Amino acid dipepetide frequency for Methanoregula formicica (strain DSM 22288 / NBRC 105244 / SMSP)

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	9.36AlaAla: 9.36 ± 0.167	1.299AlaCys: 1.299 ± 0.047	4.793AlaAsp: 4.793 ± 0.075	5.506AlaGlu: 5.506 ± 0.093	3.551AlaPhe: 3.551 ± 0.095	8.377AlaGly: 8.377 ± 0.134	1.618AlaHis: 1.618 ± 0.054	6.578AlaIle: 6.578 ± 0.129	3.984AlaLys: 3.984 ± 0.08	9.167AlaLeu: 9.167 ± 0.214	2.489AlaMet: 2.489 ± 0.059	2.396AlaAsn: 2.396 ± 0.052	3.434AlaPro: 3.434 ± 0.079	2.289AlaGln: 2.289 ± 0.056	4.786AlaArg: 4.786 ± 0.099	4.444AlaSer: 4.444 ± 0.084	4.757AlaThr: 4.757 ± 0.099	7.217AlaVal: 7.217 ± 0.126	0.999AlaTrp: 0.999 ± 0.043	2.244AlaTyr: 2.244 ± 0.071	0.0AlaXaa: 0.0 ± 0.0
Cys	1.035CysAla: 1.035 ± 0.042	0.26CysCys: 0.26 ± 0.02	0.74CysAsp: 0.74 ± 0.028	0.656CysGlu: 0.656 ± 0.024	0.423CysPhe: 0.423 ± 0.024	1.516CysGly: 1.516 ± 0.05	0.381CysHis: 0.381 ± 0.026	0.945CysIle: 0.945 ± 0.036	0.481CysLys: 0.481 ± 0.027	1.02CysLeu: 1.02 ± 0.036	0.352CysMet: 0.352 ± 0.022	0.408CysAsn: 0.408 ± 0.023	0.887CysPro: 0.887 ± 0.04	0.324CysGln: 0.324 ± 0.018	0.961CysArg: 0.961 ± 0.043	0.963CysSer: 0.963 ± 0.035	0.985CysThr: 0.985 ± 0.035	0.812CysVal: 0.812 ± 0.033	0.142CysTrp: 0.142 ± 0.013	0.368CysTyr: 0.368 ± 0.023	0.0CysXaa: 0.0 ± 0.0
Asp	5.099AspAla: 5.099 ± 0.117	0.688AspCys: 0.688 ± 0.031	2.67AspAsp: 2.67 ± 0.059	3.482AspGlu: 3.482 ± 0.08	2.076AspPhe: 2.076 ± 0.058	4.064AspGly: 4.064 ± 0.095	1.166AspHis: 1.166 ± 0.04	4.216AspIle: 4.216 ± 0.069	2.203AspLys: 2.203 ± 0.063	5.563AspLeu: 5.563 ± 0.096	1.358AspMet: 1.358 ± 0.044	1.701AspAsn: 1.701 ± 0.042	3.468AspPro: 3.468 ± 0.073	1.38AspGln: 1.38 ± 0.045	3.393AspArg: 3.393 ± 0.076	2.667AspSer: 2.667 ± 0.06	3.249AspThr: 3.249 ± 0.074	3.836AspVal: 3.836 ± 0.08	0.577AspTrp: 0.577 ± 0.031	1.739AspTyr: 1.739 ± 0.05	0.0AspXaa: 0.0 ± 0.0
Glu	4.8GluAla: 4.8 ± 0.125	0.768GluCys: 0.768 ± 0.031	2.849GluAsp: 2.849 ± 0.065	4.313GluGlu: 4.313 ± 0.102	2.229GluPhe: 2.229 ± 0.056	4.046GluGly: 4.046 ± 0.076	1.373GluHis: 1.373 ± 0.04	5.251GluIle: 5.251 ± 0.086	4.63GluLys: 4.63 ± 0.088	5.382GluLeu: 5.382 ± 0.104	1.814GluMet: 1.814 ± 0.046	2.384GluAsn: 2.384 ± 0.057	2.383GluPro: 2.383 ± 0.054	2.267GluGln: 2.267 ± 0.058	3.899GluArg: 3.899 ± 0.094	3.229GluSer: 3.229 ± 0.074	3.482GluThr: 3.482 ± 0.061	4.036GluVal: 4.036 ± 0.079	0.585GluTrp: 0.585 ± 0.027	2.089GluTyr: 2.089 ± 0.057	0.0GluXaa: 0.0 ± 0.0
