Amino acid dipepetide frequency for Vibrio phage RYC

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
4.201AlaAla: 4.201 ± 0.437
0.654AlaCys: 0.654 ± 0.129
2.998AlaAsp: 2.998 ± 0.268
3.906AlaGlu: 3.906 ± 0.298
2.618AlaPhe: 2.618 ± 0.224
4.56AlaGly: 4.56 ± 0.327
0.866AlaHis: 0.866 ± 0.133
3.737AlaIle: 3.737 ± 0.263
3.927AlaLys: 3.927 ± 0.397
4.877AlaLeu: 4.877 ± 0.388
1.33AlaMet: 1.33 ± 0.168
2.977AlaAsn: 2.977 ± 0.275
2.343AlaPro: 2.343 ± 0.244
2.217AlaGln: 2.217 ± 0.203
2.576AlaArg: 2.576 ± 0.277
3.293AlaSer: 3.293 ± 0.298
3.779AlaThr: 3.779 ± 0.356
3.885AlaVal: 3.885 ± 0.312
0.887AlaTrp: 0.887 ± 0.144
2.111AlaTyr: 2.111 ± 0.217
0.0AlaXaa: 0.0 ± 0.0
Cys
0.654CysAla: 0.654 ± 0.105
0.063CysCys: 0.063 ± 0.035
0.676CysAsp: 0.676 ± 0.12
1.077CysGlu: 1.077 ± 0.167
0.654CysPhe: 0.654 ± 0.122
0.887CysGly: 0.887 ± 0.15
0.422CysHis: 0.422 ± 0.104
0.866CysIle: 0.866 ± 0.135
0.908CysLys: 0.908 ± 0.159
1.119CysLeu: 1.119 ± 0.161
0.317CysMet: 0.317 ± 0.085
0.866CysAsn: 0.866 ± 0.163
0.633CysPro: 0.633 ± 0.127
0.591CysGln: 0.591 ± 0.105
0.549CysArg: 0.549 ± 0.121
0.971CysSer: 0.971 ± 0.162
0.739CysThr: 0.739 ± 0.133
0.739CysVal: 0.739 ± 0.118
0.232CysTrp: 0.232 ± 0.066
0.443CysTyr: 0.443 ± 0.079
0.0CysXaa: 0.0 ± 0.0
Asp
3.399AspAla: 3.399 ± 0.25
1.098AspCys: 1.098 ± 0.148
4.096AspAsp: 4.096 ± 0.361
4.666AspGlu: 4.666 ± 0.323
3.336AspPhe: 3.336 ± 0.311
4.222AspGly: 4.222 ± 0.407
1.414AspHis: 1.414 ± 0.176
4.581AspIle: 4.581 ± 0.266
4.222AspLys: 4.222 ± 0.326
5.785AspLeu: 5.785 ± 0.336
1.393AspMet: 1.393 ± 0.158
3.42AspAsn: 3.42 ± 0.295
2.555AspPro: 2.555 ± 0.276
1.9AspGln: 1.9 ± 0.172
2.829AspArg: 2.829 ± 0.223
3.842AspSer: 3.842 ± 0.284
4.623AspThr: 4.623 ± 0.324
4.623AspVal: 4.623 ± 0.299
1.393AspTrp: 1.393 ± 0.159
3.293AspTyr: 3.293 ± 0.281
0.0AspXaa: 0.0 ± 0.0
Glu
4.581GluAla: 4.581 ± 0.39
0.95GluCys: 0.95 ± 0.155
5.975GluAsp: 5.975 ± 0.374
8.297GluGlu: 8.297 ± 0.531
3.23GluPhe: 3.23 ± 0.258
6.059GluGly: 6.059 ± 0.373
1.647GluHis: 1.647 ± 0.175
4.792GluIle: 4.792 ± 0.314
4.919GluLys: 4.919 ± 0.39
6.587GluLeu: 6.587 ± 0.378
2.449GluMet: 2.449 ± 0.226
3.885GluAsn: 3.885 ± 0.317
1.668GluPro: 1.668 ± 0.197
3.082GluGln: 3.082 ± 0.262
3.483GluArg: 3.483 ± 0.308
4.243GluSer: 4.243 ± 0.324
3.737GluThr: 3.737 ± 0.333
6.502GluVal: 6.502 ± 0.36
1.436GluTrp: 1.436 ± 0.156
