Amino acid dipepetide frequency for candidate division SR1 bacterium

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
2.947AlaAla: 2.947 ± 0.127
0.685AlaCys: 0.685 ± 0.045
2.958AlaAsp: 2.958 ± 0.099
5.079AlaGlu: 5.079 ± 0.135
3.552AlaPhe: 3.552 ± 0.12
4.134AlaGly: 4.134 ± 0.129
1.001AlaHis: 1.001 ± 0.057
4.414AlaIle: 4.414 ± 0.126
5.237AlaLys: 5.237 ± 0.149
6.901AlaLeu: 6.901 ± 0.153
1.697AlaMet: 1.697 ± 0.073
2.57AlaAsn: 2.57 ± 0.093
1.988AlaPro: 1.988 ± 0.088
3.266AlaGln: 3.266 ± 0.108
2.182AlaArg: 2.182 ± 0.082
3.468AlaSer: 3.468 ± 0.11
3.094AlaThr: 3.094 ± 0.101
3.183AlaVal: 3.183 ± 0.114
0.518AlaTrp: 0.518 ± 0.035
2.301AlaTyr: 2.301 ± 0.126
0.0AlaXaa: 0.0 ± 0.0
Cys
0.471CysAla: 0.471 ± 0.041
0.147CysCys: 0.147 ± 0.019
0.457CysAsp: 0.457 ± 0.042
0.762CysGlu: 0.762 ± 0.056
0.588CysPhe: 0.588 ± 0.046
0.815CysGly: 0.815 ± 0.056
0.205CysHis: 0.205 ± 0.025
0.588CysIle: 0.588 ± 0.041
0.92CysLys: 0.92 ± 0.06
0.821CysLeu: 0.821 ± 0.044
0.172CysMet: 0.172 ± 0.024
0.424CysAsn: 0.424 ± 0.045
0.507CysPro: 0.507 ± 0.052
0.369CysGln: 0.369 ± 0.035
0.36CysArg: 0.36 ± 0.031
0.835CysSer: 0.835 ± 0.059
0.421CysThr: 0.421 ± 0.042
0.463CysVal: 0.463 ± 0.032
0.086CysTrp: 0.086 ± 0.018
0.521CysTyr: 0.521 ± 0.047
0.0CysXaa: 0.0 ± 0.0
Asp
3.072AspAla: 3.072 ± 0.099
0.518AspCys: 0.518 ± 0.047
1.924AspAsp: 1.924 ± 0.077
3.832AspGlu: 3.832 ± 0.111
3.718AspPhe: 3.718 ± 0.111
2.903AspGly: 2.903 ± 0.125
0.854AspHis: 0.854 ± 0.055
3.582AspIle: 3.582 ± 0.105
3.238AspLys: 3.238 ± 0.109
5.226AspLeu: 5.226 ± 0.142
0.945AspMet: 0.945 ± 0.052
1.736AspAsn: 1.736 ± 0.084
2.157AspPro: 2.157 ± 0.084
2.695AspGln: 2.695 ± 0.078
1.733AspArg: 1.733 ± 0.07
2.365AspSer: 2.365 ± 0.089
2.47AspThr: 2.47 ± 0.094
1.788AspVal: 1.788 ± 0.087
0.482AspTrp: 0.482 ± 0.04
2.334AspTyr: 2.334 ± 0.074
0.0AspXaa: 0.0 ± 0.0
Glu
4.755GluAla: 4.755 ± 0.128
0.579GluCys: 0.579 ± 0.044
3.077GluAsp: 3.077 ± 0.09
6.798GluGlu: 6.798 ± 0.173
2.537GluPhe: 2.537 ± 0.085
4.619GluGly: 4.619 ± 0.168
1.511GluHis: 1.511 ± 0.079
5.9GluIle: 5.9 ± 0.161
8.789GluLys: 8.789 ± 0.189
8.079GluLeu: 8.079 ± 0.168
1.68GluMet: 1.68 ± 0.074
4.234GluAsn: 4.234 ± 0.116
1.298GluPro: 1.298 ± 0.078
4.045GluGln: 4.045 ± 0.13
3.333GluArg: 3.333 ± 0.103
3.687GluSer: 3.687 ± 0.104
3.374GluThr: 3.374 ± 0.104
4.397GluVal: 4.397 ± 0.131
