Amino acid dipepetide frequency for thiotrophic endosymbiont of Bathymodiolus puteoserpentis (Logatchev)

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	4.066AlaAla: 4.066 ± 0.107	0.774AlaCys: 0.774 ± 0.046	3.972AlaAsp: 3.972 ± 0.095	3.383AlaGlu: 3.383 ± 0.103	3.215AlaPhe: 3.215 ± 0.084	4.545AlaGly: 4.545 ± 0.107	1.526AlaHis: 1.526 ± 0.063	5.861AlaIle: 5.861 ± 0.116	5.891AlaLys: 5.891 ± 0.1	7.964AlaLeu: 7.964 ± 0.132	1.897AlaMet: 1.897 ± 0.06	4.218AlaAsn: 4.218 ± 0.126	2.101AlaPro: 2.101 ± 0.075	3.581AlaGln: 3.581 ± 0.1	2.548AlaArg: 2.548 ± 0.072	4.346AlaSer: 4.346 ± 0.091	4.176AlaThr: 4.176 ± 0.099	4.213AlaVal: 4.213 ± 0.1	0.844AlaTrp: 0.844 ± 0.051	2.391AlaTyr: 2.391 ± 0.074	0.01AlaXaa: 0.01 ± 0.004
Cys	0.662CysAla: 0.662 ± 0.035	0.137CysCys: 0.137 ± 0.016	0.585CysAsp: 0.585 ± 0.032	0.562CysGlu: 0.562 ± 0.028	0.388CysPhe: 0.388 ± 0.027	0.774CysGly: 0.774 ± 0.042	0.279CysHis: 0.279 ± 0.023	0.684CysIle: 0.684 ± 0.035	0.588CysLys: 0.588 ± 0.036	0.841CysLeu: 0.841 ± 0.038	0.247CysMet: 0.247 ± 0.022	0.466CysAsn: 0.466 ± 0.03	0.49CysPro: 0.49 ± 0.029	0.471CysGln: 0.471 ± 0.035	0.334CysArg: 0.334 ± 0.024	0.6CysSer: 0.6 ± 0.031	0.48CysThr: 0.48 ± 0.029	0.719CysVal: 0.719 ± 0.033	0.062CysTrp: 0.062 ± 0.01	0.269CysTyr: 0.269 ± 0.021	0.0CysXaa: 0.0 ± 0.0
Asp	4.164AspAla: 4.164 ± 0.094	0.597AspCys: 0.597 ± 0.035	3.26AspAsp: 3.26 ± 0.093	3.898AspGlu: 3.898 ± 0.099	3.061AspPhe: 3.061 ± 0.084	3.882AspGly: 3.882 ± 0.101	0.762AspHis: 0.762 ± 0.041	5.008AspIle: 5.008 ± 0.107	5.134AspLys: 5.134 ± 0.102	5.406AspLeu: 5.406 ± 0.104	1.324AspMet: 1.324 ± 0.045	3.621AspAsn: 3.621 ± 0.089	1.558AspPro: 1.558 ± 0.049	1.374AspGln: 1.374 ± 0.048	1.857AspArg: 1.857 ± 0.051	3.663AspSer: 3.663 ± 0.113	3.136AspThr: 3.136 ± 0.077	3.432AspVal: 3.432 ± 0.081	0.799AspTrp: 0.799 ± 0.041	2.357AspTyr: 2.357 ± 0.069	0.003AspXaa: 0.003 ± 0.002
