Amino acid dipepetide frequency for Pseudomonas fluorescens (strain SBW25)

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	12.286AlaAla: 12.286 ± 0.1	1.17AlaCys: 1.17 ± 0.025	5.827AlaAsp: 5.827 ± 0.058	6.348AlaGlu: 6.348 ± 0.065	3.884AlaPhe: 3.884 ± 0.05	8.668AlaGly: 8.668 ± 0.086	2.297AlaHis: 2.297 ± 0.035	5.352AlaIle: 5.352 ± 0.058	4.086AlaLys: 4.086 ± 0.06	13.638AlaLeu: 13.638 ± 0.103	2.863AlaMet: 2.863 ± 0.037	3.046AlaAsn: 3.046 ± 0.04	4.726AlaPro: 4.726 ± 0.054	5.362AlaGln: 5.362 ± 0.068	6.464AlaArg: 6.464 ± 0.061	6.181AlaSer: 6.181 ± 0.051	5.063AlaThr: 5.063 ± 0.055	7.571AlaVal: 7.571 ± 0.059	1.602AlaTrp: 1.602 ± 0.027	2.666AlaTyr: 2.666 ± 0.042	0.0AlaXaa: 0.0 ± 0.0
Cys	1.071CysAla: 1.071 ± 0.024	0.131CysCys: 0.131 ± 0.008	0.524CysAsp: 0.524 ± 0.015	0.517CysGlu: 0.517 ± 0.016	0.348CysPhe: 0.348 ± 0.013	0.891CysGly: 0.891 ± 0.022	0.261CysHis: 0.261 ± 0.012	0.446CysIle: 0.446 ± 0.015	0.297CysLys: 0.297 ± 0.012	1.089CysLeu: 1.089 ± 0.023	0.212CysMet: 0.212 ± 0.011	0.276CysAsn: 0.276 ± 0.011	0.454CysPro: 0.454 ± 0.015	0.364CysGln: 0.364 ± 0.013	0.578CysArg: 0.578 ± 0.022	0.625CysSer: 0.625 ± 0.018	0.493CysThr: 0.493 ± 0.017	0.722CysVal: 0.722 ± 0.02	0.157CysTrp: 0.157 ± 0.009	0.255CysTyr: 0.255 ± 0.011	0.0CysXaa: 0.0 ± 0.0
Asp	5.688AspAla: 5.688 ± 0.059	0.503AspCys: 0.503 ± 0.016	2.871AspAsp: 2.871 ± 0.042	3.3AspGlu: 3.3 ± 0.046	2.11AspPhe: 2.11 ± 0.033	4.414AspGly: 4.414 ± 0.053	1.225AspHis: 1.225 ± 0.024	2.691AspIle: 2.691 ± 0.034	1.97AspLys: 1.97 ± 0.041	5.937AspLeu: 5.937 ± 0.061	1.178AspMet: 1.178 ± 0.026	1.689AspAsn: 1.689 ± 0.041	2.804AspPro: 2.804 ± 0.045	2.182AspGln: 2.182 ± 0.034	2.965AspArg: 2.965 ± 0.042	2.957AspSer: 2.957 ± 0.039	2.598AspThr: 2.598 ± 0.033	3.757AspVal: 3.757 ± 0.047	0.928AspTrp: 0.928 ± 0.025	1.729AspTyr: 1.729 ± 0.03	0.0AspXaa: 0.0 ± 0.0
Glu	6.152GluAla: 6.152 ± 0.072	0.43GluCys: 0.43 ± 0.015	2.454GluAsp: 2.454 ± 0.037	2.806GluGlu: 2.806 ± 0.043	1.78GluPhe: 1.78 ± 0.031	3.78GluGly: 3.78 ± 0.045	1.709GluHis: 1.709 ± 0.033	2.687GluIle: 2.687 ± 0.035	2.114GluLys: 2.114 ± 0.034	6.427GluLeu: 6.427 ± 0.063	1.297GluMet: 1.297 ± 0.025	1.474GluAsn: 1.474 ± 0.029	2.466GluPro: 2.466 ± 0.037	3.514GluGln: 3.514 ± 0.049	4.399GluArg: 4.399 ± 0.053	2.697GluSer: 2.697 ± 0.041	2.606GluThr: 2.606 ± 0.039	3.995GluVal: 3.995 ± 0.051	0.761GluTrp: 0.761 ± 0.021	1.238GluTyr: 1.238 ± 0.026	0.0GluXaa: 0.0 ± 0.0
