Amino acid dipepetide frequency for Hyphomicrobium denitrificans (strain ATCC 51888 / DSM 1869 / NCIMB 11706 / TK 0415)

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	16.452AlaAla: 16.452 ± 0.183	1.029AlaCys: 1.029 ± 0.037	6.895AlaAsp: 6.895 ± 0.096	7.258AlaGlu: 7.258 ± 0.102	4.32AlaPhe: 4.32 ± 0.066	9.535AlaGly: 9.535 ± 0.112	2.245AlaHis: 2.245 ± 0.039	6.747AlaIle: 6.747 ± 0.091	5.435AlaLys: 5.435 ± 0.096	12.438AlaLeu: 12.438 ± 0.129	3.096AlaMet: 3.096 ± 0.06	3.458AlaAsn: 3.458 ± 0.048	5.667AlaPro: 5.667 ± 0.098	3.88AlaGln: 3.88 ± 0.074	8.144AlaArg: 8.144 ± 0.111	7.406AlaSer: 7.406 ± 0.088	6.397AlaThr: 6.397 ± 0.084	8.212AlaVal: 8.212 ± 0.095	1.389AlaTrp: 1.389 ± 0.038	2.543AlaTyr: 2.543 ± 0.047	0.0AlaXaa: 0.0 ± 0.0
Cys	0.95CysAla: 0.95 ± 0.032	0.122CysCys: 0.122 ± 0.01	0.516CysAsp: 0.516 ± 0.025	0.428CysGlu: 0.428 ± 0.021	0.322CysPhe: 0.322 ± 0.017	0.856CysGly: 0.856 ± 0.036	0.237CysHis: 0.237 ± 0.014	0.415CysIle: 0.415 ± 0.019	0.273CysLys: 0.273 ± 0.018	0.75CysLeu: 0.75 ± 0.028	0.155CysMet: 0.155 ± 0.011	0.243CysAsn: 0.243 ± 0.015	0.453CysPro: 0.453 ± 0.022	0.229CysGln: 0.229 ± 0.014	0.58CysArg: 0.58 ± 0.026	0.545CysSer: 0.545 ± 0.025	0.426CysThr: 0.426 ± 0.018	0.605CysVal: 0.605 ± 0.023	0.128CysTrp: 0.128 ± 0.012	0.234CysTyr: 0.234 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	7.166AspAla: 7.166 ± 0.093	0.513AspCys: 0.513 ± 0.026	3.543AspAsp: 3.543 ± 0.068	3.516AspGlu: 3.516 ± 0.06	2.053AspPhe: 2.053 ± 0.045	5.093AspGly: 5.093 ± 0.076	1.12AspHis: 1.12 ± 0.036	3.217AspIle: 3.217 ± 0.056	2.133AspLys: 2.133 ± 0.046	5.752AspLeu: 5.752 ± 0.08	1.16AspMet: 1.16 ± 0.033	1.508AspAsn: 1.508 ± 0.043	3.154AspPro: 3.154 ± 0.061	1.849AspGln: 1.849 ± 0.046	4.067AspArg: 4.067 ± 0.067	2.375AspSer: 2.375 ± 0.049	2.717AspThr: 2.717 ± 0.061	4.589AspVal: 4.589 ± 0.062	0.937AspTrp: 0.937 ± 0.032	1.492AspTyr: 1.492 ± 0.038	0.0AspXaa: 0.0 ± 0.0
Glu	7.106GluAla: 7.106 ± 0.096	0.396GluCys: 0.396 ± 0.021	2.791GluAsp: 2.791 ± 0.054	2.734GluGlu: 2.734 ± 0.059	1.93GluPhe: 1.93 ± 0.046	3.736GluGly: 3.736 ± 0.055	1.229GluHis: 1.229 ± 0.035	3.71GluIle: 3.71 ± 0.066	2.821GluLys: 2.821 ± 0.063	5.367GluLeu: 5.367 ± 0.083	1.39GluMet: 1.39 ± 0.037	1.649GluAsn: 1.649 ± 0.043	2.789GluPro: 2.789 ± 0.061	2.116GluGln: 2.116 ± 0.054	4.648GluArg: 4.648 ± 0.08	2.579GluSer: 2.579 ± 0.046	3.659GluThr: 3.659 ± 0.061	3.506GluVal: 3.506 ± 0.076	0.701GluTrp: 0.701 ± 0.026	0.947GluTyr: 0.947 ± 0.032	0.0GluXaa: 0.0 ± 0.0
