Amino acid dipepetide frequency for delta proteobacterium MLMS-1

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	16.075AlaAla: 16.075 ± 0.168	1.201AlaCys: 1.201 ± 0.029	6.295AlaAsp: 6.295 ± 0.089	7.902AlaGlu: 7.902 ± 0.088	3.016AlaPhe: 3.016 ± 0.047	10.255AlaGly: 10.255 ± 0.105	2.054AlaHis: 2.054 ± 0.041	5.142AlaIle: 5.142 ± 0.067	3.35AlaLys: 3.35 ± 0.056	11.313AlaLeu: 11.313 ± 0.099	2.712AlaMet: 2.712 ± 0.042	2.648AlaAsn: 2.648 ± 0.045	4.314AlaPro: 4.314 ± 0.055	3.36AlaGln: 3.36 ± 0.053	7.358AlaArg: 7.358 ± 0.079	4.391AlaSer: 4.391 ± 0.06	5.549AlaThr: 5.549 ± 0.073	7.326AlaVal: 7.326 ± 0.071	1.199AlaTrp: 1.199 ± 0.029	2.047AlaTyr: 2.047 ± 0.038	0.001AlaXaa: 0.001 ± 0.001
Cys	0.868CysAla: 0.868 ± 0.024	0.223CysCys: 0.223 ± 0.012	0.569CysAsp: 0.569 ± 0.019	0.559CysGlu: 0.559 ± 0.02	0.399CysPhe: 0.399 ± 0.017	1.189CysGly: 1.189 ± 0.03	0.464CysHis: 0.464 ± 0.023	0.382CysIle: 0.382 ± 0.017	0.325CysLys: 0.325 ± 0.016	1.236CysLeu: 1.236 ± 0.03	0.175CysMet: 0.175 ± 0.01	0.361CysAsn: 0.361 ± 0.016	0.852CysPro: 0.852 ± 0.033	0.55CysGln: 0.55 ± 0.02	1.273CysArg: 1.273 ± 0.038	0.556CysSer: 0.556 ± 0.02	0.41CysThr: 0.41 ± 0.015	0.544CysVal: 0.544 ± 0.018	0.166CysTrp: 0.166 ± 0.012	0.299CysTyr: 0.299 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	3.823AspAla: 3.823 ± 0.068	0.66AspCys: 0.66 ± 0.02	3.25AspAsp: 3.25 ± 0.054	3.91AspGlu: 3.91 ± 0.057	2.717AspPhe: 2.717 ± 0.042	4.369AspGly: 4.369 ± 0.066	1.487AspHis: 1.487 ± 0.033	3.003AspIle: 3.003 ± 0.049	2.001AspLys: 2.001 ± 0.037	6.126AspLeu: 6.126 ± 0.069	0.901AspMet: 0.901 ± 0.029	1.793AspAsn: 1.793 ± 0.041	3.274AspPro: 3.274 ± 0.051	2.355AspGln: 2.355 ± 0.046	3.546AspArg: 3.546 ± 0.05	2.434AspSer: 2.434 ± 0.047	2.172AspThr: 2.172 ± 0.059	2.215AspVal: 2.215 ± 0.048	0.771AspTrp: 0.771 ± 0.025	1.881AspTyr: 1.881 ± 0.033	0.0AspXaa: 0.0 ± 0.0
Glu	6.964GluAla: 6.964 ± 0.075	0.489GluCys: 0.489 ± 0.022	2.831GluAsp: 2.831 ± 0.046	5.286GluGlu: 5.286 ± 0.077	2.181GluPhe: 2.181 ± 0.041	4.067GluGly: 4.067 ± 0.065	1.46GluHis: 1.46 ± 0.031	4.702GluIle: 4.702 ± 0.055	3.054GluLys: 3.054 ± 0.05	9.344GluLeu: 9.344 ± 0.093	1.796GluMet: 1.796 ± 0.032	2.036GluAsn: 2.036 ± 0.039	3.113GluPro: 3.113 ± 0.058	3.984GluGln: 3.984 ± 0.057	4.688GluArg: 4.688 ± 0.067	2.91GluSer: 2.91 ± 0.042	3.004GluThr: 3.004 ± 0.051	5.178GluVal: 5.178 ± 0.065	0.599GluTrp: 0.599 ± 0.019	1.504GluTyr: 1.504 ± 0.031	0.0GluXaa: 0.0 ± 0.0
