Amino acid dipepetide frequency for Herbaspirillum seropedicae (strain SmR1)

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	17.304AlaAla: 17.304 ± 0.218	1.24AlaCys: 1.24 ± 0.034	6.302AlaAsp: 6.302 ± 0.083	6.171AlaGlu: 6.171 ± 0.077	3.819AlaPhe: 3.819 ± 0.059	9.981AlaGly: 9.981 ± 0.098	2.584AlaHis: 2.584 ± 0.051	5.823AlaIle: 5.823 ± 0.067	3.683AlaLys: 3.683 ± 0.069	14.196AlaLeu: 14.196 ± 0.139	3.457AlaMet: 3.457 ± 0.048	3.067AlaAsn: 3.067 ± 0.076	5.73AlaPro: 5.73 ± 0.09	6.152AlaGln: 6.152 ± 0.082	8.277AlaArg: 8.277 ± 0.093	7.265AlaSer: 7.265 ± 0.093	5.731AlaThr: 5.731 ± 0.072	8.165AlaVal: 8.165 ± 0.085	1.559AlaTrp: 1.559 ± 0.038	2.659AlaTyr: 2.659 ± 0.047	0.0AlaXaa: 0.0 ± 0.0
Cys	1.143CysAla: 1.143 ± 0.025	0.146CysCys: 0.146 ± 0.01	0.489CysAsp: 0.489 ± 0.022	0.452CysGlu: 0.452 ± 0.016	0.33CysPhe: 0.33 ± 0.016	0.881CysGly: 0.881 ± 0.024	0.258CysHis: 0.258 ± 0.014	0.419CysIle: 0.419 ± 0.017	0.235CysLys: 0.235 ± 0.012	0.844CysLeu: 0.844 ± 0.026	0.202CysMet: 0.202 ± 0.013	0.259CysAsn: 0.259 ± 0.013	0.423CysPro: 0.423 ± 0.019	0.303CysGln: 0.303 ± 0.015	0.581CysArg: 0.581 ± 0.02	0.563CysSer: 0.563 ± 0.021	0.442CysThr: 0.442 ± 0.017	0.658CysVal: 0.658 ± 0.023	0.121CysTrp: 0.121 ± 0.009	0.225CysTyr: 0.225 ± 0.012	0.0CysXaa: 0.0 ± 0.0
Asp	6.32AspAla: 6.32 ± 0.076	0.453AspCys: 0.453 ± 0.016	2.714AspAsp: 2.714 ± 0.048	3.116AspGlu: 3.116 ± 0.049	2.048AspPhe: 2.048 ± 0.039	4.316AspGly: 4.316 ± 0.079	1.119AspHis: 1.119 ± 0.031	2.779AspIle: 2.779 ± 0.045	2.006AspLys: 2.006 ± 0.049	5.237AspLeu: 5.237 ± 0.06	1.231AspMet: 1.231 ± 0.029	1.447AspAsn: 1.447 ± 0.037	2.645AspPro: 2.645 ± 0.044	1.967AspGln: 1.967 ± 0.036	2.909AspArg: 2.909 ± 0.037	2.481AspSer: 2.481 ± 0.047	2.507AspThr: 2.507 ± 0.058	3.716AspVal: 3.716 ± 0.047	0.831AspTrp: 0.831 ± 0.027	1.584AspTyr: 1.584 ± 0.034	0.0AspXaa: 0.0 ± 0.0
Glu	6.213GluAla: 6.213 ± 0.078	0.345GluCys: 0.345 ± 0.015	2.316GluAsp: 2.316 ± 0.041	3.193GluGlu: 3.193 ± 0.053	1.723GluPhe: 1.723 ± 0.04	3.675GluGly: 3.675 ± 0.054	1.369GluHis: 1.369 ± 0.031	3.111GluIle: 3.111 ± 0.056	2.284GluLys: 2.284 ± 0.046	5.915GluLeu: 5.915 ± 0.065	1.326GluMet: 1.326 ± 0.034	1.498GluAsn: 1.498 ± 0.03	2.05GluPro: 2.05 ± 0.038	3.21GluGln: 3.21 ± 0.05	4.192GluArg: 4.192 ± 0.066	2.511GluSer: 2.511 ± 0.04	2.435GluThr: 2.435 ± 0.042	3.909GluVal: 3.909 ± 0.055	0.632GluTrp: 0.632 ± 0.02	1.075GluTyr: 1.075 ± 0.027	0.0GluXaa: 0.0 ± 0.0
