Amino acid dipepetide frequency for Photobacterium aphoticum

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	9.422AlaAla: 9.422 ± 0.125	1.108AlaCys: 1.108 ± 0.028	5.372AlaAsp: 5.372 ± 0.07	5.968AlaGlu: 5.968 ± 0.083	3.798AlaPhe: 3.798 ± 0.054	6.693AlaGly: 6.693 ± 0.098	2.071AlaHis: 2.071 ± 0.044	6.085AlaIle: 6.085 ± 0.08	4.597AlaLys: 4.597 ± 0.065	11.036AlaLeu: 11.036 ± 0.119	3.41AlaMet: 3.41 ± 0.048	3.618AlaAsn: 3.618 ± 0.061	3.453AlaPro: 3.453 ± 0.06	4.596AlaGln: 4.596 ± 0.057	4.115AlaArg: 4.115 ± 0.059	5.448AlaSer: 5.448 ± 0.067	5.06AlaThr: 5.06 ± 0.069	6.639AlaVal: 6.639 ± 0.075	1.135AlaTrp: 1.135 ± 0.031	2.687AlaTyr: 2.687 ± 0.046	0.0AlaXaa: 0.0 ± 0.0
Cys	0.854CysAla: 0.854 ± 0.026	0.176CysCys: 0.176 ± 0.012	0.653CysAsp: 0.653 ± 0.021	0.671CysGlu: 0.671 ± 0.022	0.474CysPhe: 0.474 ± 0.02	0.94CysGly: 0.94 ± 0.029	0.422CysHis: 0.422 ± 0.021	0.563CysIle: 0.563 ± 0.02	0.387CysLys: 0.387 ± 0.017	0.994CysLeu: 0.994 ± 0.031	0.278CysMet: 0.278 ± 0.013	0.336CysAsn: 0.336 ± 0.016	0.489CysPro: 0.489 ± 0.021	0.604CysGln: 0.604 ± 0.021	0.538CysArg: 0.538 ± 0.023	0.679CysSer: 0.679 ± 0.025	0.523CysThr: 0.523 ± 0.022	0.727CysVal: 0.727 ± 0.021	0.156CysTrp: 0.156 ± 0.009	0.377CysTyr: 0.377 ± 0.016	0.0CysXaa: 0.0 ± 0.0
Asp	5.351AspAla: 5.351 ± 0.079	0.593AspCys: 0.593 ± 0.022	3.367AspAsp: 3.367 ± 0.073	3.663AspGlu: 3.663 ± 0.056	2.357AspPhe: 2.357 ± 0.045	4.049AspGly: 4.049 ± 0.09	1.312AspHis: 1.312 ± 0.029	3.844AspIle: 3.844 ± 0.063	2.916AspLys: 2.916 ± 0.055	5.087AspLeu: 5.087 ± 0.07	1.628AspMet: 1.628 ± 0.036	2.583AspAsn: 2.583 ± 0.046	2.4AspPro: 2.4 ± 0.054	2.035AspGln: 2.035 ± 0.037	2.497AspArg: 2.497 ± 0.044	3.067AspSer: 3.067 ± 0.053	3.208AspThr: 3.208 ± 0.075	4.2AspVal: 4.2 ± 0.06	0.885AspTrp: 0.885 ± 0.028	2.016AspTyr: 2.016 ± 0.043	0.0AspXaa: 0.0 ± 0.0
Glu	5.815GluAla: 5.815 ± 0.076	0.506GluCys: 0.506 ± 0.02	2.753GluAsp: 2.753 ± 0.052	3.382GluGlu: 3.382 ± 0.066	2.047GluPhe: 2.047 ± 0.035	3.694GluGly: 3.694 ± 0.071	1.568GluHis: 1.568 ± 0.035	3.249GluIle: 3.249 ± 0.05	3.433GluLys: 3.433 ± 0.058	6.012GluLeu: 6.012 ± 0.084	1.741GluMet: 1.741 ± 0.037	2.311GluAsn: 2.311 ± 0.047	2.087GluPro: 2.087 ± 0.045	3.88GluGln: 3.88 ± 0.064	3.385GluArg: 3.385 ± 0.058	3.039GluSer: 3.039 ± 0.049	3.169GluThr: 3.169 ± 0.05	4.016GluVal: 4.016 ± 0.058	0.802GluTrp: 0.802 ± 0.023	1.618GluTyr: 1.618 ± 0.04	0.0GluXaa: 0.0 ± 0.0