Phe	3.335PheAla: 3.335 ± 0.079	0.657PheCys: 0.657 ± 0.032	2.336PheAsp: 2.336 ± 0.071	2.181PheGlu: 2.181 ± 0.059	2.029PhePhe: 2.029 ± 0.052	3.046PheGly: 3.046 ± 0.066	0.768PheHis: 0.768 ± 0.031	2.711PheIle: 2.711 ± 0.062	1.166PheLys: 1.166 ± 0.04	3.957PheLeu: 3.957 ± 0.093	0.858PheMet: 0.858 ± 0.035	1.238PheAsn: 1.238 ± 0.045	1.798PhePro: 1.798 ± 0.054	0.86PheGln: 0.86 ± 0.034	2.271PheArg: 2.271 ± 0.068	3.223PheSer: 3.223 ± 0.065	2.668PheThr: 2.668 ± 0.066	2.996PheVal: 2.996 ± 0.064	0.464PheTrp: 0.464 ± 0.027	1.22PheTyr: 1.22 ± 0.039	0.0PheXaa: 0.0 ± 0.0
Gly	6.031GlyAla: 6.031 ± 0.114	1.273GlyCys: 1.273 ± 0.044	3.944GlyAsp: 3.944 ± 0.083	4.459GlyGlu: 4.459 ± 0.082	3.072GlyPhe: 3.072 ± 0.068	5.469GlyGly: 5.469 ± 0.098	1.41GlyHis: 1.41 ± 0.044	6.813GlyIle: 6.813 ± 0.103	5.047GlyLys: 5.047 ± 0.092	6.208GlyLeu: 6.208 ± 0.104	2.417GlyMet: 2.417 ± 0.064	2.702GlyAsn: 2.702 ± 0.065	2.503GlyPro: 2.503 ± 0.066	2.028GlyGln: 2.028 ± 0.048	4.21GlyArg: 4.21 ± 0.11	5.062GlySer: 5.062 ± 0.102	5.658GlyThr: 5.658 ± 0.113	5.136GlyVal: 5.136 ± 0.097	0.923GlyTrp: 0.923 ± 0.04	2.877GlyTyr: 2.877 ± 0.064	0.0GlyXaa: 0.0 ± 0.0
His	1.849HisAla: 1.849 ± 0.052	0.364HisCys: 0.364 ± 0.022	1.207HisAsp: 1.207 ± 0.039	1.273HisGlu: 1.273 ± 0.043	0.771HisPhe: 0.771 ± 0.033	1.611HisGly: 1.611 ± 0.045	0.59HisHis: 0.59 ± 0.032	1.372HisIle: 1.372 ± 0.041	0.796HisLys: 0.796 ± 0.035	1.829HisLeu: 1.829 ± 0.047	0.451HisMet: 0.451 ± 0.025	0.634HisAsn: 0.634 ± 0.028	1.29HisPro: 1.29 ± 0.042	0.59HisGln: 0.59 ± 0.025	1.187HisArg: 1.187 ± 0.036	1.05HisSer: 1.05 ± 0.036	1.167HisThr: 1.167 ± 0.039	1.341HisVal: 1.341 ± 0.041	0.191HisTrp: 0.191 ± 0.015	0.607HisTyr: 0.607 ± 0.031	0.0HisXaa: 0.0 ± 0.0
Ile	7.258IleAla: 7.258 ± 0.116	0.929IleCys: 0.929 ± 0.038	4.068IleAsp: 4.068 ± 0.081	4.201IleGlu: 4.201 ± 0.08	2.749IlePhe: 2.749 ± 0.07	5.554IleGly: 5.554 ± 0.088	1.479IleHis: 1.479 ± 0.044	5.151IleIle: 5.151 ± 0.106	2.485IleLys: 2.485 ± 0.064	6.776IleLeu: 6.776 ± 0.11	1.384IleMet: 1.384 ± 0.05	2.14IleAsn: 2.14 ± 0.05	4.078IlePro: 4.078 ± 0.07	1.872IleGln: 1.872 ± 0.048	4.951IleArg: 4.951 ± 0.1	4.557IleSer: 4.557 ± 0.091	4.846IleThr: 4.846 ± 0.08	5.506IleVal: 5.506 ± 0.09	0.655IleTrp: 0.655 ± 0.028	1.828IleTyr: 1.828 ± 0.047	0.0IleXaa: 0.0 ± 0.0
