Amino acid dipepetide frequency for Pseudomonas benzenivorans

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	15.114AlaAla: 15.114 ± 0.145	1.355AlaCys: 1.355 ± 0.032	6.063AlaAsp: 6.063 ± 0.058	8.365AlaGlu: 8.365 ± 0.087	3.972AlaPhe: 3.972 ± 0.061	10.061AlaGly: 10.061 ± 0.101	2.296AlaHis: 2.296 ± 0.041	5.328AlaIle: 5.328 ± 0.072	3.559AlaLys: 3.559 ± 0.062	15.347AlaLeu: 15.347 ± 0.144	2.87AlaMet: 2.87 ± 0.046	2.795AlaAsn: 2.795 ± 0.048	5.11AlaPro: 5.11 ± 0.066	5.669AlaGln: 5.669 ± 0.064	7.997AlaArg: 7.997 ± 0.085	6.449AlaSer: 6.449 ± 0.072	4.76AlaThr: 4.76 ± 0.059	7.622AlaVal: 7.622 ± 0.075	1.801AlaTrp: 1.801 ± 0.035	2.629AlaTyr: 2.629 ± 0.035	0.0AlaXaa: 0.0 ± 0.0
Cys	1.266CysAla: 1.266 ± 0.029	0.155CysCys: 0.155 ± 0.01	0.533CysAsp: 0.533 ± 0.018	0.558CysGlu: 0.558 ± 0.019	0.343CysPhe: 0.343 ± 0.012	1.047CysGly: 1.047 ± 0.023	0.302CysHis: 0.302 ± 0.014	0.45CysIle: 0.45 ± 0.016	0.27CysLys: 0.27 ± 0.013	1.235CysLeu: 1.235 ± 0.03	0.202CysMet: 0.202 ± 0.011	0.265CysAsn: 0.265 ± 0.013	0.562CysPro: 0.562 ± 0.018	0.421CysGln: 0.421 ± 0.017	0.731CysArg: 0.731 ± 0.022	0.63CysSer: 0.63 ± 0.02	0.468CysThr: 0.468 ± 0.018	0.702CysVal: 0.702 ± 0.021	0.152CysTrp: 0.152 ± 0.01	0.264CysTyr: 0.264 ± 0.013	0.0CysXaa: 0.0 ± 0.0
Asp	5.846AspAla: 5.846 ± 0.061	0.613AspCys: 0.613 ± 0.023	2.677AspAsp: 2.677 ± 0.048	3.489AspGlu: 3.489 ± 0.046	2.092AspPhe: 2.092 ± 0.038	4.585AspGly: 4.585 ± 0.058	1.032AspHis: 1.032 ± 0.026	2.38AspIle: 2.38 ± 0.035	1.762AspLys: 1.762 ± 0.037	5.883AspLeu: 5.883 ± 0.064	1.049AspMet: 1.049 ± 0.027	1.453AspAsn: 1.453 ± 0.037	2.742AspPro: 2.742 ± 0.042	2.007AspGln: 2.007 ± 0.037	2.947AspArg: 2.947 ± 0.039	3.044AspSer: 3.044 ± 0.044	1.992AspThr: 1.992 ± 0.033	3.036AspVal: 3.036 ± 0.052	1.074AspTrp: 1.074 ± 0.025	1.735AspTyr: 1.735 ± 0.036	0.0AspXaa: 0.0 ± 0.0
Glu	7.003GluAla: 7.003 ± 0.066	0.462GluCys: 0.462 ± 0.017	2.537GluAsp: 2.537 ± 0.041	3.213GluGlu: 3.213 ± 0.044	1.871GluPhe: 1.871 ± 0.046	3.934GluGly: 3.934 ± 0.053	1.654GluHis: 1.654 ± 0.033	2.719GluIle: 2.719 ± 0.046	1.933GluLys: 1.933 ± 0.038	7.936GluLeu: 7.936 ± 0.078	1.302GluMet: 1.302 ± 0.031	1.307GluAsn: 1.307 ± 0.03	2.633GluPro: 2.633 ± 0.042	4.088GluGln: 4.088 ± 0.063	5.395GluArg: 5.395 ± 0.073	2.602GluSer: 2.602 ± 0.044	2.373GluThr: 2.373 ± 0.039	4.446GluVal: 4.446 ± 0.052	0.729GluTrp: 0.729 ± 0.025	1.137GluTyr: 1.137 ± 0.028	0.0GluXaa: 0.0 ± 0.0
