Amino acid dipepetide frequency for Paenibacillus sp. (strain JDR-2)

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	9.867AlaAla: 9.867 ± 0.126	0.727AlaCys: 0.727 ± 0.018	4.636AlaAsp: 4.636 ± 0.058	5.841AlaGlu: 5.841 ± 0.066	3.483AlaPhe: 3.483 ± 0.043	7.263AlaGly: 7.263 ± 0.087	1.356AlaHis: 1.356 ± 0.026	5.579AlaIle: 5.579 ± 0.06	4.411AlaLys: 4.411 ± 0.049	8.185AlaLeu: 8.185 ± 0.072	2.334AlaMet: 2.334 ± 0.032	3.03AlaAsn: 3.03 ± 0.042	2.829AlaPro: 2.829 ± 0.049	2.63AlaGln: 2.63 ± 0.047	3.448AlaArg: 3.448 ± 0.046	5.779AlaSer: 5.779 ± 0.066	4.025AlaThr: 4.025 ± 0.107	6.95AlaVal: 6.95 ± 0.081	1.04AlaTrp: 1.04 ± 0.024	2.838AlaTyr: 2.838 ± 0.043	0.0AlaXaa: 0.0 ± 0.0
Cys	0.486CysAla: 0.486 ± 0.017	0.103CysCys: 0.103 ± 0.008	0.347CysAsp: 0.347 ± 0.014	0.403CysGlu: 0.403 ± 0.013	0.292CysPhe: 0.292 ± 0.014	0.704CysGly: 0.704 ± 0.022	0.171CysHis: 0.171 ± 0.009	0.425CysIle: 0.425 ± 0.014	0.274CysLys: 0.274 ± 0.011	0.691CysLeu: 0.691 ± 0.021	0.205CysMet: 0.205 ± 0.009	0.245CysAsn: 0.245 ± 0.012	0.298CysPro: 0.298 ± 0.014	0.194CysGln: 0.194 ± 0.01	0.4CysArg: 0.4 ± 0.015	0.56CysSer: 0.56 ± 0.017	0.358CysThr: 0.358 ± 0.012	0.407CysVal: 0.407 ± 0.014	0.097CysTrp: 0.097 ± 0.007	0.262CysTyr: 0.262 ± 0.013	0.0CysXaa: 0.0 ± 0.0
Asp	4.27AspAla: 4.27 ± 0.051	0.343AspCys: 0.343 ± 0.014	2.437AspAsp: 2.437 ± 0.039	3.644AspGlu: 3.644 ± 0.05	2.091AspPhe: 2.091 ± 0.028	4.378AspGly: 4.378 ± 0.067	1.073AspHis: 1.073 ± 0.025	3.412AspIle: 3.412 ± 0.04	2.89AspLys: 2.89 ± 0.043	4.743AspLeu: 4.743 ± 0.049	1.307AspMet: 1.307 ± 0.025	2.099AspAsn: 2.099 ± 0.036	2.427AspPro: 2.427 ± 0.036	1.968AspGln: 1.968 ± 0.028	2.745AspArg: 2.745 ± 0.035	2.998AspSer: 2.998 ± 0.047	2.662AspThr: 2.662 ± 0.037	3.443AspVal: 3.443 ± 0.045	0.972AspTrp: 0.972 ± 0.025	2.241AspTyr: 2.241 ± 0.037	0.0AspXaa: 0.0 ± 0.0
Glu	6.255GluAla: 6.255 ± 0.07	0.335GluCys: 0.335 ± 0.011	3.103GluAsp: 3.103 ± 0.041	5.102GluGlu: 5.102 ± 0.058	2.066GluPhe: 2.066 ± 0.034	4.349GluGly: 4.349 ± 0.043	1.462GluHis: 1.462 ± 0.028	3.861GluIle: 3.861 ± 0.053	3.718GluLys: 3.718 ± 0.048	7.147GluLeu: 7.147 ± 0.077	1.869GluMet: 1.869 ± 0.03	2.315GluAsn: 2.315 ± 0.033	2.34GluPro: 2.34 ± 0.039	3.722GluGln: 3.722 ± 0.054	3.823GluArg: 3.823 ± 0.061	3.455GluSer: 3.455 ± 0.046	3.151GluThr: 3.151 ± 0.045	4.129GluVal: 4.129 ± 0.052	1.024GluTrp: 1.024 ± 0.024	1.956GluTyr: 1.956 ± 0.03	0.0GluXaa: 0.0 ± 0.0