0.574GluTrp: 0.574 ± 0.041
2.831GluTyr: 2.831 ± 0.088
0.0GluXaa: 0.0 ± 0.0
Phe
3.222PheAla: 3.222 ± 0.115
0.676PheCys: 0.676 ± 0.045
3.019PheAsp: 3.019 ± 0.102
3.416PheGlu: 3.416 ± 0.125
3.776PhePhe: 3.776 ± 0.137
3.552PheGly: 3.552 ± 0.129
0.954PheHis: 0.954 ± 0.054
3.424PheIle: 3.424 ± 0.111
3.169PheLys: 3.169 ± 0.1
6.557PheLeu: 6.557 ± 0.207
0.937PheMet: 0.937 ± 0.052
2.118PheAsn: 2.118 ± 0.087
2.182PhePro: 2.182 ± 0.081
2.005PheGln: 2.005 ± 0.084
1.902PheArg: 1.902 ± 0.073
4.672PheSer: 4.672 ± 0.14
2.337PheThr: 2.337 ± 0.086
2.806PheVal: 2.806 ± 0.104
0.582PheTrp: 0.582 ± 0.043
1.907PheTyr: 1.907 ± 0.077
0.0PheXaa: 0.0 ± 0.0
Gly
3.834GlyAla: 3.834 ± 0.136
0.649GlyCys: 0.649 ± 0.046
2.953GlyAsp: 2.953 ± 0.117
5.126GlyGlu: 5.126 ± 0.115
3.554GlyPhe: 3.554 ± 0.104
4.53GlyGly: 4.53 ± 0.142
0.92GlyHis: 0.92 ± 0.047
5.498GlyIle: 5.498 ± 0.125
6.612GlyLys: 6.612 ± 0.157
6.127GlyLeu: 6.127 ± 0.172
1.68GlyMet: 1.68 ± 0.07
3.538GlyAsn: 3.538 ± 0.124
1.137GlyPro: 1.137 ± 0.058
2.174GlyGln: 2.174 ± 0.088
2.143GlyArg: 2.143 ± 0.076
4.031GlySer: 4.031 ± 0.118
3.496GlyThr: 3.496 ± 0.106
4.125GlyVal: 4.125 ± 0.15
0.585GlyTrp: 0.585 ± 0.042
2.653GlyTyr: 2.653 ± 0.085
0.0GlyXaa: 0.0 ± 0.0
His
0.821HisAla: 0.821 ± 0.049
0.313HisCys: 0.313 ± 0.029
0.762HisAsp: 0.762 ± 0.049
0.943HisGlu: 0.943 ± 0.048
1.381HisPhe: 1.381 ± 0.077
0.843HisGly: 0.843 ± 0.048
0.518HisHis: 0.518 ± 0.045
1.214HisIle: 1.214 ± 0.068
1.212HisLys: 1.212 ± 0.06
2.224HisLeu: 2.224 ± 0.087
0.274HisMet: 0.274 ± 0.025
0.768HisAsn: 0.768 ± 0.048
0.898HisPro: 0.898 ± 0.046
1.037HisGln: 1.037 ± 0.051
0.713HisArg: 0.713 ± 0.051
1.148HisSer: 1.148 ± 0.067
0.962HisThr: 0.962 ± 0.053
0.552HisVal: 0.552 ± 0.037
0.324HisTrp: 0.324 ± 0.052
0.959HisTyr: 0.959 ± 0.055
0.0HisXaa: 0.0 ± 0.0
Ile
4.957IleAla: 4.957 ± 0.119
0.679IleCys: 0.679 ± 0.043
3.862IleAsp: 3.862 ± 0.103
4.83IleGlu: 4.83 ± 0.134
3.868IlePhe: 3.868 ± 0.123
5.473IleGly: 5.473 ± 0.173
1.248IleHis: 1.248 ± 0.051
4.996IleIle: 4.996 ± 0.161
5.867IleLys: 5.867 ± 0.147
7.611IleLeu: 7.611 ± 0.159
1.298IleMet: 1.298 ± 0.079
3.416IleAsn: 3.416 ± 0.117
3.266IlePro: 3.266 ± 0.103
3.438IleGln: 3.438 ± 0.099
2.748IleArg: 2.748 ± 0.085
4.971IleSer: 4.971 ± 0.115
3.992IleThr: 3.992 ± 0.119
3.773IleVal: 3.773 ± 0.124
0.618IleTrp: 0.618 ± 0.044
2.14IleTyr: 2.14 ± 0.088