3.8GluTyr: 3.8 ± 0.292
0.0GluXaa: 0.0 ± 0.0
Phe
2.301PheAla: 2.301 ± 0.226
0.591PheCys: 0.591 ± 0.107
3.315PheAsp: 3.315 ± 0.234
3.8PheGlu: 3.8 ± 0.278
1.668PhePhe: 1.668 ± 0.191
2.808PheGly: 2.808 ± 0.261
0.464PheHis: 0.464 ± 0.113
2.449PheIle: 2.449 ± 0.222
3.146PheLys: 3.146 ± 0.238
3.948PheLeu: 3.948 ± 0.324
1.224PheMet: 1.224 ± 0.182
2.512PheAsn: 2.512 ± 0.222
1.224PhePro: 1.224 ± 0.187
1.224PheGln: 1.224 ± 0.179
1.921PheArg: 1.921 ± 0.268
3.251PheSer: 3.251 ± 0.265
2.702PheThr: 2.702 ± 0.214
2.871PheVal: 2.871 ± 0.239
0.57PheTrp: 0.57 ± 0.118
1.626PheTyr: 1.626 ± 0.204
0.0PheXaa: 0.0 ± 0.0
Gly
3.863GlyAla: 3.863 ± 0.336
1.161GlyCys: 1.161 ± 0.165
4.518GlyAsp: 4.518 ± 0.367
4.835GlyGlu: 4.835 ± 0.285
3.399GlyPhe: 3.399 ± 0.228
4.286GlyGly: 4.286 ± 0.351
1.288GlyHis: 1.288 ± 0.151
3.927GlyIle: 3.927 ± 0.246
4.961GlyLys: 4.961 ± 0.37
5.151GlyLeu: 5.151 ± 0.338
1.647GlyMet: 1.647 ± 0.188
3.399GlyAsn: 3.399 ± 0.255
0.338GlyPro: 0.338 ± 0.086
2.132GlyGln: 2.132 ± 0.178
2.723GlyArg: 2.723 ± 0.255
4.328GlySer: 4.328 ± 0.354
4.391GlyThr: 4.391 ± 0.421
5.236GlyVal: 5.236 ± 0.342
1.098GlyTrp: 1.098 ± 0.175
3.019GlyTyr: 3.019 ± 0.256
0.0GlyXaa: 0.0 ± 0.0
His
1.098HisAla: 1.098 ± 0.146
0.274HisCys: 0.274 ± 0.076
1.309HisAsp: 1.309 ± 0.155
1.33HisGlu: 1.33 ± 0.163
1.013HisPhe: 1.013 ± 0.134
1.309HisGly: 1.309 ± 0.174
0.464HisHis: 0.464 ± 0.113
1.33HisIle: 1.33 ± 0.172
1.246HisLys: 1.246 ± 0.199
1.562HisLeu: 1.562 ± 0.186
0.528HisMet: 0.528 ± 0.121
1.182HisAsn: 1.182 ± 0.161
0.823HisPro: 0.823 ± 0.136
0.612HisGln: 0.612 ± 0.105
0.718HisArg: 0.718 ± 0.163
0.929HisSer: 0.929 ± 0.13
1.203HisThr: 1.203 ± 0.17
1.203HisVal: 1.203 ± 0.153
0.274HisTrp: 0.274 ± 0.071
1.351HisTyr: 1.351 ± 0.178
0.0HisXaa: 0.0 ± 0.0
Ile
3.547IleAla: 3.547 ± 0.293
0.591IleCys: 0.591 ± 0.114
4.096IleAsp: 4.096 ± 0.318
5.193IleGlu: 5.193 ± 0.315
2.491IlePhe: 2.491 ± 0.258
3.293IleGly: 3.293 ± 0.267
1.246IleHis: 1.246 ± 0.196
3.673IleIle: 3.673 ± 0.294
3.969IleLys: 3.969 ± 0.253
5.046IleLeu: 5.046 ± 0.334
1.182IleMet: 1.182 ± 0.151
3.04IleAsn: 3.04 ± 0.251
2.597IlePro: 2.597 ± 0.233
2.069IleGln: 2.069 ± 0.209
2.491IleArg: 2.491 ± 0.249
4.075IleSer: 4.075 ± 0.263
4.117IleThr: 4.117 ± 0.271
3.948IleVal: 3.948 ± 0.333
0.676IleTrp: 0.676 ± 0.142
1.921IleTyr: 1.921 ± 0.2
