Amino acid dipepetide frequency for Ruminiclostridium herbifermentans

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	4.946AlaAla: 4.946 ± 0.083	0.795AlaCys: 0.795 ± 0.027	3.542AlaAsp: 3.542 ± 0.056	4.264AlaGlu: 4.264 ± 0.074	2.743AlaPhe: 2.743 ± 0.045	4.302AlaGly: 4.302 ± 0.085	0.801AlaHis: 0.801 ± 0.028	5.965AlaIle: 5.965 ± 0.09	4.712AlaLys: 4.712 ± 0.066	5.762AlaLeu: 5.762 ± 0.084	1.613AlaMet: 1.613 ± 0.04	3.194AlaAsn: 3.194 ± 0.054	1.656AlaPro: 1.656 ± 0.051	1.835AlaGln: 1.835 ± 0.042	2.152AlaArg: 2.152 ± 0.046	3.827AlaSer: 3.827 ± 0.062	3.72AlaThr: 3.72 ± 0.511	4.551AlaVal: 4.551 ± 0.059	0.455AlaTrp: 0.455 ± 0.025	2.379AlaTyr: 2.379 ± 0.043	0.0AlaXaa: 0.0 ± 0.0
Cys	0.742CysAla: 0.742 ± 0.026	0.23CysCys: 0.23 ± 0.015	0.765CysAsp: 0.765 ± 0.025	0.828CysGlu: 0.828 ± 0.023	0.552CysPhe: 0.552 ± 0.023	1.13CysGly: 1.13 ± 0.038	0.223CysHis: 0.223 ± 0.013	1.175CysIle: 1.175 ± 0.029	0.93CysLys: 0.93 ± 0.03	1.019CysLeu: 1.019 ± 0.028	0.314CysMet: 0.314 ± 0.015	0.745CysAsn: 0.745 ± 0.025	0.497CysPro: 0.497 ± 0.023	0.332CysGln: 0.332 ± 0.017	0.436CysArg: 0.436 ± 0.018	0.95CysSer: 0.95 ± 0.029	0.651CysThr: 0.651 ± 0.025	0.7CysVal: 0.7 ± 0.024	0.129CysTrp: 0.129 ± 0.012	0.502CysTyr: 0.502 ± 0.023	0.0CysXaa: 0.0 ± 0.0
Asp	3.265AspAla: 3.265 ± 0.057	0.718AspCys: 0.718 ± 0.027	2.805AspAsp: 2.805 ± 0.051	4.22AspGlu: 4.22 ± 0.066	2.827AspPhe: 2.827 ± 0.046	3.841AspGly: 3.841 ± 0.069	0.588AspHis: 0.588 ± 0.023	6.1AspIle: 6.1 ± 0.097	4.682AspLys: 4.682 ± 0.063	4.548AspLeu: 4.548 ± 0.072	1.512AspMet: 1.512 ± 0.035	3.418AspAsn: 3.418 ± 0.054	1.432AspPro: 1.432 ± 0.039	0.905AspGln: 0.905 ± 0.026	1.914AspArg: 1.914 ± 0.04	3.647AspSer: 3.647 ± 0.063	3.044AspThr: 3.044 ± 0.058	3.51AspVal: 3.51 ± 0.067	0.552AspTrp: 0.552 ± 0.024	2.764AspTyr: 2.764 ± 0.055	0.0AspXaa: 0.0 ± 0.0
Glu	4.514GluAla: 4.514 ± 0.079	0.722GluCys: 0.722 ± 0.025	3.507GluAsp: 3.507 ± 0.063	5.174GluGlu: 5.174 ± 0.085	2.743GluPhe: 2.743 ± 0.054	3.647GluGly: 3.647 ± 0.055	1.019GluHis: 1.019 ± 0.028	6.495GluIle: 6.495 ± 0.08	6.238GluLys: 6.238 ± 0.104	6.611GluLeu: 6.611 ± 0.095	1.852GluMet: 1.852 ± 0.038	4.66GluAsn: 4.66 ± 0.068	1.636GluPro: 1.636 ± 0.041	2.426GluGln: 2.426 ± 0.045	2.621GluArg: 2.621 ± 0.055	3.514GluSer: 3.514 ± 0.061	2.967GluThr: 2.967 ± 0.047	4.192GluVal: 4.192 ± 0.062	0.555GluTrp: 0.555 ± 0.022	3.174GluTyr: 3.174 ± 0.06	0.0GluXaa: 0.0 ± 0.0