Phe	3.753PheAla: 3.753 ± 0.054	0.551PheCys: 0.551 ± 0.02	2.124PheAsp: 2.124 ± 0.041	1.852PheGlu: 1.852 ± 0.032	1.732PhePhe: 1.732 ± 0.039	2.624PheGly: 2.624 ± 0.043	0.876PheHis: 0.876 ± 0.025	1.853PheIle: 1.853 ± 0.036	1.371PheLys: 1.371 ± 0.028	3.707PheLeu: 3.707 ± 0.051	0.803PheMet: 0.803 ± 0.019	1.228PheAsn: 1.228 ± 0.028	1.591PhePro: 1.591 ± 0.038	1.296PheGln: 1.296 ± 0.031	2.213PheArg: 2.213 ± 0.039	2.399PheSer: 2.399 ± 0.04	2.163PheThr: 2.163 ± 0.039	2.111PheVal: 2.111 ± 0.039	0.479PheTrp: 0.479 ± 0.02	1.159PheTyr: 1.159 ± 0.027	0.0PheXaa: 0.0 ± 0.0
Gly	6.644GlyAla: 6.644 ± 0.086	1.126GlyCys: 1.126 ± 0.033	4.045GlyAsp: 4.045 ± 0.059	5.845GlyGlu: 5.845 ± 0.067	2.818GlyPhe: 2.818 ± 0.035	6.905GlyGly: 6.905 ± 0.084	1.887GlyHis: 1.887 ± 0.035	4.271GlyIle: 4.271 ± 0.056	3.538GlyLys: 3.538 ± 0.06	8.494GlyLeu: 8.494 ± 0.081	1.91GlyMet: 1.91 ± 0.039	2.288GlyAsn: 2.288 ± 0.04	2.995GlyPro: 2.995 ± 0.05	3.448GlyGln: 3.448 ± 0.052	6.657GlyArg: 6.657 ± 0.077	4.135GlySer: 4.135 ± 0.066	3.413GlyThr: 3.413 ± 0.065	5.445GlyVal: 5.445 ± 0.056	1.048GlyTrp: 1.048 ± 0.027	2.285GlyTyr: 2.285 ± 0.041	0.001GlyXaa: 0.001 ± 0.001
His	1.599HisAla: 1.599 ± 0.035	0.47HisCys: 0.47 ± 0.026	1.443HisAsp: 1.443 ± 0.036	1.228HisGlu: 1.228 ± 0.026	0.951HisPhe: 0.951 ± 0.022	2.067HisGly: 2.067 ± 0.036	0.916HisHis: 0.916 ± 0.028	1.03HisIle: 1.03 ± 0.026	0.676HisLys: 0.676 ± 0.023	2.726HisLeu: 2.726 ± 0.046	0.321HisMet: 0.321 ± 0.016	0.745HisAsn: 0.745 ± 0.02	1.592HisPro: 1.592 ± 0.034	1.16HisGln: 1.16 ± 0.025	2.074HisArg: 2.074 ± 0.044	1.035HisSer: 1.035 ± 0.025	0.879HisThr: 0.879 ± 0.025	0.933HisVal: 0.933 ± 0.024	0.374HisTrp: 0.374 ± 0.016	0.844HisTyr: 0.844 ± 0.023	0.001HisXaa: 0.001 ± 0.001
Ile	5.022IleAla: 5.022 ± 0.059	0.664IleCys: 0.664 ± 0.022	3.279IleAsp: 3.279 ± 0.05	3.314IleGlu: 3.314 ± 0.047	2.183IlePhe: 2.183 ± 0.039	3.883IleGly: 3.883 ± 0.054	1.217IleHis: 1.217 ± 0.025	2.888IleIle: 2.888 ± 0.045	2.258IleLys: 2.258 ± 0.039	4.902IleLeu: 4.902 ± 0.067	1.173IleMet: 1.173 ± 0.031	2.141IleAsn: 2.141 ± 0.039	2.447IlePro: 2.447 ± 0.046	1.527IleGln: 1.527 ± 0.032	3.434IleArg: 3.434 ± 0.052	3.213IleSer: 3.213 ± 0.046	2.955IleThr: 2.955 ± 0.048	2.872IleVal: 2.872 ± 0.049	0.489IleTrp: 0.489 ± 0.017	1.421IleTyr: 1.421 ± 0.035	0.0IleXaa: 0.0 ± 0.0
