIle: 1.752 ± 0.033	1.448TyrLys: 1.448 ± 0.038	3.661TyrLeu: 3.661 ± 0.065	0.702TyrMet: 0.702 ± 0.022	1.105TyrAsn: 1.105 ± 0.035	1.324TyrPro: 1.324 ± 0.034	1.857TyrGln: 1.857 ± 0.039	1.816TyrArg: 1.816 ± 0.035	2.267TyrSer: 2.267 ± 0.05	1.455TyrThr: 1.455 ± 0.041	1.677TyrVal: 1.677 ± 0.035	0.433TyrTrp: 0.433 ± 0.019	1.056TyrTyr: 1.056 ± 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	0.001XaaAsn: 0.001 ± 0.001	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.001XaaArg: 0.001 ± 0.001	0.0XaaSer: 0.0 ± 0.0	0.0XaaThr: 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 4336 proteins (1350730 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

---