Phe	3.372PheAla: 3.372 ± 0.044	0.313PheCys: 0.313 ± 0.013	2.399PheAsp: 2.399 ± 0.031	2.432PheGlu: 2.432 ± 0.042	1.717PhePhe: 1.717 ± 0.036	3.295PheGly: 3.295 ± 0.044	0.881PheHis: 0.881 ± 0.02	2.908PheIle: 2.908 ± 0.042	2.093PheLys: 2.093 ± 0.034	3.779PheLeu: 3.779 ± 0.049	1.155PheMet: 1.155 ± 0.022	1.727PheAsn: 1.727 ± 0.033	1.6PhePro: 1.6 ± 0.03	1.337PheGln: 1.337 ± 0.024	2.058PheArg: 2.058 ± 0.032	2.744PheSer: 2.744 ± 0.041	2.5PheThr: 2.5 ± 0.039	2.957PheVal: 2.957 ± 0.044	0.58PheTrp: 0.58 ± 0.019	1.507PheTyr: 1.507 ± 0.03	0.0PheXaa: 0.0 ± 0.0
Gly	5.873GlyAla: 5.873 ± 0.13	0.669GlyCys: 0.669 ± 0.02	3.704GlyAsp: 3.704 ± 0.053	4.52GlyGlu: 4.52 ± 0.052	3.283GlyPhe: 3.283 ± 0.043	5.804GlyGly: 5.804 ± 0.083	1.464GlyHis: 1.464 ± 0.023	5.696GlyIle: 5.696 ± 0.059	4.634GlyLys: 4.634 ± 0.049	7.23GlyLeu: 7.23 ± 0.062	2.381GlyMet: 2.381 ± 0.04	3.078GlyAsn: 3.078 ± 0.061	1.983GlyPro: 1.983 ± 0.033	2.82GlyGln: 2.82 ± 0.042	3.362GlyArg: 3.362 ± 0.045	5.039GlySer: 5.039 ± 0.071	4.755GlyThr: 4.755 ± 0.08	5.106GlyVal: 5.106 ± 0.058	1.214GlyTrp: 1.214 ± 0.029	3.062GlyTyr: 3.062 ± 0.046	0.0GlyXaa: 0.0 ± 0.0
His	1.568HisAla: 1.568 ± 0.027	0.176HisCys: 0.176 ± 0.01	0.976HisAsp: 0.976 ± 0.023	1.217HisGlu: 1.217 ± 0.025	1.014HisPhe: 1.014 ± 0.023	1.454HisGly: 1.454 ± 0.03	0.561HisHis: 0.561 ± 0.017	1.319HisIle: 1.319 ± 0.028	0.82HisLys: 0.82 ± 0.023	1.916HisLeu: 1.916 ± 0.034	0.54HisMet: 0.54 ± 0.016	0.709HisAsn: 0.709 ± 0.019	1.142HisPro: 1.142 ± 0.025	0.742HisGln: 0.742 ± 0.017	0.962HisArg: 0.962 ± 0.021	1.159HisSer: 1.159 ± 0.023	1.005HisThr: 1.005 ± 0.025	1.318HisVal: 1.318 ± 0.027	0.335HisTrp: 0.335 ± 0.011	0.938HisTyr: 0.938 ± 0.024	0.0HisXaa: 0.0 ± 0.0
Ile	6.066IleAla: 6.066 ± 0.058	0.549IleCys: 0.549 ± 0.016	3.714IleAsp: 3.714 ± 0.046	4.172IleGlu: 4.172 ± 0.058	2.306IlePhe: 2.306 ± 0.044	5.468IleGly: 5.468 ± 0.063	1.368IleHis: 1.368 ± 0.027	4.238IleIle: 4.238 ± 0.067	2.966IleLys: 2.966 ± 0.04	5.507IleLeu: 5.507 ± 0.075	1.633IleMet: 1.633 ± 0.03	2.602IleAsn: 2.602 ± 0.038	3.14IlePro: 3.14 ± 0.042	2.398IleGln: 2.398 ± 0.037	3.719IleArg: 3.719 ± 0.047	4.29IleSer: 4.29 ± 0.044	3.992IleThr: 3.992 ± 0.046	5.112IleVal: 5.112 ± 0.063	0.727IleTrp: 0.727 ± 0.019	2.079IleTyr: 2.079 ± 0.031	0.0IleXaa: 0.0 ± 0.0
