Amino acid dipepetide frequency for Alphaproteobacteria bacterium PA4

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	25.324AlaAla: 25.324 ± 0.306	1.048AlaCys: 1.048 ± 0.041	8.757AlaAsp: 8.757 ± 0.104	7.632AlaGlu: 7.632 ± 0.123	4.265AlaPhe: 4.265 ± 0.075	13.965AlaGly: 13.965 ± 0.197	2.501AlaHis: 2.501 ± 0.056	7.034AlaIle: 7.034 ± 0.088	3.802AlaLys: 3.802 ± 0.078	16.398AlaLeu: 16.398 ± 0.19	4.196AlaMet: 4.196 ± 0.081	3.319AlaAsn: 3.319 ± 0.089	7.495AlaPro: 7.495 ± 0.106	4.238AlaGln: 4.238 ± 0.064	11.164AlaArg: 11.164 ± 0.166	6.595AlaSer: 6.595 ± 0.109	7.724AlaThr: 7.724 ± 0.096	9.885AlaVal: 9.885 ± 0.124	1.821AlaTrp: 1.821 ± 0.049	2.607AlaTyr: 2.607 ± 0.063	0.0AlaXaa: 0.0 ± 0.0
Cys	0.947CysAla: 0.947 ± 0.034	0.078CysCys: 0.078 ± 0.009	0.473CysAsp: 0.473 ± 0.025	0.309CysGlu: 0.309 ± 0.02	0.261CysPhe: 0.261 ± 0.016	0.805CysGly: 0.805 ± 0.03	0.246CysHis: 0.246 ± 0.025	0.316CysIle: 0.316 ± 0.018	0.119CysLys: 0.119 ± 0.012	0.65CysLeu: 0.65 ± 0.027	0.107CysMet: 0.107 ± 0.013	0.217CysAsn: 0.217 ± 0.015	0.414CysPro: 0.414 ± 0.024	0.215CysGln: 0.215 ± 0.015	0.506CysArg: 0.506 ± 0.021	0.362CysSer: 0.362 ± 0.021	0.368CysThr: 0.368 ± 0.021	0.489CysVal: 0.489 ± 0.026	0.101CysTrp: 0.101 ± 0.01	0.15CysTyr: 0.15 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	8.677AspAla: 8.677 ± 0.104	0.47AspCys: 0.47 ± 0.025	3.212AspAsp: 3.212 ± 0.067	2.445AspGlu: 2.445 ± 0.065	2.263AspPhe: 2.263 ± 0.051	5.754AspGly: 5.754 ± 0.092	1.138AspHis: 1.138 ± 0.037	2.85AspIle: 2.85 ± 0.063	1.499AspLys: 1.499 ± 0.042	5.468AspLeu: 5.468 ± 0.095	1.31AspMet: 1.31 ± 0.038	1.362AspAsn: 1.362 ± 0.043	3.519AspPro: 3.519 ± 0.069	1.525AspGln: 1.525 ± 0.039	4.674AspArg: 4.674 ± 0.073	2.516AspSer: 2.516 ± 0.055	2.896AspThr: 2.896 ± 0.055	4.15AspVal: 4.15 ± 0.083	1.236AspTrp: 1.236 ± 0.043	1.591AspTyr: 1.591 ± 0.05	0.0AspXaa: 0.0 ± 0.0
Glu	7.111GluAla: 7.111 ± 0.112	0.207GluCys: 0.207 ± 0.014	2.015GluAsp: 2.015 ± 0.053	1.732GluGlu: 1.732 ± 0.048	1.356GluPhe: 1.356 ± 0.042	3.393GluGly: 3.393 ± 0.072	0.825GluHis: 0.825 ± 0.031	2.467GluIle: 2.467 ± 0.053	1.414GluLys: 1.414 ± 0.047	4.206GluLeu: 4.206 ± 0.076	1.118GluMet: 1.118 ± 0.04	1.077GluAsn: 1.077 ± 0.034	2.139GluPro: 2.139 ± 0.052	1.573GluGln: 1.573 ± 0.046	3.906GluArg: 3.906 ± 0.078	1.867GluSer: 1.867 ± 0.043	2.88GluThr: 2.88 ± 0.056	3.034GluVal: 3.034 ± 0.059	0.618GluTrp: 0.618 ± 0.027	0.788GluTyr: 0.788 ± 0.031	0.0GluXaa: 0.0 ± 0.0