0.0IleXaa: 0.0 ± 0.0
Lys
5.828LysAla: 5.828 ± 0.16
0.46LysCys: 0.46 ± 0.044
3.942LysAsp: 3.942 ± 0.13
7.231LysGlu: 7.231 ± 0.181
2.631LysPhe: 2.631 ± 0.083
5.16LysGly: 5.16 ± 0.126
1.383LysHis: 1.383 ± 0.069
7.006LysIle: 7.006 ± 0.181
9.482LysLys: 9.482 ± 0.177
8.148LysLeu: 8.148 ± 0.168
2.052LysMet: 2.052 ± 0.078
5.085LysAsn: 5.085 ± 0.136
2.426LysPro: 2.426 ± 0.093
3.427LysGln: 3.427 ± 0.097
3.335LysArg: 3.335 ± 0.106
4.996LysSer: 4.996 ± 0.138
5.107LysThr: 5.107 ± 0.129
4.627LysVal: 4.627 ± 0.138
0.671LysTrp: 0.671 ± 0.044
3.064LysTyr: 3.064 ± 0.104
0.0LysXaa: 0.0 ± 0.0
Leu
7.342LeuAla: 7.342 ± 0.191
0.948LeuCys: 0.948 ± 0.044
5.154LeuAsp: 5.154 ± 0.132
7.841LeuGlu: 7.841 ± 0.163
5.953LeuPhe: 5.953 ± 0.187
7.164LeuGly: 7.164 ± 0.17
1.866LeuHis: 1.866 ± 0.083
7.647LeuIle: 7.647 ± 0.198
8.925LeuLys: 8.925 ± 0.178
12.213LeuLeu: 12.213 ± 0.295
2.359LeuMet: 2.359 ± 0.09
4.896LeuAsn: 4.896 ± 0.133
4.433LeuPro: 4.433 ± 0.142
5.154LeuGln: 5.154 ± 0.149
4.089LeuArg: 4.089 ± 0.129
7.483LeuSer: 7.483 ± 0.171
5.276LeuThr: 5.276 ± 0.146
5.215LeuVal: 5.215 ± 0.134
0.987LeuTrp: 0.987 ± 0.062
3.707LeuTyr: 3.707 ± 0.111
0.0LeuXaa: 0.0 ± 0.0
Met
1.042MetAla: 1.042 ± 0.063
0.128MetCys: 0.128 ± 0.019
0.898MetAsp: 0.898 ± 0.054
1.347MetGlu: 1.347 ± 0.057
0.812MetPhe: 0.812 ± 0.075
1.289MetGly: 1.289 ± 0.062
0.352MetHis: 0.352 ± 0.031
1.838MetIle: 1.838 ± 0.079
2.359MetLys: 2.359 ± 0.091
2.426MetLeu: 2.426 ± 0.084
0.699MetMet: 0.699 ± 0.049
1.112MetAsn: 1.112 ± 0.054
0.807MetPro: 0.807 ± 0.045
1.342MetGln: 1.342 ± 0.065
1.001MetArg: 1.001 ± 0.05
1.042MetSer: 1.042 ± 0.05
1.17MetThr: 1.17 ± 0.062
0.99MetVal: 0.99 ± 0.054
0.097MetTrp: 0.097 ± 0.019
0.632MetTyr: 0.632 ± 0.038
0.0MetXaa: 0.0 ± 0.0
Asn
2.969AsnAla: 2.969 ± 0.102
0.574AsnCys: 0.574 ± 0.059
1.988AsnAsp: 1.988 ± 0.092
2.98AsnGlu: 2.98 ± 0.102
2.542AsnPhe: 2.542 ± 0.093
3.247AsnGly: 3.247 ± 0.115
0.887AsnHis: 0.887 ± 0.054
3.723AsnIle: 3.723 ± 0.123
3.36AsnLys: 3.36 ± 0.138
5.118AsnLeu: 5.118 ± 0.141
0.904AsnMet: 0.904 ± 0.072
2.273AsnAsn: 2.273 ± 0.127
2.609AsnPro: 2.609 ± 0.096
2.75AsnGln: 2.75 ± 0.104
1.566AsnArg: 1.566 ± 0.071
2.498AsnSer: 2.498 ± 0.101
3.028AsnThr: 3.028 ± 0.098
1.946AsnVal: 1.946 ± 0.078
0.494AsnTrp: 0.494 ± 0.056
2.215AsnTyr: 2.215 ± 0.08
0.0AsnXaa: 0.0 ± 0.0
Pro
1.927ProAla: 1.927 ± 0.083