Lys	4.055LysAla: 4.055 ± 0.07	0.576LysCys: 0.576 ± 0.029	2.887LysAsp: 2.887 ± 0.064	3.785LysGlu: 3.785 ± 0.073	1.595LysPhe: 1.595 ± 0.049	3.657LysGly: 3.657 ± 0.089	0.84LysHis: 0.84 ± 0.036	3.777LysIle: 3.777 ± 0.079	4.513LysLys: 4.513 ± 0.096	3.175LysLeu: 3.175 ± 0.072	1.481LysMet: 1.481 ± 0.045	2.368LysAsn: 2.368 ± 0.058	2.158LysPro: 2.158 ± 0.053	1.531LysGln: 1.531 ± 0.047	2.754LysArg: 2.754 ± 0.06	2.691LysSer: 2.691 ± 0.056	3.336LysThr: 3.336 ± 0.059	3.266LysVal: 3.266 ± 0.066	0.451LysTrp: 0.451 ± 0.027	1.59LysTyr: 1.59 ± 0.043	0.0LysXaa: 0.0 ± 0.0
Leu	9.07LeuAla: 9.07 ± 0.153	1.191LeuCys: 1.191 ± 0.04	4.901LeuAsp: 4.901 ± 0.096	5.128LeuGlu: 5.128 ± 0.091	4.126LeuPhe: 4.126 ± 0.086	6.25LeuGly: 6.25 ± 0.112	1.813LeuHis: 1.813 ± 0.042	6.275LeuIle: 6.275 ± 0.103	4.461LeuLys: 4.461 ± 0.081	8.947LeuLeu: 8.947 ± 0.148	2.336LeuMet: 2.336 ± 0.063	2.923LeuAsn: 2.923 ± 0.064	4.615LeuPro: 4.615 ± 0.08	2.301LeuGln: 2.301 ± 0.065	4.715LeuArg: 4.715 ± 0.099	6.435LeuSer: 6.435 ± 0.109	5.015LeuThr: 5.015 ± 0.088	7.088LeuVal: 7.088 ± 0.102	0.868LeuTrp: 0.868 ± 0.036	2.447LeuTyr: 2.447 ± 0.058	0.0LeuXaa: 0.0 ± 0.0
Met	2.393MetAla: 2.393 ± 0.055	0.244MetCys: 0.244 ± 0.019	1.52MetAsp: 1.52 ± 0.045	1.702MetGlu: 1.702 ± 0.052	0.754MetPhe: 0.754 ± 0.029	1.834MetGly: 1.834 ± 0.044	0.546MetHis: 0.546 ± 0.023	1.748MetIle: 1.748 ± 0.048	1.817MetLys: 1.817 ± 0.051	2.07MetLeu: 2.07 ± 0.055	0.72MetMet: 0.72 ± 0.031	1.002MetAsn: 1.002 ± 0.036	1.321MetPro: 1.321 ± 0.042	0.96MetGln: 0.96 ± 0.034	1.396MetArg: 1.396 ± 0.039	1.394MetSer: 1.394 ± 0.042	1.776MetThr: 1.776 ± 0.048	1.846MetVal: 1.846 ± 0.052	0.179MetTrp: 0.179 ± 0.015	0.657MetTyr: 0.657 ± 0.031	0.0MetXaa: 0.0 ± 0.0
Asn	3.046AsnAla: 3.046 ± 0.069	0.414AsnCys: 0.414 ± 0.025	1.578AsnAsp: 1.578 ± 0.055	1.892AsnGlu: 1.892 ± 0.048	1.146AsnPhe: 1.146 ± 0.041	2.748AsnGly: 2.748 ± 0.06	0.648AsnHis: 0.648 ± 0.027	2.262AsnIle: 2.262 ± 0.05	1.433AsnLys: 1.433 ± 0.054	3.145AsnLeu: 3.145 ± 0.069	0.645AsnMet: 0.645 ± 0.032	1.302AsnAsn: 1.302 ± 0.05	2.382AsnPro: 2.382 ± 0.067	0.926AsnGln: 0.926 ± 0.032	2.105AsnArg: 2.105 ± 0.058	1.691AsnSer: 1.691 ± 0.056	2.076AsnThr: 2.076 ± 0.062	2.256AsnVal: 2.256 ± 0.056	0.356AsnTrp: 0.356 ± 0.023	1.063AsnTyr: 1.063 ± 0.037	0.0AsnXaa: 0.0 ± 0.0
