Amino acid dipepetide frequency for candidate division TM6 bacterium JCVI TM6SC1

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
5.258AlaAla: 5.258 ± 0.194
1.371AlaCys: 1.371 ± 0.088
3.201AlaAsp: 3.201 ± 0.108
2.92AlaGlu: 2.92 ± 0.111
2.823AlaPhe: 2.823 ± 0.125
4.387AlaGly: 4.387 ± 0.147
2.827AlaHis: 2.827 ± 0.105
5.283AlaIle: 5.283 ± 0.148
3.183AlaLys: 3.183 ± 0.113
9.081AlaLeu: 9.081 ± 0.216
1.423AlaMet: 1.423 ± 0.087
2.486AlaAsn: 2.486 ± 0.096
2.627AlaPro: 2.627 ± 0.106
5.187AlaGln: 5.187 ± 0.137
4.183AlaArg: 4.183 ± 0.126
4.457AlaSer: 4.457 ± 0.126
4.265AlaThr: 4.265 ± 0.15
4.135AlaVal: 4.135 ± 0.148
0.826AlaTrp: 0.826 ± 0.069
3.205AlaTyr: 3.205 ± 0.125
0.0AlaXaa: 0.0 ± 0.0
Cys
1.415CysAla: 1.415 ± 0.073
0.252CysCys: 0.252 ± 0.036
0.511CysAsp: 0.511 ± 0.054
0.5CysGlu: 0.5 ± 0.038
0.526CysPhe: 0.526 ± 0.05
0.83CysGly: 0.83 ± 0.058
0.345CysHis: 0.345 ± 0.038
1.578CysIle: 1.578 ± 0.087
0.904CysLys: 0.904 ± 0.069
1.149CysLeu: 1.149 ± 0.075
0.363CysMet: 0.363 ± 0.038
0.782CysAsn: 0.782 ± 0.063
0.656CysPro: 0.656 ± 0.056
0.545CysGln: 0.545 ± 0.051
0.482CysArg: 0.482 ± 0.043
1.126CysSer: 1.126 ± 0.065
1.093CysThr: 1.093 ± 0.07
0.904CysVal: 0.904 ± 0.06
0.152CysTrp: 0.152 ± 0.024
0.489CysTyr: 0.489 ± 0.046
0.0CysXaa: 0.0 ± 0.0
Asp
3.235AspAla: 3.235 ± 0.126
0.508AspCys: 0.508 ± 0.047
1.741AspAsp: 1.741 ± 0.1
2.638AspGlu: 2.638 ± 0.123
1.927AspPhe: 1.927 ± 0.096
2.038AspGly: 2.038 ± 0.087
1.171AspHis: 1.171 ± 0.058
4.528AspIle: 4.528 ± 0.143
3.153AspLys: 3.153 ± 0.118
4.413AspLeu: 4.413 ± 0.153
1.104AspMet: 1.104 ± 0.06
2.564AspAsn: 2.564 ± 0.109
1.953AspPro: 1.953 ± 0.095
2.497AspGln: 2.497 ± 0.098
2.041AspArg: 2.041 ± 0.083
2.96AspSer: 2.96 ± 0.117
3.138AspThr: 3.138 ± 0.099
2.586AspVal: 2.586 ± 0.109
0.534AspTrp: 0.534 ± 0.046
1.971AspTyr: 1.971 ± 0.098
0.0AspXaa: 0.0 ± 0.0
Glu
2.579GluAla: 2.579 ± 0.104
0.693GluCys: 0.693 ± 0.05
2.112GluAsp: 2.112 ± 0.097
2.427GluGlu: 2.427 ± 0.106
1.945GluPhe: 1.945 ± 0.086
1.867GluGly: 1.867 ± 0.095
1.804GluHis: 1.804 ± 0.077
3.824GluIle: 3.824 ± 0.116
4.116GluLys: 4.116 ± 0.125
6.05GluLeu: 6.05 ± 0.175
0.971GluMet: 0.971 ± 0.064
2.779GluAsn: 2.779 ± 0.101
1.678GluPro: 1.678 ± 0.077
3.672GluGln: 3.672 ± 0.144
3.083GluArg: 3.083 ± 0.116
2.975GluSer: 2.975 ± 0.096
1.993GluThr: 1.993 ± 0.096
2.549GluVal: 2.549 ± 0.109