Phe	2.642PheAla: 2.642 ± 0.046	0.647PheCys: 0.647 ± 0.024	2.829PheAsp: 2.829 ± 0.049	2.94PheGlu: 2.94 ± 0.049	1.815PhePhe: 1.815 ± 0.045	2.874PheGly: 2.874 ± 0.049	0.546PheHis: 0.546 ± 0.02	3.974PheIle: 3.974 ± 0.075	3.203PheLys: 3.203 ± 0.052	3.51PheLeu: 3.51 ± 0.059	0.97PheMet: 0.97 ± 0.03	2.687PheAsn: 2.687 ± 0.044	1.295PhePro: 1.295 ± 0.035	0.977PheGln: 0.977 ± 0.026	1.375PheArg: 1.375 ± 0.033	3.262PheSer: 3.262 ± 0.054	2.416PheThr: 2.416 ± 0.047	2.644PheVal: 2.644 ± 0.049	0.339PheTrp: 0.339 ± 0.017	1.848PheTyr: 1.848 ± 0.041	0.0PheXaa: 0.0 ± 0.0
Gly	4.468GlyAla: 4.468 ± 0.515	0.949GlyCys: 0.949 ± 0.032	3.466GlyAsp: 3.466 ± 0.081	3.898GlyGlu: 3.898 ± 0.065	2.907GlyPhe: 2.907 ± 0.054	4.109GlyGly: 4.109 ± 0.082	0.987GlyHis: 0.987 ± 0.028	6.314GlyIle: 6.314 ± 0.081	5.162GlyLys: 5.162 ± 0.069	5.262GlyLeu: 5.262 ± 0.075	1.728GlyMet: 1.728 ± 0.041	3.628GlyAsn: 3.628 ± 0.073	2.163GlyPro: 2.163 ± 0.663	1.731GlyGln: 1.731 ± 0.041	2.279GlyArg: 2.279 ± 0.046	4.03GlySer: 4.03 ± 0.078	4.081GlyThr: 4.081 ± 0.11	4.441GlyVal: 4.441 ± 0.163	0.653GlyTrp: 0.653 ± 0.024	2.952GlyTyr: 2.952 ± 0.049	0.0GlyXaa: 0.0 ± 0.0
His	0.762HisAla: 0.762 ± 0.022	0.246HisCys: 0.246 ± 0.015	0.735HisAsp: 0.735 ± 0.025	0.793HisGlu: 0.793 ± 0.025	0.644HisPhe: 0.644 ± 0.024	0.97HisGly: 0.97 ± 0.03	0.313HisHis: 0.313 ± 0.016	1.294HisIle: 1.294 ± 0.034	0.993HisLys: 0.993 ± 0.026	1.111HisLeu: 1.111 ± 0.028	0.342HisMet: 0.342 ± 0.017	0.822HisAsn: 0.822 ± 0.025	0.661HisPro: 0.661 ± 0.026	0.379HisGln: 0.379 ± 0.017	0.587HisArg: 0.587 ± 0.022	0.893HisSer: 0.893 ± 0.028	0.778HisThr: 0.778 ± 0.023	0.772HisVal: 0.772 ± 0.024	0.141HisTrp: 0.141 ± 0.01	0.611HisTyr: 0.611 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	5.806IleAla: 5.806 ± 0.074	1.277IleCys: 1.277 ± 0.033	5.779IleAsp: 5.779 ± 0.073	6.479IleGlu: 6.479 ± 0.09	3.745IlePhe: 3.745 ± 0.069	5.509IleGly: 5.509 ± 0.08	1.169IleHis: 1.169 ± 0.032	8.134IleIle: 8.134 ± 0.113	7.279IleLys: 7.279 ± 0.088	7.784IleLeu: 7.784 ± 0.109	2.036IleMet: 2.036 ± 0.047	5.963IleAsn: 5.963 ± 0.078	3.309IlePro: 3.309 ± 0.051	2.453IleGln: 2.453 ± 0.048	3.13IleArg: 3.13 ± 0.052	7.178IleSer: 7.178 ± 0.098	5.294IleThr: 5.294 ± 0.083	5.635IleVal: 5.635 ± 0.085	0.614IleTrp: 0.614 ± 0.02	3.456IleTyr: 3.456 ± 0.062	0.0IleXaa: 0.0 ± 0.0
