Amino acid dipepetide frequency for Photobacterium profundum (strain SS9)

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	7.387AlaAla: 7.387 ± 0.091	0.986AlaCys: 0.986 ± 0.026	4.515AlaAsp: 4.515 ± 0.059	5.269AlaGlu: 5.269 ± 0.06	3.352AlaPhe: 3.352 ± 0.047	5.829AlaGly: 5.829 ± 0.069	1.589AlaHis: 1.589 ± 0.03	6.141AlaIle: 6.141 ± 0.067	4.649AlaLys: 4.649 ± 0.059	9.279AlaLeu: 9.279 ± 0.095	2.719AlaMet: 2.719 ± 0.041	3.646AlaAsn: 3.646 ± 0.051	2.721AlaPro: 2.721 ± 0.045	3.458AlaGln: 3.458 ± 0.048	3.45AlaArg: 3.45 ± 0.048	5.307AlaSer: 5.307 ± 0.053	4.646AlaThr: 4.646 ± 0.057	5.772AlaVal: 5.772 ± 0.069	0.986AlaTrp: 0.986 ± 0.025	2.323AlaTyr: 2.323 ± 0.038	0.003AlaXaa: 0.003 ± 0.002
Cys	0.828CysAla: 0.828 ± 0.025	0.224CysCys: 0.224 ± 0.012	0.692CysAsp: 0.692 ± 0.023	0.634CysGlu: 0.634 ± 0.021	0.513CysPhe: 0.513 ± 0.018	0.929CysGly: 0.929 ± 0.026	0.456CysHis: 0.456 ± 0.019	0.7CysIle: 0.7 ± 0.02	0.503CysLys: 0.503 ± 0.017	1.049CysLeu: 1.049 ± 0.028	0.279CysMet: 0.279 ± 0.012	0.449CysAsn: 0.449 ± 0.017	0.449CysPro: 0.449 ± 0.02	0.512CysGln: 0.512 ± 0.015	0.607CysArg: 0.607 ± 0.019	0.794CysSer: 0.794 ± 0.025	0.492CysThr: 0.492 ± 0.018	0.728CysVal: 0.728 ± 0.025	0.182CysTrp: 0.182 ± 0.01	0.395CysTyr: 0.395 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	4.32AspAla: 4.32 ± 0.052	0.597AspCys: 0.597 ± 0.022	3.266AspAsp: 3.266 ± 0.059	3.739AspGlu: 3.739 ± 0.058	2.402AspPhe: 2.402 ± 0.041	3.811AspGly: 3.811 ± 0.067	1.116AspHis: 1.116 ± 0.027	4.277AspIle: 4.277 ± 0.058	3.286AspLys: 3.286 ± 0.042	5.127AspLeu: 5.127 ± 0.064	1.45AspMet: 1.45 ± 0.03	2.665AspAsn: 2.665 ± 0.037	1.905AspPro: 1.905 ± 0.033	1.968AspGln: 1.968 ± 0.04	2.334AspArg: 2.334 ± 0.04	3.347AspSer: 3.347 ± 0.052	2.898AspThr: 2.898 ± 0.056	3.981AspVal: 3.981 ± 0.061	0.826AspTrp: 0.826 ± 0.022	1.978AspTyr: 1.978 ± 0.039	0.001AspXaa: 0.001 ± 0.001
Glu	4.931GluAla: 4.931 ± 0.054	0.604GluCys: 0.604 ± 0.023	2.74GluAsp: 2.74 ± 0.036	3.389GluGlu: 3.389 ± 0.058	2.166GluPhe: 2.166 ± 0.03	3.449GluGly: 3.449 ± 0.056	1.567GluHis: 1.567 ± 0.03	3.845GluIle: 3.845 ± 0.054	3.768GluLys: 3.768 ± 0.049	6.76GluLeu: 6.76 ± 0.075	1.669GluMet: 1.669 ± 0.032	2.594GluAsn: 2.594 ± 0.04	1.957GluPro: 1.957 ± 0.037	3.816GluGln: 3.816 ± 0.054	3.151GluArg: 3.151 ± 0.047	3.635GluSer: 3.635 ± 0.052	3.042GluThr: 3.042 ± 0.051	3.877GluVal: 3.877 ± 0.044	0.799GluTrp: 0.799 ± 0.022	1.801GluTyr: 1.801 ± 0.034	0.001GluXaa: 0.001 ± 0.001
