Amino acid dipepetide frequency for Rhodopseudomonas palustris

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	18.67AlaAla: 18.67 ± 0.169	1.093AlaCys: 1.093 ± 0.026	7.008AlaAsp: 7.008 ± 0.076	7.187AlaGlu: 7.187 ± 0.072	4.393AlaPhe: 4.393 ± 0.053	10.302AlaGly: 10.302 ± 0.088	2.228AlaHis: 2.228 ± 0.036	7.089AlaIle: 7.089 ± 0.065	4.819AlaLys: 4.819 ± 0.065	13.675AlaLeu: 13.675 ± 0.119	3.784AlaMet: 3.784 ± 0.054	3.004AlaAsn: 3.004 ± 0.046	6.008AlaPro: 6.008 ± 0.062	4.42AlaGln: 4.42 ± 0.056	8.823AlaArg: 8.823 ± 0.086	6.742AlaSer: 6.742 ± 0.075	6.641AlaThr: 6.641 ± 0.075	8.955AlaVal: 8.955 ± 0.09	1.421AlaTrp: 1.421 ± 0.026	2.549AlaTyr: 2.549 ± 0.04	0.0AlaXaa: 0.0 ± 0.0
Cys	1.066CysAla: 1.066 ± 0.029	0.124CysCys: 0.124 ± 0.009	0.548CysAsp: 0.548 ± 0.021	0.436CysGlu: 0.436 ± 0.018	0.318CysPhe: 0.318 ± 0.015	0.963CysGly: 0.963 ± 0.027	0.245CysHis: 0.245 ± 0.015	0.42CysIle: 0.42 ± 0.017	0.235CysLys: 0.235 ± 0.013	0.762CysLeu: 0.762 ± 0.022	0.175CysMet: 0.175 ± 0.011	0.215CysAsn: 0.215 ± 0.011	0.465CysPro: 0.465 ± 0.019	0.222CysGln: 0.222 ± 0.011	0.6CysArg: 0.6 ± 0.018	0.462CysSer: 0.462 ± 0.018	0.392CysThr: 0.392 ± 0.016	0.676CysVal: 0.676 ± 0.023	0.112CysTrp: 0.112 ± 0.008	0.198CysTyr: 0.198 ± 0.011	0.0CysXaa: 0.0 ± 0.0
Asp	7.151AspAla: 7.151 ± 0.073	0.501AspCys: 0.501 ± 0.017	3.463AspAsp: 3.463 ± 0.057	3.189AspGlu: 3.189 ± 0.046	2.155AspPhe: 2.155 ± 0.039	5.157AspGly: 5.157 ± 0.055	1.394AspHis: 1.394 ± 0.036	3.084AspIle: 3.084 ± 0.046	1.941AspLys: 1.941 ± 0.043	5.747AspLeu: 5.747 ± 0.069	1.233AspMet: 1.233 ± 0.025	1.399AspAsn: 1.399 ± 0.029	3.477AspPro: 3.477 ± 0.049	1.822AspGln: 1.822 ± 0.034	4.259AspArg: 4.259 ± 0.06	2.471AspSer: 2.471 ± 0.043	2.41AspThr: 2.41 ± 0.044	4.1AspVal: 4.1 ± 0.056	0.922AspTrp: 0.922 ± 0.023	1.524AspTyr: 1.524 ± 0.03	0.0AspXaa: 0.0 ± 0.0
Glu	6.691GluAla: 6.691 ± 0.074	0.339GluCys: 0.339 ± 0.014	2.333GluAsp: 2.333 ± 0.041	2.225GluGlu: 2.225 ± 0.045	1.806GluPhe: 1.806 ± 0.032	3.43GluGly: 3.43 ± 0.048	1.087GluHis: 1.087 ± 0.026	3.465GluIle: 3.465 ± 0.05	1.93GluLys: 1.93 ± 0.047	5.31GluLeu: 5.31 ± 0.068	1.397GluMet: 1.397 ± 0.03	1.284GluAsn: 1.284 ± 0.033	2.55GluPro: 2.55 ± 0.04	2.161GluGln: 2.161 ± 0.042	4.517GluArg: 4.517 ± 0.055	2.385GluSer: 2.385 ± 0.044	3.023GluThr: 3.023 ± 0.04	3.606GluVal: 3.606 ± 0.046	0.613GluTrp: 0.613 ± 0.02	0.874GluTyr: 0.874 ± 0.028	0.0GluXaa: 0.0 ± 0.0