Lys	5.076LysAla: 5.076 ± 0.068	0.9LysCys: 0.9 ± 0.03	4.479LysAsp: 4.479 ± 0.065	6.254LysGlu: 6.254 ± 0.098	2.752LysPhe: 2.752 ± 0.046	4.379LysGly: 4.379 ± 0.057	1.176LysHis: 1.176 ± 0.032	6.887LysIle: 6.887 ± 0.097	6.746LysLys: 6.746 ± 0.1	7.115LysLeu: 7.115 ± 0.083	2.131LysMet: 2.131 ± 0.04	5.331LysAsn: 5.331 ± 0.072	2.329LysPro: 2.329 ± 0.043	2.488LysGln: 2.488 ± 0.047	3.039LysArg: 3.039 ± 0.057	4.828LysSer: 4.828 ± 0.069	4.026LysThr: 4.026 ± 0.062	5.143LysVal: 5.143 ± 0.079	0.711LysTrp: 0.711 ± 0.026	3.781LysTyr: 3.781 ± 0.069	0.0LysXaa: 0.0 ± 0.0
Leu	5.393LeuAla: 5.393 ± 0.075	1.2LeuCys: 1.2 ± 0.034	5.119LeuAsp: 5.119 ± 0.075	5.913LeuGlu: 5.913 ± 0.085	3.713LeuPhe: 3.713 ± 0.07	5.486LeuGly: 5.486 ± 0.083	1.184LeuHis: 1.184 ± 0.035	7.378LeuIle: 7.378 ± 0.105	7.497LeuLys: 7.497 ± 0.089	8.01LeuLeu: 8.01 ± 0.115	2.06LeuMet: 2.06 ± 0.04	5.281LeuAsn: 5.281 ± 0.079	3.079LeuPro: 3.079 ± 0.049	2.49LeuGln: 2.49 ± 0.055	3.201LeuArg: 3.201 ± 0.052	6.692LeuSer: 6.692 ± 0.086	4.649LeuThr: 4.649 ± 0.078	5.217LeuVal: 5.217 ± 0.071	0.644LeuTrp: 0.644 ± 0.022	3.296LeuTyr: 3.296 ± 0.058	0.0LeuXaa: 0.0 ± 0.0
Met	1.658MetAla: 1.658 ± 0.036	0.278MetCys: 0.278 ± 0.013	1.447MetAsp: 1.447 ± 0.032	1.604MetGlu: 1.604 ± 0.036	0.935MetPhe: 0.935 ± 0.027	1.667MetGly: 1.667 ± 0.037	0.379MetHis: 0.379 ± 0.017	1.949MetIle: 1.949 ± 0.043	2.233MetLys: 2.233 ± 0.047	2.463MetLeu: 2.463 ± 0.049	0.572MetMet: 0.572 ± 0.022	1.423MetAsn: 1.423 ± 0.031	0.967MetPro: 0.967 ± 0.031	0.828MetGln: 0.828 ± 0.024	0.885MetArg: 0.885 ± 0.028	1.68MetSer: 1.68 ± 0.038	1.268MetThr: 1.268 ± 0.03	1.512MetVal: 1.512 ± 0.036	0.182MetTrp: 0.182 ± 0.013	0.897MetTyr: 0.897 ± 0.026	0.0MetXaa: 0.0 ± 0.0
Asn	3.475AsnAla: 3.475 ± 0.055	0.792AsnCys: 0.792 ± 0.027	3.182AsnAsp: 3.182 ± 0.061	4.159AsnGlu: 4.159 ± 0.067	2.305AsnPhe: 2.305 ± 0.05	4.123AsnGly: 4.123 ± 0.069	0.708AsnHis: 0.708 ± 0.021	6.166AsnIle: 6.166 ± 0.084	4.902AsnLys: 4.902 ± 0.068	4.908AsnLeu: 4.908 ± 0.079	1.577AsnMet: 1.577 ± 0.038	4.16AsnAsn: 4.16 ± 0.074	2.273AsnPro: 2.273 ± 0.042	1.765AsnGln: 1.765 ± 0.044	2.152AsnArg: 2.152 ± 0.039	4.454AsnSer: 4.454 ± 0.073	3.365AsnThr: 3.365 ± 0.056	3.74AsnVal: 3.74 ± 0.059	0.552AsnTrp: 0.552 ± 0.021	2.606AsnTyr: 2.606 ± 0.049	0.0AsnXaa: 0.0 ± 0.0