Phe	3.368PheAla: 3.368 ± 0.049	0.562PheCys: 0.562 ± 0.018	2.757PheAsp: 2.757 ± 0.043	2.321PheGlu: 2.321 ± 0.037	1.807PhePhe: 1.807 ± 0.039	3.072PheGly: 3.072 ± 0.047	0.798PheHis: 0.798 ± 0.024	2.976PheIle: 2.976 ± 0.047	2.122PheLys: 2.122 ± 0.042	3.477PheLeu: 3.477 ± 0.053	1.063PheMet: 1.063 ± 0.027	2.158PheAsn: 2.158 ± 0.037	1.408PhePro: 1.408 ± 0.032	1.193PheGln: 1.193 ± 0.029	1.517PheArg: 1.517 ± 0.033	3.337PheSer: 3.337 ± 0.046	2.52PheThr: 2.52 ± 0.039	2.746PheVal: 2.746 ± 0.045	0.53PheTrp: 0.53 ± 0.02	1.3PheTyr: 1.3 ± 0.028	0.001PheXaa: 0.001 ± 0.001
Gly	5.044GlyAla: 5.044 ± 0.068	0.974GlyCys: 0.974 ± 0.027	3.574GlyAsp: 3.574 ± 0.066	3.982GlyGlu: 3.982 ± 0.054	3.187GlyPhe: 3.187 ± 0.044	4.579GlyGly: 4.579 ± 0.065	1.486GlyHis: 1.486 ± 0.03	5.033GlyIle: 5.033 ± 0.061	4.03GlyLys: 4.03 ± 0.05	6.832GlyLeu: 6.832 ± 0.077	2.054GlyMet: 2.054 ± 0.041	2.752GlyAsn: 2.752 ± 0.044	1.549GlyPro: 1.549 ± 0.035	2.729GlyGln: 2.729 ± 0.044	3.06GlyArg: 3.06 ± 0.045	4.14GlySer: 4.14 ± 0.057	3.443GlyThr: 3.443 ± 0.055	4.859GlyVal: 4.859 ± 0.061	1.003GlyTrp: 1.003 ± 0.028	2.596GlyTyr: 2.596 ± 0.039	0.0GlyXaa: 0.0 ± 0.0
His	1.703HisAla: 1.703 ± 0.032	0.364HisCys: 0.364 ± 0.014	1.235HisAsp: 1.235 ± 0.026	1.098HisGlu: 1.098 ± 0.025	1.088HisPhe: 1.088 ± 0.026	1.474HisGly: 1.474 ± 0.029	0.768HisHis: 0.768 ± 0.023	1.524HisIle: 1.524 ± 0.028	1.059HisLys: 1.059 ± 0.028	2.318HisLeu: 2.318 ± 0.041	0.525HisMet: 0.525 ± 0.018	0.969HisAsn: 0.969 ± 0.026	1.068HisPro: 1.068 ± 0.028	1.259HisGln: 1.259 ± 0.025	1.111HisArg: 1.111 ± 0.029	1.412HisSer: 1.412 ± 0.03	1.143HisThr: 1.143 ± 0.029	1.286HisVal: 1.286 ± 0.026	0.372HisTrp: 0.372 ± 0.017	0.855HisTyr: 0.855 ± 0.024	0.0HisXaa: 0.0 ± 0.0
Ile	6.511IleAla: 6.511 ± 0.068	0.76IleCys: 0.76 ± 0.022	4.372IleAsp: 4.372 ± 0.062	4.627IleGlu: 4.627 ± 0.049	2.436IlePhe: 2.436 ± 0.046	4.789IleGly: 4.789 ± 0.058	1.382IleHis: 1.382 ± 0.029	4.178IleIle: 4.178 ± 0.055	3.678IleLys: 3.678 ± 0.053	5.432IleLeu: 5.432 ± 0.074	1.574IleMet: 1.574 ± 0.038	3.43IleAsn: 3.43 ± 0.053	2.819IlePro: 2.819 ± 0.045	2.454IleGln: 2.454 ± 0.042	2.831IleArg: 2.831 ± 0.04	4.961IleSer: 4.961 ± 0.061	4.303IleThr: 4.303 ± 0.063	4.28IleVal: 4.28 ± 0.062	0.657IleTrp: 0.657 ± 0.019	1.834IleTyr: 1.834 ± 0.038	0.0IleXaa: 0.0 ± 0.0