0.0IleXaa: 0.0 ± 0.0
Lys
4.053LysAla: 4.053 ± 0.39
0.802LysCys: 0.802 ± 0.126
4.37LysAsp: 4.37 ± 0.29
6.291LysGlu: 6.291 ± 0.482
2.745LysPhe: 2.745 ± 0.232
5.257LysGly: 5.257 ± 0.351
1.752LysHis: 1.752 ± 0.189
3.483LysIle: 3.483 ± 0.276
4.771LysLys: 4.771 ± 0.366
5.616LysLeu: 5.616 ± 0.391
2.301LysMet: 2.301 ± 0.231
2.723LysAsn: 2.723 ± 0.234
2.069LysPro: 2.069 ± 0.217
2.491LysGln: 2.491 ± 0.226
3.04LysArg: 3.04 ± 0.292
4.159LysSer: 4.159 ± 0.332
3.842LysThr: 3.842 ± 0.287
5.299LysVal: 5.299 ± 0.351
0.591LysTrp: 0.591 ± 0.104
2.576LysTyr: 2.576 ± 0.275
0.0LysXaa: 0.0 ± 0.0
Leu
5.215LeuAla: 5.215 ± 0.327
1.309LeuCys: 1.309 ± 0.159
5.869LeuAsp: 5.869 ± 0.329
7.41LeuGlu: 7.41 ± 0.41
3.04LeuPhe: 3.04 ± 0.26
5.574LeuGly: 5.574 ± 0.353
1.372LeuHis: 1.372 ± 0.141
4.539LeuIle: 4.539 ± 0.341
5.806LeuLys: 5.806 ± 0.408
6.671LeuLeu: 6.671 ± 0.435
2.111LeuMet: 2.111 ± 0.195
4.053LeuAsn: 4.053 ± 0.301
3.188LeuPro: 3.188 ± 0.29
2.913LeuGln: 2.913 ± 0.257
3.948LeuArg: 3.948 ± 0.262
5.595LeuSer: 5.595 ± 0.335
5.025LeuThr: 5.025 ± 0.351
5.489LeuVal: 5.489 ± 0.368
1.056LeuTrp: 1.056 ± 0.152
3.441LeuTyr: 3.441 ± 0.31
0.0LeuXaa: 0.0 ± 0.0
Met
1.668MetAla: 1.668 ± 0.182
0.211MetCys: 0.211 ± 0.077
1.626MetAsp: 1.626 ± 0.187
2.153MetGlu: 2.153 ± 0.234
1.056MetPhe: 1.056 ± 0.139
1.393MetGly: 1.393 ± 0.18
0.422MetHis: 0.422 ± 0.088
1.414MetIle: 1.414 ± 0.171
1.963MetLys: 1.963 ± 0.233
2.006MetLeu: 2.006 ± 0.246
0.676MetMet: 0.676 ± 0.134
1.203MetAsn: 1.203 ± 0.161
0.633MetPro: 0.633 ± 0.131
0.908MetGln: 0.908 ± 0.142
1.203MetArg: 1.203 ± 0.174
2.217MetSer: 2.217 ± 0.256
1.731MetThr: 1.731 ± 0.151
1.71MetVal: 1.71 ± 0.181
0.359MetTrp: 0.359 ± 0.082
0.929MetTyr: 0.929 ± 0.14
0.0MetXaa: 0.0 ± 0.0
Asn
2.829AsnAla: 2.829 ± 0.238
0.591AsnCys: 0.591 ± 0.116
2.998AsnAsp: 2.998 ± 0.285
3.23AsnGlu: 3.23 ± 0.217
1.985AsnPhe: 1.985 ± 0.192
3.779AsnGly: 3.779 ± 0.413
1.056AsnHis: 1.056 ± 0.153
3.906AsnIle: 3.906 ± 0.291
3.61AsnLys: 3.61 ± 0.287
4.476AsnLeu: 4.476 ± 0.301
1.246AsnMet: 1.246 ± 0.148
2.723AsnAsn: 2.723 ± 0.23
2.365AsnPro: 2.365 ± 0.212
1.604AsnGln: 1.604 ± 0.152
2.153AsnArg: 2.153 ± 0.231
3.462AsnSer: 3.462 ± 0.337
3.42AsnThr: 3.42 ± 0.337
2.935AsnVal: 2.935 ± 0.254
0.823AsnTrp: 0.823 ± 0.115
1.985AsnTyr: 1.985 ± 0.213
0.0AsnXaa: 0.0 ± 0.0
Pro
1.71ProAla: 1.71 ± 0.194
