Amino acid dipepetide frequency for Nocardioides sp. LS1

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
18.694AlaAla: 18.694 ± 0.186
1.037AlaCys: 1.037 ± 0.029
8.214AlaAsp: 8.214 ± 0.076
7.573AlaGlu: 7.573 ± 0.092
3.621AlaPhe: 3.621 ± 0.052
12.234AlaGly: 12.234 ± 0.104
2.831AlaHis: 2.831 ± 0.039
4.454AlaIle: 4.454 ± 0.059
2.682AlaLys: 2.682 ± 0.057
13.049AlaLeu: 13.049 ± 0.121
2.86AlaMet: 2.86 ± 0.046
2.101AlaAsn: 2.101 ± 0.045
5.917AlaPro: 5.917 ± 0.068
3.411AlaGln: 3.411 ± 0.051
9.265AlaArg: 9.265 ± 0.1
6.567AlaSer: 6.567 ± 0.08
7.945AlaThr: 7.945 ± 0.078
11.31AlaVal: 11.31 ± 0.118
2.034AlaTrp: 2.034 ± 0.045
2.513AlaTyr: 2.513 ± 0.04
0.0AlaXaa: 0.0 ± 0.0
Cys
0.888CysAla: 0.888 ± 0.027
0.087CysCys: 0.087 ± 0.009
0.527CysAsp: 0.527 ± 0.021
0.383CysGlu: 0.383 ± 0.016
0.256CysPhe: 0.256 ± 0.016
0.869CysGly: 0.869 ± 0.025
0.208CysHis: 0.208 ± 0.011
0.215CysIle: 0.215 ± 0.012
0.122CysLys: 0.122 ± 0.01
0.664CysLeu: 0.664 ± 0.019
0.113CysMet: 0.113 ± 0.009
0.166CysAsn: 0.166 ± 0.012
0.507CysPro: 0.507 ± 0.021
0.213CysGln: 0.213 ± 0.012
0.543CysArg: 0.543 ± 0.02
0.491CysSer: 0.491 ± 0.017
0.507CysThr: 0.507 ± 0.022
0.626CysVal: 0.626 ± 0.024
0.118CysTrp: 0.118 ± 0.01
0.158CysTyr: 0.158 ± 0.011
0.0CysXaa: 0.0 ± 0.0
Asp
7.94AspAla: 7.94 ± 0.086
0.443AspCys: 0.443 ± 0.018
4.52AspAsp: 4.52 ± 0.059
4.318AspGlu: 4.318 ± 0.057
1.823AspPhe: 1.823 ± 0.041
6.406AspGly: 6.406 ± 0.07
1.695AspHis: 1.695 ± 0.04
2.01AspIle: 2.01 ± 0.041
1.269AspLys: 1.269 ± 0.037
7.327AspLeu: 7.327 ± 0.083
0.947AspMet: 0.947 ± 0.025
1.159AspAsn: 1.159 ± 0.036
4.576AspPro: 4.576 ± 0.059
1.889AspGln: 1.889 ± 0.034
4.925AspArg: 4.925 ± 0.066
2.607AspSer: 2.607 ± 0.05
3.072AspThr: 3.072 ± 0.05
6.121AspVal: 6.121 ± 0.066
1.04AspTrp: 1.04 ± 0.027
1.278AspTyr: 1.278 ± 0.032
0.0AspXaa: 0.0 ± 0.0
Glu
7.086GluAla: 7.086 ± 0.082
0.332GluCys: 0.332 ± 0.016
3.067GluAsp: 3.067 ± 0.048
3.153GluGlu: 3.153 ± 0.057
1.509GluPhe: 1.509 ± 0.034
4.293GluGly: 4.293 ± 0.061
1.665GluHis: 1.665 ± 0.034
2.408GluIle: 2.408 ± 0.046
1.37GluLys: 1.37 ± 0.035
6.224GluLeu: 6.224 ± 0.066
1.107GluMet: 1.107 ± 0.027
0.907GluAsn: 0.907 ± 0.023
2.962GluPro: 2.962 ± 0.059
2.178GluGln: 2.178 ± 0.046
4.79GluArg: 4.79 ± 0.074
2.693GluSer: 2.693 ± 0.046
2.928GluThr: 2.928 ± 0.049
5.268GluVal: 5.268 ± 0.063
0.811GluTrp: 0.811 ± 0.026
0.979GluTyr: 0.979 ± 0.03
