Amino acid dipepetide frequency for Paracoccus denitrificans (strain Pd 1222)

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	19.116AlaAla: 19.116 ± 0.183	1.135AlaCys: 1.135 ± 0.024	6.884AlaAsp: 6.884 ± 0.073	9.278AlaGlu: 9.278 ± 0.096	4.084AlaPhe: 4.084 ± 0.06	12.368AlaGly: 12.368 ± 0.117	2.451AlaHis: 2.451 ± 0.049	6.08AlaIle: 6.08 ± 0.058	2.95AlaLys: 2.95 ± 0.055	15.073AlaLeu: 15.073 ± 0.146	4.152AlaMet: 4.152 ± 0.055	2.506AlaAsn: 2.506 ± 0.044	6.603AlaPro: 6.603 ± 0.09	4.714AlaGln: 4.714 ± 0.05	10.867AlaArg: 10.867 ± 0.11	5.758AlaSer: 5.758 ± 0.057	5.821AlaThr: 5.821 ± 0.053	8.764AlaVal: 8.764 ± 0.08	1.64AlaTrp: 1.64 ± 0.034	2.293AlaTyr: 2.293 ± 0.041	0.0AlaXaa: 0.0 ± 0.0
Cys	1.088CysAla: 1.088 ± 0.028	0.153CysCys: 0.153 ± 0.011	0.576CysAsp: 0.576 ± 0.018	0.43CysGlu: 0.43 ± 0.016	0.326CysPhe: 0.326 ± 0.016	0.987CysGly: 0.987 ± 0.032	0.272CysHis: 0.272 ± 0.014	0.395CysIle: 0.395 ± 0.014	0.18CysLys: 0.18 ± 0.011	0.849CysLeu: 0.849 ± 0.021	0.193CysMet: 0.193 ± 0.01	0.197CysAsn: 0.197 ± 0.013	0.549CysPro: 0.549 ± 0.02	0.228CysGln: 0.228 ± 0.014	0.716CysArg: 0.716 ± 0.024	0.457CysSer: 0.457 ± 0.016	0.387CysThr: 0.387 ± 0.014	0.527CysVal: 0.527 ± 0.018	0.141CysTrp: 0.141 ± 0.009	0.181CysTyr: 0.181 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	6.899AspAla: 6.899 ± 0.074	0.508AspCys: 0.508 ± 0.019	2.918AspAsp: 2.918 ± 0.047	3.484AspGlu: 3.484 ± 0.054	2.235AspPhe: 2.235 ± 0.03	5.236AspGly: 5.236 ± 0.078	1.36AspHis: 1.36 ± 0.025	2.672AspIle: 2.672 ± 0.052	1.315AspLys: 1.315 ± 0.029	6.345AspLeu: 6.345 ± 0.061	1.452AspMet: 1.452 ± 0.028	1.058AspAsn: 1.058 ± 0.031	3.895AspPro: 3.895 ± 0.048	1.765AspGln: 1.765 ± 0.034	4.833AspArg: 4.833 ± 0.064	2.094AspSer: 2.094 ± 0.042	2.297AspThr: 2.297 ± 0.042	3.306AspVal: 3.306 ± 0.049	1.222AspTrp: 1.222 ± 0.028	1.542AspTyr: 1.542 ± 0.032	0.0AspXaa: 0.0 ± 0.0
Glu	8.32GluAla: 8.32 ± 0.09	0.366GluCys: 0.366 ± 0.015	2.956GluAsp: 2.956 ± 0.046	3.018GluGlu: 3.018 ± 0.045	1.733GluPhe: 1.733 ± 0.03	4.841GluGly: 4.841 ± 0.051	1.149GluHis: 1.149 ± 0.028	3.553GluIle: 3.553 ± 0.048	1.742GluLys: 1.742 ± 0.038	5.467GluLeu: 5.467 ± 0.066	1.66GluMet: 1.66 ± 0.036	1.476GluAsn: 1.476 ± 0.028	2.932GluPro: 2.932 ± 0.045	1.856GluGln: 1.856 ± 0.04	4.764GluArg: 4.764 ± 0.06	2.21GluSer: 2.21 ± 0.043	3.334GluThr: 3.334 ± 0.044	3.956GluVal: 3.956 ± 0.056	0.761GluTrp: 0.761 ± 0.025	1.008GluTyr: 1.008 ± 0.024	0.0GluXaa: 0.0 ± 0.0