Phe	4.565PheAla: 4.565 ± 0.063	0.466PheCys: 0.466 ± 0.015	2.405PheAsp: 2.405 ± 0.041	2.061PheGlu: 2.061 ± 0.034	1.398PhePhe: 1.398 ± 0.034	3.227PheGly: 3.227 ± 0.052	0.739PheHis: 0.739 ± 0.022	1.71PheIle: 1.71 ± 0.039	1.134PheLys: 1.134 ± 0.031	3.291PheLeu: 3.291 ± 0.052	0.758PheMet: 0.758 ± 0.022	1.226PheAsn: 1.226 ± 0.027	1.438PhePro: 1.438 ± 0.029	1.223PheGln: 1.223 ± 0.028	1.955PheArg: 1.955 ± 0.036	2.44PheSer: 2.44 ± 0.042	1.642PheThr: 1.642 ± 0.03	2.513PheVal: 2.513 ± 0.042	0.55PheTrp: 0.55 ± 0.024	1.029PheTyr: 1.029 ± 0.024	0.0PheXaa: 0.0 ± 0.0
Gly	8.163GlyAla: 8.163 ± 0.086	1.017GlyCys: 1.017 ± 0.029	3.926GlyAsp: 3.926 ± 0.054	5.304GlyGlu: 5.304 ± 0.059	3.302GlyPhe: 3.302 ± 0.045	6.412GlyGly: 6.412 ± 0.101	1.901GlyHis: 1.901 ± 0.034	4.02GlyIle: 4.02 ± 0.051	3.121GlyLys: 3.121 ± 0.054	9.985GlyLeu: 9.985 ± 0.095	2.173GlyMet: 2.173 ± 0.041	2.232GlyAsn: 2.232 ± 0.045	2.682GlyPro: 2.682 ± 0.041	3.858GlyGln: 3.858 ± 0.052	5.335GlyArg: 5.335 ± 0.07	4.746GlySer: 4.746 ± 0.071	3.45GlyThr: 3.45 ± 0.062	5.9GlyVal: 5.9 ± 0.071	1.353GlyTrp: 1.353 ± 0.033	2.485GlyTyr: 2.485 ± 0.04	0.0GlyXaa: 0.0 ± 0.0
His	2.425HisAla: 2.425 ± 0.036	0.381HisCys: 0.381 ± 0.013	1.148HisAsp: 1.148 ± 0.025	1.222HisGlu: 1.222 ± 0.032	1.001HisPhe: 1.001 ± 0.024	2.051HisGly: 2.051 ± 0.037	0.584HisHis: 0.584 ± 0.02	0.965HisIle: 0.965 ± 0.026	0.634HisLys: 0.634 ± 0.021	2.677HisLeu: 2.677 ± 0.039	0.459HisMet: 0.459 ± 0.017	0.636HisAsn: 0.636 ± 0.019	1.413HisPro: 1.413 ± 0.032	0.932HisGln: 0.932 ± 0.026	1.405HisArg: 1.405 ± 0.031	1.271HisSer: 1.271 ± 0.028	0.862HisThr: 0.862 ± 0.024	1.24HisVal: 1.24 ± 0.028	0.46HisTrp: 0.46 ± 0.019	0.74HisTyr: 0.74 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	5.849IleAla: 5.849 ± 0.069	0.486IleCys: 0.486 ± 0.017	3.042IleAsp: 3.042 ± 0.048	3.289IleGlu: 3.289 ± 0.044	1.313IlePhe: 1.313 ± 0.034	4.447IleGly: 4.447 ± 0.055	0.937IleHis: 0.937 ± 0.023	1.738IleIle: 1.738 ± 0.036	1.505IleLys: 1.505 ± 0.038	4.101IleLeu: 4.101 ± 0.056	0.763IleMet: 0.763 ± 0.021	1.46IleAsn: 1.46 ± 0.032	2.211IlePro: 2.211 ± 0.04	1.583IleGln: 1.583 ± 0.034	2.885IleArg: 2.885 ± 0.045	2.6IleSer: 2.6 ± 0.045	2.102IleThr: 2.102 ± 0.04	3.009IleVal: 3.009 ± 0.046	0.471IleTrp: 0.471 ± 0.017	1.065IleTyr: 1.065 ± 0.026	0.0IleXaa: 0.0 ± 0.0