Phe	3.86PheAla: 3.86 ± 0.057	0.506PheCys: 0.506 ± 0.022	2.768PheAsp: 2.768 ± 0.049	2.285PheGlu: 2.285 ± 0.043	1.697PhePhe: 1.697 ± 0.037	3.04PheGly: 3.04 ± 0.054	0.871PheHis: 0.871 ± 0.022	2.571PheIle: 2.571 ± 0.05	1.6PheLys: 1.6 ± 0.032	3.293PheLeu: 3.293 ± 0.053	1.095PheMet: 1.095 ± 0.027	1.846PheAsn: 1.846 ± 0.032	1.369PhePro: 1.369 ± 0.03	1.247PheGln: 1.247 ± 0.026	1.577PheArg: 1.577 ± 0.035	3.013PheSer: 3.013 ± 0.053	2.542PheThr: 2.542 ± 0.049	2.813PheVal: 2.813 ± 0.053	0.558PheTrp: 0.558 ± 0.021	1.302PheTyr: 1.302 ± 0.033	0.0PheXaa: 0.0 ± 0.0
Gly	5.504GlyAla: 5.504 ± 0.089	0.963GlyCys: 0.963 ± 0.027	3.899GlyAsp: 3.899 ± 0.086	4.41GlyGlu: 4.41 ± 0.065	3.238GlyPhe: 3.238 ± 0.045	4.926GlyGly: 4.926 ± 0.095	1.703GlyHis: 1.703 ± 0.034	4.778GlyIle: 4.778 ± 0.063	3.585GlyLys: 3.585 ± 0.062	7.158GlyLeu: 7.158 ± 0.085	2.334GlyMet: 2.334 ± 0.046	2.633GlyAsn: 2.633 ± 0.067	1.778GlyPro: 1.778 ± 0.039	3.193GlyGln: 3.193 ± 0.05	3.214GlyArg: 3.214 ± 0.049	3.818GlySer: 3.818 ± 0.08	3.655GlyThr: 3.655 ± 0.071	5.17GlyVal: 5.17 ± 0.069	1.07GlyTrp: 1.07 ± 0.027	2.663GlyTyr: 2.663 ± 0.042	0.0GlyXaa: 0.0 ± 0.0
His	2.169HisAla: 2.169 ± 0.044	0.377HisCys: 0.377 ± 0.017	1.4HisAsp: 1.4 ± 0.036	1.206HisGlu: 1.206 ± 0.033	1.15HisPhe: 1.15 ± 0.028	1.781HisGly: 1.781 ± 0.036	0.867HisHis: 0.867 ± 0.035	1.435HisIle: 1.435 ± 0.034	0.921HisLys: 0.921 ± 0.029	2.31HisLeu: 2.31 ± 0.045	0.58HisMet: 0.58 ± 0.023	0.913HisAsn: 0.913 ± 0.024	1.349HisPro: 1.349 ± 0.035	1.256HisGln: 1.256 ± 0.032	1.242HisArg: 1.242 ± 0.036	1.407HisSer: 1.407 ± 0.035	1.374HisThr: 1.374 ± 0.034	1.539HisVal: 1.539 ± 0.034	0.419HisTrp: 0.419 ± 0.018	1.049HisTyr: 1.049 ± 0.029	0.0HisXaa: 0.0 ± 0.0
Ile	6.508IleAla: 6.508 ± 0.081	0.647IleCys: 0.647 ± 0.022	4.011IleAsp: 4.011 ± 0.06	3.958IleGlu: 3.958 ± 0.065	2.095IlePhe: 2.095 ± 0.04	4.504IleGly: 4.504 ± 0.059	1.364IleHis: 1.364 ± 0.033	3.287IleIle: 3.287 ± 0.058	2.639IleLys: 2.639 ± 0.054	4.727IleLeu: 4.727 ± 0.063	1.409IleMet: 1.409 ± 0.032	2.648IleAsn: 2.648 ± 0.051	2.64IlePro: 2.64 ± 0.042	2.158IleGln: 2.158 ± 0.04	2.67IleArg: 2.67 ± 0.045	3.844IleSer: 3.844 ± 0.058	3.998IleThr: 3.998 ± 0.075	3.93IleVal: 3.93 ± 0.058	0.565IleTrp: 0.565 ± 0.019	1.628IleTyr: 1.628 ± 0.036	0.0IleXaa: 0.0 ± 0.0