Lys	3.477LysAla: 3.477 ± 0.063	0.321LysCys: 0.321 ± 0.016	1.497LysAsp: 1.497 ± 0.033	2.626LysGlu: 2.626 ± 0.051	1.056LysPhe: 1.056 ± 0.026	2.584LysGly: 2.584 ± 0.044	0.657LysHis: 0.657 ± 0.02	2.341LysIle: 2.341 ± 0.043	2.137LysLys: 2.137 ± 0.049	3.833LysLeu: 3.833 ± 0.047	0.998LysMet: 0.998 ± 0.026	1.25LysAsn: 1.25 ± 0.03	1.872LysPro: 1.872 ± 0.033	1.382LysGln: 1.382 ± 0.033	2.475LysArg: 2.475 ± 0.042	2.059LysSer: 2.059 ± 0.041	1.891LysThr: 1.891 ± 0.037	2.484LysVal: 2.484 ± 0.041	0.358LysTrp: 0.358 ± 0.016	0.892LysTyr: 0.892 ± 0.029	0.001LysXaa: 0.001 ± 0.001
Leu	15.782LeuAla: 15.782 ± 0.129	1.066LeuCys: 1.066 ± 0.027	5.979LeuAsp: 5.979 ± 0.064	7.985LeuGlu: 7.985 ± 0.077	3.948LeuPhe: 3.948 ± 0.059	8.078LeuGly: 8.078 ± 0.091	2.351LeuHis: 2.351 ± 0.041	4.963LeuIle: 4.963 ± 0.064	4.077LeuLys: 4.077 ± 0.059	14.916LeuLeu: 14.916 ± 0.177	1.879LeuMet: 1.879 ± 0.036	3.218LeuAsn: 3.218 ± 0.052	6.619LeuPro: 6.619 ± 0.086	4.397LeuGln: 4.397 ± 0.06	7.834LeuArg: 7.834 ± 0.087	5.849LeuSer: 5.849 ± 0.069	5.673LeuThr: 5.673 ± 0.069	7.762LeuVal: 7.762 ± 0.068	1.067LeuTrp: 1.067 ± 0.031	2.568LeuTyr: 2.568 ± 0.046	0.002LeuXaa: 0.002 ± 0.001
Met	2.769MetAla: 2.769 ± 0.044	0.14MetCys: 0.14 ± 0.01	1.086MetAsp: 1.086 ± 0.025	1.477MetGlu: 1.477 ± 0.035	0.524MetPhe: 0.524 ± 0.018	1.716MetGly: 1.716 ± 0.039	0.361MetHis: 0.361 ± 0.016	1.128MetIle: 1.128 ± 0.03	0.918MetLys: 0.918 ± 0.024	2.288MetLeu: 2.288 ± 0.041	0.538MetMet: 0.538 ± 0.022	0.743MetAsn: 0.743 ± 0.02	1.134MetPro: 1.134 ± 0.03	0.767MetGln: 0.767 ± 0.023	1.315MetArg: 1.315 ± 0.031	1.219MetSer: 1.219 ± 0.025	1.153MetThr: 1.153 ± 0.028	1.777MetVal: 1.777 ± 0.034	0.133MetTrp: 0.133 ± 0.01	0.358MetTyr: 0.358 ± 0.013	0.001MetXaa: 0.001 ± 0.001
Asn	2.229AsnAla: 2.229 ± 0.044	0.379AsnCys: 0.379 ± 0.018	1.468AsnAsp: 1.468 ± 0.039	1.525AsnGlu: 1.525 ± 0.035	1.222AsnPhe: 1.222 ± 0.027	2.075AsnGly: 2.075 ± 0.04	0.75AsnHis: 0.75 ± 0.025	1.858AsnIle: 1.858 ± 0.041	0.939AsnLys: 0.939 ± 0.026	3.707AsnLeu: 3.707 ± 0.057	0.599AsnMet: 0.599 ± 0.02	1.016AsnAsn: 1.016 ± 0.031	1.988AsnPro: 1.988 ± 0.031	1.289AsnGln: 1.289 ± 0.033	2.427AsnArg: 2.427 ± 0.039	1.428AsnSer: 1.428 ± 0.032	1.257AsnThr: 1.257 ± 0.033	1.56AsnVal: 1.56 ± 0.043	0.422AsnTrp: 0.422 ± 0.018	0.832AsnTyr: 0.832 ± 0.024	0.001AsnXaa: 0.001 ± 0.001
Pro	6.788ProAla: 6.788 ± 0.086	0.526ProCys: 0.526 ± 0.021	2.966ProAsp: 2.966 ± 0.043	4.775ProGlu: 4.775 ± 0.062	1.786ProPhe: 1.786 ± 0.033	4.778ProGly: 4.778 ± 0.068	1.157ProHis: 1.157 ± 0.03	1.802ProIle: 1.802 ± 0.038	1.297ProLys: 1.297 ± 0.034	5.567ProLeu: 5.567 ± 0.074	0.957ProMet: 0.957 ± 0.024	1.035ProAsn: 1.035 ± 0.028	3.402ProPro: 3.402 ± 0.06	1.91ProGln: 1.91 ± 0.04	3.115ProArg: 3.115 ± 0.049	2.054ProSer: 2.054 ± 0.037	2.22ProThr: 2.22 ± 0.04	3.771ProVal: 3.771 ± 0.051	0.731ProTrp: 0.731 ± 0.026	1.229ProTyr: 1.229 ± 0.031	0.0ProXaa: 0.0 ± 0.0
