Amino acid dipepetide frequency for Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

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	12.671AlaAla: 12.671 ± 0.12	1.319AlaCys: 1.319 ± 0.034	5.845AlaAsp: 5.845 ± 0.069	6.918AlaGlu: 6.918 ± 0.067	3.917AlaPhe: 3.917 ± 0.058	9.074AlaGly: 9.074 ± 0.094	2.318AlaHis: 2.318 ± 0.042	5.101AlaIle: 5.101 ± 0.061	3.716AlaLys: 3.716 ± 0.056	13.891AlaLeu: 13.891 ± 0.106	3.016AlaMet: 3.016 ± 0.049	3.118AlaAsn: 3.118 ± 0.045	4.876AlaPro: 4.876 ± 0.078	5.315AlaGln: 5.315 ± 0.065	7.339AlaArg: 7.339 ± 0.082	6.346AlaSer: 6.346 ± 0.064	4.958AlaThr: 4.958 ± 0.097	7.678AlaVal: 7.678 ± 0.064	1.695AlaTrp: 1.695 ± 0.035	2.592AlaTyr: 2.592 ± 0.048	0.0AlaXaa: 0.0 ± 0.0
Cys	1.077CysAla: 1.077 ± 0.024	0.144CysCys: 0.144 ± 0.009	0.576CysAsp: 0.576 ± 0.02	0.56CysGlu: 0.56 ± 0.019	0.345CysPhe: 0.345 ± 0.014	0.93CysGly: 0.93 ± 0.025	0.307CysHis: 0.307 ± 0.014	0.433CysIle: 0.433 ± 0.019	0.304CysLys: 0.304 ± 0.014	1.193CysLeu: 1.193 ± 0.03	0.229CysMet: 0.229 ± 0.012	0.267CysAsn: 0.267 ± 0.012	0.524CysPro: 0.524 ± 0.018	0.456CysGln: 0.456 ± 0.017	0.687CysArg: 0.687 ± 0.021	0.621CysSer: 0.621 ± 0.02	0.5CysThr: 0.5 ± 0.018	0.709CysVal: 0.709 ± 0.021	0.172CysTrp: 0.172 ± 0.01	0.287CysTyr: 0.287 ± 0.014	0.0CysXaa: 0.0 ± 0.0
Asp	5.732AspAla: 5.732 ± 0.062	0.568AspCys: 0.568 ± 0.02	2.949AspAsp: 2.949 ± 0.044	3.438AspGlu: 3.438 ± 0.048	2.053AspPhe: 2.053 ± 0.039	4.464AspGly: 4.464 ± 0.084	1.222AspHis: 1.222 ± 0.028	2.587AspIle: 2.587 ± 0.042	1.932AspLys: 1.932 ± 0.042	5.834AspLeu: 5.834 ± 0.064	1.196AspMet: 1.196 ± 0.03	1.69AspAsn: 1.69 ± 0.031	2.873AspPro: 2.873 ± 0.037	2.247AspGln: 2.247 ± 0.04	3.127AspArg: 3.127 ± 0.051	2.853AspSer: 2.853 ± 0.045	2.433AspThr: 2.433 ± 0.049	3.517AspVal: 3.517 ± 0.059	0.953AspTrp: 0.953 ± 0.021	1.745AspTyr: 1.745 ± 0.034	0.0AspXaa: 0.0 ± 0.0
Glu	6.513GluAla: 6.513 ± 0.063	0.463GluCys: 0.463 ± 0.017	2.564GluAsp: 2.564 ± 0.044	2.993GluGlu: 2.993 ± 0.059	1.701GluPhe: 1.701 ± 0.036	4.167GluGly: 4.167 ± 0.053	1.727GluHis: 1.727 ± 0.032	2.554GluIle: 2.554 ± 0.047	2.025GluLys: 2.025 ± 0.031	6.785GluLeu: 6.785 ± 0.062	1.313GluMet: 1.313 ± 0.028	1.496GluAsn: 1.496 ± 0.044	2.517GluPro: 2.517 ± 0.038	3.86GluGln: 3.86 ± 0.05	4.835GluArg: 4.835 ± 0.07	2.495GluSer: 2.495 ± 0.042	2.465GluThr: 2.465 ± 0.036	4.208GluVal: 4.208 ± 0.05	0.707GluTrp: 0.707 ± 0.018	1.21GluTyr: 1.21 ± 0.028	0.0GluXaa: 0.0 ± 0.0
