Amino acid dipepetide frequency for Yersinia phage Berlin

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
9.002AlaAla: 9.002 ± 1.188
0.9AlaCys: 0.9 ± 0.266
5.401AlaAsp: 5.401 ± 1.224
5.892AlaGlu: 5.892 ± 0.689
3.355AlaPhe: 3.355 ± 0.428
7.12AlaGly: 7.12 ± 1.059
1.719AlaHis: 1.719 ± 0.383
4.501AlaIle: 4.501 ± 0.663
7.447AlaLys: 7.447 ± 0.772
6.629AlaLeu: 6.629 ± 0.855
3.11AlaMet: 3.11 ± 0.555
4.256AlaAsn: 4.256 ± 0.684
2.783AlaPro: 2.783 ± 0.412
3.601AlaGln: 3.601 ± 0.485
4.256AlaArg: 4.256 ± 0.541
4.419AlaSer: 4.419 ± 0.665
3.192AlaThr: 3.192 ± 0.575
5.32AlaVal: 5.32 ± 0.605
1.146AlaTrp: 1.146 ± 0.278
3.11AlaTyr: 3.11 ± 0.573
0.0AlaXaa: 0.0 ± 0.0
Cys
0.818CysAla: 0.818 ± 0.215
0.082CysCys: 0.082 ± 0.077
0.573CysAsp: 0.573 ± 0.287
0.737CysGlu: 0.737 ± 0.251
0.573CysPhe: 0.573 ± 0.221
0.573CysGly: 0.573 ± 0.238
0.655CysHis: 0.655 ± 0.26
0.409CysIle: 0.409 ± 0.203
0.573CysLys: 0.573 ± 0.321
1.146CysLeu: 1.146 ± 0.255
0.164CysMet: 0.164 ± 0.129
0.737CysAsn: 0.737 ± 0.287
0.327CysPro: 0.327 ± 0.166
0.327CysGln: 0.327 ± 0.145
1.064CysArg: 1.064 ± 0.37
1.064CysSer: 1.064 ± 0.253
0.327CysThr: 0.327 ± 0.174
0.409CysVal: 0.409 ± 0.231
0.082CysTrp: 0.082 ± 0.08
0.327CysTyr: 0.327 ± 0.215
0.0CysXaa: 0.0 ± 0.0
Asp
4.829AspAla: 4.829 ± 0.587
0.573AspCys: 0.573 ± 0.251
3.928AspAsp: 3.928 ± 0.773
3.846AspGlu: 3.846 ± 0.761
2.619AspPhe: 2.619 ± 0.388
6.465AspGly: 6.465 ± 0.624
1.146AspHis: 1.146 ± 0.325
2.783AspIle: 2.783 ± 0.488
3.765AspLys: 3.765 ± 0.656
3.355AspLeu: 3.355 ± 0.521
2.864AspMet: 2.864 ± 0.583
2.619AspAsn: 2.619 ± 0.482
3.11AspPro: 3.11 ± 0.621
2.455AspGln: 2.455 ± 0.413
3.355AspArg: 3.355 ± 0.941
4.174AspSer: 4.174 ± 0.588
3.683AspThr: 3.683 ± 0.434
4.419AspVal: 4.419 ± 0.53
0.818AspTrp: 0.818 ± 0.354
1.637AspTyr: 1.637 ± 0.301
0.0AspXaa: 0.0 ± 0.0
Glu
7.202GluAla: 7.202 ± 0.965
0.9GluCys: 0.9 ± 0.338
4.665GluAsp: 4.665 ± 0.599
5.729GluGlu: 5.729 ± 1.339
2.701GluPhe: 2.701 ± 0.43
5.32GluGly: 5.32 ± 0.656
1.8GluHis: 1.8 ± 0.385
2.864GluIle: 2.864 ± 0.389
3.028GluLys: 3.028 ± 0.527
5.729GluLeu: 5.729 ± 0.623
3.028GluMet: 3.028 ± 0.485
3.028GluAsn: 3.028 ± 0.446
2.373GluPro: 2.373 ± 0.401
2.701GluGln: 2.701 ± 0.352
3.846GluArg: 3.846 ± 0.643
3.274GluSer: 3.274 ± 0.665
3.355GluThr: 3.355 ± 0.535
4.665GluVal: 4.665 ± 0.645
