Amino acid dipepetide frequency for Helicobacter sp. MIT 14-3879

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
2.559AlaAla: 2.559 ± 0.083
0.854AlaCys: 0.854 ± 0.046
2.319AlaAsp: 2.319 ± 0.059
2.221AlaGlu: 2.221 ± 0.055
3.07AlaPhe: 3.07 ± 0.077
3.193AlaGly: 3.193 ± 0.075
1.012AlaHis: 1.012 ± 0.043
6.181AlaIle: 6.181 ± 0.117
5.749AlaLys: 5.749 ± 0.101
6.673AlaLeu: 6.673 ± 0.094
1.618AlaMet: 1.618 ± 0.046
3.967AlaAsn: 3.967 ± 0.083
1.446AlaPro: 1.446 ± 0.044
2.032AlaGln: 2.032 ± 0.065
2.257AlaArg: 2.257 ± 0.064
3.928AlaSer: 3.928 ± 0.075
2.644AlaThr: 2.644 ± 0.063
2.524AlaVal: 2.524 ± 0.076
0.382AlaTrp: 0.382 ± 0.027
2.355AlaTyr: 2.355 ± 0.057
0.0AlaXaa: 0.0 ± 0.0
Cys
0.8CysAla: 0.8 ± 0.039
0.144CysCys: 0.144 ± 0.015
0.719CysAsp: 0.719 ± 0.032
0.75CysGlu: 0.75 ± 0.034
0.744CysPhe: 0.744 ± 0.029
0.926CysGly: 0.926 ± 0.038
0.284CysHis: 0.284 ± 0.029
1.127CysIle: 1.127 ± 0.045
0.945CysLys: 0.945 ± 0.035
0.99CysLeu: 0.99 ± 0.041
0.232CysMet: 0.232 ± 0.017
0.694CysAsn: 0.694 ± 0.034
0.323CysPro: 0.323 ± 0.023
0.252CysGln: 0.252 ± 0.019
0.294CysArg: 0.294 ± 0.022
0.799CysSer: 0.799 ± 0.036
0.362CysThr: 0.362 ± 0.025
0.842CysVal: 0.842 ± 0.038
0.07CysTrp: 0.07 ± 0.011
0.489CysTyr: 0.489 ± 0.027
0.0CysXaa: 0.0 ± 0.0
Asp
2.286AspAla: 2.286 ± 0.06
0.751AspCys: 0.751 ± 0.029
2.54AspAsp: 2.54 ± 0.067
3.513AspGlu: 3.513 ± 0.09
3.63AspPhe: 3.63 ± 0.083
2.575AspGly: 2.575 ± 0.069
0.358AspHis: 0.358 ± 0.027
6.507AspIle: 6.507 ± 0.114
4.952AspLys: 4.952 ± 0.104
4.688AspLeu: 4.688 ± 0.088
1.224AspMet: 1.224 ± 0.041
3.759AspAsn: 3.759 ± 0.079
0.891AspPro: 0.891 ± 0.04
0.427AspGln: 0.427 ± 0.027
1.693AspArg: 1.693 ± 0.043
5.689AspSer: 5.689 ± 0.106
2.468AspThr: 2.468 ± 0.052
2.407AspVal: 2.407 ± 0.06
0.38AspTrp: 0.38 ± 0.023
2.498AspTyr: 2.498 ± 0.06
0.0AspXaa: 0.0 ± 0.0
Glu
3.538GluAla: 3.538 ± 0.075
0.799GluCys: 0.799 ± 0.032
2.686GluAsp: 2.686 ± 0.069
4.019GluGlu: 4.019 ± 0.105
3.33GluPhe: 3.33 ± 0.083
2.693GluGly: 2.693 ± 0.07
0.998GluHis: 0.998 ± 0.041
7.096GluIle: 7.096 ± 0.121
4.882GluLys: 4.882 ± 0.104
6.223GluLeu: 6.223 ± 0.107
1.435GluMet: 1.435 ± 0.043
4.545GluAsn: 4.545 ± 0.082
1.222GluPro: 1.222 ± 0.045
1.975GluGln: 1.975 ± 0.056
2.018GluArg: 2.018 ± 0.068
4.774GluSer: 4.774 ± 0.088
2.071GluThr: 2.071 ± 0.046
3.825GluVal: 3.825 ± 0.083
