Amino acid dipepetide frequency for Rhizobium oryzae

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	17.724AlaAla: 17.724 ± 0.166	1.048AlaCys: 1.048 ± 0.027	6.946AlaAsp: 6.946 ± 0.085	8.134AlaGlu: 8.134 ± 0.087	4.737AlaPhe: 4.737 ± 0.063	10.872AlaGly: 10.872 ± 0.089	2.389AlaHis: 2.389 ± 0.044	6.697AlaIle: 6.697 ± 0.074	4.075AlaLys: 4.075 ± 0.059	14.795AlaLeu: 14.795 ± 0.126	3.687AlaMet: 3.687 ± 0.054	2.774AlaAsn: 2.774 ± 0.044	5.603AlaPro: 5.603 ± 0.084	4.143AlaGln: 4.143 ± 0.057	9.297AlaArg: 9.297 ± 0.092	6.712AlaSer: 6.712 ± 0.078	5.85AlaThr: 5.85 ± 0.076	8.608AlaVal: 8.608 ± 0.089	1.422AlaTrp: 1.422 ± 0.031	2.731AlaTyr: 2.731 ± 0.048	0.0AlaXaa: 0.0 ± 0.0
Cys	0.922CysAla: 0.922 ± 0.026	0.083CysCys: 0.083 ± 0.007	0.475CysAsp: 0.475 ± 0.019	0.382CysGlu: 0.382 ± 0.016	0.302CysPhe: 0.302 ± 0.015	0.828CysGly: 0.828 ± 0.026	0.222CysHis: 0.222 ± 0.011	0.368CysIle: 0.368 ± 0.017	0.147CysLys: 0.147 ± 0.01	0.851CysLeu: 0.851 ± 0.022	0.153CysMet: 0.153 ± 0.01	0.171CysAsn: 0.171 ± 0.012	0.374CysPro: 0.374 ± 0.017	0.234CysGln: 0.234 ± 0.012	0.565CysArg: 0.565 ± 0.019	0.361CysSer: 0.361 ± 0.018	0.36CysThr: 0.36 ± 0.016	0.536CysVal: 0.536 ± 0.018	0.101CysTrp: 0.101 ± 0.009	0.166CysTyr: 0.166 ± 0.01	0.0CysXaa: 0.0 ± 0.0
Asp	6.816AspAla: 6.816 ± 0.076	0.473AspCys: 0.473 ± 0.021	2.977AspAsp: 2.977 ± 0.055	3.442AspGlu: 3.442 ± 0.053	2.254AspPhe: 2.254 ± 0.044	5.191AspGly: 5.191 ± 0.083	1.352AspHis: 1.352 ± 0.031	3.105AspIle: 3.105 ± 0.048	1.771AspLys: 1.771 ± 0.042	6.227AspLeu: 6.227 ± 0.067	1.442AspMet: 1.442 ± 0.029	1.335AspAsn: 1.335 ± 0.031	3.425AspPro: 3.425 ± 0.053	1.815AspGln: 1.815 ± 0.035	4.34AspArg: 4.34 ± 0.059	2.184AspSer: 2.184 ± 0.044	2.433AspThr: 2.433 ± 0.049	4.049AspVal: 4.049 ± 0.05	0.961AspTrp: 0.961 ± 0.028	1.519AspTyr: 1.519 ± 0.032	0.0AspXaa: 0.0 ± 0.0
Glu	8.187GluAla: 8.187 ± 0.083	0.294GluCys: 0.294 ± 0.015	3.049GluAsp: 3.049 ± 0.051	3.382GluGlu: 3.382 ± 0.052	1.513GluPhe: 1.513 ± 0.034	4.394GluGly: 4.394 ± 0.052	1.096GluHis: 1.096 ± 0.031	3.687GluIle: 3.687 ± 0.054	2.285GluLys: 2.285 ± 0.045	4.759GluLeu: 4.759 ± 0.067	1.445GluMet: 1.445 ± 0.033	1.573GluAsn: 1.573 ± 0.04	2.716GluPro: 2.716 ± 0.05	2.012GluGln: 2.012 ± 0.043	5.014GluArg: 5.014 ± 0.072	2.399GluSer: 2.399 ± 0.044	3.754GluThr: 3.754 ± 0.054	3.518GluVal: 3.518 ± 0.052	0.562GluTrp: 0.562 ± 0.02	0.75GluTyr: 0.75 ± 0.023	0.0GluXaa: 0.0 ± 0.0
