Amino acid dipepetide frequency for Alkaliphilus metalliredigens (strain QYMF)

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	4.574AlaAla: 4.574 ± 0.078	0.659AlaCys: 0.659 ± 0.023	2.806AlaAsp: 2.806 ± 0.053	4.121AlaGlu: 4.121 ± 0.065	2.727AlaPhe: 2.727 ± 0.045	4.609AlaGly: 4.609 ± 0.072	1.158AlaHis: 1.158 ± 0.033	5.984AlaIle: 5.984 ± 0.076	4.227AlaLys: 4.227 ± 0.06	6.843AlaLeu: 6.843 ± 0.073	2.148AlaMet: 2.148 ± 0.042	2.646AlaAsn: 2.646 ± 0.046	1.664AlaPro: 1.664 ± 0.04	2.117AlaGln: 2.117 ± 0.042	2.425AlaArg: 2.425 ± 0.045	3.58AlaSer: 3.58 ± 0.059	3.527AlaThr: 3.527 ± 0.088	4.627AlaVal: 4.627 ± 0.068	0.453AlaTrp: 0.453 ± 0.021	2.413AlaTyr: 2.413 ± 0.04	0.0AlaXaa: 0.0 ± 0.0
Cys	0.52CysAla: 0.52 ± 0.02	0.147CysCys: 0.147 ± 0.012	0.516CysAsp: 0.516 ± 0.021	0.563CysGlu: 0.563 ± 0.023	0.377CysPhe: 0.377 ± 0.019	0.896CysGly: 0.896 ± 0.029	0.266CysHis: 0.266 ± 0.015	0.786CysIle: 0.786 ± 0.026	0.62CysLys: 0.62 ± 0.023	0.691CysLeu: 0.691 ± 0.025	0.229CysMet: 0.229 ± 0.012	0.458CysAsn: 0.458 ± 0.021	0.463CysPro: 0.463 ± 0.024	0.323CysGln: 0.323 ± 0.018	0.374CysArg: 0.374 ± 0.017	0.586CysSer: 0.586 ± 0.019	0.481CysThr: 0.481 ± 0.021	0.531CysVal: 0.531 ± 0.022	0.066CysTrp: 0.066 ± 0.008	0.352CysTyr: 0.352 ± 0.016	0.0CysXaa: 0.0 ± 0.0
Asp	2.957AspAla: 2.957 ± 0.052	0.504AspCys: 0.504 ± 0.021	2.456AspAsp: 2.456 ± 0.05	4.596AspGlu: 4.596 ± 0.066	2.464AspPhe: 2.464 ± 0.044	3.306AspGly: 3.306 ± 0.063	1.103AspHis: 1.103 ± 0.032	4.993AspIle: 4.993 ± 0.067	3.489AspLys: 3.489 ± 0.058	5.021AspLeu: 5.021 ± 0.072	1.444AspMet: 1.444 ± 0.036	2.145AspAsn: 2.145 ± 0.045	1.799AspPro: 1.799 ± 0.036	1.884AspGln: 1.884 ± 0.047	2.123AspArg: 2.123 ± 0.039	2.689AspSer: 2.689 ± 0.045	2.506AspThr: 2.506 ± 0.044	3.722AspVal: 3.722 ± 0.052	0.459AspTrp: 0.459 ± 0.021	2.229AspTyr: 2.229 ± 0.041	0.0AspXaa: 0.0 ± 0.0
Glu	5.3GluAla: 5.3 ± 0.069	0.467GluCys: 0.467 ± 0.019	4.104GluAsp: 4.104 ± 0.061	7.553GluGlu: 7.553 ± 0.097	2.408GluPhe: 2.408 ± 0.044	4.992GluGly: 4.992 ± 0.074	1.184GluHis: 1.184 ± 0.03	7.394GluIle: 7.394 ± 0.088	7.088GluLys: 7.088 ± 0.089	6.917GluLeu: 6.917 ± 0.075	2.707GluMet: 2.707 ± 0.046	4.224GluAsn: 4.224 ± 0.057	1.677GluPro: 1.677 ± 0.044	2.618GluGln: 2.618 ± 0.046	3.245GluArg: 3.245 ± 0.052	3.794GluSer: 3.794 ± 0.065	3.599GluThr: 3.599 ± 0.057	5.801GluVal: 5.801 ± 0.066	0.502GluTrp: 0.502 ± 0.022	2.524GluTyr: 2.524 ± 0.044	0.0GluXaa: 0.0 ± 0.0
