Amino acid dipepetide frequency for Holdemanella biformis DSM 3989

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	3.586AlaAla: 3.586 ± 0.088	1.236AlaCys: 1.236 ± 0.042	3.044AlaAsp: 3.044 ± 0.068	2.708AlaGlu: 2.708 ± 0.085	2.771AlaPhe: 2.771 ± 0.066	3.832AlaGly: 3.832 ± 0.088	1.185AlaHis: 1.185 ± 0.05	5.042AlaIle: 5.042 ± 0.093	5.129AlaLys: 5.129 ± 0.091	6.263AlaLeu: 6.263 ± 0.109	1.947AlaMet: 1.947 ± 0.058	2.958AlaAsn: 2.958 ± 0.061	1.439AlaPro: 1.439 ± 0.048	2.177AlaGln: 2.177 ± 0.078	2.126AlaArg: 2.126 ± 0.06	3.864AlaSer: 3.864 ± 0.081	3.137AlaThr: 3.137 ± 0.078	3.566AlaVal: 3.566 ± 0.08	0.449AlaTrp: 0.449 ± 0.026	2.762AlaTyr: 2.762 ± 0.056	0.0AlaXaa: 0.0 ± 0.0
Cys	1.013CysAla: 1.013 ± 0.041	0.253CysCys: 0.253 ± 0.019	1.095CysAsp: 1.095 ± 0.042	0.966CysGlu: 0.966 ± 0.037	0.856CysPhe: 0.856 ± 0.037	1.248CysGly: 1.248 ± 0.046	0.383CysHis: 0.383 ± 0.024	1.499CysIle: 1.499 ± 0.049	1.135CysLys: 1.135 ± 0.044	1.54CysLeu: 1.54 ± 0.052	0.59CysMet: 0.59 ± 0.031	0.65CysAsn: 0.65 ± 0.031	0.62CysPro: 0.62 ± 0.038	0.456CysGln: 0.456 ± 0.019	0.527CysArg: 0.527 ± 0.029	0.968CysSer: 0.968 ± 0.036	0.884CysThr: 0.884 ± 0.037	1.209CysVal: 1.209 ± 0.04	0.105CysTrp: 0.105 ± 0.012	0.574CysTyr: 0.574 ± 0.027	0.0CysXaa: 0.0 ± 0.0
Asp	3.851AspAla: 3.851 ± 0.086	1.118AspCys: 1.118 ± 0.04	3.2AspAsp: 3.2 ± 0.078	5.085AspGlu: 5.085 ± 0.085	3.132AspPhe: 3.132 ± 0.069	3.878AspGly: 3.878 ± 0.087	1.175AspHis: 1.175 ± 0.042	4.712AspIle: 4.712 ± 0.073	4.29AspLys: 4.29 ± 0.08	5.569AspLeu: 5.569 ± 0.097	1.849AspMet: 1.849 ± 0.047	2.313AspAsn: 2.313 ± 0.058	1.688AspPro: 1.688 ± 0.048	1.763AspGln: 1.763 ± 0.04	1.968AspArg: 1.968 ± 0.053	3.45AspSer: 3.45 ± 0.069	3.185AspThr: 3.185 ± 0.059	4.604AspVal: 4.604 ± 0.086	0.559AspTrp: 0.559 ± 0.026	3.054AspTyr: 3.054 ± 0.07	0.0AspXaa: 0.0 ± 0.0
Glu	3.952GluAla: 3.952 ± 0.097	0.929GluCys: 0.929 ± 0.038	4.386GluAsp: 4.386 ± 0.091	5.909GluGlu: 5.909 ± 0.106	2.799GluPhe: 2.799 ± 0.058	3.113GluGly: 3.113 ± 0.066	1.283GluHis: 1.283 ± 0.046	5.499GluIle: 5.499 ± 0.092	6.677GluLys: 6.677 ± 0.109	6.267GluLeu: 6.267 ± 0.103	2.438GluMet: 2.438 ± 0.07	4.84GluAsn: 4.84 ± 0.083	1.439GluPro: 1.439 ± 0.049	2.55GluGln: 2.55 ± 0.067	2.417GluArg: 2.417 ± 0.063	3.493GluSer: 3.493 ± 0.072	3.388GluThr: 3.388 ± 0.063	4.426GluVal: 4.426 ± 0.095	0.615GluTrp: 0.615 ± 0.03	3.273GluTyr: 3.273 ± 0.078	0.0GluXaa: 0.0 ± 0.0