Lys	3.745LysAla: 3.745 ± 0.056	0.188LysCys: 0.188 ± 0.011	1.537LysAsp: 1.537 ± 0.03	1.48LysGlu: 1.48 ± 0.033	0.82LysPhe: 0.82 ± 0.021	2.335LysGly: 2.335 ± 0.046	0.676LysHis: 0.676 ± 0.022	1.401LysIle: 1.401 ± 0.033	1.116LysLys: 1.116 ± 0.034	3.64LysLeu: 3.64 ± 0.047	0.631LysMet: 0.631 ± 0.02	0.839LysAsn: 0.839 ± 0.026	1.894LysPro: 1.894 ± 0.038	1.537LysGln: 1.537 ± 0.035	2.31LysArg: 2.31 ± 0.043	1.611LysSer: 1.611 ± 0.034	1.59LysThr: 1.59 ± 0.032	2.445LysVal: 2.445 ± 0.046	0.326LysTrp: 0.326 ± 0.015	0.65LysTyr: 0.65 ± 0.022	0.0LysXaa: 0.0 ± 0.0
Leu	16.658LeuAla: 16.658 ± 0.147	1.367LeuCys: 1.367 ± 0.029	6.973LeuAsp: 6.973 ± 0.083	6.918LeuGlu: 6.918 ± 0.082	4.435LeuPhe: 4.435 ± 0.071	10.179LeuGly: 10.179 ± 0.095	2.658LeuHis: 2.658 ± 0.044	5.489LeuIle: 5.489 ± 0.069	4.083LeuLys: 4.083 ± 0.053	15.916LeuLeu: 15.916 ± 0.181	2.365LeuMet: 2.365 ± 0.039	3.385LeuAsn: 3.385 ± 0.048	6.759LeuPro: 6.759 ± 0.07	5.31LeuGln: 5.31 ± 0.075	8.252LeuArg: 8.252 ± 0.081	7.269LeuSer: 7.269 ± 0.089	5.173LeuThr: 5.173 ± 0.062	7.981LeuVal: 7.981 ± 0.072	1.535LeuTrp: 1.535 ± 0.035	2.694LeuTyr: 2.694 ± 0.038	0.0LeuXaa: 0.0 ± 0.0
Met	2.528MetAla: 2.528 ± 0.044	0.152MetCys: 0.152 ± 0.01	0.94MetAsp: 0.94 ± 0.027	0.877MetGlu: 0.877 ± 0.025	0.604MetPhe: 0.604 ± 0.02	1.57MetGly: 1.57 ± 0.034	0.511MetHis: 0.511 ± 0.017	0.984MetIle: 0.984 ± 0.025	0.756MetLys: 0.756 ± 0.021	2.634MetLeu: 2.634 ± 0.044	0.416MetMet: 0.416 ± 0.02	0.799MetAsn: 0.799 ± 0.023	1.347MetPro: 1.347 ± 0.028	1.016MetGln: 1.016 ± 0.026	1.487MetArg: 1.487 ± 0.026	1.584MetSer: 1.584 ± 0.032	1.237MetThr: 1.237 ± 0.033	1.361MetVal: 1.361 ± 0.033	0.167MetTrp: 0.167 ± 0.01	0.316MetTyr: 0.316 ± 0.012	0.0MetXaa: 0.0 ± 0.0
Asn	2.924AsnAla: 2.924 ± 0.049	0.313AsnCys: 0.313 ± 0.015	1.3AsnAsp: 1.3 ± 0.028	1.265AsnGlu: 1.265 ± 0.031	0.955AsnPhe: 0.955 ± 0.027	2.283AsnGly: 2.283 ± 0.044	0.547AsnHis: 0.547 ± 0.018	1.267AsnIle: 1.267 ± 0.029	0.787AsnLys: 0.787 ± 0.024	3.303AsnLeu: 3.303 ± 0.046	0.507AsnMet: 0.507 ± 0.019	0.768AsnAsn: 0.768 ± 0.023	1.935AsnPro: 1.935 ± 0.037	1.262AsnGln: 1.262 ± 0.032	1.843AsnArg: 1.843 ± 0.038	1.36AsnSer: 1.36 ± 0.031	1.196AsnThr: 1.196 ± 0.027	1.665AsnVal: 1.665 ± 0.037	0.408AsnTrp: 0.408 ± 0.016	0.722AsnTyr: 0.722 ± 0.022	0.0AsnXaa: 0.0 ± 0.0
