Amino acid dipepetide frequency for Streptomyces phage Nerdos

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
11.668AlaAla: 11.668 ± 1.099
0.671AlaCys: 0.671 ± 0.281
6.706AlaAsp: 6.706 ± 0.904
8.651AlaGlu: 8.651 ± 0.774
3.152AlaPhe: 3.152 ± 0.436
7.377AlaGly: 7.377 ± 0.763
2.414AlaHis: 2.414 ± 0.42
4.694AlaIle: 4.694 ± 0.588
4.694AlaLys: 4.694 ± 0.512
9.858AlaLeu: 9.858 ± 1.112
3.554AlaMet: 3.554 ± 0.517
3.085AlaAsn: 3.085 ± 0.496
5.03AlaPro: 5.03 ± 0.668
3.219AlaGln: 3.219 ± 0.465
6.639AlaArg: 6.639 ± 0.783
5.566AlaSer: 5.566 ± 0.613
5.432AlaThr: 5.432 ± 0.638
8.181AlaVal: 8.181 ± 0.802
2.079AlaTrp: 2.079 ± 0.362
3.554AlaTyr: 3.554 ± 0.571
0.0AlaXaa: 0.0 ± 0.0
Cys
0.402CysAla: 0.402 ± 0.132
0.134CysCys: 0.134 ± 0.082
0.268CysAsp: 0.268 ± 0.129
0.536CysGlu: 0.536 ± 0.174
0.268CysPhe: 0.268 ± 0.133
0.536CysGly: 0.536 ± 0.185
0.268CysHis: 0.268 ± 0.13
0.201CysIle: 0.201 ± 0.126
0.268CysLys: 0.268 ± 0.124
0.335CysLeu: 0.335 ± 0.142
0.0CysMet: 0.0 ± 0.0
0.335CysAsn: 0.335 ± 0.124
0.536CysPro: 0.536 ± 0.188
0.268CysGln: 0.268 ± 0.187
0.604CysArg: 0.604 ± 0.248
0.469CysSer: 0.469 ± 0.153
0.335CysThr: 0.335 ± 0.179
0.335CysVal: 0.335 ± 0.162
0.067CysTrp: 0.067 ± 0.064
0.335CysTyr: 0.335 ± 0.17
0.0CysXaa: 0.0 ± 0.0
Asp
6.572AspAla: 6.572 ± 0.702
0.335AspCys: 0.335 ± 0.142
4.761AspAsp: 4.761 ± 0.761
4.56AspGlu: 4.56 ± 0.509
2.615AspPhe: 2.615 ± 0.435
6.304AspGly: 6.304 ± 0.657
1.274AspHis: 1.274 ± 0.348
3.085AspIle: 3.085 ± 0.454
2.079AspLys: 2.079 ± 0.382
6.438AspLeu: 6.438 ± 0.67
1.677AspMet: 1.677 ± 0.273
1.274AspAsn: 1.274 ± 0.299
3.822AspPro: 3.822 ± 0.606
1.677AspGln: 1.677 ± 0.342
3.688AspArg: 3.688 ± 0.567
3.487AspSer: 3.487 ± 0.526
4.158AspThr: 4.158 ± 0.45
3.822AspVal: 3.822 ± 0.495
1.475AspTrp: 1.475 ± 0.258
1.408AspTyr: 1.408 ± 0.281
0.0AspXaa: 0.0 ± 0.0
Glu
8.315GluAla: 8.315 ± 0.901
0.671GluCys: 0.671 ± 0.235
4.225GluAsp: 4.225 ± 0.506
5.901GluGlu: 5.901 ± 0.92
1.811GluPhe: 1.811 ± 0.281
6.438GluGly: 6.438 ± 0.794
1.744GluHis: 1.744 ± 0.367
4.694GluIle: 4.694 ± 0.649
2.414GluLys: 2.414 ± 0.38
6.17GluLeu: 6.17 ± 0.66
1.006GluMet: 1.006 ± 0.246
2.28GluAsn: 2.28 ± 0.453
2.884GluPro: 2.884 ± 0.381
2.481GluGln: 2.481 ± 0.502
4.292GluArg: 4.292 ± 0.598
4.292GluSer: 4.292 ± 0.671
3.755GluThr: 3.755 ± 0.628
5.834GluVal: 5.834 ± 0.669
1.341GluTrp: 1.341 ± 0.309