Gln	5.203GlnAla: 5.203 ± 0.055	0.361GlnCys: 0.361 ± 0.017	1.672GlnAsp: 1.672 ± 0.037	2.875GlnGlu: 2.875 ± 0.052	1.095GlnPhe: 1.095 ± 0.028	3.238GlnGly: 3.238 ± 0.046	0.923GlnHis: 0.923 ± 0.025	1.837GlnIle: 1.837 ± 0.033	1.362GlnLys: 1.362 ± 0.029	5.142GlnLeu: 5.142 ± 0.072	0.778GlnMet: 0.778 ± 0.026	1.044GlnAsn: 1.044 ± 0.025	2.422GlnPro: 2.422 ± 0.046	2.922GlnGln: 2.922 ± 0.058	3.895GlnArg: 3.895 ± 0.058	1.828GlnSer: 1.828 ± 0.036	1.788GlnThr: 1.788 ± 0.036	2.976GlnVal: 2.976 ± 0.048	0.549GlnTrp: 0.549 ± 0.021	0.834GlnTyr: 0.834 ± 0.022	0.001GlnXaa: 0.001 ± 0.001
Arg	5.988ArgAla: 5.988 ± 0.073	0.788ArgCys: 0.788 ± 0.025	3.742ArgAsp: 3.742 ± 0.056	5.697ArgGlu: 5.697 ± 0.071	2.85ArgPhe: 2.85 ± 0.043	4.667ArgGly: 4.667 ± 0.056	2.114ArgHis: 2.114 ± 0.046	3.762ArgIle: 3.762 ± 0.046	2.607ArgLys: 2.607 ± 0.049	9.743ArgLeu: 9.743 ± 0.101	1.519ArgMet: 1.519 ± 0.035	1.786ArgAsn: 1.786 ± 0.034	3.587ArgPro: 3.587 ± 0.056	4.985ArgGln: 4.985 ± 0.066	6.972ArgArg: 6.972 ± 0.096	3.028ArgSer: 3.028 ± 0.049	2.538ArgThr: 2.538 ± 0.043	4.618ArgVal: 4.618 ± 0.06	0.872ArgTrp: 0.872 ± 0.028	2.133ArgTyr: 2.133 ± 0.039	0.001ArgXaa: 0.001 ± 0.001
Ser	4.517SerAla: 4.517 ± 0.053	0.687SerCys: 0.687 ± 0.023	2.379SerAsp: 2.379 ± 0.043	2.908SerGlu: 2.908 ± 0.045	2.042SerPhe: 2.042 ± 0.037	4.824SerGly: 4.824 ± 0.072	1.197SerHis: 1.197 ± 0.024	2.116SerIle: 2.116 ± 0.044	1.644SerLys: 1.644 ± 0.034	5.702SerLeu: 5.702 ± 0.063	1.09SerMet: 1.09 ± 0.03	1.304SerAsn: 1.304 ± 0.027	2.737SerPro: 2.737 ± 0.041	1.984SerGln: 1.984 ± 0.036	4.231SerArg: 4.231 ± 0.06	2.784SerSer: 2.784 ± 0.051	2.187SerThr: 2.187 ± 0.044	2.661SerVal: 2.661 ± 0.046	0.706SerTrp: 0.706 ± 0.02	1.404SerTyr: 1.404 ± 0.034	0.001SerXaa: 0.001 ± 0.001
Thr	5.521ThrAla: 5.521 ± 0.082	0.482ThrCys: 0.482 ± 0.02	2.335ThrAsp: 2.335 ± 0.057	2.484ThrGlu: 2.484 ± 0.046	1.599ThrPhe: 1.599 ± 0.036	4.383ThrGly: 4.383 ± 0.057	0.913ThrHis: 0.913 ± 0.027	2.985ThrIle: 2.985 ± 0.051	1.22ThrLys: 1.22 ± 0.029	5.31ThrLeu: 5.31 ± 0.071	1.272ThrMet: 1.272 ± 0.027	1.219ThrAsn: 1.219 ± 0.036	2.992ThrPro: 2.992 ± 0.043	1.102ThrGln: 1.102 ± 0.029	2.691ThrArg: 2.691 ± 0.048	2.255ThrSer: 2.255 ± 0.038	2.788ThrThr: 2.788 ± 0.058	3.84ThrVal: 3.84 ± 0.063	0.434ThrTrp: 0.434 ± 0.02	1.056ThrTyr: 1.056 ± 0.03	0.0ThrXaa: 0.0 ± 0.0