Pro	5.181ProAla: 5.181 ± 0.099	0.581ProCys: 0.581 ± 0.026	3.5ProAsp: 3.5 ± 0.083	3.927ProGlu: 3.927 ± 0.064	2.075ProPhe: 2.075 ± 0.046	4.239ProGly: 4.239 ± 0.077	0.963ProHis: 0.963 ± 0.037	2.177ProIle: 2.177 ± 0.054	1.882ProLys: 1.882 ± 0.052	4.18ProLeu: 4.18 ± 0.07	1.056ProMet: 1.056 ± 0.032	1.099ProAsn: 1.099 ± 0.032	2.17ProPro: 2.17 ± 0.053	1.373ProGln: 1.373 ± 0.041	2.086ProArg: 2.086 ± 0.057	2.786ProSer: 2.786 ± 0.06	2.308ProThr: 2.308 ± 0.074	5.223ProVal: 5.223 ± 0.099	0.479ProTrp: 0.479 ± 0.024	1.448ProTyr: 1.448 ± 0.042	0.0ProXaa: 0.0 ± 0.0
Gln	2.342GlnAla: 2.342 ± 0.059	0.345GlnCys: 0.345 ± 0.019	1.492GlnAsp: 1.492 ± 0.045	1.918GlnGlu: 1.918 ± 0.057	1.15GlnPhe: 1.15 ± 0.036	1.843GlnGly: 1.843 ± 0.046	0.58GlnHis: 0.58 ± 0.023	1.961GlnIle: 1.961 ± 0.056	2.077GlnLys: 2.077 ± 0.052	2.227GlnLeu: 2.227 ± 0.058	0.914GlnMet: 0.914 ± 0.042	1.169GlnAsn: 1.169 ± 0.041	1.199GlnPro: 1.199 ± 0.039	1.152GlnGln: 1.152 ± 0.038	1.561GlnArg: 1.561 ± 0.049	1.563GlnSer: 1.563 ± 0.053	1.433GlnThr: 1.433 ± 0.045	2.208GlnVal: 2.208 ± 0.05	0.334GlnTrp: 0.334 ± 0.021	1.093GlnTyr: 1.093 ± 0.038	0.0GlnXaa: 0.0 ± 0.0
Arg	4.274ArgAla: 4.274 ± 0.093	0.74ArgCys: 0.74 ± 0.033	3.555ArgAsp: 3.555 ± 0.067	4.694ArgGlu: 4.694 ± 0.095	2.422ArgPhe: 2.422 ± 0.063	3.595ArgGly: 3.595 ± 0.082	1.29ArgHis: 1.29 ± 0.048	4.427ArgIle: 4.427 ± 0.078	3.392ArgLys: 3.392 ± 0.078	4.715ArgLeu: 4.715 ± 0.091	1.759ArgMet: 1.759 ± 0.044	2.182ArgAsn: 2.182 ± 0.058	2.247ArgPro: 2.247 ± 0.052	1.982ArgGln: 1.982 ± 0.055	3.104ArgArg: 3.104 ± 0.084	3.132ArgSer: 3.132 ± 0.069	3.038ArgThr: 3.038 ± 0.065	3.896ArgVal: 3.896 ± 0.073	0.603ArgTrp: 0.603 ± 0.026	2.023ArgTyr: 2.023 ± 0.06	0.0ArgXaa: 0.0 ± 0.0
Ser	5.157SerAla: 5.157 ± 0.094	0.868SerCys: 0.868 ± 0.03	3.294SerAsp: 3.294 ± 0.063	3.211SerGlu: 3.211 ± 0.068	2.442SerPhe: 2.442 ± 0.057	5.962SerGly: 5.962 ± 0.103	1.17SerHis: 1.17 ± 0.04	3.64SerIle: 3.64 ± 0.075	2.038SerLys: 2.038 ± 0.053	5.751SerLeu: 5.751 ± 0.108	1.51SerMet: 1.51 ± 0.042	1.589SerAsn: 1.589 ± 0.065	3.4SerPro: 3.4 ± 0.072	1.663SerGln: 1.663 ± 0.047	3.741SerArg: 3.741 ± 0.076	3.891SerSer: 3.891 ± 0.117	3.434SerThr: 3.434 ± 0.094	4.446SerVal: 4.446 ± 0.089	0.72SerTrp: 0.72 ± 0.036	1.737SerTyr: 1.737 ± 0.062	0.0SerXaa: 0.0 ± 0.0
