Amino acid dipepetide frequency for Mycobacterium phage Spud

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
10.356AlaAla: 10.356 ± 0.67
0.617AlaCys: 0.617 ± 0.123
7.06AlaAsp: 7.06 ± 0.476
6.295AlaGlu: 6.295 ± 0.468
2.616AlaPhe: 2.616 ± 0.243
7.953AlaGly: 7.953 ± 0.54
1.808AlaHis: 1.808 ± 0.197
4.317AlaIle: 4.317 ± 0.362
4.019AlaLys: 4.019 ± 0.324
8.591AlaLeu: 8.591 ± 0.624
2.531AlaMet: 2.531 ± 0.213
3.317AlaAsn: 3.317 ± 0.331
5.423AlaPro: 5.423 ± 0.438
4.615AlaGln: 4.615 ± 0.341
6.38AlaArg: 6.38 ± 0.411
5.572AlaSer: 5.572 ± 0.381
5.423AlaThr: 5.423 ± 0.435
6.358AlaVal: 6.358 ± 0.417
1.446AlaTrp: 1.446 ± 0.168
2.765AlaTyr: 2.765 ± 0.252
0.0AlaXaa: 0.0 ± 0.0
Cys
0.638CysAla: 0.638 ± 0.119
0.106CysCys: 0.106 ± 0.051
0.553CysAsp: 0.553 ± 0.114
0.51CysGlu: 0.51 ± 0.095
0.34CysPhe: 0.34 ± 0.086
1.021CysGly: 1.021 ± 0.189
0.276CysHis: 0.276 ± 0.089
0.425CysIle: 0.425 ± 0.096
0.149CysLys: 0.149 ± 0.066
0.723CysLeu: 0.723 ± 0.147
0.213CysMet: 0.213 ± 0.069
0.191CysAsn: 0.191 ± 0.065
0.595CysPro: 0.595 ± 0.141
0.404CysGln: 0.404 ± 0.096
0.532CysArg: 0.532 ± 0.116
0.681CysSer: 0.681 ± 0.135
0.383CysThr: 0.383 ± 0.096
0.383CysVal: 0.383 ± 0.097
0.234CysTrp: 0.234 ± 0.073
0.191CysTyr: 0.191 ± 0.07
0.0CysXaa: 0.0 ± 0.0
Asp
6.571AspAla: 6.571 ± 0.39
0.595AspCys: 0.595 ± 0.132
5.231AspAsp: 5.231 ± 0.391
5.593AspGlu: 5.593 ± 0.353
2.467AspPhe: 2.467 ± 0.231
5.401AspGly: 5.401 ± 0.309
1.808AspHis: 1.808 ± 0.226
2.807AspIle: 2.807 ± 0.244
2.424AspLys: 2.424 ± 0.21
5.912AspLeu: 5.912 ± 0.306
1.999AspMet: 1.999 ± 0.214
1.893AspAsn: 1.893 ± 0.178
5.401AspPro: 5.401 ± 0.44
2.722AspGln: 2.722 ± 0.227
4.785AspArg: 4.785 ± 0.405
3.296AspSer: 3.296 ± 0.342
3.636AspThr: 3.636 ± 0.287
4.189AspVal: 4.189 ± 0.345
1.574AspTrp: 1.574 ± 0.194
2.722AspTyr: 2.722 ± 0.239
0.0AspXaa: 0.0 ± 0.0
Glu
6.358GluAla: 6.358 ± 0.418
0.659GluCys: 0.659 ± 0.158
5.04GluAsp: 5.04 ± 0.455
4.466GluGlu: 4.466 ± 0.393
1.914GluPhe: 1.914 ± 0.195
3.934GluGly: 3.934 ± 0.255
1.85GluHis: 1.85 ± 0.188
3.19GluIle: 3.19 ± 0.259
2.382GluLys: 2.382 ± 0.221
5.614GluLeu: 5.614 ± 0.338
1.574GluMet: 1.574 ± 0.169
1.595GluAsn: 1.595 ± 0.166
3.275GluPro: 3.275 ± 0.273
2.998GluGln: 2.998 ± 0.33
4.742GluArg: 4.742 ± 0.331
3.147GluSer: 3.147 ± 0.247
3.743GluThr: 3.743 ± 0.278
4.827GluVal: 4.827 ± 0.365