0.0GluXaa: 0.0 ± 0.0
Phe
3.644PheAla: 3.644 ± 0.052
0.29PheCys: 0.29 ± 0.014
2.105PheAsp: 2.105 ± 0.045
1.633PheGlu: 1.633 ± 0.044
0.91PhePhe: 0.91 ± 0.031
3.126PheGly: 3.126 ± 0.049
0.712PheHis: 0.712 ± 0.023
0.82PheIle: 0.82 ± 0.025
0.537PheLys: 0.537 ± 0.022
2.652PheLeu: 2.652 ± 0.044
0.433PheMet: 0.433 ± 0.017
0.627PheAsn: 0.627 ± 0.019
1.36PhePro: 1.36 ± 0.033
0.674PheGln: 0.674 ± 0.023
1.74PheArg: 1.74 ± 0.039
1.538PheSer: 1.538 ± 0.039
1.997PheThr: 1.997 ± 0.04
2.689PheVal: 2.689 ± 0.042
0.438PheTrp: 0.438 ± 0.018
0.652PheTyr: 0.652 ± 0.022
0.0PheXaa: 0.0 ± 0.0
Gly
10.11GlyAla: 10.11 ± 0.098
0.848GlyCys: 0.848 ± 0.024
5.605GlyAsp: 5.605 ± 0.072
4.839GlyGlu: 4.839 ± 0.051
2.985GlyPhe: 2.985 ± 0.047
8.157GlyGly: 8.157 ± 0.119
2.461GlyHis: 2.461 ± 0.043
3.896GlyIle: 3.896 ± 0.059
2.373GlyLys: 2.373 ± 0.048
9.476GlyLeu: 9.476 ± 0.102
2.055GlyMet: 2.055 ± 0.051
1.91GlyAsn: 1.91 ± 0.049
4.412GlyPro: 4.412 ± 0.062
2.711GlyGln: 2.711 ± 0.045
6.894GlyArg: 6.894 ± 0.083
5.628GlySer: 5.628 ± 0.067
6.114GlyThr: 6.114 ± 0.084
7.981GlyVal: 7.981 ± 0.083
1.69GlyTrp: 1.69 ± 0.038
2.212GlyTyr: 2.212 ± 0.041
0.0GlyXaa: 0.0 ± 0.0
His
2.883HisAla: 2.883 ± 0.044
0.195HisCys: 0.195 ± 0.013
1.75HisAsp: 1.75 ± 0.04
1.41HisGlu: 1.41 ± 0.029
0.667HisPhe: 0.667 ± 0.02
2.475HisGly: 2.475 ± 0.045
0.772HisHis: 0.772 ± 0.028
0.575HisIle: 0.575 ± 0.022
0.338HisLys: 0.338 ± 0.016
2.515HisLeu: 2.515 ± 0.046
0.332HisMet: 0.332 ± 0.017
0.391HisAsn: 0.391 ± 0.016
1.76HisPro: 1.76 ± 0.036
0.751HisGln: 0.751 ± 0.024
1.973HisArg: 1.973 ± 0.042
0.969HisSer: 0.969 ± 0.025
1.248HisThr: 1.248 ± 0.03
2.201HisVal: 2.201 ± 0.041
0.381HisTrp: 0.381 ± 0.018
0.488HisTyr: 0.488 ± 0.022
0.0HisXaa: 0.0 ± 0.0
Ile
4.954IleAla: 4.954 ± 0.059
0.292IleCys: 0.292 ± 0.014
2.75IleAsp: 2.75 ± 0.047
2.35IleGlu: 2.35 ± 0.046
0.831IlePhe: 0.831 ± 0.025
3.804IleGly: 3.804 ± 0.055
0.687IleHis: 0.687 ± 0.023
1.039IleIle: 1.039 ± 0.03
0.821IleLys: 0.821 ± 0.027
2.624IleLeu: 2.624 ± 0.049
0.468IleMet: 0.468 ± 0.021
0.833IleAsn: 0.833 ± 0.023
1.907IlePro: 1.907 ± 0.039
0.81IleGln: 0.81 ± 0.024
2.346IleArg: 2.346 ± 0.042
1.892IleSer: 1.892 ± 0.036
2.391IleThr: 2.391 ± 0.048
3.181IleVal: 3.181 ± 0.06
0.436IleTrp: 0.436 ± 0.017
0.6IleTyr: 0.6 ± 0.021
0.0IleXaa: 0.0 ± 0.0
Lys
2.808LysAla: 2.808 ± 0.063
0.103LysCys: 0.103 ± 0.01
1.278LysAsp: 1.278 ± 0.039