Glu	4.037GluAla: 4.037 ± 0.104	0.527GluCys: 0.527 ± 0.031	2.711GluAsp: 2.711 ± 0.075	2.88GluGlu: 2.88 ± 0.084	2.409GluPhe: 2.409 ± 0.068	3.195GluGly: 3.195 ± 0.08	1.279GluHis: 1.279 ± 0.049	4.699GluIle: 4.699 ± 0.096	4.856GluLys: 4.856 ± 0.091	5.384GluLeu: 5.384 ± 0.116	1.473GluMet: 1.473 ± 0.049	3.34GluAsn: 3.34 ± 0.078	1.393GluPro: 1.393 ± 0.05	3.009GluGln: 3.009 ± 0.075	2.584GluArg: 2.584 ± 0.07	3.305GluSer: 3.305 ± 0.076	2.594GluThr: 2.594 ± 0.07	4.099GluVal: 4.099 ± 0.096	0.498GluTrp: 0.498 ± 0.03	1.969GluTyr: 1.969 ± 0.066	0.002GluXaa: 0.002 ± 0.002
Phe	3.016PheAla: 3.016 ± 0.082	0.485PheCys: 0.485 ± 0.033	3.109PheAsp: 3.109 ± 0.074	2.695PheGlu: 2.695 ± 0.066	1.889PhePhe: 1.889 ± 0.078	2.905PheGly: 2.905 ± 0.086	0.754PheHis: 0.754 ± 0.04	3.243PheIle: 3.243 ± 0.089	3.007PheLys: 3.007 ± 0.079	3.733PheLeu: 3.733 ± 0.097	0.95PheMet: 0.95 ± 0.04	2.484PheAsn: 2.484 ± 0.07	1.127PhePro: 1.127 ± 0.041	1.117PheGln: 1.117 ± 0.044	1.306PheArg: 1.306 ± 0.051	3.484PheSer: 3.484 ± 0.09	2.207PheThr: 2.207 ± 0.064	2.859PheVal: 2.859 ± 0.076	0.54PheTrp: 0.54 ± 0.033	1.56PheTyr: 1.56 ± 0.054	0.002PheXaa: 0.002 ± 0.002
Gly	5.027GlyAla: 5.027 ± 0.103	0.858GlyCys: 0.858 ± 0.045	3.778GlyAsp: 3.778 ± 0.103	3.733GlyGlu: 3.733 ± 0.073	3.312GlyPhe: 3.312 ± 0.083	4.876GlyGly: 4.876 ± 0.128	1.414GlyHis: 1.414 ± 0.052	4.605GlyIle: 4.605 ± 0.086	4.936GlyLys: 4.936 ± 0.117	6.185GlyLeu: 6.185 ± 0.107	1.747GlyMet: 1.747 ± 0.061	3.686GlyAsn: 3.686 ± 0.156	1.147GlyPro: 1.147 ± 0.056	2.111GlyGln: 2.111 ± 0.064	2.711GlyArg: 2.711 ± 0.08	4.066GlySer: 4.066 ± 0.101	3.271GlyThr: 3.271 ± 0.083	5.189GlyVal: 5.189 ± 0.12	0.726GlyTrp: 0.726 ± 0.038	2.457GlyTyr: 2.457 ± 0.076	0.002GlyXaa: 0.002 ± 0.002
His	1.284HisAla: 1.284 ± 0.047	0.286HisCys: 0.286 ± 0.02	0.884HisAsp: 0.884 ± 0.042	0.909HisGlu: 0.909 ± 0.042	0.966HisPhe: 0.966 ± 0.045	1.371HisGly: 1.371 ± 0.06	0.639HisHis: 0.639 ± 0.034	1.825HisIle: 1.825 ± 0.055	1.329HisLys: 1.329 ± 0.045	2.163HisLeu: 2.163 ± 0.06	0.435HisMet: 0.435 ± 0.031	1.24HisAsn: 1.24 ± 0.042	1.234HisPro: 1.234 ± 0.054	1.128HisGln: 1.128 ± 0.041	0.876HisArg: 0.876 ± 0.039	1.528HisSer: 1.528 ± 0.051	1.262HisThr: 1.262 ± 0.054	0.858HisVal: 0.858 ± 0.043	0.286HisTrp: 0.286 ± 0.02	0.981HisTyr: 0.981 ± 0.047	0.002HisXaa: 0.002 ± 0.001
