Amino acid dipepetide frequency for Pseudomonas knackmussii (strain DSM 6978 / LMG 23759 / B13)

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	13.919AlaAla: 13.919 ± 0.135	1.334AlaCys: 1.334 ± 0.03	6.151AlaAsp: 6.151 ± 0.064	7.909AlaGlu: 7.909 ± 0.101	3.92AlaPhe: 3.92 ± 0.057	9.67AlaGly: 9.67 ± 0.087	2.304AlaHis: 2.304 ± 0.034	5.008AlaIle: 5.008 ± 0.065	3.799AlaLys: 3.799 ± 0.061	14.339AlaLeu: 14.339 ± 0.121	2.99AlaMet: 2.99 ± 0.044	2.956AlaAsn: 2.956 ± 0.048	5.171AlaPro: 5.171 ± 0.067	5.13AlaGln: 5.13 ± 0.067	7.871AlaArg: 7.871 ± 0.076	6.386AlaSer: 6.386 ± 0.061	4.754AlaThr: 4.754 ± 0.057	7.58AlaVal: 7.58 ± 0.075	1.751AlaTrp: 1.751 ± 0.034	2.581AlaTyr: 2.581 ± 0.038	0.0AlaXaa: 0.0 ± 0.0
Cys	1.182CysAla: 1.182 ± 0.031	0.149CysCys: 0.149 ± 0.009	0.53CysAsp: 0.53 ± 0.017	0.586CysGlu: 0.586 ± 0.017	0.354CysPhe: 0.354 ± 0.015	1.007CysGly: 1.007 ± 0.024	0.295CysHis: 0.295 ± 0.014	0.433CysIle: 0.433 ± 0.015	0.268CysLys: 0.268 ± 0.013	1.188CysLeu: 1.188 ± 0.024	0.199CysMet: 0.199 ± 0.01	0.256CysAsn: 0.256 ± 0.013	0.528CysPro: 0.528 ± 0.017	0.391CysGln: 0.391 ± 0.015	0.717CysArg: 0.717 ± 0.022	0.624CysSer: 0.624 ± 0.018	0.448CysThr: 0.448 ± 0.014	0.667CysVal: 0.667 ± 0.022	0.153CysTrp: 0.153 ± 0.009	0.246CysTyr: 0.246 ± 0.011	0.0CysXaa: 0.0 ± 0.0
Asp	6.143AspAla: 6.143 ± 0.065	0.589AspCys: 0.589 ± 0.018	2.907AspAsp: 2.907 ± 0.048	3.624AspGlu: 3.624 ± 0.048	2.124AspPhe: 2.124 ± 0.041	4.742AspGly: 4.742 ± 0.064	1.087AspHis: 1.087 ± 0.028	2.45AspIle: 2.45 ± 0.037	1.795AspLys: 1.795 ± 0.035	6.051AspLeu: 6.051 ± 0.063	1.2AspMet: 1.2 ± 0.026	1.504AspAsn: 1.504 ± 0.032	2.88AspPro: 2.88 ± 0.039	2.023AspGln: 2.023 ± 0.036	3.084AspArg: 3.084 ± 0.043	2.998AspSer: 2.998 ± 0.041	2.174AspThr: 2.174 ± 0.038	3.423AspVal: 3.423 ± 0.048	1.003AspTrp: 1.003 ± 0.023	1.715AspTyr: 1.715 ± 0.031	0.0AspXaa: 0.0 ± 0.0
Glu	7.048GluAla: 7.048 ± 0.095	0.442GluCys: 0.442 ± 0.015	2.542GluAsp: 2.542 ± 0.041	3.574GluGlu: 3.574 ± 0.065	1.778GluPhe: 1.778 ± 0.033	4.306GluGly: 4.306 ± 0.056	1.681GluHis: 1.681 ± 0.029	2.649GluIle: 2.649 ± 0.04	2.084GluLys: 2.084 ± 0.041	7.503GluLeu: 7.503 ± 0.087	1.295GluMet: 1.295 ± 0.027	1.454GluAsn: 1.454 ± 0.034	2.625GluPro: 2.625 ± 0.045	3.615GluGln: 3.615 ± 0.058	5.46GluArg: 5.46 ± 0.065	2.766GluSer: 2.766 ± 0.038	2.419GluThr: 2.419 ± 0.037	4.324GluVal: 4.324 ± 0.058	0.722GluTrp: 0.722 ± 0.023	1.247GluTyr: 1.247 ± 0.03	0.0GluXaa: 0.0 ± 0.0
