Amino acid dipepetide frequency for Mycobacterium phage Ruby

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
13.032AlaAla: 13.032 ± 1.878
0.916AlaCys: 0.916 ± 0.232
6.624AlaAsp: 6.624 ± 0.661
7.378AlaGlu: 7.378 ± 0.668
2.747AlaPhe: 2.747 ± 0.326
9.478AlaGly: 9.478 ± 1.375
2.208AlaHis: 2.208 ± 0.384
3.716AlaIle: 3.716 ± 0.482
4.254AlaLys: 4.254 ± 0.466
8.509AlaLeu: 8.509 ± 0.777
2.154AlaMet: 2.154 ± 0.409
3.016AlaAsn: 3.016 ± 0.553
4.847AlaPro: 4.847 ± 0.582
3.285AlaGln: 3.285 ± 0.38
7.162AlaArg: 7.162 ± 0.714
5.224AlaSer: 5.224 ± 0.553
6.57AlaThr: 6.57 ± 0.439
6.409AlaVal: 6.409 ± 0.602
2.37AlaTrp: 2.37 ± 0.384
2.37AlaTyr: 2.37 ± 0.384
0.0AlaXaa: 0.0 ± 0.0
Cys
1.077CysAla: 1.077 ± 0.236
0.054CysCys: 0.054 ± 0.057
1.346CysAsp: 1.346 ± 0.301
0.862CysGlu: 0.862 ± 0.222
0.215CysPhe: 0.215 ± 0.111
1.669CysGly: 1.669 ± 0.366
0.377CysHis: 0.377 ± 0.147
0.108CysIle: 0.108 ± 0.084
0.7CysLys: 0.7 ± 0.205
0.862CysLeu: 0.862 ± 0.216
0.269CysMet: 0.269 ± 0.142
0.269CysAsn: 0.269 ± 0.129
1.562CysPro: 1.562 ± 0.346
0.377CysGln: 0.377 ± 0.135
0.7CysArg: 0.7 ± 0.23
0.592CysSer: 0.592 ± 0.203
0.916CysThr: 0.916 ± 0.254
0.754CysVal: 0.754 ± 0.191
0.269CysTrp: 0.269 ± 0.116
0.108CysTyr: 0.108 ± 0.081
0.0CysXaa: 0.0 ± 0.0
Asp
7.055AspAla: 7.055 ± 0.641
0.916AspCys: 0.916 ± 0.212
4.685AspAsp: 4.685 ± 0.531
3.77AspGlu: 3.77 ± 0.475
1.723AspPhe: 1.723 ± 0.248
6.247AspGly: 6.247 ± 0.568
1.131AspHis: 1.131 ± 0.227
2.1AspIle: 2.1 ± 0.288
1.669AspLys: 1.669 ± 0.266
5.708AspLeu: 5.708 ± 0.555
1.185AspMet: 1.185 ± 0.245
2.262AspAsn: 2.262 ± 0.347
4.847AspPro: 4.847 ± 0.615
2.154AspGln: 2.154 ± 0.373
5.278AspArg: 5.278 ± 0.651
3.123AspSer: 3.123 ± 0.431
3.662AspThr: 3.662 ± 0.415
4.739AspVal: 4.739 ± 0.555
1.4AspTrp: 1.4 ± 0.249
1.885AspTyr: 1.885 ± 0.276
0.0AspXaa: 0.0 ± 0.0
Glu
6.301GluAla: 6.301 ± 0.63
0.916GluCys: 0.916 ± 0.247
3.231GluAsp: 3.231 ± 0.335
2.693GluGlu: 2.693 ± 0.514
2.262GluPhe: 2.262 ± 0.305
3.877GluGly: 3.877 ± 0.45
1.669GluHis: 1.669 ± 0.335
2.208GluIle: 2.208 ± 0.303
2.046GluLys: 2.046 ± 0.349
5.762GluLeu: 5.762 ± 0.618
1.346GluMet: 1.346 ± 0.308
2.208GluAsn: 2.208 ± 0.323
2.962GluPro: 2.962 ± 0.434
3.123GluGln: 3.123 ± 0.438
5.493GluArg: 5.493 ± 0.648
3.07GluSer: 3.07 ± 0.507
3.608GluThr: 3.608 ± 0.572
3.931GluVal: 3.931 ± 0.458