Phe	4.049PheAla: 4.049 ± 0.052	0.47PheCys: 0.47 ± 0.017	2.423PheAsp: 2.423 ± 0.037	2.136PheGlu: 2.136 ± 0.046	1.426PhePhe: 1.426 ± 0.033	3.133PheGly: 3.133 ± 0.052	0.722PheHis: 0.722 ± 0.019	1.807PheIle: 1.807 ± 0.035	1.282PheLys: 1.282 ± 0.029	3.157PheLeu: 3.157 ± 0.055	0.837PheMet: 0.837 ± 0.023	1.363PheAsn: 1.363 ± 0.03	1.425PhePro: 1.425 ± 0.027	1.203PheGln: 1.203 ± 0.025	1.755PheArg: 1.755 ± 0.036	2.452PheSer: 2.452 ± 0.038	1.975PheThr: 1.975 ± 0.041	2.509PheVal: 2.509 ± 0.043	0.554PheTrp: 0.554 ± 0.018	1.042PheTyr: 1.042 ± 0.024	0.0PheXaa: 0.0 ± 0.0
Gly	7.482GlyAla: 7.482 ± 0.078	0.962GlyCys: 0.962 ± 0.026	3.939GlyAsp: 3.939 ± 0.061	4.756GlyGlu: 4.756 ± 0.068	3.299GlyPhe: 3.299 ± 0.046	6.082GlyGly: 6.082 ± 0.102	1.965GlyHis: 1.965 ± 0.036	3.997GlyIle: 3.997 ± 0.053	3.508GlyLys: 3.508 ± 0.06	9.473GlyLeu: 9.473 ± 0.09	2.292GlyMet: 2.292 ± 0.047	2.591GlyAsn: 2.591 ± 0.074	2.649GlyPro: 2.649 ± 0.041	3.881GlyGln: 3.881 ± 0.054	5.01GlyArg: 5.01 ± 0.053	4.709GlySer: 4.709 ± 0.076	3.853GlyThr: 3.853 ± 0.103	6.036GlyVal: 6.036 ± 0.068	1.385GlyTrp: 1.385 ± 0.033	2.481GlyTyr: 2.481 ± 0.044	0.0GlyXaa: 0.0 ± 0.0
His	2.409HisAla: 2.409 ± 0.041	0.352HisCys: 0.352 ± 0.015	1.343HisAsp: 1.343 ± 0.034	1.272HisGlu: 1.272 ± 0.029	0.972HisPhe: 0.972 ± 0.026	2.105HisGly: 2.105 ± 0.035	0.624HisHis: 0.624 ± 0.02	0.99HisIle: 0.99 ± 0.027	0.687HisLys: 0.687 ± 0.02	2.694HisLeu: 2.694 ± 0.044	0.557HisMet: 0.557 ± 0.019	0.646HisAsn: 0.646 ± 0.021	1.397HisPro: 1.397 ± 0.031	1.006HisGln: 1.006 ± 0.023	1.396HisArg: 1.396 ± 0.028	1.313HisSer: 1.313 ± 0.024	1.023HisThr: 1.023 ± 0.024	1.477HisVal: 1.477 ± 0.032	0.471HisTrp: 0.471 ± 0.018	0.763HisTyr: 0.763 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	5.595IleAla: 5.595 ± 0.066	0.493IleCys: 0.493 ± 0.018	3.187IleAsp: 3.187 ± 0.042	3.201IleGlu: 3.201 ± 0.045	1.351IlePhe: 1.351 ± 0.029	4.374IleGly: 4.374 ± 0.06	0.932IleHis: 0.932 ± 0.024	2.002IleIle: 2.002 ± 0.038	1.71IleLys: 1.71 ± 0.039	3.872IleLeu: 3.872 ± 0.051	0.821IleMet: 0.821 ± 0.021	1.73IleAsn: 1.73 ± 0.038	2.158IlePro: 2.158 ± 0.035	1.512IleGln: 1.512 ± 0.031	2.751IleArg: 2.751 ± 0.041	2.821IleSer: 2.821 ± 0.042	2.636IleThr: 2.636 ± 0.079	3.056IleVal: 3.056 ± 0.048	0.479IleTrp: 0.479 ± 0.015	1.061IleTyr: 1.061 ± 0.027	0.0IleXaa: 0.0 ± 0.0