Phe	4.039PheAla: 4.039 ± 0.051	0.441PheCys: 0.441 ± 0.013	2.462PheAsp: 2.462 ± 0.03	2.15PheGlu: 2.15 ± 0.034	1.492PhePhe: 1.492 ± 0.032	3.223PheGly: 3.223 ± 0.045	0.751PheHis: 0.751 ± 0.02	1.876PheIle: 1.876 ± 0.027	1.383PheLys: 1.383 ± 0.027	3.304PheLeu: 3.304 ± 0.046	0.874PheMet: 0.874 ± 0.021	1.471PheAsn: 1.471 ± 0.029	1.47PhePro: 1.47 ± 0.028	1.229PheGln: 1.229 ± 0.023	1.776PheArg: 1.776 ± 0.027	2.687PheSer: 2.687 ± 0.037	2.033PheThr: 2.033 ± 0.031	2.532PheVal: 2.532 ± 0.037	0.584PheTrp: 0.584 ± 0.019	1.056PheTyr: 1.056 ± 0.023	0.0PheXaa: 0.0 ± 0.0
Gly	7.318GlyAla: 7.318 ± 0.072	0.929GlyCys: 0.929 ± 0.024	3.938GlyAsp: 3.938 ± 0.048	4.404GlyGlu: 4.404 ± 0.049	3.475GlyPhe: 3.475 ± 0.039	5.927GlyGly: 5.927 ± 0.08	1.83GlyHis: 1.83 ± 0.03	4.14GlyIle: 4.14 ± 0.044	3.488GlyLys: 3.488 ± 0.04	9.235GlyLeu: 9.235 ± 0.08	2.133GlyMet: 2.133 ± 0.031	2.47GlyAsn: 2.47 ± 0.041	2.658GlyPro: 2.658 ± 0.035	3.531GlyGln: 3.531 ± 0.051	4.603GlyArg: 4.603 ± 0.051	4.608GlySer: 4.608 ± 0.059	3.918GlyThr: 3.918 ± 0.055	6.138GlyVal: 6.138 ± 0.066	1.321GlyTrp: 1.321 ± 0.025	2.469GlyTyr: 2.469 ± 0.04	0.0GlyXaa: 0.0 ± 0.0
His	2.286HisAla: 2.286 ± 0.035	0.312HisCys: 0.312 ± 0.014	1.243HisAsp: 1.243 ± 0.028	1.151HisGlu: 1.151 ± 0.026	0.995HisPhe: 0.995 ± 0.022	1.921HisGly: 1.921 ± 0.034	0.663HisHis: 0.663 ± 0.023	1.038HisIle: 1.038 ± 0.024	0.662HisLys: 0.662 ± 0.016	2.677HisLeu: 2.677 ± 0.037	0.527HisMet: 0.527 ± 0.016	0.679HisAsn: 0.679 ± 0.018	1.432HisPro: 1.432 ± 0.029	0.977HisGln: 0.977 ± 0.023	1.338HisArg: 1.338 ± 0.025	1.348HisSer: 1.348 ± 0.027	1.105HisThr: 1.105 ± 0.025	1.452HisVal: 1.452 ± 0.023	0.463HisTrp: 0.463 ± 0.017	0.755HisTyr: 0.755 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	5.952IleAla: 5.952 ± 0.055	0.513IleCys: 0.513 ± 0.017	3.251IleAsp: 3.251 ± 0.039	3.292IleGlu: 3.292 ± 0.043	1.488IlePhe: 1.488 ± 0.031	4.634IleGly: 4.634 ± 0.058	0.984IleHis: 0.984 ± 0.02	2.152IleIle: 2.152 ± 0.038	1.902IleLys: 1.902 ± 0.03	4.194IleLeu: 4.194 ± 0.049	0.85IleMet: 0.85 ± 0.022	1.876IleAsn: 1.876 ± 0.028	2.286IlePro: 2.286 ± 0.036	1.727IleGln: 1.727 ± 0.031	2.779IleArg: 2.779 ± 0.044	3.245IleSer: 3.245 ± 0.045	2.718IleThr: 2.718 ± 0.038	3.219IleVal: 3.219 ± 0.049	0.563IleTrp: 0.563 ± 0.016	1.157IleTyr: 1.157 ± 0.019	0.0IleXaa: 0.0 ± 0.0