Phe	2.387PheAla: 2.387 ± 0.063	0.73PheCys: 0.73 ± 0.029	3.18PheAsp: 3.18 ± 0.06	3.344PheGlu: 3.344 ± 0.071	2.088PhePhe: 2.088 ± 0.064	2.866PheGly: 2.866 ± 0.072	0.923PheHis: 0.923 ± 0.037	3.643PheIle: 3.643 ± 0.086	3.298PheLys: 3.298 ± 0.078	3.973PheLeu: 3.973 ± 0.087	1.42PheMet: 1.42 ± 0.056	2.339PheAsn: 2.339 ± 0.05	1.12PhePro: 1.12 ± 0.034	1.222PheGln: 1.222 ± 0.043	1.192PheArg: 1.192 ± 0.041	3.073PheSer: 3.073 ± 0.067	2.354PheThr: 2.354 ± 0.056	3.309PheVal: 3.309 ± 0.074	0.352PheTrp: 0.352 ± 0.022	1.958PheTyr: 1.958 ± 0.065	0.0PheXaa: 0.0 ± 0.0
Gly	3.606GlyAla: 3.606 ± 0.096	1.124GlyCys: 1.124 ± 0.044	2.71GlyAsp: 2.71 ± 0.069	2.899GlyGlu: 2.899 ± 0.064	2.984GlyPhe: 2.984 ± 0.072	3.576GlyGly: 3.576 ± 0.117	1.272GlyHis: 1.272 ± 0.045	5.428GlyIle: 5.428 ± 0.083	4.905GlyLys: 4.905 ± 0.086	5.526GlyLeu: 5.526 ± 0.092	2.133GlyMet: 2.133 ± 0.055	2.814GlyAsn: 2.814 ± 0.064	1.148GlyPro: 1.148 ± 0.045	1.832GlyGln: 1.832 ± 0.057	1.97GlyArg: 1.97 ± 0.058	3.515GlySer: 3.515 ± 0.087	3.337GlyThr: 3.337 ± 0.086	4.248GlyVal: 4.248 ± 0.086	0.634GlyTrp: 0.634 ± 0.04	3.185GlyTyr: 3.185 ± 0.076	0.0GlyXaa: 0.0 ± 0.0
His	1.15HisAla: 1.15 ± 0.04	0.381HisCys: 0.381 ± 0.02	1.105HisAsp: 1.105 ± 0.038	1.32HisGlu: 1.32 ± 0.042	1.075HisPhe: 1.075 ± 0.039	1.3HisGly: 1.3 ± 0.05	0.47HisHis: 0.47 ± 0.025	1.644HisIle: 1.644 ± 0.054	1.362HisLys: 1.362 ± 0.044	1.801HisLeu: 1.801 ± 0.056	0.628HisMet: 0.628 ± 0.029	0.891HisAsn: 0.891 ± 0.035	0.85HisPro: 0.85 ± 0.032	0.626HisGln: 0.626 ± 0.032	0.758HisArg: 0.758 ± 0.032	1.147HisSer: 1.147 ± 0.04	1.117HisThr: 1.117 ± 0.042	1.439HisVal: 1.439 ± 0.054	0.16HisTrp: 0.16 ± 0.016	0.906HisTyr: 0.906 ± 0.035	0.0HisXaa: 0.0 ± 0.0
Ile	4.979IleAla: 4.979 ± 0.093	1.495IleCys: 1.495 ± 0.047	5.018IleAsp: 5.018 ± 0.101	5.836IleGlu: 5.836 ± 0.094	3.233IlePhe: 3.233 ± 0.082	4.705IleGly: 4.705 ± 0.097	1.904IleHis: 1.904 ± 0.058	5.429IleIle: 5.429 ± 0.097	5.21IleLys: 5.21 ± 0.097	7.964IleLeu: 7.964 ± 0.116	2.027IleMet: 2.027 ± 0.059	3.445IleAsn: 3.445 ± 0.061	2.887IlePro: 2.887 ± 0.058	3.418IleGln: 3.418 ± 0.078	2.95IleArg: 2.95 ± 0.061	5.445IleSer: 5.445 ± 0.089	3.948IleThr: 3.948 ± 0.082	5.686IleVal: 5.686 ± 0.093	0.546IleTrp: 0.546 ± 0.028	3.285IleTyr: 3.285 ± 0.072	0.0IleXaa: 0.0 ± 0.0
