Amino acid dipepetide frequency for methanotrophic endosymbiont of Bathymodiolus puteoserpentis (Logatchev)

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	7.245AlaAla: 7.245 ± 0.124	1.004AlaCys: 1.004 ± 0.042	4.588AlaAsp: 4.588 ± 0.068	5.809AlaGlu: 5.809 ± 0.09	3.275AlaPhe: 3.275 ± 0.07	5.873AlaGly: 5.873 ± 0.078	1.767AlaHis: 1.767 ± 0.046	6.293AlaIle: 6.293 ± 0.101	5.269AlaLys: 5.269 ± 0.079	9.893AlaLeu: 9.893 ± 0.127	2.43AlaMet: 2.43 ± 0.053	3.544AlaAsn: 3.544 ± 0.071	2.662AlaPro: 2.662 ± 0.056	4.164AlaGln: 4.164 ± 0.069	3.488AlaArg: 3.488 ± 0.065	4.949AlaSer: 4.949 ± 0.077	4.263AlaThr: 4.263 ± 0.07	5.548AlaVal: 5.548 ± 0.076	0.989AlaTrp: 0.989 ± 0.039	2.524AlaTyr: 2.524 ± 0.053	0.0AlaXaa: 0.0 ± 0.0
Cys	0.871CysAla: 0.871 ± 0.029	0.179CysCys: 0.179 ± 0.015	0.5CysAsp: 0.5 ± 0.025	0.481CysGlu: 0.481 ± 0.022	0.444CysPhe: 0.444 ± 0.024	0.811CysGly: 0.811 ± 0.036	0.419CysHis: 0.419 ± 0.03	0.718CysIle: 0.718 ± 0.031	0.436CysLys: 0.436 ± 0.021	1.056CysLeu: 1.056 ± 0.033	0.233CysMet: 0.233 ± 0.017	0.345CysAsn: 0.345 ± 0.023	0.467CysPro: 0.467 ± 0.026	0.472CysGln: 0.472 ± 0.024	0.444CysArg: 0.444 ± 0.021	0.703CysSer: 0.703 ± 0.028	0.565CysThr: 0.565 ± 0.026	0.598CysVal: 0.598 ± 0.024	0.101CysTrp: 0.101 ± 0.01	0.379CysTyr: 0.379 ± 0.02	0.0CysXaa: 0.0 ± 0.0
Asp	4.245AspAla: 4.245 ± 0.082	0.555AspCys: 0.555 ± 0.024	2.715AspAsp: 2.715 ± 0.065	3.338AspGlu: 3.338 ± 0.066	2.684AspPhe: 2.684 ± 0.056	2.985AspGly: 2.985 ± 0.078	1.01AspHis: 1.01 ± 0.035	4.428AspIle: 4.428 ± 0.079	3.533AspLys: 3.533 ± 0.052	5.523AspLeu: 5.523 ± 0.074	1.356AspMet: 1.356 ± 0.04	2.377AspAsn: 2.377 ± 0.061	1.911AspPro: 1.911 ± 0.053	2.037AspGln: 2.037 ± 0.049	2.127AspArg: 2.127 ± 0.048	3.087AspSer: 3.087 ± 0.075	2.641AspThr: 2.641 ± 0.05	3.354AspVal: 3.354 ± 0.068	0.781AspTrp: 0.781 ± 0.033	1.971AspTyr: 1.971 ± 0.052	0.0AspXaa: 0.0 ± 0.0
Glu	4.937GluAla: 4.937 ± 0.079	0.522GluCys: 0.522 ± 0.028	2.663GluAsp: 2.663 ± 0.059	3.484GluGlu: 3.484 ± 0.077	2.377GluPhe: 2.377 ± 0.049	3.485GluGly: 3.485 ± 0.073	1.541GluHis: 1.541 ± 0.042	4.475GluIle: 4.475 ± 0.068	4.374GluLys: 4.374 ± 0.078	6.767GluLeu: 6.767 ± 0.088	1.638GluMet: 1.638 ± 0.048	2.844GluAsn: 2.844 ± 0.055	1.89GluPro: 1.89 ± 0.044	4.271GluGln: 4.271 ± 0.075	2.995GluArg: 2.995 ± 0.061	3.418GluSer: 3.418 ± 0.065	2.998GluThr: 2.998 ± 0.06	3.986GluVal: 3.986 ± 0.066	0.649GluTrp: 0.649 ± 0.029	1.814GluTyr: 1.814 ± 0.047	0.0GluXaa: 0.0 ± 0.0