Phe	2.405PheAla: 2.405 ± 0.044	0.433PheCys: 0.433 ± 0.018	2.314PheAsp: 2.314 ± 0.042	2.649PheGlu: 2.649 ± 0.049	1.876PhePhe: 1.876 ± 0.043	2.826PheGly: 2.826 ± 0.048	0.778PheHis: 0.778 ± 0.025	4.07PheIle: 4.07 ± 0.065	2.71PheLys: 2.71 ± 0.047	3.697PheLeu: 3.697 ± 0.062	1.153PheMet: 1.153 ± 0.031	2.119PheAsn: 2.119 ± 0.042	1.357PhePro: 1.357 ± 0.033	1.431PheGln: 1.431 ± 0.033	1.391PheArg: 1.391 ± 0.037	2.913PheSer: 2.913 ± 0.051	2.413PheThr: 2.413 ± 0.044	2.768PheVal: 2.768 ± 0.048	0.334PheTrp: 0.334 ± 0.016	1.612PheTyr: 1.612 ± 0.034	0.0PheXaa: 0.0 ± 0.0
Gly	4.802GlyAla: 4.802 ± 0.088	0.804GlyCys: 0.804 ± 0.03	3.346GlyAsp: 3.346 ± 0.057	4.856GlyGlu: 4.856 ± 0.078	3.369GlyPhe: 3.369 ± 0.053	5.036GlyGly: 5.036 ± 0.077	1.312GlyHis: 1.312 ± 0.033	6.927GlyIle: 6.927 ± 0.073	4.974GlyLys: 4.974 ± 0.066	6.483GlyLeu: 6.483 ± 0.08	2.264GlyMet: 2.264 ± 0.049	3.042GlyAsn: 3.042 ± 0.051	1.655GlyPro: 1.655 ± 0.078	2.154GlyGln: 2.154 ± 0.044	2.76GlyArg: 2.76 ± 0.051	3.795GlySer: 3.795 ± 0.059	3.834GlyThr: 3.834 ± 0.059	5.028GlyVal: 5.028 ± 0.071	0.598GlyTrp: 0.598 ± 0.024	2.934GlyTyr: 2.934 ± 0.048	0.0GlyXaa: 0.0 ± 0.0
His	0.947HisAla: 0.947 ± 0.025	0.225HisCys: 0.225 ± 0.012	0.932HisAsp: 0.932 ± 0.026	1.315HisGlu: 1.315 ± 0.033	0.896HisPhe: 0.896 ± 0.025	1.316HisGly: 1.316 ± 0.031	0.573HisHis: 0.573 ± 0.026	1.698HisIle: 1.698 ± 0.037	1.1HisLys: 1.1 ± 0.029	1.854HisLeu: 1.854 ± 0.045	0.518HisMet: 0.518 ± 0.019	0.837HisAsn: 0.837 ± 0.026	0.896HisPro: 0.896 ± 0.024	0.781HisGln: 0.781 ± 0.026	0.828HisArg: 0.828 ± 0.026	1.087HisSer: 1.087 ± 0.03	0.958HisThr: 0.958 ± 0.025	1.198HisVal: 1.198 ± 0.031	0.18HisTrp: 0.18 ± 0.012	0.793HisTyr: 0.793 ± 0.03	0.0HisXaa: 0.0 ± 0.0
Ile	6.167IleAla: 6.167 ± 0.079	0.855IleCys: 0.855 ± 0.026	5.249IleAsp: 5.249 ± 0.063	7.266IleGlu: 7.266 ± 0.084	3.676IlePhe: 3.676 ± 0.053	6.31IleGly: 6.31 ± 0.08	1.716IleHis: 1.716 ± 0.039	7.564IleIle: 7.564 ± 0.089	6.444IleLys: 6.444 ± 0.075	8.307IleLeu: 8.307 ± 0.09	2.421IleMet: 2.421 ± 0.044	4.481IleAsn: 4.481 ± 0.058	3.447IlePro: 3.447 ± 0.056	3.183IleGln: 3.183 ± 0.046	3.469IleArg: 3.469 ± 0.061	5.645IleSer: 5.645 ± 0.08	4.787IleThr: 4.787 ± 0.072	5.955IleVal: 5.955 ± 0.073	0.597IleTrp: 0.597 ± 0.023	2.965IleTyr: 2.965 ± 0.046	0.0IleXaa: 0.0 ± 0.0