Pro	1.966ProAla: 1.966 ± 0.052	0.367ProCys: 0.367 ± 0.016	1.952ProAsp: 1.952 ± 0.046	2.446ProGlu: 2.446 ± 0.052	1.423ProPhe: 1.423 ± 0.033	1.814ProGly: 1.814 ± 0.04	0.506ProHis: 0.506 ± 0.021	2.675ProIle: 2.675 ± 0.055	2.023ProLys: 2.023 ± 0.041	2.524ProLeu: 2.524 ± 0.044	0.742ProMet: 0.742 ± 0.025	1.771ProAsn: 1.771 ± 0.045	0.862ProPro: 0.862 ± 0.033	1.021ProGln: 1.021 ± 0.03	0.826ProArg: 0.826 ± 0.028	1.97ProSer: 1.97 ± 0.044	2.465ProThr: 2.465 ± 0.646	2.432ProVal: 2.432 ± 0.062	0.309ProTrp: 0.309 ± 0.017	1.379ProTyr: 1.379 ± 0.036	0.0ProXaa: 0.0 ± 0.0
Gln	1.901GlnAla: 1.901 ± 0.039	0.304GlnCys: 0.304 ± 0.015	1.351GlnAsp: 1.351 ± 0.037	1.882GlnGlu: 1.882 ± 0.048	1.115GlnPhe: 1.115 ± 0.03	1.538GlnGly: 1.538 ± 0.032	0.388GlnHis: 0.388 ± 0.018	2.61GlnIle: 2.61 ± 0.044	2.639GlnLys: 2.639 ± 0.051	2.739GlnLeu: 2.739 ± 0.045	0.819GlnMet: 0.819 ± 0.027	1.865GlnAsn: 1.865 ± 0.037	0.777GlnPro: 0.777 ± 0.029	1.038GlnGln: 1.038 ± 0.036	1.111GlnArg: 1.111 ± 0.034	1.696GlnSer: 1.696 ± 0.036	1.372GlnThr: 1.372 ± 0.036	1.658GlnVal: 1.658 ± 0.036	0.26GlnTrp: 0.26 ± 0.014	1.323GlnTyr: 1.323 ± 0.032	0.0GlnXaa: 0.0 ± 0.0
Arg	2.031ArgAla: 2.031 ± 0.047	0.421ArgCys: 0.421 ± 0.02	1.854ArgAsp: 1.854 ± 0.041	2.506ArgGlu: 2.506 ± 0.053	1.513ArgPhe: 1.513 ± 0.034	1.977ArgGly: 1.977 ± 0.038	0.554ArgHis: 0.554 ± 0.023	3.4ArgIle: 3.4 ± 0.061	2.84ArgLys: 2.84 ± 0.052	3.347ArgLeu: 3.347 ± 0.061	0.993ArgMet: 0.993 ± 0.03	2.145ArgAsn: 2.145 ± 0.044	1.021ArgPro: 1.021 ± 0.032	1.094ArgGln: 1.094 ± 0.031	1.473ArgArg: 1.473 ± 0.041	1.761ArgSer: 1.761 ± 0.04	1.911ArgThr: 1.911 ± 0.036	2.341ArgVal: 2.341 ± 0.043	0.32ArgTrp: 0.32 ± 0.015	1.58ArgTyr: 1.58 ± 0.038	0.0ArgXaa: 0.0 ± 0.0
Ser	4.131SerAla: 4.131 ± 0.063	0.807SerCys: 0.807 ± 0.028	3.767SerAsp: 3.767 ± 0.051	4.404SerGlu: 4.404 ± 0.065	3.15SerPhe: 3.15 ± 0.051	4.764SerGly: 4.764 ± 0.074	0.943SerHis: 0.943 ± 0.025	6.374SerIle: 6.374 ± 0.078	5.206SerLys: 5.206 ± 0.071	5.617SerLeu: 5.617 ± 0.077	1.637SerMet: 1.637 ± 0.035	4.118SerAsn: 4.118 ± 0.075	1.884SerPro: 1.884 ± 0.038	2.003SerGln: 2.003 ± 0.045	2.279SerArg: 2.279 ± 0.045	4.806SerSer: 4.806 ± 0.075	3.698SerThr: 3.698 ± 0.063	4.323SerVal: 4.323 ± 0.069	0.55SerTrp: 0.55 ± 0.022	2.675SerTyr: 2.675 ± 0.05	0.0SerXaa: 0.0 ± 0.0
