Amino acid dipepetide frequency for Pantoea phage LIMElight

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
14.208AlaAla: 14.208 ± 1.254
0.513AlaCys: 0.513 ± 0.22
6.958AlaAsp: 6.958 ± 1.485
5.639AlaGlu: 5.639 ± 0.676
3.149AlaPhe: 3.149 ± 0.442
8.422AlaGly: 8.422 ± 0.847
2.051AlaHis: 2.051 ± 0.361
4.761AlaIle: 4.761 ± 0.613
5.053AlaLys: 5.053 ± 0.792
7.91AlaLeu: 7.91 ± 0.786
3.735AlaMet: 3.735 ± 0.701
4.248AlaAsn: 4.248 ± 0.638
4.834AlaPro: 4.834 ± 1.08
5.786AlaGln: 5.786 ± 0.752
4.687AlaArg: 4.687 ± 0.516
5.713AlaSer: 5.713 ± 0.567
6.811AlaThr: 6.811 ± 0.842
6.591AlaVal: 6.591 ± 0.82
0.952AlaTrp: 0.952 ± 0.297
2.637AlaTyr: 2.637 ± 0.363
0.0AlaXaa: 0.0 ± 0.0
Cys
0.439CysAla: 0.439 ± 0.197
0.073CysCys: 0.073 ± 0.069
0.659CysAsp: 0.659 ± 0.229
0.439CysGlu: 0.439 ± 0.155
0.22CysPhe: 0.22 ± 0.118
0.586CysGly: 0.586 ± 0.242
0.366CysHis: 0.366 ± 0.154
0.586CysIle: 0.586 ± 0.223
0.22CysLys: 0.22 ± 0.148
0.366CysLeu: 0.366 ± 0.153
0.293CysMet: 0.293 ± 0.122
0.366CysAsn: 0.366 ± 0.17
0.513CysPro: 0.513 ± 0.184
0.586CysGln: 0.586 ± 0.215
0.732CysArg: 0.732 ± 0.232
0.659CysSer: 0.659 ± 0.263
0.439CysThr: 0.439 ± 0.183
0.806CysVal: 0.806 ± 0.232
0.146CysTrp: 0.146 ± 0.087
0.293CysTyr: 0.293 ± 0.123
0.0CysXaa: 0.0 ± 0.0
Asp
7.91AspAla: 7.91 ± 0.692
0.879AspCys: 0.879 ± 0.282
3.369AspAsp: 3.369 ± 0.558
3.149AspGlu: 3.149 ± 0.479
2.051AspPhe: 2.051 ± 0.38
5.493AspGly: 5.493 ± 0.752
1.025AspHis: 1.025 ± 0.343
3.442AspIle: 3.442 ± 0.453
2.637AspLys: 2.637 ± 0.503
5.639AspLeu: 5.639 ± 0.757
2.417AspMet: 2.417 ± 0.517
2.27AspAsn: 2.27 ± 0.366
2.49AspPro: 2.49 ± 0.491
1.758AspGln: 1.758 ± 0.428
2.637AspArg: 2.637 ± 0.355
4.907AspSer: 4.907 ± 0.616
4.761AspThr: 4.761 ± 0.619
3.735AspVal: 3.735 ± 0.551
0.659AspTrp: 0.659 ± 0.161
2.27AspTyr: 2.27 ± 0.438
0.0AspXaa: 0.0 ± 0.0
Glu
5.127GluAla: 5.127 ± 0.67
0.366GluCys: 0.366 ± 0.144
3.442GluAsp: 3.442 ± 0.561
3.003GluGlu: 3.003 ± 0.449
1.977GluPhe: 1.977 ± 0.441
3.222GluGly: 3.222 ± 0.458
1.245GluHis: 1.245 ± 0.295
2.637GluIle: 2.637 ± 0.546
3.149GluLys: 3.149 ± 0.492
5.42GluLeu: 5.42 ± 0.596
2.417GluMet: 2.417 ± 0.419
2.27GluAsn: 2.27 ± 0.373
1.465GluPro: 1.465 ± 0.362
3.296GluGln: 3.296 ± 0.405
3.955GluArg: 3.955 ± 0.497
2.93GluSer: 2.93 ± 0.408
3.076GluThr: 3.076 ± 0.438
4.028GluVal: 4.028 ± 0.626
0.513GluTrp: 0.513 ± 0.19
2.417GluTyr: 2.417 ± 0.37
0.0GluXaa: 0.0 ± 0.0
Phe
2.856PheAla: 2.856 ± 0.435
0.293PheCys: 0.293 ± 0.143
1.758PheAsp: 1.758 ± 0.344
2.27PheGlu: 2.27 ± 0.345
1.172PhePhe: 1.172 ± 0.306
2.417PheGly: 2.417 ± 0.372
0.513PheHis: 0.513 ± 0.203
1.392PheIle: 1.392 ± 0.323
1.831PheLys: 1.831 ± 0.394
2.71PheLeu: 2.71 ± 0.399
1.025PheMet: 1.025 ± 0.314
1.392PheAsn: 1.392 ± 0.256
1.318PhePro: 1.318 ± 0.331