Pro	6.404ProAla: 6.404 ± 0.08	0.395ProCys: 0.395 ± 0.016	2.589ProAsp: 2.589 ± 0.042	3.237ProGlu: 3.237 ± 0.041	1.786ProPhe: 1.786 ± 0.034	4.214ProGly: 4.214 ± 0.058	1.098ProHis: 1.098 ± 0.027	1.916ProIle: 1.916 ± 0.034	1.388ProLys: 1.388 ± 0.03	6.384ProLeu: 6.384 ± 0.07	1.055ProMet: 1.055 ± 0.026	1.237ProAsn: 1.237 ± 0.027	2.168ProPro: 2.168 ± 0.045	2.422ProGln: 2.422 ± 0.035	2.868ProArg: 2.868 ± 0.051	2.659ProSer: 2.659 ± 0.043	2.062ProThr: 2.062 ± 0.031	3.498ProVal: 3.498 ± 0.047	0.803ProTrp: 0.803 ± 0.023	1.232ProTyr: 1.232 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	6.705GlnAla: 6.705 ± 0.083	0.356GlnCys: 0.356 ± 0.017	1.941GlnAsp: 1.941 ± 0.035	2.086GlnGlu: 2.086 ± 0.037	1.399GlnPhe: 1.399 ± 0.031	3.644GlnGly: 3.644 ± 0.049	1.206GlnHis: 1.206 ± 0.031	1.965GlnIle: 1.965 ± 0.033	1.105GlnLys: 1.105 ± 0.025	6.152GlnLeu: 6.152 ± 0.087	0.959GlnMet: 0.959 ± 0.028	0.947GlnAsn: 0.947 ± 0.026	2.67GlnPro: 2.67 ± 0.043	2.987GlnGln: 2.987 ± 0.056	4.244GlnArg: 4.244 ± 0.058	2.184GlnSer: 2.184 ± 0.036	1.764GlnThr: 1.764 ± 0.034	3.567GlnVal: 3.567 ± 0.045	0.647GlnTrp: 0.647 ± 0.021	0.923GlnTyr: 0.923 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	6.967ArgAla: 6.967 ± 0.072	0.656ArgCys: 0.656 ± 0.023	3.526ArgAsp: 3.526 ± 0.048	4.521ArgGlu: 4.521 ± 0.062	2.892ArgPhe: 2.892 ± 0.043	4.466ArgGly: 4.466 ± 0.06	1.81ArgHis: 1.81 ± 0.035	3.36ArgIle: 3.36 ± 0.047	1.946ArgLys: 1.946 ± 0.033	9.609ArgLeu: 9.609 ± 0.097	1.582ArgMet: 1.582 ± 0.032	1.762ArgAsn: 1.762 ± 0.038	3.008ArgPro: 3.008 ± 0.045	3.829ArgGln: 3.829 ± 0.056	5.088ArgArg: 5.088 ± 0.066	3.591ArgSer: 3.591 ± 0.046	2.478ArgThr: 2.478 ± 0.038	4.728ArgVal: 4.728 ± 0.056	1.086ArgTrp: 1.086 ± 0.033	2.135ArgTyr: 2.135 ± 0.039	0.0ArgXaa: 0.0 ± 0.0
Ser	6.398SerAla: 6.398 ± 0.07	0.547SerCys: 0.547 ± 0.019	2.658SerAsp: 2.658 ± 0.043	3.087SerGlu: 3.087 ± 0.046	2.089SerPhe: 2.089 ± 0.037	5.208SerGly: 5.208 ± 0.079	1.286SerHis: 1.286 ± 0.031	2.502SerIle: 2.502 ± 0.043	1.565SerLys: 1.565 ± 0.032	7.368SerLeu: 7.368 ± 0.079	1.244SerMet: 1.244 ± 0.031	1.589SerAsn: 1.589 ± 0.041	2.629SerPro: 2.629 ± 0.042	2.4SerGln: 2.4 ± 0.039	3.599SerArg: 3.599 ± 0.045	3.304SerSer: 3.304 ± 0.056	2.446SerThr: 2.446 ± 0.043	3.585SerVal: 3.585 ± 0.053	0.816SerTrp: 0.816 ± 0.025	1.431SerTyr: 1.431 ± 0.033	0.0SerXaa: 0.0 ± 0.0