Lys	4.803LysAla: 4.803 ± 0.069	0.286LysCys: 0.286 ± 0.017	2.435LysAsp: 2.435 ± 0.045	2.675LysGlu: 2.675 ± 0.052	1.235LysPhe: 1.235 ± 0.029	3.089LysGly: 3.089 ± 0.053	1.192LysHis: 1.192 ± 0.033	2.398LysIle: 2.398 ± 0.049	2.476LysLys: 2.476 ± 0.051	4.282LysLeu: 4.282 ± 0.076	1.343LysMet: 1.343 ± 0.034	1.744LysAsn: 1.744 ± 0.036	2.213LysPro: 2.213 ± 0.042	2.563LysGln: 2.563 ± 0.046	2.427LysArg: 2.427 ± 0.047	2.341LysSer: 2.341 ± 0.038	2.608LysThr: 2.608 ± 0.039	3.354LysVal: 3.354 ± 0.054	0.536LysTrp: 0.536 ± 0.024	1.23LysTyr: 1.23 ± 0.031	0.0LysXaa: 0.0 ± 0.0
Leu	10.836LeuAla: 10.836 ± 0.12	1.161LeuCys: 1.161 ± 0.031	5.74LeuAsp: 5.74 ± 0.076	5.455LeuGlu: 5.455 ± 0.074	4.222LeuPhe: 4.222 ± 0.064	6.999LeuGly: 6.999 ± 0.084	2.295LeuHis: 2.295 ± 0.047	5.764LeuIle: 5.764 ± 0.07	4.542LeuLys: 4.542 ± 0.057	10.726LeuLeu: 10.726 ± 0.148	2.839LeuMet: 2.839 ± 0.058	4.084LeuAsn: 4.084 ± 0.055	5.145LeuPro: 5.145 ± 0.069	3.867LeuGln: 3.867 ± 0.056	4.572LeuArg: 4.572 ± 0.067	7.45LeuSer: 7.45 ± 0.078	6.45LeuThr: 6.45 ± 0.08	6.861LeuVal: 6.861 ± 0.078	1.154LeuTrp: 1.154 ± 0.033	2.688LeuTyr: 2.688 ± 0.049	0.0LeuXaa: 0.0 ± 0.0
Met	3.189MetAla: 3.189 ± 0.056	0.227MetCys: 0.227 ± 0.013	1.498MetAsp: 1.498 ± 0.034	1.332MetGlu: 1.332 ± 0.031	0.978MetPhe: 0.978 ± 0.027	2.02MetGly: 2.02 ± 0.046	0.611MetHis: 0.611 ± 0.024	1.648MetIle: 1.648 ± 0.04	1.512MetLys: 1.512 ± 0.032	3.009MetLeu: 3.009 ± 0.048	0.992MetMet: 0.992 ± 0.032	1.108MetAsn: 1.108 ± 0.028	1.356MetPro: 1.356 ± 0.03	1.249MetGln: 1.249 ± 0.031	1.284MetArg: 1.284 ± 0.036	1.886MetSer: 1.886 ± 0.038	1.941MetThr: 1.941 ± 0.039	2.068MetVal: 2.068 ± 0.046	0.26MetTrp: 0.26 ± 0.015	0.615MetTyr: 0.615 ± 0.021	0.0MetXaa: 0.0 ± 0.0
Asn	3.616AsnAla: 3.616 ± 0.06	0.374AsnCys: 0.374 ± 0.02	2.397AsnAsp: 2.397 ± 0.057	2.127AsnGlu: 2.127 ± 0.042	1.303AsnPhe: 1.303 ± 0.031	3.072AsnGly: 3.072 ± 0.061	0.956AsnHis: 0.956 ± 0.027	2.372AsnIle: 2.372 ± 0.047	1.806AsnLys: 1.806 ± 0.041	3.367AsnLeu: 3.367 ± 0.053	1.009AsnMet: 1.009 ± 0.029	1.796AsnAsn: 1.796 ± 0.041	2.016AsnPro: 2.016 ± 0.04	1.801AsnGln: 1.801 ± 0.037	1.864AsnArg: 1.864 ± 0.038	1.892AsnSer: 1.892 ± 0.038	2.364AsnThr: 2.364 ± 0.046	2.752AsnVal: 2.752 ± 0.049	0.532AsnTrp: 0.532 ± 0.018	1.216AsnTyr: 1.216 ± 0.03	0.0AsnXaa: 0.0 ± 0.0