Ile	6.357IleAla: 6.357 ± 0.124	0.719IleCys: 0.719 ± 0.036	5.443IleAsp: 5.443 ± 0.096	5.269IleGlu: 5.269 ± 0.1	3.071IlePhe: 3.071 ± 0.076	5.271IleGly: 5.271 ± 0.113	1.523IleHis: 1.523 ± 0.054	5.379IleIle: 5.379 ± 0.113	6.28IleLys: 6.28 ± 0.118	6.545IleLeu: 6.545 ± 0.112	1.461IleMet: 1.461 ± 0.048	4.925IleAsn: 4.925 ± 0.126	2.442IlePro: 2.442 ± 0.078	2.615IleGln: 2.615 ± 0.067	2.486IleArg: 2.486 ± 0.071	5.4IleSer: 5.4 ± 0.101	4.813IleThr: 4.813 ± 0.102	4.821IleVal: 4.821 ± 0.096	0.578IleTrp: 0.578 ± 0.029	2.382IleTyr: 2.382 ± 0.076	0.003IleXaa: 0.003 ± 0.002
Lys	5.481LysAla: 5.481 ± 0.123	0.518LysCys: 0.518 ± 0.025	4.5LysAsp: 4.5 ± 0.097	4.229LysGlu: 4.229 ± 0.107	2.432LysPhe: 2.432 ± 0.068	4.438LysGly: 4.438 ± 0.089	1.81LysHis: 1.81 ± 0.064	6.416LysIle: 6.416 ± 0.119	5.97LysLys: 5.97 ± 0.153	6.678LysLeu: 6.678 ± 0.116	1.971LysMet: 1.971 ± 0.055	4.806LysAsn: 4.806 ± 0.099	2.449LysPro: 2.449 ± 0.065	3.997LysGln: 3.997 ± 0.089	3.032LysArg: 3.032 ± 0.079	4.647LysSer: 4.647 ± 0.106	4.983LysThr: 4.983 ± 0.095	4.841LysVal: 4.841 ± 0.095	0.619LysTrp: 0.619 ± 0.034	2.35LysTyr: 2.35 ± 0.074	0.007LysXaa: 0.007 ± 0.003
Leu	6.877LeuAla: 6.877 ± 0.125	0.871LeuCys: 0.871 ± 0.037	5.619LeuAsp: 5.619 ± 0.107	5.792LeuGlu: 5.792 ± 0.096	4.03LeuPhe: 4.03 ± 0.1	6.332LeuGly: 6.332 ± 0.112	1.782LeuHis: 1.782 ± 0.055	6.809LeuIle: 6.809 ± 0.136	7.466LeuLys: 7.466 ± 0.14	9.318LeuLeu: 9.318 ± 0.206	2.426LeuMet: 2.426 ± 0.065	5.518LeuAsn: 5.518 ± 0.128	3.509LeuPro: 3.509 ± 0.097	3.164LeuGln: 3.164 ± 0.087	3.32LeuArg: 3.32 ± 0.076	8.419LeuSer: 8.419 ± 0.132	5.476LeuThr: 5.476 ± 0.114	5.707LeuVal: 5.707 ± 0.112	0.849LeuTrp: 0.849 ± 0.036	2.594LeuTyr: 2.594 ± 0.073	0.005LeuXaa: 0.005 ± 0.003
Met	1.764MetAla: 1.764 ± 0.056	0.167MetCys: 0.167 ± 0.017	1.287MetAsp: 1.287 ± 0.047	1.04MetGlu: 1.04 ± 0.044	0.849MetPhe: 0.849 ± 0.037	1.76MetGly: 1.76 ± 0.062	0.54MetHis: 0.54 ± 0.03	1.667MetIle: 1.667 ± 0.058	1.598MetLys: 1.598 ± 0.051	2.285MetLeu: 2.285 ± 0.062	0.652MetMet: 0.652 ± 0.035	1.272MetAsn: 1.272 ± 0.042	1.0MetPro: 1.0 ± 0.042	1.23MetGln: 1.23 ± 0.051	1.102MetArg: 1.102 ± 0.041	1.846MetSer: 1.846 ± 0.061	1.324MetThr: 1.324 ± 0.044	1.603MetVal: 1.603 ± 0.05	0.167MetTrp: 0.167 ± 0.016	0.495MetTyr: 0.495 ± 0.028	0.003MetXaa: 0.003 ± 0.003