Lys	4.59LysAla: 4.59 ± 0.051	0.205LysCys: 0.205 ± 0.011	3.032LysAsp: 3.032 ± 0.044	4.037LysGlu: 4.037 ± 0.054	1.596LysPhe: 1.596 ± 0.027	3.606LysGly: 3.606 ± 0.04	1.09LysHis: 1.09 ± 0.025	2.867LysIle: 2.867 ± 0.041	3.155LysLys: 3.155 ± 0.048	5.762LysLeu: 5.762 ± 0.073	1.56LysMet: 1.56 ± 0.03	1.975LysAsn: 1.975 ± 0.034	2.404LysPro: 2.404 ± 0.037	2.591LysGln: 2.591 ± 0.042	2.708LysArg: 2.708 ± 0.043	2.926LysSer: 2.926 ± 0.041	2.783LysThr: 2.783 ± 0.04	3.558LysVal: 3.558 ± 0.048	0.783LysTrp: 0.783 ± 0.02	1.812LysTyr: 1.812 ± 0.027	0.0LysXaa: 0.0 ± 0.0
Leu	8.564LeuAla: 8.564 ± 0.096	0.721LeuCys: 0.721 ± 0.021	4.971LeuAsp: 4.971 ± 0.048	6.014LeuGlu: 6.014 ± 0.07	4.628LeuPhe: 4.628 ± 0.06	6.56LeuGly: 6.56 ± 0.062	1.987LeuHis: 1.987 ± 0.032	6.373LeuIle: 6.373 ± 0.077	5.176LeuLys: 5.176 ± 0.056	10.839LeuLeu: 10.839 ± 0.11	2.564LeuMet: 2.564 ± 0.035	3.885LeuAsn: 3.885 ± 0.049	4.451LeuPro: 4.451 ± 0.05	4.001LeuGln: 4.001 ± 0.047	4.815LeuArg: 4.815 ± 0.057	6.99LeuSer: 6.99 ± 0.062	5.868LeuThr: 5.868 ± 0.054	6.32LeuVal: 6.32 ± 0.069	1.062LeuTrp: 1.062 ± 0.022	3.328LeuTyr: 3.328 ± 0.043	0.0LeuXaa: 0.0 ± 0.0
Met	2.259MetAla: 2.259 ± 0.035	0.139MetCys: 0.139 ± 0.009	1.471MetAsp: 1.471 ± 0.027	1.782MetGlu: 1.782 ± 0.029	1.055MetPhe: 1.055 ± 0.025	1.669MetGly: 1.669 ± 0.03	0.469MetHis: 0.469 ± 0.014	1.897MetIle: 1.897 ± 0.033	1.983MetLys: 1.983 ± 0.034	2.949MetLeu: 2.949 ± 0.043	0.864MetMet: 0.864 ± 0.023	1.47MetAsn: 1.47 ± 0.029	1.214MetPro: 1.214 ± 0.026	1.002MetGln: 1.002 ± 0.024	1.332MetArg: 1.332 ± 0.027	1.746MetSer: 1.746 ± 0.034	1.734MetThr: 1.734 ± 0.032	1.659MetVal: 1.659 ± 0.029	0.245MetTrp: 0.245 ± 0.011	0.806MetTyr: 0.806 ± 0.018	0.0MetXaa: 0.0 ± 0.0
Asn	3.274AsnAla: 3.274 ± 0.053	0.236AsnCys: 0.236 ± 0.012	2.06AsnAsp: 2.06 ± 0.037	2.579AsnGlu: 2.579 ± 0.036	1.378AsnPhe: 1.378 ± 0.029	3.85AsnGly: 3.85 ± 0.058	0.839AsnHis: 0.839 ± 0.02	2.28AsnIle: 2.28 ± 0.037	2.197AsnLys: 2.197 ± 0.036	3.281AsnLeu: 3.281 ± 0.043	1.039AsnMet: 1.039 ± 0.024	1.969AsnAsn: 1.969 ± 0.043	2.098AsnPro: 2.098 ± 0.034	1.517AsnGln: 1.517 ± 0.025	2.151AsnArg: 2.151 ± 0.037	2.337AsnSer: 2.337 ± 0.042	2.213AsnThr: 2.213 ± 0.042	2.733AsnVal: 2.733 ± 0.041	0.64AsnTrp: 0.64 ± 0.023	1.49AsnTyr: 1.49 ± 0.026	0.0AsnXaa: 0.0 ± 0.0