Lys	4.385LysAla: 4.385 ± 0.049	0.205LysCys: 0.205 ± 0.01	1.95LysAsp: 1.95 ± 0.031	1.734LysGlu: 1.734 ± 0.034	0.953LysPhe: 0.953 ± 0.021	2.824LysGly: 2.824 ± 0.045	0.883LysHis: 0.883 ± 0.021	1.739LysIle: 1.739 ± 0.03	1.429LysLys: 1.429 ± 0.033	3.879LysLeu: 3.879 ± 0.042	0.783LysMet: 0.783 ± 0.022	1.151LysAsn: 1.151 ± 0.022	2.236LysPro: 2.236 ± 0.041	1.652LysGln: 1.652 ± 0.031	2.436LysArg: 2.436 ± 0.034	1.978LysSer: 1.978 ± 0.035	2.095LysThr: 2.095 ± 0.036	2.915LysVal: 2.915 ± 0.036	0.385LysTrp: 0.385 ± 0.013	0.747LysTyr: 0.747 ± 0.02	0.0LysXaa: 0.0 ± 0.0
Leu	13.675LeuAla: 13.675 ± 0.093	1.188LeuCys: 1.188 ± 0.027	6.58LeuAsp: 6.58 ± 0.075	6.22LeuGlu: 6.22 ± 0.056	4.122LeuPhe: 4.122 ± 0.052	9.009LeuGly: 9.009 ± 0.08	2.492LeuHis: 2.492 ± 0.042	5.726LeuIle: 5.726 ± 0.056	4.59LeuLys: 4.59 ± 0.048	12.854LeuLeu: 12.854 ± 0.104	2.671LeuMet: 2.671 ± 0.039	3.968LeuAsn: 3.968 ± 0.049	6.271LeuPro: 6.271 ± 0.066	4.573LeuGln: 4.573 ± 0.055	6.913LeuArg: 6.913 ± 0.065	7.575LeuSer: 7.575 ± 0.066	6.157LeuThr: 6.157 ± 0.06	7.768LeuVal: 7.768 ± 0.074	1.369LeuTrp: 1.369 ± 0.029	2.524LeuTyr: 2.524 ± 0.037	0.0LeuXaa: 0.0 ± 0.0
Met	2.578MetAla: 2.578 ± 0.034	0.188MetCys: 0.188 ± 0.01	1.034MetAsp: 1.034 ± 0.025	0.961MetGlu: 0.961 ± 0.02	0.73MetPhe: 0.73 ± 0.02	1.719MetGly: 1.719 ± 0.03	0.488MetHis: 0.488 ± 0.014	1.209MetIle: 1.209 ± 0.025	0.951MetLys: 0.951 ± 0.024	2.666MetLeu: 2.666 ± 0.036	0.566MetMet: 0.566 ± 0.019	0.914MetAsn: 0.914 ± 0.021	1.357MetPro: 1.357 ± 0.021	1.008MetGln: 1.008 ± 0.023	1.45MetArg: 1.45 ± 0.027	1.773MetSer: 1.773 ± 0.028	1.59MetThr: 1.59 ± 0.029	1.595MetVal: 1.595 ± 0.028	0.188MetTrp: 0.188 ± 0.01	0.382MetTyr: 0.382 ± 0.013	0.0MetXaa: 0.0 ± 0.0
Asn	3.383AsnAla: 3.383 ± 0.039	0.294AsnCys: 0.294 ± 0.012	1.69AsnAsp: 1.69 ± 0.028	1.485AsnGlu: 1.485 ± 0.031	1.066AsnPhe: 1.066 ± 0.027	2.717AsnGly: 2.717 ± 0.045	0.675AsnHis: 0.675 ± 0.017	1.516AsnIle: 1.516 ± 0.028	1.019AsnLys: 1.019 ± 0.022	3.62AsnLeu: 3.62 ± 0.051	0.609AsnMet: 0.609 ± 0.017	1.093AsnAsn: 1.093 ± 0.033	2.052AsnPro: 2.052 ± 0.031	1.315AsnGln: 1.315 ± 0.03	1.954AsnArg: 1.954 ± 0.034	1.755AsnSer: 1.755 ± 0.036	1.7AsnThr: 1.7 ± 0.033	2.137AsnVal: 2.137 ± 0.037	0.487AsnTrp: 0.487 ± 0.015	0.87AsnTyr: 0.87 ± 0.02	0.0AsnXaa: 0.0 ± 0.0