0.473GluTrp: 0.473 ± 0.025
2.594GluTyr: 2.594 ± 0.068
0.0GluXaa: 0.0 ± 0.0
Phe
3.155PheAla: 3.155 ± 0.077
0.948PheCys: 0.948 ± 0.04
3.123PheAsp: 3.123 ± 0.067
2.909PheGlu: 2.909 ± 0.071
2.92PhePhe: 2.92 ± 0.091
3.576PheGly: 3.576 ± 0.096
0.761PheHis: 0.761 ± 0.03
5.864PheIle: 5.864 ± 0.105
4.169PheLys: 4.169 ± 0.091
5.479PheLeu: 5.479 ± 0.109
1.233PheMet: 1.233 ± 0.042
3.716PheAsn: 3.716 ± 0.084
1.169PhePro: 1.169 ± 0.042
1.075PheGln: 1.075 ± 0.044
1.668PheArg: 1.668 ± 0.052
4.587PheSer: 4.587 ± 0.097
1.927PheThr: 1.927 ± 0.056
2.928PheVal: 2.928 ± 0.075
0.447PheTrp: 0.447 ± 0.027
2.537PheTyr: 2.537 ± 0.059
0.0PheXaa: 0.0 ± 0.0
Gly
3.53GlyAla: 3.53 ± 0.093
0.681GlyCys: 0.681 ± 0.035
2.853GlyAsp: 2.853 ± 0.071
3.369GlyGlu: 3.369 ± 0.072
3.567GlyPhe: 3.567 ± 0.095
4.005GlyGly: 4.005 ± 0.102
0.926GlyHis: 0.926 ± 0.035
6.392GlyIle: 6.392 ± 0.108
4.159GlyLys: 4.159 ± 0.077
4.692GlyLeu: 4.692 ± 0.083
1.366GlyMet: 1.366 ± 0.05
3.046GlyAsn: 3.046 ± 0.074
0.751GlyPro: 0.751 ± 0.037
1.309GlyGln: 1.309 ± 0.048
1.839GlyArg: 1.839 ± 0.053
3.461GlySer: 3.461 ± 0.07
2.093GlyThr: 2.093 ± 0.072
3.935GlyVal: 3.935 ± 0.079
0.386GlyTrp: 0.386 ± 0.023
2.605GlyTyr: 2.605 ± 0.072
0.0GlyXaa: 0.0 ± 0.0
His
0.773HisAla: 0.773 ± 0.039
0.241HisCys: 0.241 ± 0.02
0.509HisAsp: 0.509 ± 0.029
0.52HisGlu: 0.52 ± 0.028
1.169HisPhe: 1.169 ± 0.041
0.719HisGly: 0.719 ± 0.038
0.389HisHis: 0.389 ± 0.025
1.905HisIle: 1.905 ± 0.057
1.477HisLys: 1.477 ± 0.045
1.685HisLeu: 1.685 ± 0.051
0.228HisMet: 0.228 ± 0.019
1.271HisAsn: 1.271 ± 0.044
0.589HisPro: 0.589 ± 0.03
0.491HisGln: 0.491 ± 0.028
0.611HisArg: 0.611 ± 0.027
1.487HisSer: 1.487 ± 0.052
1.031HisThr: 1.031 ± 0.046
0.39HisVal: 0.39 ± 0.025
0.106HisTrp: 0.106 ± 0.012
0.779HisTyr: 0.779 ± 0.031
0.0HisXaa: 0.0 ± 0.0
Ile
7.044IleAla: 7.044 ± 0.116
1.28IleCys: 1.28 ± 0.04
6.156IleAsp: 6.156 ± 0.116
6.528IleGlu: 6.528 ± 0.108
5.817IlePhe: 5.817 ± 0.113
5.876IleGly: 5.876 ± 0.109
1.494IleHis: 1.494 ± 0.045
10.113IleIle: 10.113 ± 0.152
9.252IleLys: 9.252 ± 0.139
11.014IleLeu: 11.014 ± 0.166
1.934IleMet: 1.934 ± 0.055
7.477IleAsn: 7.477 ± 0.137
3.576IlePro: 3.576 ± 0.078
2.695IleGln: 2.695 ± 0.067
3.049IleArg: 3.049 ± 0.08
7.525IleSer: 7.525 ± 0.121
4.729IleThr: 4.729 ± 0.084
4.886IleVal: 4.886 ± 0.089
0.615IleTrp: 0.615 ± 0.033
3.942IleTyr: 3.942 ± 0.076