2.213GluTyr: 2.213 ± 0.404
0.0GluXaa: 0.0 ± 0.0
Phe
3.018PheAla: 3.018 ± 0.533
0.134PheCys: 0.134 ± 0.099
2.481PheAsp: 2.481 ± 0.394
3.085PheGlu: 3.085 ± 0.458
1.274PhePhe: 1.274 ± 0.31
2.951PheGly: 2.951 ± 0.363
0.402PheHis: 0.402 ± 0.154
1.878PheIle: 1.878 ± 0.378
1.341PheLys: 1.341 ± 0.29
2.414PheLeu: 2.414 ± 0.455
0.604PheMet: 0.604 ± 0.294
0.805PheAsn: 0.805 ± 0.236
1.14PhePro: 1.14 ± 0.291
1.006PheGln: 1.006 ± 0.326
2.347PheArg: 2.347 ± 0.427
1.408PheSer: 1.408 ± 0.286
2.146PheThr: 2.146 ± 0.288
1.811PheVal: 1.811 ± 0.302
0.671PheTrp: 0.671 ± 0.208
0.939PheTyr: 0.939 ± 0.3
0.0PheXaa: 0.0 ± 0.0
Gly
8.584GlyAla: 8.584 ± 0.99
0.268GlyCys: 0.268 ± 0.16
5.499GlyAsp: 5.499 ± 0.686
5.566GlyGlu: 5.566 ± 0.582
2.682GlyPhe: 2.682 ± 0.442
6.84GlyGly: 6.84 ± 0.82
1.811GlyHis: 1.811 ± 0.402
3.353GlyIle: 3.353 ± 0.625
4.292GlyLys: 4.292 ± 0.59
6.639GlyLeu: 6.639 ± 0.808
2.213GlyMet: 2.213 ± 0.395
2.749GlyAsn: 2.749 ± 0.401
4.359GlyPro: 4.359 ± 1.305
2.884GlyGln: 2.884 ± 0.479
4.694GlyArg: 4.694 ± 0.558
4.761GlySer: 4.761 ± 0.567
5.231GlyThr: 5.231 ± 0.654
6.974GlyVal: 6.974 ± 0.701
2.28GlyTrp: 2.28 ± 0.414
3.353GlyTyr: 3.353 ± 0.476
0.0GlyXaa: 0.0 ± 0.0
His
1.945HisAla: 1.945 ± 0.361
0.268HisCys: 0.268 ± 0.137
1.14HisAsp: 1.14 ± 0.287
1.006HisGlu: 1.006 ± 0.26
0.805HisPhe: 0.805 ± 0.224
1.744HisGly: 1.744 ± 0.367
0.469HisHis: 0.469 ± 0.169
1.006HisIle: 1.006 ± 0.255
0.738HisLys: 0.738 ± 0.201
1.811HisLeu: 1.811 ± 0.408
0.268HisMet: 0.268 ± 0.161
0.469HisAsn: 0.469 ± 0.175
1.14HisPro: 1.14 ± 0.301
0.536HisGln: 0.536 ± 0.166
0.939HisArg: 0.939 ± 0.259
1.609HisSer: 1.609 ± 0.387
1.274HisThr: 1.274 ± 0.255
1.073HisVal: 1.073 ± 0.267
0.738HisTrp: 0.738 ± 0.254
0.671HisTyr: 0.671 ± 0.205
0.0HisXaa: 0.0 ± 0.0
Ile
4.761IleAla: 4.761 ± 0.543
0.067IleCys: 0.067 ± 0.064
2.951IleAsp: 2.951 ± 0.384
3.889IleGlu: 3.889 ± 0.504
1.341IlePhe: 1.341 ± 0.233
3.889IleGly: 3.889 ± 0.665
0.738IleHis: 0.738 ± 0.212
1.811IleIle: 1.811 ± 0.479
2.213IleLys: 2.213 ± 0.363
3.621IleLeu: 3.621 ± 0.775
1.006IleMet: 1.006 ± 0.4
1.006IleAsn: 1.006 ± 0.285
2.347IlePro: 2.347 ± 0.364
1.811IleGln: 1.811 ± 0.577
3.286IleArg: 3.286 ± 0.384
2.481IleSer: 2.481 ± 0.541
2.548IleThr: 2.548 ± 0.373
3.755IleVal: 3.755 ± 0.549
0.671IleTrp: 0.671 ± 0.181
1.408IleTyr: 1.408 ± 0.295
0.0IleXaa: 0.0 ± 0.0