1.404GluTrp: 1.404 ± 0.14
1.744GluTyr: 1.744 ± 0.207
0.0GluXaa: 0.0 ± 0.0
Phe
2.85PheAla: 2.85 ± 0.225
0.298PheCys: 0.298 ± 0.092
2.679PheAsp: 2.679 ± 0.24
1.999PheGlu: 1.999 ± 0.2
0.702PhePhe: 0.702 ± 0.139
2.509PheGly: 2.509 ± 0.254
0.702PheHis: 0.702 ± 0.142
1.34PheIle: 1.34 ± 0.183
1.233PheLys: 1.233 ± 0.185
2.403PheLeu: 2.403 ± 0.21
0.638PheMet: 0.638 ± 0.123
0.914PheAsn: 0.914 ± 0.143
1.531PhePro: 1.531 ± 0.24
1.382PheGln: 1.382 ± 0.202
2.105PheArg: 2.105 ± 0.175
1.574PheSer: 1.574 ± 0.177
2.297PheThr: 2.297 ± 0.277
2.275PheVal: 2.275 ± 0.204
0.51PheTrp: 0.51 ± 0.11
1.106PheTyr: 1.106 ± 0.187
0.0PheXaa: 0.0 ± 0.0
Gly
6.486GlyAla: 6.486 ± 0.502
0.468GlyCys: 0.468 ± 0.101
5.168GlyAsp: 5.168 ± 0.399
4.636GlyGlu: 4.636 ± 0.252
2.531GlyPhe: 2.531 ± 0.264
8.57GlyGly: 8.57 ± 1.043
2.042GlyHis: 2.042 ± 0.211
3.636GlyIle: 3.636 ± 0.336
3.785GlyLys: 3.785 ± 0.31
6.316GlyLeu: 6.316 ± 0.377
1.935GlyMet: 1.935 ± 0.236
2.594GlyAsn: 2.594 ± 0.275
4.04GlyPro: 4.04 ± 0.446
3.679GlyGln: 3.679 ± 0.275
4.764GlyArg: 4.764 ± 0.335
4.785GlySer: 4.785 ± 0.339
5.231GlyThr: 5.231 ± 0.407
5.295GlyVal: 5.295 ± 0.368
1.914GlyTrp: 1.914 ± 0.188
2.573GlyTyr: 2.573 ± 0.234
0.0GlyXaa: 0.0 ± 0.0
His
2.042HisAla: 2.042 ± 0.213
0.191HisCys: 0.191 ± 0.069
1.637HisAsp: 1.637 ± 0.189
1.616HisGlu: 1.616 ± 0.216
0.851HisPhe: 0.851 ± 0.119
2.169HisGly: 2.169 ± 0.252
0.978HisHis: 0.978 ± 0.167
0.936HisIle: 0.936 ± 0.147
0.744HisLys: 0.744 ± 0.139
2.084HisLeu: 2.084 ± 0.286
0.425HisMet: 0.425 ± 0.097
0.595HisAsn: 0.595 ± 0.115
1.978HisPro: 1.978 ± 0.227
0.999HisGln: 0.999 ± 0.153
1.893HisArg: 1.893 ± 0.252
1.148HisSer: 1.148 ± 0.168
1.361HisThr: 1.361 ± 0.185
1.829HisVal: 1.829 ± 0.191
0.319HisTrp: 0.319 ± 0.084
0.851HisTyr: 0.851 ± 0.127
0.0HisXaa: 0.0 ± 0.0
Ile
4.785IleAla: 4.785 ± 0.313
0.468IleCys: 0.468 ± 0.103
2.956IleAsp: 2.956 ± 0.248
2.913IleGlu: 2.913 ± 0.285
1.106IlePhe: 1.106 ± 0.153
3.211IleGly: 3.211 ± 0.267
0.872IleHis: 0.872 ± 0.163
1.382IleIle: 1.382 ± 0.172
1.446IleLys: 1.446 ± 0.187
2.701IleLeu: 2.701 ± 0.243
0.893IleMet: 0.893 ± 0.142
1.829IleAsn: 1.829 ± 0.179
2.488IlePro: 2.488 ± 0.259
1.744IleGln: 1.744 ± 0.218
3.381IleArg: 3.381 ± 0.313
2.169IleSer: 2.169 ± 0.205
3.147IleThr: 3.147 ± 0.279
3.254IleVal: 3.254 ± 0.326
0.766IleTrp: 0.766 ± 0.117
1.276IleTyr: 1.276 ± 0.193