Phe	4.928PheAla: 4.928 ± 0.059	0.431PheCys: 0.431 ± 0.016	2.631PheAsp: 2.631 ± 0.041	1.998PheGlu: 1.998 ± 0.04	1.374PhePhe: 1.374 ± 0.032	3.902PheGly: 3.902 ± 0.053	0.725PheHis: 0.725 ± 0.019	1.702PheIle: 1.702 ± 0.039	1.118PheLys: 1.118 ± 0.028	3.24PheLeu: 3.24 ± 0.049	0.759PheMet: 0.759 ± 0.021	1.137PheAsn: 1.137 ± 0.026	1.555PhePro: 1.555 ± 0.028	0.967PheGln: 0.967 ± 0.025	2.224PheArg: 2.224 ± 0.038	2.153PheSer: 2.153 ± 0.038	1.957PheThr: 1.957 ± 0.031	2.972PheVal: 2.972 ± 0.052	0.506PheTrp: 0.506 ± 0.021	0.847PheTyr: 0.847 ± 0.025	0.0PheXaa: 0.0 ± 0.0
Gly	9.582GlyAla: 9.582 ± 0.088	0.861GlyCys: 0.861 ± 0.026	4.396GlyAsp: 4.396 ± 0.051	4.331GlyGlu: 4.331 ± 0.057	3.716GlyPhe: 3.716 ± 0.054	7.152GlyGly: 7.152 ± 0.09	1.915GlyHis: 1.915 ± 0.036	4.701GlyIle: 4.701 ± 0.052	3.264GlyLys: 3.264 ± 0.054	8.752GlyLeu: 8.752 ± 0.087	2.215GlyMet: 2.215 ± 0.037	2.159GlyAsn: 2.159 ± 0.046	3.542GlyPro: 3.542 ± 0.053	2.832GlyGln: 2.832 ± 0.04	5.825GlyArg: 5.825 ± 0.067	4.622GlySer: 4.622 ± 0.053	4.277GlyThr: 4.277 ± 0.054	6.203GlyVal: 6.203 ± 0.059	1.313GlyTrp: 1.313 ± 0.033	2.288GlyTyr: 2.288 ± 0.037	0.0GlyXaa: 0.0 ± 0.0
His	2.355HisAla: 2.355 ± 0.042	0.236HisCys: 0.236 ± 0.013	1.331HisAsp: 1.331 ± 0.037	0.891HisGlu: 0.891 ± 0.025	0.824HisPhe: 0.824 ± 0.022	1.982HisGly: 1.982 ± 0.035	0.596HisHis: 0.596 ± 0.025	0.966HisIle: 0.966 ± 0.023	0.507HisLys: 0.507 ± 0.017	2.025HisLeu: 2.025 ± 0.038	0.446HisMet: 0.446 ± 0.018	0.485HisAsn: 0.485 ± 0.019	1.347HisPro: 1.347 ± 0.027	0.634HisGln: 0.634 ± 0.021	1.437HisArg: 1.437 ± 0.034	1.011HisSer: 1.011 ± 0.026	0.785HisThr: 0.785 ± 0.021	1.417HisVal: 1.417 ± 0.036	0.361HisTrp: 0.361 ± 0.014	0.528HisTyr: 0.528 ± 0.019	0.0HisXaa: 0.0 ± 0.0
Ile	8.236IleAla: 8.236 ± 0.067	0.553IleCys: 0.553 ± 0.018	3.952IleAsp: 3.952 ± 0.054	3.617IleGlu: 3.617 ± 0.049	1.686IlePhe: 1.686 ± 0.034	5.453IleGly: 5.453 ± 0.061	0.933IleHis: 0.933 ± 0.025	2.322IleIle: 2.322 ± 0.038	1.863IleLys: 1.863 ± 0.035	4.243IleLeu: 4.243 ± 0.054	1.011IleMet: 1.011 ± 0.025	1.564IleAsn: 1.564 ± 0.033	2.363IlePro: 2.363 ± 0.04	1.243IleGln: 1.243 ± 0.025	3.237IleArg: 3.237 ± 0.045	3.052IleSer: 3.052 ± 0.041	2.723IleThr: 2.723 ± 0.042	4.716IleVal: 4.716 ± 0.055	0.673IleTrp: 0.673 ± 0.024	1.267IleTyr: 1.267 ± 0.026	0.0IleXaa: 0.0 ± 0.0