Phe	5.05PheAla: 5.05 ± 0.072	0.294PheCys: 0.294 ± 0.016	2.742PheAsp: 2.742 ± 0.055	1.675PheGlu: 1.675 ± 0.041	1.142PhePhe: 1.142 ± 0.038	3.744PheGly: 3.744 ± 0.078	0.664PheHis: 0.664 ± 0.029	1.535PheIle: 1.535 ± 0.041	0.847PheLys: 0.847 ± 0.034	2.834PheLeu: 2.834 ± 0.058	0.657PheMet: 0.657 ± 0.026	1.071PheAsn: 1.071 ± 0.039	1.465PhePro: 1.465 ± 0.04	0.919PheGln: 0.919 ± 0.032	2.165PheArg: 2.165 ± 0.044	1.801PheSer: 1.801 ± 0.05	2.104PheThr: 2.104 ± 0.052	2.449PheVal: 2.449 ± 0.052	0.496PheTrp: 0.496 ± 0.023	0.883PheTyr: 0.883 ± 0.035	0.0PheXaa: 0.0 ± 0.0
Gly	10.729GlyAla: 10.729 ± 0.137	0.791GlyCys: 0.791 ± 0.03	5.304GlyAsp: 5.304 ± 0.114	4.144GlyGlu: 4.144 ± 0.08	3.939GlyPhe: 3.939 ± 0.068	8.736GlyGly: 8.736 ± 0.189	1.962GlyHis: 1.962 ± 0.047	4.522GlyIle: 4.522 ± 0.078	3.104GlyLys: 3.104 ± 0.069	9.743GlyLeu: 9.743 ± 0.114	2.252GlyMet: 2.252 ± 0.051	2.635GlyAsn: 2.635 ± 0.102	4.082GlyPro: 4.082 ± 0.072	3.259GlyGln: 3.259 ± 0.06	6.587GlyArg: 6.587 ± 0.117	5.007GlySer: 5.007 ± 0.115	5.087GlyThr: 5.087 ± 0.23	6.739GlyVal: 6.739 ± 0.094	1.737GlyTrp: 1.737 ± 0.049	2.27GlyTyr: 2.27 ± 0.053	0.0GlyXaa: 0.0 ± 0.0
His	2.582HisAla: 2.582 ± 0.065	0.216HisCys: 0.216 ± 0.016	1.204HisAsp: 1.204 ± 0.039	0.809HisGlu: 0.809 ± 0.034	0.791HisPhe: 0.791 ± 0.031	1.99HisGly: 1.99 ± 0.053	0.499HisHis: 0.499 ± 0.027	0.942HisIle: 0.942 ± 0.035	0.402HisLys: 0.402 ± 0.02	1.69HisLeu: 1.69 ± 0.045	0.425HisMet: 0.425 ± 0.02	0.448HisAsn: 0.448 ± 0.023	1.273HisPro: 1.273 ± 0.04	0.504HisGln: 0.504 ± 0.027	1.386HisArg: 1.386 ± 0.041	0.839HisSer: 0.839 ± 0.032	0.67HisThr: 0.67 ± 0.027	1.505HisVal: 1.505 ± 0.048	0.376HisTrp: 0.376 ± 0.02	0.536HisTyr: 0.536 ± 0.026	0.0HisXaa: 0.0 ± 0.0
Ile	8.398IleAla: 8.398 ± 0.101	0.349IleCys: 0.349 ± 0.021	3.768IleAsp: 3.768 ± 0.072	2.724IleGlu: 2.724 ± 0.054	1.378IlePhe: 1.378 ± 0.045	5.269IleGly: 5.269 ± 0.084	0.828IleHis: 0.828 ± 0.034	2.459IleIle: 2.459 ± 0.057	1.154IleLys: 1.154 ± 0.04	3.561IleLeu: 3.561 ± 0.073	0.85IleMet: 0.85 ± 0.029	1.427IleAsn: 1.427 ± 0.049	2.06IlePro: 2.06 ± 0.051	0.912IleGln: 0.912 ± 0.033	2.849IleArg: 2.849 ± 0.065	2.436IleSer: 2.436 ± 0.072	2.91IleThr: 2.91 ± 0.078	3.864IleVal: 3.864 ± 0.065	0.569IleTrp: 0.569 ± 0.026	0.899IleTyr: 0.899 ± 0.036	0.0IleXaa: 0.0 ± 0.0