0.711GluTrp: 0.711 ± 0.053
2.564GluTyr: 2.564 ± 0.108
0.0GluXaa: 0.0 ± 0.0
Phe
3.053PheAla: 3.053 ± 0.105
0.559PheCys: 0.559 ± 0.046
2.486PheAsp: 2.486 ± 0.089
2.345PheGlu: 2.345 ± 0.093
2.345PhePhe: 2.345 ± 0.107
2.623PheGly: 2.623 ± 0.107
0.626PheHis: 0.626 ± 0.052
4.057PheIle: 4.057 ± 0.155
2.616PheLys: 2.616 ± 0.097
4.298PheLeu: 4.298 ± 0.148
1.0PheMet: 1.0 ± 0.059
2.442PheAsn: 2.442 ± 0.107
1.341PhePro: 1.341 ± 0.082
1.237PheGln: 1.237 ± 0.065
1.115PheArg: 1.115 ± 0.062
2.927PheSer: 2.927 ± 0.091
2.519PheThr: 2.519 ± 0.099
2.657PheVal: 2.657 ± 0.104
0.508PheTrp: 0.508 ± 0.045
1.882PheTyr: 1.882 ± 0.081
0.0PheXaa: 0.0 ± 0.0
Gly
4.105GlyAla: 4.105 ± 0.172
0.763GlyCys: 0.763 ± 0.063
1.812GlyAsp: 1.812 ± 0.094
1.682GlyGlu: 1.682 ± 0.081
2.642GlyPhe: 2.642 ± 0.112
3.005GlyGly: 3.005 ± 0.156
1.334GlyHis: 1.334 ± 0.083
4.802GlyIle: 4.802 ± 0.15
3.29GlyLys: 3.29 ± 0.136
5.035GlyLeu: 5.035 ± 0.148
1.338GlyMet: 1.338 ± 0.079
2.19GlyAsn: 2.19 ± 0.087
1.675GlyPro: 1.675 ± 0.087
2.223GlyGln: 2.223 ± 0.096
2.06GlyArg: 2.06 ± 0.105
3.901GlySer: 3.901 ± 0.144
3.883GlyThr: 3.883 ± 0.137
3.027GlyVal: 3.027 ± 0.121
0.771GlyTrp: 0.771 ± 0.06
2.56GlyTyr: 2.56 ± 0.105
0.0GlyXaa: 0.0 ± 0.0
His
2.39HisAla: 2.39 ± 0.1
0.315HisCys: 0.315 ± 0.036
1.286HisAsp: 1.286 ± 0.081
1.393HisGlu: 1.393 ± 0.08
1.011HisPhe: 1.011 ± 0.064
1.308HisGly: 1.308 ± 0.078
0.748HisHis: 0.748 ± 0.06
2.582HisIle: 2.582 ± 0.093
1.504HisLys: 1.504 ± 0.077
2.397HisLeu: 2.397 ± 0.093
0.611HisMet: 0.611 ± 0.047
1.438HisAsn: 1.438 ± 0.074
1.223HisPro: 1.223 ± 0.063
0.963HisGln: 0.963 ± 0.062
0.782HisArg: 0.782 ± 0.052
1.512HisSer: 1.512 ± 0.069
1.893HisThr: 1.893 ± 0.076
1.501HisVal: 1.501 ± 0.073
0.207HisTrp: 0.207 ± 0.027
1.208HisTyr: 1.208 ± 0.07
0.0HisXaa: 0.0 ± 0.0
Ile
6.791IleAla: 6.791 ± 0.146
1.278IleCys: 1.278 ± 0.068
4.809IleAsp: 4.809 ± 0.136
4.394IleGlu: 4.394 ± 0.144
3.268IlePhe: 3.268 ± 0.117
4.283IleGly: 4.283 ± 0.15
1.979IleHis: 1.979 ± 0.096
7.284IleIle: 7.284 ± 0.176
5.928IleLys: 5.928 ± 0.165
7.425IleLeu: 7.425 ± 0.19
1.756IleMet: 1.756 ± 0.08
4.72IleAsn: 4.72 ± 0.139
3.757IlePro: 3.757 ± 0.133
3.279IleGln: 3.279 ± 0.129
2.738IleArg: 2.738 ± 0.087
6.332IleSer: 6.332 ± 0.17
5.517IleThr: 5.517 ± 0.142
5.317IleVal: 5.317 ± 0.139
0.719IleTrp: 0.719 ± 0.052
3.153IleTyr: 3.153 ± 0.12