0.0IleXaa: 0.0 ± 0.0
Lys
4.791LysAla: 4.791 ± 0.088
0.647LysCys: 0.647 ± 0.034
6.251LysAsp: 6.251 ± 0.118
7.995LysGlu: 7.995 ± 0.134
3.292LysPhe: 3.292 ± 0.071
3.689LysGly: 3.689 ± 0.078
1.34LysHis: 1.34 ± 0.048
9.365LysIle: 9.365 ± 0.146
7.575LysLys: 7.575 ± 0.139
7.57LysLeu: 7.57 ± 0.106
1.961LysMet: 1.961 ± 0.052
7.76LysAsn: 7.76 ± 0.145
2.309LysPro: 2.309 ± 0.056
3.221LysGln: 3.221 ± 0.076
2.963LysArg: 2.963 ± 0.071
5.401LysSer: 5.401 ± 0.093
3.79LysThr: 3.79 ± 0.06
4.061LysVal: 4.061 ± 0.083
0.492LysTrp: 0.492 ± 0.028
3.672LysTyr: 3.672 ± 0.078
0.0LysXaa: 0.0 ± 0.0
Leu
5.864LeuAla: 5.864 ± 0.097
1.31LeuCys: 1.31 ± 0.046
6.094LeuAsp: 6.094 ± 0.111
7.164LeuGlu: 7.164 ± 0.134
5.032LeuPhe: 5.032 ± 0.111
5.787LeuGly: 5.787 ± 0.101
1.807LeuHis: 1.807 ± 0.053
8.465LeuIle: 8.465 ± 0.112
9.231LeuLys: 9.231 ± 0.148
9.376LeuLeu: 9.376 ± 0.148
1.944LeuMet: 1.944 ± 0.056
6.966LeuAsn: 6.966 ± 0.108
3.127LeuPro: 3.127 ± 0.079
3.594LeuGln: 3.594 ± 0.086
3.464LeuArg: 3.464 ± 0.07
7.991LeuSer: 7.991 ± 0.106
3.597LeuThr: 3.597 ± 0.073
4.405LeuVal: 4.405 ± 0.086
0.622LeuTrp: 0.622 ± 0.032
3.734LeuTyr: 3.734 ± 0.082
0.0LeuXaa: 0.0 ± 0.0
Met
1.394MetAla: 1.394 ± 0.049
0.214MetCys: 0.214 ± 0.017
0.976MetAsp: 0.976 ± 0.041
1.099MetGlu: 1.099 ± 0.038
1.022MetPhe: 1.022 ± 0.044
1.347MetGly: 1.347 ± 0.05
0.249MetHis: 0.249 ± 0.022
2.11MetIle: 2.11 ± 0.054
1.673MetLys: 1.673 ± 0.04
2.639MetLeu: 2.639 ± 0.064
0.499MetMet: 0.499 ± 0.029
1.335MetAsn: 1.335 ± 0.044
1.005MetPro: 1.005 ± 0.035
1.347MetGln: 1.347 ± 0.042
0.951MetArg: 0.951 ± 0.035
1.344MetSer: 1.344 ± 0.043
0.724MetThr: 0.724 ± 0.031
1.042MetVal: 1.042 ± 0.038
0.138MetTrp: 0.138 ± 0.015
0.613MetTyr: 0.613 ± 0.029
0.0MetXaa: 0.0 ± 0.0
Asn
4.33AsnAla: 4.33 ± 0.089
0.471AsnCys: 0.471 ± 0.026
3.674AsnAsp: 3.674 ± 0.079
4.437AsnGlu: 4.437 ± 0.088
3.46AsnPhe: 3.46 ± 0.082
3.552AsnGly: 3.552 ± 0.084
1.075AsnHis: 1.075 ± 0.042
8.983AsnIle: 8.983 ± 0.151
6.735AsnLys: 6.735 ± 0.123
7.228AsnLeu: 7.228 ± 0.11
1.394AsnMet: 1.394 ± 0.046
5.831AsnAsn: 5.831 ± 0.129
2.496AsnPro: 2.496 ± 0.058
1.993AsnGln: 1.993 ± 0.062
2.107AsnArg: 2.107 ± 0.052
4.496AsnSer: 4.496 ± 0.083
3.818AsnThr: 3.818 ± 0.086
3.284AsnVal: 3.284 ± 0.08
0.336AsnTrp: 0.336 ± 0.023
2.566AsnTyr: 2.566 ± 0.062
0.0AsnXaa: 0.0 ± 0.0
Pro
1.257ProAla: 1.257 ± 0.049