Phe	4.053PheAla: 4.053 ± 0.059	0.43PheCys: 0.43 ± 0.014	2.214PheAsp: 2.214 ± 0.038	1.833PheGlu: 1.833 ± 0.035	1.467PhePhe: 1.467 ± 0.04	3.277PheGly: 3.277 ± 0.051	0.75PheHis: 0.75 ± 0.022	1.798PheIle: 1.798 ± 0.036	1.241PheLys: 1.241 ± 0.032	3.234PheLeu: 3.234 ± 0.048	0.883PheMet: 0.883 ± 0.026	1.202PheAsn: 1.202 ± 0.028	1.534PhePro: 1.534 ± 0.028	1.137PheGln: 1.137 ± 0.026	1.776PheArg: 1.776 ± 0.032	2.483PheSer: 2.483 ± 0.043	1.834PheThr: 1.834 ± 0.033	2.565PheVal: 2.565 ± 0.042	0.51PheTrp: 0.51 ± 0.018	1.008PheTyr: 1.008 ± 0.025	0.0PheXaa: 0.0 ± 0.0
Gly	8.537GlyAla: 8.537 ± 0.104	0.751GlyCys: 0.751 ± 0.025	3.652GlyAsp: 3.652 ± 0.062	4.177GlyGlu: 4.177 ± 0.051	3.169GlyPhe: 3.169 ± 0.054	6.415GlyGly: 6.415 ± 0.1	1.776GlyHis: 1.776 ± 0.039	4.257GlyIle: 4.257 ± 0.069	3.736GlyLys: 3.736 ± 0.058	8.399GlyLeu: 8.399 ± 0.095	2.447GlyMet: 2.447 ± 0.034	2.589GlyAsn: 2.589 ± 0.07	2.743GlyPro: 2.743 ± 0.048	3.66GlyGln: 3.66 ± 0.056	5.081GlyArg: 5.081 ± 0.059	4.82GlySer: 4.82 ± 0.092	3.596GlyThr: 3.596 ± 0.068	6.256GlyVal: 6.256 ± 0.071	1.278GlyTrp: 1.278 ± 0.029	2.288GlyTyr: 2.288 ± 0.043	0.0GlyXaa: 0.0 ± 0.0
His	2.707HisAla: 2.707 ± 0.044	0.292HisCys: 0.292 ± 0.014	1.184HisAsp: 1.184 ± 0.027	1.091HisGlu: 1.091 ± 0.03	0.983HisPhe: 0.983 ± 0.024	2.051HisGly: 2.051 ± 0.04	0.723HisHis: 0.723 ± 0.025	1.036HisIle: 1.036 ± 0.024	0.611HisLys: 0.611 ± 0.02	2.274HisLeu: 2.274 ± 0.04	0.507HisMet: 0.507 ± 0.018	0.529HisAsn: 0.529 ± 0.017	1.48HisPro: 1.48 ± 0.036	0.951HisGln: 0.951 ± 0.028	1.396HisArg: 1.396 ± 0.035	1.096HisSer: 1.096 ± 0.025	1.012HisThr: 1.012 ± 0.027	1.444HisVal: 1.444 ± 0.031	0.387HisTrp: 0.387 ± 0.018	0.702HisTyr: 0.702 ± 0.021	0.0HisXaa: 0.0 ± 0.0
Ile	6.639IleAla: 6.639 ± 0.07	0.458IleCys: 0.458 ± 0.017	3.442IleAsp: 3.442 ± 0.052	3.044IleGlu: 3.044 ± 0.052	1.543IlePhe: 1.543 ± 0.035	4.623IleGly: 4.623 ± 0.063	0.939IleHis: 0.939 ± 0.025	2.149IleIle: 2.149 ± 0.046	1.891IleLys: 1.891 ± 0.043	4.152IleLeu: 4.152 ± 0.058	0.917IleMet: 0.917 ± 0.026	1.794IleAsn: 1.794 ± 0.042	2.256IlePro: 2.256 ± 0.04	1.426IleGln: 1.426 ± 0.031	2.817IleArg: 2.817 ± 0.046	3.197IleSer: 3.197 ± 0.054	2.71IleThr: 2.71 ± 0.046	3.763IleVal: 3.763 ± 0.06	0.536IleTrp: 0.536 ± 0.018	1.106IleTyr: 1.106 ± 0.027	0.0IleXaa: 0.0 ± 0.0