Phe	4.718PheAla: 4.718 ± 0.064	0.42PheCys: 0.42 ± 0.02	2.668PheAsp: 2.668 ± 0.046	2.065PheGlu: 2.065 ± 0.044	1.565PhePhe: 1.565 ± 0.039	3.577PheGly: 3.577 ± 0.054	0.744PheHis: 0.744 ± 0.024	1.784PheIle: 1.784 ± 0.035	1.092PheLys: 1.092 ± 0.026	3.798PheLeu: 3.798 ± 0.058	0.799PheMet: 0.799 ± 0.024	1.042PheAsn: 1.042 ± 0.029	1.572PhePro: 1.572 ± 0.036	1.066PheGln: 1.066 ± 0.025	2.246PheArg: 2.246 ± 0.04	2.525PheSer: 2.525 ± 0.045	1.941PheThr: 1.941 ± 0.035	2.749PheVal: 2.749 ± 0.048	0.538PheTrp: 0.538 ± 0.021	0.892PheTyr: 0.892 ± 0.025	0.0PheXaa: 0.0 ± 0.0
Gly	9.278GlyAla: 9.278 ± 0.084	0.771GlyCys: 0.771 ± 0.023	4.212GlyAsp: 4.212 ± 0.063	4.802GlyGlu: 4.802 ± 0.058	3.756GlyPhe: 3.756 ± 0.053	6.77GlyGly: 6.77 ± 0.081	1.91GlyHis: 1.91 ± 0.038	4.609GlyIle: 4.609 ± 0.063	3.142GlyLys: 3.142 ± 0.059	9.584GlyLeu: 9.584 ± 0.098	2.278GlyMet: 2.278 ± 0.041	2.032GlyAsn: 2.032 ± 0.047	3.295GlyPro: 3.295 ± 0.05	3.069GlyGln: 3.069 ± 0.057	6.224GlyArg: 6.224 ± 0.072	4.399GlySer: 4.399 ± 0.072	4.514GlyThr: 4.514 ± 0.064	5.746GlyVal: 5.746 ± 0.077	1.232GlyTrp: 1.232 ± 0.027	2.103GlyTyr: 2.103 ± 0.04	0.0GlyXaa: 0.0 ± 0.0
His	2.434HisAla: 2.434 ± 0.047	0.204HisCys: 0.204 ± 0.01	1.259HisAsp: 1.259 ± 0.03	1.072HisGlu: 1.072 ± 0.024	0.902HisPhe: 0.902 ± 0.026	1.947HisGly: 1.947 ± 0.042	0.578HisHis: 0.578 ± 0.023	0.932HisIle: 0.932 ± 0.026	0.467HisLys: 0.467 ± 0.016	2.208HisLeu: 2.208 ± 0.037	0.524HisMet: 0.524 ± 0.021	0.394HisAsn: 0.394 ± 0.018	1.325HisPro: 1.325 ± 0.034	0.652HisGln: 0.652 ± 0.022	1.475HisArg: 1.475 ± 0.034	0.894HisSer: 0.894 ± 0.025	0.722HisThr: 0.722 ± 0.025	1.566HisVal: 1.566 ± 0.035	0.278HisTrp: 0.278 ± 0.014	0.555HisTyr: 0.555 ± 0.02	0.0HisXaa: 0.0 ± 0.0
Ile	7.706IleAla: 7.706 ± 0.076	0.483IleCys: 0.483 ± 0.019	3.864IleAsp: 3.864 ± 0.05	3.537IleGlu: 3.537 ± 0.045	1.891IlePhe: 1.891 ± 0.041	5.264IleGly: 5.264 ± 0.072	0.94IleHis: 0.94 ± 0.03	2.315IleIle: 2.315 ± 0.048	1.474IleLys: 1.474 ± 0.035	4.993IleLeu: 4.993 ± 0.067	1.053IleMet: 1.053 ± 0.029	1.455IleAsn: 1.455 ± 0.033	2.214IlePro: 2.214 ± 0.039	1.238IleGln: 1.238 ± 0.028	3.356IleArg: 3.356 ± 0.044	3.029IleSer: 3.029 ± 0.055	2.718IleThr: 2.718 ± 0.053	4.181IleVal: 4.181 ± 0.065	0.59IleTrp: 0.59 ± 0.024	1.151IleTyr: 1.151 ± 0.034	0.0IleXaa: 0.0 ± 0.0
