Amino acid dipepetide frequency for Yersinia phage phiR1-RT

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
4.266AlaAla: 4.266 ± 0.314
0.446AlaCys: 0.446 ± 0.089
4.092AlaAsp: 4.092 ± 0.292
4.363AlaGlu: 4.363 ± 0.27
2.502AlaPhe: 2.502 ± 0.198
4.092AlaGly: 4.092 ± 0.417
0.873AlaHis: 0.873 ± 0.147
5.042AlaIle: 5.042 ± 0.359
5.236AlaLys: 5.236 ± 0.358
5.643AlaLeu: 5.643 ± 0.375
1.59AlaMet: 1.59 ± 0.184
3.898AlaAsn: 3.898 ± 0.295
2.017AlaPro: 2.017 ± 0.212
2.56AlaGln: 2.56 ± 0.268
2.715AlaArg: 2.715 ± 0.24
5.158AlaSer: 5.158 ± 0.318
3.995AlaThr: 3.995 ± 0.428
3.743AlaVal: 3.743 ± 0.293
0.892AlaTrp: 0.892 ± 0.127
2.385AlaTyr: 2.385 ± 0.225
0.0AlaXaa: 0.0 ± 0.0
Cys
0.504CysAla: 0.504 ± 0.101
0.194CysCys: 0.194 ± 0.069
0.737CysAsp: 0.737 ± 0.122
0.776CysGlu: 0.776 ± 0.15
0.446CysPhe: 0.446 ± 0.087
0.485CysGly: 0.485 ± 0.103
0.291CysHis: 0.291 ± 0.072
0.756CysIle: 0.756 ± 0.113
0.756CysLys: 0.756 ± 0.114
0.621CysLeu: 0.621 ± 0.101
0.233CysMet: 0.233 ± 0.068
0.756CysAsn: 0.756 ± 0.12
0.485CysPro: 0.485 ± 0.086
0.465CysGln: 0.465 ± 0.093
0.524CysArg: 0.524 ± 0.107
1.125CysSer: 1.125 ± 0.171
0.64CysThr: 0.64 ± 0.111
0.834CysVal: 0.834 ± 0.13
0.155CysTrp: 0.155 ± 0.047
0.388CysTyr: 0.388 ± 0.087
0.0CysXaa: 0.0 ± 0.0
Asp
4.053AspAla: 4.053 ± 0.271
0.698AspCys: 0.698 ± 0.113
3.82AspAsp: 3.82 ± 0.232
4.557AspGlu: 4.557 ± 0.275
3.452AspPhe: 3.452 ± 0.28
4.053AspGly: 4.053 ± 0.291
0.679AspHis: 0.679 ± 0.113
5.992AspIle: 5.992 ± 0.321
4.48AspLys: 4.48 ± 0.327
5.1AspLeu: 5.1 ± 0.329
1.629AspMet: 1.629 ± 0.181
3.045AspAsn: 3.045 ± 0.242
2.075AspPro: 2.075 ± 0.22
1.59AspGln: 1.59 ± 0.19
1.823AspArg: 1.823 ± 0.168
4.46AspSer: 4.46 ± 0.269
3.626AspThr: 3.626 ± 0.261
4.053AspVal: 4.053 ± 0.252
1.26AspTrp: 1.26 ± 0.156
3.18AspTyr: 3.18 ± 0.273
0.0AspXaa: 0.0 ± 0.0
Glu
5.003GluAla: 5.003 ± 0.33
0.892GluCys: 0.892 ± 0.145
3.917GluAsp: 3.917 ± 0.265
4.266GluGlu: 4.266 ± 0.375
3.646GluPhe: 3.646 ± 0.307
2.676GluGly: 2.676 ± 0.277
1.047GluHis: 1.047 ± 0.139
5.818GluIle: 5.818 ± 0.29
3.801GluLys: 3.801 ± 0.317
7.253GluLeu: 7.253 ± 0.374
2.094GluMet: 2.094 ± 0.19
3.723GluAsn: 3.723 ± 0.286
1.842GluPro: 1.842 ± 0.223
2.153GluGln: 2.153 ± 0.237
2.424GluArg: 2.424 ± 0.209
4.538GluSer: 4.538 ± 0.344
4.072GluThr: 4.072 ± 0.281
4.635GluVal: 4.635 ± 0.289
0.853GluTrp: 0.853 ± 0.122