Lys	4.36LysAla: 4.36 ± 0.061	0.201LysCys: 0.201 ± 0.012	1.757LysAsp: 1.757 ± 0.036	1.651LysGlu: 1.651 ± 0.034	0.869LysPhe: 0.869 ± 0.024	2.724LysGly: 2.724 ± 0.045	0.822LysHis: 0.822 ± 0.022	1.476LysIle: 1.476 ± 0.037	1.248LysLys: 1.248 ± 0.033	3.648LysLeu: 3.648 ± 0.045	0.699LysMet: 0.699 ± 0.02	0.94LysAsn: 0.94 ± 0.025	2.104LysPro: 2.104 ± 0.037	1.548LysGln: 1.548 ± 0.03	2.427LysArg: 2.427 ± 0.039	1.666LysSer: 1.666 ± 0.033	1.711LysThr: 1.711 ± 0.041	2.894LysVal: 2.894 ± 0.05	0.363LysTrp: 0.363 ± 0.017	0.744LysTyr: 0.744 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	14.478LeuAla: 14.478 ± 0.101	1.227LeuCys: 1.227 ± 0.025	6.687LeuAsp: 6.687 ± 0.082	6.432LeuGlu: 6.432 ± 0.067	4.065LeuPhe: 4.065 ± 0.056	9.362LeuGly: 9.362 ± 0.08	2.574LeuHis: 2.574 ± 0.046	5.173LeuIle: 5.173 ± 0.06	4.166LeuLys: 4.166 ± 0.056	13.342LeuLeu: 13.342 ± 0.135	2.592LeuMet: 2.592 ± 0.042	3.465LeuAsn: 3.465 ± 0.052	6.359LeuPro: 6.359 ± 0.069	5.032LeuGln: 5.032 ± 0.061	7.637LeuArg: 7.637 ± 0.087	6.953LeuSer: 6.953 ± 0.065	5.636LeuThr: 5.636 ± 0.08	8.106LeuVal: 8.106 ± 0.08	1.401LeuTrp: 1.401 ± 0.035	2.593LeuTyr: 2.593 ± 0.044	0.0LeuXaa: 0.0 ± 0.0
Met	2.811MetAla: 2.811 ± 0.043	0.176MetCys: 0.176 ± 0.011	1.042MetAsp: 1.042 ± 0.026	0.977MetGlu: 0.977 ± 0.025	0.708MetPhe: 0.708 ± 0.022	1.722MetGly: 1.722 ± 0.034	0.509MetHis: 0.509 ± 0.017	1.134MetIle: 1.134 ± 0.028	0.874MetLys: 0.874 ± 0.024	2.724MetLeu: 2.724 ± 0.049	0.533MetMet: 0.533 ± 0.018	0.845MetAsn: 0.845 ± 0.02	1.414MetPro: 1.414 ± 0.03	1.033MetGln: 1.033 ± 0.023	1.605MetArg: 1.605 ± 0.032	1.719MetSer: 1.719 ± 0.031	1.412MetThr: 1.412 ± 0.031	1.605MetVal: 1.605 ± 0.033	0.207MetTrp: 0.207 ± 0.013	0.376MetTyr: 0.376 ± 0.014	0.0MetXaa: 0.0 ± 0.0
Asn	3.185AsnAla: 3.185 ± 0.051	0.296AsnCys: 0.296 ± 0.012	1.662AsnAsp: 1.662 ± 0.049	1.466AsnGlu: 1.466 ± 0.033	1.063AsnPhe: 1.063 ± 0.025	2.617AsnGly: 2.617 ± 0.059	0.676AsnHis: 0.676 ± 0.022	1.378AsnIle: 1.378 ± 0.033	0.909AsnLys: 0.909 ± 0.028	3.525AsnLeu: 3.525 ± 0.046	0.581AsnMet: 0.581 ± 0.019	0.992AsnAsn: 0.992 ± 0.045	1.98AsnPro: 1.98 ± 0.037	1.286AsnGln: 1.286 ± 0.028	1.915AsnArg: 1.915 ± 0.036	1.58AsnSer: 1.58 ± 0.033	1.422AsnThr: 1.422 ± 0.032	1.989AsnVal: 1.989 ± 0.049	0.474AsnTrp: 0.474 ± 0.017	0.828AsnTyr: 0.828 ± 0.024	0.0AsnXaa: 0.0 ± 0.0