1.508GluTrp: 1.508 ± 0.329
1.777GluTyr: 1.777 ± 0.324
0.0GluXaa: 0.0 ± 0.0
Phe
3.177PheAla: 3.177 ± 0.448
0.485PheCys: 0.485 ± 0.167
2.747PheAsp: 2.747 ± 0.55
1.454PheGlu: 1.454 ± 0.262
0.862PhePhe: 0.862 ± 0.274
2.747PheGly: 2.747 ± 0.674
0.646PheHis: 0.646 ± 0.229
1.454PheIle: 1.454 ± 0.334
1.239PheLys: 1.239 ± 0.262
1.831PheLeu: 1.831 ± 0.274
0.592PheMet: 0.592 ± 0.179
1.292PheAsn: 1.292 ± 0.331
1.723PhePro: 1.723 ± 0.347
1.4PheGln: 1.4 ± 0.314
1.831PheArg: 1.831 ± 0.304
1.454PheSer: 1.454 ± 0.289
2.585PheThr: 2.585 ± 0.356
2.1PheVal: 2.1 ± 0.248
0.808PheTrp: 0.808 ± 0.217
0.808PheTyr: 0.808 ± 0.253
0.0PheXaa: 0.0 ± 0.0
Gly
8.617GlyAla: 8.617 ± 1.304
1.185GlyCys: 1.185 ± 0.282
5.87GlyAsp: 5.87 ± 0.65
5.062GlyGlu: 5.062 ± 0.595
2.747GlyPhe: 2.747 ± 0.453
10.394GlyGly: 10.394 ± 2.09
1.993GlyHis: 1.993 ± 0.304
3.931GlyIle: 3.931 ± 0.634
2.8GlyLys: 2.8 ± 0.41
5.87GlyLeu: 5.87 ± 0.544
2.262GlyMet: 2.262 ± 0.431
3.123GlyAsn: 3.123 ± 0.301
4.416GlyPro: 4.416 ± 0.606
2.477GlyGln: 2.477 ± 0.538
5.601GlyArg: 5.601 ± 0.644
5.547GlySer: 5.547 ± 0.751
6.085GlyThr: 6.085 ± 0.795
5.762GlyVal: 5.762 ± 0.619
2.477GlyTrp: 2.477 ± 0.336
2.046GlyTyr: 2.046 ± 0.394
0.0GlyXaa: 0.0 ± 0.0
His
1.723HisAla: 1.723 ± 0.323
0.323HisCys: 0.323 ± 0.166
1.185HisAsp: 1.185 ± 0.209
1.346HisGlu: 1.346 ± 0.261
0.431HisPhe: 0.431 ± 0.128
1.831HisGly: 1.831 ± 0.314
0.862HisHis: 0.862 ± 0.305
1.4HisIle: 1.4 ± 0.343
1.131HisLys: 1.131 ± 0.252
1.562HisLeu: 1.562 ± 0.321
0.539HisMet: 0.539 ± 0.151
0.808HisAsn: 0.808 ± 0.196
1.562HisPro: 1.562 ± 0.349
0.754HisGln: 0.754 ± 0.214
2.046HisArg: 2.046 ± 0.376
0.969HisSer: 0.969 ± 0.204
1.562HisThr: 1.562 ± 0.379
1.4HisVal: 1.4 ± 0.391
0.539HisTrp: 0.539 ± 0.178
1.131HisTyr: 1.131 ± 0.212
0.0HisXaa: 0.0 ± 0.0
Ile
4.954IleAla: 4.954 ± 0.598
0.539IleCys: 0.539 ± 0.163
3.177IleAsp: 3.177 ± 0.45
3.339IleGlu: 3.339 ± 0.391
0.862IlePhe: 0.862 ± 0.235
4.308IleGly: 4.308 ± 0.569
1.508IleHis: 1.508 ± 0.295
1.4IleIle: 1.4 ± 0.315
0.754IleLys: 0.754 ± 0.193
2.154IleLeu: 2.154 ± 0.35
0.592IleMet: 0.592 ± 0.191
1.993IleAsn: 1.993 ± 0.324
2.37IlePro: 2.37 ± 0.371
1.4IleGln: 1.4 ± 0.254
2.531IleArg: 2.531 ± 0.416
2.1IleSer: 2.1 ± 0.423
3.339IleThr: 3.339 ± 0.374
3.339IleVal: 3.339 ± 0.398
0.916IleTrp: 0.916 ± 0.225
0.754IleTyr: 0.754 ± 0.183