Pro	5.49ProAla: 5.49 ± 0.062	0.378ProCys: 0.378 ± 0.013	2.854ProAsp: 2.854 ± 0.041	3.089ProGlu: 3.089 ± 0.044	1.823ProPhe: 1.823 ± 0.027	3.858ProGly: 3.858 ± 0.047	1.121ProHis: 1.121 ± 0.025	2.192ProIle: 2.192 ± 0.031	1.769ProLys: 1.769 ± 0.03	5.701ProLeu: 5.701 ± 0.063	1.178ProMet: 1.178 ± 0.022	1.433ProAsn: 1.433 ± 0.027	2.039ProPro: 2.039 ± 0.037	2.3ProGln: 2.3 ± 0.034	2.414ProArg: 2.414 ± 0.036	2.799ProSer: 2.799 ± 0.039	2.505ProThr: 2.505 ± 0.038	3.867ProVal: 3.867 ± 0.048	0.738ProTrp: 0.738 ± 0.018	1.203ProTyr: 1.203 ± 0.023	0.0ProXaa: 0.0 ± 0.0
Gln	5.783GlnAla: 5.783 ± 0.07	0.311GlnCys: 0.311 ± 0.012	1.912GlnAsp: 1.912 ± 0.034	1.857GlnGlu: 1.857 ± 0.036	1.41GlnPhe: 1.41 ± 0.027	3.305GlnGly: 3.305 ± 0.05	1.124GlnHis: 1.124 ± 0.024	2.133GlnIle: 2.133 ± 0.031	1.41GlnLys: 1.41 ± 0.025	5.532GlnLeu: 5.532 ± 0.062	1.07GlnMet: 1.07 ± 0.024	1.148GlnAsn: 1.148 ± 0.024	2.358GlnPro: 2.358 ± 0.038	2.651GlnGln: 2.651 ± 0.047	3.509GlnArg: 3.509 ± 0.047	2.395GlnSer: 2.395 ± 0.036	2.112GlnThr: 2.112 ± 0.031	3.638GlnVal: 3.638 ± 0.047	0.708GlnTrp: 0.708 ± 0.018	0.98GlnTyr: 0.98 ± 0.024	0.0GlnXaa: 0.0 ± 0.0
Arg	5.686ArgAla: 5.686 ± 0.059	0.567ArgCys: 0.567 ± 0.017	3.298ArgAsp: 3.298 ± 0.042	3.859ArgGlu: 3.859 ± 0.049	2.644ArgPhe: 2.644 ± 0.04	3.822ArgGly: 3.822 ± 0.046	1.64ArgHis: 1.64 ± 0.03	3.219ArgIle: 3.219 ± 0.043	2.095ArgLys: 2.095 ± 0.035	7.838ArgLeu: 7.838 ± 0.077	1.563ArgMet: 1.563 ± 0.027	1.972ArgAsn: 1.972 ± 0.037	2.651ArgPro: 2.651 ± 0.035	3.146ArgGln: 3.146 ± 0.048	3.911ArgArg: 3.911 ± 0.049	3.403ArgSer: 3.403 ± 0.044	2.852ArgThr: 2.852 ± 0.035	4.277ArgVal: 4.277 ± 0.049	1.006ArgTrp: 1.006 ± 0.021	1.919ArgTyr: 1.919 ± 0.031	0.0ArgXaa: 0.0 ± 0.0
Ser	6.333SerAla: 6.333 ± 0.065	0.491SerCys: 0.491 ± 0.016	3.009SerAsp: 3.009 ± 0.044	3.018SerGlu: 3.018 ± 0.042	2.262SerPhe: 2.262 ± 0.034	5.216SerGly: 5.216 ± 0.067	1.364SerHis: 1.364 ± 0.027	2.917SerIle: 2.917 ± 0.043	2.011SerLys: 2.011 ± 0.033	7.25SerLeu: 7.25 ± 0.062	1.424SerMet: 1.424 ± 0.027	1.856SerAsn: 1.856 ± 0.031	2.821SerPro: 2.821 ± 0.033	2.522SerGln: 2.522 ± 0.034	3.542SerArg: 3.542 ± 0.04	3.644SerSer: 3.644 ± 0.057	3.214SerThr: 3.214 ± 0.042	4.364SerVal: 4.364 ± 0.047	0.798SerTrp: 0.798 ± 0.017	1.532SerTyr: 1.532 ± 0.029	0.0SerXaa: 0.0 ± 0.0