Lys	3.975LysAla: 3.975 ± 0.085	0.143LysCys: 0.143 ± 0.013	1.344LysAsp: 1.344 ± 0.048	0.837LysGlu: 0.837 ± 0.034	0.806LysPhe: 0.806 ± 0.028	2.379LysGly: 2.379 ± 0.06	0.395LysHis: 0.395 ± 0.022	1.164LysIle: 1.164 ± 0.041	0.834LysLys: 0.834 ± 0.041	2.917LysLeu: 2.917 ± 0.068	0.636LysMet: 0.636 ± 0.03	0.576LysAsn: 0.576 ± 0.028	1.92LysPro: 1.92 ± 0.048	0.809LysGln: 0.809 ± 0.032	1.861LysArg: 1.861 ± 0.048	1.343LysSer: 1.343 ± 0.042	1.632LysThr: 1.632 ± 0.044	1.925LysVal: 1.925 ± 0.051	0.323LysTrp: 0.323 ± 0.021	0.519LysTyr: 0.519 ± 0.023	0.0LysXaa: 0.0 ± 0.0
Leu	17.763LeuAla: 17.763 ± 0.218	0.665LeuCys: 0.665 ± 0.029	5.859LeuAsp: 5.859 ± 0.092	3.775LeuGlu: 3.775 ± 0.069	3.404LeuPhe: 3.404 ± 0.076	8.911LeuGly: 8.911 ± 0.122	1.88LeuHis: 1.88 ± 0.047	4.63LeuIle: 4.63 ± 0.076	2.995LeuLys: 2.995 ± 0.061	10.516LeuLeu: 10.516 ± 0.156	2.073LeuMet: 2.073 ± 0.053	2.47LeuAsn: 2.47 ± 0.082	6.301LeuPro: 6.301 ± 0.104	2.578LeuGln: 2.578 ± 0.053	6.602LeuArg: 6.602 ± 0.092	5.36LeuSer: 5.36 ± 0.09	6.147LeuThr: 6.147 ± 0.125	7.653LeuVal: 7.653 ± 0.101	1.315LeuTrp: 1.315 ± 0.047	1.95LeuTyr: 1.95 ± 0.053	0.0LeuXaa: 0.0 ± 0.0
Met	3.68MetAla: 3.68 ± 0.07	0.124MetCys: 0.124 ± 0.012	0.962MetAsp: 0.962 ± 0.03	0.773MetGlu: 0.773 ± 0.032	0.656MetPhe: 0.656 ± 0.027	1.797MetGly: 1.797 ± 0.051	0.412MetHis: 0.412 ± 0.026	1.156MetIle: 1.156 ± 0.034	0.694MetLys: 0.694 ± 0.033	2.421MetLeu: 2.421 ± 0.062	0.609MetMet: 0.609 ± 0.03	0.583MetAsn: 0.583 ± 0.028	1.409MetPro: 1.409 ± 0.039	0.747MetGln: 0.747 ± 0.029	1.621MetArg: 1.621 ± 0.044	1.228MetSer: 1.228 ± 0.04	1.83MetThr: 1.83 ± 0.043	1.722MetVal: 1.722 ± 0.045	0.194MetTrp: 0.194 ± 0.016	0.26MetTyr: 0.26 ± 0.017	0.0MetXaa: 0.0 ± 0.0
Asn	3.462AsnAla: 3.462 ± 0.088	0.212AsnCys: 0.212 ± 0.016	1.414AsnAsp: 1.414 ± 0.046	0.852AsnGlu: 0.852 ± 0.035	1.0AsnPhe: 1.0 ± 0.04	2.521AsnGly: 2.521 ± 0.1	0.454AsnHis: 0.454 ± 0.022	1.407AsnIle: 1.407 ± 0.045	0.574AsnLys: 0.574 ± 0.025	2.431AsnLeu: 2.431 ± 0.07	0.499AsnMet: 0.499 ± 0.025	0.794AsnAsn: 0.794 ± 0.065	1.795AsnPro: 1.795 ± 0.053	0.712AsnGln: 0.712 ± 0.031	1.838AsnArg: 1.838 ± 0.052	1.323AsnSer: 1.323 ± 0.064	1.26AsnThr: 1.26 ± 0.071	1.831AsnVal: 1.831 ± 0.053	0.444AsnTrp: 0.444 ± 0.022	0.666AsnTyr: 0.666 ± 0.028	0.0AsnXaa: 0.0 ± 0.0