Pro	5.88ProAla: 5.88 ± 0.071	0.41ProCys: 0.41 ± 0.016	2.751ProAsp: 2.751 ± 0.054	3.149ProGlu: 3.149 ± 0.045	1.794ProPhe: 1.794 ± 0.037	4.149ProGly: 4.149 ± 0.052	1.09ProHis: 1.09 ± 0.028	1.909ProIle: 1.909 ± 0.037	1.528ProLys: 1.528 ± 0.032	5.821ProLeu: 5.821 ± 0.06	1.184ProMet: 1.184 ± 0.031	1.359ProAsn: 1.359 ± 0.026	2.007ProPro: 2.007 ± 0.043	2.332ProGln: 2.332 ± 0.041	2.72ProArg: 2.72 ± 0.05	2.631ProSer: 2.631 ± 0.041	2.226ProThr: 2.226 ± 0.039	3.955ProVal: 3.955 ± 0.046	0.783ProTrp: 0.783 ± 0.025	1.255ProTyr: 1.255 ± 0.033	0.0ProXaa: 0.0 ± 0.0
Gln	6.565GlnAla: 6.565 ± 0.09	0.355GlnCys: 0.355 ± 0.017	1.862GlnAsp: 1.862 ± 0.035	1.883GlnGlu: 1.883 ± 0.038	1.332GlnPhe: 1.332 ± 0.03	3.72GlnGly: 3.72 ± 0.046	1.184GlnHis: 1.184 ± 0.028	1.975GlnIle: 1.975 ± 0.035	1.183GlnLys: 1.183 ± 0.029	5.664GlnLeu: 5.664 ± 0.066	1.048GlnMet: 1.048 ± 0.025	0.979GlnAsn: 0.979 ± 0.024	2.542GlnPro: 2.542 ± 0.047	2.873GlnGln: 2.873 ± 0.057	3.822GlnArg: 3.822 ± 0.067	2.173GlnSer: 2.173 ± 0.033	1.893GlnThr: 1.893 ± 0.045	3.999GlnVal: 3.999 ± 0.061	0.755GlnTrp: 0.755 ± 0.02	1.055GlnTyr: 1.055 ± 0.024	0.0GlnXaa: 0.0 ± 0.0
Arg	6.049ArgAla: 6.049 ± 0.076	0.635ArgCys: 0.635 ± 0.021	3.555ArgAsp: 3.555 ± 0.054	4.187ArgGlu: 4.187 ± 0.06	2.716ArgPhe: 2.716 ± 0.045	4.159ArgGly: 4.159 ± 0.049	1.873ArgHis: 1.873 ± 0.033	3.309ArgIle: 3.309 ± 0.045	2.181ArgLys: 2.181 ± 0.041	8.525ArgLeu: 8.525 ± 0.105	1.684ArgMet: 1.684 ± 0.03	2.072ArgAsn: 2.072 ± 0.037	2.828ArgPro: 2.828 ± 0.046	3.746ArgGln: 3.746 ± 0.064	4.427ArgArg: 4.427 ± 0.062	3.496ArgSer: 3.496 ± 0.053	2.827ArgThr: 2.827 ± 0.039	4.399ArgVal: 4.399 ± 0.053	1.047ArgTrp: 1.047 ± 0.025	2.093ArgTyr: 2.093 ± 0.046	0.0ArgXaa: 0.0 ± 0.0
Ser	5.947SerAla: 5.947 ± 0.066	0.501SerCys: 0.501 ± 0.016	2.88SerAsp: 2.88 ± 0.042	2.989SerGlu: 2.989 ± 0.039	2.143SerPhe: 2.143 ± 0.035	5.012SerGly: 5.012 ± 0.06	1.322SerHis: 1.322 ± 0.031	2.705SerIle: 2.705 ± 0.036	1.801SerLys: 1.801 ± 0.033	6.906SerLeu: 6.906 ± 0.072	1.379SerMet: 1.379 ± 0.028	1.706SerAsn: 1.706 ± 0.043	2.742SerPro: 2.742 ± 0.043	2.47SerGln: 2.47 ± 0.039	3.623SerArg: 3.623 ± 0.05	3.302SerSer: 3.302 ± 0.056	2.823SerThr: 2.823 ± 0.044	3.982SerVal: 3.982 ± 0.079	0.799SerTrp: 0.799 ± 0.021	1.447SerTyr: 1.447 ± 0.033	0.0SerXaa: 0.0 ± 0.0
