Amino acid dipepetide frequency for Photorhabdus laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)

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.

AlaCysAspGluPheGlyHisIleLysLeuMetAsnProGlnArgSerThrValTrpTyrXaa
Ala
7.081AlaAla: 7.081 ± 0.101
0.889AlaCys: 0.889 ± 0.027
4.127AlaAsp: 4.127 ± 0.06
5.099AlaGlu: 5.099 ± 0.072
3.087AlaPhe: 3.087 ± 0.06
6.091AlaGly: 6.091 ± 0.104
1.604AlaHis: 1.604 ± 0.032
5.759AlaIle: 5.759 ± 0.073
4.015AlaLys: 4.015 ± 0.077
9.274AlaLeu: 9.274 ± 0.13
2.069AlaMet: 2.069 ± 0.043
3.37AlaAsn: 3.37 ± 0.066
2.739AlaPro: 2.739 ± 0.065
3.525AlaGln: 3.525 ± 0.078
3.929AlaArg: 3.929 ± 0.074
4.583AlaSer: 4.583 ± 0.066
3.975AlaThr: 3.975 ± 0.059
5.45AlaVal: 5.45 ± 0.075
0.947AlaTrp: 0.947 ± 0.032
2.305AlaTyr: 2.305 ± 0.051
0.0AlaXaa: 0.0 ± 0.0
Cys
0.771CysAla: 0.771 ± 0.025
0.203CysCys: 0.203 ± 0.014
0.604CysAsp: 0.604 ± 0.025
0.591CysGlu: 0.591 ± 0.023
0.516CysPhe: 0.516 ± 0.021
0.936CysGly: 0.936 ± 0.023
0.376CysHis: 0.376 ± 0.016
0.682CysIle: 0.682 ± 0.021
0.404CysLys: 0.404 ± 0.018
1.151CysLeu: 1.151 ± 0.033
0.227CysMet: 0.227 ± 0.012
0.41CysAsn: 0.41 ± 0.017
0.456CysPro: 0.456 ± 0.018
0.527CysGln: 0.527 ± 0.02
0.631CysArg: 0.631 ± 0.025
0.724CysSer: 0.724 ± 0.025
0.489CysThr: 0.489 ± 0.02
0.629CysVal: 0.629 ± 0.022
0.197CysTrp: 0.197 ± 0.011
0.413CysTyr: 0.413 ± 0.015
0.0CysXaa: 0.0 ± 0.0
Asp
3.929AspAla: 3.929 ± 0.049
0.532AspCys: 0.532 ± 0.022
2.745AspAsp: 2.745 ± 0.052
3.458AspGlu: 3.458 ± 0.058
2.309AspPhe: 2.309 ± 0.042
3.659AspGly: 3.659 ± 0.068
1.065AspHis: 1.065 ± 0.029
4.447AspIle: 4.447 ± 0.06
3.132AspLys: 3.132 ± 0.054
4.814AspLeu: 4.814 ± 0.067
1.216AspMet: 1.216 ± 0.032
2.898AspAsn: 2.898 ± 0.054
2.027AspPro: 2.027 ± 0.052
1.716AspGln: 1.716 ± 0.036
2.402AspArg: 2.402 ± 0.048
3.193AspSer: 3.193 ± 0.043
2.559AspThr: 2.559 ± 0.044
3.386AspVal: 3.386 ± 0.056
0.822AspTrp: 0.822 ± 0.027
2.087AspTyr: 2.087 ± 0.037
0.0AspXaa: 0.0 ± 0.0
Glu
4.279GluAla: 4.279 ± 0.062
0.527GluCys: 0.527 ± 0.018
2.458GluAsp: 2.458 ± 0.046
3.547GluGlu: 3.547 ± 0.071
2.107GluPhe: 2.107 ± 0.041
3.323GluGly: 3.323 ± 0.052
1.545GluHis: 1.545 ± 0.05
4.333GluIle: 4.333 ± 0.066
4.051GluLys: 4.051 ± 0.073
6.486GluLeu: 6.486 ± 0.101
1.61GluMet: 1.61 ± 0.031
3.083GluAsn: 3.083 ± 0.047
1.937GluPro: 1.937 ± 0.038
3.882GluGln: 3.882 ± 0.069
3.48GluArg: 3.48 ± 0.062
3.303GluSer: 3.303 ± 0.044