Pro	8.595ProAla: 8.595 ± 0.111	0.31ProCys: 0.31 ± 0.02	3.933ProAsp: 3.933 ± 0.072	3.036ProGlu: 3.036 ± 0.065	1.901ProPhe: 1.901 ± 0.037	5.823ProGly: 5.823 ± 0.088	1.043ProHis: 1.043 ± 0.032	2.185ProIle: 2.185 ± 0.05	1.401ProLys: 1.401 ± 0.041	5.459ProLeu: 5.459 ± 0.087	1.217ProMet: 1.217 ± 0.039	1.316ProAsn: 1.316 ± 0.039	3.473ProPro: 3.473 ± 0.093	1.772ProGln: 1.772 ± 0.045	3.349ProArg: 3.349 ± 0.07	2.161ProSer: 2.161 ± 0.053	2.468ProThr: 2.468 ± 0.054	4.58ProVal: 4.58 ± 0.076	0.73ProTrp: 0.73 ± 0.03	1.043ProTyr: 1.043 ± 0.037	0.0ProXaa: 0.0 ± 0.0
Gln	4.18GlnAla: 4.18 ± 0.074	0.219GlnCys: 0.219 ± 0.018	1.291GlnAsp: 1.291 ± 0.042	0.88GlnGlu: 0.88 ± 0.033	1.109GlnPhe: 1.109 ± 0.036	2.533GlnGly: 2.533 ± 0.054	0.603GlnHis: 0.603 ± 0.03	1.539GlnIle: 1.539 ± 0.04	0.747GlnLys: 0.747 ± 0.031	3.326GlnLeu: 3.326 ± 0.061	0.695GlnMet: 0.695 ± 0.028	0.733GlnAsn: 0.733 ± 0.03	1.894GlnPro: 1.894 ± 0.049	1.049GlnGln: 1.049 ± 0.034	2.535GlnArg: 2.535 ± 0.059	1.499GlnSer: 1.499 ± 0.036	1.558GlnThr: 1.558 ± 0.04	2.24GlnVal: 2.24 ± 0.049	0.411GlnTrp: 0.411 ± 0.023	0.541GlnTyr: 0.541 ± 0.026	0.0GlnXaa: 0.0 ± 0.0
Arg	9.701ArgAla: 9.701 ± 0.139	0.493ArgCys: 0.493 ± 0.022	4.264ArgAsp: 4.264 ± 0.082	3.0ArgGlu: 3.0 ± 0.064	2.999ArgPhe: 2.999 ± 0.071	5.045ArgGly: 5.045 ± 0.087	1.687ArgHis: 1.687 ± 0.053	3.981ArgIle: 3.981 ± 0.075	1.594ArgLys: 1.594 ± 0.052	8.722ArgLeu: 8.722 ± 0.127	1.661ArgMet: 1.661 ± 0.043	1.761ArgAsn: 1.761 ± 0.043	3.83ArgPro: 3.83 ± 0.073	2.493ArgGln: 2.493 ± 0.057	5.678ArgArg: 5.678 ± 0.108	3.337ArgSer: 3.337 ± 0.062	3.334ArgThr: 3.334 ± 0.062	4.992ArgVal: 4.992 ± 0.078	1.26ArgTrp: 1.26 ± 0.041	1.788ArgTyr: 1.788 ± 0.049	0.001ArgXaa: 0.001 ± 0.001
Ser	6.321SerAla: 6.321 ± 0.103	0.359SerCys: 0.359 ± 0.019	2.912SerAsp: 2.912 ± 0.061	1.894SerGlu: 1.894 ± 0.046	2.005SerPhe: 2.005 ± 0.053	5.509SerGly: 5.509 ± 0.153	0.908SerHis: 0.908 ± 0.035	2.452SerIle: 2.452 ± 0.065	1.123SerLys: 1.123 ± 0.036	4.84SerLeu: 4.84 ± 0.081	0.975SerMet: 0.975 ± 0.031	1.336SerAsn: 1.336 ± 0.048	2.723SerPro: 2.723 ± 0.066	1.376SerGln: 1.376 ± 0.042	3.237SerArg: 3.237 ± 0.064	2.198SerSer: 2.198 ± 0.063	2.402SerThr: 2.402 ± 0.061	3.604SerVal: 3.604 ± 0.063	0.775SerTrp: 0.775 ± 0.027	1.21SerTyr: 1.21 ± 0.043	0.0SerXaa: 0.0 ± 0.0