Thr	5.407ThrAla: 5.407 ± 0.05	0.46ThrCys: 0.46 ± 0.016	2.59ThrAsp: 2.59 ± 0.041	2.524ThrGlu: 2.524 ± 0.031	1.98ThrPhe: 1.98 ± 0.038	4.291ThrGly: 4.291 ± 0.052	1.182ThrHis: 1.182 ± 0.028	2.03ThrIle: 2.03 ± 0.03	1.304ThrLys: 1.304 ± 0.027	7.015ThrLeu: 7.015 ± 0.067	0.868ThrMet: 0.868 ± 0.021	1.335ThrAsn: 1.335 ± 0.027	3.323ThrPro: 3.323 ± 0.042	2.312ThrGln: 2.312 ± 0.03	3.153ThrArg: 3.153 ± 0.041	2.824ThrSer: 2.824 ± 0.037	2.682ThrThr: 2.682 ± 0.039	3.92ThrVal: 3.92 ± 0.048	0.763ThrTrp: 0.763 ± 0.018	1.316ThrTyr: 1.316 ± 0.027	0.0ThrXaa: 0.0 ± 0.0
Val	7.796ValAla: 7.796 ± 0.075	0.745ValCys: 0.745 ± 0.019	4.01ValAsp: 4.01 ± 0.046	4.282ValGlu: 4.282 ± 0.049	2.698ValPhe: 2.698 ± 0.034	5.338ValGly: 5.338 ± 0.059	1.403ValHis: 1.403 ± 0.023	4.014ValIle: 4.014 ± 0.054	2.508ValLys: 2.508 ± 0.039	8.167ValLeu: 8.167 ± 0.067	1.799ValMet: 1.799 ± 0.028	2.336ValAsn: 2.336 ± 0.038	3.376ValPro: 3.376 ± 0.038	2.86ValGln: 2.86 ± 0.038	4.235ValArg: 4.235 ± 0.052	4.65ValSer: 4.65 ± 0.046	3.833ValThr: 3.833 ± 0.048	5.585ValVal: 5.585 ± 0.059	0.904ValTrp: 0.904 ± 0.024	1.621ValTyr: 1.621 ± 0.029	0.0ValXaa: 0.0 ± 0.0
Trp	1.249TrpAla: 1.249 ± 0.023	0.157TrpCys: 0.157 ± 0.01	0.653TrpAsp: 0.653 ± 0.018	0.586TrpGlu: 0.586 ± 0.019	0.569TrpPhe: 0.569 ± 0.019	0.904TrpGly: 0.904 ± 0.021	0.381TrpHis: 0.381 ± 0.015	0.663TrpIle: 0.663 ± 0.017	0.511TrpLys: 0.511 ± 0.016	2.141TrpLeu: 2.141 ± 0.042	0.389TrpMet: 0.389 ± 0.013	0.489TrpAsn: 0.489 ± 0.014	0.664TrpPro: 0.664 ± 0.018	0.895TrpGln: 0.895 ± 0.022	1.025TrpArg: 1.025 ± 0.024	0.855TrpSer: 0.855 ± 0.022	0.658TrpThr: 0.658 ± 0.018	1.034TrpVal: 1.034 ± 0.025	0.23TrpTrp: 0.23 ± 0.012	0.341TrpTyr: 0.341 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.545TyrAla: 2.545 ± 0.034	0.297TyrCys: 0.297 ± 0.011	1.345TyrAsp: 1.345 ± 0.033	1.202TyrGlu: 1.202 ± 0.023	1.006TyrPhe: 1.006 ± 0.024	2.073TyrGly: 2.073 ± 0.033	0.552TyrHis: 0.552 ± 0.018	1.044TyrIle: 1.044 ± 0.022	0.861TyrLys: 0.861 ± 0.016	3.079TyrLeu: 3.079 ± 0.038	0.495TyrMet: 0.495 ± 0.017	0.762TyrAsn: 0.762 ± 0.02	1.307TyrPro: 1.307 ± 0.028	1.224TyrGln: 1.224 ± 0.026	1.925TyrArg: 1.925 ± 0.035	1.589TyrSer: 1.589 ± 0.03	1.345TyrThr: 1.345 ± 0.024	1.672TyrVal: 1.672 ± 0.034	0.437TyrTrp: 0.437 ± 0.016	0.701TyrTyr: 0.701 ± 0.02	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 6388 proteins (2089672 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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