Lys
4.895LysAla: 4.895 ± 0.592
0.134LysCys: 0.134 ± 0.129
3.152LysAsp: 3.152 ± 0.455
1.878LysGlu: 1.878 ± 0.309
0.738LysPhe: 0.738 ± 0.241
4.828LysGly: 4.828 ± 0.593
0.469LysHis: 0.469 ± 0.181
2.079LysIle: 2.079 ± 0.485
2.414LysLys: 2.414 ± 0.559
4.024LysLeu: 4.024 ± 0.431
0.872LysMet: 0.872 ± 0.239
1.609LysAsn: 1.609 ± 0.342
2.817LysPro: 2.817 ± 0.556
1.475LysGln: 1.475 ± 0.32
3.353LysArg: 3.353 ± 0.55
2.079LysSer: 2.079 ± 0.45
2.615LysThr: 2.615 ± 0.362
2.414LysVal: 2.414 ± 0.396
0.805LysTrp: 0.805 ± 0.219
0.939LysTyr: 0.939 ± 0.281
0.0LysXaa: 0.0 ± 0.0
Leu
11.601LeuAla: 11.601 ± 0.999
0.604LeuCys: 0.604 ± 0.185
6.438LeuAsp: 6.438 ± 0.643
5.633LeuGlu: 5.633 ± 0.621
1.408LeuPhe: 1.408 ± 0.285
7.175LeuGly: 7.175 ± 0.927
1.408LeuHis: 1.408 ± 0.375
3.621LeuIle: 3.621 ± 0.453
3.755LeuLys: 3.755 ± 0.656
6.035LeuLeu: 6.035 ± 0.625
1.811LeuMet: 1.811 ± 0.423
3.554LeuAsn: 3.554 ± 0.475
4.56LeuPro: 4.56 ± 0.737
1.609LeuGln: 1.609 ± 0.393
5.097LeuArg: 5.097 ± 0.677
5.432LeuSer: 5.432 ± 0.556
5.767LeuThr: 5.767 ± 0.672
6.102LeuVal: 6.102 ± 0.736
0.939LeuTrp: 0.939 ± 0.278
1.945LeuTyr: 1.945 ± 0.367
0.0LeuXaa: 0.0 ± 0.0
Met
3.219MetAla: 3.219 ± 0.413
0.134MetCys: 0.134 ± 0.095
1.006MetAsp: 1.006 ± 0.322
0.805MetGlu: 0.805 ± 0.241
0.604MetPhe: 0.604 ± 0.232
1.811MetGly: 1.811 ± 0.466
0.201MetHis: 0.201 ± 0.115
1.006MetIle: 1.006 ± 0.242
1.14MetLys: 1.14 ± 0.266
1.609MetLeu: 1.609 ± 0.311
0.268MetMet: 0.268 ± 0.137
0.469MetAsn: 0.469 ± 0.163
1.207MetPro: 1.207 ± 0.235
0.536MetGln: 0.536 ± 0.189
1.475MetArg: 1.475 ± 0.308
2.213MetSer: 2.213 ± 0.37
1.878MetThr: 1.878 ± 0.408
1.408MetVal: 1.408 ± 0.268
0.134MetTrp: 0.134 ± 0.092
0.402MetTyr: 0.402 ± 0.193
0.0MetXaa: 0.0 ± 0.0
Asn
2.615AsnAla: 2.615 ± 0.41
0.402AsnCys: 0.402 ± 0.201
1.945AsnAsp: 1.945 ± 0.414
1.945AsnGlu: 1.945 ± 0.428
1.408AsnPhe: 1.408 ± 0.311
3.353AsnGly: 3.353 ± 0.439
0.805AsnHis: 0.805 ± 0.274
1.14AsnIle: 1.14 ± 0.262
1.274AsnLys: 1.274 ± 0.362
2.884AsnLeu: 2.884 ± 0.475
0.268AsnMet: 0.268 ± 0.13
0.805AsnAsn: 0.805 ± 0.229
1.811AsnPro: 1.811 ± 0.313
1.207AsnGln: 1.207 ± 0.285
2.079AsnArg: 2.079 ± 0.317
1.006AsnSer: 1.006 ± 0.189
2.012AsnThr: 2.012 ± 0.379
2.012AsnVal: 2.012 ± 0.436
0.604AsnTrp: 0.604 ± 0.198
0.738AsnTyr: 0.738 ± 0.183
0.0AsnXaa: 0.0 ± 0.0
Pro
5.767ProAla: 5.767 ± 0.729
0.536ProCys: 0.536 ± 0.188