1.064GluTrp: 1.064 ± 0.263
3.192GluTyr: 3.192 ± 0.388
0.0GluXaa: 0.0 ± 0.0
Phe
2.619PheAla: 2.619 ± 0.616
0.491PheCys: 0.491 ± 0.213
2.21PheAsp: 2.21 ± 0.464
1.8PheGlu: 1.8 ± 0.327
1.064PhePhe: 1.064 ± 0.242
3.11PheGly: 3.11 ± 0.548
0.491PheHis: 0.491 ± 0.2
1.637PheIle: 1.637 ± 0.472
2.373PheLys: 2.373 ± 0.469
2.701PheLeu: 2.701 ± 0.335
1.064PheMet: 1.064 ± 0.268
2.128PheAsn: 2.128 ± 0.533
1.964PhePro: 1.964 ± 0.512
0.9PheGln: 0.9 ± 0.271
1.882PheArg: 1.882 ± 0.324
2.046PheSer: 2.046 ± 0.426
3.028PheThr: 3.028 ± 0.632
1.964PheVal: 1.964 ± 0.387
0.164PheTrp: 0.164 ± 0.114
1.309PheTyr: 1.309 ± 0.199
0.0PheXaa: 0.0 ± 0.0
Gly
6.302GlyAla: 6.302 ± 1.051
0.818GlyCys: 0.818 ± 0.352
5.974GlyAsp: 5.974 ± 0.687
5.32GlyGlu: 5.32 ± 0.671
2.455GlyPhe: 2.455 ± 0.489
5.892GlyGly: 5.892 ± 0.705
0.9GlyHis: 0.9 ± 0.283
4.338GlyIle: 4.338 ± 0.665
6.056GlyLys: 6.056 ± 0.954
7.366GlyLeu: 7.366 ± 1.003
2.619GlyMet: 2.619 ± 0.503
3.355GlyAsn: 3.355 ± 0.556
0.409GlyPro: 0.409 ± 0.16
2.946GlyGln: 2.946 ± 0.463
4.256GlyArg: 4.256 ± 0.479
5.483GlySer: 5.483 ± 0.598
3.437GlyThr: 3.437 ± 0.538
5.238GlyVal: 5.238 ± 0.557
2.128GlyTrp: 2.128 ± 0.528
2.701GlyTyr: 2.701 ± 0.448
0.0GlyXaa: 0.0 ± 0.0
His
1.309HisAla: 1.309 ± 0.431
0.409HisCys: 0.409 ± 0.152
1.064HisAsp: 1.064 ± 0.286
0.982HisGlu: 0.982 ± 0.296
1.146HisPhe: 1.146 ± 0.296
1.473HisGly: 1.473 ± 0.301
0.655HisHis: 0.655 ± 0.262
1.064HisIle: 1.064 ± 0.357
1.719HisLys: 1.719 ± 0.51
2.046HisLeu: 2.046 ± 0.488
0.491HisMet: 0.491 ± 0.16
0.9HisAsn: 0.9 ± 0.285
0.327HisPro: 0.327 ± 0.182
0.164HisGln: 0.164 ± 0.127
0.491HisArg: 0.491 ± 0.174
1.228HisSer: 1.228 ± 0.312
0.982HisThr: 0.982 ± 0.254
1.637HisVal: 1.637 ± 0.312
0.327HisTrp: 0.327 ± 0.168
0.409HisTyr: 0.409 ± 0.152
0.0HisXaa: 0.0 ± 0.0
Ile
4.01IleAla: 4.01 ± 0.528
0.655IleCys: 0.655 ± 0.268
3.928IleAsp: 3.928 ± 0.491
3.683IleGlu: 3.683 ± 0.563
0.818IlePhe: 0.818 ± 0.22
3.11IleGly: 3.11 ± 0.527
0.818IleHis: 0.818 ± 0.338
2.128IleIle: 2.128 ± 0.454
3.683IleLys: 3.683 ± 0.569
3.683IleLeu: 3.683 ± 0.489
0.9IleMet: 0.9 ± 0.244
2.373IleAsn: 2.373 ± 0.57
1.964IlePro: 1.964 ± 0.416
2.128IleGln: 2.128 ± 0.512
3.437IleArg: 3.437 ± 0.462
3.028IleSer: 3.028 ± 0.653
2.373IleThr: 2.373 ± 0.361
2.864IleVal: 2.864 ± 0.532
0.818IleTrp: 0.818 ± 0.223
1.555IleTyr: 1.555 ± 0.341
0.0IleXaa: 0.0 ± 0.0