Lys	4.329LysAla: 4.329 ± 0.064	0.191LysCys: 0.191 ± 0.012	1.803LysAsp: 1.803 ± 0.038	1.52LysGlu: 1.52 ± 0.038	1.103LysPhe: 1.103 ± 0.028	2.525LysGly: 2.525 ± 0.044	0.656LysHis: 0.656 ± 0.019	2.023LysIle: 2.023 ± 0.038	1.447LysLys: 1.447 ± 0.044	3.653LysLeu: 3.653 ± 0.054	0.853LysMet: 0.853 ± 0.024	0.926LysAsn: 0.926 ± 0.026	2.353LysPro: 2.353 ± 0.043	1.251LysGln: 1.251 ± 0.029	2.405LysArg: 2.405 ± 0.041	2.023LysSer: 2.023 ± 0.039	2.115LysThr: 2.115 ± 0.037	2.536LysVal: 2.536 ± 0.041	0.371LysTrp: 0.371 ± 0.015	0.722LysTyr: 0.722 ± 0.023	0.0LysXaa: 0.0 ± 0.0
Leu	13.802LeuAla: 13.802 ± 0.125	0.894LeuCys: 0.894 ± 0.024	5.848LeuAsp: 5.848 ± 0.066	4.513LeuGlu: 4.513 ± 0.056	3.652LeuPhe: 3.652 ± 0.051	8.435LeuGly: 8.435 ± 0.079	1.845LeuHis: 1.845 ± 0.035	5.458LeuIle: 5.458 ± 0.072	3.635LeuLys: 3.635 ± 0.054	9.786LeuLeu: 9.786 ± 0.105	2.425LeuMet: 2.425 ± 0.037	2.627LeuAsn: 2.627 ± 0.037	5.469LeuPro: 5.469 ± 0.062	2.948LeuGln: 2.948 ± 0.041	6.948LeuArg: 6.948 ± 0.072	6.279LeuSer: 6.279 ± 0.062	5.687LeuThr: 5.687 ± 0.064	7.466LeuVal: 7.466 ± 0.072	1.101LeuTrp: 1.101 ± 0.03	1.963LeuTyr: 1.963 ± 0.035	0.0LeuXaa: 0.0 ± 0.0
Met	3.118MetAla: 3.118 ± 0.046	0.155MetCys: 0.155 ± 0.01	1.059MetAsp: 1.059 ± 0.029	0.915MetGlu: 0.915 ± 0.023	0.787MetPhe: 0.787 ± 0.02	1.602MetGly: 1.602 ± 0.03	0.456MetHis: 0.456 ± 0.018	1.517MetIle: 1.517 ± 0.031	0.972MetLys: 0.972 ± 0.028	2.664MetLeu: 2.664 ± 0.044	0.724MetMet: 0.724 ± 0.023	0.703MetAsn: 0.703 ± 0.02	1.569MetPro: 1.569 ± 0.03	0.916MetGln: 0.916 ± 0.026	1.801MetArg: 1.801 ± 0.034	1.675MetSer: 1.675 ± 0.031	1.951MetThr: 1.951 ± 0.033	1.761MetVal: 1.761 ± 0.028	0.23MetTrp: 0.23 ± 0.014	0.339MetTyr: 0.339 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	3.242AsnAla: 3.242 ± 0.046	0.253AsnCys: 0.253 ± 0.015	1.469AsnAsp: 1.469 ± 0.03	1.24AsnGlu: 1.24 ± 0.026	1.006AsnPhe: 1.006 ± 0.025	2.365AsnGly: 2.365 ± 0.039	0.521AsnHis: 0.521 ± 0.019	1.394AsnIle: 1.394 ± 0.031	0.835AsnLys: 0.835 ± 0.023	2.581AsnLeu: 2.581 ± 0.044	0.598AsnMet: 0.598 ± 0.016	0.784AsnAsn: 0.784 ± 0.028	1.793AsnPro: 1.793 ± 0.032	0.785AsnGln: 0.785 ± 0.024	1.747AsnArg: 1.747 ± 0.038	1.313AsnSer: 1.313 ± 0.031	1.139AsnThr: 1.139 ± 0.029	2.076AsnVal: 2.076 ± 0.036	0.415AsnTrp: 0.415 ± 0.019	0.718AsnTyr: 0.718 ± 0.023	0.0AsnXaa: 0.0 ± 0.0