0.0IleXaa: 0.0 ± 0.0
Lys
4.296LysAla: 4.296 ± 0.364
0.298LysCys: 0.298 ± 0.078
2.063LysAsp: 2.063 ± 0.206
2.169LysGlu: 2.169 ± 0.216
1.382LysPhe: 1.382 ± 0.164
2.722LysGly: 2.722 ± 0.242
0.851LysHis: 0.851 ± 0.146
1.808LysIle: 1.808 ± 0.193
1.765LysLys: 1.765 ± 0.246
3.084LysLeu: 3.084 ± 0.235
1.148LysMet: 1.148 ± 0.184
1.467LysAsn: 1.467 ± 0.181
1.935LysPro: 1.935 ± 0.233
1.148LysGln: 1.148 ± 0.142
2.871LysArg: 2.871 ± 0.257
1.701LysSer: 1.701 ± 0.202
2.169LysThr: 2.169 ± 0.183
3.232LysVal: 3.232 ± 0.288
0.553LysTrp: 0.553 ± 0.121
1.127LysTyr: 1.127 ± 0.144
0.0LysXaa: 0.0 ± 0.0
Leu
8.315LeuAla: 8.315 ± 0.437
0.723LeuCys: 0.723 ± 0.13
6.486LeuAsp: 6.486 ± 0.422
4.317LeuGlu: 4.317 ± 0.327
1.914LeuPhe: 1.914 ± 0.243
5.338LeuGly: 5.338 ± 0.373
1.467LeuHis: 1.467 ± 0.165
3.19LeuIle: 3.19 ± 0.257
3.105LeuLys: 3.105 ± 0.249
5.338LeuLeu: 5.338 ± 0.449
2.19LeuMet: 2.19 ± 0.221
3.381LeuAsn: 3.381 ± 0.313
3.913LeuPro: 3.913 ± 0.303
2.807LeuGln: 2.807 ± 0.228
5.614LeuArg: 5.614 ± 0.406
4.189LeuSer: 4.189 ± 0.326
4.678LeuThr: 4.678 ± 0.456
5.699LeuVal: 5.699 ± 0.383
1.148LeuTrp: 1.148 ± 0.163
2.36LeuTyr: 2.36 ± 0.225
0.0LeuXaa: 0.0 ± 0.0
Met
2.722MetAla: 2.722 ± 0.234
0.149MetCys: 0.149 ± 0.054
1.637MetAsp: 1.637 ± 0.198
1.276MetGlu: 1.276 ± 0.187
0.681MetPhe: 0.681 ± 0.106
1.956MetGly: 1.956 ± 0.26
0.468MetHis: 0.468 ± 0.096
0.936MetIle: 0.936 ± 0.125
1.063MetLys: 1.063 ± 0.135
1.595MetLeu: 1.595 ± 0.213
0.723MetMet: 0.723 ± 0.132
0.872MetAsn: 0.872 ± 0.124
1.51MetPro: 1.51 ± 0.2
0.999MetGln: 0.999 ± 0.146
1.871MetArg: 1.871 ± 0.193
2.127MetSer: 2.127 ± 0.195
2.254MetThr: 2.254 ± 0.216
1.425MetVal: 1.425 ± 0.163
0.404MetTrp: 0.404 ± 0.092
0.447MetTyr: 0.447 ± 0.101
0.0MetXaa: 0.0 ± 0.0
Asn
3.147AsnAla: 3.147 ± 0.264
0.234AsnCys: 0.234 ± 0.083
1.956AsnAsp: 1.956 ± 0.216
1.723AsnGlu: 1.723 ± 0.195
1.17AsnPhe: 1.17 ± 0.158
3.169AsnGly: 3.169 ± 0.261
0.851AsnHis: 0.851 ± 0.154
1.34AsnIle: 1.34 ± 0.171
1.467AsnLys: 1.467 ± 0.177
2.105AsnLeu: 2.105 ± 0.188
0.893AsnMet: 0.893 ± 0.144
1.446AsnAsn: 1.446 ± 0.19
2.913AsnPro: 2.913 ± 0.287
1.382AsnGln: 1.382 ± 0.161
2.85AsnArg: 2.85 ± 0.225
1.723AsnSer: 1.723 ± 0.21
2.127AsnThr: 2.127 ± 0.212
2.042AsnVal: 2.042 ± 0.19
0.723AsnTrp: 0.723 ± 0.112
0.808AsnTyr: 0.808 ± 0.126
0.0AsnXaa: 0.0 ± 0.0
Pro
5.04ProAla: 5.04 ± 0.407