Lys	4.874LysAla: 4.874 ± 0.059	0.122LysCys: 0.122 ± 0.009	1.819LysAsp: 1.819 ± 0.036	1.511LysGlu: 1.511 ± 0.039	0.777LysPhe: 0.777 ± 0.024	2.825LysGly: 2.825 ± 0.055	0.515LysHis: 0.515 ± 0.018	1.771LysIle: 1.771 ± 0.034	1.171LysLys: 1.171 ± 0.04	3.135LysLeu: 3.135 ± 0.05	0.713LysMet: 0.713 ± 0.02	0.837LysAsn: 0.837 ± 0.027	2.163LysPro: 2.163 ± 0.046	0.965LysGln: 0.965 ± 0.032	2.351LysArg: 2.351 ± 0.042	1.85LysSer: 1.85 ± 0.043	2.198LysThr: 2.198 ± 0.042	2.381LysVal: 2.381 ± 0.041	0.293LysTrp: 0.293 ± 0.015	0.507LysTyr: 0.507 ± 0.021	0.0LysXaa: 0.0 ± 0.0
Leu	14.298LeuAla: 14.298 ± 0.117	0.885LeuCys: 0.885 ± 0.024	6.29LeuAsp: 6.29 ± 0.081	5.126LeuGlu: 5.126 ± 0.061	3.997LeuPhe: 3.997 ± 0.062	8.17LeuGly: 8.17 ± 0.081	1.887LeuHis: 1.887 ± 0.031	5.467LeuIle: 5.467 ± 0.074	4.08LeuLys: 4.08 ± 0.063	9.851LeuLeu: 9.851 ± 0.101	2.522LeuMet: 2.522 ± 0.045	2.575LeuAsn: 2.575 ± 0.038	5.815LeuPro: 5.815 ± 0.069	2.922LeuGln: 2.922 ± 0.049	6.654LeuArg: 6.654 ± 0.079	7.518LeuSer: 7.518 ± 0.086	5.929LeuThr: 5.929 ± 0.075	7.712LeuVal: 7.712 ± 0.089	1.126LeuTrp: 1.126 ± 0.03	2.207LeuTyr: 2.207 ± 0.043	0.0LeuXaa: 0.0 ± 0.0
Met	3.35MetAla: 3.35 ± 0.053	0.128MetCys: 0.128 ± 0.01	1.182MetAsp: 1.182 ± 0.028	1.154MetGlu: 1.154 ± 0.029	0.649MetPhe: 0.649 ± 0.019	1.611MetGly: 1.611 ± 0.036	0.413MetHis: 0.413 ± 0.017	1.519MetIle: 1.519 ± 0.032	0.94MetLys: 0.94 ± 0.028	2.554MetLeu: 2.554 ± 0.045	0.727MetMet: 0.727 ± 0.027	0.742MetAsn: 0.742 ± 0.021	1.551MetPro: 1.551 ± 0.037	0.839MetGln: 0.839 ± 0.023	1.93MetArg: 1.93 ± 0.041	1.77MetSer: 1.77 ± 0.034	1.982MetThr: 1.982 ± 0.037	1.777MetVal: 1.777 ± 0.038	0.176MetTrp: 0.176 ± 0.01	0.271MetTyr: 0.271 ± 0.012	0.0MetXaa: 0.0 ± 0.0
Asn	3.086AsnAla: 3.086 ± 0.05	0.177AsnCys: 0.177 ± 0.012	1.413AsnAsp: 1.413 ± 0.035	1.157AsnGlu: 1.157 ± 0.028	0.945AsnPhe: 0.945 ± 0.026	2.401AsnGly: 2.401 ± 0.048	0.522AsnHis: 0.522 ± 0.017	1.312AsnIle: 1.312 ± 0.038	0.694AsnLys: 0.694 ± 0.021	2.496AsnLeu: 2.496 ± 0.041	0.607AsnMet: 0.607 ± 0.021	0.659AsnAsn: 0.659 ± 0.026	1.669AsnPro: 1.669 ± 0.036	0.769AsnGln: 0.769 ± 0.024	1.788AsnArg: 1.788 ± 0.036	1.225AsnSer: 1.225 ± 0.031	1.142AsnThr: 1.142 ± 0.028	1.777AsnVal: 1.777 ± 0.037	0.409AsnTrp: 0.409 ± 0.018	0.615AsnTyr: 0.615 ± 0.02	0.0AsnXaa: 0.0 ± 0.0
Pro	6.524ProAla: 6.524 ± 0.086	0.288ProCys: 0.288 ± 0.012	3.536ProAsp: 3.536 ± 0.052	3.561ProGlu: 3.561 ± 0.058	2.006ProPhe: 2.006 ± 0.036	4.231ProGly: 4.231 ± 0.059	1.085ProHis: 1.085 ± 0.029	2.381ProIle: 2.381 ± 0.044	1.672ProLys: 1.672 ± 0.034	4.984ProLeu: 4.984 ± 0.059	1.215ProMet: 1.215 ± 0.029	1.192ProAsn: 1.192 ± 0.03	2.433ProPro: 2.433 ± 0.049	1.734ProGln: 1.734 ± 0.035	2.773ProArg: 2.773 ± 0.047	2.812ProSer: 2.812 ± 0.046	2.285ProThr: 2.285 ± 0.039	4.21ProVal: 4.21 ± 0.062	0.617ProTrp: 0.617 ± 0.019	1.153ProTyr: 1.153 ± 0.031	0.001ProXaa: 0.001 ± 0.001