Lys	3.961LysAla: 3.961 ± 0.071	0.175LysCys: 0.175 ± 0.011	1.835LysAsp: 1.835 ± 0.047	1.966LysGlu: 1.966 ± 0.045	1.022LysPhe: 1.022 ± 0.029	2.386LysGly: 2.386 ± 0.049	0.663LysHis: 0.663 ± 0.023	1.982LysIle: 1.982 ± 0.042	1.73LysLys: 1.73 ± 0.046	3.996LysLeu: 3.996 ± 0.067	0.986LysMet: 0.986 ± 0.027	1.168LysAsn: 1.168 ± 0.032	2.109LysPro: 2.109 ± 0.042	1.492LysGln: 1.492 ± 0.036	2.177LysArg: 2.177 ± 0.044	2.067LysSer: 2.067 ± 0.044	2.015LysThr: 2.015 ± 0.04	2.678LysVal: 2.678 ± 0.053	0.374LysTrp: 0.374 ± 0.014	0.749LysTyr: 0.749 ± 0.025	0.0LysXaa: 0.0 ± 0.0
Leu	14.34LeuAla: 14.34 ± 0.142	1.056LeuCys: 1.056 ± 0.03	5.701LeuAsp: 5.701 ± 0.058	5.549LeuGlu: 5.549 ± 0.064	3.652LeuPhe: 3.652 ± 0.058	8.267LeuGly: 8.267 ± 0.089	2.474LeuHis: 2.474 ± 0.044	4.717LeuIle: 4.717 ± 0.061	3.849LeuLys: 3.849 ± 0.059	11.766LeuLeu: 11.766 ± 0.135	2.651LeuMet: 2.651 ± 0.045	3.062LeuAsn: 3.062 ± 0.047	6.22LeuPro: 6.22 ± 0.078	4.754LeuGln: 4.754 ± 0.065	7.35LeuArg: 7.35 ± 0.093	6.717LeuSer: 6.717 ± 0.065	5.431LeuThr: 5.431 ± 0.073	7.496LeuVal: 7.496 ± 0.074	1.216LeuTrp: 1.216 ± 0.032	2.335LeuTyr: 2.335 ± 0.036	0.0LeuXaa: 0.0 ± 0.0
Met	2.959MetAla: 2.959 ± 0.047	0.175MetCys: 0.175 ± 0.011	1.167MetAsp: 1.167 ± 0.026	1.241MetGlu: 1.241 ± 0.03	0.77MetPhe: 0.77 ± 0.021	1.833MetGly: 1.833 ± 0.039	0.569MetHis: 0.569 ± 0.018	1.136MetIle: 1.136 ± 0.032	1.118MetLys: 1.118 ± 0.027	2.909MetLeu: 2.909 ± 0.048	0.72MetMet: 0.72 ± 0.022	0.937MetAsn: 0.937 ± 0.024	1.449MetPro: 1.449 ± 0.033	1.334MetGln: 1.334 ± 0.031	1.714MetArg: 1.714 ± 0.037	1.927MetSer: 1.927 ± 0.036	1.481MetThr: 1.481 ± 0.033	1.667MetVal: 1.667 ± 0.037	0.198MetTrp: 0.198 ± 0.011	0.408MetTyr: 0.408 ± 0.016	0.0MetXaa: 0.0 ± 0.0
Asn	3.606AsnAla: 3.606 ± 0.078	0.251AsnCys: 0.251 ± 0.012	1.526AsnAsp: 1.526 ± 0.037	1.321AsnGlu: 1.321 ± 0.033	1.063AsnPhe: 1.063 ± 0.025	2.642AsnGly: 2.642 ± 0.065	0.571AsnHis: 0.571 ± 0.02	1.545AsnIle: 1.545 ± 0.039	1.036AsnLys: 1.036 ± 0.032	3.012AsnLeu: 3.012 ± 0.044	0.677AsnMet: 0.677 ± 0.024	0.964AsnAsn: 0.964 ± 0.039	1.741AsnPro: 1.741 ± 0.034	1.101AsnGln: 1.101 ± 0.026	1.697AsnArg: 1.697 ± 0.036	1.463AsnSer: 1.463 ± 0.034	1.595AsnThr: 1.595 ± 0.044	2.089AsnVal: 2.089 ± 0.045	0.441AsnTrp: 0.441 ± 0.015	0.783AsnTyr: 0.783 ± 0.026	0.0AsnXaa: 0.0 ± 0.0
