Amino acid dipepetide frequency for Geobacter uraniireducens (strain Rf4) (Geobacter uraniumreducens)

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	10.444AlaAla: 10.444 ± 0.126	1.28AlaCys: 1.28 ± 0.042	5.055AlaAsp: 5.055 ± 0.06	6.252AlaGlu: 6.252 ± 0.107	3.579AlaPhe: 3.579 ± 0.05	8.465AlaGly: 8.465 ± 0.107	1.555AlaHis: 1.555 ± 0.032	5.461AlaIle: 5.461 ± 0.061	4.549AlaLys: 4.549 ± 0.062	9.188AlaLeu: 9.188 ± 0.1	2.414AlaMet: 2.414 ± 0.047	2.946AlaAsn: 2.946 ± 0.069	3.415AlaPro: 3.415 ± 0.059	2.565AlaGln: 2.565 ± 0.059	4.985AlaArg: 4.985 ± 0.065	4.975AlaSer: 4.975 ± 0.083	5.171AlaThr: 5.171 ± 0.103	7.242AlaVal: 7.242 ± 0.079	0.905AlaTrp: 0.905 ± 0.027	2.475AlaTyr: 2.475 ± 0.051	0.0AlaXaa: 0.0 ± 0.0
Cys	0.989CysAla: 0.989 ± 0.029	0.235CysCys: 0.235 ± 0.014	0.646CysAsp: 0.646 ± 0.023	0.591CysGlu: 0.591 ± 0.024	0.485CysPhe: 0.485 ± 0.018	1.272CysGly: 1.272 ± 0.035	1.074CysHis: 1.074 ± 0.103	0.662CysIle: 0.662 ± 0.019	0.474CysLys: 0.474 ± 0.018	1.1CysLeu: 1.1 ± 0.03	0.279CysMet: 0.279 ± 0.016	0.475CysAsn: 0.475 ± 0.023	0.64CysPro: 0.64 ± 0.027	0.34CysGln: 0.34 ± 0.016	0.813CysArg: 0.813 ± 0.027	0.834CysSer: 0.834 ± 0.032	0.648CysThr: 0.648 ± 0.027	0.698CysVal: 0.698 ± 0.024	0.124CysTrp: 0.124 ± 0.009	0.421CysTyr: 0.421 ± 0.017	0.0CysXaa: 0.0 ± 0.0
Asp	4.515AspAla: 4.515 ± 0.059	0.704AspCys: 0.704 ± 0.028	2.692AspAsp: 2.692 ± 0.049	3.491AspGlu: 3.491 ± 0.06	2.292AspPhe: 2.292 ± 0.04	4.399AspGly: 4.399 ± 0.085	0.945AspHis: 0.945 ± 0.026	3.672AspIle: 3.672 ± 0.051	2.699AspLys: 2.699 ± 0.048	5.333AspLeu: 5.333 ± 0.066	1.304AspMet: 1.304 ± 0.028	2.018AspAsn: 2.018 ± 0.048	2.557AspPro: 2.557 ± 0.038	1.372AspGln: 1.372 ± 0.033	3.056AspArg: 3.056 ± 0.053	2.737AspSer: 2.737 ± 0.055	2.554AspThr: 2.554 ± 0.053	3.6AspVal: 3.6 ± 0.053	0.605AspTrp: 0.605 ± 0.024	1.979AspTyr: 1.979 ± 0.039	0.0AspXaa: 0.0 ± 0.0
Glu	5.678GluAla: 5.678 ± 0.088	0.586GluCys: 0.586 ± 0.023	2.619GluAsp: 2.619 ± 0.05	4.951GluGlu: 4.951 ± 0.088	2.305GluPhe: 2.305 ± 0.045	4.126GluGly: 4.126 ± 0.057	1.222GluHis: 1.222 ± 0.031	4.549GluIle: 4.549 ± 0.07	4.681GluLys: 4.681 ± 0.074	6.726GluLeu: 6.726 ± 0.094	1.902GluMet: 1.902 ± 0.042	2.317GluAsn: 2.317 ± 0.044	2.184GluPro: 2.184 ± 0.048	2.443GluGln: 2.443 ± 0.052	4.413GluArg: 4.413 ± 0.079	3.137GluSer: 3.137 ± 0.053	3.358GluThr: 3.358 ± 0.052	4.371GluVal: 4.371 ± 0.071	0.653GluTrp: 0.653 ± 0.023	1.739GluTyr: 1.739 ± 0.033	0.0GluXaa: 0.0 ± 0.0