Lys	4.799LysAla: 4.799 ± 0.058	0.365LysCys: 0.365 ± 0.013	2.779LysAsp: 2.779 ± 0.042	3.379LysGlu: 3.379 ± 0.047	1.576LysPhe: 1.576 ± 0.029	3.51LysGly: 3.51 ± 0.044	1.333LysHis: 1.333 ± 0.029	3.163LysIle: 3.163 ± 0.044	3.328LysLys: 3.328 ± 0.055	5.371LysLeu: 5.371 ± 0.057	1.592LysMet: 1.592 ± 0.029	2.474LysAsn: 2.474 ± 0.043	2.414LysPro: 2.414 ± 0.038	2.83LysGln: 2.83 ± 0.044	2.85LysArg: 2.85 ± 0.046	3.312LysSer: 3.312 ± 0.047	3.141LysThr: 3.141 ± 0.042	3.742LysVal: 3.742 ± 0.049	0.588LysTrp: 0.588 ± 0.021	1.5LysTyr: 1.5 ± 0.031	0.0LysXaa: 0.0 ± 0.0
Leu	9.515LeuAla: 9.515 ± 0.096	1.141LeuCys: 1.141 ± 0.026	5.643LeuAsp: 5.643 ± 0.074	5.716LeuGlu: 5.716 ± 0.062	4.292LeuPhe: 4.292 ± 0.067	6.687LeuGly: 6.687 ± 0.078	2.096LeuHis: 2.096 ± 0.039	6.565LeuIle: 6.565 ± 0.076	5.371LeuLys: 5.371 ± 0.063	10.656LeuLeu: 10.656 ± 0.111	2.789LeuMet: 2.789 ± 0.045	4.855LeuAsn: 4.855 ± 0.063	4.754LeuPro: 4.754 ± 0.064	3.706LeuGln: 3.706 ± 0.052	4.372LeuArg: 4.372 ± 0.056	7.762LeuSer: 7.762 ± 0.081	6.311LeuThr: 6.311 ± 0.072	6.832LeuVal: 6.832 ± 0.073	1.1LeuTrp: 1.1 ± 0.029	2.603LeuTyr: 2.603 ± 0.045	0.001LeuXaa: 0.001 ± 0.001
Met	2.64MetAla: 2.64 ± 0.038	0.276MetCys: 0.276 ± 0.013	1.29MetAsp: 1.29 ± 0.025	1.237MetGlu: 1.237 ± 0.028	0.994MetPhe: 0.994 ± 0.025	1.86MetGly: 1.86 ± 0.035	0.518MetHis: 0.518 ± 0.018	1.693MetIle: 1.693 ± 0.036	1.624MetLys: 1.624 ± 0.033	2.987MetLeu: 2.987 ± 0.046	0.964MetMet: 0.964 ± 0.029	1.271MetAsn: 1.271 ± 0.027	1.303MetPro: 1.303 ± 0.028	1.098MetGln: 1.098 ± 0.024	1.198MetArg: 1.198 ± 0.032	2.023MetSer: 2.023 ± 0.037	1.806MetThr: 1.806 ± 0.034	1.974MetVal: 1.974 ± 0.034	0.237MetTrp: 0.237 ± 0.012	0.632MetTyr: 0.632 ± 0.02	0.0MetXaa: 0.0 ± 0.0
Asn	3.563AsnAla: 3.563 ± 0.048	0.446AsnCys: 0.446 ± 0.016	2.647AsnAsp: 2.647 ± 0.042	2.692AsnGlu: 2.692 ± 0.041	1.612AsnPhe: 1.612 ± 0.031	3.144AsnGly: 3.144 ± 0.051	0.999AsnHis: 0.999 ± 0.025	3.279AsnIle: 3.279 ± 0.044	2.582AsnLys: 2.582 ± 0.047	3.974AsnLeu: 3.974 ± 0.058	1.111AsnMet: 1.111 ± 0.026	2.346AsnAsn: 2.346 ± 0.041	2.124AsnPro: 2.124 ± 0.037	2.13AsnGln: 2.13 ± 0.04	2.049AsnArg: 2.049 ± 0.036	2.69AsnSer: 2.69 ± 0.042	2.662AsnThr: 2.662 ± 0.044	2.948AsnVal: 2.948 ± 0.047	0.612AsnTrp: 0.612 ± 0.021	1.395AsnTyr: 1.395 ± 0.031	0.001AsnXaa: 0.001 ± 0.001
Pro	3.107ProAla: 3.107 ± 0.044	0.377ProCys: 0.377 ± 0.017	2.256ProAsp: 2.256 ± 0.043	3.028ProGlu: 3.028 ± 0.045	1.738ProPhe: 1.738 ± 0.031	2.002ProGly: 2.002 ± 0.037	0.837ProHis: 0.837 ± 0.024	2.657ProIle: 2.657 ± 0.042	1.966ProLys: 1.966 ± 0.035	4.094ProLeu: 4.094 ± 0.057	1.072ProMet: 1.072 ± 0.026	1.729ProAsn: 1.729 ± 0.036	1.125ProPro: 1.125 ± 0.029	1.597ProGln: 1.597 ± 0.035	1.309ProArg: 1.309 ± 0.029	2.519ProSer: 2.519 ± 0.046	2.235ProThr: 2.235 ± 0.037	2.973ProVal: 2.973 ± 0.048	0.49ProTrp: 0.49 ± 0.019	1.238ProTyr: 1.238 ± 0.028	0.0ProXaa: 0.0 ± 0.0