0.979LysGlu: 0.979 ± 0.026
0.57LysPhe: 0.57 ± 0.017
1.688LysGly: 1.688 ± 0.038
0.507LysHis: 0.507 ± 0.021
0.871LysIle: 0.871 ± 0.027
0.813LysLys: 0.813 ± 0.036
1.931LysLeu: 1.931 ± 0.036
0.434LysMet: 0.434 ± 0.019
0.493LysAsn: 0.493 ± 0.021
1.292LysPro: 1.292 ± 0.036
0.702LysGln: 0.702 ± 0.023
1.398LysArg: 1.398 ± 0.04
1.196LysSer: 1.196 ± 0.033
1.295LysThr: 1.295 ± 0.032
2.161LysVal: 2.161 ± 0.044
0.24LysTrp: 0.24 ± 0.013
0.455LysTyr: 0.455 ± 0.018
0.0LysXaa: 0.0 ± 0.0
Leu
14.802LeuAla: 14.802 ± 0.125
0.732LeuCys: 0.732 ± 0.022
7.155LeuAsp: 7.155 ± 0.085
5.431LeuGlu: 5.431 ± 0.069
2.423LeuPhe: 2.423 ± 0.045
9.496LeuGly: 9.496 ± 0.094
2.184LeuHis: 2.184 ± 0.044
2.891LeuIle: 2.891 ± 0.055
1.857LeuLys: 1.857 ± 0.043
10.481LeuLeu: 10.481 ± 0.129
1.743LeuMet: 1.743 ± 0.035
1.677LeuAsn: 1.677 ± 0.033
5.628LeuPro: 5.628 ± 0.062
2.277LeuGln: 2.277 ± 0.042
7.452LeuArg: 7.452 ± 0.088
5.205LeuSer: 5.205 ± 0.061
6.43LeuThr: 6.43 ± 0.066
10.462LeuVal: 10.462 ± 0.105
1.129LeuTrp: 1.129 ± 0.032
1.541LeuTyr: 1.541 ± 0.036
0.0LeuXaa: 0.0 ± 0.0
Met
2.266MetAla: 2.266 ± 0.042
0.151MetCys: 0.151 ± 0.011
0.975MetAsp: 0.975 ± 0.028
0.79MetGlu: 0.79 ± 0.025
0.52MetPhe: 0.52 ± 0.021
1.533MetGly: 1.533 ± 0.042
0.417MetHis: 0.417 ± 0.017
0.721MetIle: 0.721 ± 0.023
0.498MetLys: 0.498 ± 0.022
1.914MetLeu: 1.914 ± 0.04
0.352MetMet: 0.352 ± 0.016
0.456MetAsn: 0.456 ± 0.016
1.179MetPro: 1.179 ± 0.027
0.501MetGln: 0.501 ± 0.021
1.477MetArg: 1.477 ± 0.031
1.51MetSer: 1.51 ± 0.028
1.836MetThr: 1.836 ± 0.035
1.588MetVal: 1.588 ± 0.033
0.235MetTrp: 0.235 ± 0.013
0.312MetTyr: 0.312 ± 0.016
0.0MetXaa: 0.0 ± 0.0
Asn
2.366AsnAla: 2.366 ± 0.046
0.167AsnCys: 0.167 ± 0.013
1.151AsnAsp: 1.151 ± 0.03
0.872AsnGlu: 0.872 ± 0.025
0.553AsnPhe: 0.553 ± 0.022
1.91AsnGly: 1.91 ± 0.046
0.468AsnHis: 0.468 ± 0.02
0.704AsnIle: 0.704 ± 0.022
0.431AsnLys: 0.431 ± 0.021
1.904AsnLeu: 1.904 ± 0.041
0.337AsnMet: 0.337 ± 0.017
0.48AsnAsn: 0.48 ± 0.023
1.485AsnPro: 1.485 ± 0.035
0.541AsnGln: 0.541 ± 0.019
1.218AsnArg: 1.218 ± 0.028
0.86AsnSer: 0.86 ± 0.03
1.131AsnThr: 1.131 ± 0.035
1.621AsnVal: 1.621 ± 0.036
0.282AsnTrp: 0.282 ± 0.014
0.424AsnTyr: 0.424 ± 0.016
0.0AsnXaa: 0.0 ± 0.0
Pro
7.195ProAla: 7.195 ± 0.085
0.302ProCys: 0.302 ± 0.016
4.475ProAsp: 4.475 ± 0.062
3.745ProGlu: 3.745 ± 0.062
1.529ProPhe: 1.529 ± 0.033
5.71ProGly: 5.71 ± 0.067