3.041GluThr: 3.041 ± 0.051
3.457GluVal: 3.457 ± 0.056
0.764GluTrp: 0.764 ± 0.024
1.862GluTyr: 1.862 ± 0.04
0.0GluXaa: 0.0 ± 0.0
Phe
3.033PheAla: 3.033 ± 0.051
0.553PheCys: 0.553 ± 0.021
2.521PheAsp: 2.521 ± 0.043
2.112PheGlu: 2.112 ± 0.042
1.698PhePhe: 1.698 ± 0.044
2.857PheGly: 2.857 ± 0.051
0.848PheHis: 0.848 ± 0.025
3.033PheIle: 3.033 ± 0.063
1.68PheLys: 1.68 ± 0.039
3.396PheLeu: 3.396 ± 0.058
0.934PheMet: 0.934 ± 0.027
2.132PheAsn: 2.132 ± 0.041
1.546PhePro: 1.546 ± 0.034
1.183PheGln: 1.183 ± 0.026
1.726PheArg: 1.726 ± 0.036
3.462PheSer: 3.462 ± 0.052
2.299PheThr: 2.299 ± 0.041
2.245PheVal: 2.245 ± 0.046
0.561PheTrp: 0.561 ± 0.022
1.4PheTyr: 1.4 ± 0.043
0.0PheXaa: 0.0 ± 0.0
Gly
4.922GlyAla: 4.922 ± 0.078
0.894GlyCys: 0.894 ± 0.026
3.573GlyAsp: 3.573 ± 0.085
4.257GlyGlu: 4.257 ± 0.066
2.909GlyPhe: 2.909 ± 0.049
4.872GlyGly: 4.872 ± 0.095
1.531GlyHis: 1.531 ± 0.033
5.16GlyIle: 5.16 ± 0.08
4.335GlyLys: 4.335 ± 0.085
6.639GlyLeu: 6.639 ± 0.079
1.876GlyMet: 1.876 ± 0.042
3.156GlyAsn: 3.156 ± 0.087
1.67GlyPro: 1.67 ± 0.034
2.978GlyGln: 2.978 ± 0.062
3.507GlyArg: 3.507 ± 0.057
4.011GlySer: 4.011 ± 0.075
3.499GlyThr: 3.499 ± 0.06
4.846GlyVal: 4.846 ± 0.074
1.077GlyTrp: 1.077 ± 0.029
2.708GlyTyr: 2.708 ± 0.045
0.0GlyXaa: 0.0 ± 0.0
His
1.6HisAla: 1.6 ± 0.039
0.372HisCys: 0.372 ± 0.018
1.146HisAsp: 1.146 ± 0.03
1.149HisGlu: 1.149 ± 0.029
1.108HisPhe: 1.108 ± 0.031
1.62HisGly: 1.62 ± 0.037
0.89HisHis: 0.89 ± 0.033
1.61HisIle: 1.61 ± 0.035
0.969HisLys: 0.969 ± 0.031
2.386HisLeu: 2.386 ± 0.057
0.488HisMet: 0.488 ± 0.021
1.015HisAsn: 1.015 ± 0.026
1.223HisPro: 1.223 ± 0.03
1.436HisGln: 1.436 ± 0.043
1.289HisArg: 1.289 ± 0.04
1.479HisSer: 1.479 ± 0.03
1.104HisThr: 1.104 ± 0.033
1.165HisVal: 1.165 ± 0.031
0.45HisTrp: 0.45 ± 0.018
1.027HisTyr: 1.027 ± 0.031
0.0HisXaa: 0.0 ± 0.0
Ile
6.164IleAla: 6.164 ± 0.078
0.803IleCys: 0.803 ± 0.026
4.206IleAsp: 4.206 ± 0.061
4.275IleGlu: 4.275 ± 0.061
2.515IlePhe: 2.515 ± 0.054
4.777IleGly: 4.777 ± 0.07
1.479IleHis: 1.479 ± 0.033
4.551IleIle: 4.551 ± 0.099
3.726IleLys: 3.726 ± 0.07
5.934IleLeu: 5.934 ± 0.072
1.432IleMet: 1.432 ± 0.033
3.912IleAsn: 3.912 ± 0.076
3.117IlePro: 3.117 ± 0.05
2.491IleGln: 2.491 ± 0.042
3.335IleArg: 3.335 ± 0.051
5.274IleSer: 5.274 ± 0.094
4.377IleThr: 4.377 ± 0.064
4.076IleVal: 4.076 ± 0.059
0.815IleTrp: 0.815 ± 0.025
2.12IleTyr: 2.12 ± 0.038
0.0IleXaa: 0.0 ± 0.0