Thr	7.927ThrAla: 7.927 ± 0.114	0.344ThrCys: 0.344 ± 0.023	2.849ThrAsp: 2.849 ± 0.059	2.085ThrGlu: 2.085 ± 0.053	1.563ThrPhe: 1.563 ± 0.052	5.908ThrGly: 5.908 ± 0.16	0.954ThrHis: 0.954 ± 0.032	2.901ThrIle: 2.901 ± 0.078	1.138ThrLys: 1.138 ± 0.039	6.63ThrLeu: 6.63 ± 0.159	1.193ThrMet: 1.193 ± 0.039	1.408ThrAsn: 1.408 ± 0.076	3.864ThrPro: 3.864 ± 0.073	1.38ThrGln: 1.38 ± 0.035	3.668ThrArg: 3.668 ± 0.068	2.648ThrSer: 2.648 ± 0.066	3.029ThrThr: 3.029 ± 0.099	4.239ThrVal: 4.239 ± 0.097	0.567ThrTrp: 0.567 ± 0.024	1.013ThrTyr: 1.013 ± 0.041	0.0ThrXaa: 0.0 ± 0.0
Val	10.965ValAla: 10.965 ± 0.124	0.522ValCys: 0.522 ± 0.027	4.051ValAsp: 4.051 ± 0.067	3.7ValGlu: 3.7 ± 0.066	2.348ValPhe: 2.348 ± 0.052	5.402ValGly: 5.402 ± 0.09	1.315ValHis: 1.315 ± 0.043	3.781ValIle: 3.781 ± 0.078	1.995ValLys: 1.995 ± 0.056	7.037ValLeu: 7.037 ± 0.1	1.691ValMet: 1.691 ± 0.051	1.924ValAsn: 1.924 ± 0.065	4.293ValPro: 4.293 ± 0.083	2.121ValGln: 2.121 ± 0.051	4.964ValArg: 4.964 ± 0.082	3.819ValSer: 3.819 ± 0.079	5.09ValThr: 5.09 ± 0.094	5.271ValVal: 5.271 ± 0.09	0.947ValTrp: 0.947 ± 0.033	1.307ValTyr: 1.307 ± 0.039	0.0ValXaa: 0.0 ± 0.0
Trp	1.608TrpAla: 1.608 ± 0.044	0.11TrpCys: 0.11 ± 0.011	0.753TrpAsp: 0.753 ± 0.031	0.5TrpGlu: 0.5 ± 0.024	0.535TrpPhe: 0.535 ± 0.029	1.06TrpGly: 1.06 ± 0.036	0.358TrpHis: 0.358 ± 0.023	0.541TrpIle: 0.541 ± 0.025	0.367TrpLys: 0.367 ± 0.02	1.996TrpLeu: 1.996 ± 0.059	0.303TrpMet: 0.303 ± 0.019	0.426TrpAsn: 0.426 ± 0.027	0.846TrpPro: 0.846 ± 0.034	0.758TrpGln: 0.758 ± 0.029	1.282TrpArg: 1.282 ± 0.04	0.823TrpSer: 0.823 ± 0.034	0.856TrpThr: 0.856 ± 0.033	0.861TrpVal: 0.861 ± 0.036	0.254TrpTrp: 0.254 ± 0.018	0.276TrpTyr: 0.276 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.773TyrAla: 2.773 ± 0.063	0.179TyrCys: 0.179 ± 0.015	1.448TyrAsp: 1.448 ± 0.048	0.923TyrGlu: 0.923 ± 0.033	0.819TyrPhe: 0.819 ± 0.03	2.089TyrGly: 2.089 ± 0.056	0.416TyrHis: 0.416 ± 0.019	0.8TyrIle: 0.8 ± 0.032	0.537TyrLys: 0.537 ± 0.023	2.002TyrLeu: 2.002 ± 0.049	0.407TyrMet: 0.407 ± 0.022	0.604TyrAsn: 0.604 ± 0.027	1.001TyrPro: 1.001 ± 0.037	0.642TyrGln: 0.642 ± 0.028	1.748TyrArg: 1.748 ± 0.052	0.996TyrSer: 0.996 ± 0.038	1.06TyrThr: 1.06 ± 0.04	1.509TyrVal: 1.509 ± 0.044	0.34TyrTrp: 0.34 ± 0.022	0.518TyrTyr: 0.518 ± 0.027	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	0.001XaaSer: 0.001 ± 0.001	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 ± 0.002

Statistics based on 2726 proteins (893394 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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