Thr	5.358ThrAla: 5.358 ± 0.106	0.777ThrCys: 0.777 ± 0.035	3.178ThrAsp: 3.178 ± 0.073	3.213ThrGlu: 3.213 ± 0.072	2.306ThrPhe: 2.306 ± 0.053	5.882ThrGly: 5.882 ± 0.108	1.14ThrHis: 1.14 ± 0.037	4.65ThrIle: 4.65 ± 0.081	2.665ThrLys: 2.665 ± 0.061	5.686ThrLeu: 5.686 ± 0.091	1.375ThrMet: 1.375 ± 0.044	1.804ThrAsn: 1.804 ± 0.078	3.423ThrPro: 3.423 ± 0.078	1.466ThrGln: 1.466 ± 0.044	3.072ThrArg: 3.072 ± 0.068	3.503ThrSer: 3.503 ± 0.097	3.851ThrThr: 3.851 ± 0.107	4.953ThrVal: 4.953 ± 0.101	0.667ThrTrp: 0.667 ± 0.026	1.817ThrTyr: 1.817 ± 0.066	0.0ThrXaa: 0.0 ± 0.0
Val	6.356ValAla: 6.356 ± 0.102	1.041ValCys: 1.041 ± 0.038	3.615ValAsp: 3.615 ± 0.067	3.972ValGlu: 3.972 ± 0.076	3.174ValPhe: 3.174 ± 0.073	4.441ValGly: 4.441 ± 0.102	1.503ValHis: 1.503 ± 0.043	5.817ValIle: 5.817 ± 0.087	3.674ValLys: 3.674 ± 0.079	7.135ValLeu: 7.135 ± 0.108	2.06ValMet: 2.06 ± 0.054	2.498ValAsn: 2.498 ± 0.068	4.128ValPro: 4.128 ± 0.078	2.145ValGln: 2.145 ± 0.049	4.291ValArg: 4.291 ± 0.092	4.841ValSer: 4.841 ± 0.072	5.244ValThr: 5.244 ± 0.093	5.908ValVal: 5.908 ± 0.092	0.736ValTrp: 0.736 ± 0.03	2.116ValTyr: 2.116 ± 0.06	0.0ValXaa: 0.0 ± 0.0
Trp	0.698TrpAla: 0.698 ± 0.033	0.155TrpCys: 0.155 ± 0.013	0.661TrpAsp: 0.661 ± 0.037	0.625TrpGlu: 0.625 ± 0.028	0.493TrpPhe: 0.493 ± 0.027	0.683TrpGly: 0.683 ± 0.029	0.208TrpHis: 0.208 ± 0.018	0.809TrpIle: 0.809 ± 0.032	0.672TrpLys: 0.672 ± 0.026	0.963TrpLeu: 0.963 ± 0.033	0.266TrpMet: 0.266 ± 0.019	0.486TrpAsn: 0.486 ± 0.026	0.274TrpPro: 0.274 ± 0.02	0.432TrpGln: 0.432 ± 0.025	0.549TrpArg: 0.549 ± 0.024	0.596TrpSer: 0.596 ± 0.031	0.535TrpThr: 0.535 ± 0.03	0.777TrpVal: 0.777 ± 0.033	0.158TrpTrp: 0.158 ± 0.014	0.445TrpTyr: 0.445 ± 0.03	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.588TyrAla: 2.588 ± 0.063	0.486TyrCys: 0.486 ± 0.026	1.803TyrAsp: 1.803 ± 0.069	1.671TyrGlu: 1.671 ± 0.054	1.2TyrPhe: 1.2 ± 0.042	2.424TyrGly: 2.424 ± 0.061	0.681TyrHis: 0.681 ± 0.032	1.89TyrIle: 1.89 ± 0.05	1.072TyrLys: 1.072 ± 0.037	3.012TyrLeu: 3.012 ± 0.064	0.63TyrMet: 0.63 ± 0.027	1.089TyrAsn: 1.089 ± 0.035	1.575TyrPro: 1.575 ± 0.048	1.021TyrGln: 1.021 ± 0.037	2.039TyrArg: 2.039 ± 0.051	1.949TyrSer: 1.949 ± 0.056	1.93TyrThr: 1.93 ± 0.064	1.949TyrVal: 1.949 ± 0.052	0.4TyrTrp: 0.4 ± 0.022	1.204TyrTyr: 1.204 ± 0.049	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 2815 proteins (810777 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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