Phe	4.664PheAla: 4.664 ± 0.072	0.399PheCys: 0.399 ± 0.02	2.552PheAsp: 2.552 ± 0.045	2.333PheGlu: 2.333 ± 0.048	1.398PhePhe: 1.398 ± 0.039	3.536PheGly: 3.536 ± 0.065	0.689PheHis: 0.689 ± 0.025	1.762PheIle: 1.762 ± 0.048	1.364PheLys: 1.364 ± 0.034	3.206PheLeu: 3.206 ± 0.063	0.779PheMet: 0.779 ± 0.026	1.15PheAsn: 1.15 ± 0.038	1.543PhePro: 1.543 ± 0.034	1.005PheGln: 1.005 ± 0.03	2.134PheArg: 2.134 ± 0.045	2.388PheSer: 2.388 ± 0.045	1.787PheThr: 1.787 ± 0.042	2.747PheVal: 2.747 ± 0.053	0.537PheTrp: 0.537 ± 0.023	0.916PheTyr: 0.916 ± 0.028	0.0PheXaa: 0.0 ± 0.0
Gly	8.668GlyAla: 8.668 ± 0.093	0.796GlyCys: 0.796 ± 0.03	4.448GlyAsp: 4.448 ± 0.082	4.333GlyGlu: 4.333 ± 0.063	3.37GlyPhe: 3.37 ± 0.064	6.986GlyGly: 6.986 ± 0.127	1.796GlyHis: 1.796 ± 0.042	4.467GlyIle: 4.467 ± 0.064	3.747GlyLys: 3.747 ± 0.064	7.941GlyLeu: 7.941 ± 0.081	1.892GlyMet: 1.892 ± 0.042	2.275GlyAsn: 2.275 ± 0.053	3.271GlyPro: 3.271 ± 0.064	2.578GlyGln: 2.578 ± 0.053	5.592GlyArg: 5.592 ± 0.069	4.927GlySer: 4.927 ± 0.065	4.42GlyThr: 4.42 ± 0.068	5.94GlyVal: 5.94 ± 0.087	1.24GlyTrp: 1.24 ± 0.037	2.281GlyTyr: 2.281 ± 0.044	0.0GlyXaa: 0.0 ± 0.0
His	2.235HisAla: 2.235 ± 0.047	0.214HisCys: 0.214 ± 0.015	1.144HisAsp: 1.144 ± 0.035	1.04HisGlu: 1.04 ± 0.035	0.847HisPhe: 0.847 ± 0.031	1.743HisGly: 1.743 ± 0.041	0.517HisHis: 0.517 ± 0.025	0.984HisIle: 0.984 ± 0.031	0.617HisLys: 0.617 ± 0.029	1.878HisLeu: 1.878 ± 0.049	0.478HisMet: 0.478 ± 0.02	0.511HisAsn: 0.511 ± 0.023	1.177HisPro: 1.177 ± 0.036	0.578HisGln: 0.578 ± 0.024	1.433HisArg: 1.433 ± 0.045	0.933HisSer: 0.933 ± 0.03	0.848HisThr: 0.848 ± 0.03	1.499HisVal: 1.499 ± 0.041	0.314HisTrp: 0.314 ± 0.019	0.533HisTyr: 0.533 ± 0.025	0.0HisXaa: 0.0 ± 0.0
Ile	7.853IleAla: 7.853 ± 0.093	0.536IleCys: 0.536 ± 0.022	3.87IleAsp: 3.87 ± 0.067	3.919IleGlu: 3.919 ± 0.065	1.845IlePhe: 1.845 ± 0.039	4.793IleGly: 4.793 ± 0.081	0.813IleHis: 0.813 ± 0.025	2.438IleIle: 2.438 ± 0.054	2.088IleLys: 2.088 ± 0.043	4.424IleLeu: 4.424 ± 0.067	0.952IleMet: 0.952 ± 0.03	1.591IleAsn: 1.591 ± 0.04	2.415IlePro: 2.415 ± 0.048	1.238IleGln: 1.238 ± 0.033	3.145IleArg: 3.145 ± 0.053	3.446IleSer: 3.446 ± 0.055	2.72IleThr: 2.72 ± 0.051	4.653IleVal: 4.653 ± 0.068	0.627IleTrp: 0.627 ± 0.025	1.2IleTyr: 1.2 ± 0.034	0.0IleXaa: 0.0 ± 0.0