0.443ProCys: 0.443 ± 0.097
2.386ProAsp: 2.386 ± 0.276
3.483ProGlu: 3.483 ± 0.24
1.583ProPhe: 1.583 ± 0.145
0.063ProGly: 0.063 ± 0.031
0.57ProHis: 0.57 ± 0.113
1.689ProIle: 1.689 ± 0.194
2.576ProLys: 2.576 ± 0.275
2.407ProLeu: 2.407 ± 0.285
0.528ProMet: 0.528 ± 0.099
2.048ProAsn: 2.048 ± 0.222
1.034ProPro: 1.034 ± 0.154
1.119ProGln: 1.119 ± 0.154
1.224ProArg: 1.224 ± 0.156
2.196ProSer: 2.196 ± 0.231
2.365ProThr: 2.365 ± 0.263
3.188ProVal: 3.188 ± 0.276
0.528ProTrp: 0.528 ± 0.1
1.604ProTyr: 1.604 ± 0.168
0.0ProXaa: 0.0 ± 0.0
Gln
2.175GlnAla: 2.175 ± 0.228
0.338GlnCys: 0.338 ± 0.087
1.942GlnAsp: 1.942 ± 0.229
3.441GlnGlu: 3.441 ± 0.283
1.309GlnPhe: 1.309 ± 0.165
2.343GlnGly: 2.343 ± 0.238
0.844GlnHis: 0.844 ± 0.116
1.9GlnIle: 1.9 ± 0.209
2.006GlnLys: 2.006 ± 0.203
3.103GlnLeu: 3.103 ± 0.259
0.781GlnMet: 0.781 ± 0.123
1.52GlnAsn: 1.52 ± 0.145
1.182GlnPro: 1.182 ± 0.142
1.604GlnGln: 1.604 ± 0.176
1.963GlnArg: 1.963 ± 0.2
1.647GlnSer: 1.647 ± 0.159
1.752GlnThr: 1.752 ± 0.189
2.723GlnVal: 2.723 ± 0.312
0.633GlnTrp: 0.633 ± 0.12
1.499GlnTyr: 1.499 ± 0.173
0.0GlnXaa: 0.0 ± 0.0
Arg
2.322ArgAla: 2.322 ± 0.217
0.612ArgCys: 0.612 ± 0.109
3.526ArgAsp: 3.526 ± 0.292
2.956ArgGlu: 2.956 ± 0.279
2.407ArgPhe: 2.407 ± 0.237
2.998ArgGly: 2.998 ± 0.221
0.866ArgHis: 0.866 ± 0.144
2.702ArgIle: 2.702 ± 0.26
3.399ArgLys: 3.399 ± 0.28
3.378ArgLeu: 3.378 ± 0.261
1.351ArgMet: 1.351 ± 0.161
2.407ArgAsn: 2.407 ± 0.242
1.52ArgPro: 1.52 ± 0.212
1.773ArgGln: 1.773 ± 0.227
1.858ArgArg: 1.858 ± 0.194
2.576ArgSer: 2.576 ± 0.241
2.259ArgThr: 2.259 ± 0.229
3.019ArgVal: 3.019 ± 0.326
0.676ArgTrp: 0.676 ± 0.108
1.689ArgTyr: 1.689 ± 0.188
0.0ArgXaa: 0.0 ± 0.0
Ser
3.842SerAla: 3.842 ± 0.323
0.697SerCys: 0.697 ± 0.121
4.032SerAsp: 4.032 ± 0.323
4.412SerGlu: 4.412 ± 0.327
2.66SerPhe: 2.66 ± 0.249
4.518SerGly: 4.518 ± 0.335
1.33SerHis: 1.33 ± 0.157
3.695SerIle: 3.695 ± 0.28
4.455SerLys: 4.455 ± 0.29
4.982SerLeu: 4.982 ± 0.351
1.626SerMet: 1.626 ± 0.187
3.04SerAsn: 3.04 ± 0.297
2.027SerPro: 2.027 ± 0.169
2.153SerGln: 2.153 ± 0.197
2.998SerArg: 2.998 ± 0.235
4.286SerSer: 4.286 ± 0.328
3.526SerThr: 3.526 ± 0.279
4.539SerVal: 4.539 ± 0.325
0.908SerTrp: 0.908 ± 0.148
3.462SerTyr: 3.462 ± 0.25
0.0SerXaa: 0.0 ± 0.0
Thr
3.441ThrAla: 3.441 ± 0.349
0.844ThrCys: 0.844 ± 0.137
3.906ThrAsp: 3.906 ± 0.33