0.319ProCys: 0.319 ± 0.087
5.231ProAsp: 5.231 ± 0.381
4.593ProGlu: 4.593 ± 0.413
1.531ProPhe: 1.531 ± 0.184
5.678ProGly: 5.678 ± 0.462
1.425ProHis: 1.425 ± 0.195
1.999ProIle: 1.999 ± 0.195
1.786ProLys: 1.786 ± 0.215
3.169ProLeu: 3.169 ± 0.229
1.297ProMet: 1.297 ± 0.163
2.297ProAsn: 2.297 ± 0.251
3.147ProPro: 3.147 ± 0.402
2.212ProGln: 2.212 ± 0.231
2.85ProArg: 2.85 ± 0.257
2.913ProSer: 2.913 ± 0.303
3.849ProThr: 3.849 ± 0.36
4.636ProVal: 4.636 ± 0.309
1.212ProTrp: 1.212 ± 0.167
1.68ProTyr: 1.68 ± 0.194
0.0ProXaa: 0.0 ± 0.0
Gln
4.721GlnAla: 4.721 ± 0.37
0.234GlnCys: 0.234 ± 0.072
2.424GlnAsp: 2.424 ± 0.26
2.509GlnGlu: 2.509 ± 0.261
1.786GlnPhe: 1.786 ± 0.168
2.488GlnGly: 2.488 ± 0.279
1.255GlnHis: 1.255 ± 0.167
2.254GlnIle: 2.254 ± 0.187
0.893GlnLys: 0.893 ± 0.167
3.509GlnLeu: 3.509 ± 0.308
1.276GlnMet: 1.276 ± 0.165
1.446GlnAsn: 1.446 ± 0.173
1.893GlnPro: 1.893 ± 0.179
1.893GlnGln: 1.893 ± 0.225
3.573GlnArg: 3.573 ± 0.276
2.105GlnSer: 2.105 ± 0.202
2.488GlnThr: 2.488 ± 0.199
3.041GlnVal: 3.041 ± 0.258
0.659GlnTrp: 0.659 ± 0.115
1.191GlnTyr: 1.191 ± 0.168
0.0GlnXaa: 0.0 ± 0.0
Arg
6.039ArgAla: 6.039 ± 0.359
0.702ArgCys: 0.702 ± 0.121
4.317ArgAsp: 4.317 ± 0.338
5.274ArgGlu: 5.274 ± 0.384
2.403ArgPhe: 2.403 ± 0.23
4.232ArgGly: 4.232 ± 0.357
1.85ArgHis: 1.85 ± 0.227
2.956ArgIle: 2.956 ± 0.295
3.573ArgLys: 3.573 ± 0.36
4.997ArgLeu: 4.997 ± 0.329
1.871ArgMet: 1.871 ± 0.2
2.254ArgAsn: 2.254 ± 0.195
2.998ArgPro: 2.998 ± 0.282
3.403ArgGln: 3.403 ± 0.283
5.104ArgArg: 5.104 ± 0.462
3.679ArgSer: 3.679 ± 0.282
3.998ArgThr: 3.998 ± 0.308
5.189ArgVal: 5.189 ± 0.298
1.318ArgTrp: 1.318 ± 0.182
2.297ArgTyr: 2.297 ± 0.275
0.0ArgXaa: 0.0 ± 0.0
Ser
4.742SerAla: 4.742 ± 0.376
0.553SerCys: 0.553 ± 0.12
3.785SerAsp: 3.785 ± 0.376
2.935SerGlu: 2.935 ± 0.255
1.744SerPhe: 1.744 ± 0.218
5.338SerGly: 5.338 ± 0.36
0.872SerHis: 0.872 ± 0.139
2.212SerIle: 2.212 ± 0.214
2.063SerLys: 2.063 ± 0.207
4.338SerLeu: 4.338 ± 0.331
1.574SerMet: 1.574 ± 0.212
1.659SerAsn: 1.659 ± 0.182
2.828SerPro: 2.828 ± 0.221
2.105SerGln: 2.105 ± 0.185
3.424SerArg: 3.424 ± 0.266
3.445SerSer: 3.445 ± 0.298
3.955SerThr: 3.955 ± 0.267
3.743SerVal: 3.743 ± 0.318
1.148SerTrp: 1.148 ± 0.19
1.765SerTyr: 1.765 ± 0.207
0.0SerXaa: 0.0 ± 0.0
Thr
6.018ThrAla: 6.018 ± 0.401
0.702ThrCys: 0.702 ± 0.162