0.298ProCys: 0.298 ± 0.022
0.978ProAsp: 0.978 ± 0.041
1.19ProGlu: 1.19 ± 0.043
1.682ProPhe: 1.682 ± 0.051
0.885ProGly: 0.885 ± 0.032
0.706ProHis: 0.706 ± 0.034
2.972ProIle: 2.972 ± 0.07
2.837ProLys: 2.837 ± 0.063
3.299ProLeu: 3.299 ± 0.069
0.575ProMet: 0.575 ± 0.03
2.18ProAsn: 2.18 ± 0.059
0.894ProPro: 0.894 ± 0.036
1.102ProGln: 1.102 ± 0.04
0.845ProArg: 0.845 ± 0.034
2.1ProSer: 2.1 ± 0.058
1.533ProThr: 1.533 ± 0.05
1.144ProVal: 1.144 ± 0.05
0.197ProTrp: 0.197 ± 0.018
1.382ProTyr: 1.382 ± 0.047
0.0ProXaa: 0.0 ± 0.0
Gln
1.952GlnAla: 1.952 ± 0.067
0.268GlnCys: 0.268 ± 0.02
1.949GlnAsp: 1.949 ± 0.053
2.261GlnGlu: 2.261 ± 0.068
0.976GlnPhe: 0.976 ± 0.034
1.438GlnGly: 1.438 ± 0.048
0.517GlnHis: 0.517 ± 0.03
2.987GlnIle: 2.987 ± 0.066
3.281GlnLys: 3.281 ± 0.07
1.885GlnLeu: 1.885 ± 0.054
0.624GlnMet: 0.624 ± 0.028
2.993GlnAsn: 2.993 ± 0.067
0.682GlnPro: 0.682 ± 0.037
0.971GlnGln: 0.971 ± 0.039
1.184GlnArg: 1.184 ± 0.039
2.402GlnSer: 2.402 ± 0.068
1.654GlnThr: 1.654 ± 0.05
1.445GlnVal: 1.445 ± 0.049
0.193GlnTrp: 0.193 ± 0.017
1.183GlnTyr: 1.183 ± 0.042
0.0GlnXaa: 0.0 ± 0.0
Arg
2.021ArgAla: 2.021 ± 0.059
0.242ArgCys: 0.242 ± 0.019
2.23ArgAsp: 2.23 ± 0.057
2.636ArgGlu: 2.636 ± 0.067
2.057ArgPhe: 2.057 ± 0.055
2.078ArgGly: 2.078 ± 0.056
0.547ArgHis: 0.547 ± 0.029
3.524ArgIle: 3.524 ± 0.076
2.401ArgLys: 2.401 ± 0.064
3.253ArgLeu: 3.253 ± 0.072
0.744ArgMet: 0.744 ± 0.037
2.154ArgAsn: 2.154 ± 0.059
0.726ArgPro: 0.726 ± 0.035
0.954ArgGln: 0.954 ± 0.037
1.11ArgArg: 1.11 ± 0.043
1.731ArgSer: 1.731 ± 0.046
1.089ArgThr: 1.089 ± 0.04
2.031ArgVal: 2.031 ± 0.059
0.207ArgTrp: 0.207 ± 0.016
1.433ArgTyr: 1.433 ± 0.045
0.0ArgXaa: 0.0 ± 0.0
Ser
3.73SerAla: 3.73 ± 0.081
0.803SerCys: 0.803 ± 0.044
3.232SerAsp: 3.232 ± 0.077
3.067SerGlu: 3.067 ± 0.068
4.511SerPhe: 4.511 ± 0.087
4.247SerGly: 4.247 ± 0.084
1.356SerHis: 1.356 ± 0.047
7.855SerIle: 7.855 ± 0.125
6.84SerLys: 6.84 ± 0.106
8.031SerLeu: 8.031 ± 0.104
1.682SerMet: 1.682 ± 0.052
5.381SerAsn: 5.381 ± 0.113
2.154SerPro: 2.154 ± 0.06
2.401SerGln: 2.401 ± 0.072
2.092SerArg: 2.092 ± 0.055
5.562SerSer: 5.562 ± 0.106
3.082SerThr: 3.082 ± 0.069
3.584SerVal: 3.584 ± 0.079
0.495SerTrp: 0.495 ± 0.033
3.188SerTyr: 3.188 ± 0.068
0.0SerXaa: 0.0 ± 0.0
Thr
2.065ThrAla: 2.065 ± 0.067
0.429ThrCys: 0.429 ± 0.026
1.668ThrAsp: 1.668 ± 0.045