2.967GluTyr: 2.967 ± 0.218
0.0GluXaa: 0.0 ± 0.0
Phe
2.851PheAla: 2.851 ± 0.229
0.524PheCys: 0.524 ± 0.124
3.239PheAsp: 3.239 ± 0.201
3.626PheGlu: 3.626 ± 0.27
1.105PhePhe: 1.105 ± 0.15
2.909PheGly: 2.909 ± 0.278
0.853PheHis: 0.853 ± 0.113
3.297PheIle: 3.297 ± 0.255
3.917PheLys: 3.917 ± 0.274
2.482PheLeu: 2.482 ± 0.203
1.299PheMet: 1.299 ± 0.168
3.142PheAsn: 3.142 ± 0.222
1.164PhePro: 1.164 ± 0.155
1.144PheGln: 1.144 ± 0.13
1.629PheArg: 1.629 ± 0.173
2.715PheSer: 2.715 ± 0.229
2.366PheThr: 2.366 ± 0.221
2.792PheVal: 2.792 ± 0.245
0.582PheTrp: 0.582 ± 0.115
1.513PheTyr: 1.513 ± 0.18
0.0PheXaa: 0.0 ± 0.0
Gly
3.432GlyAla: 3.432 ± 0.297
0.388GlyCys: 0.388 ± 0.08
3.588GlyAsp: 3.588 ± 0.284
3.665GlyGlu: 3.665 ± 0.322
2.676GlyPhe: 2.676 ± 0.239
3.394GlyGly: 3.394 ± 0.399
1.299GlyHis: 1.299 ± 0.17
4.829GlyIle: 4.829 ± 0.324
3.878GlyLys: 3.878 ± 0.304
4.79GlyLeu: 4.79 ± 0.293
1.493GlyMet: 1.493 ± 0.183
2.87GlyAsn: 2.87 ± 0.254
1.493GlyPro: 1.493 ± 0.162
1.978GlyGln: 1.978 ± 0.229
2.269GlyArg: 2.269 ± 0.212
3.84GlySer: 3.84 ± 0.264
3.995GlyThr: 3.995 ± 0.406
3.239GlyVal: 3.239 ± 0.256
1.067GlyTrp: 1.067 ± 0.147
3.083GlyTyr: 3.083 ± 0.246
0.0GlyXaa: 0.0 ± 0.0
His
0.97HisAla: 0.97 ± 0.143
0.271HisCys: 0.271 ± 0.085
1.067HisAsp: 1.067 ± 0.13
0.989HisGlu: 0.989 ± 0.143
0.621HisPhe: 0.621 ± 0.102
1.222HisGly: 1.222 ± 0.145
0.524HisHis: 0.524 ± 0.124
1.59HisIle: 1.59 ± 0.194
1.493HisLys: 1.493 ± 0.19
1.61HisLeu: 1.61 ± 0.198
0.368HisMet: 0.368 ± 0.086
0.989HisAsn: 0.989 ± 0.132
0.814HisPro: 0.814 ± 0.109
0.601HisGln: 0.601 ± 0.1
0.582HisArg: 0.582 ± 0.105
1.396HisSer: 1.396 ± 0.211
0.931HisThr: 0.931 ± 0.132
1.183HisVal: 1.183 ± 0.147
0.194HisTrp: 0.194 ± 0.065
0.795HisTyr: 0.795 ± 0.105
0.0HisXaa: 0.0 ± 0.0
Ile
4.984IleAla: 4.984 ± 0.323
0.911IleCys: 0.911 ± 0.145
5.759IleAsp: 5.759 ± 0.327
5.74IleGlu: 5.74 ± 0.359
2.696IlePhe: 2.696 ± 0.202
4.014IleGly: 4.014 ± 0.308
1.067IleHis: 1.067 ± 0.178
5.178IleIle: 5.178 ± 0.326
7.059IleLys: 7.059 ± 0.379
5.313IleLeu: 5.313 ± 0.28
1.842IleMet: 1.842 ± 0.181
5.178IleAsn: 5.178 ± 0.319
2.385IlePro: 2.385 ± 0.2
2.599IleGln: 2.599 ± 0.249
3.646IleArg: 3.646 ± 0.233
5.74IleSer: 5.74 ± 0.362
4.926IleThr: 4.926 ± 0.34
4.693IleVal: 4.693 ± 0.278
0.776IleTrp: 0.776 ± 0.123
3.045IleTyr: 3.045 ± 0.241
0.0IleXaa: 0.0 ± 0.0
