Amino acid dipepetide frequency for Saccharopolyspora shandongensis

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	20.132AlaAla: 20.132 ± 0.136	1.031AlaCys: 1.031 ± 0.023	8.633AlaAsp: 8.633 ± 0.061	9.867AlaGlu: 9.867 ± 0.073	3.572AlaPhe: 3.572 ± 0.038	12.377AlaGly: 12.377 ± 0.083	2.597AlaHis: 2.597 ± 0.035	4.608AlaIle: 4.608 ± 0.044	2.82AlaLys: 2.82 ± 0.04	13.529AlaLeu: 13.529 ± 0.106	2.762AlaMet: 2.762 ± 0.034	2.299AlaAsn: 2.299 ± 0.028	6.238AlaPro: 6.238 ± 0.06	3.896AlaGln: 3.896 ± 0.041	9.386AlaArg: 9.386 ± 0.064	5.668AlaSer: 5.668 ± 0.047	6.757AlaThr: 6.757 ± 0.055	11.728AlaVal: 11.728 ± 0.078	1.789AlaTrp: 1.789 ± 0.029	2.19AlaTyr: 2.19 ± 0.027	0.0AlaXaa: 0.0 ± 0.0
Cys	1.056CysAla: 1.056 ± 0.022	0.106CysCys: 0.106 ± 0.006	0.495CysAsp: 0.495 ± 0.014	0.444CysGlu: 0.444 ± 0.013	0.238CysPhe: 0.238 ± 0.01	0.962CysGly: 0.962 ± 0.023	0.206CysHis: 0.206 ± 0.009	0.214CysIle: 0.214 ± 0.009	0.106CysLys: 0.106 ± 0.006	0.733CysLeu: 0.733 ± 0.017	0.139CysMet: 0.139 ± 0.007	0.139CysAsn: 0.139 ± 0.006	0.489CysPro: 0.489 ± 0.015	0.211CysGln: 0.211 ± 0.009	0.635CysArg: 0.635 ± 0.017	0.477CysSer: 0.477 ± 0.014	0.499CysThr: 0.499 ± 0.017	0.634CysVal: 0.634 ± 0.016	0.132CysTrp: 0.132 ± 0.006	0.194CysTyr: 0.194 ± 0.009	0.0CysXaa: 0.0 ± 0.0
Asp	7.561AspAla: 7.561 ± 0.061	0.435AspCys: 0.435 ± 0.014	3.802AspAsp: 3.802 ± 0.045	4.32AspGlu: 4.32 ± 0.042	1.761AspPhe: 1.761 ± 0.024	5.927AspGly: 5.927 ± 0.052	1.403AspHis: 1.403 ± 0.027	1.943AspIle: 1.943 ± 0.025	0.976AspLys: 0.976 ± 0.022	6.333AspLeu: 6.333 ± 0.049	0.845AspMet: 0.845 ± 0.02	1.016AspAsn: 1.016 ± 0.019	4.357AspPro: 4.357 ± 0.047	1.87AspGln: 1.87 ± 0.027	5.063AspArg: 5.063 ± 0.048	2.691AspSer: 2.691 ± 0.033	2.633AspThr: 2.633 ± 0.032	5.218AspVal: 5.218 ± 0.05	0.992AspTrp: 0.992 ± 0.019	1.218AspTyr: 1.218 ± 0.019	0.0AspXaa: 0.0 ± 0.0
Glu	6.848GluAla: 6.848 ± 0.06	0.396GluCys: 0.396 ± 0.012	2.644GluAsp: 2.644 ± 0.043	3.039GluGlu: 3.039 ± 0.04	1.936GluPhe: 1.936 ± 0.027	3.501GluGly: 3.501 ± 0.034	1.906GluHis: 1.906 ± 0.032	2.699GluIle: 2.699 ± 0.038	1.287GluLys: 1.287 ± 0.027	7.927GluLeu: 7.927 ± 0.06	1.001GluMet: 1.001 ± 0.019	1.172GluAsn: 1.172 ± 0.023	3.717GluPro: 3.717 ± 0.04	2.848GluGln: 2.848 ± 0.038	5.298GluArg: 5.298 ± 0.051	2.964GluSer: 2.964 ± 0.052	2.878GluThr: 2.878 ± 0.035	5.004GluVal: 5.004 ± 0.048	0.861GluTrp: 0.861 ± 0.02	1.068GluTyr: 1.068 ± 0.02	0.0GluXaa: 0.0 ± 0.0