Phe	4.45PheAla: 4.45 ± 0.055	0.4PheCys: 0.4 ± 0.015	2.537PheAsp: 2.537 ± 0.046	1.796PheGlu: 1.796 ± 0.03	1.23PhePhe: 1.23 ± 0.029	3.528PheGly: 3.528 ± 0.046	0.78PheHis: 0.78 ± 0.024	1.474PheIle: 1.474 ± 0.03	0.64PheLys: 0.64 ± 0.026	3.414PheLeu: 3.414 ± 0.059	0.792PheMet: 0.792 ± 0.026	0.839PheAsn: 0.839 ± 0.022	1.625PhePro: 1.625 ± 0.033	0.985PheGln: 0.985 ± 0.023	2.458PheArg: 2.458 ± 0.035	1.98PheSer: 1.98 ± 0.033	1.827PheThr: 1.827 ± 0.043	2.483PheVal: 2.483 ± 0.038	0.577PheTrp: 0.577 ± 0.02	0.798PheTyr: 0.798 ± 0.023	0.0PheXaa: 0.0 ± 0.0
Gly	10.53GlyAla: 10.53 ± 0.094	0.91GlyCys: 0.91 ± 0.029	4.491GlyAsp: 4.491 ± 0.069	4.852GlyGlu: 4.852 ± 0.053	3.726GlyPhe: 3.726 ± 0.055	7.831GlyGly: 7.831 ± 0.101	2.094GlyHis: 2.094 ± 0.038	4.83GlyIle: 4.83 ± 0.066	2.879GlyLys: 2.879 ± 0.047	9.91GlyLeu: 9.91 ± 0.092	2.742GlyMet: 2.742 ± 0.045	2.185GlyAsn: 2.185 ± 0.062	4.175GlyPro: 4.175 ± 0.048	3.335GlyGln: 3.335 ± 0.044	7.257GlyArg: 7.257 ± 0.074	4.334GlySer: 4.334 ± 0.07	4.539GlyThr: 4.539 ± 0.063	6.143GlyVal: 6.143 ± 0.071	1.744GlyTrp: 1.744 ± 0.031	2.238GlyTyr: 2.238 ± 0.04	0.0GlyXaa: 0.0 ± 0.0
His	2.6HisAla: 2.6 ± 0.04	0.229HisCys: 0.229 ± 0.012	1.341HisAsp: 1.341 ± 0.029	1.125HisGlu: 1.125 ± 0.031	0.795HisPhe: 0.795 ± 0.024	2.128HisGly: 2.128 ± 0.034	0.567HisHis: 0.567 ± 0.022	0.862HisIle: 0.862 ± 0.023	0.409HisLys: 0.409 ± 0.016	2.278HisLeu: 2.278 ± 0.043	0.519HisMet: 0.519 ± 0.017	0.377HisAsn: 0.377 ± 0.016	1.516HisPro: 1.516 ± 0.026	0.58HisGln: 0.58 ± 0.019	1.64HisArg: 1.64 ± 0.036	0.894HisSer: 0.894 ± 0.023	0.66HisThr: 0.66 ± 0.02	1.588HisVal: 1.588 ± 0.028	0.353HisTrp: 0.353 ± 0.014	0.542HisTyr: 0.542 ± 0.02	0.0HisXaa: 0.0 ± 0.0
Ile	7.512IleAla: 7.512 ± 0.085	0.589IleCys: 0.589 ± 0.018	3.148IleAsp: 3.148 ± 0.047	3.356IleGlu: 3.356 ± 0.054	1.632IlePhe: 1.632 ± 0.037	5.051IleGly: 5.051 ± 0.059	0.994IleHis: 0.994 ± 0.028	1.865IleIle: 1.865 ± 0.042	1.033IleLys: 1.033 ± 0.028	4.791IleLeu: 4.791 ± 0.057	1.024IleMet: 1.024 ± 0.027	1.102IleAsn: 1.102 ± 0.025	2.403IlePro: 2.403 ± 0.039	1.124IleGln: 1.124 ± 0.024	3.872IleArg: 3.872 ± 0.045	2.733IleSer: 2.733 ± 0.044	2.496IleThr: 2.496 ± 0.047	3.677IleVal: 3.677 ± 0.057	0.738IleTrp: 0.738 ± 0.026	1.009IleTyr: 1.009 ± 0.026	0.0IleXaa: 0.0 ± 0.0