Phe	4.282PheAla: 4.282 ± 0.061	0.471PheCys: 0.471 ± 0.016	2.423PheAsp: 2.423 ± 0.034	2.027PheGlu: 2.027 ± 0.033	1.356PhePhe: 1.356 ± 0.03	3.381PheGly: 3.381 ± 0.049	0.781PheHis: 0.781 ± 0.021	1.658PheIle: 1.658 ± 0.031	1.105PheLys: 1.105 ± 0.03	3.423PheLeu: 3.423 ± 0.058	0.732PheMet: 0.732 ± 0.02	1.201PheAsn: 1.201 ± 0.029	1.509PhePro: 1.509 ± 0.033	1.188PheGln: 1.188 ± 0.025	2.044PheArg: 2.044 ± 0.036	2.33PheSer: 2.33 ± 0.037	1.737PheThr: 1.737 ± 0.036	2.52PheVal: 2.52 ± 0.042	0.568PheTrp: 0.568 ± 0.019	1.0PheTyr: 1.0 ± 0.023	0.0PheXaa: 0.0 ± 0.0
Gly	7.972GlyAla: 7.972 ± 0.071	0.992GlyCys: 0.992 ± 0.024	4.161GlyAsp: 4.161 ± 0.059	5.281GlyGlu: 5.281 ± 0.065	3.349GlyPhe: 3.349 ± 0.051	6.55GlyGly: 6.55 ± 0.098	1.968GlyHis: 1.968 ± 0.034	3.982GlyIle: 3.982 ± 0.053	3.313GlyLys: 3.313 ± 0.054	9.576GlyLeu: 9.576 ± 0.077	2.297GlyMet: 2.297 ± 0.043	2.442GlyAsn: 2.442 ± 0.045	2.798GlyPro: 2.798 ± 0.039	3.708GlyGln: 3.708 ± 0.055	5.397GlyArg: 5.397 ± 0.049	4.729GlySer: 4.729 ± 0.055	3.726GlyThr: 3.726 ± 0.065	6.096GlyVal: 6.096 ± 0.059	1.406GlyTrp: 1.406 ± 0.033	2.513GlyTyr: 2.513 ± 0.042	0.0GlyXaa: 0.0 ± 0.0
His	2.382HisAla: 2.382 ± 0.039	0.31HisCys: 0.31 ± 0.014	1.231HisAsp: 1.231 ± 0.025	1.269HisGlu: 1.269 ± 0.028	0.998HisPhe: 0.998 ± 0.027	2.12HisGly: 2.12 ± 0.042	0.611HisHis: 0.611 ± 0.02	0.938HisIle: 0.938 ± 0.023	0.618HisLys: 0.618 ± 0.019	2.695HisLeu: 2.695 ± 0.045	0.534HisMet: 0.534 ± 0.019	0.546HisAsn: 0.546 ± 0.016	1.447HisPro: 1.447 ± 0.024	0.838HisGln: 0.838 ± 0.023	1.416HisArg: 1.416 ± 0.03	1.252HisSer: 1.252 ± 0.032	0.881HisThr: 0.881 ± 0.022	1.36HisVal: 1.36 ± 0.027	0.463HisTrp: 0.463 ± 0.017	0.783HisTyr: 0.783 ± 0.023	0.0HisXaa: 0.0 ± 0.0
Ile	5.65IleAla: 5.65 ± 0.06	0.469IleCys: 0.469 ± 0.014	3.05IleAsp: 3.05 ± 0.041	3.075IleGlu: 3.075 ± 0.042	1.303IlePhe: 1.303 ± 0.028	4.292IleGly: 4.292 ± 0.052	0.973IleHis: 0.973 ± 0.026	1.585IleIle: 1.585 ± 0.039	1.373IleLys: 1.373 ± 0.03	3.954IleLeu: 3.954 ± 0.062	0.677IleMet: 0.677 ± 0.019	1.412IleAsn: 1.412 ± 0.03	2.206IlePro: 2.206 ± 0.033	1.467IleGln: 1.467 ± 0.03	2.936IleArg: 2.936 ± 0.049	2.526IleSer: 2.526 ± 0.042	2.178IleThr: 2.178 ± 0.038	2.885IleVal: 2.885 ± 0.05	0.473IleTrp: 0.473 ± 0.017	1.081IleTyr: 1.081 ± 0.025	0.0IleXaa: 0.0 ± 0.0