4.159ThrGlu: 4.159 ± 0.318
3.061ThrPhe: 3.061 ± 0.268
4.602ThrGly: 4.602 ± 0.317
1.203ThrHis: 1.203 ± 0.174
3.631ThrIle: 3.631 ± 0.288
3.779ThrLys: 3.779 ± 0.297
5.489ThrLeu: 5.489 ± 0.317
1.33ThrMet: 1.33 ± 0.17
3.505ThrAsn: 3.505 ± 0.315
2.491ThrPro: 2.491 ± 0.23
2.238ThrGln: 2.238 ± 0.198
2.301ThrArg: 2.301 ± 0.257
3.842ThrSer: 3.842 ± 0.345
4.096ThrThr: 4.096 ± 0.453
4.265ThrVal: 4.265 ± 0.305
0.739ThrTrp: 0.739 ± 0.128
2.512ThrTyr: 2.512 ± 0.248
0.0ThrXaa: 0.0 ± 0.0
Val
4.201ValAla: 4.201 ± 0.367
0.992ValCys: 0.992 ± 0.148
4.877ValAsp: 4.877 ± 0.304
6.122ValGlu: 6.122 ± 0.378
2.956ValPhe: 2.956 ± 0.245
4.265ValGly: 4.265 ± 0.293
1.288ValHis: 1.288 ± 0.167
3.8ValIle: 3.8 ± 0.3
4.539ValLys: 4.539 ± 0.385
5.911ValLeu: 5.911 ± 0.367
1.942ValMet: 1.942 ± 0.204
3.505ValAsn: 3.505 ± 0.316
2.66ValPro: 2.66 ± 0.213
2.069ValGln: 2.069 ± 0.175
3.399ValArg: 3.399 ± 0.28
5.025ValSer: 5.025 ± 0.334
4.687ValThr: 4.687 ± 0.37
5.447ValVal: 5.447 ± 0.329
0.844ValTrp: 0.844 ± 0.11
2.597ValTyr: 2.597 ± 0.228
0.0ValXaa: 0.0 ± 0.0
Trp
0.57TrpAla: 0.57 ± 0.114
0.253TrpCys: 0.253 ± 0.068
1.288TrpAsp: 1.288 ± 0.158
1.562TrpGlu: 1.562 ± 0.188
0.654TrpPhe: 0.654 ± 0.125
0.823TrpGly: 0.823 ± 0.136
0.211TrpHis: 0.211 ± 0.058
0.823TrpIle: 0.823 ± 0.118
1.013TrpLys: 1.013 ± 0.147
1.119TrpLeu: 1.119 ± 0.157
0.401TrpMet: 0.401 ± 0.094
0.95TrpAsn: 0.95 ± 0.133
0.127TrpPro: 0.127 ± 0.047
0.401TrpGln: 0.401 ± 0.102
0.549TrpArg: 0.549 ± 0.102
0.654TrpSer: 0.654 ± 0.098
0.908TrpThr: 0.908 ± 0.161
1.056TrpVal: 1.056 ± 0.139
0.148TrpTrp: 0.148 ± 0.056
0.654TrpTyr: 0.654 ± 0.097
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.069TyrAla: 2.069 ± 0.221
0.929TyrCys: 0.929 ± 0.13
2.892TyrAsp: 2.892 ± 0.253
2.998TyrGlu: 2.998 ± 0.246
1.752TyrPhe: 1.752 ± 0.186
2.66TyrGly: 2.66 ± 0.25
1.034TyrHis: 1.034 ± 0.18
2.322TyrIle: 2.322 ± 0.242
3.019TyrLys: 3.019 ± 0.286
4.391TyrLeu: 4.391 ± 0.32
1.098TyrMet: 1.098 ± 0.152
2.217TyrAsn: 2.217 ± 0.218
1.267TyrPro: 1.267 ± 0.159
1.604TyrGln: 1.604 ± 0.19
2.365TyrArg: 2.365 ± 0.23
2.618TyrSer: 2.618 ± 0.261
2.533TyrThr: 2.533 ± 0.245
2.449TyrVal: 2.449 ± 0.223
0.296TyrTrp: 0.296 ± 0.085
1.816TyrTyr: 1.816 ± 0.256
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 261 proteins (47368 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