Lys	4.825LysAla: 4.825 ± 0.11	0.864LysCys: 0.864 ± 0.04	5.749LysAsp: 5.749 ± 0.102	7.909LysGlu: 7.909 ± 0.124	2.287LysPhe: 2.287 ± 0.057	4.116LysGly: 4.116 ± 0.076	1.467LysHis: 1.467 ± 0.049	5.581LysIle: 5.581 ± 0.08	7.997LysLys: 7.997 ± 0.124	5.831LysLeu: 5.831 ± 0.105	2.751LysMet: 2.751 ± 0.061	4.98LysAsn: 4.98 ± 0.087	2.092LysPro: 2.092 ± 0.049	3.218LysGln: 3.218 ± 0.075	3.106LysArg: 3.106 ± 0.076	4.345LysSer: 4.345 ± 0.074	4.174LysThr: 4.174 ± 0.066	5.016LysVal: 5.016 ± 0.083	0.667LysTrp: 0.667 ± 0.032	3.567LysTyr: 3.567 ± 0.071	0.0LysXaa: 0.0 ± 0.0
Leu	5.658LeuAla: 5.658 ± 0.102	1.676LeuCys: 1.676 ± 0.053	6.101LeuAsp: 6.101 ± 0.092	6.274LeuGlu: 6.274 ± 0.112	4.323LeuPhe: 4.323 ± 0.093	5.299LeuGly: 5.299 ± 0.107	1.734LeuHis: 1.734 ± 0.046	6.597LeuIle: 6.597 ± 0.109	7.508LeuLys: 7.508 ± 0.112	8.034LeuLeu: 8.034 ± 0.117	2.767LeuMet: 2.767 ± 0.073	5.45LeuAsn: 5.45 ± 0.088	2.951LeuPro: 2.951 ± 0.068	2.961LeuGln: 2.961 ± 0.07	2.969LeuArg: 2.969 ± 0.079	6.517LeuSer: 6.517 ± 0.1	4.464LeuThr: 4.464 ± 0.086	5.83LeuVal: 5.83 ± 0.098	0.676LeuTrp: 0.676 ± 0.032	3.718LeuTyr: 3.718 ± 0.068	0.0LeuXaa: 0.0 ± 0.0
Met	2.012MetAla: 2.012 ± 0.062	0.444MetCys: 0.444 ± 0.023	2.271MetAsp: 2.271 ± 0.061	2.27MetGlu: 2.27 ± 0.06	1.21MetPhe: 1.21 ± 0.045	1.634MetGly: 1.634 ± 0.054	0.656MetHis: 0.656 ± 0.033	2.66MetIle: 2.66 ± 0.068	2.813MetLys: 2.813 ± 0.067	2.542MetLeu: 2.542 ± 0.063	1.103MetMet: 1.103 ± 0.043	2.097MetAsn: 2.097 ± 0.053	1.079MetPro: 1.079 ± 0.038	1.15MetGln: 1.15 ± 0.04	1.116MetArg: 1.116 ± 0.044	1.942MetSer: 1.942 ± 0.057	1.435MetThr: 1.435 ± 0.045	1.933MetVal: 1.933 ± 0.055	0.179MetTrp: 0.179 ± 0.015	1.159MetTyr: 1.159 ± 0.044	0.0MetXaa: 0.0 ± 0.0
Asn	3.422AsnAla: 3.422 ± 0.077	0.769AsnCys: 0.769 ± 0.031	3.07AsnAsp: 3.07 ± 0.071	4.155AsnGlu: 4.155 ± 0.079	1.911AsnPhe: 1.911 ± 0.049	3.606AsnGly: 3.606 ± 0.1	1.19AsnHis: 1.19 ± 0.042	4.118AsnIle: 4.118 ± 0.088	4.227AsnLys: 4.227 ± 0.08	4.371AsnLeu: 4.371 ± 0.082	1.64AsnMet: 1.64 ± 0.046	2.639AsnAsn: 2.639 ± 0.07	1.986AsnPro: 1.986 ± 0.054	2.14AsnGln: 2.14 ± 0.054	2.149AsnArg: 2.149 ± 0.059	2.825AsnSer: 2.825 ± 0.066	2.912AsnThr: 2.912 ± 0.067	3.806AsnVal: 3.806 ± 0.069	0.457AsnTrp: 0.457 ± 0.024	2.389AsnTyr: 2.389 ± 0.075	0.0AsnXaa: 0.0 ± 0.0