Lys	3.987LysAla: 3.987 ± 0.059	0.179LysCys: 0.179 ± 0.011	1.662LysAsp: 1.662 ± 0.034	1.604LysGlu: 1.604 ± 0.033	0.806LysPhe: 0.806 ± 0.023	2.547LysGly: 2.547 ± 0.037	0.703LysHis: 0.703 ± 0.019	1.38LysIle: 1.38 ± 0.035	1.155LysLys: 1.155 ± 0.03	3.68LysLeu: 3.68 ± 0.053	0.652LysMet: 0.652 ± 0.02	0.888LysAsn: 0.888 ± 0.024	2.04LysPro: 2.04 ± 0.043	1.424LysGln: 1.424 ± 0.03	2.382LysArg: 2.382 ± 0.039	1.591LysSer: 1.591 ± 0.036	1.614LysThr: 1.614 ± 0.038	2.651LysVal: 2.651 ± 0.043	0.334LysTrp: 0.334 ± 0.016	0.682LysTyr: 0.682 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	15.487LeuAla: 15.487 ± 0.107	1.317LeuCys: 1.317 ± 0.03	7.108LeuAsp: 7.108 ± 0.074	6.79LeuGlu: 6.79 ± 0.079	4.278LeuPhe: 4.278 ± 0.056	9.869LeuGly: 9.869 ± 0.078	2.545LeuHis: 2.545 ± 0.042	4.937LeuIle: 4.937 ± 0.061	4.026LeuLys: 4.026 ± 0.054	14.602LeuLeu: 14.602 ± 0.133	2.402LeuMet: 2.402 ± 0.04	3.255LeuAsn: 3.255 ± 0.04	6.668LeuPro: 6.668 ± 0.07	4.899LeuGln: 4.899 ± 0.063	8.295LeuArg: 8.295 ± 0.079	6.955LeuSer: 6.955 ± 0.064	5.206LeuThr: 5.206 ± 0.062	8.278LeuVal: 8.278 ± 0.086	1.452LeuTrp: 1.452 ± 0.034	2.67LeuTyr: 2.67 ± 0.04	0.0LeuXaa: 0.0 ± 0.0
Met	2.54MetAla: 2.54 ± 0.039	0.156MetCys: 0.156 ± 0.008	1.032MetAsp: 1.032 ± 0.022	0.897MetGlu: 0.897 ± 0.023	0.648MetPhe: 0.648 ± 0.018	1.633MetGly: 1.633 ± 0.033	0.505MetHis: 0.505 ± 0.018	0.996MetIle: 0.996 ± 0.027	0.856MetLys: 0.856 ± 0.021	2.6MetLeu: 2.6 ± 0.043	0.435MetMet: 0.435 ± 0.016	0.827MetAsn: 0.827 ± 0.02	1.372MetPro: 1.372 ± 0.028	1.039MetGln: 1.039 ± 0.026	1.645MetArg: 1.645 ± 0.031	1.698MetSer: 1.698 ± 0.026	1.292MetThr: 1.292 ± 0.028	1.462MetVal: 1.462 ± 0.031	0.177MetTrp: 0.177 ± 0.011	0.368MetTyr: 0.368 ± 0.015	0.0MetXaa: 0.0 ± 0.0
Asn	3.13AsnAla: 3.13 ± 0.044	0.292AsnCys: 0.292 ± 0.014	1.467AsnAsp: 1.467 ± 0.037	1.299AsnGlu: 1.299 ± 0.026	1.019AsnPhe: 1.019 ± 0.026	2.588AsnGly: 2.588 ± 0.05	0.603AsnHis: 0.603 ± 0.018	1.248AsnIle: 1.248 ± 0.024	0.79AsnLys: 0.79 ± 0.02	3.408AsnLeu: 3.408 ± 0.039	0.533AsnMet: 0.533 ± 0.017	0.787AsnAsn: 0.787 ± 0.026	1.881AsnPro: 1.881 ± 0.035	1.147AsnGln: 1.147 ± 0.027	1.839AsnArg: 1.839 ± 0.034	1.358AsnSer: 1.358 ± 0.027	1.254AsnThr: 1.254 ± 0.033	1.833AsnVal: 1.833 ± 0.034	0.429AsnTrp: 0.429 ± 0.016	0.795AsnTyr: 0.795 ± 0.022	0.0AsnXaa: 0.0 ± 0.0