Lys	3.311LysAla: 3.311 ± 0.055	0.145LysCys: 0.145 ± 0.011	1.327LysAsp: 1.327 ± 0.027	1.112LysGlu: 1.112 ± 0.026	0.681LysPhe: 0.681 ± 0.024	2.337LysGly: 2.337 ± 0.049	0.455LysHis: 0.455 ± 0.017	1.239LysIle: 1.239 ± 0.03	0.756LysLys: 0.756 ± 0.029	2.468LysLeu: 2.468 ± 0.049	0.622LysMet: 0.622 ± 0.022	0.563LysAsn: 0.563 ± 0.023	1.651LysPro: 1.651 ± 0.04	0.757LysGln: 0.757 ± 0.023	1.82LysArg: 1.82 ± 0.031	1.378LysSer: 1.378 ± 0.027	1.43LysThr: 1.43 ± 0.038	1.807LysVal: 1.807 ± 0.039	0.327LysTrp: 0.327 ± 0.016	0.515LysTyr: 0.515 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	15.51LeuAla: 15.51 ± 0.127	0.966LeuCys: 0.966 ± 0.031	6.137LeuAsp: 6.137 ± 0.072	4.988LeuGlu: 4.988 ± 0.064	3.319LeuPhe: 3.319 ± 0.051	9.0LeuGly: 9.0 ± 0.088	2.073LeuHis: 2.073 ± 0.029	5.232LeuIle: 5.232 ± 0.073	2.548LeuLys: 2.548 ± 0.037	9.446LeuLeu: 9.446 ± 0.11	2.639LeuMet: 2.639 ± 0.044	2.441LeuAsn: 2.441 ± 0.039	6.405LeuPro: 6.405 ± 0.08	2.657LeuGln: 2.657 ± 0.042	8.361LeuArg: 8.361 ± 0.074	6.281LeuSer: 6.281 ± 0.075	5.815LeuThr: 5.815 ± 0.073	7.349LeuVal: 7.349 ± 0.086	1.37LeuTrp: 1.37 ± 0.026	1.88LeuTyr: 1.88 ± 0.031	0.0LeuXaa: 0.0 ± 0.0
Met	3.783MetAla: 3.783 ± 0.056	0.157MetCys: 0.157 ± 0.008	1.282MetAsp: 1.282 ± 0.028	1.168MetGlu: 1.168 ± 0.028	0.709MetPhe: 0.709 ± 0.022	2.165MetGly: 2.165 ± 0.039	0.433MetHis: 0.433 ± 0.017	1.494MetIle: 1.494 ± 0.032	0.86MetLys: 0.86 ± 0.024	2.751MetLeu: 2.751 ± 0.048	0.731MetMet: 0.731 ± 0.03	0.804MetAsn: 0.804 ± 0.025	1.637MetPro: 1.637 ± 0.033	1.017MetGln: 1.017 ± 0.026	2.221MetArg: 2.221 ± 0.035	1.531MetSer: 1.531 ± 0.03	1.986MetThr: 1.986 ± 0.03	1.836MetVal: 1.836 ± 0.033	0.226MetTrp: 0.226 ± 0.014	0.26MetTyr: 0.26 ± 0.011	0.0MetXaa: 0.0 ± 0.0
Asn	2.872AsnAla: 2.872 ± 0.044	0.236AsnCys: 0.236 ± 0.014	1.247AsnAsp: 1.247 ± 0.04	1.028AsnGlu: 1.028 ± 0.026	0.805AsnPhe: 0.805 ± 0.022	2.075AsnGly: 2.075 ± 0.042	0.478AsnHis: 0.478 ± 0.02	1.2AsnIle: 1.2 ± 0.032	0.471AsnLys: 0.471 ± 0.019	2.394AsnLeu: 2.394 ± 0.046	0.597AsnMet: 0.597 ± 0.021	0.517AsnAsn: 0.517 ± 0.02	1.833AsnPro: 1.833 ± 0.038	0.655AsnGln: 0.655 ± 0.022	1.829AsnArg: 1.829 ± 0.033	1.014AsnSer: 1.014 ± 0.021	1.044AsnThr: 1.044 ± 0.025	1.53AsnVal: 1.53 ± 0.033	0.423AsnTrp: 0.423 ± 0.014	0.562AsnTyr: 0.562 ± 0.019	0.0AsnXaa: 0.0 ± 0.0