0.0IleXaa: 0.0 ± 0.0
Lys
3.716LysAla: 3.716 ± 0.467
0.431LysCys: 0.431 ± 0.142
2.154LysAsp: 2.154 ± 0.388
1.454LysGlu: 1.454 ± 0.299
1.292LysPhe: 1.292 ± 0.206
2.423LysGly: 2.423 ± 0.329
1.077LysHis: 1.077 ± 0.221
0.969LysIle: 0.969 ± 0.229
1.723LysLys: 1.723 ± 0.359
2.37LysLeu: 2.37 ± 0.396
0.646LysMet: 0.646 ± 0.145
1.023LysAsn: 1.023 ± 0.23
2.639LysPro: 2.639 ± 0.319
1.562LysGln: 1.562 ± 0.265
2.908LysArg: 2.908 ± 0.488
1.831LysSer: 1.831 ± 0.273
2.262LysThr: 2.262 ± 0.348
2.693LysVal: 2.693 ± 0.415
0.916LysTrp: 0.916 ± 0.254
0.808LysTyr: 0.808 ± 0.2
0.0LysXaa: 0.0 ± 0.0
Leu
7.863LeuAla: 7.863 ± 0.87
0.754LeuCys: 0.754 ± 0.26
4.685LeuAsp: 4.685 ± 0.561
4.362LeuGlu: 4.362 ± 0.483
2.639LeuPhe: 2.639 ± 0.364
4.954LeuGly: 4.954 ± 0.645
1.185LeuHis: 1.185 ± 0.224
3.123LeuIle: 3.123 ± 0.418
2.262LeuLys: 2.262 ± 0.291
4.739LeuLeu: 4.739 ± 0.528
1.993LeuMet: 1.993 ± 0.31
2.747LeuAsn: 2.747 ± 0.292
5.655LeuPro: 5.655 ± 0.584
2.693LeuGln: 2.693 ± 0.428
5.062LeuArg: 5.062 ± 0.535
5.17LeuSer: 5.17 ± 0.484
5.655LeuThr: 5.655 ± 0.466
5.17LeuVal: 5.17 ± 0.581
0.969LeuTrp: 0.969 ± 0.23
1.831LeuTyr: 1.831 ± 0.32
0.0LeuXaa: 0.0 ± 0.0
Met
1.885MetAla: 1.885 ± 0.367
0.215MetCys: 0.215 ± 0.17
1.292MetAsp: 1.292 ± 0.258
0.916MetGlu: 0.916 ± 0.188
1.077MetPhe: 1.077 ± 0.275
1.723MetGly: 1.723 ± 0.289
0.215MetHis: 0.215 ± 0.116
0.754MetIle: 0.754 ± 0.222
0.7MetLys: 0.7 ± 0.23
1.669MetLeu: 1.669 ± 0.257
0.377MetMet: 0.377 ± 0.201
0.862MetAsn: 0.862 ± 0.233
1.4MetPro: 1.4 ± 0.276
0.431MetGln: 0.431 ± 0.146
1.562MetArg: 1.562 ± 0.277
2.747MetSer: 2.747 ± 0.319
1.885MetThr: 1.885 ± 0.28
1.616MetVal: 1.616 ± 0.347
0.269MetTrp: 0.269 ± 0.115
0.377MetTyr: 0.377 ± 0.144
0.0MetXaa: 0.0 ± 0.0
Asn
3.877AsnAla: 3.877 ± 0.466
0.162AsnCys: 0.162 ± 0.084
2.208AsnAsp: 2.208 ± 0.299
1.939AsnGlu: 1.939 ± 0.354
0.969AsnPhe: 0.969 ± 0.276
4.201AsnGly: 4.201 ± 0.474
0.969AsnHis: 0.969 ± 0.254
1.616AsnIle: 1.616 ± 0.455
1.077AsnLys: 1.077 ± 0.237
2.477AsnLeu: 2.477 ± 0.411
0.7AsnMet: 0.7 ± 0.159
1.831AsnAsn: 1.831 ± 0.405
2.693AsnPro: 2.693 ± 0.441
1.185AsnGln: 1.185 ± 0.363
2.262AsnArg: 2.262 ± 0.422
1.346AsnSer: 1.346 ± 0.245
2.585AsnThr: 2.585 ± 0.334
1.723AsnVal: 1.723 ± 0.28
0.7AsnTrp: 0.7 ± 0.163
0.808AsnTyr: 0.808 ± 0.189
0.0AsnXaa: 0.0 ± 0.0
Pro
4.901ProAla: 4.901 ± 0.499