Phe	3.426PheAla: 3.426 ± 0.062	0.518PheCys: 0.518 ± 0.024	2.47PheAsp: 2.47 ± 0.058	2.118PheGlu: 2.118 ± 0.057	2.074PhePhe: 2.074 ± 0.059	2.655PheGly: 2.655 ± 0.065	0.826PheHis: 0.826 ± 0.032	3.328PheIle: 3.328 ± 0.068	2.307PheLys: 2.307 ± 0.05	3.999PheLeu: 3.999 ± 0.081	1.04PheMet: 1.04 ± 0.031	2.076PheAsn: 2.076 ± 0.053	1.567PhePro: 1.567 ± 0.04	1.422PheGln: 1.422 ± 0.04	1.541PheArg: 1.541 ± 0.043	3.616PheSer: 3.616 ± 0.071	2.415PheThr: 2.415 ± 0.052	2.557PheVal: 2.557 ± 0.058	0.523PheTrp: 0.523 ± 0.022	1.496PheTyr: 1.496 ± 0.04	0.0PheXaa: 0.0 ± 0.0
Gly	4.901GlyAla: 4.901 ± 0.091	0.857GlyCys: 0.857 ± 0.034	3.306GlyAsp: 3.306 ± 0.074	3.8GlyGlu: 3.8 ± 0.075	3.135GlyPhe: 3.135 ± 0.058	4.432GlyGly: 4.432 ± 0.087	1.486GlyHis: 1.486 ± 0.039	4.875GlyIle: 4.875 ± 0.084	4.141GlyLys: 4.141 ± 0.081	6.971GlyLeu: 6.971 ± 0.092	1.946GlyMet: 1.946 ± 0.055	2.463GlyAsn: 2.463 ± 0.06	1.379GlyPro: 1.379 ± 0.04	2.585GlyGln: 2.585 ± 0.056	2.943GlyArg: 2.943 ± 0.056	3.756GlySer: 3.756 ± 0.065	3.216GlyThr: 3.216 ± 0.063	4.699GlyVal: 4.699 ± 0.081	0.835GlyTrp: 0.835 ± 0.033	2.343GlyTyr: 2.343 ± 0.053	0.0GlyXaa: 0.0 ± 0.0
His	1.77HisAla: 1.77 ± 0.05	0.361HisCys: 0.361 ± 0.021	1.14HisAsp: 1.14 ± 0.042	1.209HisGlu: 1.209 ± 0.041	1.169HisPhe: 1.169 ± 0.037	1.435HisGly: 1.435 ± 0.043	0.631HisHis: 0.631 ± 0.028	1.768HisIle: 1.768 ± 0.05	1.39HisLys: 1.39 ± 0.041	2.427HisLeu: 2.427 ± 0.051	0.474HisMet: 0.474 ± 0.024	0.947HisAsn: 0.947 ± 0.031	1.109HisPro: 1.109 ± 0.038	1.09HisGln: 1.09 ± 0.037	0.921HisArg: 0.921 ± 0.031	1.377HisSer: 1.377 ± 0.04	1.097HisThr: 1.097 ± 0.035	1.229HisVal: 1.229 ± 0.035	0.368HisTrp: 0.368 ± 0.022	0.943HisTyr: 0.943 ± 0.035	0.0HisXaa: 0.0 ± 0.0
Ile	6.883IleAla: 6.883 ± 0.098	0.652IleCys: 0.652 ± 0.029	4.38IleAsp: 4.38 ± 0.068	4.935IleGlu: 4.935 ± 0.084	2.727IlePhe: 2.727 ± 0.059	4.579IleGly: 4.579 ± 0.093	1.445IleHis: 1.445 ± 0.043	5.145IleIle: 5.145 ± 0.096	4.655IleLys: 4.655 ± 0.077	6.497IleLeu: 6.497 ± 0.102	1.525IleMet: 1.525 ± 0.046	3.765IleAsn: 3.765 ± 0.072	3.195IlePro: 3.195 ± 0.07	2.798IleGln: 2.798 ± 0.062	2.936IleArg: 2.936 ± 0.058	5.06IleSer: 5.06 ± 0.082	4.007IleThr: 4.007 ± 0.072	4.191IleVal: 4.191 ± 0.074	0.621IleTrp: 0.621 ± 0.026	2.049IleTyr: 2.049 ± 0.048	0.0IleXaa: 0.0 ± 0.0