Pro	6.743ProAla: 6.743 ± 0.1	0.344ProCys: 0.344 ± 0.014	2.911ProAsp: 2.911 ± 0.048	2.978ProGlu: 2.978 ± 0.046	1.642ProPhe: 1.642 ± 0.032	4.02ProGly: 4.02 ± 0.052	1.144ProHis: 1.144 ± 0.03	1.95ProIle: 1.95 ± 0.039	1.442ProLys: 1.442 ± 0.038	5.232ProLeu: 5.232 ± 0.066	1.223ProMet: 1.223 ± 0.031	1.232ProAsn: 1.232 ± 0.03	2.4ProPro: 2.4 ± 0.052	2.365ProGln: 2.365 ± 0.049	2.631ProArg: 2.631 ± 0.049	2.754ProSer: 2.754 ± 0.038	2.382ProThr: 2.382 ± 0.047	3.882ProVal: 3.882 ± 0.061	0.648ProTrp: 0.648 ± 0.021	1.204ProTyr: 1.204 ± 0.027	0.0ProXaa: 0.0 ± 0.0
Gln	6.39GlnAla: 6.39 ± 0.091	0.3GlnCys: 0.3 ± 0.014	1.878GlnAsp: 1.878 ± 0.036	2.08GlnGlu: 2.08 ± 0.041	1.418GlnPhe: 1.418 ± 0.032	3.307GlnGly: 3.307 ± 0.047	1.142GlnHis: 1.142 ± 0.027	2.181GlnIle: 2.181 ± 0.04	1.366GlnLys: 1.366 ± 0.034	4.801GlnLeu: 4.801 ± 0.07	1.13GlnMet: 1.13 ± 0.028	1.087GlnAsn: 1.087 ± 0.033	2.243GlnPro: 2.243 ± 0.042	2.787GlnGln: 2.787 ± 0.054	3.581GlnArg: 3.581 ± 0.059	2.429GlnSer: 2.429 ± 0.042	2.083GlnThr: 2.083 ± 0.042	3.163GlnVal: 3.163 ± 0.043	0.732GlnTrp: 0.732 ± 0.024	1.024GlnTyr: 1.024 ± 0.028	0.0GlnXaa: 0.0 ± 0.0
Arg	6.976ArgAla: 6.976 ± 0.08	0.58ArgCys: 0.58 ± 0.019	3.241ArgAsp: 3.241 ± 0.045	3.876ArgGlu: 3.876 ± 0.053	2.516ArgPhe: 2.516 ± 0.041	4.118ArgGly: 4.118 ± 0.06	1.802ArgHis: 1.802 ± 0.04	3.769ArgIle: 3.769 ± 0.045	2.307ArgLys: 2.307 ± 0.042	7.408ArgLeu: 7.408 ± 0.094	1.851ArgMet: 1.851 ± 0.034	1.932ArgAsn: 1.932 ± 0.033	2.852ArgPro: 2.852 ± 0.047	3.508ArgGln: 3.508 ± 0.057	4.717ArgArg: 4.717 ± 0.078	3.635ArgSer: 3.635 ± 0.053	2.948ArgThr: 2.948 ± 0.043	4.251ArgVal: 4.251 ± 0.062	0.974ArgTrp: 0.974 ± 0.027	1.941ArgTyr: 1.941 ± 0.034	0.0ArgXaa: 0.0 ± 0.0
Ser	7.049SerAla: 7.049 ± 0.09	0.49SerCys: 0.49 ± 0.018	2.84SerAsp: 2.84 ± 0.046	2.78SerGlu: 2.78 ± 0.043	2.337SerPhe: 2.337 ± 0.046	5.381SerGly: 5.381 ± 0.075	1.297SerHis: 1.297 ± 0.026	2.838SerIle: 2.838 ± 0.046	1.871SerLys: 1.871 ± 0.042	6.438SerLeu: 6.438 ± 0.067	1.483SerMet: 1.483 ± 0.033	1.692SerAsn: 1.692 ± 0.043	2.91SerPro: 2.91 ± 0.046	2.243SerGln: 2.243 ± 0.042	3.572SerArg: 3.572 ± 0.047	3.887SerSer: 3.887 ± 0.072	3.155SerThr: 3.155 ± 0.058	4.111SerVal: 4.111 ± 0.051	0.791SerTrp: 0.791 ± 0.023	1.531SerTyr: 1.531 ± 0.031	0.0SerXaa: 0.0 ± 0.0