Lys
4.073LysAla: 4.073 ± 0.067
0.326LysCys: 0.326 ± 0.017
2.578LysAsp: 2.578 ± 0.053
3.274LysGlu: 3.274 ± 0.066
1.52LysPhe: 1.52 ± 0.043
3.263LysGly: 3.263 ± 0.064
1.096LysHis: 1.096 ± 0.031
3.662LysIle: 3.662 ± 0.066
3.082LysLys: 3.082 ± 0.069
5.355LysLeu: 5.355 ± 0.079
1.398LysMet: 1.398 ± 0.037
2.754LysAsn: 2.754 ± 0.064
2.265LysPro: 2.265 ± 0.049
2.613LysGln: 2.613 ± 0.06
2.631LysArg: 2.631 ± 0.046
3.198LysSer: 3.198 ± 0.066
2.972LysThr: 2.972 ± 0.058
3.341LysVal: 3.341 ± 0.071
0.572LysTrp: 0.572 ± 0.019
1.598LysTyr: 1.598 ± 0.044
0.0LysXaa: 0.0 ± 0.0
Leu
9.583LeuAla: 9.583 ± 0.156
1.243LeuCys: 1.243 ± 0.029
5.352LeuAsp: 5.352 ± 0.075
5.537LeuGlu: 5.537 ± 0.087
4.331LeuPhe: 4.331 ± 0.077
6.471LeuGly: 6.471 ± 0.085
2.239LeuHis: 2.239 ± 0.045
6.811LeuIle: 6.811 ± 0.093
5.204LeuLys: 5.204 ± 0.073
10.935LeuLeu: 10.935 ± 0.161
2.521LeuMet: 2.521 ± 0.049
5.246LeuAsn: 5.246 ± 0.082
5.613LeuPro: 5.613 ± 0.121
4.073LeuGln: 4.073 ± 0.066
5.328LeuArg: 5.328 ± 0.072
8.163LeuSer: 8.163 ± 0.092
6.504LeuThr: 6.504 ± 0.102
6.169LeuVal: 6.169 ± 0.075
1.204LeuTrp: 1.204 ± 0.031
2.844LeuTyr: 2.844 ± 0.049
0.0LeuXaa: 0.0 ± 0.0
Met
2.328MetAla: 2.328 ± 0.04
0.185MetCys: 0.185 ± 0.011
1.092MetAsp: 1.092 ± 0.029
1.247MetGlu: 1.247 ± 0.027
0.77MetPhe: 0.77 ± 0.027
1.567MetGly: 1.567 ± 0.035
0.447MetHis: 0.447 ± 0.017
1.503MetIle: 1.503 ± 0.034
1.514MetLys: 1.514 ± 0.033
2.699MetLeu: 2.699 ± 0.048
0.801MetMet: 0.801 ± 0.028
1.167MetAsn: 1.167 ± 0.029
1.143MetPro: 1.143 ± 0.03
1.026MetGln: 1.026 ± 0.028
1.164MetArg: 1.164 ± 0.03
1.702MetSer: 1.702 ± 0.04
1.596MetThr: 1.596 ± 0.034
1.631MetVal: 1.631 ± 0.036
0.222MetTrp: 0.222 ± 0.013
0.548MetTyr: 0.548 ± 0.023
0.0MetXaa: 0.0 ± 0.0
Asn
3.382AsnAla: 3.382 ± 0.052
0.43AsnCys: 0.43 ± 0.016
2.4AsnAsp: 2.4 ± 0.05
2.581AsnGlu: 2.581 ± 0.042
1.61AsnPhe: 1.61 ± 0.035
3.394AsnGly: 3.394 ± 0.067
1.128AsnHis: 1.128 ± 0.033
3.78AsnIle: 3.78 ± 0.082
2.66AsnLys: 2.66 ± 0.062
4.313AsnLeu: 4.313 ± 0.064
1.072AsnMet: 1.072 ± 0.031
2.651AsnAsn: 2.651 ± 0.071
2.177AsnPro: 2.177 ± 0.043
2.21AsnGln: 2.21 ± 0.056
2.496AsnArg: 2.496 ± 0.047
2.991AsnSer: 2.991 ± 0.069
2.612AsnThr: 2.612 ± 0.059
2.658AsnVal: 2.658 ± 0.06
0.668AsnTrp: 0.668 ± 0.021
1.623AsnTyr: 1.623 ± 0.042
0.0AsnXaa: 0.0 ± 0.0
Pro
3.411ProAla: 3.411 ± 0.071
0.384ProCys: 0.384 ± 0.018
2.828ProAsp: 2.828 ± 0.093
3.448ProGlu: 3.448 ± 0.053