Lys
5.352LysAla: 5.352 ± 0.326
0.97LysCys: 0.97 ± 0.145
4.635LysAsp: 4.635 ± 0.352
5.275LysGlu: 5.275 ± 0.323
3.878LysPhe: 3.878 ± 0.278
3.956LysGly: 3.956 ± 0.255
1.668LysHis: 1.668 ± 0.189
5.41LysIle: 5.41 ± 0.322
4.77LysLys: 4.77 ± 0.412
6.632LysLeu: 6.632 ± 0.464
2.502LysMet: 2.502 ± 0.225
4.189LysAsn: 4.189 ± 0.287
2.23LysPro: 2.23 ± 0.217
2.424LysGln: 2.424 ± 0.229
3.277LysArg: 3.277 ± 0.246
4.906LysSer: 4.906 ± 0.301
4.518LysThr: 4.518 ± 0.289
4.324LysVal: 4.324 ± 0.322
0.892LysTrp: 0.892 ± 0.114
3.607LysTyr: 3.607 ± 0.314
0.0LysXaa: 0.0 ± 0.0
Leu
5.701LeuAla: 5.701 ± 0.328
0.834LeuCys: 0.834 ± 0.128
5.313LeuAsp: 5.313 ± 0.325
5.74LeuGlu: 5.74 ± 0.384
2.928LeuPhe: 2.928 ± 0.254
4.15LeuGly: 4.15 ± 0.234
1.299LeuHis: 1.299 ± 0.147
5.585LeuIle: 5.585 ± 0.356
6.128LeuLys: 6.128 ± 0.357
5.217LeuLeu: 5.217 ± 0.348
2.327LeuMet: 2.327 ± 0.252
5.197LeuAsn: 5.197 ± 0.298
3.142LeuPro: 3.142 ± 0.246
3.006LeuGln: 3.006 ± 0.225
3.335LeuArg: 3.335 ± 0.241
4.984LeuSer: 4.984 ± 0.322
4.906LeuThr: 4.906 ± 0.346
4.208LeuVal: 4.208 ± 0.261
0.892LeuTrp: 0.892 ± 0.13
3.374LeuTyr: 3.374 ± 0.267
0.0LeuXaa: 0.0 ± 0.0
Met
2.094MetAla: 2.094 ± 0.2
0.407MetCys: 0.407 ± 0.091
1.493MetAsp: 1.493 ± 0.169
1.241MetGlu: 1.241 ± 0.139
1.241MetPhe: 1.241 ± 0.146
1.067MetGly: 1.067 ± 0.145
0.349MetHis: 0.349 ± 0.095
1.842MetIle: 1.842 ± 0.213
2.482MetLys: 2.482 ± 0.202
2.308MetLeu: 2.308 ± 0.213
0.543MetMet: 0.543 ± 0.105
1.784MetAsn: 1.784 ± 0.199
0.853MetPro: 0.853 ± 0.138
1.202MetGln: 1.202 ± 0.16
0.756MetArg: 0.756 ± 0.119
2.657MetSer: 2.657 ± 0.201
1.784MetThr: 1.784 ± 0.154
1.319MetVal: 1.319 ± 0.151
0.136MetTrp: 0.136 ± 0.052
1.202MetTyr: 1.202 ± 0.143
0.0MetXaa: 0.0 ± 0.0
Asn
3.82AsnAla: 3.82 ± 0.325
0.679AsnCys: 0.679 ± 0.106
3.335AsnAsp: 3.335 ± 0.305
3.801AsnGlu: 3.801 ± 0.252
2.54AsnPhe: 2.54 ± 0.227
3.743AsnGly: 3.743 ± 0.287
1.144AsnHis: 1.144 ± 0.149
4.499AsnIle: 4.499 ± 0.325
4.131AsnLys: 4.131 ± 0.308
4.809AsnLeu: 4.809 ± 0.352
1.474AsnMet: 1.474 ± 0.165
3.2AsnAsn: 3.2 ± 0.263
2.831AsnPro: 2.831 ± 0.23
1.745AsnGln: 1.745 ± 0.206
2.657AsnArg: 2.657 ± 0.183
4.266AsnSer: 4.266 ± 0.32
3.2AsnThr: 3.2 ± 0.272
3.355AsnVal: 3.355 ± 0.257
0.698AsnTrp: 0.698 ± 0.111
2.346AsnTyr: 2.346 ± 0.244
0.0AsnXaa: 0.0 ± 0.0
Pro
1.687ProAla: 1.687 ± 0.197