Pro	4.176ProAla: 4.176 ± 0.065	0.375ProCys: 0.375 ± 0.016	2.579ProAsp: 2.579 ± 0.052	3.193ProGlu: 3.193 ± 0.058	1.818ProPhe: 1.818 ± 0.034	2.443ProGly: 2.443 ± 0.042	1.106ProHis: 1.106 ± 0.028	2.322ProIle: 2.322 ± 0.043	1.646ProLys: 1.646 ± 0.041	4.514ProLeu: 4.514 ± 0.065	1.227ProMet: 1.227 ± 0.031	1.569ProAsn: 1.569 ± 0.035	1.373ProPro: 1.373 ± 0.038	1.869ProGln: 1.869 ± 0.035	1.571ProArg: 1.571 ± 0.037	2.509ProSer: 2.509 ± 0.042	2.375ProThr: 2.375 ± 0.044	3.582ProVal: 3.582 ± 0.055	0.595ProTrp: 0.595 ± 0.02	1.358ProTyr: 1.358 ± 0.034	0.0ProXaa: 0.0 ± 0.0
Gln	5.135GlnAla: 5.135 ± 0.066	0.494GlnCys: 0.494 ± 0.021	2.22GlnAsp: 2.22 ± 0.041	2.242GlnGlu: 2.242 ± 0.046	1.78GlnPhe: 1.78 ± 0.034	3.197GlnGly: 3.197 ± 0.053	1.439GlnHis: 1.439 ± 0.038	2.384GlnIle: 2.384 ± 0.044	1.75GlnLys: 1.75 ± 0.038	5.389GlnLeu: 5.389 ± 0.069	1.228GlnMet: 1.228 ± 0.031	1.345GlnAsn: 1.345 ± 0.038	2.174GlnPro: 2.174 ± 0.042	3.521GlnGln: 3.521 ± 0.071	2.714GlnArg: 2.714 ± 0.043	2.587GlnSer: 2.587 ± 0.043	2.418GlnThr: 2.418 ± 0.042	3.16GlnVal: 3.16 ± 0.051	0.758GlnTrp: 0.758 ± 0.026	1.531GlnTyr: 1.531 ± 0.034	0.0GlnXaa: 0.0 ± 0.0
Arg	3.789ArgAla: 3.789 ± 0.057	0.536ArgCys: 0.536 ± 0.019	2.754ArgAsp: 2.754 ± 0.049	3.082ArgGlu: 3.082 ± 0.053	2.244ArgPhe: 2.244 ± 0.042	2.702ArgGly: 2.702 ± 0.048	1.367ArgHis: 1.367 ± 0.034	3.001ArgIle: 3.001 ± 0.045	2.076ArgLys: 2.076 ± 0.046	5.105ArgLeu: 5.105 ± 0.076	1.353ArgMet: 1.353 ± 0.035	1.741ArgAsn: 1.741 ± 0.039	1.758ArgPro: 1.758 ± 0.036	2.613ArgGln: 2.613 ± 0.05	2.573ArgArg: 2.573 ± 0.06	2.392ArgSer: 2.392 ± 0.042	2.262ArgThr: 2.262 ± 0.04	3.244ArgVal: 3.244 ± 0.054	0.736ArgTrp: 0.736 ± 0.02	1.911ArgTyr: 1.911 ± 0.042	0.0ArgXaa: 0.0 ± 0.0
Ser	5.474SerAla: 5.474 ± 0.061	0.56SerCys: 0.56 ± 0.019	3.375SerAsp: 3.375 ± 0.077	3.311SerGlu: 3.311 ± 0.053	2.387SerPhe: 2.387 ± 0.041	4.544SerGly: 4.544 ± 0.072	1.55SerHis: 1.55 ± 0.036	3.274SerIle: 3.274 ± 0.05	2.468SerLys: 2.468 ± 0.044	6.546SerLeu: 6.546 ± 0.074	1.711SerMet: 1.711 ± 0.035	1.984SerAsn: 1.984 ± 0.041	2.624SerPro: 2.624 ± 0.046	2.935SerGln: 2.935 ± 0.051	2.884SerArg: 2.884 ± 0.05	3.592SerSer: 3.592 ± 0.055	3.138SerThr: 3.138 ± 0.051	4.385SerVal: 4.385 ± 0.07	0.773SerTrp: 0.773 ± 0.021	1.787SerTyr: 1.787 ± 0.036	0.0SerXaa: 0.0 ± 0.0