Phe	3.753PheAla: 3.753 ± 0.057	0.585PheCys: 0.585 ± 0.019	2.494PheAsp: 2.494 ± 0.039	2.096PheGlu: 2.096 ± 0.045	1.931PhePhe: 1.931 ± 0.039	3.201PheGly: 3.201 ± 0.053	0.861PheHis: 0.861 ± 0.02	2.501PheIle: 2.501 ± 0.039	1.794PheLys: 1.794 ± 0.042	3.934PheLeu: 3.934 ± 0.069	0.912PheMet: 0.912 ± 0.025	1.656PheAsn: 1.656 ± 0.037	1.836PhePro: 1.836 ± 0.044	1.14PheGln: 1.14 ± 0.03	2.33PheArg: 2.33 ± 0.048	3.012PheSer: 3.012 ± 0.055	2.605PheThr: 2.605 ± 0.051	2.76PheVal: 2.76 ± 0.048	0.429PheTrp: 0.429 ± 0.019	1.27PheTyr: 1.27 ± 0.028	0.0PheXaa: 0.0 ± 0.0
Gly	6.631GlyAla: 6.631 ± 0.086	1.288GlyCys: 1.288 ± 0.042	3.987GlyAsp: 3.987 ± 0.076	4.942GlyGlu: 4.942 ± 0.063	3.398GlyPhe: 3.398 ± 0.046	6.514GlyGly: 6.514 ± 0.129	1.518GlyHis: 1.518 ± 0.041	5.582GlyIle: 5.582 ± 0.062	5.268GlyLys: 5.268 ± 0.073	6.976GlyLeu: 6.976 ± 0.072	2.296GlyMet: 2.296 ± 0.04	3.381GlyAsn: 3.381 ± 0.082	2.16GlyPro: 2.16 ± 0.047	2.142GlyGln: 2.142 ± 0.044	4.469GlyArg: 4.469 ± 0.064	4.89GlySer: 4.89 ± 0.103	4.81GlyThr: 4.81 ± 0.114	5.985GlyVal: 5.985 ± 0.077	0.97GlyTrp: 0.97 ± 0.025	2.801GlyTyr: 2.801 ± 0.05	0.0GlyXaa: 0.0 ± 0.0
His	1.648HisAla: 1.648 ± 0.038	0.293HisCys: 0.293 ± 0.014	1.132HisAsp: 1.132 ± 0.032	1.153HisGlu: 1.153 ± 0.03	0.929HisPhe: 0.929 ± 0.025	1.831HisGly: 1.831 ± 0.049	0.489HisHis: 0.489 ± 0.02	1.138HisIle: 1.138 ± 0.026	0.885HisLys: 0.885 ± 0.024	2.04HisLeu: 2.04 ± 0.036	0.453HisMet: 0.453 ± 0.02	0.787HisAsn: 0.787 ± 0.027	1.211HisPro: 1.211 ± 0.033	0.608HisGln: 0.608 ± 0.022	1.161HisArg: 1.161 ± 0.031	1.119HisSer: 1.119 ± 0.034	0.946HisThr: 0.946 ± 0.03	1.236HisVal: 1.236 ± 0.032	0.213HisTrp: 0.213 ± 0.013	0.652HisTyr: 0.652 ± 0.021	0.0HisXaa: 0.0 ± 0.0
Ile	5.987IleAla: 5.987 ± 0.063	0.789IleCys: 0.789 ± 0.026	3.714IleAsp: 3.714 ± 0.049	3.83IleGlu: 3.83 ± 0.054	2.542IlePhe: 2.542 ± 0.042	4.76IleGly: 4.76 ± 0.055	1.198IleHis: 1.198 ± 0.028	3.882IleIle: 3.882 ± 0.061	3.154IleLys: 3.154 ± 0.057	5.63IleLeu: 5.63 ± 0.078	1.366IleMet: 1.366 ± 0.034	2.57IleAsn: 2.57 ± 0.043	3.086IlePro: 3.086 ± 0.047	1.656IleGln: 1.656 ± 0.04	3.356IleArg: 3.356 ± 0.053	4.17IleSer: 4.17 ± 0.061	3.902IleThr: 3.902 ± 0.066	4.351IleVal: 4.351 ± 0.061	0.512IleTrp: 0.512 ± 0.018	1.807IleTyr: 1.807 ± 0.036	0.0IleXaa: 0.0 ± 0.0