Lys	4.458LysAla: 4.458 ± 0.065	0.566LysCys: 0.566 ± 0.024	4.136LysAsp: 4.136 ± 0.055	7.312LysGlu: 7.312 ± 0.098	2.086LysPhe: 2.086 ± 0.041	4.809LysGly: 4.809 ± 0.07	1.368LysHis: 1.368 ± 0.038	6.05LysIle: 6.05 ± 0.075	6.363LysLys: 6.363 ± 0.083	6.169LysLeu: 6.169 ± 0.078	2.306LysMet: 2.306 ± 0.046	3.893LysAsn: 3.893 ± 0.058	1.974LysPro: 1.974 ± 0.042	2.528LysGln: 2.528 ± 0.046	3.16LysArg: 3.16 ± 0.052	4.007LysSer: 4.007 ± 0.051	3.608LysThr: 3.608 ± 0.056	5.018LysVal: 5.018 ± 0.063	0.564LysTrp: 0.564 ± 0.022	2.762LysTyr: 2.762 ± 0.044	0.0LysXaa: 0.0 ± 0.0
Leu	6.126LeuAla: 6.126 ± 0.078	0.849LeuCys: 0.849 ± 0.027	4.968LeuAsp: 4.968 ± 0.06	7.184LeuGlu: 7.184 ± 0.079	3.993LeuPhe: 3.993 ± 0.076	6.739LeuGly: 6.739 ± 0.088	1.507LeuHis: 1.507 ± 0.034	7.976LeuIle: 7.976 ± 0.084	7.165LeuLys: 7.165 ± 0.082	9.246LeuLeu: 9.246 ± 0.096	2.898LeuMet: 2.898 ± 0.044	4.661LeuAsn: 4.661 ± 0.064	3.179LeuPro: 3.179 ± 0.046	3.12LeuGln: 3.12 ± 0.05	3.792LeuArg: 3.792 ± 0.057	6.444LeuSer: 6.444 ± 0.074	4.884LeuThr: 4.884 ± 0.055	5.961LeuVal: 5.961 ± 0.074	0.686LeuTrp: 0.686 ± 0.026	3.007LeuTyr: 3.007 ± 0.051	0.0LeuXaa: 0.0 ± 0.0
Met	2.16MetAla: 2.16 ± 0.044	0.176MetCys: 0.176 ± 0.012	1.737MetAsp: 1.737 ± 0.039	2.338MetGlu: 2.338 ± 0.039	0.951MetPhe: 0.951 ± 0.028	2.248MetGly: 2.248 ± 0.046	0.403MetHis: 0.403 ± 0.016	2.811MetIle: 2.811 ± 0.047	2.709MetLys: 2.709 ± 0.045	2.63MetLeu: 2.63 ± 0.041	1.051MetMet: 1.051 ± 0.032	1.663MetAsn: 1.663 ± 0.039	1.037MetPro: 1.037 ± 0.027	0.812MetGln: 0.812 ± 0.025	1.131MetArg: 1.131 ± 0.027	1.642MetSer: 1.642 ± 0.036	1.732MetThr: 1.732 ± 0.036	2.035MetVal: 2.035 ± 0.041	0.141MetTrp: 0.141 ± 0.01	0.784MetTyr: 0.784 ± 0.023	0.0MetXaa: 0.0 ± 0.0
Asn	2.644AsnAla: 2.644 ± 0.052	0.476AsnCys: 0.476 ± 0.019	2.165AsnAsp: 2.165 ± 0.044	3.59AsnGlu: 3.59 ± 0.058	1.797AsnPhe: 1.797 ± 0.041	2.914AsnGly: 2.914 ± 0.053	1.172AsnHis: 1.172 ± 0.032	4.751AsnIle: 4.751 ± 0.072	3.527AsnLys: 3.527 ± 0.06	4.425AsnLeu: 4.425 ± 0.057	1.427AsnMet: 1.427 ± 0.033	2.477AsnAsn: 2.477 ± 0.057	2.152AsnPro: 2.152 ± 0.041	2.145AsnGln: 2.145 ± 0.046	2.163AsnArg: 2.163 ± 0.043	2.511AsnSer: 2.511 ± 0.052	2.517AsnThr: 2.517 ± 0.044	3.085AsnVal: 3.085 ± 0.043	0.416AsnTrp: 0.416 ± 0.019	1.848AsnTyr: 1.848 ± 0.038	0.0AsnXaa: 0.0 ± 0.0