0.316ProCys: 0.316 ± 0.033
1.639ProAsp: 1.639 ± 0.067
3.538ProGlu: 3.538 ± 0.092
1.813ProPhe: 1.813 ± 0.066
1.838ProGly: 1.838 ± 0.084
0.762ProHis: 0.762 ± 0.041
2.332ProIle: 2.332 ± 0.093
2.653ProLys: 2.653 ± 0.079
3.92ProLeu: 3.92 ± 0.12
0.596ProMet: 0.596 ± 0.047
1.702ProAsn: 1.702 ± 0.093
0.865ProPro: 0.865 ± 0.06
1.932ProGln: 1.932 ± 0.089
1.195ProArg: 1.195 ± 0.053
2.365ProSer: 2.365 ± 0.097
1.833ProThr: 1.833 ± 0.074
1.833ProVal: 1.833 ± 0.07
0.352ProTrp: 0.352 ± 0.034
1.522ProTyr: 1.522 ± 0.064
0.0ProXaa: 0.0 ± 0.0
Gln
2.983GlnAla: 2.983 ± 0.113
0.299GlnCys: 0.299 ± 0.03
2.107GlnAsp: 2.107 ± 0.077
4.422GlnGlu: 4.422 ± 0.125
1.81GlnPhe: 1.81 ± 0.078
3.083GlnGly: 3.083 ± 0.092
0.954GlnHis: 0.954 ± 0.058
3.593GlnIle: 3.593 ± 0.11
4.677GlnLys: 4.677 ± 0.136
5.368GlnLeu: 5.368 ± 0.168
0.904GlnMet: 0.904 ± 0.055
2.384GlnAsn: 2.384 ± 0.099
1.145GlnPro: 1.145 ± 0.08
2.501GlnGln: 2.501 ± 0.117
1.799GlnArg: 1.799 ± 0.064
2.634GlnSer: 2.634 ± 0.089
2.634GlnThr: 2.634 ± 0.092
2.429GlnVal: 2.429 ± 0.091
0.338GlnTrp: 0.338 ± 0.034
1.517GlnTyr: 1.517 ± 0.069
0.0GlnXaa: 0.0 ± 0.0
Arg
2.354ArgAla: 2.354 ± 0.092
0.419ArgCys: 0.419 ± 0.035
1.849ArgAsp: 1.849 ± 0.061
3.03ArgGlu: 3.03 ± 0.086
2.179ArgPhe: 2.179 ± 0.077
2.401ArgGly: 2.401 ± 0.099
0.477ArgHis: 0.477 ± 0.04
2.85ArgIle: 2.85 ± 0.083
3.64ArgLys: 3.64 ± 0.107
3.474ArgLeu: 3.474 ± 0.103
0.923ArgMet: 0.923 ± 0.061
2.163ArgAsn: 2.163 ± 0.091
1.015ArgPro: 1.015 ± 0.057
1.117ArgGln: 1.117 ± 0.053
1.458ArgArg: 1.458 ± 0.072
2.09ArgSer: 2.09 ± 0.087
1.694ArgThr: 1.694 ± 0.073
1.919ArgVal: 1.919 ± 0.076
0.324ArgTrp: 0.324 ± 0.031
1.902ArgTyr: 1.902 ± 0.08
0.0ArgXaa: 0.0 ± 0.0
Ser
3.496SerAla: 3.496 ± 0.098
0.807SerCys: 0.807 ± 0.058
3.441SerAsp: 3.441 ± 0.117
4.508SerGlu: 4.508 ± 0.129
4.103SerPhe: 4.103 ± 0.12
4.369SerGly: 4.369 ± 0.117
1.02SerHis: 1.02 ± 0.054
3.743SerIle: 3.743 ± 0.107
4.519SerLys: 4.519 ± 0.121
7.405SerLeu: 7.405 ± 0.168
1.126SerMet: 1.126 ± 0.059
2.614SerAsn: 2.614 ± 0.098
2.595SerPro: 2.595 ± 0.104
2.786SerGln: 2.786 ± 0.091
2.182SerArg: 2.182 ± 0.072
4.802SerSer: 4.802 ± 0.147
2.764SerThr: 2.764 ± 0.103
2.961SerVal: 2.961 ± 0.091
0.488SerTrp: 0.488 ± 0.04
2.911SerTyr: 2.911 ± 0.088
0.0SerXaa: 0.0 ± 0.0
Thr
2.994ThrAla: 2.994 ± 0.095
0.579ThrCys: 0.579 ± 0.049
2.359ThrAsp: 2.359 ± 0.086