Gln	4.86GlnAla: 4.86 ± 0.068	0.162GlnCys: 0.162 ± 0.012	1.553GlnAsp: 1.553 ± 0.038	1.565GlnGlu: 1.565 ± 0.037	0.957GlnPhe: 0.957 ± 0.026	2.459GlnGly: 2.459 ± 0.045	0.601GlnHis: 0.601 ± 0.022	1.822GlnIle: 1.822 ± 0.043	1.074GlnLys: 1.074 ± 0.028	2.841GlnLeu: 2.841 ± 0.047	0.914GlnMet: 0.914 ± 0.027	0.849GlnAsn: 0.849 ± 0.021	1.809GlnPro: 1.809 ± 0.042	1.207GlnGln: 1.207 ± 0.038	2.448GlnArg: 2.448 ± 0.055	1.902GlnSer: 1.902 ± 0.039	1.908GlnThr: 1.908 ± 0.038	2.173GlnVal: 2.173 ± 0.042	0.372GlnTrp: 0.372 ± 0.016	0.503GlnTyr: 0.503 ± 0.018	0.001GlnXaa: 0.001 ± 0.001
Arg	8.05ArgAla: 8.05 ± 0.088	0.438ArgCys: 0.438 ± 0.018	4.039ArgAsp: 4.039 ± 0.058	3.911ArgGlu: 3.911 ± 0.067	3.116ArgPhe: 3.116 ± 0.048	4.535ArgGly: 4.535 ± 0.057	1.865ArgHis: 1.865 ± 0.04	4.066ArgIle: 4.066 ± 0.056	2.253ArgLys: 2.253 ± 0.037	8.589ArgLeu: 8.589 ± 0.106	2.016ArgMet: 2.016 ± 0.039	1.735ArgAsn: 1.735 ± 0.037	3.566ArgPro: 3.566 ± 0.057	2.861ArgGln: 2.861 ± 0.055	5.871ArgArg: 5.871 ± 0.079	3.618ArgSer: 3.618 ± 0.048	3.206ArgThr: 3.206 ± 0.058	4.475ArgVal: 4.475 ± 0.055	0.915ArgTrp: 0.915 ± 0.029	1.631ArgTyr: 1.631 ± 0.032	0.001ArgXaa: 0.001 ± 0.001
Ser	6.848SerAla: 6.848 ± 0.082	0.361SerCys: 0.361 ± 0.017	2.977SerAsp: 2.977 ± 0.05	2.877SerGlu: 2.877 ± 0.052	2.407SerPhe: 2.407 ± 0.045	5.746SerGly: 5.746 ± 0.063	1.121SerHis: 1.121 ± 0.029	2.877SerIle: 2.877 ± 0.042	1.59SerLys: 1.59 ± 0.035	5.986SerLeu: 5.986 ± 0.06	1.357SerMet: 1.357 ± 0.029	1.319SerAsn: 1.319 ± 0.033	2.819SerPro: 2.819 ± 0.044	1.759SerGln: 1.759 ± 0.037	3.623SerArg: 3.623 ± 0.058	3.152SerSer: 3.152 ± 0.058	2.785SerThr: 2.785 ± 0.051	4.008SerVal: 4.008 ± 0.056	0.76SerTrp: 0.76 ± 0.022	1.27SerTyr: 1.27 ± 0.032	0.001SerXaa: 0.001 ± 0.001
Thr	6.296ThrAla: 6.296 ± 0.066	0.368ThrCys: 0.368 ± 0.018	2.729ThrAsp: 2.729 ± 0.049	2.612ThrGlu: 2.612 ± 0.046	1.921ThrPhe: 1.921 ± 0.039	5.051ThrGly: 5.051 ± 0.07	1.021ThrHis: 1.021 ± 0.027	3.102ThrIle: 3.102 ± 0.056	1.484ThrLys: 1.484 ± 0.038	6.215ThrLeu: 6.215 ± 0.07	1.209ThrMet: 1.209 ± 0.03	1.248ThrAsn: 1.248 ± 0.036	3.043ThrPro: 3.043 ± 0.045	1.465ThrGln: 1.465 ± 0.033	3.318ThrArg: 3.318 ± 0.047	2.841ThrSer: 2.841 ± 0.062	2.783ThrThr: 2.783 ± 0.066	4.422ThrVal: 4.422 ± 0.079	0.581ThrTrp: 0.581 ± 0.023	1.169ThrTyr: 1.169 ± 0.03	0.0ThrXaa: 0.0 ± 0.0