0.465ProCys: 0.465 ± 0.09
2.23ProAsp: 2.23 ± 0.201
2.773ProGlu: 2.773 ± 0.231
1.513ProPhe: 1.513 ± 0.181
2.463ProGly: 2.463 ± 0.255
0.465ProHis: 0.465 ± 0.08
2.792ProIle: 2.792 ± 0.23
2.618ProLys: 2.618 ± 0.231
2.056ProLeu: 2.056 ± 0.215
0.64ProMet: 0.64 ± 0.108
2.191ProAsn: 2.191 ± 0.214
0.892ProPro: 0.892 ± 0.141
0.737ProGln: 0.737 ± 0.114
1.28ProArg: 1.28 ± 0.165
2.211ProSer: 2.211 ± 0.215
2.133ProThr: 2.133 ± 0.212
2.346ProVal: 2.346 ± 0.184
0.427ProTrp: 0.427 ± 0.098
1.26ProTyr: 1.26 ± 0.153
0.0ProXaa: 0.0 ± 0.0
Gln
2.385GlnAla: 2.385 ± 0.252
0.252GlnCys: 0.252 ± 0.075
1.959GlnAsp: 1.959 ± 0.2
1.803GlnGlu: 1.803 ± 0.177
1.707GlnPhe: 1.707 ± 0.169
1.61GlnGly: 1.61 ± 0.173
0.892GlnHis: 0.892 ± 0.157
2.909GlnIle: 2.909 ± 0.256
2.056GlnLys: 2.056 ± 0.192
3.394GlnLeu: 3.394 ± 0.251
1.105GlnMet: 1.105 ± 0.169
1.571GlnAsn: 1.571 ± 0.201
1.086GlnPro: 1.086 ± 0.133
1.319GlnGln: 1.319 ± 0.195
1.551GlnArg: 1.551 ± 0.156
1.959GlnSer: 1.959 ± 0.207
2.056GlnThr: 2.056 ± 0.199
2.114GlnVal: 2.114 ± 0.211
0.718GlnTrp: 0.718 ± 0.113
1.59GlnTyr: 1.59 ± 0.21
0.0GlnXaa: 0.0 ± 0.0
Arg
2.889ArgAla: 2.889 ± 0.237
0.543ArgCys: 0.543 ± 0.114
2.715ArgAsp: 2.715 ± 0.219
2.734ArgGlu: 2.734 ± 0.21
1.726ArgPhe: 1.726 ± 0.181
2.424ArgGly: 2.424 ± 0.221
0.718ArgHis: 0.718 ± 0.118
3.626ArgIle: 3.626 ± 0.261
2.909ArgLys: 2.909 ± 0.25
3.103ArgLeu: 3.103 ± 0.255
1.067ArgMet: 1.067 ± 0.149
2.211ArgAsn: 2.211 ± 0.23
1.183ArgPro: 1.183 ± 0.146
1.59ArgGln: 1.59 ± 0.173
1.9ArgArg: 1.9 ± 0.23
2.637ArgSer: 2.637 ± 0.215
2.346ArgThr: 2.346 ± 0.252
2.385ArgVal: 2.385 ± 0.228
0.718ArgTrp: 0.718 ± 0.132
1.842ArgTyr: 1.842 ± 0.166
0.0ArgXaa: 0.0 ± 0.0
Ser
4.014SerAla: 4.014 ± 0.3
0.756SerCys: 0.756 ± 0.115
4.324SerAsp: 4.324 ± 0.253
4.324SerGlu: 4.324 ± 0.313
2.87SerPhe: 2.87 ± 0.25
4.751SerGly: 4.751 ± 0.325
1.396SerHis: 1.396 ± 0.166
5.197SerIle: 5.197 ± 0.338
6.147SerLys: 6.147 ± 0.36
4.751SerLeu: 4.751 ± 0.3
1.842SerMet: 1.842 ± 0.222
4.014SerAsn: 4.014 ± 0.314
2.327SerPro: 2.327 ± 0.226
2.288SerGln: 2.288 ± 0.221
3.432SerArg: 3.432 ± 0.31
4.829SerSer: 4.829 ± 0.311
4.169SerThr: 4.169 ± 0.387
4.809SerVal: 4.809 ± 0.275
0.524SerTrp: 0.524 ± 0.114
2.87SerTyr: 2.87 ± 0.204
0.0SerXaa: 0.0 ± 0.0
Thr
4.169ThrAla: 4.169 ± 0.394
0.543ThrCys: 0.543 ± 0.091
3.471ThrAsp: 3.471 ± 0.251