Lys	5.065LysAla: 5.065 ± 0.083	0.259LysCys: 0.259 ± 0.018	2.299LysAsp: 2.299 ± 0.052	1.899LysGlu: 1.899 ± 0.049	1.311LysPhe: 1.311 ± 0.041	3.127LysGly: 3.127 ± 0.058	0.784LysHis: 0.784 ± 0.029	2.439LysIle: 2.439 ± 0.059	2.023LysLys: 2.023 ± 0.058	4.053LysLeu: 4.053 ± 0.072	0.895LysMet: 0.895 ± 0.026	1.193LysAsn: 1.193 ± 0.038	2.727LysPro: 2.727 ± 0.058	1.323LysGln: 1.323 ± 0.04	2.96LysArg: 2.96 ± 0.06	2.912LysSer: 2.912 ± 0.054	2.642LysThr: 2.642 ± 0.049	2.827LysVal: 2.827 ± 0.06	0.459LysTrp: 0.459 ± 0.022	0.842LysTyr: 0.842 ± 0.03	0.0LysXaa: 0.0 ± 0.0
Leu	12.658LeuAla: 12.658 ± 0.135	0.757LeuCys: 0.757 ± 0.025	5.595LeuAsp: 5.595 ± 0.088	5.06LeuGlu: 5.06 ± 0.074	3.404LeuPhe: 3.404 ± 0.065	7.465LeuGly: 7.465 ± 0.078	1.68LeuHis: 1.68 ± 0.041	5.277LeuIle: 5.277 ± 0.076	4.682LeuLys: 4.682 ± 0.071	8.704LeuLeu: 8.704 ± 0.13	2.107LeuMet: 2.107 ± 0.043	2.801LeuAsn: 2.801 ± 0.047	5.106LeuPro: 5.106 ± 0.084	2.757LeuGln: 2.757 ± 0.054	5.936LeuArg: 5.936 ± 0.084	6.451LeuSer: 6.451 ± 0.081	5.602LeuThr: 5.602 ± 0.075	6.766LeuVal: 6.766 ± 0.081	1.094LeuTrp: 1.094 ± 0.038	2.056LeuTyr: 2.056 ± 0.047	0.0LeuXaa: 0.0 ± 0.0
Met	2.698MetAla: 2.698 ± 0.053	0.164MetCys: 0.164 ± 0.013	0.95MetAsp: 0.95 ± 0.028	0.857MetGlu: 0.857 ± 0.026	0.686MetPhe: 0.686 ± 0.026	1.478MetGly: 1.478 ± 0.044	0.453MetHis: 0.453 ± 0.019	1.237MetIle: 1.237 ± 0.035	1.046MetLys: 1.046 ± 0.033	2.298MetLeu: 2.298 ± 0.05	0.589MetMet: 0.589 ± 0.027	0.688MetAsn: 0.688 ± 0.028	1.374MetPro: 1.374 ± 0.04	0.85MetGln: 0.85 ± 0.031	1.781MetArg: 1.781 ± 0.039	1.742MetSer: 1.742 ± 0.043	1.822MetThr: 1.822 ± 0.044	1.333MetVal: 1.333 ± 0.036	0.215MetTrp: 0.215 ± 0.015	0.322MetTyr: 0.322 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	3.657AsnAla: 3.657 ± 0.056	0.289AsnCys: 0.289 ± 0.016	1.651AsnAsp: 1.651 ± 0.035	1.451AsnGlu: 1.451 ± 0.032	1.062AsnPhe: 1.062 ± 0.029	2.694AsnGly: 2.694 ± 0.054	0.478AsnHis: 0.478 ± 0.026	1.571AsnIle: 1.571 ± 0.043	0.965AsnLys: 0.965 ± 0.03	2.691AsnLeu: 2.691 ± 0.053	0.57AsnMet: 0.57 ± 0.025	0.841AsnAsn: 0.841 ± 0.035	1.858AsnPro: 1.858 ± 0.041	0.815AsnGln: 0.815 ± 0.032	1.805AsnArg: 1.805 ± 0.039	1.605AsnSer: 1.605 ± 0.047	1.378AsnThr: 1.378 ± 0.041	2.338AsnVal: 2.338 ± 0.053	0.512AsnTrp: 0.512 ± 0.025	0.73AsnTyr: 0.73 ± 0.025	0.0AsnXaa: 0.0 ± 0.0