3.313ThrGlu: 3.313 ± 0.102
2.67ThrPhe: 2.67 ± 0.099
3.186ThrGly: 3.186 ± 0.104
1.006ThrHis: 1.006 ± 0.051
4.076ThrIle: 4.076 ± 0.125
3.973ThrLys: 3.973 ± 0.101
5.783ThrLeu: 5.783 ± 0.126
1.084ThrMet: 1.084 ± 0.053
2.207ThrAsn: 2.207 ± 0.096
2.509ThrPro: 2.509 ± 0.093
2.454ThrGln: 2.454 ± 0.095
1.647ThrArg: 1.647 ± 0.079
3.338ThrSer: 3.338 ± 0.129
3.105ThrThr: 3.105 ± 0.11
2.468ThrVal: 2.468 ± 0.092
0.549ThrTrp: 0.549 ± 0.036
1.824ThrTyr: 1.824 ± 0.077
0.0ThrXaa: 0.0 ± 0.0
Val
3.224ValAla: 3.224 ± 0.094
0.532ValCys: 0.532 ± 0.04
2.609ValAsp: 2.609 ± 0.117
3.613ValGlu: 3.613 ± 0.108
2.889ValPhe: 2.889 ± 0.104
3.61ValGly: 3.61 ± 0.126
0.871ValHis: 0.871 ± 0.048
3.732ValIle: 3.732 ± 0.123
4.064ValLys: 4.064 ± 0.129
5.689ValLeu: 5.689 ± 0.145
1.275ValMet: 1.275 ± 0.062
2.246ValAsn: 2.246 ± 0.075
1.522ValPro: 1.522 ± 0.068
2.224ValGln: 2.224 ± 0.089
1.81ValArg: 1.81 ± 0.077
3.413ValSer: 3.413 ± 0.104
1.68ValThr: 1.68 ± 0.108
3.141ValVal: 3.141 ± 0.125
0.477ValTrp: 0.477 ± 0.036
1.932ValTyr: 1.932 ± 0.084
0.0ValXaa: 0.0 ± 0.0
Trp
0.352TrpAla: 0.352 ± 0.037
0.091TrpCys: 0.091 ± 0.017
0.408TrpAsp: 0.408 ± 0.047
0.771TrpGlu: 0.771 ± 0.07
0.408TrpPhe: 0.408 ± 0.037
0.585TrpGly: 0.585 ± 0.04
0.152TrpHis: 0.152 ± 0.023
0.81TrpIle: 0.81 ± 0.044
0.876TrpLys: 0.876 ± 0.057
0.929TrpLeu: 0.929 ± 0.057
0.183TrpMet: 0.183 ± 0.024
0.546TrpAsn: 0.546 ± 0.045
0.075TrpPro: 0.075 ± 0.016
0.335TrpGln: 0.335 ± 0.03
0.48TrpArg: 0.48 ± 0.038
0.593TrpSer: 0.593 ± 0.04
0.521TrpThr: 0.521 ± 0.039
0.419TrpVal: 0.419 ± 0.04
0.125TrpTrp: 0.125 ± 0.018
0.349TrpTyr: 0.349 ± 0.029
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.584TyrAla: 2.584 ± 0.132
0.532TyrCys: 0.532 ± 0.043
2.165TyrAsp: 2.165 ± 0.092
2.717TyrGlu: 2.717 ± 0.095
2.429TyrPhe: 2.429 ± 0.09
2.567TyrGly: 2.567 ± 0.08
0.923TyrHis: 0.923 ± 0.049
2.088TyrIle: 2.088 ± 0.081
2.487TyrLys: 2.487 ± 0.097
4.633TyrLeu: 4.633 ± 0.125
0.593TyrMet: 0.593 ± 0.043
1.641TyrAsn: 1.641 ± 0.082
1.5TyrPro: 1.5 ± 0.066
2.531TyrGln: 2.531 ± 0.076
1.603TyrArg: 1.603 ± 0.067
2.21TyrSer: 2.21 ± 0.082
2.165TyrThr: 2.165 ± 0.088
1.519TyrVal: 1.519 ± 0.058
0.335TyrTrp: 0.335 ± 0.029
1.608TyrTyr: 1.608 ± 0.068
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 1229 proteins (360686 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