Pro	1.804ProAla: 1.804 ± 0.04	0.3ProCys: 0.3 ± 0.017	1.588ProAsp: 1.588 ± 0.039	2.665ProGlu: 2.665 ± 0.045	1.489ProPhe: 1.489 ± 0.034	2.203ProGly: 2.203 ± 0.043	0.697ProHis: 0.697 ± 0.023	2.871ProIle: 2.871 ± 0.05	2.063ProLys: 2.063 ± 0.039	3.05ProLeu: 3.05 ± 0.046	0.893ProMet: 0.893 ± 0.025	1.489ProAsn: 1.489 ± 0.034	0.894ProPro: 0.894 ± 0.03	1.222ProGln: 1.222 ± 0.038	1.203ProArg: 1.203 ± 0.03	1.939ProSer: 1.939 ± 0.039	1.793ProThr: 1.793 ± 0.052	2.337ProVal: 2.337 ± 0.039	0.309ProTrp: 0.309 ± 0.016	1.297ProTyr: 1.297 ± 0.036	0.0ProXaa: 0.0 ± 0.0
Gln	2.16GlnAla: 2.16 ± 0.048	0.295GlnCys: 0.295 ± 0.016	1.65GlnAsp: 1.65 ± 0.035	3.094GlnGlu: 3.094 ± 0.054	1.312GlnPhe: 1.312 ± 0.033	2.477GlnGly: 2.477 ± 0.048	0.642GlnHis: 0.642 ± 0.021	2.785GlnIle: 2.785 ± 0.048	2.402GlnLys: 2.402 ± 0.047	3.44GlnLeu: 3.44 ± 0.056	1.129GlnMet: 1.129 ± 0.032	1.607GlnAsn: 1.607 ± 0.034	0.94GlnPro: 0.94 ± 0.029	1.53GlnGln: 1.53 ± 0.044	1.657GlnArg: 1.657 ± 0.033	1.978GlnSer: 1.978 ± 0.039	1.469GlnThr: 1.469 ± 0.039	2.481GlnVal: 2.481 ± 0.038	0.419GlnTrp: 0.419 ± 0.015	1.44GlnTyr: 1.44 ± 0.035	0.0GlnXaa: 0.0 ± 0.0
Arg	2.37ArgAla: 2.37 ± 0.043	0.384ArgCys: 0.384 ± 0.019	2.113ArgAsp: 2.113 ± 0.038	3.255ArgGlu: 3.255 ± 0.06	1.677ArgPhe: 1.677 ± 0.035	2.661ArgGly: 2.661 ± 0.05	0.713ArgHis: 0.713 ± 0.024	3.581ArgIle: 3.581 ± 0.052	3.11ArgLys: 3.11 ± 0.048	3.812ArgLeu: 3.812 ± 0.059	1.247ArgMet: 1.247 ± 0.029	1.983ArgAsn: 1.983 ± 0.039	1.217ArgPro: 1.217 ± 0.036	1.483ArgGln: 1.483 ± 0.037	1.806ArgArg: 1.806 ± 0.041	2.101ArgSer: 2.101 ± 0.04	1.916ArgThr: 1.916 ± 0.04	2.856ArgVal: 2.856 ± 0.047	0.36ArgTrp: 0.36 ± 0.016	1.562ArgTyr: 1.562 ± 0.035	0.0ArgXaa: 0.0 ± 0.0
Ser	3.136SerAla: 3.136 ± 0.053	0.544SerCys: 0.544 ± 0.021	2.68SerAsp: 2.68 ± 0.053	3.618SerGlu: 3.618 ± 0.051	2.89SerPhe: 2.89 ± 0.053	4.242SerGly: 4.242 ± 0.058	1.235SerHis: 1.235 ± 0.035	5.613SerIle: 5.613 ± 0.079	4.158SerLys: 4.158 ± 0.063	5.802SerLeu: 5.802 ± 0.073	1.799SerMet: 1.799 ± 0.037	2.874SerAsn: 2.874 ± 0.051	1.875SerPro: 1.875 ± 0.039	2.267SerGln: 2.267 ± 0.044	2.275SerArg: 2.275 ± 0.035	3.496SerSer: 3.496 ± 0.055	3.052SerThr: 3.052 ± 0.049	3.778SerVal: 3.778 ± 0.058	0.488SerTrp: 0.488 ± 0.02	2.207SerTyr: 2.207 ± 0.045	0.0SerXaa: 0.0 ± 0.0