Lys
8.348LysAla: 8.348 ± 0.86
0.982LysCys: 0.982 ± 0.325
3.601LysAsp: 3.601 ± 0.574
5.565LysGlu: 5.565 ± 0.64
1.719LysPhe: 1.719 ± 0.464
5.647LysGly: 5.647 ± 0.56
1.719LysHis: 1.719 ± 0.35
2.455LysIle: 2.455 ± 0.353
4.91LysLys: 4.91 ± 0.615
5.729LysLeu: 5.729 ± 0.829
2.455LysMet: 2.455 ± 0.37
2.373LysAsn: 2.373 ± 0.299
2.864LysPro: 2.864 ± 0.615
2.373LysGln: 2.373 ± 0.382
3.683LysArg: 3.683 ± 0.628
4.338LysSer: 4.338 ± 0.676
2.864LysThr: 2.864 ± 0.417
4.829LysVal: 4.829 ± 0.474
0.655LysTrp: 0.655 ± 0.236
2.455LysTyr: 2.455 ± 0.414
0.0LysXaa: 0.0 ± 0.0
Leu
7.611LeuAla: 7.611 ± 0.913
0.9LeuCys: 0.9 ± 0.333
4.665LeuAsp: 4.665 ± 0.543
5.974LeuGlu: 5.974 ± 0.945
2.783LeuPhe: 2.783 ± 0.531
4.583LeuGly: 4.583 ± 0.528
1.146LeuHis: 1.146 ± 0.268
3.846LeuIle: 3.846 ± 0.446
7.284LeuLys: 7.284 ± 0.849
5.811LeuLeu: 5.811 ± 0.856
3.192LeuMet: 3.192 ± 0.588
4.665LeuAsn: 4.665 ± 0.69
3.028LeuPro: 3.028 ± 0.435
3.519LeuGln: 3.519 ± 0.561
5.32LeuArg: 5.32 ± 0.555
5.401LeuSer: 5.401 ± 0.726
4.419LeuThr: 4.419 ± 0.696
5.892LeuVal: 5.892 ± 0.723
0.982LeuTrp: 0.982 ± 0.347
2.701LeuTyr: 2.701 ± 0.446
0.0LeuXaa: 0.0 ± 0.0
Met
2.783MetAla: 2.783 ± 0.479
0.327MetCys: 0.327 ± 0.166
1.719MetAsp: 1.719 ± 0.368
2.21MetGlu: 2.21 ± 0.418
1.309MetPhe: 1.309 ± 0.27
2.864MetGly: 2.864 ± 0.633
0.409MetHis: 0.409 ± 0.217
1.064MetIle: 1.064 ± 0.263
1.719MetLys: 1.719 ± 0.347
3.928MetLeu: 3.928 ± 0.538
0.491MetMet: 0.491 ± 0.169
2.046MetAsn: 2.046 ± 0.572
1.309MetPro: 1.309 ± 0.304
1.309MetGln: 1.309 ± 0.38
1.064MetArg: 1.064 ± 0.271
2.046MetSer: 2.046 ± 0.315
1.882MetThr: 1.882 ± 0.458
2.373MetVal: 2.373 ± 0.389
0.246MetTrp: 0.246 ± 0.15
1.146MetTyr: 1.146 ± 0.308
0.0MetXaa: 0.0 ± 0.0
Asn
3.11AsnAla: 3.11 ± 0.423
0.655AsnCys: 0.655 ± 0.191
2.619AsnAsp: 2.619 ± 0.451
2.783AsnGlu: 2.783 ± 0.436
1.8AsnPhe: 1.8 ± 0.216
4.501AsnGly: 4.501 ± 0.635
0.9AsnHis: 0.9 ± 0.257
2.701AsnIle: 2.701 ± 0.389
3.274AsnLys: 3.274 ± 0.538
3.765AsnLeu: 3.765 ± 0.515
1.228AsnMet: 1.228 ± 0.324
1.8AsnAsn: 1.8 ± 0.438
2.373AsnPro: 2.373 ± 0.357
1.964AsnGln: 1.964 ± 0.278
3.028AsnArg: 3.028 ± 0.652
2.946AsnSer: 2.946 ± 0.54
2.537AsnThr: 2.537 ± 0.578
2.619AsnVal: 2.619 ± 0.45
0.655AsnTrp: 0.655 ± 0.236
2.373AsnTyr: 2.373 ± 0.427
0.0AsnXaa: 0.0 ± 0.0
Pro
2.292ProAla: 2.292 ± 0.402