1.737ProPhe: 1.737 ± 0.038
2.714ProGly: 2.714 ± 0.046
0.946ProHis: 0.946 ± 0.026
2.449ProIle: 2.449 ± 0.042
1.902ProLys: 1.902 ± 0.035
4.569ProLeu: 4.569 ± 0.1
0.947ProMet: 0.947 ± 0.026
1.678ProAsn: 1.678 ± 0.04
1.541ProPro: 1.541 ± 0.036
1.926ProGln: 1.926 ± 0.054
1.561ProArg: 1.561 ± 0.037
2.44ProSer: 2.44 ± 0.043
2.174ProThr: 2.174 ± 0.039
3.422ProVal: 3.422 ± 0.065
0.623ProTrp: 0.623 ± 0.024
1.393ProTyr: 1.393 ± 0.033
0.0ProXaa: 0.0 ± 0.0
Gln
4.203GlnAla: 4.203 ± 0.08
0.443GlnCys: 0.443 ± 0.018
1.982GlnAsp: 1.982 ± 0.04
2.498GlnGlu: 2.498 ± 0.051
1.625GlnPhe: 1.625 ± 0.033
3.056GlnGly: 3.056 ± 0.055
1.25GlnHis: 1.25 ± 0.033
2.922GlnIle: 2.922 ± 0.055
2.269GlnLys: 2.269 ± 0.056
5.389GlnLeu: 5.389 ± 0.092
1.03GlnMet: 1.03 ± 0.024
1.702GlnAsn: 1.702 ± 0.04
2.118GlnPro: 2.118 ± 0.061
3.654GlnGln: 3.654 ± 0.098
2.759GlnArg: 2.759 ± 0.047
2.659GlnSer: 2.659 ± 0.049
2.364GlnThr: 2.364 ± 0.05
3.043GlnVal: 3.043 ± 0.077
0.689GlnTrp: 0.689 ± 0.024
1.441GlnTyr: 1.441 ± 0.034
0.0GlnXaa: 0.0 ± 0.0
Arg
3.38ArgAla: 3.38 ± 0.05
0.578ArgCys: 0.578 ± 0.025
2.634ArgAsp: 2.634 ± 0.046
3.202ArgGlu: 3.202 ± 0.054
2.331ArgPhe: 2.331 ± 0.037
2.944ArgGly: 2.944 ± 0.052
1.455ArgHis: 1.455 ± 0.042
3.558ArgIle: 3.558 ± 0.053
2.511ArgLys: 2.511 ± 0.047
5.891ArgLeu: 5.891 ± 0.122
1.294ArgMet: 1.294 ± 0.041
2.201ArgAsn: 2.201 ± 0.036
1.942ArgPro: 1.942 ± 0.038
2.894ArgGln: 2.894 ± 0.052
2.743ArgArg: 2.743 ± 0.045
2.728ArgSer: 2.728 ± 0.043
2.388ArgThr: 2.388 ± 0.04
3.153ArgVal: 3.153 ± 0.053
0.819ArgTrp: 0.819 ± 0.027
2.194ArgTyr: 2.194 ± 0.042
0.0ArgXaa: 0.0 ± 0.0
Ser
5.056SerAla: 5.056 ± 0.063
0.671SerCys: 0.671 ± 0.022
3.607SerAsp: 3.607 ± 0.049
3.646SerGlu: 3.646 ± 0.049
2.628SerPhe: 2.628 ± 0.05
5.346SerGly: 5.346 ± 0.081
1.69SerHis: 1.69 ± 0.035
4.005SerIle: 4.005 ± 0.081
2.788SerLys: 2.788 ± 0.061
7.273SerLeu: 7.273 ± 0.082
1.501SerMet: 1.501 ± 0.039
2.577SerAsn: 2.577 ± 0.061
2.779SerPro: 2.779 ± 0.04
3.059SerGln: 3.059 ± 0.061
3.317SerArg: 3.317 ± 0.048
4.321SerSer: 4.321 ± 0.079
3.249SerThr: 3.249 ± 0.054
4.464SerVal: 4.464 ± 0.055
0.913SerTrp: 0.913 ± 0.026
2.079SerTyr: 2.079 ± 0.045
0.0SerXaa: 0.0 ± 0.0
Thr
4.476ThrAla: 4.476 ± 0.074
0.546ThrCys: 0.546 ± 0.021
2.823ThrAsp: 2.823 ± 0.042
3.259ThrGlu: 3.259 ± 0.052
1.974ThrPhe: 1.974 ± 0.042
4.231ThrGly: 4.231 ± 0.062
1.358ThrHis: 1.358 ± 0.037
3.49ThrIle: 3.49 ± 0.055