1.352ProHis: 1.352 ± 0.03
1.711ProIle: 1.711 ± 0.035
1.082ProLys: 1.082 ± 0.032
4.683ProLeu: 4.683 ± 0.066
1.057ProMet: 1.057 ± 0.027
0.916ProAsn: 0.916 ± 0.028
2.735ProPro: 2.735 ± 0.055
1.442ProGln: 1.442 ± 0.034
3.401ProArg: 3.401 ± 0.058
3.141ProSer: 3.141 ± 0.052
3.705ProThr: 3.705 ± 0.064
5.253ProVal: 5.253 ± 0.071
0.933ProTrp: 0.933 ± 0.024
1.144ProTyr: 1.144 ± 0.028
0.0ProXaa: 0.0 ± 0.0
Gln
3.52GlnAla: 3.52 ± 0.057
0.185GlnCys: 0.185 ± 0.01
1.435GlnAsp: 1.435 ± 0.036
1.29GlnGlu: 1.29 ± 0.036
0.698GlnPhe: 0.698 ± 0.024
2.226GlnGly: 2.226 ± 0.044
0.754GlnHis: 0.754 ± 0.023
1.097GlnIle: 1.097 ± 0.035
0.615GlnLys: 0.615 ± 0.022
3.016GlnLeu: 3.016 ± 0.046
0.573GlnMet: 0.573 ± 0.022
0.492GlnAsn: 0.492 ± 0.017
1.642GlnPro: 1.642 ± 0.036
1.204GlnGln: 1.204 ± 0.041
2.351GlnArg: 2.351 ± 0.044
1.279GlnSer: 1.279 ± 0.034
1.452GlnThr: 1.452 ± 0.031
2.824GlnVal: 2.824 ± 0.052
0.444GlnTrp: 0.444 ± 0.019
0.548GlnTyr: 0.548 ± 0.021
0.0GlnXaa: 0.0 ± 0.0
Arg
8.722ArgAla: 8.722 ± 0.085
0.503ArgCys: 0.503 ± 0.019
4.549ArgAsp: 4.549 ± 0.061
4.314ArgGlu: 4.314 ± 0.063
2.218ArgPhe: 2.218 ± 0.041
5.496ArgGly: 5.496 ± 0.074
1.948ArgHis: 1.948 ± 0.035
3.168ArgIle: 3.168 ± 0.043
1.512ArgLys: 1.512 ± 0.037
7.866ArgLeu: 7.866 ± 0.087
1.775ArgMet: 1.775 ± 0.035
1.37ArgAsn: 1.37 ± 0.034
4.066ArgPro: 4.066 ± 0.062
2.128ArgGln: 2.128 ± 0.04
6.771ArgArg: 6.771 ± 0.086
3.968ArgSer: 3.968 ± 0.059
4.629ArgThr: 4.629 ± 0.066
6.271ArgVal: 6.271 ± 0.069
1.243ArgTrp: 1.243 ± 0.029
1.493ArgTyr: 1.493 ± 0.034
0.0ArgXaa: 0.0 ± 0.0
Ser
6.252SerAla: 6.252 ± 0.066
0.424SerCys: 0.424 ± 0.019
3.093SerAsp: 3.093 ± 0.049
2.444SerGlu: 2.444 ± 0.043
1.736SerPhe: 1.736 ± 0.038
5.811SerGly: 5.811 ± 0.075
1.195SerHis: 1.195 ± 0.031
1.899SerIle: 1.899 ± 0.034
1.085SerLys: 1.085 ± 0.031
5.165SerLeu: 5.165 ± 0.076
1.329SerMet: 1.329 ± 0.029
1.067SerAsn: 1.067 ± 0.026
3.175SerPro: 3.175 ± 0.052
1.431SerGln: 1.431 ± 0.03
3.746SerArg: 3.746 ± 0.056
3.299SerSer: 3.299 ± 0.057
3.663SerThr: 3.663 ± 0.059
4.543SerVal: 4.543 ± 0.062
0.936SerTrp: 0.936 ± 0.027
1.351SerTyr: 1.351 ± 0.034
0.001SerXaa: 0.001 ± 0.001
Thr
7.424ThrAla: 7.424 ± 0.102
0.507ThrCys: 0.507 ± 0.021
3.909ThrAsp: 3.909 ± 0.057
2.976ThrGlu: 2.976 ± 0.05
1.986ThrPhe: 1.986 ± 0.039
6.339ThrGly: 6.339 ± 0.085
1.36ThrHis: 1.36 ± 0.029
2.342ThrIle: 2.342 ± 0.043
1.258ThrLys: 1.258 ± 0.031