Thr	5.399ThrAla: 5.399 ± 0.075	0.549ThrCys: 0.549 ± 0.021	3.194ThrAsp: 3.194 ± 0.054	3.069ThrGlu: 3.069 ± 0.06	2.241ThrPhe: 2.241 ± 0.046	4.207ThrGly: 4.207 ± 0.069	1.437ThrHis: 1.437 ± 0.036	3.282ThrIle: 3.282 ± 0.063	1.926ThrLys: 1.926 ± 0.039	7.18ThrLeu: 7.18 ± 0.084	1.278ThrMet: 1.278 ± 0.03	1.789ThrAsn: 1.789 ± 0.032	3.032ThrPro: 3.032 ± 0.047	2.671ThrGln: 2.671 ± 0.05	2.458ThrArg: 2.458 ± 0.045	3.094ThrSer: 3.094 ± 0.054	3.153ThrThr: 3.153 ± 0.057	4.526ThrVal: 4.526 ± 0.067	0.675ThrTrp: 0.675 ± 0.023	1.658ThrTyr: 1.658 ± 0.043	0.0ThrXaa: 0.0 ± 0.0
Val	6.897ValAla: 6.897 ± 0.087	0.811ValCys: 0.811 ± 0.026	4.263ValAsp: 4.263 ± 0.072	4.406ValGlu: 4.406 ± 0.062	2.823ValPhe: 2.823 ± 0.05	4.696ValGly: 4.696 ± 0.06	1.302ValHis: 1.302 ± 0.029	4.754ValIle: 4.754 ± 0.064	3.333ValLys: 3.333 ± 0.054	6.978ValLeu: 6.978 ± 0.082	2.26ValMet: 2.26 ± 0.045	2.978ValAsn: 2.978 ± 0.049	2.914ValPro: 2.914 ± 0.044	2.372ValGln: 2.372 ± 0.045	3.067ValArg: 3.067 ± 0.047	4.684ValSer: 4.684 ± 0.069	4.397ValThr: 4.397 ± 0.067	5.623ValVal: 5.623 ± 0.081	0.832ValTrp: 0.832 ± 0.028	1.932ValTyr: 1.932 ± 0.04	0.0ValXaa: 0.0 ± 0.0
Trp	0.978TrpAla: 0.978 ± 0.029	0.168TrpCys: 0.168 ± 0.011	0.649TrpAsp: 0.649 ± 0.025	0.583TrpGlu: 0.583 ± 0.021	0.587TrpPhe: 0.587 ± 0.019	0.884TrpGly: 0.884 ± 0.029	0.391TrpHis: 0.391 ± 0.018	0.647TrpIle: 0.647 ± 0.026	0.46TrpLys: 0.46 ± 0.021	1.854TrpLeu: 1.854 ± 0.05	0.374TrpMet: 0.374 ± 0.016	0.431TrpAsn: 0.431 ± 0.019	0.535TrpPro: 0.535 ± 0.022	1.087TrpGln: 1.087 ± 0.029	0.755TrpArg: 0.755 ± 0.023	0.675TrpSer: 0.675 ± 0.023	0.584TrpThr: 0.584 ± 0.03	0.922TrpVal: 0.922 ± 0.027	0.237TrpTrp: 0.237 ± 0.015	0.391TrpTyr: 0.391 ± 0.019	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.536TyrAla: 2.536 ± 0.044	0.425TyrCys: 0.425 ± 0.018	1.732TyrAsp: 1.732 ± 0.038	1.49TyrGlu: 1.49 ± 0.036	1.379TyrPhe: 1.379 ± 0.035	2.212TyrGly: 2.212 ± 0.052	0.92TyrHis: 0.92 ± 0.024	1.571TyrIle: 1.571 ± 0.037	1.155TyrLys: 1.155 ± 0.028	3.288TyrLeu: 3.288 ± 0.047	0.695TyrMet: 0.695 ± 0.026	1.172TyrAsn: 1.172 ± 0.03	1.494TyrPro: 1.494 ± 0.032	1.948TyrGln: 1.948 ± 0.038	1.833TyrArg: 1.833 ± 0.037	1.884TyrSer: 1.884 ± 0.037	1.603TyrThr: 1.603 ± 0.033	1.81TyrVal: 1.81 ± 0.032	0.513TyrTrp: 0.513 ± 0.019	1.065TyrTyr: 1.065 ± 0.027	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 4349 proteins (1394034 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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