Thr	4.819ThrAla: 4.819 ± 0.064	0.446ThrCys: 0.446 ± 0.017	1.953ThrAsp: 1.953 ± 0.036	2.107ThrGlu: 2.107 ± 0.036	1.563ThrPhe: 1.563 ± 0.034	3.668ThrGly: 3.668 ± 0.065	0.929ThrHis: 0.929 ± 0.023	1.714ThrIle: 1.714 ± 0.041	0.904ThrLys: 0.904 ± 0.029	6.098ThrLeu: 6.098 ± 0.078	0.672ThrMet: 0.672 ± 0.02	0.97ThrAsn: 0.97 ± 0.026	2.916ThrPro: 2.916 ± 0.045	1.753ThrGln: 1.753 ± 0.029	2.861ThrArg: 2.861 ± 0.044	2.308ThrSer: 2.308 ± 0.041	2.071ThrThr: 2.071 ± 0.05	2.953ThrVal: 2.953 ± 0.054	0.607ThrTrp: 0.607 ± 0.02	1.081ThrTyr: 1.081 ± 0.027	0.0ThrXaa: 0.0 ± 0.0
Val	7.91ValAla: 7.91 ± 0.069	0.731ValCys: 0.731 ± 0.025	3.777ValAsp: 3.777 ± 0.053	4.517ValGlu: 4.517 ± 0.051	2.429ValPhe: 2.429 ± 0.035	5.092ValGly: 5.092 ± 0.068	1.365ValHis: 1.365 ± 0.03	3.41ValIle: 3.41 ± 0.053	2.149ValLys: 2.149 ± 0.042	8.207ValLeu: 8.207 ± 0.078	1.534ValMet: 1.534 ± 0.035	1.898ValAsn: 1.898 ± 0.035	3.229ValPro: 3.229 ± 0.047	2.706ValGln: 2.706 ± 0.042	4.418ValArg: 4.418 ± 0.057	3.841ValSer: 3.841 ± 0.052	3.128ValThr: 3.128 ± 0.06	4.962ValVal: 4.962 ± 0.066	0.798ValTrp: 0.798 ± 0.025	1.529ValTyr: 1.529 ± 0.033	0.0ValXaa: 0.0 ± 0.0
Trp	1.248TrpAla: 1.248 ± 0.029	0.166TrpCys: 0.166 ± 0.01	0.611TrpAsp: 0.611 ± 0.02	0.564TrpGlu: 0.564 ± 0.018	0.511TrpPhe: 0.511 ± 0.018	0.892TrpGly: 0.892 ± 0.025	0.393TrpHis: 0.393 ± 0.014	0.635TrpIle: 0.635 ± 0.024	0.398TrpLys: 0.398 ± 0.016	2.456TrpLeu: 2.456 ± 0.054	0.339TrpMet: 0.339 ± 0.015	0.407TrpAsn: 0.407 ± 0.016	0.737TrpPro: 0.737 ± 0.022	1.056TrpGln: 1.056 ± 0.028	1.207TrpArg: 1.207 ± 0.031	0.765TrpSer: 0.765 ± 0.021	0.565TrpThr: 0.565 ± 0.02	0.883TrpVal: 0.883 ± 0.023	0.247TrpTrp: 0.247 ± 0.013	0.363TrpTyr: 0.363 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.625TyrAla: 2.625 ± 0.037	0.302TyrCys: 0.302 ± 0.014	1.301TyrAsp: 1.301 ± 0.036	1.113TyrGlu: 1.113 ± 0.03	0.997TyrPhe: 0.997 ± 0.022	2.052TyrGly: 2.052 ± 0.037	0.584TyrHis: 0.584 ± 0.023	0.903TyrIle: 0.903 ± 0.023	0.658TyrLys: 0.658 ± 0.022	3.177TyrLeu: 3.177 ± 0.046	0.406TyrMet: 0.406 ± 0.017	0.635TyrAsn: 0.635 ± 0.021	1.332TyrPro: 1.332 ± 0.031	1.394TyrGln: 1.394 ± 0.029	2.212TyrArg: 2.212 ± 0.035	1.489TyrSer: 1.489 ± 0.033	1.034TyrThr: 1.034 ± 0.027	1.536TyrVal: 1.536 ± 0.03	0.412TyrTrp: 0.412 ± 0.018	0.722TyrTyr: 0.722 ± 0.022	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 5186 proteins (1669955 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

---