1.673ThrGlu: 1.673 ± 0.055
2.07ThrPhe: 2.07 ± 0.06
2.113ThrGly: 2.113 ± 0.06
1.035ThrHis: 1.035 ± 0.044
4.243ThrIle: 4.243 ± 0.093
4.125ThrLys: 4.125 ± 0.08
4.955ThrLeu: 4.955 ± 0.085
0.979ThrMet: 0.979 ± 0.04
3.043ThrAsn: 3.043 ± 0.079
1.982ThrPro: 1.982 ± 0.051
2.222ThrGln: 2.222 ± 0.064
1.527ThrArg: 1.527 ± 0.046
3.195ThrSer: 3.195 ± 0.071
2.446ThrThr: 2.446 ± 0.054
1.003ThrVal: 1.003 ± 0.041
0.324ThrTrp: 0.324 ± 0.022
1.66ThrTyr: 1.66 ± 0.048
0.0ThrXaa: 0.0 ± 0.0
Val
3.181ValAla: 3.181 ± 0.076
0.766ValCys: 0.766 ± 0.033
2.719ValAsp: 2.719 ± 0.061
2.881ValGlu: 2.881 ± 0.078
2.906ValPhe: 2.906 ± 0.075
3.303ValGly: 3.303 ± 0.084
0.594ValHis: 0.594 ± 0.03
4.867ValIle: 4.867 ± 0.094
3.636ValLys: 3.636 ± 0.081
5.013ValLeu: 5.013 ± 0.098
1.126ValMet: 1.126 ± 0.042
2.809ValAsn: 2.809 ± 0.064
1.271ValPro: 1.271 ± 0.045
1.131ValGln: 1.131 ± 0.043
1.773ValArg: 1.773 ± 0.052
3.639ValSer: 3.639 ± 0.079
1.724ValThr: 1.724 ± 0.052
3.11ValVal: 3.11 ± 0.088
0.364ValTrp: 0.364 ± 0.023
1.891ValTyr: 1.891 ± 0.058
0.0ValXaa: 0.0 ± 0.0
Trp
0.378TrpAla: 0.378 ± 0.023
0.109TrpCys: 0.109 ± 0.014
0.379TrpAsp: 0.379 ± 0.024
0.427TrpGlu: 0.427 ± 0.029
0.319TrpPhe: 0.319 ± 0.023
0.503TrpGly: 0.503 ± 0.03
0.151TrpHis: 0.151 ± 0.015
0.643TrpIle: 0.643 ± 0.034
0.355TrpLys: 0.355 ± 0.024
0.786TrpLeu: 0.786 ± 0.033
0.12TrpMet: 0.12 ± 0.013
0.474TrpAsn: 0.474 ± 0.034
0.073TrpPro: 0.073 ± 0.011
0.305TrpGln: 0.305 ± 0.018
0.302TrpArg: 0.302 ± 0.02
0.366TrpSer: 0.366 ± 0.026
0.183TrpThr: 0.183 ± 0.015
0.327TrpVal: 0.327 ± 0.025
0.083TrpTrp: 0.083 ± 0.012
0.26TrpTyr: 0.26 ± 0.02
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.337TyrAla: 2.337 ± 0.065
0.529TyrCys: 0.529 ± 0.025
2.179TyrAsp: 2.179 ± 0.06
2.538TyrGlu: 2.538 ± 0.073
2.616TyrPhe: 2.616 ± 0.066
2.463TyrGly: 2.463 ± 0.071
0.769TyrHis: 0.769 ± 0.033
3.804TyrIle: 3.804 ± 0.086
3.871TyrLys: 3.871 ± 0.079
4.093TyrLeu: 4.093 ± 0.082
0.804TyrMet: 0.804 ± 0.034
2.865TyrAsn: 2.865 ± 0.066
1.37TyrPro: 1.37 ± 0.046
1.352TyrGln: 1.352 ± 0.044
1.419TyrArg: 1.419 ± 0.048
2.816TyrSer: 2.816 ± 0.073
1.79TyrThr: 1.79 ± 0.049
1.533TyrVal: 1.533 ± 0.044
0.232TyrTrp: 0.232 ± 0.018
1.822TyrTyr: 1.822 ± 0.057
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 2319 proteins (715090 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