Pro	7.473ProAla: 7.473 ± 0.103	0.44ProCys: 0.44 ± 0.018	3.95ProAsp: 3.95 ± 0.052	4.485ProGlu: 4.485 ± 0.055	1.955ProPhe: 1.955 ± 0.033	5.668ProGly: 5.668 ± 0.069	1.133ProHis: 1.133 ± 0.028	2.185ProIle: 2.185 ± 0.039	1.271ProLys: 1.271 ± 0.036	5.113ProLeu: 5.113 ± 0.059	1.427ProMet: 1.427 ± 0.032	1.139ProAsn: 1.139 ± 0.028	2.849ProPro: 2.849 ± 0.055	2.085ProGln: 2.085 ± 0.045	3.616ProArg: 3.616 ± 0.061	2.511ProSer: 2.511 ± 0.037	2.249ProThr: 2.249 ± 0.037	4.636ProVal: 4.636 ± 0.061	0.773ProTrp: 0.773 ± 0.023	1.054ProTyr: 1.054 ± 0.023	0.0ProXaa: 0.0 ± 0.0
Gln	4.493GlnAla: 4.493 ± 0.072	0.203GlnCys: 0.203 ± 0.009	1.724GlnAsp: 1.724 ± 0.033	1.52GlnGlu: 1.52 ± 0.039	0.999GlnPhe: 0.999 ± 0.021	3.052GlnGly: 3.052 ± 0.041	0.61GlnHis: 0.61 ± 0.02	1.974GlnIle: 1.974 ± 0.037	0.943GlnLys: 0.943 ± 0.024	2.772GlnLeu: 2.772 ± 0.047	0.995GlnMet: 0.995 ± 0.024	0.855GlnAsn: 0.855 ± 0.024	1.983GlnPro: 1.983 ± 0.046	1.174GlnGln: 1.174 ± 0.032	2.385GlnArg: 2.385 ± 0.042	1.66GlnSer: 1.66 ± 0.033	1.598GlnThr: 1.598 ± 0.038	2.45GlnVal: 2.45 ± 0.04	0.349GlnTrp: 0.349 ± 0.013	0.549GlnTyr: 0.549 ± 0.02	0.0GlnXaa: 0.0 ± 0.0
Arg	9.523ArgAla: 9.523 ± 0.1	0.573ArgCys: 0.573 ± 0.017	4.703ArgAsp: 4.703 ± 0.062	4.475ArgGlu: 4.475 ± 0.064	2.84ArgPhe: 2.84 ± 0.045	5.615ArgGly: 5.615 ± 0.069	2.003ArgHis: 2.003 ± 0.043	4.909ArgIle: 4.909 ± 0.062	2.139ArgLys: 2.139 ± 0.042	8.994ArgLeu: 8.994 ± 0.081	2.292ArgMet: 2.292 ± 0.034	1.921ArgAsn: 1.921 ± 0.033	4.305ArgPro: 4.305 ± 0.062	2.871ArgGln: 2.871 ± 0.049	6.633ArgArg: 6.633 ± 0.088	3.486ArgSer: 3.486 ± 0.048	3.098ArgThr: 3.098 ± 0.042	4.94ArgVal: 4.94 ± 0.057	1.128ArgTrp: 1.128 ± 0.025	1.601ArgTyr: 1.601 ± 0.034	0.0ArgXaa: 0.0 ± 0.0
Ser	5.903SerAla: 5.903 ± 0.06	0.461SerCys: 0.461 ± 0.022	2.786SerAsp: 2.786 ± 0.045	2.366SerGlu: 2.366 ± 0.041	2.056SerPhe: 2.056 ± 0.038	5.428SerGly: 5.428 ± 0.064	1.065SerHis: 1.065 ± 0.024	2.256SerIle: 2.256 ± 0.048	1.03SerLys: 1.03 ± 0.02	4.891SerLeu: 4.891 ± 0.062	1.215SerMet: 1.215 ± 0.031	1.055SerAsn: 1.055 ± 0.027	2.731SerPro: 2.731 ± 0.048	1.522SerGln: 1.522 ± 0.029	3.693SerArg: 3.693 ± 0.052	2.307SerSer: 2.307 ± 0.04	2.35SerThr: 2.35 ± 0.034	3.474SerVal: 3.474 ± 0.045	0.761SerTrp: 0.761 ± 0.024	1.184SerTyr: 1.184 ± 0.029	0.0SerXaa: 0.0 ± 0.0