Pro	1.483ProAla: 1.483 ± 0.05	0.463ProCys: 0.463 ± 0.029	1.771ProAsp: 1.771 ± 0.047	2.292ProGlu: 2.292 ± 0.068	1.6ProPhe: 1.6 ± 0.043	1.547ProGly: 1.547 ± 0.048	0.47ProHis: 0.47 ± 0.026	2.398ProIle: 2.398 ± 0.06	2.103ProLys: 2.103 ± 0.057	2.475ProLeu: 2.475 ± 0.068	0.873ProMet: 0.873 ± 0.038	1.65ProAsn: 1.65 ± 0.047	0.419ProPro: 0.419 ± 0.024	0.858ProGln: 0.858 ± 0.032	0.813ProArg: 0.813 ± 0.036	1.823ProSer: 1.823 ± 0.044	1.51ProThr: 1.51 ± 0.043	2.275ProVal: 2.275 ± 0.066	0.242ProTrp: 0.242 ± 0.02	1.411ProTyr: 1.411 ± 0.04	0.0ProXaa: 0.0 ± 0.0
Gln	2.272GlnAla: 2.272 ± 0.062	0.467GlnCys: 0.467 ± 0.024	2.022GlnAsp: 2.022 ± 0.051	2.58GlnGlu: 2.58 ± 0.066	1.455GlnPhe: 1.455 ± 0.044	1.838GlnGly: 1.838 ± 0.052	0.554GlnHis: 0.554 ± 0.029	2.986GlnIle: 2.986 ± 0.066	3.087GlnLys: 3.087 ± 0.069	3.021GlnLeu: 3.021 ± 0.063	1.231GlnMet: 1.231 ± 0.044	2.145GlnAsn: 2.145 ± 0.058	0.857GlnPro: 0.857 ± 0.038	1.206GlnGln: 1.206 ± 0.046	1.299GlnArg: 1.299 ± 0.039	2.157GlnSer: 2.157 ± 0.059	1.8GlnThr: 1.8 ± 0.05	2.126GlnVal: 2.126 ± 0.06	0.303GlnTrp: 0.303 ± 0.021	1.552GlnTyr: 1.552 ± 0.046	0.0GlnXaa: 0.0 ± 0.0
Arg	1.782ArgAla: 1.782 ± 0.053	0.527ArgCys: 0.527 ± 0.03	1.719ArgAsp: 1.719 ± 0.054	2.12ArgGlu: 2.12 ± 0.063	1.722ArgPhe: 1.722 ± 0.053	1.745ArgGly: 1.745 ± 0.054	0.69ArgHis: 0.69 ± 0.035	3.177ArgIle: 3.177 ± 0.076	3.148ArgLys: 3.148 ± 0.082	3.246ArgLeu: 3.246 ± 0.076	1.362ArgMet: 1.362 ± 0.048	2.116ArgAsn: 2.116 ± 0.063	0.973ArgPro: 0.973 ± 0.044	1.377ArgGln: 1.377 ± 0.039	1.478ArgArg: 1.478 ± 0.049	1.762ArgSer: 1.762 ± 0.049	1.712ArgThr: 1.712 ± 0.05	2.346ArgVal: 2.346 ± 0.055	0.272ArgTrp: 0.272 ± 0.021	1.626ArgTyr: 1.626 ± 0.048	0.0ArgXaa: 0.0 ± 0.0
Ser	3.199SerAla: 3.199 ± 0.067	0.972SerCys: 0.972 ± 0.034	3.435SerAsp: 3.435 ± 0.069	3.455SerGlu: 3.455 ± 0.064	3.172SerPhe: 3.172 ± 0.068	3.914SerGly: 3.914 ± 0.096	1.179SerHis: 1.179 ± 0.04	5.25SerIle: 5.25 ± 0.086	5.135SerLys: 5.135 ± 0.091	6.048SerLeu: 6.048 ± 0.088	1.977SerMet: 1.977 ± 0.051	3.614SerAsn: 3.614 ± 0.08	1.391SerPro: 1.391 ± 0.041	2.107SerGln: 2.107 ± 0.053	2.088SerArg: 2.088 ± 0.055	3.992SerSer: 3.992 ± 0.088	3.207SerThr: 3.207 ± 0.066	4.274SerVal: 4.274 ± 0.087	0.472SerTrp: 0.472 ± 0.028	2.799SerTyr: 2.799 ± 0.068	0.0SerXaa: 0.0 ± 0.0