Gln	4.103GlnAla: 4.103 ± 0.058	0.536GlnCys: 0.536 ± 0.019	1.943GlnAsp: 1.943 ± 0.031	2.287GlnGlu: 2.287 ± 0.038	1.713GlnPhe: 1.713 ± 0.033	2.798GlnGly: 2.798 ± 0.046	1.218GlnHis: 1.218 ± 0.03	2.571GlnIle: 2.571 ± 0.035	2.069GlnLys: 2.069 ± 0.037	5.183GlnLeu: 5.183 ± 0.065	1.114GlnMet: 1.114 ± 0.026	1.644GlnAsn: 1.644 ± 0.031	1.833GlnPro: 1.833 ± 0.037	3.075GlnGln: 3.075 ± 0.059	2.304GlnArg: 2.304 ± 0.042	2.807GlnSer: 2.807 ± 0.04	2.212GlnThr: 2.212 ± 0.039	2.968GlnVal: 2.968 ± 0.051	0.649GlnTrp: 0.649 ± 0.022	1.441GlnTyr: 1.441 ± 0.03	0.001GlnXaa: 0.001 ± 0.001
Arg	3.134ArgAla: 3.134 ± 0.044	0.535ArgCys: 0.535 ± 0.018	2.452ArgAsp: 2.452 ± 0.041	2.832ArgGlu: 2.832 ± 0.048	2.192ArgPhe: 2.192 ± 0.04	2.544ArgGly: 2.544 ± 0.043	1.246ArgHis: 1.246 ± 0.03	3.063ArgIle: 3.063 ± 0.044	2.431ArgLys: 2.431 ± 0.042	5.0ArgLeu: 5.0 ± 0.063	1.212ArgMet: 1.212 ± 0.026	1.932ArgAsn: 1.932 ± 0.035	1.551ArgPro: 1.551 ± 0.031	2.212ArgGln: 2.212 ± 0.035	2.326ArgArg: 2.326 ± 0.044	2.696ArgSer: 2.696 ± 0.047	2.247ArgThr: 2.247 ± 0.036	2.89ArgVal: 2.89 ± 0.042	0.704ArgTrp: 0.704 ± 0.022	1.8ArgTyr: 1.8 ± 0.032	0.001ArgXaa: 0.001 ± 0.001
Ser	5.243SerAla: 5.243 ± 0.064	0.679SerCys: 0.679 ± 0.02	3.82SerAsp: 3.82 ± 0.057	3.842SerGlu: 3.842 ± 0.053	2.879SerPhe: 2.879 ± 0.039	4.879SerGly: 4.879 ± 0.048	1.563SerHis: 1.563 ± 0.026	4.412SerIle: 4.412 ± 0.056	3.277SerLys: 3.277 ± 0.047	7.044SerLeu: 7.044 ± 0.068	1.854SerMet: 1.854 ± 0.034	2.891SerAsn: 2.891 ± 0.042	2.462SerPro: 2.462 ± 0.04	2.881SerGln: 2.881 ± 0.044	3.007SerArg: 3.007 ± 0.044	4.632SerSer: 4.632 ± 0.063	3.639SerThr: 3.639 ± 0.048	4.545SerVal: 4.545 ± 0.054	0.885SerTrp: 0.885 ± 0.027	2.119SerTyr: 2.119 ± 0.039	0.0SerXaa: 0.0 ± 0.0
Thr	4.753ThrAla: 4.753 ± 0.054	0.6ThrCys: 0.6 ± 0.019	3.158ThrAsp: 3.158 ± 0.063	3.218ThrGlu: 3.218 ± 0.048	2.309ThrPhe: 2.309 ± 0.043	4.088ThrGly: 4.088 ± 0.059	1.233ThrHis: 1.233 ± 0.027	3.709ThrIle: 3.709 ± 0.06	2.612ThrLys: 2.612 ± 0.04	6.366ThrLeu: 6.366 ± 0.069	1.36ThrMet: 1.36 ± 0.028	2.321ThrAsn: 2.321 ± 0.042	2.641ThrPro: 2.641 ± 0.04	2.539ThrGln: 2.539 ± 0.043	2.334ThrArg: 2.334 ± 0.036	3.551ThrSer: 3.551 ± 0.05	3.171ThrThr: 3.171 ± 0.053	4.174ThrVal: 4.174 ± 0.057	0.62ThrTrp: 0.62 ± 0.02	1.584ThrTyr: 1.584 ± 0.039	0.0ThrXaa: 0.0 ± 0.0