0.808ProCys: 0.808 ± 0.26
3.985ProAsp: 3.985 ± 0.412
4.631ProGlu: 4.631 ± 0.463
2.154ProPhe: 2.154 ± 0.373
6.032ProGly: 6.032 ± 0.633
1.562ProHis: 1.562 ± 0.291
2.1ProIle: 2.1 ± 0.368
2.423ProLys: 2.423 ± 0.38
4.524ProLeu: 4.524 ± 0.46
1.185ProMet: 1.185 ± 0.264
2.477ProAsn: 2.477 ± 0.373
4.416ProPro: 4.416 ± 0.619
2.208ProGln: 2.208 ± 0.307
3.554ProArg: 3.554 ± 0.588
3.07ProSer: 3.07 ± 0.439
3.231ProThr: 3.231 ± 0.415
5.116ProVal: 5.116 ± 0.549
1.185ProTrp: 1.185 ± 0.239
1.669ProTyr: 1.669 ± 0.279
0.0ProXaa: 0.0 ± 0.0
Gln
4.308GlnAla: 4.308 ± 0.531
0.539GlnCys: 0.539 ± 0.202
1.239GlnAsp: 1.239 ± 0.244
1.508GlnGlu: 1.508 ± 0.25
1.239GlnPhe: 1.239 ± 0.227
2.316GlnGly: 2.316 ± 0.447
1.077GlnHis: 1.077 ± 0.263
1.777GlnIle: 1.777 ± 0.305
1.4GlnLys: 1.4 ± 0.247
2.8GlnLeu: 2.8 ± 0.368
0.646GlnMet: 0.646 ± 0.188
0.969GlnAsn: 0.969 ± 0.249
2.639GlnPro: 2.639 ± 0.492
1.185GlnGln: 1.185 ± 0.233
2.693GlnArg: 2.693 ± 0.43
2.316GlnSer: 2.316 ± 0.362
1.993GlnThr: 1.993 ± 0.379
2.316GlnVal: 2.316 ± 0.308
0.808GlnTrp: 0.808 ± 0.186
0.969GlnTyr: 0.969 ± 0.254
0.0GlnXaa: 0.0 ± 0.0
Arg
7.162ArgAla: 7.162 ± 0.63
1.077ArgCys: 1.077 ± 0.288
4.524ArgAsp: 4.524 ± 0.569
4.954ArgGlu: 4.954 ± 0.636
2.316ArgPhe: 2.316 ± 0.37
4.362ArgGly: 4.362 ± 0.422
1.508ArgHis: 1.508 ± 0.315
4.254ArgIle: 4.254 ± 0.567
2.531ArgLys: 2.531 ± 0.427
5.601ArgLeu: 5.601 ± 0.644
2.37ArgMet: 2.37 ± 0.383
2.585ArgAsn: 2.585 ± 0.415
3.285ArgPro: 3.285 ± 0.444
2.1ArgGln: 2.1 ± 0.392
5.601ArgArg: 5.601 ± 0.814
3.5ArgSer: 3.5 ± 0.445
3.285ArgThr: 3.285 ± 0.502
5.601ArgVal: 5.601 ± 0.616
2.046ArgTrp: 2.046 ± 0.395
2.046ArgTyr: 2.046 ± 0.314
0.0ArgXaa: 0.0 ± 0.0
Ser
4.578SerAla: 4.578 ± 0.683
0.646SerCys: 0.646 ± 0.219
4.254SerAsp: 4.254 ± 0.611
3.123SerGlu: 3.123 ± 0.415
1.939SerPhe: 1.939 ± 0.434
6.516SerGly: 6.516 ± 0.889
1.292SerHis: 1.292 ± 0.269
2.747SerIle: 2.747 ± 0.481
2.1SerLys: 2.1 ± 0.399
3.931SerLeu: 3.931 ± 0.442
1.292SerMet: 1.292 ± 0.231
2.1SerAsn: 2.1 ± 0.45
3.393SerPro: 3.393 ± 0.473
1.723SerGln: 1.723 ± 0.276
3.231SerArg: 3.231 ± 0.394
3.77SerSer: 3.77 ± 0.626
3.285SerThr: 3.285 ± 0.44
4.039SerVal: 4.039 ± 0.541
1.562SerTrp: 1.562 ± 0.308
1.185SerTyr: 1.185 ± 0.246
0.0SerXaa: 0.0 ± 0.0
Thr
6.786ThrAla: 6.786 ± 0.613
1.023ThrCys: 1.023 ± 0.258
4.147ThrAsp: 4.147 ± 0.595