Pro	5.973ProAla: 5.973 ± 0.094	0.326ProCys: 0.326 ± 0.019	3.459ProAsp: 3.459 ± 0.06	3.646ProGlu: 3.646 ± 0.064	1.9ProPhe: 1.9 ± 0.041	4.208ProGly: 4.208 ± 0.069	1.029ProHis: 1.029 ± 0.035	2.532ProIle: 2.532 ± 0.057	2.253ProLys: 2.253 ± 0.054	4.383ProLeu: 4.383 ± 0.067	1.15ProMet: 1.15 ± 0.033	1.565ProAsn: 1.565 ± 0.038	2.855ProPro: 2.855 ± 0.075	1.706ProGln: 1.706 ± 0.052	2.874ProArg: 2.874 ± 0.056	3.241ProSer: 3.241 ± 0.063	2.481ProThr: 2.481 ± 0.047	3.925ProVal: 3.925 ± 0.066	0.649ProTrp: 0.649 ± 0.027	1.193ProTyr: 1.193 ± 0.038	0.0ProXaa: 0.0 ± 0.0
Gln	3.703GlnAla: 3.703 ± 0.066	0.195GlnCys: 0.195 ± 0.012	1.466GlnAsp: 1.466 ± 0.04	1.363GlnGlu: 1.363 ± 0.037	1.133GlnPhe: 1.133 ± 0.034	2.152GlnGly: 2.152 ± 0.044	0.687GlnHis: 0.687 ± 0.026	1.901GlnIle: 1.901 ± 0.053	1.368GlnLys: 1.368 ± 0.034	2.828GlnLeu: 2.828 ± 0.055	0.809GlnMet: 0.809 ± 0.027	1.004GlnAsn: 1.004 ± 0.039	1.791GlnPro: 1.791 ± 0.045	1.286GlnGln: 1.286 ± 0.044	2.537GlnArg: 2.537 ± 0.049	2.172GlnSer: 2.172 ± 0.043	1.834GlnThr: 1.834 ± 0.04	1.982GlnVal: 1.982 ± 0.048	0.417GlnTrp: 0.417 ± 0.019	0.653GlnTyr: 0.653 ± 0.027	0.0GlnXaa: 0.0 ± 0.0
Arg	7.453ArgAla: 7.453 ± 0.098	0.502ArgCys: 0.502 ± 0.021	4.134ArgAsp: 4.134 ± 0.063	3.92ArgGlu: 3.92 ± 0.07	2.713ArgPhe: 2.713 ± 0.056	4.588ArgGly: 4.588 ± 0.07	1.486ArgHis: 1.486 ± 0.042	4.055ArgIle: 4.055 ± 0.056	2.642ArgLys: 2.642 ± 0.053	7.143ArgLeu: 7.143 ± 0.084	1.675ArgMet: 1.675 ± 0.048	2.091ArgAsn: 2.091 ± 0.044	3.228ArgPro: 3.228 ± 0.068	2.345ArgGln: 2.345 ± 0.045	5.356ArgArg: 5.356 ± 0.082	3.927ArgSer: 3.927 ± 0.06	3.336ArgThr: 3.336 ± 0.059	4.687ArgVal: 4.687 ± 0.069	0.896ArgTrp: 0.896 ± 0.028	1.758ArgTyr: 1.758 ± 0.043	0.0ArgXaa: 0.0 ± 0.0
Ser	7.237SerAla: 7.237 ± 0.097	0.477SerCys: 0.477 ± 0.023	3.622SerAsp: 3.622 ± 0.064	3.504SerGlu: 3.504 ± 0.061	2.292SerPhe: 2.292 ± 0.05	5.892SerGly: 5.892 ± 0.078	1.138SerHis: 1.138 ± 0.03	3.178SerIle: 3.178 ± 0.055	2.397SerLys: 2.397 ± 0.048	5.613SerLeu: 5.613 ± 0.075	1.329SerMet: 1.329 ± 0.034	1.858SerAsn: 1.858 ± 0.047	3.062SerPro: 3.062 ± 0.058	1.843SerGln: 1.843 ± 0.042	3.917SerArg: 3.917 ± 0.064	3.759SerSer: 3.759 ± 0.065	3.041SerThr: 3.041 ± 0.054	4.258SerVal: 4.258 ± 0.068	0.808SerTrp: 0.808 ± 0.032	1.404SerTyr: 1.404 ± 0.032	0.0SerXaa: 0.0 ± 0.0