Phe	4.179PheAla: 4.179 ± 0.043	0.288PheCys: 0.288 ± 0.01	2.221PheAsp: 2.221 ± 0.03	1.615PheGlu: 1.615 ± 0.023	0.925PhePhe: 0.925 ± 0.021	3.475PheGly: 3.475 ± 0.039	0.666PheHis: 0.666 ± 0.017	0.826PheIle: 0.826 ± 0.018	0.44PheLys: 0.44 ± 0.013	2.759PheLeu: 2.759 ± 0.034	0.407PheMet: 0.407 ± 0.012	0.606PheAsn: 0.606 ± 0.014	1.464PhePro: 1.464 ± 0.023	0.761PheGln: 0.761 ± 0.018	1.976PheArg: 1.976 ± 0.028	1.547PheSer: 1.547 ± 0.022	1.835PheThr: 1.835 ± 0.026	2.461PheVal: 2.461 ± 0.031	0.448PheTrp: 0.448 ± 0.014	0.587PheTyr: 0.587 ± 0.015	0.0PheXaa: 0.0 ± 0.0
Gly	10.179GlyAla: 10.179 ± 0.065	0.86GlyCys: 0.86 ± 0.021	4.921GlyAsp: 4.921 ± 0.051	5.293GlyGlu: 5.293 ± 0.052	3.078GlyPhe: 3.078 ± 0.035	8.347GlyGly: 8.347 ± 0.08	2.091GlyHis: 2.091 ± 0.029	3.934GlyIle: 3.934 ± 0.037	2.34GlyLys: 2.34 ± 0.034	9.304GlyLeu: 9.304 ± 0.061	2.145GlyMet: 2.145 ± 0.029	1.951GlyAsn: 1.951 ± 0.034	4.558GlyPro: 4.558 ± 0.048	2.832GlyGln: 2.832 ± 0.041	7.007GlyArg: 7.007 ± 0.062	5.314GlySer: 5.314 ± 0.061	5.343GlyThr: 5.343 ± 0.047	7.647GlyVal: 7.647 ± 0.064	1.802GlyTrp: 1.802 ± 0.026	2.207GlyTyr: 2.207 ± 0.033	0.0GlyXaa: 0.0 ± 0.0
His	2.691HisAla: 2.691 ± 0.037	0.249HisCys: 0.249 ± 0.009	1.47HisAsp: 1.47 ± 0.026	1.3HisGlu: 1.3 ± 0.02	0.652HisPhe: 0.652 ± 0.015	2.324HisGly: 2.324 ± 0.032	0.703HisHis: 0.703 ± 0.018	0.672HisIle: 0.672 ± 0.017	0.285HisLys: 0.285 ± 0.01	2.417HisLeu: 2.417 ± 0.037	0.308HisMet: 0.308 ± 0.01	0.437HisAsn: 0.437 ± 0.013	1.684HisPro: 1.684 ± 0.028	0.738HisGln: 0.738 ± 0.02	2.091HisArg: 2.091 ± 0.025	1.067HisSer: 1.067 ± 0.022	1.13HisThr: 1.13 ± 0.023	1.771HisVal: 1.771 ± 0.028	0.362HisTrp: 0.362 ± 0.01	0.512HisTyr: 0.512 ± 0.013	0.0HisXaa: 0.0 ± 0.0
Ile	5.781IleAla: 5.781 ± 0.055	0.338IleCys: 0.338 ± 0.013	2.687IleAsp: 2.687 ± 0.033	2.309IleGlu: 2.309 ± 0.029	0.846IlePhe: 0.846 ± 0.018	4.289IleGly: 4.289 ± 0.045	0.66IleHis: 0.66 ± 0.016	1.084IleIle: 1.084 ± 0.023	0.74IleLys: 0.74 ± 0.015	2.461IleLeu: 2.461 ± 0.033	0.522IleMet: 0.522 ± 0.015	0.896IleAsn: 0.896 ± 0.018	2.066IlePro: 2.066 ± 0.026	0.783IleGln: 0.783 ± 0.021	2.623IleArg: 2.623 ± 0.028	2.135IleSer: 2.135 ± 0.031	2.518IleThr: 2.518 ± 0.032	3.101IleVal: 3.101 ± 0.042	0.417IleTrp: 0.417 ± 0.012	0.652IleTyr: 0.652 ± 0.014	0.0IleXaa: 0.0 ± 0.0