Thr	2.767ThrAla: 2.767 ± 0.08	0.816ThrCys: 0.816 ± 0.034	2.643ThrAsp: 2.643 ± 0.062	2.673ThrGlu: 2.673 ± 0.069	2.301ThrPhe: 2.301 ± 0.056	3.444ThrGly: 3.444 ± 0.079	1.08ThrHis: 1.08 ± 0.04	4.657ThrIle: 4.657 ± 0.08	3.864ThrLys: 3.864 ± 0.074	5.192ThrLeu: 5.192 ± 0.089	1.487ThrMet: 1.487 ± 0.047	2.865ThrAsn: 2.865 ± 0.073	1.918ThrPro: 1.918 ± 0.051	1.745ThrGln: 1.745 ± 0.051	1.714ThrArg: 1.714 ± 0.048	3.37ThrSer: 3.37 ± 0.076	2.78ThrThr: 2.78 ± 0.076	3.454ThrVal: 3.454 ± 0.08	0.446ThrTrp: 0.446 ± 0.028	2.469ThrTyr: 2.469 ± 0.065	0.0ThrXaa: 0.0 ± 0.0
Val	4.083ValAla: 4.083 ± 0.084	1.362ValCys: 1.362 ± 0.045	4.417ValAsp: 4.417 ± 0.09	4.536ValGlu: 4.536 ± 0.089	3.183ValPhe: 3.183 ± 0.068	4.003ValGly: 4.003 ± 0.088	1.363ValHis: 1.363 ± 0.05	4.931ValIle: 4.931 ± 0.09	4.864ValLys: 4.864 ± 0.092	6.976ValLeu: 6.976 ± 0.101	1.916ValMet: 1.916 ± 0.046	3.257ValAsn: 3.257 ± 0.072	1.923ValPro: 1.923 ± 0.054	2.156ValGln: 2.156 ± 0.055	2.341ValArg: 2.341 ± 0.067	4.723ValSer: 4.723 ± 0.087	3.506ValThr: 3.506 ± 0.091	5.057ValVal: 5.057 ± 0.088	0.545ValTrp: 0.545 ± 0.027	3.002ValTyr: 3.002 ± 0.071	0.0ValXaa: 0.0 ± 0.0
Trp	0.434TrpAla: 0.434 ± 0.025	0.142TrpCys: 0.142 ± 0.015	0.449TrpAsp: 0.449 ± 0.024	0.341TrpGlu: 0.341 ± 0.023	0.444TrpPhe: 0.444 ± 0.027	0.435TrpGly: 0.435 ± 0.026	0.183TrpHis: 0.183 ± 0.015	0.899TrpIle: 0.899 ± 0.046	0.665TrpLys: 0.665 ± 0.031	0.787TrpLeu: 0.787 ± 0.034	0.312TrpMet: 0.312 ± 0.025	0.538TrpAsn: 0.538 ± 0.028	0.166TrpPro: 0.166 ± 0.016	0.387TrpGln: 0.387 ± 0.025	0.238TrpArg: 0.238 ± 0.017	0.426TrpSer: 0.426 ± 0.028	0.364TrpThr: 0.364 ± 0.024	0.45TrpVal: 0.45 ± 0.027	0.104TrpTrp: 0.104 ± 0.013	0.4TrpTyr: 0.4 ± 0.026	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.76TyrAla: 2.76 ± 0.072	0.805TyrCys: 0.805 ± 0.042	3.055TyrAsp: 3.055 ± 0.072	3.021TyrGlu: 3.021 ± 0.071	2.224TyrPhe: 2.224 ± 0.062	2.746TyrGly: 2.746 ± 0.072	0.969TyrHis: 0.969 ± 0.039	3.265TyrIle: 3.265 ± 0.069	3.127TyrLys: 3.127 ± 0.074	4.082TyrLeu: 4.082 ± 0.08	1.253TyrMet: 1.253 ± 0.047	2.178TyrAsn: 2.178 ± 0.065	1.53TyrPro: 1.53 ± 0.046	1.61TyrGln: 1.61 ± 0.042	1.684TyrArg: 1.684 ± 0.045	2.838TyrSer: 2.838 ± 0.064	2.471TyrThr: 2.471 ± 0.065	3.092TyrVal: 3.092 ± 0.077	0.382TyrTrp: 0.382 ± 0.024	2.276TyrTyr: 2.276 ± 0.088	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 2528 proteins (730521 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

---