Thr	5.111ThrAla: 5.111 ± 0.088	0.476ThrCys: 0.476 ± 0.016	2.409ThrAsp: 2.409 ± 0.06	2.364ThrGlu: 2.364 ± 0.044	1.855ThrPhe: 1.855 ± 0.055	4.154ThrGly: 4.154 ± 0.063	1.055ThrHis: 1.055 ± 0.027	1.935ThrIle: 1.935 ± 0.072	1.123ThrLys: 1.123 ± 0.03	6.594ThrLeu: 6.594 ± 0.091	0.828ThrMet: 0.828 ± 0.024	1.178ThrAsn: 1.178 ± 0.038	3.081ThrPro: 3.081 ± 0.072	1.948ThrGln: 1.948 ± 0.033	3.027ThrArg: 3.027 ± 0.047	2.658ThrSer: 2.658 ± 0.051	2.43ThrThr: 2.43 ± 0.053	3.731ThrVal: 3.731 ± 0.133	0.71ThrTrp: 0.71 ± 0.021	1.287ThrTyr: 1.287 ± 0.031	0.0ThrXaa: 0.0 ± 0.0
Val	7.986ValAla: 7.986 ± 0.076	0.789ValCys: 0.789 ± 0.023	3.987ValAsp: 3.987 ± 0.058	4.461ValGlu: 4.461 ± 0.055	2.556ValPhe: 2.556 ± 0.038	5.4ValGly: 5.4 ± 0.071	1.534ValHis: 1.534 ± 0.029	3.693ValIle: 3.693 ± 0.049	2.404ValLys: 2.404 ± 0.047	8.256ValLeu: 8.256 ± 0.082	1.777ValMet: 1.777 ± 0.038	2.156ValAsn: 2.156 ± 0.036	3.432ValPro: 3.432 ± 0.039	2.869ValGln: 2.869 ± 0.041	4.524ValArg: 4.524 ± 0.05	4.331ValSer: 4.331 ± 0.055	3.848ValThr: 3.848 ± 0.146	5.656ValVal: 5.656 ± 0.083	0.877ValTrp: 0.877 ± 0.024	1.642ValTyr: 1.642 ± 0.039	0.0ValXaa: 0.0 ± 0.0
Trp	1.278TrpAla: 1.278 ± 0.029	0.168TrpCys: 0.168 ± 0.011	0.593TrpAsp: 0.593 ± 0.019	0.578TrpGlu: 0.578 ± 0.016	0.551TrpPhe: 0.551 ± 0.019	0.946TrpGly: 0.946 ± 0.023	0.43TrpHis: 0.43 ± 0.015	0.614TrpIle: 0.614 ± 0.019	0.462TrpLys: 0.462 ± 0.018	2.253TrpLeu: 2.253 ± 0.042	0.373TrpMet: 0.373 ± 0.016	0.444TrpAsn: 0.444 ± 0.017	0.683TrpPro: 0.683 ± 0.023	0.946TrpGln: 0.946 ± 0.024	1.162TrpArg: 1.162 ± 0.028	0.824TrpSer: 0.824 ± 0.022	0.595TrpThr: 0.595 ± 0.02	1.034TrpVal: 1.034 ± 0.023	0.229TrpTrp: 0.229 ± 0.012	0.343TrpTyr: 0.343 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.524TyrAla: 2.524 ± 0.047	0.316TyrCys: 0.316 ± 0.015	1.403TyrAsp: 1.403 ± 0.039	1.187TyrGlu: 1.187 ± 0.03	1.005TyrPhe: 1.005 ± 0.025	2.056TyrGly: 2.056 ± 0.039	0.61TyrHis: 0.61 ± 0.022	0.97TyrIle: 0.97 ± 0.025	0.811TyrLys: 0.811 ± 0.025	3.122TyrLeu: 3.122 ± 0.046	0.486TyrMet: 0.486 ± 0.018	0.789TyrAsn: 0.789 ± 0.03	1.343TyrPro: 1.343 ± 0.029	1.3TyrGln: 1.3 ± 0.028	2.019TyrArg: 2.019 ± 0.039	1.535TyrSer: 1.535 ± 0.036	1.288TyrThr: 1.288 ± 0.042	1.637TyrVal: 1.637 ± 0.03	0.444TyrTrp: 0.444 ± 0.016	0.708TyrTyr: 0.708 ± 0.023	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 5527 proteins (1810253 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

---