Lys	2.472LysAla: 2.472 ± 0.034	0.101LysCys: 0.101 ± 0.007	0.979LysAsp: 0.979 ± 0.021	0.917LysGlu: 0.917 ± 0.019	0.52LysPhe: 0.52 ± 0.014	1.34LysGly: 1.34 ± 0.023	0.487LysHis: 0.487 ± 0.013	0.902LysIle: 0.902 ± 0.019	0.58LysLys: 0.58 ± 0.019	2.14LysLeu: 2.14 ± 0.026	0.403LysMet: 0.403 ± 0.012	0.438LysAsn: 0.438 ± 0.014	1.416LysPro: 1.416 ± 0.023	0.807LysGln: 0.807 ± 0.02	1.567LysArg: 1.567 ± 0.029	1.108LysSer: 1.108 ± 0.021	1.131LysThr: 1.131 ± 0.023	1.714LysVal: 1.714 ± 0.029	0.3LysTrp: 0.3 ± 0.012	0.401LysTyr: 0.401 ± 0.013	0.0LysXaa: 0.0 ± 0.0
Leu	15.345LeuAla: 15.345 ± 0.104	0.833LeuCys: 0.833 ± 0.018	6.794LeuAsp: 6.794 ± 0.057	4.715LeuGlu: 4.715 ± 0.049	2.779LeuPhe: 2.779 ± 0.038	9.55LeuGly: 9.55 ± 0.064	2.331LeuHis: 2.331 ± 0.037	3.768LeuIle: 3.768 ± 0.049	1.658LeuLys: 1.658 ± 0.027	11.207LeuLeu: 11.207 ± 0.105	1.535LeuMet: 1.535 ± 0.024	1.831LeuAsn: 1.831 ± 0.024	6.381LeuPro: 6.381 ± 0.053	2.616LeuGln: 2.616 ± 0.032	9.02LeuArg: 9.02 ± 0.077	5.552LeuSer: 5.552 ± 0.045	5.927LeuThr: 5.927 ± 0.045	9.434LeuVal: 9.434 ± 0.077	1.222LeuTrp: 1.222 ± 0.025	1.576LeuTyr: 1.576 ± 0.026	0.0LeuXaa: 0.0 ± 0.0
Met	2.322MetAla: 2.322 ± 0.028	0.149MetCys: 0.149 ± 0.008	0.805MetAsp: 0.805 ± 0.018	0.66MetGlu: 0.66 ± 0.015	0.559MetPhe: 0.559 ± 0.014	1.299MetGly: 1.299 ± 0.021	0.415MetHis: 0.415 ± 0.011	0.786MetIle: 0.786 ± 0.016	0.354MetLys: 0.354 ± 0.01	1.993MetLeu: 1.993 ± 0.025	0.329MetMet: 0.329 ± 0.012	0.44MetAsn: 0.44 ± 0.011	1.217MetPro: 1.217 ± 0.02	0.55MetGln: 0.55 ± 0.013	1.591MetArg: 1.591 ± 0.022	1.443MetSer: 1.443 ± 0.022	1.534MetThr: 1.534 ± 0.025	1.369MetVal: 1.369 ± 0.022	0.23MetTrp: 0.23 ± 0.01	0.262MetTyr: 0.262 ± 0.01	0.0MetXaa: 0.0 ± 0.0
Asn	2.539AsnAla: 2.539 ± 0.032	0.204AsnCys: 0.204 ± 0.008	1.022AsnAsp: 1.022 ± 0.023	0.918AsnGlu: 0.918 ± 0.018	0.582AsnPhe: 0.582 ± 0.016	1.929AsnGly: 1.929 ± 0.029	0.43AsnHis: 0.43 ± 0.013	0.747AsnIle: 0.747 ± 0.017	0.391AsnLys: 0.391 ± 0.013	1.886AsnLeu: 1.886 ± 0.028	0.337AsnMet: 0.337 ± 0.011	0.487AsnAsn: 0.487 ± 0.015	1.66AsnPro: 1.66 ± 0.027	0.615AsnGln: 0.615 ± 0.016	1.517AsnArg: 1.517 ± 0.028	1.067AsnSer: 1.067 ± 0.022	1.143AsnThr: 1.143 ± 0.021	1.514AsnVal: 1.514 ± 0.028	0.331AsnTrp: 0.331 ± 0.01	0.458AsnTyr: 0.458 ± 0.013	0.0AsnXaa: 0.0 ± 0.0