Lys	4.996LysAla: 4.996 ± 0.085	0.375LysCys: 0.375 ± 0.024	2.849LysAsp: 2.849 ± 0.054	3.709LysGlu: 3.709 ± 0.067	1.756LysPhe: 1.756 ± 0.045	3.595LysGly: 3.595 ± 0.071	1.42LysHis: 1.42 ± 0.038	4.575LysIle: 4.575 ± 0.074	4.346LysLys: 4.346 ± 0.083	5.868LysLeu: 5.868 ± 0.086	1.637LysMet: 1.637 ± 0.048	3.047LysAsn: 3.047 ± 0.067	2.39LysPro: 2.39 ± 0.049	3.744LysGln: 3.744 ± 0.081	2.742LysArg: 2.742 ± 0.059	3.612LysSer: 3.612 ± 0.069	3.449LysThr: 3.449 ± 0.071	3.963LysVal: 3.963 ± 0.07	0.52LysTrp: 0.52 ± 0.022	1.642LysTyr: 1.642 ± 0.047	0.001LysXaa: 0.001 ± 0.001
Leu	9.959LeuAla: 9.959 ± 0.114	1.07LeuCys: 1.07 ± 0.034	5.721LeuAsp: 5.721 ± 0.088	6.127LeuGlu: 6.127 ± 0.099	4.566LeuPhe: 4.566 ± 0.081	6.646LeuGly: 6.646 ± 0.098	2.321LeuHis: 2.321 ± 0.057	7.094LeuIle: 7.094 ± 0.099	6.229LeuLys: 6.229 ± 0.079	11.501LeuLeu: 11.501 ± 0.147	2.62LeuMet: 2.62 ± 0.057	5.007LeuAsn: 5.007 ± 0.08	4.701LeuPro: 4.701 ± 0.075	4.83LeuGln: 4.83 ± 0.093	4.574LeuArg: 4.574 ± 0.075	7.661LeuSer: 7.661 ± 0.11	5.735LeuThr: 5.735 ± 0.081	6.597LeuVal: 6.597 ± 0.093	1.162LeuTrp: 1.162 ± 0.043	2.88LeuTyr: 2.88 ± 0.057	0.0LeuXaa: 0.0 ± 0.0
Met	2.388MetAla: 2.388 ± 0.055	0.196MetCys: 0.196 ± 0.014	1.247MetAsp: 1.247 ± 0.038	1.25MetGlu: 1.25 ± 0.04	0.753MetPhe: 0.753 ± 0.03	1.647MetGly: 1.647 ± 0.052	0.622MetHis: 0.622 ± 0.03	1.585MetIle: 1.585 ± 0.044	1.287MetLys: 1.287 ± 0.043	2.692MetLeu: 2.692 ± 0.059	0.691MetMet: 0.691 ± 0.03	1.095MetAsn: 1.095 ± 0.033	1.276MetPro: 1.276 ± 0.042	1.501MetGln: 1.501 ± 0.034	1.28MetArg: 1.28 ± 0.033	1.738MetSer: 1.738 ± 0.048	1.567MetThr: 1.567 ± 0.043	1.479MetVal: 1.479 ± 0.04	0.143MetTrp: 0.143 ± 0.012	0.502MetTyr: 0.502 ± 0.024	0.0MetXaa: 0.0 ± 0.0
Asn	3.528AsnAla: 3.528 ± 0.064	0.426AsnCys: 0.426 ± 0.023	2.26AsnAsp: 2.26 ± 0.062	2.545AsnGlu: 2.545 ± 0.055	1.743AsnPhe: 1.743 ± 0.045	2.527AsnGly: 2.527 ± 0.058	0.982AsnHis: 0.982 ± 0.036	3.614AsnIle: 3.614 ± 0.057	3.067AsnLys: 3.067 ± 0.054	4.159AsnLeu: 4.159 ± 0.078	1.009AsnMet: 1.009 ± 0.035	2.332AsnAsn: 2.332 ± 0.058	2.155AsnPro: 2.155 ± 0.056	2.032AsnGln: 2.032 ± 0.045	1.914AsnArg: 1.914 ± 0.052	2.843AsnSer: 2.843 ± 0.068	2.575AsnThr: 2.575 ± 0.059	2.233AsnVal: 2.233 ± 0.064	0.59AsnTrp: 0.59 ± 0.026	1.461AsnTyr: 1.461 ± 0.039	0.0AsnXaa: 0.0 ± 0.0