0.0IleXaa: 0.0 ± 0.0
Lys
3.694LysAla: 3.694 ± 0.13
0.519LysCys: 0.519 ± 0.04
3.238LysAsp: 3.238 ± 0.124
3.627LysGlu: 3.627 ± 0.143
2.167LysPhe: 2.167 ± 0.095
2.771LysGly: 2.771 ± 0.103
1.441LysHis: 1.441 ± 0.091
5.476LysIle: 5.476 ± 0.136
4.839LysLys: 4.839 ± 0.177
5.887LysLeu: 5.887 ± 0.158
1.371LysMet: 1.371 ± 0.073
4.09LysAsn: 4.09 ± 0.135
2.342LysPro: 2.342 ± 0.101
2.623LysGln: 2.623 ± 0.089
2.59LysArg: 2.59 ± 0.098
4.124LysSer: 4.124 ± 0.146
3.698LysThr: 3.698 ± 0.125
3.379LysVal: 3.379 ± 0.131
0.456LysTrp: 0.456 ± 0.041
2.771LysTyr: 2.771 ± 0.096
0.0LysXaa: 0.0 ± 0.0
Leu
7.721LeuAla: 7.721 ± 0.204
1.878LeuCys: 1.878 ± 0.095
4.909LeuAsp: 4.909 ± 0.138
5.969LeuGlu: 5.969 ± 0.188
4.887LeuPhe: 4.887 ± 0.156
5.606LeuGly: 5.606 ± 0.182
2.564LeuHis: 2.564 ± 0.113
7.992LeuIle: 7.992 ± 0.185
5.798LeuLys: 5.798 ± 0.154
10.793LeuLeu: 10.793 ± 0.262
2.027LeuMet: 2.027 ± 0.082
4.379LeuAsn: 4.379 ± 0.154
4.068LeuPro: 4.068 ± 0.111
4.242LeuGln: 4.242 ± 0.117
3.887LeuArg: 3.887 ± 0.106
8.055LeuSer: 8.055 ± 0.186
5.728LeuThr: 5.728 ± 0.155
6.31LeuVal: 6.31 ± 0.147
1.015LeuTrp: 1.015 ± 0.074
4.757LeuTyr: 4.757 ± 0.161
0.0LeuXaa: 0.0 ± 0.0
Met
1.452MetAla: 1.452 ± 0.084
0.348MetCys: 0.348 ± 0.038
0.823MetAsp: 0.823 ± 0.059
0.889MetGlu: 0.889 ± 0.055
0.834MetPhe: 0.834 ± 0.053
1.015MetGly: 1.015 ± 0.067
0.585MetHis: 0.585 ± 0.05
1.667MetIle: 1.667 ± 0.083
1.541MetLys: 1.541 ± 0.064
2.327MetLeu: 2.327 ± 0.084
0.415MetMet: 0.415 ± 0.04
1.175MetAsn: 1.175 ± 0.06
0.997MetPro: 0.997 ± 0.066
1.041MetGln: 1.041 ± 0.059
1.019MetArg: 1.019 ± 0.062
1.552MetSer: 1.552 ± 0.072
0.96MetThr: 0.96 ± 0.056
1.445MetVal: 1.445 ± 0.079
0.222MetTrp: 0.222 ± 0.027
1.008MetTyr: 1.008 ± 0.063
0.0MetXaa: 0.0 ± 0.0
Asn
3.127AsnAla: 3.127 ± 0.113
0.582AsnCys: 0.582 ± 0.049
2.13AsnAsp: 2.13 ± 0.095
2.016AsnGlu: 2.016 ± 0.099
2.271AsnPhe: 2.271 ± 0.099
2.149AsnGly: 2.149 ± 0.094
1.163AsnHis: 1.163 ± 0.076
4.783AsnIle: 4.783 ± 0.135
3.598AsnLys: 3.598 ± 0.124
4.605AsnLeu: 4.605 ± 0.155
1.06AsnMet: 1.06 ± 0.077
3.279AsnAsn: 3.279 ± 0.155
2.249AsnPro: 2.249 ± 0.095
2.238AsnGln: 2.238 ± 0.108
2.004AsnArg: 2.004 ± 0.086
3.679AsnSer: 3.679 ± 0.132
3.712AsnThr: 3.712 ± 0.126
2.545AsnVal: 2.545 ± 0.104
0.485AsnTrp: 0.485 ± 0.046
2.319AsnTyr: 2.319 ± 0.093
0.0AsnXaa: 0.0 ± 0.0
Pro
2.89ProAla: 2.89 ± 0.125