Lys	4.809LysAla: 4.809 ± 0.079	0.519LysCys: 0.519 ± 0.023	2.832LysAsp: 2.832 ± 0.042	4.172LysGlu: 4.172 ± 0.076	1.55LysPhe: 1.55 ± 0.035	4.398LysGly: 4.398 ± 0.064	0.952LysHis: 0.952 ± 0.029	3.453LysIle: 3.453 ± 0.053	3.872LysLys: 3.872 ± 0.07	4.872LysLeu: 4.872 ± 0.061	1.466LysMet: 1.466 ± 0.035	2.179LysAsn: 2.179 ± 0.041	2.279LysPro: 2.279 ± 0.046	1.644LysGln: 1.644 ± 0.038	3.105LysArg: 3.105 ± 0.052	3.111LysSer: 3.111 ± 0.044	3.107LysThr: 3.107 ± 0.046	3.83LysVal: 3.83 ± 0.062	0.5LysTrp: 0.5 ± 0.019	1.51LysTyr: 1.51 ± 0.04	0.0LysXaa: 0.0 ± 0.0
Leu	10.029LeuAla: 10.029 ± 0.107	1.156LeuCys: 1.156 ± 0.036	5.302LeuAsp: 5.302 ± 0.072	6.109LeuGlu: 6.109 ± 0.085	4.247LeuPhe: 4.247 ± 0.065	6.879LeuGly: 6.879 ± 0.073	1.959LeuHis: 1.959 ± 0.042	5.416LeuIle: 5.416 ± 0.08	5.851LeuLys: 5.851 ± 0.072	10.447LeuLeu: 10.447 ± 0.138	2.19LeuMet: 2.19 ± 0.041	3.547LeuAsn: 3.547 ± 0.056	4.819LeuPro: 4.819 ± 0.057	3.154LeuGln: 3.154 ± 0.047	5.554LeuArg: 5.554 ± 0.077	6.469LeuSer: 6.469 ± 0.078	5.702LeuThr: 5.702 ± 0.078	6.802LeuVal: 6.802 ± 0.084	0.876LeuTrp: 0.876 ± 0.027	2.591LeuTyr: 2.591 ± 0.042	0.0LeuXaa: 0.0 ± 0.0
Met	2.568MetAla: 2.568 ± 0.042	0.213MetCys: 0.213 ± 0.012	1.235MetAsp: 1.235 ± 0.03	1.775MetGlu: 1.775 ± 0.044	0.78MetPhe: 0.78 ± 0.022	1.885MetGly: 1.885 ± 0.041	0.458MetHis: 0.458 ± 0.02	1.296MetIle: 1.296 ± 0.037	1.735MetLys: 1.735 ± 0.04	2.354MetLeu: 2.354 ± 0.043	0.611MetMet: 0.611 ± 0.021	0.988MetAsn: 0.988 ± 0.027	1.171MetPro: 1.171 ± 0.028	0.842MetGln: 0.842 ± 0.023	1.417MetArg: 1.417 ± 0.031	1.395MetSer: 1.395 ± 0.031	1.502MetThr: 1.502 ± 0.033	1.862MetVal: 1.862 ± 0.038	0.155MetTrp: 0.155 ± 0.011	0.452MetTyr: 0.452 ± 0.018	0.0MetXaa: 0.0 ± 0.0
Asn	3.117AsnAla: 3.117 ± 0.062	0.545AsnCys: 0.545 ± 0.025	1.877AsnAsp: 1.877 ± 0.053	1.861AsnGlu: 1.861 ± 0.037	1.454AsnPhe: 1.454 ± 0.036	3.341AsnGly: 3.341 ± 0.081	0.706AsnHis: 0.706 ± 0.024	2.506AsnIle: 2.506 ± 0.044	1.691AsnLys: 1.691 ± 0.037	3.9AsnLeu: 3.9 ± 0.079	0.825AsnMet: 0.825 ± 0.025	1.555AsnAsn: 1.555 ± 0.047	2.234AsnPro: 2.234 ± 0.044	1.046AsnGln: 1.046 ± 0.032	2.263AsnArg: 2.263 ± 0.042	2.227AsnSer: 2.227 ± 0.057	1.924AsnThr: 1.924 ± 0.053	2.636AsnVal: 2.636 ± 0.049	0.446AsnTrp: 0.446 ± 0.018	1.229AsnTyr: 1.229 ± 0.032	0.0AsnXaa: 0.0 ± 0.0