4.034ThrGlu: 4.034 ± 0.314
2.424ThrPhe: 2.424 ± 0.222
4.111ThrGly: 4.111 ± 0.272
1.474ThrHis: 1.474 ± 0.187
4.499ThrIle: 4.499 ± 0.269
4.208ThrLys: 4.208 ± 0.27
4.402ThrLeu: 4.402 ± 0.34
1.454ThrMet: 1.454 ± 0.156
3.394ThrAsn: 3.394 ± 0.259
2.346ThrPro: 2.346 ± 0.297
2.385ThrGln: 2.385 ± 0.284
2.502ThrArg: 2.502 ± 0.233
4.247ThrSer: 4.247 ± 0.365
3.685ThrThr: 3.685 ± 0.383
4.247ThrVal: 4.247 ± 0.303
0.834ThrTrp: 0.834 ± 0.118
2.114ThrTyr: 2.114 ± 0.223
0.0ThrXaa: 0.0 ± 0.0
Val
3.626ValAla: 3.626 ± 0.255
0.737ValCys: 0.737 ± 0.12
3.762ValAsp: 3.762 ± 0.31
4.674ValGlu: 4.674 ± 0.309
2.812ValPhe: 2.812 ± 0.22
3.219ValGly: 3.219 ± 0.302
1.086ValHis: 1.086 ± 0.145
4.829ValIle: 4.829 ± 0.321
5.313ValLys: 5.313 ± 0.334
4.577ValLeu: 4.577 ± 0.3
1.629ValMet: 1.629 ± 0.196
3.529ValAsn: 3.529 ± 0.288
2.017ValPro: 2.017 ± 0.222
2.54ValGln: 2.54 ± 0.184
2.54ValArg: 2.54 ± 0.211
4.305ValSer: 4.305 ± 0.245
3.432ValThr: 3.432 ± 0.258
4.46ValVal: 4.46 ± 0.337
0.873ValTrp: 0.873 ± 0.134
2.676ValTyr: 2.676 ± 0.227
0.0ValXaa: 0.0 ± 0.0
Trp
1.028TrpAla: 1.028 ± 0.131
0.213TrpCys: 0.213 ± 0.056
0.931TrpAsp: 0.931 ± 0.133
0.814TrpGlu: 0.814 ± 0.125
0.601TrpPhe: 0.601 ± 0.119
0.562TrpGly: 0.562 ± 0.116
0.368TrpHis: 0.368 ± 0.079
0.621TrpIle: 0.621 ± 0.105
1.047TrpLys: 1.047 ± 0.164
0.989TrpLeu: 0.989 ± 0.136
0.562TrpMet: 0.562 ± 0.109
0.659TrpAsn: 0.659 ± 0.105
0.427TrpPro: 0.427 ± 0.096
0.33TrpGln: 0.33 ± 0.082
0.465TrpArg: 0.465 ± 0.084
0.737TrpSer: 0.737 ± 0.114
0.931TrpThr: 0.931 ± 0.133
1.144TrpVal: 1.144 ± 0.137
0.175TrpTrp: 0.175 ± 0.06
0.601TrpTyr: 0.601 ± 0.108
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.696TyrAla: 2.696 ± 0.231
0.446TyrCys: 0.446 ± 0.097
3.239TyrAsp: 3.239 ± 0.25
2.424TyrGlu: 2.424 ± 0.24
1.765TyrPhe: 1.765 ± 0.182
2.366TyrGly: 2.366 ± 0.236
0.718TyrHis: 0.718 ± 0.134
3.239TyrIle: 3.239 ± 0.255
2.986TyrLys: 2.986 ± 0.243
3.219TyrLeu: 3.219 ± 0.267
1.047TyrMet: 1.047 ± 0.129
2.734TyrAsn: 2.734 ± 0.247
1.571TyrPro: 1.571 ± 0.198
1.377TyrGln: 1.377 ± 0.157
1.959TyrArg: 1.959 ± 0.184
2.928TyrSer: 2.928 ± 0.242
2.831TyrThr: 2.831 ± 0.231
2.754TyrVal: 2.754 ± 0.227
0.543TyrTrp: 0.543 ± 0.096
1.842TyrTyr: 1.842 ± 0.196
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 262 proteins (51568 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