Thr	6.296ThrAla: 6.296 ± 0.085	0.502ThrCys: 0.502 ± 0.022	2.838ThrAsp: 2.838 ± 0.059	2.628ThrGlu: 2.628 ± 0.056	2.164ThrPhe: 2.164 ± 0.046	4.919ThrGly: 4.919 ± 0.079	1.032ThrHis: 1.032 ± 0.034	3.08ThrIle: 3.08 ± 0.058	1.905ThrLys: 1.905 ± 0.047	5.696ThrLeu: 5.696 ± 0.07	1.139ThrMet: 1.139 ± 0.031	1.467ThrAsn: 1.467 ± 0.04	3.407ThrPro: 3.407 ± 0.067	1.525ThrGln: 1.525 ± 0.038	3.261ThrArg: 3.261 ± 0.051	3.464ThrSer: 3.464 ± 0.068	2.989ThrThr: 2.989 ± 0.056	4.139ThrVal: 4.139 ± 0.064	0.684ThrTrp: 0.684 ± 0.032	1.26ThrTyr: 1.26 ± 0.039	0.0ThrXaa: 0.0 ± 0.0
Val	9.071ValAla: 9.071 ± 0.115	0.612ValCys: 0.612 ± 0.021	4.052ValAsp: 4.052 ± 0.066	4.149ValGlu: 4.149 ± 0.067	2.665ValPhe: 2.665 ± 0.054	5.21ValGly: 5.21 ± 0.084	1.351ValHis: 1.351 ± 0.034	3.913ValIle: 3.913 ± 0.057	2.924ValLys: 2.924 ± 0.058	7.047ValLeu: 7.047 ± 0.092	1.622ValMet: 1.622 ± 0.04	1.986ValAsn: 1.986 ± 0.047	3.724ValPro: 3.724 ± 0.065	2.034ValGln: 2.034 ± 0.041	4.843ValArg: 4.843 ± 0.072	4.558ValSer: 4.558 ± 0.064	4.414ValThr: 4.414 ± 0.068	5.655ValVal: 5.655 ± 0.094	0.87ValTrp: 0.87 ± 0.028	1.514ValTyr: 1.514 ± 0.037	0.0ValXaa: 0.0 ± 0.0
Trp	1.195TrpAla: 1.195 ± 0.038	0.122TrpCys: 0.122 ± 0.011	0.643TrpAsp: 0.643 ± 0.027	0.517TrpGlu: 0.517 ± 0.022	0.493TrpPhe: 0.493 ± 0.022	0.887TrpGly: 0.887 ± 0.033	0.312TrpHis: 0.312 ± 0.018	0.692TrpIle: 0.692 ± 0.027	0.546TrpLys: 0.546 ± 0.026	1.533TrpLeu: 1.533 ± 0.037	0.343TrpMet: 0.343 ± 0.018	0.443TrpAsn: 0.443 ± 0.023	0.673TrpPro: 0.673 ± 0.028	0.59TrpGln: 0.59 ± 0.025	1.131TrpArg: 1.131 ± 0.035	0.894TrpSer: 0.894 ± 0.028	0.803TrpThr: 0.803 ± 0.03	0.752TrpVal: 0.752 ± 0.029	0.224TrpTrp: 0.224 ± 0.014	0.308TrpTyr: 0.308 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.445TyrAla: 2.445 ± 0.05	0.26TyrCys: 0.26 ± 0.015	1.485TyrAsp: 1.485 ± 0.04	1.251TyrGlu: 1.251 ± 0.038	0.981TyrPhe: 0.981 ± 0.032	2.074TyrGly: 2.074 ± 0.047	0.448TyrHis: 0.448 ± 0.021	0.952TyrIle: 0.952 ± 0.03	0.809TyrLys: 0.809 ± 0.03	2.213TyrLeu: 2.213 ± 0.051	0.451TyrMet: 0.451 ± 0.021	0.64TyrAsn: 0.64 ± 0.023	1.073TyrPro: 1.073 ± 0.036	0.731TyrGln: 0.731 ± 0.03	1.788TyrArg: 1.788 ± 0.043	1.305TyrSer: 1.305 ± 0.037	1.078TyrThr: 1.078 ± 0.033	1.802TyrVal: 1.802 ± 0.044	0.401TyrTrp: 0.401 ± 0.02	0.658TyrTyr: 0.658 ± 0.028	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 3452 proteins (1051318 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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