Val	7.718ValAla: 7.718 ± 0.093	0.752ValCys: 0.752 ± 0.028	3.776ValAsp: 3.776 ± 0.05	4.862ValGlu: 4.862 ± 0.06	2.253ValPhe: 2.253 ± 0.039	4.844ValGly: 4.844 ± 0.061	1.238ValHis: 1.238 ± 0.033	3.7ValIle: 3.7 ± 0.052	2.411ValLys: 2.411 ± 0.044	6.946ValLeu: 6.946 ± 0.078	1.534ValMet: 1.534 ± 0.037	2.058ValAsn: 2.058 ± 0.038	2.873ValPro: 2.873 ± 0.05	1.925ValGln: 1.925 ± 0.039	4.148ValArg: 4.148 ± 0.047	3.531ValSer: 3.531 ± 0.048	3.41ValThr: 3.41 ± 0.063	5.445ValVal: 5.445 ± 0.077	0.581ValTrp: 0.581 ± 0.021	1.526ValTyr: 1.526 ± 0.033	0.001ValXaa: 0.001 ± 0.001
Trp	0.795TrpAla: 0.795 ± 0.023	0.126TrpCys: 0.126 ± 0.01	0.486TrpAsp: 0.486 ± 0.018	0.709TrpGlu: 0.709 ± 0.022	0.433TrpPhe: 0.433 ± 0.016	0.734TrpGly: 0.734 ± 0.024	0.294TrpHis: 0.294 ± 0.015	0.444TrpIle: 0.444 ± 0.017	0.329TrpLys: 0.329 ± 0.017	1.774TrpLeu: 1.774 ± 0.043	0.216TrpMet: 0.216 ± 0.012	0.314TrpAsn: 0.314 ± 0.014	0.685TrpPro: 0.685 ± 0.024	0.892TrpGln: 0.892 ± 0.028	1.149TrpArg: 1.149 ± 0.031	0.623TrpSer: 0.623 ± 0.02	0.33TrpThr: 0.33 ± 0.015	0.678TrpVal: 0.678 ± 0.023	0.21TrpTrp: 0.21 ± 0.013	0.329TrpTyr: 0.329 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	1.972TyrAla: 1.972 ± 0.032	0.391TyrCys: 0.391 ± 0.018	1.464TyrAsp: 1.464 ± 0.032	1.372TyrGlu: 1.372 ± 0.025	1.081TyrPhe: 1.081 ± 0.026	1.917TyrGly: 1.917 ± 0.037	0.746TyrHis: 0.746 ± 0.025	1.074TyrIle: 1.074 ± 0.028	0.675TyrLys: 0.675 ± 0.022	3.238TyrLeu: 3.238 ± 0.049	0.373TyrMet: 0.373 ± 0.016	0.743TyrAsn: 0.743 ± 0.025	1.376TyrPro: 1.376 ± 0.031	1.511TyrGln: 1.511 ± 0.034	2.499TyrArg: 2.499 ± 0.046	1.373TyrSer: 1.373 ± 0.03	1.1TyrThr: 1.1 ± 0.027	1.332TyrVal: 1.332 ± 0.027	0.362TyrTrp: 0.362 ± 0.016	0.78TyrTyr: 0.78 ± 0.025	0.001TyrXaa: 0.001 ± 0.001
Xaa	0.002XaaAla: 0.002 ± 0.001	0.0XaaCys: 0.0 ± 0.0	0.0XaaAsp: 0.0 ± 0.0	0.0XaaGlu: 0.0 ± 0.0	0.0XaaPhe: 0.0 ± 0.0	0.001XaaGly: 0.001 ± 0.001	0.0XaaHis: 0.0 ± 0.0	0.0XaaIle: 0.0 ± 0.0	0.001XaaLys: 0.001 ± 0.001	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	0.003XaaArg: 0.003 ± 0.001	0.001XaaSer: 0.001 ± 0.001	0.001XaaThr: 0.001 ± 0.001	0.003XaaVal: 0.003 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.004XaaXaa: 0.004 ± 0.004

Statistics based on 4800 proteins (1571437 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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