Thr	3.46ThrAla: 3.46 ± 0.058	0.435ThrCys: 0.435 ± 0.015	2.549ThrAsp: 2.549 ± 0.038	3.378ThrGlu: 3.378 ± 0.056	2.233ThrPhe: 2.233 ± 0.042	4.328ThrGly: 4.328 ± 0.122	0.972ThrHis: 0.972 ± 0.029	4.757ThrIle: 4.757 ± 0.07	3.369ThrLys: 3.369 ± 0.048	5.12ThrLeu: 5.12 ± 0.059	1.418ThrMet: 1.418 ± 0.037	2.34ThrAsn: 2.34 ± 0.051	2.079ThrPro: 2.079 ± 0.042	1.592ThrGln: 1.592 ± 0.033	1.909ThrArg: 1.909 ± 0.04	3.036ThrSer: 3.036 ± 0.055	2.999ThrThr: 2.999 ± 0.055	3.901ThrVal: 3.901 ± 0.056	0.376ThrTrp: 0.376 ± 0.018	1.885ThrTyr: 1.885 ± 0.042	0.0ThrXaa: 0.0 ± 0.0
Val	4.836ValAla: 4.836 ± 0.065	0.66ValCys: 0.66 ± 0.03	4.011ValAsp: 4.011 ± 0.06	5.398ValGlu: 5.398 ± 0.08	2.886ValPhe: 2.886 ± 0.058	4.815ValGly: 4.815 ± 0.068	1.094ValHis: 1.094 ± 0.029	6.04ValIle: 6.04 ± 0.075	4.813ValLys: 4.813 ± 0.067	6.684ValLeu: 6.684 ± 0.081	1.974ValMet: 1.974 ± 0.037	3.135ValAsn: 3.135 ± 0.044	2.259ValPro: 2.259 ± 0.038	1.988ValGln: 1.988 ± 0.034	2.448ValArg: 2.448 ± 0.043	4.183ValSer: 4.183 ± 0.048	3.779ValThr: 3.779 ± 0.064	5.166ValVal: 5.166 ± 0.065	0.447ValTrp: 0.447 ± 0.017	2.317ValTyr: 2.317 ± 0.045	0.0ValXaa: 0.0 ± 0.0
Trp	0.473TrpAla: 0.473 ± 0.022	0.069TrpCys: 0.069 ± 0.008	0.451TrpAsp: 0.451 ± 0.019	0.551TrpGlu: 0.551 ± 0.022	0.325TrpPhe: 0.325 ± 0.018	0.578TrpGly: 0.578 ± 0.025	0.143TrpHis: 0.143 ± 0.011	0.728TrpIle: 0.728 ± 0.027	0.52TrpLys: 0.52 ± 0.022	0.71TrpLeu: 0.71 ± 0.028	0.234TrpMet: 0.234 ± 0.014	0.424TrpAsn: 0.424 ± 0.019	0.209TrpPro: 0.209 ± 0.013	0.312TrpGln: 0.312 ± 0.014	0.331TrpArg: 0.331 ± 0.016	0.476TrpSer: 0.476 ± 0.021	0.379TrpThr: 0.379 ± 0.017	0.541TrpVal: 0.541 ± 0.02	0.105TrpTrp: 0.105 ± 0.01	0.259TrpTyr: 0.259 ± 0.016	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.011TyrAla: 2.011 ± 0.04	0.398TyrCys: 0.398 ± 0.017	2.119TyrAsp: 2.119 ± 0.046	2.796TyrGlu: 2.796 ± 0.047	1.816TyrPhe: 1.816 ± 0.044	2.669TyrGly: 2.669 ± 0.044	0.898TyrHis: 0.898 ± 0.024	3.125TyrIle: 3.125 ± 0.05	2.287TyrLys: 2.287 ± 0.047	3.486TyrLeu: 3.486 ± 0.058	0.931TyrMet: 0.931 ± 0.028	1.703TyrAsn: 1.703 ± 0.034	1.331TyrPro: 1.331 ± 0.037	1.416TyrGln: 1.416 ± 0.035	1.717TyrArg: 1.717 ± 0.036	2.124TyrSer: 2.124 ± 0.042	1.905TyrThr: 1.905 ± 0.039	2.142TyrVal: 2.142 ± 0.046	0.315TyrTrp: 0.315 ± 0.016	1.567TyrTyr: 1.567 ± 0.037	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 4467 proteins (1321948 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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