0.511ProCys: 0.511 ± 0.047
2.205ProAsp: 2.205 ± 0.095
3.112ProGlu: 3.112 ± 0.106
1.804ProPhe: 1.804 ± 0.08
2.156ProGly: 2.156 ± 0.103
1.052ProHis: 1.052 ± 0.056
2.853ProIle: 2.853 ± 0.104
1.393ProLys: 1.393 ± 0.081
4.413ProLeu: 4.413 ± 0.141
0.611ProMet: 0.611 ± 0.045
1.334ProAsn: 1.334 ± 0.082
0.774ProPro: 0.774 ± 0.054
1.734ProGln: 1.734 ± 0.078
1.371ProArg: 1.371 ± 0.078
2.675ProSer: 2.675 ± 0.099
2.557ProThr: 2.557 ± 0.103
2.99ProVal: 2.99 ± 0.125
0.393ProTrp: 0.393 ± 0.038
1.701ProTyr: 1.701 ± 0.082
0.0ProXaa: 0.0 ± 0.0
Gln
4.261GlnAla: 4.261 ± 0.145
0.589GlnCys: 0.589 ± 0.049
2.286GlnAsp: 2.286 ± 0.1
3.816GlnGlu: 3.816 ± 0.111
1.856GlnPhe: 1.856 ± 0.07
2.568GlnGly: 2.568 ± 0.112
1.019GlnHis: 1.019 ± 0.067
3.131GlnIle: 3.131 ± 0.099
3.109GlnLys: 3.109 ± 0.126
4.994GlnLeu: 4.994 ± 0.138
0.9GlnMet: 0.9 ± 0.055
2.275GlnAsn: 2.275 ± 0.098
1.589GlnPro: 1.589 ± 0.079
2.171GlnGln: 2.171 ± 0.097
1.727GlnArg: 1.727 ± 0.083
3.086GlnSer: 3.086 ± 0.098
2.608GlnThr: 2.608 ± 0.122
2.931GlnVal: 2.931 ± 0.113
0.526GlnTrp: 0.526 ± 0.044
1.686GlnTyr: 1.686 ± 0.089
0.0GlnXaa: 0.0 ± 0.0
Arg
3.486ArgAla: 3.486 ± 0.13
0.419ArgCys: 0.419 ± 0.043
1.753ArgAsp: 1.753 ± 0.073
1.979ArgGlu: 1.979 ± 0.097
1.701ArgPhe: 1.701 ± 0.084
1.786ArgGly: 1.786 ± 0.105
0.882ArgHis: 0.882 ± 0.062
3.564ArgIle: 3.564 ± 0.12
2.36ArgLys: 2.36 ± 0.102
4.02ArgLeu: 4.02 ± 0.125
1.149ArgMet: 1.149 ± 0.066
1.793ArgAsn: 1.793 ± 0.086
1.556ArgPro: 1.556 ± 0.086
1.819ArgGln: 1.819 ± 0.083
1.615ArgArg: 1.615 ± 0.079
2.853ArgSer: 2.853 ± 0.114
2.942ArgThr: 2.942 ± 0.117
2.586ArgVal: 2.586 ± 0.109
0.552ArgTrp: 0.552 ± 0.048
1.875ArgTyr: 1.875 ± 0.088
0.0ArgXaa: 0.0 ± 0.0
Ser
4.957SerAla: 4.957 ± 0.176
1.126SerCys: 1.126 ± 0.068
3.183SerAsp: 3.183 ± 0.118
2.908SerGlu: 2.908 ± 0.103
3.316SerPhe: 3.316 ± 0.106
4.061SerGly: 4.061 ± 0.164
1.856SerHis: 1.856 ± 0.082
6.047SerIle: 6.047 ± 0.156
3.683SerLys: 3.683 ± 0.11
7.355SerLeu: 7.355 ± 0.162
1.586SerMet: 1.586 ± 0.082
3.235SerAsn: 3.235 ± 0.124
2.527SerPro: 2.527 ± 0.105
3.005SerGln: 3.005 ± 0.127
2.675SerArg: 2.675 ± 0.108
5.732SerSer: 5.732 ± 0.153
4.613SerThr: 4.613 ± 0.156
4.346SerVal: 4.346 ± 0.14
0.897SerTrp: 0.897 ± 0.057
3.142SerTyr: 3.142 ± 0.111
0.0SerXaa: 0.0 ± 0.0
Thr
4.29ThrAla: 4.29 ± 0.129
0.952ThrCys: 0.952 ± 0.061
2.964ThrAsp: 2.964 ± 0.1