Val	6.039ValAla: 6.039 ± 0.068	0.765ValCys: 0.765 ± 0.022	3.951ValAsp: 3.951 ± 0.065	4.205ValGlu: 4.205 ± 0.057	2.733ValPhe: 2.733 ± 0.046	4.588ValGly: 4.588 ± 0.058	1.275ValHis: 1.275 ± 0.028	4.958ValIle: 4.958 ± 0.054	3.675ValLys: 3.675 ± 0.052	6.68ValLeu: 6.68 ± 0.068	2.147ValMet: 2.147 ± 0.038	3.113ValAsn: 3.113 ± 0.048	2.546ValPro: 2.546 ± 0.04	2.217ValGln: 2.217 ± 0.04	2.777ValArg: 2.777 ± 0.04	4.704ValSer: 4.704 ± 0.058	4.308ValThr: 4.308 ± 0.063	5.123ValVal: 5.123 ± 0.063	0.715ValTrp: 0.715 ± 0.019	1.805ValTyr: 1.805 ± 0.036	0.0ValXaa: 0.0 ± 0.0
Trp	0.882TrpAla: 0.882 ± 0.023	0.186TrpCys: 0.186 ± 0.01	0.591TrpAsp: 0.591 ± 0.021	0.537TrpGlu: 0.537 ± 0.019	0.662TrpPhe: 0.662 ± 0.019	0.806TrpGly: 0.806 ± 0.023	0.336TrpHis: 0.336 ± 0.013	0.727TrpIle: 0.727 ± 0.022	0.563TrpLys: 0.563 ± 0.02	1.785TrpLeu: 1.785 ± 0.038	0.362TrpMet: 0.362 ± 0.014	0.502TrpAsn: 0.502 ± 0.018	0.431TrpPro: 0.431 ± 0.016	0.911TrpGln: 0.911 ± 0.025	0.654TrpArg: 0.654 ± 0.021	0.76TrpSer: 0.76 ± 0.023	0.493TrpThr: 0.493 ± 0.017	0.86TrpVal: 0.86 ± 0.02	0.205TrpTrp: 0.205 ± 0.011	0.414TrpTyr: 0.414 ± 0.016	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.158TyrAla: 2.158 ± 0.033	0.438TyrCys: 0.438 ± 0.017	1.612TyrAsp: 1.612 ± 0.036	1.529TyrGlu: 1.529 ± 0.031	1.382TyrPhe: 1.382 ± 0.031	2.069TyrGly: 2.069 ± 0.034	0.819TyrHis: 0.819 ± 0.021	1.837TyrIle: 1.837 ± 0.037	1.454TyrLys: 1.454 ± 0.028	3.35TyrLeu: 3.35 ± 0.044	0.712TyrMet: 0.712 ± 0.019	1.262TyrAsn: 1.262 ± 0.03	1.29TyrPro: 1.29 ± 0.034	1.883TyrGln: 1.883 ± 0.031	1.758TyrArg: 1.758 ± 0.037	2.164TyrSer: 2.164 ± 0.042	1.628TyrThr: 1.628 ± 0.033	1.765TyrVal: 1.765 ± 0.031	0.505TyrTrp: 0.505 ± 0.018	1.054TyrTyr: 1.054 ± 0.031	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.001XaaAla: 0.001 ± 0.001	0.0XaaCys: 0.0 ± 0.0	0.001XaaAsp: 0.001 ± 0.001	0.0XaaGlu: 0.0 ± 0.0	0.0XaaPhe: 0.0 ± 0.0	0.0XaaGly: 0.0 ± 0.0	0.0XaaHis: 0.0 ± 0.0	0.001XaaIle: 0.001 ± 0.001	0.001XaaLys: 0.001 ± 0.001	0.001XaaLeu: 0.001 ± 0.001	0.0XaaMet: 0.0 ± 0.0	0.001XaaAsn: 0.001 ± 0.001	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.001XaaArg: 0.001 ± 0.001	0.001XaaSer: 0.001 ± 0.001	0.001XaaThr: 0.001 ± 0.001	0.001XaaVal: 0.001 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.0XaaXaa: 0.0 ± 0.0

Statistics based on 5328 proteins (1694257 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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