Asn	4.341AsnAla: 4.341 ± 0.096	0.46AsnCys: 0.46 ± 0.033	3.034AsnAsp: 3.034 ± 0.095	3.058AsnGlu: 3.058 ± 0.076	2.143AsnPhe: 2.143 ± 0.062	3.42AsnGly: 3.42 ± 0.09	1.299AsnHis: 1.299 ± 0.047	5.4AsnIle: 5.4 ± 0.141	4.829AsnLys: 4.829 ± 0.123	5.057AsnLeu: 5.057 ± 0.107	1.045AsnMet: 1.045 ± 0.043	4.146AsnAsn: 4.146 ± 0.142	2.345AsnPro: 2.345 ± 0.068	2.691AsnGln: 2.691 ± 0.077	2.065AsnArg: 2.065 ± 0.065	3.469AsnSer: 3.469 ± 0.086	4.363AsnThr: 4.363 ± 0.114	2.683AsnVal: 2.683 ± 0.077	0.622AsnTrp: 0.622 ± 0.033	1.83AsnTyr: 1.83 ± 0.059	0.007AsnXaa: 0.007 ± 0.003
Pro	2.033ProAla: 2.033 ± 0.057	0.334ProCys: 0.334 ± 0.024	1.959ProAsp: 1.959 ± 0.072	2.25ProGlu: 2.25 ± 0.06	1.349ProPhe: 1.349 ± 0.048	1.464ProGly: 1.464 ± 0.054	0.677ProHis: 0.677 ± 0.043	2.615ProIle: 2.615 ± 0.074	2.499ProLys: 2.499 ± 0.067	3.041ProLeu: 3.041 ± 0.077	0.884ProMet: 0.884 ± 0.043	1.852ProAsn: 1.852 ± 0.054	0.973ProPro: 0.973 ± 0.041	1.17ProGln: 1.17 ± 0.046	0.916ProArg: 0.916 ± 0.042	2.21ProSer: 2.21 ± 0.058	1.917ProThr: 1.917 ± 0.062	2.016ProVal: 2.016 ± 0.071	0.388ProTrp: 0.388 ± 0.027	1.153ProTyr: 1.153 ± 0.049	0.002ProXaa: 0.002 ± 0.002
Gln	3.427GlnAla: 3.427 ± 0.083	0.368GlnCys: 0.368 ± 0.032	2.357GlnAsp: 2.357 ± 0.066	2.24GlnGlu: 2.24 ± 0.06	1.386GlnPhe: 1.386 ± 0.051	2.616GlnGly: 2.616 ± 0.075	0.966GlnHis: 0.966 ± 0.04	3.009GlnIle: 3.009 ± 0.068	3.119GlnLys: 3.119 ± 0.082	4.104GlnLeu: 4.104 ± 0.105	1.053GlnMet: 1.053 ± 0.049	2.359GlnAsn: 2.359 ± 0.075	1.038GlnPro: 1.038 ± 0.042	2.387GlnGln: 2.387 ± 0.078	1.645GlnArg: 1.645 ± 0.058	2.772GlnSer: 2.772 ± 0.067	2.596GlnThr: 2.596 ± 0.075	2.645GlnVal: 2.645 ± 0.078	0.4GlnTrp: 0.4 ± 0.026	1.408GlnTyr: 1.408 ± 0.059	0.0GlnXaa: 0.0 ± 0.0