0.327ProCys: 0.327 ± 0.179
2.537ProAsp: 2.537 ± 0.491
4.338ProGlu: 4.338 ± 0.612
1.064ProPhe: 1.064 ± 0.315
1.146ProGly: 1.146 ± 0.25
0.818ProHis: 0.818 ± 0.236
1.146ProIle: 1.146 ± 0.309
2.783ProLys: 2.783 ± 0.512
3.274ProLeu: 3.274 ± 0.519
1.228ProMet: 1.228 ± 0.307
2.455ProAsn: 2.455 ± 0.477
0.818ProPro: 0.818 ± 0.239
1.064ProGln: 1.064 ± 0.26
1.228ProArg: 1.228 ± 0.348
2.455ProSer: 2.455 ± 0.354
2.046ProThr: 2.046 ± 0.265
3.192ProVal: 3.192 ± 0.517
0.655ProTrp: 0.655 ± 0.186
1.391ProTyr: 1.391 ± 0.384
0.0ProXaa: 0.0 ± 0.0
Gln
4.419GlnAla: 4.419 ± 0.581
0.164GlnCys: 0.164 ± 0.104
2.292GlnAsp: 2.292 ± 0.408
2.373GlnGlu: 2.373 ± 0.507
1.8GlnPhe: 1.8 ± 0.292
2.701GlnGly: 2.701 ± 0.43
0.491GlnHis: 0.491 ± 0.195
2.292GlnIle: 2.292 ± 0.465
1.882GlnLys: 1.882 ± 0.442
4.092GlnLeu: 4.092 ± 0.527
1.228GlnMet: 1.228 ± 0.208
0.818GlnAsn: 0.818 ± 0.186
1.555GlnPro: 1.555 ± 0.378
1.8GlnGln: 1.8 ± 0.387
1.8GlnArg: 1.8 ± 0.351
1.964GlnSer: 1.964 ± 0.379
1.882GlnThr: 1.882 ± 0.475
1.882GlnVal: 1.882 ± 0.444
0.982GlnTrp: 0.982 ± 0.227
1.309GlnTyr: 1.309 ± 0.31
0.0GlnXaa: 0.0 ± 0.0
Arg
4.829ArgAla: 4.829 ± 0.893
0.818ArgCys: 0.818 ± 0.299
3.274ArgAsp: 3.274 ± 0.474
4.01ArgGlu: 4.01 ± 0.758
1.882ArgPhe: 1.882 ± 0.331
4.092ArgGly: 4.092 ± 0.575
0.818ArgHis: 0.818 ± 0.255
2.128ArgIle: 2.128 ± 0.522
3.928ArgLys: 3.928 ± 0.683
4.665ArgLeu: 4.665 ± 0.583
1.391ArgMet: 1.391 ± 0.274
3.274ArgAsn: 3.274 ± 0.519
1.964ArgPro: 1.964 ± 0.316
1.882ArgGln: 1.882 ± 0.414
2.21ArgArg: 2.21 ± 0.34
3.765ArgSer: 3.765 ± 0.774
2.864ArgThr: 2.864 ± 0.392
3.519ArgVal: 3.519 ± 0.521
0.409ArgTrp: 0.409 ± 0.192
1.391ArgTyr: 1.391 ± 0.224
0.0ArgXaa: 0.0 ± 0.0
Ser
4.092SerAla: 4.092 ± 0.707
0.491SerCys: 0.491 ± 0.291
4.174SerAsp: 4.174 ± 0.561
3.274SerGlu: 3.274 ± 0.63
2.537SerPhe: 2.537 ± 0.424
5.729SerGly: 5.729 ± 0.76
1.8SerHis: 1.8 ± 0.452
3.437SerIle: 3.437 ± 0.449
3.846SerLys: 3.846 ± 0.637
5.156SerLeu: 5.156 ± 0.608
2.046SerMet: 2.046 ± 0.424
2.701SerAsn: 2.701 ± 0.543
2.292SerPro: 2.292 ± 0.287
2.619SerGln: 2.619 ± 0.442
3.601SerArg: 3.601 ± 0.576
3.519SerSer: 3.519 ± 0.639
3.11SerThr: 3.11 ± 0.391
4.01SerVal: 4.01 ± 0.483
0.655SerTrp: 0.655 ± 0.21
2.21SerTyr: 2.21 ± 0.566
0.0SerXaa: 0.0 ± 0.0
Thr
3.437ThrAla: 3.437 ± 0.654
0.737ThrCys: 0.737 ± 0.248
3.601ThrAsp: 3.601 ± 0.507