Thr	5.94ThrAla: 5.94 ± 0.066	0.466ThrCys: 0.466 ± 0.019	2.679ThrAsp: 2.679 ± 0.046	2.671ThrGlu: 2.671 ± 0.047	1.637ThrPhe: 1.637 ± 0.032	5.191ThrGly: 5.191 ± 0.065	1.036ThrHis: 1.036 ± 0.024	2.465ThrIle: 2.465 ± 0.039	0.96ThrLys: 0.96 ± 0.024	5.483ThrLeu: 5.483 ± 0.048	1.175ThrMet: 1.175 ± 0.026	1.055ThrAsn: 1.055 ± 0.024	3.271ThrPro: 3.271 ± 0.041	1.435ThrGln: 1.435 ± 0.032	3.677ThrArg: 3.677 ± 0.044	2.241ThrSer: 2.241 ± 0.038	2.433ThrThr: 2.433 ± 0.034	3.981ThrVal: 3.981 ± 0.059	0.643ThrTrp: 0.643 ± 0.022	1.021ThrTyr: 1.021 ± 0.025	0.0ThrXaa: 0.0 ± 0.0
Val	9.31ValAla: 9.31 ± 0.075	0.553ValCys: 0.553 ± 0.021	3.577ValAsp: 3.577 ± 0.051	4.271ValGlu: 4.271 ± 0.065	2.512ValPhe: 2.512 ± 0.037	5.197ValGly: 5.197 ± 0.063	1.224ValHis: 1.224 ± 0.031	3.995ValIle: 3.995 ± 0.061	1.723ValLys: 1.723 ± 0.034	7.837ValLeu: 7.837 ± 0.083	2.041ValMet: 2.041 ± 0.044	1.779ValAsn: 1.779 ± 0.033	3.807ValPro: 3.807 ± 0.048	2.137ValGln: 2.137 ± 0.036	4.35ValArg: 4.35 ± 0.05	3.827ValSer: 3.827 ± 0.051	4.368ValThr: 4.368 ± 0.055	5.465ValVal: 5.465 ± 0.07	0.973ValTrp: 0.973 ± 0.025	1.268ValTyr: 1.268 ± 0.03	0.0ValXaa: 0.0 ± 0.0
Trp	1.459TrpAla: 1.459 ± 0.032	0.134TrpCys: 0.134 ± 0.01	0.745TrpAsp: 0.745 ± 0.027	0.579TrpGlu: 0.579 ± 0.02	0.576TrpPhe: 0.576 ± 0.019	1.071TrpGly: 1.071 ± 0.028	0.368TrpHis: 0.368 ± 0.016	0.732TrpIle: 0.732 ± 0.021	0.411TrpLys: 0.411 ± 0.017	1.974TrpLeu: 1.974 ± 0.037	0.378TrpMet: 0.378 ± 0.017	0.43TrpAsn: 0.43 ± 0.017	0.78TrpPro: 0.78 ± 0.022	0.754TrpGln: 0.754 ± 0.023	1.373TrpArg: 1.373 ± 0.035	0.813TrpSer: 0.813 ± 0.024	0.821TrpThr: 0.821 ± 0.025	0.844TrpVal: 0.844 ± 0.022	0.243TrpTrp: 0.243 ± 0.012	0.264TrpTyr: 0.264 ± 0.013	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.446TyrAla: 2.446 ± 0.044	0.212TyrCys: 0.212 ± 0.011	1.427TyrAsp: 1.427 ± 0.029	1.099TyrGlu: 1.099 ± 0.029	0.761TyrPhe: 0.761 ± 0.023	1.978TyrGly: 1.978 ± 0.037	0.458TyrHis: 0.458 ± 0.017	0.738TyrIle: 0.738 ± 0.019	0.441TyrLys: 0.441 ± 0.017	2.169TyrLeu: 2.169 ± 0.035	0.401TyrMet: 0.401 ± 0.017	0.509TyrAsn: 0.509 ± 0.02	1.062TyrPro: 1.062 ± 0.03	0.638TyrGln: 0.638 ± 0.02	1.683TyrArg: 1.683 ± 0.034	1.026TyrSer: 1.026 ± 0.033	0.907TyrThr: 0.907 ± 0.026	1.457TyrVal: 1.457 ± 0.036	0.354TyrTrp: 0.354 ± 0.019	0.529TyrTyr: 0.529 ± 0.02	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 5019 proteins (1561797 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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