Arg	2.544ArgAla: 2.544 ± 0.07	0.341ArgCys: 0.341 ± 0.023	2.105ArgAsp: 2.105 ± 0.061	2.1ArgGlu: 2.1 ± 0.063	1.867ArgPhe: 1.867 ± 0.053	2.265ArgGly: 2.265 ± 0.072	0.931ArgHis: 0.931 ± 0.049	2.915ArgIle: 2.915 ± 0.075	2.601ArgLys: 2.601 ± 0.071	3.815ArgLeu: 3.815 ± 0.088	0.869ArgMet: 0.869 ± 0.041	1.827ArgAsn: 1.827 ± 0.055	1.093ArgPro: 1.093 ± 0.046	1.505ArgGln: 1.505 ± 0.051	1.551ArgArg: 1.551 ± 0.058	2.248ArgSer: 2.248 ± 0.068	1.837ArgThr: 1.837 ± 0.057	2.506ArgVal: 2.506 ± 0.069	0.386ArgTrp: 0.386 ± 0.029	1.633ArgTyr: 1.633 ± 0.054	0.0ArgXaa: 0.0 ± 0.0
Ser	4.962SerAla: 4.962 ± 0.117	0.644SerCys: 0.644 ± 0.038	3.867SerAsp: 3.867 ± 0.099	3.691SerGlu: 3.691 ± 0.088	2.864SerPhe: 2.864 ± 0.079	5.075SerGly: 5.075 ± 0.114	1.347SerHis: 1.347 ± 0.051	5.54SerIle: 5.54 ± 0.1	4.886SerLys: 4.886 ± 0.094	6.279SerLeu: 6.279 ± 0.129	1.516SerMet: 1.516 ± 0.055	3.992SerAsn: 3.992 ± 0.108	1.799SerPro: 1.799 ± 0.053	2.489SerGln: 2.489 ± 0.061	2.379SerArg: 2.379 ± 0.067	4.781SerSer: 4.781 ± 0.116	3.877SerThr: 3.877 ± 0.1	4.696SerVal: 4.696 ± 0.097	0.629SerTrp: 0.629 ± 0.029	2.111SerTyr: 2.111 ± 0.074	0.005SerXaa: 0.005 ± 0.003
Thr	3.539ThrAla: 3.539 ± 0.092	0.448ThrCys: 0.448 ± 0.026	3.459ThrAsp: 3.459 ± 0.082	2.71ThrGlu: 2.71 ± 0.068	2.061ThrPhe: 2.061 ± 0.061	4.162ThrGly: 4.162 ± 0.104	1.59ThrHis: 1.59 ± 0.054	4.412ThrIle: 4.412 ± 0.106	4.002ThrLys: 4.002 ± 0.097	6.376ThrLeu: 6.376 ± 0.118	1.202ThrMet: 1.202 ± 0.056	3.111ThrAsn: 3.111 ± 0.106	2.706ThrPro: 2.706 ± 0.066	3.106ThrGln: 3.106 ± 0.082	1.809ThrArg: 1.809 ± 0.064	3.378ThrSer: 3.378 ± 0.105	3.87ThrThr: 3.87 ± 0.114	3.273ThrVal: 3.273 ± 0.098	0.587ThrTrp: 0.587 ± 0.036	1.906ThrTyr: 1.906 ± 0.059	0.003ThrXaa: 0.003 ± 0.002
Val	5.097ValAla: 5.097 ± 0.109	0.637ValCys: 0.637 ± 0.032	4.002ValAsp: 4.002 ± 0.087	3.748ValGlu: 3.748 ± 0.093	3.042ValPhe: 3.042 ± 0.085	4.393ValGly: 4.393 ± 0.124	1.067ValHis: 1.067 ± 0.041	4.916ValIle: 4.916 ± 0.094	4.326ValLys: 4.326 ± 0.094	6.118ValLeu: 6.118 ± 0.114	1.595ValMet: 1.595 ± 0.057	3.248ValAsn: 3.248 ± 0.085	1.877ValPro: 1.877 ± 0.059	1.946ValGln: 1.946 ± 0.053	2.32ValArg: 2.32 ± 0.068	4.502ValSer: 4.502 ± 0.081	3.114ValThr: 3.114 ± 0.086	4.851ValVal: 4.851 ± 0.12	0.627ValTrp: 0.627 ± 0.031	1.894ValTyr: 1.894 ± 0.059	0.005ValXaa: 0.005 ± 0.002