Val	8.675ValAla: 8.675 ± 0.083	0.567ValCys: 0.567 ± 0.023	4.145ValAsp: 4.145 ± 0.061	4.41ValGlu: 4.41 ± 0.058	2.729ValPhe: 2.729 ± 0.039	4.982ValGly: 4.982 ± 0.069	1.338ValHis: 1.338 ± 0.033	4.118ValIle: 4.118 ± 0.054	2.339ValLys: 2.339 ± 0.043	7.483ValLeu: 7.483 ± 0.097	1.833ValMet: 1.833 ± 0.04	1.919ValAsn: 1.919 ± 0.04	3.591ValPro: 3.591 ± 0.056	1.956ValGln: 1.956 ± 0.038	4.578ValArg: 4.578 ± 0.058	4.568ValSer: 4.568 ± 0.061	4.614ValThr: 4.614 ± 0.067	5.459ValVal: 5.459 ± 0.072	0.814ValTrp: 0.814 ± 0.026	1.467ValTyr: 1.467 ± 0.031	0.0ValXaa: 0.0 ± 0.0
Trp	1.189TrpAla: 1.189 ± 0.032	0.113TrpCys: 0.113 ± 0.008	0.566TrpAsp: 0.566 ± 0.019	0.511TrpGlu: 0.511 ± 0.018	0.49TrpPhe: 0.49 ± 0.019	0.796TrpGly: 0.796 ± 0.025	0.304TrpHis: 0.304 ± 0.015	0.626TrpIle: 0.626 ± 0.022	0.43TrpLys: 0.43 ± 0.017	1.488TrpLeu: 1.488 ± 0.036	0.354TrpMet: 0.354 ± 0.016	0.434TrpAsn: 0.434 ± 0.019	0.631TrpPro: 0.631 ± 0.023	0.555TrpGln: 0.555 ± 0.02	1.088TrpArg: 1.088 ± 0.029	0.776TrpSer: 0.776 ± 0.024	0.745TrpThr: 0.745 ± 0.024	0.705TrpVal: 0.705 ± 0.023	0.213TrpTrp: 0.213 ± 0.012	0.273TrpTyr: 0.273 ± 0.014	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.412TyrAla: 2.412 ± 0.045	0.215TyrCys: 0.215 ± 0.013	1.412TyrAsp: 1.412 ± 0.03	1.178TyrGlu: 1.178 ± 0.03	0.886TyrPhe: 0.886 ± 0.027	2.076TyrGly: 2.076 ± 0.039	0.486TyrHis: 0.486 ± 0.019	0.892TyrIle: 0.892 ± 0.026	0.597TyrLys: 0.597 ± 0.021	2.192TyrLeu: 2.192 ± 0.04	0.416TyrMet: 0.416 ± 0.019	0.578TyrAsn: 0.578 ± 0.021	1.081TyrPro: 1.081 ± 0.03	0.719TyrGln: 0.719 ± 0.022	1.817TyrArg: 1.817 ± 0.034	1.105TyrSer: 1.105 ± 0.033	1.011TyrThr: 1.011 ± 0.026	1.534TyrVal: 1.534 ± 0.031	0.327TyrTrp: 0.327 ± 0.018	0.584TyrTyr: 0.584 ± 0.021	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	0.001XaaGlu: 0.001 ± 0.001	0.0XaaPhe: 0.0 ± 0.0	0.0XaaGly: 0.0 ± 0.0	0.001XaaHis: 0.001 ± 0.001	0.0XaaIle: 0.0 ± 0.0	0.0XaaLys: 0.0 ± 0.0	0.001XaaLeu: 0.001 ± 0.001	0.001XaaMet: 0.001 ± 0.001	0.0XaaAsn: 0.0 ± 0.0	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.0XaaArg: 0.0 ± 0.0	0.001XaaSer: 0.001 ± 0.001	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 4627 proteins (1480217 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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