Pro	7.866ProAla: 7.866 ± 0.057	0.342ProCys: 0.342 ± 0.013	4.44ProAsp: 4.44 ± 0.05	4.457ProGlu: 4.457 ± 0.047	1.57ProPhe: 1.57 ± 0.025	6.178ProGly: 6.178 ± 0.067	1.261ProHis: 1.261 ± 0.024	1.746ProIle: 1.746 ± 0.026	1.276ProLys: 1.276 ± 0.023	5.059ProLeu: 5.059 ± 0.044	1.105ProMet: 1.105 ± 0.02	1.24ProAsn: 1.24 ± 0.024	3.58ProPro: 3.58 ± 0.077	1.926ProGln: 1.926 ± 0.036	3.652ProArg: 3.652 ± 0.035	2.954ProSer: 2.954 ± 0.037	3.159ProThr: 3.159 ± 0.039	5.266ProVal: 5.266 ± 0.051	0.881ProTrp: 0.881 ± 0.017	1.001ProTyr: 1.001 ± 0.017	0.0ProXaa: 0.0 ± 0.0
Gln	4.086GlnAla: 4.086 ± 0.041	0.218GlnCys: 0.218 ± 0.009	1.469GlnAsp: 1.469 ± 0.027	1.523GlnGlu: 1.523 ± 0.025	0.813GlnPhe: 0.813 ± 0.018	2.17GlnGly: 2.17 ± 0.029	0.872GlnHis: 0.872 ± 0.021	1.284GlnIle: 1.284 ± 0.02	0.546GlnLys: 0.546 ± 0.017	3.591GlnLeu: 3.591 ± 0.042	0.525GlnMet: 0.525 ± 0.013	0.601GlnAsn: 0.601 ± 0.016	2.008GlnPro: 2.008 ± 0.033	1.68GlnGln: 1.68 ± 0.037	3.155GlnArg: 3.155 ± 0.038	1.321GlnSer: 1.321 ± 0.025	1.337GlnThr: 1.337 ± 0.022	2.885GlnVal: 2.885 ± 0.035	0.528GlnTrp: 0.528 ± 0.013	0.559GlnTyr: 0.559 ± 0.015	0.0GlnXaa: 0.0 ± 0.0
Arg	9.294ArgAla: 9.294 ± 0.067	0.678ArgCys: 0.678 ± 0.016	4.497ArgAsp: 4.497 ± 0.047	4.92ArgGlu: 4.92 ± 0.05	2.587ArgPhe: 2.587 ± 0.031	5.732ArgGly: 5.732 ± 0.047	1.943ArgHis: 1.943 ± 0.027	3.542ArgIle: 3.542 ± 0.033	1.79ArgLys: 1.79 ± 0.027	8.614ArgLeu: 8.614 ± 0.073	1.957ArgMet: 1.957 ± 0.027	1.674ArgAsn: 1.674 ± 0.026	4.544ArgPro: 4.544 ± 0.051	2.574ArgGln: 2.574 ± 0.032	7.525ArgArg: 7.525 ± 0.062	4.395ArgSer: 4.395 ± 0.044	4.565ArgThr: 4.565 ± 0.04	5.693ArgVal: 5.693 ± 0.049	1.43ArgTrp: 1.43 ± 0.021	1.804ArgTyr: 1.804 ± 0.028	0.0ArgXaa: 0.0 ± 0.0
Ser	6.825SerAla: 6.825 ± 0.05	0.425SerCys: 0.425 ± 0.014	2.795SerAsp: 2.795 ± 0.036	2.656SerGlu: 2.656 ± 0.035	1.605SerPhe: 1.605 ± 0.024	5.903SerGly: 5.903 ± 0.065	0.983SerHis: 0.983 ± 0.018	1.838SerIle: 1.838 ± 0.025	1.065SerLys: 1.065 ± 0.019	4.821SerLeu: 4.821 ± 0.046	1.239SerMet: 1.239 ± 0.023	1.018SerAsn: 1.018 ± 0.02	3.106SerPro: 3.106 ± 0.037	1.399SerGln: 1.399 ± 0.025	3.81SerArg: 3.81 ± 0.045	3.071SerSer: 3.071 ± 0.051	3.237SerThr: 3.237 ± 0.034	4.301SerVal: 4.301 ± 0.042	0.994SerTrp: 0.994 ± 0.02	1.149SerTyr: 1.149 ± 0.02	0.0SerXaa: 0.0 ± 0.0