Pro	3.616ProAla: 3.616 ± 0.057	0.236ProCys: 0.236 ± 0.011	2.641ProAsp: 2.641 ± 0.04	3.257ProGlu: 3.257 ± 0.045	1.931ProPhe: 1.931 ± 0.031	2.978ProGly: 2.978 ± 0.045	0.877ProHis: 0.877 ± 0.021	2.509ProIle: 2.509 ± 0.036	1.712ProLys: 1.712 ± 0.032	3.896ProLeu: 3.896 ± 0.046	0.962ProMet: 0.962 ± 0.025	1.615ProAsn: 1.615 ± 0.032	1.206ProPro: 1.206 ± 0.028	1.324ProGln: 1.324 ± 0.027	1.309ProArg: 1.309 ± 0.024	2.705ProSer: 2.705 ± 0.039	2.052ProThr: 2.052 ± 0.038	3.388ProVal: 3.388 ± 0.045	0.549ProTrp: 0.549 ± 0.019	1.568ProTyr: 1.568 ± 0.028	0.0ProXaa: 0.0 ± 0.0
Gln	3.519GlnAla: 3.519 ± 0.051	0.182GlnCys: 0.182 ± 0.01	1.676GlnAsp: 1.676 ± 0.03	2.412GlnGlu: 2.412 ± 0.04	1.593GlnPhe: 1.593 ± 0.03	2.511GlnGly: 2.511 ± 0.04	0.774GlnHis: 0.774 ± 0.02	2.472GlnIle: 2.472 ± 0.037	1.827GlnLys: 1.827 ± 0.029	4.452GlnLeu: 4.452 ± 0.048	1.191GlnMet: 1.191 ± 0.026	1.323GlnAsn: 1.323 ± 0.023	1.53GlnPro: 1.53 ± 0.033	1.913GlnGln: 1.913 ± 0.037	1.703GlnArg: 1.703 ± 0.033	2.38GlnSer: 2.38 ± 0.036	2.115GlnThr: 2.115 ± 0.032	2.425GlnVal: 2.425 ± 0.033	0.54GlnTrp: 0.54 ± 0.019	1.458GlnTyr: 1.458 ± 0.03	0.0GlnXaa: 0.0 ± 0.0
Arg	3.25ArgAla: 3.25 ± 0.044	0.315ArgCys: 0.315 ± 0.012	2.294ArgAsp: 2.294 ± 0.03	3.536ArgGlu: 3.536 ± 0.054	2.234ArgPhe: 2.234 ± 0.037	2.859ArgGly: 2.859 ± 0.04	1.006ArgHis: 1.006 ± 0.024	3.781ArgIle: 3.781 ± 0.053	2.94ArgLys: 2.94 ± 0.041	5.112ArgLeu: 5.112 ± 0.059	1.654ArgMet: 1.654 ± 0.028	2.0ArgAsn: 2.0 ± 0.033	1.636ArgPro: 1.636 ± 0.03	1.924ArgGln: 1.924 ± 0.035	2.499ArgArg: 2.499 ± 0.04	3.013ArgSer: 3.013 ± 0.04	2.66ArgThr: 2.66 ± 0.035	2.954ArgVal: 2.954 ± 0.038	0.651ArgTrp: 0.651 ± 0.021	1.933ArgTyr: 1.933 ± 0.03	0.0ArgXaa: 0.0 ± 0.0
Ser	5.176SerAla: 5.176 ± 0.065	0.42SerCys: 0.42 ± 0.016	3.246SerAsp: 3.246 ± 0.043	3.831SerGlu: 3.831 ± 0.044	3.122SerPhe: 3.122 ± 0.038	5.79SerGly: 5.79 ± 0.072	1.214SerHis: 1.214 ± 0.025	4.348SerIle: 4.348 ± 0.048	3.255SerLys: 3.255 ± 0.045	6.278SerLeu: 6.278 ± 0.061	1.733SerMet: 1.733 ± 0.029	2.548SerAsn: 2.548 ± 0.04	2.49SerPro: 2.49 ± 0.039	1.996SerGln: 1.996 ± 0.035	2.967SerArg: 2.967 ± 0.037	4.586SerSer: 4.586 ± 0.069	3.269SerThr: 3.269 ± 0.055	4.655SerVal: 4.655 ± 0.066	0.914SerTrp: 0.914 ± 0.026	2.45SerTyr: 2.45 ± 0.039	0.0SerXaa: 0.0 ± 0.0