2.486ThrGlu: 2.486 ± 0.092
2.734ThrPhe: 2.734 ± 0.097
3.461ThrGly: 3.461 ± 0.148
1.838ThrHis: 1.838 ± 0.09
5.439ThrIle: 5.439 ± 0.142
2.964ThrLys: 2.964 ± 0.112
7.192ThrLeu: 7.192 ± 0.179
1.286ThrMet: 1.286 ± 0.064
2.853ThrAsn: 2.853 ± 0.111
2.72ThrPro: 2.72 ± 0.11
3.068ThrGln: 3.068 ± 0.116
2.523ThrArg: 2.523 ± 0.103
4.309ThrSer: 4.309 ± 0.136
4.168ThrThr: 4.168 ± 0.162
3.82ThrVal: 3.82 ± 0.117
0.73ThrTrp: 0.73 ± 0.047
2.757ThrTyr: 2.757 ± 0.102
0.0ThrXaa: 0.0 ± 0.0
Val
4.339ValAla: 4.339 ± 0.12
1.045ValCys: 1.045 ± 0.067
2.845ValAsp: 2.845 ± 0.112
3.068ValGlu: 3.068 ± 0.116
2.227ValPhe: 2.227 ± 0.082
3.453ValGly: 3.453 ± 0.13
1.526ValHis: 1.526 ± 0.069
4.757ValIle: 4.757 ± 0.127
3.283ValLys: 3.283 ± 0.119
5.795ValLeu: 5.795 ± 0.141
1.338ValMet: 1.338 ± 0.076
2.883ValAsn: 2.883 ± 0.098
2.786ValPro: 2.786 ± 0.105
2.616ValGln: 2.616 ± 0.113
2.808ValArg: 2.808 ± 0.101
4.205ValSer: 4.205 ± 0.139
3.794ValThr: 3.794 ± 0.112
4.113ValVal: 4.113 ± 0.146
0.863ValTrp: 0.863 ± 0.059
2.386ValTyr: 2.386 ± 0.102
0.0ValXaa: 0.0 ± 0.0
Trp
0.785TrpAla: 0.785 ± 0.059
0.23TrpCys: 0.23 ± 0.033
0.433TrpAsp: 0.433 ± 0.038
0.311TrpGlu: 0.311 ± 0.031
0.448TrpPhe: 0.448 ± 0.043
0.556TrpGly: 0.556 ± 0.05
0.378TrpHis: 0.378 ± 0.036
0.915TrpIle: 0.915 ± 0.064
0.734TrpLys: 0.734 ± 0.061
1.245TrpLeu: 1.245 ± 0.068
0.193TrpMet: 0.193 ± 0.023
0.719TrpAsn: 0.719 ± 0.053
0.408TrpPro: 0.408 ± 0.04
0.559TrpGln: 0.559 ± 0.047
0.408TrpArg: 0.408 ± 0.041
0.915TrpSer: 0.915 ± 0.061
0.578TrpThr: 0.578 ± 0.047
0.53TrpVal: 0.53 ± 0.046
0.163TrpTrp: 0.163 ± 0.028
0.708TrpTyr: 0.708 ± 0.054
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.301TyrAla: 3.301 ± 0.118
0.663TyrCys: 0.663 ± 0.053
1.971TyrAsp: 1.971 ± 0.09
1.912TyrGlu: 1.912 ± 0.081
1.904TyrPhe: 1.904 ± 0.102
2.175TyrGly: 2.175 ± 0.096
1.134TyrHis: 1.134 ± 0.063
4.165TyrIle: 4.165 ± 0.139
3.109TyrLys: 3.109 ± 0.124
4.113TyrLeu: 4.113 ± 0.142
0.811TyrMet: 0.811 ± 0.059
2.582TyrAsn: 2.582 ± 0.099
1.604TyrPro: 1.604 ± 0.076
2.408TyrGln: 2.408 ± 0.098
1.578TyrArg: 1.578 ± 0.077
2.871TyrSer: 2.871 ± 0.104
2.894TyrThr: 2.894 ± 0.104
2.46TyrVal: 2.46 ± 0.096
0.485TyrTrp: 0.485 ± 0.046
1.808TyrTyr: 1.808 ± 0.091
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 860 proteins (269901 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