Pro	3.127ProAla: 3.127 ± 0.064	0.357ProCys: 0.357 ± 0.021	2.333ProAsp: 2.333 ± 0.05	3.428ProGlu: 3.428 ± 0.063	1.725ProPhe: 1.725 ± 0.045	2.25ProGly: 2.25 ± 0.062	0.81ProHis: 0.81 ± 0.03	2.695ProIle: 2.695 ± 0.051	2.197ProLys: 2.197 ± 0.053	4.022ProLeu: 4.022 ± 0.067	0.89ProMet: 0.89 ± 0.03	1.559ProAsn: 1.559 ± 0.051	1.235ProPro: 1.235 ± 0.05	1.326ProGln: 1.326 ± 0.044	1.347ProArg: 1.347 ± 0.039	2.212ProSer: 2.212 ± 0.053	1.931ProThr: 1.931 ± 0.048	2.963ProVal: 2.963 ± 0.058	0.486ProTrp: 0.486 ± 0.024	1.278ProTyr: 1.278 ± 0.037	0.0ProXaa: 0.0 ± 0.0
Gln	4.96GlnAla: 4.96 ± 0.09	0.436GlnCys: 0.436 ± 0.023	2.167GlnAsp: 2.167 ± 0.05	2.929GlnGlu: 2.929 ± 0.059	1.857GlnPhe: 1.857 ± 0.045	3.193GlnGly: 3.193 ± 0.065	1.289GlnHis: 1.289 ± 0.038	2.74GlnIle: 2.74 ± 0.056	2.684GlnLys: 2.684 ± 0.055	5.42GlnLeu: 5.42 ± 0.105	1.09GlnMet: 1.09 ± 0.036	1.799GlnAsn: 1.799 ± 0.048	1.566GlnPro: 1.566 ± 0.049	3.459GlnGln: 3.459 ± 0.088	2.354GlnArg: 2.354 ± 0.053	2.703GlnSer: 2.703 ± 0.058	2.242GlnThr: 2.242 ± 0.054	3.355GlnVal: 3.355 ± 0.063	0.664GlnTrp: 0.664 ± 0.027	1.484GlnTyr: 1.484 ± 0.04	0.0GlnXaa: 0.0 ± 0.0
Arg	3.324ArgAla: 3.324 ± 0.061	0.433ArgCys: 0.433 ± 0.023	2.141ArgAsp: 2.141 ± 0.052	2.72ArgGlu: 2.72 ± 0.061	2.087ArgPhe: 2.087 ± 0.048	2.389ArgGly: 2.389 ± 0.056	1.125ArgHis: 1.125 ± 0.031	3.274ArgIle: 3.274 ± 0.064	2.646ArgLys: 2.646 ± 0.061	4.92ArgLeu: 4.92 ± 0.082	1.183ArgMet: 1.183 ± 0.036	1.861ArgAsn: 1.861 ± 0.05	1.471ArgPro: 1.471 ± 0.039	2.088ArgGln: 2.088 ± 0.057	2.213ArgArg: 2.213 ± 0.06	2.429ArgSer: 2.429 ± 0.057	2.062ArgThr: 2.062 ± 0.051	2.864ArgVal: 2.864 ± 0.06	0.63ArgTrp: 0.63 ± 0.027	1.761ArgTyr: 1.761 ± 0.043	0.0ArgXaa: 0.0 ± 0.0
Ser	5.6SerAla: 5.6 ± 0.087	0.664SerCys: 0.664 ± 0.029	3.345SerAsp: 3.345 ± 0.054	3.822SerGlu: 3.822 ± 0.063	2.857SerPhe: 2.857 ± 0.057	4.74SerGly: 4.74 ± 0.08	1.439SerHis: 1.439 ± 0.038	4.561SerIle: 4.561 ± 0.074	3.28SerLys: 3.28 ± 0.062	7.022SerLeu: 7.022 ± 0.102	1.528SerMet: 1.528 ± 0.039	2.478SerAsn: 2.478 ± 0.056	2.358SerPro: 2.358 ± 0.053	2.393SerGln: 2.393 ± 0.057	2.663SerArg: 2.663 ± 0.061	4.246SerSer: 4.246 ± 0.074	3.288SerThr: 3.288 ± 0.061	4.294SerVal: 4.294 ± 0.065	0.801SerTrp: 0.801 ± 0.031	1.96SerTyr: 1.96 ± 0.052	0.0SerXaa: 0.0 ± 0.0