Pro	6.244ProAla: 6.244 ± 0.068	0.384ProCys: 0.384 ± 0.017	2.808ProAsp: 2.808 ± 0.041	3.445ProGlu: 3.445 ± 0.046	1.813ProPhe: 1.813 ± 0.03	4.235ProGly: 4.235 ± 0.049	1.101ProHis: 1.101 ± 0.025	1.879ProIle: 1.879 ± 0.033	1.531ProLys: 1.531 ± 0.035	6.098ProLeu: 6.098 ± 0.067	1.154ProMet: 1.154 ± 0.027	1.351ProAsn: 1.351 ± 0.034	2.22ProPro: 2.22 ± 0.046	2.433ProGln: 2.433 ± 0.038	2.976ProArg: 2.976 ± 0.045	2.713ProSer: 2.713 ± 0.037	2.183ProThr: 2.183 ± 0.033	3.755ProVal: 3.755 ± 0.042	0.782ProTrp: 0.782 ± 0.024	1.231ProTyr: 1.231 ± 0.024	0.0ProXaa: 0.0 ± 0.0
Gln	5.935GlnAla: 5.935 ± 0.068	0.332GlnCys: 0.332 ± 0.014	1.807GlnAsp: 1.807 ± 0.032	1.955GlnGlu: 1.955 ± 0.041	1.303GlnPhe: 1.303 ± 0.029	3.404GlnGly: 3.404 ± 0.047	1.075GlnHis: 1.075 ± 0.03	1.783GlnIle: 1.783 ± 0.035	1.2GlnLys: 1.2 ± 0.027	5.445GlnLeu: 5.445 ± 0.067	1.025GlnMet: 1.025 ± 0.025	0.995GlnAsn: 0.995 ± 0.026	2.547GlnPro: 2.547 ± 0.038	2.524GlnGln: 2.524 ± 0.052	3.969GlnArg: 3.969 ± 0.055	2.107GlnSer: 2.107 ± 0.036	1.75GlnThr: 1.75 ± 0.033	3.507GlnVal: 3.507 ± 0.051	0.667GlnTrp: 0.667 ± 0.02	0.958GlnTyr: 0.958 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	6.86ArgAla: 6.86 ± 0.068	0.657ArgCys: 0.657 ± 0.023	3.733ArgAsp: 3.733 ± 0.053	4.869ArgGlu: 4.869 ± 0.07	2.842ArgPhe: 2.842 ± 0.039	4.499ArgGly: 4.499 ± 0.054	1.834ArgHis: 1.834 ± 0.036	3.388ArgIle: 3.388 ± 0.043	2.111ArgLys: 2.111 ± 0.037	9.301ArgLeu: 9.301 ± 0.083	1.696ArgMet: 1.696 ± 0.029	1.929ArgAsn: 1.929 ± 0.034	3.138ArgPro: 3.138 ± 0.047	3.658ArgGln: 3.658 ± 0.057	5.138ArgArg: 5.138 ± 0.071	3.47ArgSer: 3.47 ± 0.048	2.788ArgThr: 2.788 ± 0.04	4.687ArgVal: 4.687 ± 0.052	1.118ArgTrp: 1.118 ± 0.028	2.136ArgTyr: 2.136 ± 0.036	0.0ArgXaa: 0.0 ± 0.0
Ser	6.167SerAla: 6.167 ± 0.058	0.499SerCys: 0.499 ± 0.018	2.75SerAsp: 2.75 ± 0.045	2.968SerGlu: 2.968 ± 0.045	2.166SerPhe: 2.166 ± 0.037	5.238SerGly: 5.238 ± 0.066	1.278SerHis: 1.278 ± 0.024	2.57SerIle: 2.57 ± 0.042	1.578SerLys: 1.578 ± 0.032	7.108SerLeu: 7.108 ± 0.069	1.243SerMet: 1.243 ± 0.022	1.585SerAsn: 1.585 ± 0.034	2.681SerPro: 2.681 ± 0.04	2.197SerGln: 2.197 ± 0.04	3.656SerArg: 3.656 ± 0.041	3.286SerSer: 3.286 ± 0.055	2.622SerThr: 2.622 ± 0.047	3.81SerVal: 3.81 ± 0.048	0.773SerTrp: 0.773 ± 0.019	1.399SerTyr: 1.399 ± 0.03	0.0SerXaa: 0.0 ± 0.0