Pro	4.516ProAla: 4.516 ± 0.071	0.437ProCys: 0.437 ± 0.017	2.657ProAsp: 2.657 ± 0.043	3.229ProGlu: 3.229 ± 0.05	2.02ProPhe: 2.02 ± 0.041	3.555ProGly: 3.555 ± 0.057	0.89ProHis: 0.89 ± 0.028	2.077ProIle: 2.077 ± 0.039	1.808ProLys: 1.808 ± 0.043	4.572ProLeu: 4.572 ± 0.066	0.937ProMet: 0.937 ± 0.027	1.321ProAsn: 1.321 ± 0.03	2.046ProPro: 2.046 ± 0.046	1.427ProGln: 1.427 ± 0.03	1.96ProArg: 1.96 ± 0.042	2.369ProSer: 2.369 ± 0.051	2.3ProThr: 2.3 ± 0.054	3.804ProVal: 3.804 ± 0.062	0.49ProTrp: 0.49 ± 0.019	1.33ProTyr: 1.33 ± 0.03	0.0ProXaa: 0.0 ± 0.0
Gln	2.964GlnAla: 2.964 ± 0.056	0.316GlnCys: 0.316 ± 0.019	1.341GlnAsp: 1.341 ± 0.035	2.12GlnGlu: 2.12 ± 0.049	1.12GlnPhe: 1.12 ± 0.03	2.278GlnGly: 2.278 ± 0.043	0.568GlnHis: 0.568 ± 0.02	1.892GlnIle: 1.892 ± 0.038	1.819GlnLys: 1.819 ± 0.04	2.953GlnLeu: 2.953 ± 0.048	0.861GlnMet: 0.861 ± 0.025	1.111GlnAsn: 1.111 ± 0.029	1.274GlnPro: 1.274 ± 0.032	1.2GlnGln: 1.2 ± 0.035	1.908GlnArg: 1.908 ± 0.038	1.722GlnSer: 1.722 ± 0.039	1.566GlnThr: 1.566 ± 0.036	2.299GlnVal: 2.299 ± 0.045	0.316GlnTrp: 0.316 ± 0.015	0.782GlnTyr: 0.782 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	4.021ArgAla: 4.021 ± 0.066	0.695ArgCys: 0.695 ± 0.023	2.984ArgAsp: 2.984 ± 0.047	4.581ArgGlu: 4.581 ± 0.08	2.692ArgPhe: 2.692 ± 0.053	3.678ArgGly: 3.678 ± 0.053	1.247ArgHis: 1.247 ± 0.027	4.029ArgIle: 4.029 ± 0.054	3.299ArgLys: 3.299 ± 0.058	6.34ArgLeu: 6.34 ± 0.085	1.601ArgMet: 1.601 ± 0.038	2.133ArgAsn: 2.133 ± 0.036	2.079ArgPro: 2.079 ± 0.043	2.154ArgGln: 2.154 ± 0.05	3.498ArgArg: 3.498 ± 0.069	3.05ArgSer: 3.05 ± 0.052	2.6ArgThr: 2.6 ± 0.037	3.875ArgVal: 3.875 ± 0.063	0.648ArgTrp: 0.648 ± 0.024	1.908ArgTyr: 1.908 ± 0.039	0.0ArgXaa: 0.0 ± 0.0
Ser	5.426SerAla: 5.426 ± 0.086	0.926SerCys: 0.926 ± 0.037	3.001SerAsp: 3.001 ± 0.05	3.074SerGlu: 3.074 ± 0.057	2.826SerPhe: 2.826 ± 0.05	5.751SerGly: 5.751 ± 0.099	1.254SerHis: 1.254 ± 0.034	3.703SerIle: 3.703 ± 0.056	2.346SerLys: 2.346 ± 0.035	6.171SerLeu: 6.171 ± 0.066	1.408SerMet: 1.408 ± 0.032	1.982SerAsn: 1.982 ± 0.055	2.77SerPro: 2.77 ± 0.05	1.799SerGln: 1.799 ± 0.035	3.49SerArg: 3.49 ± 0.059	3.84SerSer: 3.84 ± 0.078	3.143SerThr: 3.143 ± 0.073	4.086SerVal: 4.086 ± 0.065	0.673SerTrp: 0.673 ± 0.023	1.863SerTyr: 1.863 ± 0.044	0.0SerXaa: 0.0 ± 0.0