4.147ThrAsp: 4.147 ± 0.316
3.87ThrGlu: 3.87 ± 0.31
2.36ThrPhe: 2.36 ± 0.271
5.72ThrGly: 5.72 ± 0.372
1.935ThrHis: 1.935 ± 0.201
3.041ThrIle: 3.041 ± 0.268
2.233ThrLys: 2.233 ± 0.204
4.508ThrLeu: 4.508 ± 0.336
1.446ThrMet: 1.446 ± 0.181
2.36ThrAsn: 2.36 ± 0.282
4.317ThrPro: 4.317 ± 0.397
2.19ThrGln: 2.19 ± 0.239
3.169ThrArg: 3.169 ± 0.222
3.722ThrSer: 3.722 ± 0.31
4.423ThrThr: 4.423 ± 0.385
4.785ThrVal: 4.785 ± 0.377
1.34ThrTrp: 1.34 ± 0.176
2.02ThrTyr: 2.02 ± 0.188
0.0ThrXaa: 0.0 ± 0.0
Val
7.634ValAla: 7.634 ± 0.425
0.702ValCys: 0.702 ± 0.122
4.976ValAsp: 4.976 ± 0.306
4.891ValGlu: 4.891 ± 0.374
1.999ValPhe: 1.999 ± 0.25
5.38ValGly: 5.38 ± 0.368
1.871ValHis: 1.871 ± 0.206
3.254ValIle: 3.254 ± 0.267
2.19ValLys: 2.19 ± 0.249
5.338ValLeu: 5.338 ± 0.38
1.616ValMet: 1.616 ± 0.151
2.148ValAsn: 2.148 ± 0.217
4.317ValPro: 4.317 ± 0.31
2.786ValGln: 2.786 ± 0.307
4.296ValArg: 4.296 ± 0.371
3.7ValSer: 3.7 ± 0.251
5.338ValThr: 5.338 ± 0.316
5.997ValVal: 5.997 ± 0.453
1.148ValTrp: 1.148 ± 0.146
1.999ValTyr: 1.999 ± 0.242
0.0ValXaa: 0.0 ± 0.0
Trp
1.595TrpAla: 1.595 ± 0.189
0.213TrpCys: 0.213 ± 0.065
1.361TrpAsp: 1.361 ± 0.151
1.233TrpGlu: 1.233 ± 0.196
0.51TrpPhe: 0.51 ± 0.145
1.637TrpGly: 1.637 ± 0.215
0.468TrpHis: 0.468 ± 0.092
0.659TrpIle: 0.659 ± 0.104
0.702TrpLys: 0.702 ± 0.116
1.255TrpLeu: 1.255 ± 0.182
0.404TrpMet: 0.404 ± 0.097
0.638TrpAsn: 0.638 ± 0.136
0.914TrpPro: 0.914 ± 0.139
0.872TrpGln: 0.872 ± 0.122
1.616TrpArg: 1.616 ± 0.21
1.106TrpSer: 1.106 ± 0.143
1.531TrpThr: 1.531 ± 0.21
1.148TrpVal: 1.148 ± 0.15
0.532TrpTrp: 0.532 ± 0.117
0.51TrpTyr: 0.51 ± 0.087
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.126TyrAla: 3.126 ± 0.228
0.319TyrCys: 0.319 ± 0.084
2.318TyrAsp: 2.318 ± 0.246
1.637TyrGlu: 1.637 ± 0.22
1.042TyrPhe: 1.042 ± 0.174
2.02TyrGly: 2.02 ± 0.241
0.999TyrHis: 0.999 ± 0.136
1.106TyrIle: 1.106 ± 0.135
0.766TyrLys: 0.766 ± 0.146
2.594TyrLeu: 2.594 ± 0.265
0.447TyrMet: 0.447 ± 0.088
1.17TyrAsn: 1.17 ± 0.171
1.446TyrPro: 1.446 ± 0.167
1.297TyrGln: 1.297 ± 0.177
2.637TyrArg: 2.637 ± 0.232
1.446TyrSer: 1.446 ± 0.154
2.275TyrThr: 2.275 ± 0.254
2.233TyrVal: 2.233 ± 0.238
0.553TyrTrp: 0.553 ± 0.112
1.021TyrTyr: 1.021 ± 0.174
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 222 proteins (47025 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