Thr	4.779ThrAla: 4.779 ± 0.052	0.482ThrCys: 0.482 ± 0.017	2.239ThrAsp: 2.239 ± 0.044	2.108ThrGlu: 2.108 ± 0.035	1.628ThrPhe: 1.628 ± 0.032	3.833ThrGly: 3.833 ± 0.056	0.963ThrHis: 0.963 ± 0.022	1.654ThrIle: 1.654 ± 0.037	0.998ThrLys: 0.998 ± 0.027	6.279ThrLeu: 6.279 ± 0.067	0.706ThrMet: 0.706 ± 0.019	1.084ThrAsn: 1.084 ± 0.028	3.068ThrPro: 3.068 ± 0.041	1.782ThrGln: 1.782 ± 0.033	3.017ThrArg: 3.017 ± 0.04	2.435ThrSer: 2.435 ± 0.046	2.212ThrThr: 2.212 ± 0.051	3.173ThrVal: 3.173 ± 0.057	0.707ThrTrp: 0.707 ± 0.021	1.198ThrTyr: 1.198 ± 0.029	0.0ThrXaa: 0.0 ± 0.0
Val	7.929ValAla: 7.929 ± 0.075	0.726ValCys: 0.726 ± 0.022	3.947ValAsp: 3.947 ± 0.049	4.478ValGlu: 4.478 ± 0.06	2.494ValPhe: 2.494 ± 0.037	5.281ValGly: 5.281 ± 0.057	1.438ValHis: 1.438 ± 0.029	3.463ValIle: 3.463 ± 0.055	2.137ValLys: 2.137 ± 0.043	8.388ValLeu: 8.388 ± 0.074	1.599ValMet: 1.599 ± 0.032	2.062ValAsn: 2.062 ± 0.046	3.464ValPro: 3.464 ± 0.045	2.689ValGln: 2.689 ± 0.036	4.673ValArg: 4.673 ± 0.06	4.05ValSer: 4.05 ± 0.057	3.387ValThr: 3.387 ± 0.049	5.259ValVal: 5.259 ± 0.06	0.849ValTrp: 0.849 ± 0.022	1.575ValTyr: 1.575 ± 0.027	0.0ValXaa: 0.0 ± 0.0
Trp	1.18TrpAla: 1.18 ± 0.031	0.159TrpCys: 0.159 ± 0.01	0.61TrpAsp: 0.61 ± 0.019	0.604TrpGlu: 0.604 ± 0.021	0.545TrpPhe: 0.545 ± 0.019	0.929TrpGly: 0.929 ± 0.024	0.382TrpHis: 0.382 ± 0.016	0.641TrpIle: 0.641 ± 0.022	0.497TrpLys: 0.497 ± 0.017	2.275TrpLeu: 2.275 ± 0.043	0.371TrpMet: 0.371 ± 0.013	0.476TrpAsn: 0.476 ± 0.016	0.692TrpPro: 0.692 ± 0.021	0.9TrpGln: 0.9 ± 0.024	1.206TrpArg: 1.206 ± 0.028	0.808TrpSer: 0.808 ± 0.027	0.623TrpThr: 0.623 ± 0.021	0.987TrpVal: 0.987 ± 0.025	0.254TrpTrp: 0.254 ± 0.013	0.372TrpTyr: 0.372 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.707TyrAla: 2.707 ± 0.043	0.283TyrCys: 0.283 ± 0.014	1.359TyrAsp: 1.359 ± 0.03	1.174TyrGlu: 1.174 ± 0.028	1.009TyrPhe: 1.009 ± 0.021	2.134TyrGly: 2.134 ± 0.039	0.564TyrHis: 0.564 ± 0.016	0.922TyrIle: 0.922 ± 0.022	0.726TyrLys: 0.726 ± 0.02	3.124TyrLeu: 3.124 ± 0.047	0.436TyrMet: 0.436 ± 0.017	0.693TyrAsn: 0.693 ± 0.02	1.398TyrPro: 1.398 ± 0.031	1.235TyrGln: 1.235 ± 0.029	2.132TyrArg: 2.132 ± 0.037	1.489TyrSer: 1.489 ± 0.031	1.101TyrThr: 1.101 ± 0.027	1.632TyrVal: 1.632 ± 0.032	0.431TyrTrp: 0.431 ± 0.017	0.732TyrTyr: 0.732 ± 0.019	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 5616 proteins (1780795 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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