3.152ProAsp: 3.152 ± 0.508
4.158ProGlu: 4.158 ± 0.594
1.677ProPhe: 1.677 ± 0.322
3.889ProGly: 3.889 ± 0.546
0.872ProHis: 0.872 ± 0.256
2.213ProIle: 2.213 ± 0.504
2.615ProLys: 2.615 ± 0.601
3.353ProLeu: 3.353 ± 0.495
1.073ProMet: 1.073 ± 0.267
1.274ProAsn: 1.274 ± 0.291
1.744ProPro: 1.744 ± 0.349
1.945ProGln: 1.945 ± 0.443
2.615ProArg: 2.615 ± 0.381
3.554ProSer: 3.554 ± 0.589
3.42ProThr: 3.42 ± 0.582
3.755ProVal: 3.755 ± 0.447
0.536ProTrp: 0.536 ± 0.19
1.006ProTyr: 1.006 ± 0.259
0.0ProXaa: 0.0 ± 0.0
Gln
3.688GlnAla: 3.688 ± 0.561
0.268GlnCys: 0.268 ± 0.127
1.341GlnAsp: 1.341 ± 0.31
2.548GlnGlu: 2.548 ± 0.431
1.475GlnPhe: 1.475 ± 0.313
2.146GlnGly: 2.146 ± 0.489
0.335GlnHis: 0.335 ± 0.131
1.811GlnIle: 1.811 ± 0.275
1.542GlnLys: 1.542 ± 0.333
2.347GlnLeu: 2.347 ± 0.388
1.14GlnMet: 1.14 ± 0.271
1.006GlnAsn: 1.006 ± 0.227
1.475GlnPro: 1.475 ± 0.301
0.738GlnGln: 0.738 ± 0.214
2.146GlnArg: 2.146 ± 0.393
1.677GlnSer: 1.677 ± 0.318
1.677GlnThr: 1.677 ± 0.297
2.615GlnVal: 2.615 ± 0.401
0.536GlnTrp: 0.536 ± 0.186
0.536GlnTyr: 0.536 ± 0.195
0.0GlnXaa: 0.0 ± 0.0
Arg
5.164ArgAla: 5.164 ± 0.511
0.604ArgCys: 0.604 ± 0.242
4.091ArgAsp: 4.091 ± 0.527
4.292ArgGlu: 4.292 ± 0.589
3.152ArgPhe: 3.152 ± 0.414
3.554ArgGly: 3.554 ± 0.484
1.207ArgHis: 1.207 ± 0.342
2.615ArgIle: 2.615 ± 0.446
3.219ArgLys: 3.219 ± 0.528
6.035ArgLeu: 6.035 ± 0.82
1.945ArgMet: 1.945 ± 0.348
1.878ArgAsn: 1.878 ± 0.392
2.481ArgPro: 2.481 ± 0.362
2.347ArgGln: 2.347 ± 0.424
5.834ArgArg: 5.834 ± 0.971
3.755ArgSer: 3.755 ± 0.662
3.554ArgThr: 3.554 ± 0.488
4.895ArgVal: 4.895 ± 0.566
0.872ArgTrp: 0.872 ± 0.247
2.146ArgTyr: 2.146 ± 0.329
0.0ArgXaa: 0.0 ± 0.0
Ser
5.968SerAla: 5.968 ± 0.532
0.201SerCys: 0.201 ± 0.103
3.152SerAsp: 3.152 ± 0.564
4.292SerGlu: 4.292 ± 0.454
2.079SerPhe: 2.079 ± 0.366
4.828SerGly: 4.828 ± 0.628
1.207SerHis: 1.207 ± 0.315
2.884SerIle: 2.884 ± 0.52
1.878SerLys: 1.878 ± 0.268
5.633SerLeu: 5.633 ± 0.762
1.073SerMet: 1.073 ± 0.296
1.677SerAsn: 1.677 ± 0.281
2.213SerPro: 2.213 ± 0.394
1.811SerGln: 1.811 ± 0.306
3.957SerArg: 3.957 ± 0.672
4.426SerSer: 4.426 ± 0.822
4.627SerThr: 4.627 ± 0.703
4.694SerVal: 4.694 ± 0.422
1.207SerTrp: 1.207 ± 0.309
2.548SerTyr: 2.548 ± 0.44
0.0SerXaa: 0.0 ± 0.0
Thr
5.901ThrAla: 5.901 ± 0.678
0.201ThrCys: 0.201 ± 0.108
3.755ThrAsp: 3.755 ± 0.506