Thr	5.135ThrAla: 5.135 ± 0.076	0.295ThrCys: 0.295 ± 0.012	3.139ThrAsp: 3.139 ± 0.049	3.247ThrGlu: 3.247 ± 0.045	2.388ThrPhe: 2.388 ± 0.037	4.944ThrGly: 4.944 ± 0.16	0.913ThrHis: 0.913 ± 0.024	4.048ThrIle: 4.048 ± 0.057	2.49ThrLys: 2.49 ± 0.034	5.372ThrLeu: 5.372 ± 0.053	1.382ThrMet: 1.382 ± 0.028	2.228ThrAsn: 2.228 ± 0.043	2.602ThrPro: 2.602 ± 0.046	1.509ThrGln: 1.509 ± 0.027	2.144ThrArg: 2.144 ± 0.029	3.394ThrSer: 3.394 ± 0.055	3.046ThrThr: 3.046 ± 0.057	4.835ThrVal: 4.835 ± 0.068	0.701ThrTrp: 0.701 ± 0.02	1.978ThrTyr: 1.978 ± 0.039	0.0ThrXaa: 0.0 ± 0.0
Val	5.309ValAla: 5.309 ± 0.065	0.565ValCys: 0.565 ± 0.019	3.613ValAsp: 3.613 ± 0.041	4.046ValGlu: 4.046 ± 0.046	2.938ValPhe: 2.938 ± 0.038	4.456ValGly: 4.456 ± 0.053	1.362ValHis: 1.362 ± 0.028	4.982ValIle: 4.982 ± 0.058	3.923ValLys: 3.923 ± 0.049	7.015ValLeu: 7.015 ± 0.067	1.955ValMet: 1.955 ± 0.034	2.962ValAsn: 2.962 ± 0.039	2.947ValPro: 2.947 ± 0.041	2.648ValGln: 2.648 ± 0.034	3.395ValArg: 3.395 ± 0.046	4.861ValSer: 4.861 ± 0.06	4.796ValThr: 4.796 ± 0.088	4.812ValVal: 4.812 ± 0.062	0.91ValTrp: 0.91 ± 0.024	2.469ValTyr: 2.469 ± 0.039	0.0ValXaa: 0.0 ± 0.0
Trp	0.931TrpAla: 0.931 ± 0.024	0.108TrpCys: 0.108 ± 0.007	0.714TrpAsp: 0.714 ± 0.02	0.784TrpGlu: 0.784 ± 0.02	0.581TrpPhe: 0.581 ± 0.018	0.921TrpGly: 0.921 ± 0.026	0.291TrpHis: 0.291 ± 0.011	0.927TrpIle: 0.927 ± 0.022	0.758TrpLys: 0.758 ± 0.02	1.508TrpLeu: 1.508 ± 0.031	0.452TrpMet: 0.452 ± 0.015	0.784TrpAsn: 0.784 ± 0.021	0.426TrpPro: 0.426 ± 0.016	0.55TrpGln: 0.55 ± 0.02	0.65TrpArg: 0.65 ± 0.019	0.969TrpSer: 0.969 ± 0.028	0.832TrpThr: 0.832 ± 0.026	0.841TrpVal: 0.841 ± 0.02	0.198TrpTrp: 0.198 ± 0.01	0.498TrpTyr: 0.498 ± 0.019	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.872TyrAla: 2.872 ± 0.036	0.286TyrCys: 0.286 ± 0.011	1.97TyrAsp: 1.97 ± 0.032	2.326TyrGlu: 2.326 ± 0.035	1.657TyrPhe: 1.657 ± 0.032	2.822TyrGly: 2.822 ± 0.046	0.711TyrHis: 0.711 ± 0.021	2.125TyrIle: 2.125 ± 0.032	1.815TyrLys: 1.815 ± 0.029	3.455TyrLeu: 3.455 ± 0.047	0.966TyrMet: 0.966 ± 0.022	1.596TyrAsn: 1.596 ± 0.031	1.563TyrPro: 1.563 ± 0.032	1.212TyrGln: 1.212 ± 0.025	2.061TyrArg: 2.061 ± 0.034	2.356TyrSer: 2.356 ± 0.031	1.973TyrThr: 1.973 ± 0.044	2.363TyrVal: 2.363 ± 0.034	0.542TyrTrp: 0.542 ± 0.016	1.479TyrTyr: 1.479 ± 0.03	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 6210 proteins (2103411 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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