2.102ThrLys: 2.102 ± 0.05
6.85ThrLeu: 6.85 ± 0.098
1.023ThrMet: 1.023 ± 0.028
2.012ThrAsn: 2.012 ± 0.045
2.96ThrPro: 2.96 ± 0.07
2.46ThrGln: 2.46 ± 0.049
2.491ThrArg: 2.491 ± 0.04
3.238ThrSer: 3.238 ± 0.049
3.062ThrThr: 3.062 ± 0.059
3.683ThrVal: 3.683 ± 0.062
0.608ThrTrp: 0.608 ± 0.023
1.542ThrTyr: 1.542 ± 0.033
0.0ThrXaa: 0.0 ± 0.0
Val
5.265ValAla: 5.265 ± 0.076
0.725ValCys: 0.725 ± 0.025
3.334ValAsp: 3.334 ± 0.052
3.737ValGlu: 3.737 ± 0.058
2.426ValPhe: 2.426 ± 0.045
4.238ValGly: 4.238 ± 0.076
1.174ValHis: 1.174 ± 0.028
4.847ValIle: 4.847 ± 0.07
3.302ValLys: 3.302 ± 0.056
6.367ValLeu: 6.367 ± 0.083
1.868ValMet: 1.868 ± 0.037
3.062ValAsn: 3.062 ± 0.051
2.708ValPro: 2.708 ± 0.068
2.298ValGln: 2.298 ± 0.05
3.017ValArg: 3.017 ± 0.053
4.478ValSer: 4.478 ± 0.061
3.838ValThr: 3.838 ± 0.062
4.495ValVal: 4.495 ± 0.077
0.808ValTrp: 0.808 ± 0.028
1.82ValTyr: 1.82 ± 0.04
0.0ValXaa: 0.0 ± 0.0
Trp
0.757TrpAla: 0.757 ± 0.028
0.162TrpCys: 0.162 ± 0.011
0.629TrpAsp: 0.629 ± 0.023
0.633TrpGlu: 0.633 ± 0.024
0.573TrpPhe: 0.573 ± 0.022
0.837TrpGly: 0.837 ± 0.03
0.426TrpHis: 0.426 ± 0.02
0.737TrpIle: 0.737 ± 0.024
0.57TrpLys: 0.57 ± 0.021
1.993TrpLeu: 1.993 ± 0.044
0.338TrpMet: 0.338 ± 0.015
0.524TrpAsn: 0.524 ± 0.023
0.575TrpPro: 0.575 ± 0.022
1.145TrpGln: 1.145 ± 0.036
0.899TrpArg: 0.899 ± 0.028
0.832TrpSer: 0.832 ± 0.027
0.461TrpThr: 0.461 ± 0.019
0.771TrpVal: 0.771 ± 0.025
0.166TrpTrp: 0.166 ± 0.012
0.406TrpTyr: 0.406 ± 0.015
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.223TyrAla: 2.223 ± 0.039
0.47TyrCys: 0.47 ± 0.017
1.756TyrAsp: 1.756 ± 0.048
1.527TyrGlu: 1.527 ± 0.032
1.446TyrPhe: 1.446 ± 0.041
2.222TyrGly: 2.222 ± 0.038
0.979TyrHis: 0.979 ± 0.028
2.038TyrIle: 2.038 ± 0.045
1.357TyrLys: 1.357 ± 0.04
3.66TyrLeu: 3.66 ± 0.055
0.705TyrMet: 0.705 ± 0.024
1.284TyrAsn: 1.284 ± 0.038
1.557TyrPro: 1.557 ± 0.038
1.999TyrGln: 1.999 ± 0.043
2.136TyrArg: 2.136 ± 0.044
2.19TyrSer: 2.19 ± 0.05
1.628TyrThr: 1.628 ± 0.037
1.727TyrVal: 1.727 ± 0.039
0.507TyrTrp: 0.507 ± 0.018
1.166TyrTyr: 1.166 ± 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 4556 proteins (1496065 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
See this proteome in: uniprot_link
Proteome-pI is available under Creative Commons Attribution-NoDerivs license, for more details see here

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