Thr	7.719ThrAla: 7.719 ± 0.061	0.427ThrCys: 0.427 ± 0.013	3.252ThrAsp: 3.252 ± 0.036	3.22ThrGlu: 3.22 ± 0.038	1.623ThrPhe: 1.623 ± 0.027	6.104ThrGly: 6.104 ± 0.053	1.087ThrHis: 1.087 ± 0.02	2.066ThrIle: 2.066 ± 0.031	1.142ThrLys: 1.142 ± 0.021	4.892ThrLeu: 4.892 ± 0.048	0.971ThrMet: 0.971 ± 0.02	1.119ThrAsn: 1.119 ± 0.02	3.545ThrPro: 3.545 ± 0.04	1.317ThrGln: 1.317 ± 0.024	3.661ThrArg: 3.661 ± 0.034	3.162ThrSer: 3.162 ± 0.037	3.675ThrThr: 3.675 ± 0.042	4.954ThrVal: 4.954 ± 0.046	0.872ThrTrp: 0.872 ± 0.019	1.109ThrTyr: 1.109 ± 0.021	0.0ThrXaa: 0.0 ± 0.0
Val	11.06ValAla: 11.06 ± 0.083	0.702ValCys: 0.702 ± 0.017	5.454ValAsp: 5.454 ± 0.05	5.103ValGlu: 5.103 ± 0.052	2.57ValPhe: 2.57 ± 0.029	6.857ValGly: 6.857 ± 0.057	2.014ValHis: 2.014 ± 0.027	3.179ValIle: 3.179 ± 0.038	1.348ValLys: 1.348 ± 0.025	10.255ValLeu: 10.255 ± 0.08	1.248ValMet: 1.248 ± 0.023	1.679ValAsn: 1.679 ± 0.027	5.038ValPro: 5.038 ± 0.046	2.399ValGln: 2.399 ± 0.03	6.878ValArg: 6.878 ± 0.056	4.367ValSer: 4.367 ± 0.046	4.735ValThr: 4.735 ± 0.035	8.692ValVal: 8.692 ± 0.071	1.058ValTrp: 1.058 ± 0.02	1.333ValTyr: 1.333 ± 0.023	0.0ValXaa: 0.0 ± 0.0
Trp	1.655TrpAla: 1.655 ± 0.022	0.147TrpCys: 0.147 ± 0.007	0.764TrpAsp: 0.764 ± 0.017	0.694TrpGlu: 0.694 ± 0.018	0.571TrpPhe: 0.571 ± 0.017	1.037TrpGly: 1.037 ± 0.021	0.393TrpHis: 0.393 ± 0.011	0.596TrpIle: 0.596 ± 0.017	0.287TrpLys: 0.287 ± 0.011	1.966TrpLeu: 1.966 ± 0.028	0.326TrpMet: 0.326 ± 0.01	0.369TrpAsn: 0.369 ± 0.013	0.832TrpPro: 0.832 ± 0.018	0.669TrpGln: 0.669 ± 0.016	1.42TrpArg: 1.42 ± 0.022	0.952TrpSer: 0.952 ± 0.019	0.921TrpThr: 0.921 ± 0.019	1.066TrpVal: 1.066 ± 0.018	0.348TrpTrp: 0.348 ± 0.012	0.301TrpTyr: 0.301 ± 0.012	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.268TyrAla: 2.268 ± 0.027	0.18TyrCys: 0.18 ± 0.008	1.216TyrAsp: 1.216 ± 0.023	1.024TyrGlu: 1.024 ± 0.019	0.7TyrPhe: 0.7 ± 0.018	1.854TyrGly: 1.854 ± 0.027	0.414TyrHis: 0.414 ± 0.011	0.475TyrIle: 0.475 ± 0.012	0.289TyrLys: 0.289 ± 0.01	2.19TyrLeu: 2.19 ± 0.03	0.205TyrMet: 0.205 ± 0.01	0.366TyrAsn: 0.366 ± 0.013	1.058TyrPro: 1.058 ± 0.023	0.682TyrGln: 0.682 ± 0.015	1.883TyrArg: 1.883 ± 0.029	0.984TyrSer: 0.984 ± 0.019	0.959TyrThr: 0.959 ± 0.021	1.519TyrVal: 1.519 ± 0.026	0.316TyrTrp: 0.316 ± 0.01	0.446TyrTyr: 0.446 ± 0.012	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	0.001XaaPro: 0.001 ± 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	0.002XaaXaa: 0.002 ± 0.001

Statistics based on 9219 proteins (2930089 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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