Trp	0.582TrpAla: 0.582 ± 0.031	0.115TrpCys: 0.115 ± 0.014	0.588TrpAsp: 0.588 ± 0.036	0.458TrpGlu: 0.458 ± 0.029	0.495TrpPhe: 0.495 ± 0.03	0.809TrpGly: 0.809 ± 0.051	0.406TrpHis: 0.406 ± 0.022	0.699TrpIle: 0.699 ± 0.035	0.595TrpLys: 0.595 ± 0.037	1.12TrpLeu: 1.12 ± 0.052	0.266TrpMet: 0.266 ± 0.022	0.453TrpAsn: 0.453 ± 0.031	0.139TrpPro: 0.139 ± 0.013	0.624TrpGln: 0.624 ± 0.032	0.54TrpArg: 0.54 ± 0.035	0.575TrpSer: 0.575 ± 0.033	0.503TrpThr: 0.503 ± 0.038	0.67TrpVal: 0.67 ± 0.031	0.159TrpTrp: 0.159 ± 0.018	0.353TrpTyr: 0.353 ± 0.024	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.26TyrAla: 2.26 ± 0.068	0.353TyrCys: 0.353 ± 0.025	1.774TyrAsp: 1.774 ± 0.066	1.598TyrGlu: 1.598 ± 0.052	1.638TyrPhe: 1.638 ± 0.056	2.282TyrGly: 2.282 ± 0.062	0.891TyrHis: 0.891 ± 0.043	2.078TyrIle: 2.078 ± 0.062	2.255TyrLys: 2.255 ± 0.068	3.467TyrLeu: 3.467 ± 0.076	0.63TyrMet: 0.63 ± 0.036	1.735TyrAsn: 1.735 ± 0.059	1.282TyrPro: 1.282 ± 0.051	2.173TyrGln: 2.173 ± 0.073	1.558TyrArg: 1.558 ± 0.054	2.182TyrSer: 2.182 ± 0.074	1.909TyrThr: 1.909 ± 0.065	1.642TyrVal: 1.642 ± 0.047	0.384TyrTrp: 0.384 ± 0.027	1.342TyrTyr: 1.342 ± 0.054	0.003TyrXaa: 0.003 ± 0.002
Xaa	0.002XaaAla: 0.002 ± 0.002	0.002XaaCys: 0.002 ± 0.002	0.003XaaAsp: 0.003 ± 0.003	0.0XaaGlu: 0.0 ± 0.0	0.003XaaPhe: 0.003 ± 0.002	0.0XaaGly: 0.0 ± 0.0	0.003XaaHis: 0.003 ± 0.002	0.003XaaIle: 0.003 ± 0.002	0.007XaaLys: 0.007 ± 0.003	0.005XaaLeu: 0.005 ± 0.003	0.007XaaMet: 0.007 ± 0.003	0.007XaaAsn: 0.007 ± 0.003	0.002XaaPro: 0.002 ± 0.001	0.005XaaGln: 0.005 ± 0.003	0.002XaaArg: 0.002 ± 0.002	0.008XaaSer: 0.008 ± 0.004	0.0XaaThr: 0.0 ± 0.0	0.005XaaVal: 0.005 ± 0.003	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.055XaaXaa: 0.055 ± 0.032

Statistics based on 2032 proteins (598202 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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