Pro	6.583ProAla: 6.583 ± 0.078	0.332ProCys: 0.332 ± 0.015	3.704ProAsp: 3.704 ± 0.045	3.1ProGlu: 3.1 ± 0.048	1.964ProPhe: 1.964 ± 0.033	4.43ProGly: 4.43 ± 0.059	1.029ProHis: 1.029 ± 0.027	2.533ProIle: 2.533 ± 0.04	1.873ProLys: 1.873 ± 0.036	4.817ProLeu: 4.817 ± 0.059	1.282ProMet: 1.282 ± 0.03	1.441ProAsn: 1.441 ± 0.029	2.851ProPro: 2.851 ± 0.054	1.916ProGln: 1.916 ± 0.034	3.195ProArg: 3.195 ± 0.05	2.941ProSer: 2.941 ± 0.047	2.685ProThr: 2.685 ± 0.04	3.996ProVal: 3.996 ± 0.056	0.691ProTrp: 0.691 ± 0.02	1.111ProTyr: 1.111 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	4.23GlnAla: 4.23 ± 0.054	0.245GlnCys: 0.245 ± 0.014	1.509GlnAsp: 1.509 ± 0.029	1.29GlnGlu: 1.29 ± 0.029	1.186GlnPhe: 1.186 ± 0.024	2.349GlnGly: 2.349 ± 0.043	0.702GlnHis: 0.702 ± 0.021	2.139GlnIle: 2.139 ± 0.038	1.027GlnLys: 1.027 ± 0.028	3.302GlnLeu: 3.302 ± 0.041	0.904GlnMet: 0.904 ± 0.024	0.864GlnAsn: 0.864 ± 0.023	1.907GlnPro: 1.907 ± 0.039	1.458GlnGln: 1.458 ± 0.035	2.657GlnArg: 2.657 ± 0.039	1.947GlnSer: 1.947 ± 0.038	1.788GlnThr: 1.788 ± 0.035	2.23GlnVal: 2.23 ± 0.037	0.462GlnTrp: 0.462 ± 0.018	0.636GlnTyr: 0.636 ± 0.019	0.0GlnXaa: 0.0 ± 0.0
Arg	8.205ArgAla: 8.205 ± 0.075	0.562ArgCys: 0.562 ± 0.018	4.379ArgAsp: 4.379 ± 0.055	3.629ArgGlu: 3.629 ± 0.054	2.771ArgPhe: 2.771 ± 0.045	4.982ArgGly: 4.982 ± 0.059	1.658ArgHis: 1.658 ± 0.035	4.027ArgIle: 4.027 ± 0.055	2.319ArgLys: 2.319 ± 0.042	7.632ArgLeu: 7.632 ± 0.082	1.756ArgMet: 1.756 ± 0.034	1.913ArgAsn: 1.913 ± 0.035	3.519ArgPro: 3.519 ± 0.052	2.55ArgGln: 2.55 ± 0.039	5.376ArgArg: 5.376 ± 0.065	3.724ArgSer: 3.724 ± 0.051	3.055ArgThr: 3.055 ± 0.046	4.722ArgVal: 4.722 ± 0.059	0.936ArgTrp: 0.936 ± 0.024	1.644ArgTyr: 1.644 ± 0.034	0.0ArgXaa: 0.0 ± 0.0
Ser	6.614SerAla: 6.614 ± 0.065	0.464SerCys: 0.464 ± 0.017	3.08SerAsp: 3.08 ± 0.046	2.738SerGlu: 2.738 ± 0.04	2.359SerPhe: 2.359 ± 0.042	5.416SerGly: 5.416 ± 0.06	1.09SerHis: 1.09 ± 0.027	2.969SerIle: 2.969 ± 0.045	1.759SerLys: 1.759 ± 0.035	5.328SerLeu: 5.328 ± 0.064	1.374SerMet: 1.374 ± 0.03	1.45SerAsn: 1.45 ± 0.027	2.811SerPro: 2.811 ± 0.04	1.719SerGln: 1.719 ± 0.035	3.633SerArg: 3.633 ± 0.048	3.2SerSer: 3.2 ± 0.056	2.769SerThr: 2.769 ± 0.049	4.107SerVal: 4.107 ± 0.055	0.772SerTrp: 0.772 ± 0.022	1.357SerTyr: 1.357 ± 0.028	0.0SerXaa: 0.0 ± 0.0