Thr	5.674ThrAla: 5.674 ± 0.111	0.728ThrCys: 0.728 ± 0.036	2.855ThrAsp: 2.855 ± 0.061	2.866ThrGlu: 2.866 ± 0.055	2.389ThrPhe: 2.389 ± 0.054	5.363ThrGly: 5.363 ± 0.099	0.918ThrHis: 0.918 ± 0.028	3.839ThrIle: 3.839 ± 0.069	2.185ThrLys: 2.185 ± 0.044	5.681ThrLeu: 5.681 ± 0.071	1.231ThrMet: 1.231 ± 0.032	1.937ThrAsn: 1.937 ± 0.057	3.054ThrPro: 3.054 ± 0.06	1.284ThrGln: 1.284 ± 0.033	2.557ThrArg: 2.557 ± 0.05	3.326ThrSer: 3.326 ± 0.068	3.417ThrThr: 3.417 ± 0.111	4.73ThrVal: 4.73 ± 0.091	0.579ThrTrp: 0.579 ± 0.025	1.533ThrTyr: 1.533 ± 0.051	0.0ThrXaa: 0.0 ± 0.0
Val	7.056ValAla: 7.056 ± 0.065	0.912ValCys: 0.912 ± 0.024	3.862ValAsp: 3.862 ± 0.056	4.695ValGlu: 4.695 ± 0.071	2.771ValPhe: 2.771 ± 0.045	4.996ValGly: 4.996 ± 0.07	1.234ValHis: 1.234 ± 0.032	4.636ValIle: 4.636 ± 0.056	4.207ValLys: 4.207 ± 0.058	6.473ValLeu: 6.473 ± 0.075	1.803ValMet: 1.803 ± 0.041	2.826ValAsn: 2.826 ± 0.05	3.085ValPro: 3.085 ± 0.048	2.049ValGln: 2.049 ± 0.037	3.981ValArg: 3.981 ± 0.061	4.64ValSer: 4.64 ± 0.07	4.771ValThr: 4.771 ± 0.094	5.655ValVal: 5.655 ± 0.085	0.67ValTrp: 0.67 ± 0.024	1.933ValTyr: 1.933 ± 0.04	0.0ValXaa: 0.0 ± 0.0
Trp	0.684TrpAla: 0.684 ± 0.028	0.126TrpCys: 0.126 ± 0.01	0.515TrpAsp: 0.515 ± 0.02	0.614TrpGlu: 0.614 ± 0.022	0.414TrpPhe: 0.414 ± 0.018	0.846TrpGly: 0.846 ± 0.031	0.238TrpHis: 0.238 ± 0.012	0.527TrpIle: 0.527 ± 0.019	0.559TrpLys: 0.559 ± 0.026	1.169TrpLeu: 1.169 ± 0.033	0.266TrpMet: 0.266 ± 0.015	0.452TrpAsn: 0.452 ± 0.021	0.375TrpPro: 0.375 ± 0.019	0.491TrpGln: 0.491 ± 0.02	0.66TrpArg: 0.66 ± 0.022	0.671TrpSer: 0.671 ± 0.026	0.524TrpThr: 0.524 ± 0.027	0.657TrpVal: 0.657 ± 0.023	0.148TrpTrp: 0.148 ± 0.009	0.334TrpTyr: 0.334 ± 0.018	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.413TyrAla: 2.413 ± 0.045	0.465TyrCys: 0.465 ± 0.024	1.723TyrAsp: 1.723 ± 0.045	1.558TyrGlu: 1.558 ± 0.033	1.379TyrPhe: 1.379 ± 0.037	2.471TyrGly: 2.471 ± 0.047	0.64TyrHis: 0.64 ± 0.021	1.438TyrIle: 1.438 ± 0.033	1.284TyrLys: 1.284 ± 0.037	3.241TyrLeu: 3.241 ± 0.047	0.566TyrMet: 0.566 ± 0.02	1.204TyrAsn: 1.204 ± 0.033	1.471TyrPro: 1.471 ± 0.036	1.057TyrGln: 1.057 ± 0.027	2.138TyrArg: 2.138 ± 0.046	1.838TyrSer: 1.838 ± 0.041	1.595TyrThr: 1.595 ± 0.052	1.775TyrVal: 1.775 ± 0.039	0.356TyrTrp: 0.356 ± 0.016	1.085TyrTyr: 1.085 ± 0.033	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 4255 proteins (1447873 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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