Thr	3.784ThrAla: 3.784 ± 0.1	0.568ThrCys: 0.568 ± 0.02	2.892ThrAsp: 2.892 ± 0.061	3.196ThrGlu: 3.196 ± 0.053	2.396ThrPhe: 2.396 ± 0.052	5.975ThrGly: 5.975 ± 1.442	0.768ThrHis: 0.768 ± 0.023	4.939ThrIle: 4.939 ± 0.079	3.659ThrLys: 3.659 ± 0.058	4.762ThrLeu: 4.762 ± 0.066	1.146ThrMet: 1.146 ± 0.029	3.007ThrAsn: 3.007 ± 0.06	1.997ThrPro: 1.997 ± 0.051	1.427ThrGln: 1.427 ± 0.038	1.61ThrArg: 1.61 ± 0.035	3.588ThrSer: 3.588 ± 0.053	3.097ThrThr: 3.097 ± 0.094	4.005ThrVal: 4.005 ± 0.081	0.477ThrTrp: 0.477 ± 0.023	2.155ThrTyr: 2.155 ± 0.039	0.0ThrXaa: 0.0 ± 0.0
Val	3.918ValAla: 3.918 ± 0.061	0.854ValCys: 0.854 ± 0.027	3.757ValAsp: 3.757 ± 0.063	4.107ValGlu: 4.107 ± 0.064	2.984ValPhe: 2.984 ± 0.051	3.811ValGly: 3.811 ± 0.07	0.842ValHis: 0.842 ± 0.024	5.684ValIle: 5.684 ± 0.082	4.857ValLys: 4.857 ± 0.066	5.966ValLeu: 5.966 ± 0.075	1.552ValMet: 1.552 ± 0.035	3.796ValAsn: 3.796 ± 0.061	2.111ValPro: 2.111 ± 0.044	1.662ValGln: 1.662 ± 0.035	2.186ValArg: 2.186 ± 0.043	4.636ValSer: 4.636 ± 0.071	3.87ValThr: 3.87 ± 0.176	4.316ValVal: 4.316 ± 0.077	0.575ValTrp: 0.575 ± 0.022	2.5ValTyr: 2.5 ± 0.039	0.0ValXaa: 0.0 ± 0.0
Trp	0.494TrpAla: 0.494 ± 0.022	0.145TrpCys: 0.145 ± 0.011	0.572TrpAsp: 0.572 ± 0.027	0.55TrpGlu: 0.55 ± 0.02	0.385TrpPhe: 0.385 ± 0.019	0.597TrpGly: 0.597 ± 0.024	0.145TrpHis: 0.145 ± 0.01	0.635TrpIle: 0.635 ± 0.025	0.61TrpLys: 0.61 ± 0.024	0.717TrpLeu: 0.717 ± 0.03	0.235TrpMet: 0.235 ± 0.014	0.608TrpAsn: 0.608 ± 0.024	0.19TrpPro: 0.19 ± 0.012	0.344TrpGln: 0.344 ± 0.017	0.305TrpArg: 0.305 ± 0.015	0.547TrpSer: 0.547 ± 0.023	0.458TrpThr: 0.458 ± 0.024	0.464TrpVal: 0.464 ± 0.019	0.122TrpTrp: 0.122 ± 0.009	0.395TrpTyr: 0.395 ± 0.022	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.244TyrAla: 2.244 ± 0.045	0.631TyrCys: 0.631 ± 0.024	2.49TyrAsp: 2.49 ± 0.049	2.65TyrGlu: 2.65 ± 0.056	2.144TyrPhe: 2.144 ± 0.043	2.697TyrGly: 2.697 ± 0.053	0.606TyrHis: 0.606 ± 0.02	3.884TyrIle: 3.884 ± 0.064	3.16TyrLys: 3.16 ± 0.056	3.729TyrLeu: 3.729 ± 0.06	0.994TyrMet: 0.994 ± 0.029	2.743TyrAsn: 2.743 ± 0.051	1.336TyrPro: 1.336 ± 0.037	1.187TyrGln: 1.187 ± 0.033	1.518TyrArg: 1.518 ± 0.033	3.177TyrSer: 3.177 ± 0.058	2.318TyrThr: 2.318 ± 0.054	2.388TyrVal: 2.388 ± 0.048	0.379TyrTrp: 0.379 ± 0.018	1.937TyrTyr: 1.937 ± 0.052	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 3957 proteins (1336279 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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