Thr	4.443ThrAla: 4.443 ± 0.068	0.449ThrCys: 0.449 ± 0.026	2.9ThrAsp: 2.9 ± 0.06	3.52ThrGlu: 3.52 ± 0.066	1.896ThrPhe: 1.896 ± 0.052	4.075ThrGly: 4.075 ± 0.08	1.307ThrHis: 1.307 ± 0.039	3.478ThrIle: 3.478 ± 0.065	2.598ThrLys: 2.598 ± 0.059	6.24ThrLeu: 6.24 ± 0.084	1.06ThrMet: 1.06 ± 0.037	1.931ThrAsn: 1.931 ± 0.048	2.6ThrPro: 2.6 ± 0.062	2.577ThrGln: 2.577 ± 0.051	2.192ThrArg: 2.192 ± 0.052	2.902ThrSer: 2.902 ± 0.066	2.709ThrThr: 2.709 ± 0.054	3.569ThrVal: 3.569 ± 0.068	0.611ThrTrp: 0.611 ± 0.025	1.407ThrTyr: 1.407 ± 0.04	0.0ThrXaa: 0.0 ± 0.0
Val	5.539ValAla: 5.539 ± 0.081	0.672ValCys: 0.672 ± 0.031	3.713ValAsp: 3.713 ± 0.067	3.792ValGlu: 3.792 ± 0.072	2.812ValPhe: 2.812 ± 0.063	4.111ValGly: 4.111 ± 0.082	1.326ValHis: 1.326 ± 0.039	4.79ValIle: 4.79 ± 0.086	3.601ValLys: 3.601 ± 0.068	6.845ValLeu: 6.845 ± 0.085	1.663ValMet: 1.663 ± 0.041	2.915ValAsn: 2.915 ± 0.064	2.406ValPro: 2.406 ± 0.054	2.572ValGln: 2.572 ± 0.066	2.72ValArg: 2.72 ± 0.059	4.367ValSer: 4.367 ± 0.076	3.613ValThr: 3.613 ± 0.068	4.274ValVal: 4.274 ± 0.085	0.683ValTrp: 0.683 ± 0.026	1.869ValTyr: 1.869 ± 0.049	0.0ValXaa: 0.0 ± 0.0
Trp	0.799TrpAla: 0.799 ± 0.032	0.12TrpCys: 0.12 ± 0.01	0.599TrpAsp: 0.599 ± 0.026	0.602TrpGlu: 0.602 ± 0.027	0.521TrpPhe: 0.521 ± 0.028	0.709TrpGly: 0.709 ± 0.03	0.329TrpHis: 0.329 ± 0.021	0.694TrpIle: 0.694 ± 0.029	0.54TrpLys: 0.54 ± 0.025	1.618TrpLeu: 1.618 ± 0.052	0.323TrpMet: 0.323 ± 0.018	0.44TrpAsn: 0.44 ± 0.025	0.439TrpPro: 0.439 ± 0.023	0.911TrpGln: 0.911 ± 0.04	0.621TrpArg: 0.621 ± 0.031	0.656TrpSer: 0.656 ± 0.03	0.476TrpThr: 0.476 ± 0.026	0.878TrpVal: 0.878 ± 0.028	0.143TrpTrp: 0.143 ± 0.013	0.353TrpTyr: 0.353 ± 0.024	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.634TyrAla: 2.634 ± 0.059	0.376TyrCys: 0.376 ± 0.02	1.62TyrAsp: 1.62 ± 0.042	1.51TyrGlu: 1.51 ± 0.047	1.519TyrPhe: 1.519 ± 0.04	1.933TyrGly: 1.933 ± 0.057	0.762TyrHis: 0.762 ± 0.031	1.917TyrIle: 1.917 ± 0.055	1.658TyrLys: 1.658 ± 0.045	3.561TyrLeu: 3.561 ± 0.066	0.604TyrMet: 0.604 ± 0.027	1.169TyrAsn: 1.169 ± 0.036	1.394TyrPro: 1.394 ± 0.042	2.118TyrGln: 2.118 ± 0.052	1.608TyrArg: 1.608 ± 0.046	2.003TyrSer: 2.003 ± 0.046	1.612TyrThr: 1.612 ± 0.042	1.647TyrVal: 1.647 ± 0.043	0.471TyrTrp: 0.471 ± 0.021	1.143TyrTyr: 1.143 ± 0.046	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	0.001XaaLys: 0.001 ± 0.001	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 3063 proteins (911241 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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