Thr	6.495ThrAla: 6.495 ± 0.07	0.391ThrCys: 0.391 ± 0.018	2.756ThrAsp: 2.756 ± 0.042	2.519ThrGlu: 2.519 ± 0.046	1.88ThrPhe: 1.88 ± 0.039	4.804ThrGly: 4.804 ± 0.065	0.925ThrHis: 0.925 ± 0.024	3.053ThrIle: 3.053 ± 0.045	1.762ThrLys: 1.762 ± 0.034	5.828ThrLeu: 5.828 ± 0.064	1.317ThrMet: 1.317 ± 0.032	1.331ThrAsn: 1.331 ± 0.032	3.313ThrPro: 3.313 ± 0.047	1.506ThrGln: 1.506 ± 0.033	3.199ThrArg: 3.199 ± 0.045	2.805ThrSer: 2.805 ± 0.046	2.988ThrThr: 2.988 ± 0.053	4.032ThrVal: 4.032 ± 0.051	0.593ThrTrp: 0.593 ± 0.02	1.116ThrTyr: 1.116 ± 0.028	0.0ThrXaa: 0.0 ± 0.0
Val	9.796ValAla: 9.796 ± 0.085	0.621ValCys: 0.621 ± 0.02	4.146ValAsp: 4.146 ± 0.055	4.165ValGlu: 4.165 ± 0.056	2.7ValPhe: 2.7 ± 0.043	5.746ValGly: 5.746 ± 0.067	1.331ValHis: 1.331 ± 0.033	4.173ValIle: 4.173 ± 0.051	2.392ValLys: 2.392 ± 0.042	7.401ValLeu: 7.401 ± 0.076	1.903ValMet: 1.903 ± 0.031	1.985ValAsn: 1.985 ± 0.039	3.756ValPro: 3.756 ± 0.046	2.118ValGln: 2.118 ± 0.037	4.686ValArg: 4.686 ± 0.052	4.225ValSer: 4.225 ± 0.049	4.433ValThr: 4.433 ± 0.059	6.237ValVal: 6.237 ± 0.068	0.879ValTrp: 0.879 ± 0.027	1.461ValTyr: 1.461 ± 0.034	0.0ValXaa: 0.0 ± 0.0
Trp	1.181TrpAla: 1.181 ± 0.028	0.138TrpCys: 0.138 ± 0.01	0.605TrpAsp: 0.605 ± 0.018	0.451TrpGlu: 0.451 ± 0.018	0.508TrpPhe: 0.508 ± 0.019	0.882TrpGly: 0.882 ± 0.028	0.342TrpHis: 0.342 ± 0.013	0.744TrpIle: 0.744 ± 0.023	0.453TrpLys: 0.453 ± 0.014	1.629TrpLeu: 1.629 ± 0.04	0.342TrpMet: 0.342 ± 0.014	0.428TrpAsn: 0.428 ± 0.016	0.73TrpPro: 0.73 ± 0.02	0.56TrpGln: 0.56 ± 0.019	1.121TrpArg: 1.121 ± 0.026	0.853TrpSer: 0.853 ± 0.023	0.757TrpThr: 0.757 ± 0.021	0.746TrpVal: 0.746 ± 0.023	0.217TrpTrp: 0.217 ± 0.013	0.267TrpTyr: 0.267 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.538TyrAla: 2.538 ± 0.039	0.249TyrCys: 0.249 ± 0.012	1.379TyrAsp: 1.379 ± 0.032	1.071TyrGlu: 1.071 ± 0.027	0.938TyrPhe: 0.938 ± 0.026	2.069TyrGly: 2.069 ± 0.038	0.487TyrHis: 0.487 ± 0.018	0.929TyrIle: 0.929 ± 0.024	0.655TyrLys: 0.655 ± 0.021	2.405TyrLeu: 2.405 ± 0.042	0.415TyrMet: 0.415 ± 0.016	0.574TyrAsn: 0.574 ± 0.019	1.094TyrPro: 1.094 ± 0.026	0.801TyrGln: 0.801 ± 0.023	1.671TyrArg: 1.671 ± 0.03	1.124TyrSer: 1.124 ± 0.027	1.037TyrThr: 1.037 ± 0.027	1.602TyrVal: 1.602 ± 0.035	0.369TyrTrp: 0.369 ± 0.015	0.608TyrTyr: 0.608 ± 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 5580 proteins (1615923 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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