4.359ThrGlu: 4.359 ± 0.53
1.677ThrPhe: 1.677 ± 0.371
6.505ThrGly: 6.505 ± 0.963
1.207ThrHis: 1.207 ± 0.285
2.615ThrIle: 2.615 ± 0.434
1.878ThrLys: 1.878 ± 0.345
5.767ThrLeu: 5.767 ± 0.633
0.738ThrMet: 0.738 ± 0.186
1.744ThrAsn: 1.744 ± 0.426
4.493ThrPro: 4.493 ± 0.712
1.677ThrGln: 1.677 ± 0.286
3.219ThrArg: 3.219 ± 0.508
4.225ThrSer: 4.225 ± 0.991
3.688ThrThr: 3.688 ± 0.517
4.962ThrVal: 4.962 ± 0.602
1.14ThrTrp: 1.14 ± 0.284
2.749ThrTyr: 2.749 ± 0.345
0.0ThrXaa: 0.0 ± 0.0
Val
7.444ValAla: 7.444 ± 0.642
0.469ValCys: 0.469 ± 0.163
4.292ValAsp: 4.292 ± 0.453
5.901ValGlu: 5.901 ± 0.738
2.146ValPhe: 2.146 ± 0.347
5.834ValGly: 5.834 ± 0.741
2.079ValHis: 2.079 ± 0.342
3.554ValIle: 3.554 ± 0.487
4.225ValLys: 4.225 ± 0.574
6.035ValLeu: 6.035 ± 0.687
1.14ValMet: 1.14 ± 0.224
2.414ValAsn: 2.414 ± 0.398
3.353ValPro: 3.353 ± 0.397
2.414ValGln: 2.414 ± 0.426
4.091ValArg: 4.091 ± 0.504
4.225ValSer: 4.225 ± 0.524
5.231ValThr: 5.231 ± 0.649
4.895ValVal: 4.895 ± 0.549
1.408ValTrp: 1.408 ± 0.273
1.744ValTyr: 1.744 ± 0.343
0.0ValXaa: 0.0 ± 0.0
Trp
1.744TrpAla: 1.744 ± 0.343
0.268TrpCys: 0.268 ± 0.114
1.542TrpAsp: 1.542 ± 0.303
1.341TrpGlu: 1.341 ± 0.343
0.469TrpPhe: 0.469 ± 0.16
1.677TrpGly: 1.677 ± 0.304
0.268TrpHis: 0.268 ± 0.125
0.402TrpIle: 0.402 ± 0.148
0.805TrpLys: 0.805 ± 0.249
1.341TrpLeu: 1.341 ± 0.343
0.335TrpMet: 0.335 ± 0.139
1.006TrpAsn: 1.006 ± 0.232
0.335TrpPro: 0.335 ± 0.169
0.604TrpGln: 0.604 ± 0.205
1.475TrpArg: 1.475 ± 0.307
1.542TrpSer: 1.542 ± 0.401
1.207TrpThr: 1.207 ± 0.295
1.542TrpVal: 1.542 ± 0.33
0.201TrpTrp: 0.201 ± 0.135
0.268TrpTyr: 0.268 ± 0.128
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.018TyrAla: 3.018 ± 0.445
0.134TyrCys: 0.134 ± 0.096
2.615TyrAsp: 2.615 ± 0.567
2.414TyrGlu: 2.414 ± 0.412
1.073TyrPhe: 1.073 ± 0.215
3.353TyrGly: 3.353 ± 0.586
0.469TyrHis: 0.469 ± 0.188
0.939TyrIle: 0.939 ± 0.317
0.805TyrLys: 0.805 ± 0.242
2.146TyrLeu: 2.146 ± 0.325
0.469TyrMet: 0.469 ± 0.189
0.872TyrAsn: 0.872 ± 0.257
1.408TyrPro: 1.408 ± 0.339
0.805TyrGln: 0.805 ± 0.239
1.811TyrArg: 1.811 ± 0.379
2.146TyrSer: 2.146 ± 0.379
1.945TyrThr: 1.945 ± 0.344
1.811TyrVal: 1.811 ± 0.362
0.671TyrTrp: 0.671 ± 0.237
1.073TyrTyr: 1.073 ± 0.212
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 72 proteins (14913 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