4.092ThrGlu: 4.092 ± 0.563
1.719ThrPhe: 1.719 ± 0.374
5.483ThrGly: 5.483 ± 0.678
0.737ThrHis: 0.737 ± 0.217
3.519ThrIle: 3.519 ± 0.447
4.419ThrLys: 4.419 ± 0.534
5.156ThrLeu: 5.156 ± 0.619
1.146ThrMet: 1.146 ± 0.31
1.637ThrAsn: 1.637 ± 0.434
2.455ThrPro: 2.455 ± 0.367
1.555ThrGln: 1.555 ± 0.4
1.882ThrArg: 1.882 ± 0.373
3.192ThrSer: 3.192 ± 0.461
3.355ThrThr: 3.355 ± 0.559
3.355ThrVal: 3.355 ± 0.527
0.655ThrTrp: 0.655 ± 0.285
1.309ThrTyr: 1.309 ± 0.292
0.0ThrXaa: 0.0 ± 0.0
Val
6.384ValAla: 6.384 ± 0.621
0.409ValCys: 0.409 ± 0.151
3.11ValAsp: 3.11 ± 0.354
4.829ValGlu: 4.829 ± 0.691
2.292ValPhe: 2.292 ± 0.493
4.256ValGly: 4.256 ± 0.55
1.228ValHis: 1.228 ± 0.322
3.519ValIle: 3.519 ± 0.558
4.665ValLys: 4.665 ± 0.826
5.074ValLeu: 5.074 ± 0.52
1.882ValMet: 1.882 ± 0.453
3.519ValAsn: 3.519 ± 0.723
2.701ValPro: 2.701 ± 0.449
2.292ValGln: 2.292 ± 0.452
4.419ValArg: 4.419 ± 0.646
4.174ValSer: 4.174 ± 0.649
4.91ValThr: 4.91 ± 0.516
4.338ValVal: 4.338 ± 0.839
0.982ValTrp: 0.982 ± 0.365
1.637ValTyr: 1.637 ± 0.489
0.0ValXaa: 0.0 ± 0.0
Trp
0.409TrpAla: 0.409 ± 0.138
0.082TrpCys: 0.082 ± 0.082
0.573TrpAsp: 0.573 ± 0.212
0.9TrpGlu: 0.9 ± 0.215
0.491TrpPhe: 0.491 ± 0.21
0.655TrpGly: 0.655 ± 0.157
0.327TrpHis: 0.327 ± 0.237
0.655TrpIle: 0.655 ± 0.278
1.309TrpLys: 1.309 ± 0.322
1.719TrpLeu: 1.719 ± 0.407
0.491TrpMet: 0.491 ± 0.14
1.064TrpAsn: 1.064 ± 0.265
0.246TrpPro: 0.246 ± 0.127
0.737TrpGln: 0.737 ± 0.246
0.655TrpArg: 0.655 ± 0.239
1.064TrpSer: 1.064 ± 0.334
1.228TrpThr: 1.228 ± 0.416
1.228TrpVal: 1.228 ± 0.326
0.164TrpTrp: 0.164 ± 0.117
0.327TrpTyr: 0.327 ± 0.154
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.355TyrAla: 3.355 ± 0.462
0.327TyrCys: 0.327 ± 0.188
2.537TyrAsp: 2.537 ± 0.392
2.128TyrGlu: 2.128 ± 0.335
0.818TyrPhe: 0.818 ± 0.227
3.274TyrGly: 3.274 ± 0.333
0.246TyrHis: 0.246 ± 0.144
1.473TyrIle: 1.473 ± 0.413
0.9TyrLys: 0.9 ± 0.231
2.701TyrLeu: 2.701 ± 0.49
1.146TyrMet: 1.146 ± 0.276
1.882TyrAsn: 1.882 ± 0.332
1.391TyrPro: 1.391 ± 0.314
1.391TyrGln: 1.391 ± 0.427
1.637TyrArg: 1.637 ± 0.318
1.719TyrSer: 1.719 ± 0.408
1.964TyrThr: 1.964 ± 0.499
2.864TyrVal: 2.864 ± 0.613
0.737TyrTrp: 0.737 ± 0.222
0.818TyrTyr: 0.818 ± 0.238
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 45 proteins (12220 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