5.848ThrLeu: 5.848 ± 0.066
1.169ThrMet: 1.169 ± 0.029
1.286ThrAsn: 1.286 ± 0.033
4.114ThrPro: 4.114 ± 0.062
1.556ThrGln: 1.556 ± 0.036
4.162ThrArg: 4.162 ± 0.049
3.871ThrSer: 3.871 ± 0.055
4.361ThrThr: 4.361 ± 0.08
5.876ThrVal: 5.876 ± 0.067
1.098ThrTrp: 1.098 ± 0.031
1.572ThrTyr: 1.572 ± 0.036
0.0ThrXaa: 0.0 ± 0.0
Val
12.439ValAla: 12.439 ± 0.116
0.717ValCys: 0.717 ± 0.025
6.245ValAsp: 6.245 ± 0.065
5.545ValGlu: 5.545 ± 0.074
2.48ValPhe: 2.48 ± 0.042
7.761ValGly: 7.761 ± 0.081
2.105ValHis: 2.105 ± 0.044
3.188ValIle: 3.188 ± 0.05
1.816ValLys: 1.816 ± 0.042
9.839ValLeu: 9.839 ± 0.111
1.596ValMet: 1.596 ± 0.032
1.79ValAsn: 1.79 ± 0.041
5.094ValPro: 5.094 ± 0.062
2.192ValGln: 2.192 ± 0.04
6.783ValArg: 6.783 ± 0.081
4.856ValSer: 4.856 ± 0.058
6.157ValThr: 6.157 ± 0.072
10.26ValVal: 10.26 ± 0.11
1.152ValTrp: 1.152 ± 0.033
1.467ValTyr: 1.467 ± 0.03
0.001ValXaa: 0.001 ± 0.001
Trp
1.603TrpAla: 1.603 ± 0.036
0.173TrpCys: 0.173 ± 0.01
0.853TrpAsp: 0.853 ± 0.024
0.671TrpGlu: 0.671 ± 0.024
0.574TrpPhe: 0.574 ± 0.022
1.101TrpGly: 1.101 ± 0.027
0.406TrpHis: 0.406 ± 0.018
0.54TrpIle: 0.54 ± 0.019
0.348TrpLys: 0.348 ± 0.016
1.769TrpLeu: 1.769 ± 0.04
0.325TrpMet: 0.325 ± 0.015
0.351TrpAsn: 0.351 ± 0.017
0.717TrpPro: 0.717 ± 0.023
0.513TrpGln: 0.513 ± 0.018
1.267TrpArg: 1.267 ± 0.032
1.085TrpSer: 1.085 ± 0.032
1.051TrpThr: 1.051 ± 0.03
1.291TrpVal: 1.291 ± 0.032
0.365TrpTrp: 0.365 ± 0.018
0.311TrpTyr: 0.311 ± 0.017
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.718TyrAla: 2.718 ± 0.044
0.17TyrCys: 0.17 ± 0.01
1.711TyrAsp: 1.711 ± 0.035
1.015TyrGlu: 1.015 ± 0.03
0.685TyrPhe: 0.685 ± 0.027
1.921TyrGly: 1.921 ± 0.043
0.346TyrHis: 0.346 ± 0.018
0.467TyrIle: 0.467 ± 0.021
0.389TyrLys: 0.389 ± 0.018
2.053TyrLeu: 2.053 ± 0.035
0.225TyrMet: 0.225 ± 0.012
0.431TyrAsn: 0.431 ± 0.018
0.987TyrPro: 0.987 ± 0.029
0.52TyrGln: 0.52 ± 0.022
1.506TyrArg: 1.506 ± 0.035
0.992TyrSer: 0.992 ± 0.029
1.1TyrThr: 1.1 ± 0.032
1.954TyrVal: 1.954 ± 0.038
0.307TyrTrp: 0.307 ± 0.016
0.443TyrTyr: 0.443 ± 0.021
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
0.001XaaArg: 0.001 ± 0.001
0.0XaaSer: 0.0 ± 0.0
0.001XaaThr: 0.001 ± 0.001
0.0XaaVal: 0.0 ± 0.0
0.0XaaTrp: 0.0 ± 0.0
0.0XaaTyr: 0.0 ± 0.0
0.002XaaXaa: 0.002 ± 0.002
Statistics based on 4366 proteins (1402571 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