4.039ThrGlu: 4.039 ± 0.395
1.993ThrPhe: 1.993 ± 0.332
6.032ThrGly: 6.032 ± 0.608
1.508ThrHis: 1.508 ± 0.281
3.716ThrIle: 3.716 ± 0.484
1.939ThrLys: 1.939 ± 0.322
4.308ThrLeu: 4.308 ± 0.529
1.292ThrMet: 1.292 ± 0.279
2.046ThrAsn: 2.046 ± 0.374
4.524ThrPro: 4.524 ± 0.481
1.723ThrGln: 1.723 ± 0.29
4.201ThrArg: 4.201 ± 0.488
3.824ThrSer: 3.824 ± 0.488
4.578ThrThr: 4.578 ± 0.662
5.331ThrVal: 5.331 ± 0.563
1.077ThrTrp: 1.077 ± 0.271
1.885ThrTyr: 1.885 ± 0.304
0.0ThrXaa: 0.0 ± 0.0
Val
6.462ValAla: 6.462 ± 0.575
1.346ValCys: 1.346 ± 0.283
5.493ValAsp: 5.493 ± 0.528
4.039ValGlu: 4.039 ± 0.553
2.316ValPhe: 2.316 ± 0.359
6.085ValGly: 6.085 ± 0.71
1.346ValHis: 1.346 ± 0.262
2.908ValIle: 2.908 ± 0.402
2.585ValLys: 2.585 ± 0.348
5.008ValLeu: 5.008 ± 0.48
1.4ValMet: 1.4 ± 0.261
2.37ValAsn: 2.37 ± 0.336
4.039ValPro: 4.039 ± 0.36
3.016ValGln: 3.016 ± 0.387
4.739ValArg: 4.739 ± 0.641
4.631ValSer: 4.631 ± 0.546
5.655ValThr: 5.655 ± 0.55
5.116ValVal: 5.116 ± 0.656
1.4ValTrp: 1.4 ± 0.291
1.4ValTyr: 1.4 ± 0.288
0.0ValXaa: 0.0 ± 0.0
Trp
2.1TrpAla: 2.1 ± 0.299
0.377TrpCys: 0.377 ± 0.147
1.185TrpAsp: 1.185 ± 0.224
1.185TrpGlu: 1.185 ± 0.341
0.754TrpPhe: 0.754 ± 0.185
1.185TrpGly: 1.185 ± 0.258
0.7TrpHis: 0.7 ± 0.239
1.023TrpIle: 1.023 ± 0.221
0.862TrpLys: 0.862 ± 0.188
1.831TrpLeu: 1.831 ± 0.342
0.808TrpMet: 0.808 ± 0.191
0.592TrpAsn: 0.592 ± 0.189
1.077TrpPro: 1.077 ± 0.239
1.131TrpGln: 1.131 ± 0.252
1.885TrpArg: 1.885 ± 0.413
1.346TrpSer: 1.346 ± 0.307
1.508TrpThr: 1.508 ± 0.307
2.046TrpVal: 2.046 ± 0.476
1.023TrpTrp: 1.023 ± 0.216
0.215TrpTyr: 0.215 ± 0.106
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.693TyrAla: 2.693 ± 0.382
0.377TyrCys: 0.377 ± 0.14
1.508TyrAsp: 1.508 ± 0.382
1.939TyrGlu: 1.939 ± 0.355
0.7TyrPhe: 0.7 ± 0.213
1.885TyrGly: 1.885 ± 0.341
0.269TyrHis: 0.269 ± 0.111
1.023TyrIle: 1.023 ± 0.211
0.7TyrLys: 0.7 ± 0.186
1.993TyrLeu: 1.993 ± 0.308
0.269TyrMet: 0.269 ± 0.124
0.754TyrAsn: 0.754 ± 0.186
1.185TyrPro: 1.185 ± 0.232
0.808TyrGln: 0.808 ± 0.189
2.423TyrArg: 2.423 ± 0.379
1.077TyrSer: 1.077 ± 0.218
1.723TyrThr: 1.723 ± 0.298
2.154TyrVal: 2.154 ± 0.295
0.592TyrTrp: 0.592 ± 0.18
0.862TyrTyr: 0.862 ± 0.177
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 99 proteins (18570 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