Thr	5.689ThrAla: 5.689 ± 0.077	0.385ThrCys: 0.385 ± 0.019	2.448ThrAsp: 2.448 ± 0.053	2.343ThrGlu: 2.343 ± 0.034	1.57ThrPhe: 1.57 ± 0.032	4.29ThrGly: 4.29 ± 0.077	1.101ThrHis: 1.101 ± 0.027	2.426ThrIle: 2.426 ± 0.049	1.261ThrLys: 1.261 ± 0.034	6.276ThrLeu: 6.276 ± 0.074	1.191ThrMet: 1.191 ± 0.028	1.285ThrAsn: 1.285 ± 0.035	3.282ThrPro: 3.282 ± 0.054	1.919ThrGln: 1.919 ± 0.035	3.092ThrArg: 3.092 ± 0.047	2.802ThrSer: 2.802 ± 0.053	2.681ThrThr: 2.681 ± 0.056	4.064ThrVal: 4.064 ± 0.063	0.579ThrTrp: 0.579 ± 0.021	1.154ThrTyr: 1.154 ± 0.026	0.0ThrXaa: 0.0 ± 0.0
Val	8.771ValAla: 8.771 ± 0.083	0.691ValCys: 0.691 ± 0.024	3.633ValAsp: 3.633 ± 0.049	3.977ValGlu: 3.977 ± 0.06	2.537ValPhe: 2.537 ± 0.041	5.261ValGly: 5.261 ± 0.068	1.326ValHis: 1.326 ± 0.032	3.886ValIle: 3.886 ± 0.05	2.616ValLys: 2.616 ± 0.051	7.87ValLeu: 7.87 ± 0.085	1.935ValMet: 1.935 ± 0.04	2.266ValAsn: 2.266 ± 0.052	3.257ValPro: 3.257 ± 0.053	2.904ValGln: 2.904 ± 0.05	4.639ValArg: 4.639 ± 0.058	4.459ValSer: 4.459 ± 0.049	3.967ValThr: 3.967 ± 0.058	5.814ValVal: 5.814 ± 0.064	0.836ValTrp: 0.836 ± 0.022	1.563ValTyr: 1.563 ± 0.032	0.0ValXaa: 0.0 ± 0.0
Trp	1.058TrpAla: 1.058 ± 0.03	0.14TrpCys: 0.14 ± 0.01	0.566TrpAsp: 0.566 ± 0.021	0.568TrpGlu: 0.568 ± 0.019	0.534TrpPhe: 0.534 ± 0.02	0.832TrpGly: 0.832 ± 0.024	0.358TrpHis: 0.358 ± 0.016	0.694TrpIle: 0.694 ± 0.023	0.469TrpLys: 0.469 ± 0.018	1.892TrpLeu: 1.892 ± 0.037	0.424TrpMet: 0.424 ± 0.018	0.432TrpAsn: 0.432 ± 0.017	0.581TrpPro: 0.581 ± 0.018	0.806TrpGln: 0.806 ± 0.026	1.153TrpArg: 1.153 ± 0.035	0.772TrpSer: 0.772 ± 0.022	0.626TrpThr: 0.626 ± 0.02	0.801TrpVal: 0.801 ± 0.023	0.222TrpTrp: 0.222 ± 0.014	0.314TrpTyr: 0.314 ± 0.016	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.705TyrAla: 2.705 ± 0.047	0.272TyrCys: 0.272 ± 0.013	1.367TyrAsp: 1.367 ± 0.031	1.225TyrGlu: 1.225 ± 0.031	1.087TyrPhe: 1.087 ± 0.028	2.069TyrGly: 2.069 ± 0.036	0.49TyrHis: 0.49 ± 0.017	0.907TyrIle: 0.907 ± 0.024	0.78TyrLys: 0.78 ± 0.027	2.752TyrLeu: 2.752 ± 0.043	0.469TyrMet: 0.469 ± 0.02	0.681TyrAsn: 0.681 ± 0.023	1.224TyrPro: 1.224 ± 0.029	1.103TyrGln: 1.103 ± 0.028	1.851TyrArg: 1.851 ± 0.036	1.366TyrSer: 1.366 ± 0.031	1.207TyrThr: 1.207 ± 0.03	1.718TyrVal: 1.718 ± 0.033	0.379TyrTrp: 0.379 ± 0.016	0.675TyrTyr: 0.675 ± 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 4732 proteins (1618924 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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