1.465PheGln: 1.465 ± 0.334
1.758PheArg: 1.758 ± 0.35
1.831PheSer: 1.831 ± 0.307
2.27PheThr: 2.27 ± 0.456
1.392PheVal: 1.392 ± 0.319
0.439PheTrp: 0.439 ± 0.158
1.245PheTyr: 1.245 ± 0.34
0.0PheXaa: 0.0 ± 0.0
Gly
6.372GlyAla: 6.372 ± 0.822
0.732GlyCys: 0.732 ± 0.231
4.761GlyAsp: 4.761 ± 0.519
3.442GlyGlu: 3.442 ± 0.563
1.977GlyPhe: 1.977 ± 0.423
6.665GlyGly: 6.665 ± 0.639
1.758GlyHis: 1.758 ± 0.464
4.687GlyIle: 4.687 ± 0.534
4.541GlyLys: 4.541 ± 0.588
5.053GlyLeu: 5.053 ± 0.562
2.563GlyMet: 2.563 ± 0.348
3.369GlyAsn: 3.369 ± 0.584
1.611GlyPro: 1.611 ± 0.476
4.101GlyGln: 4.101 ± 0.648
4.394GlyArg: 4.394 ± 0.518
4.687GlySer: 4.687 ± 0.675
6.079GlyThr: 6.079 ± 0.588
4.834GlyVal: 4.834 ± 0.545
1.611GlyTrp: 1.611 ± 0.32
3.882GlyTyr: 3.882 ± 0.39
0.0GlyXaa: 0.0 ± 0.0
His
1.684HisAla: 1.684 ± 0.338
0.366HisCys: 0.366 ± 0.145
1.172HisAsp: 1.172 ± 0.265
1.392HisGlu: 1.392 ± 0.311
1.025HisPhe: 1.025 ± 0.298
1.904HisGly: 1.904 ± 0.356
0.146HisHis: 0.146 ± 0.1
1.245HisIle: 1.245 ± 0.267
0.879HisLys: 0.879 ± 0.208
2.27HisLeu: 2.27 ± 0.389
0.22HisMet: 0.22 ± 0.117
0.659HisAsn: 0.659 ± 0.177
0.586HisPro: 0.586 ± 0.218
0.439HisGln: 0.439 ± 0.192
0.952HisArg: 0.952 ± 0.277
1.172HisSer: 1.172 ± 0.374
0.879HisThr: 0.879 ± 0.229
1.392HisVal: 1.392 ± 0.353
0.293HisTrp: 0.293 ± 0.138
0.586HisTyr: 0.586 ± 0.169
0.0HisXaa: 0.0 ± 0.0
Ile
4.761IleAla: 4.761 ± 0.414
0.513IleCys: 0.513 ± 0.188
3.882IleAsp: 3.882 ± 0.48
2.93IleGlu: 2.93 ± 0.431
0.659IlePhe: 0.659 ± 0.22
3.589IleGly: 3.589 ± 0.398
1.172IleHis: 1.172 ± 0.199
1.904IleIle: 1.904 ± 0.356
2.27IleLys: 2.27 ± 0.481
4.321IleLeu: 4.321 ± 0.558
1.392IleMet: 1.392 ± 0.27
2.417IleAsn: 2.417 ± 0.375
2.49IlePro: 2.49 ± 0.336
1.831IleGln: 1.831 ± 0.41
2.856IleArg: 2.856 ± 0.547
2.93IleSer: 2.93 ± 0.399
3.296IleThr: 3.296 ± 0.477
2.344IleVal: 2.344 ± 0.488
0.293IleTrp: 0.293 ± 0.137
1.172IleTyr: 1.172 ± 0.285
0.0IleXaa: 0.0 ± 0.0
Lys
6.591LysAla: 6.591 ± 0.999
0.293LysCys: 0.293 ± 0.216
3.369LysAsp: 3.369 ± 0.417
2.49LysGlu: 2.49 ± 0.484
1.538LysPhe: 1.538 ± 0.315
3.515LysGly: 3.515 ± 0.594
1.099LysHis: 1.099 ± 0.331
1.465LysIle: 1.465 ± 0.268
1.904LysLys: 1.904 ± 0.423
4.761LysLeu: 4.761 ± 0.508
1.611LysMet: 1.611 ± 0.373
1.758LysAsn: 1.758 ± 0.254
1.831LysPro: 1.831 ± 0.414
2.783LysGln: 2.783 ± 0.413
3.662LysArg: 3.662 ± 0.483
3.296LysSer: 3.296 ± 0.418
1.904LysThr: 1.904 ± 0.329
3.882LysVal: 3.882 ± 0.516
0.586LysTrp: 0.586 ± 0.215
0.806LysTyr: 0.806 ± 0.296
0.0LysXaa: 0.0 ± 0.0
Leu
7.91LeuAla: 7.91 ± 0.815
0.732LeuCys: 0.732 ± 0.244
4.907LeuAsp: 4.907 ± 0.299
5.2LeuGlu: 5.2 ± 0.654
2.71LeuPhe: 2.71 ± 0.38
5.053LeuGly: 5.053 ± 0.619
1.904LeuHis: 1.904 ± 0.344
4.321LeuIle: 4.321 ± 0.661
4.687LeuLys: 4.687 ± 0.567
5.786LeuLeu: 5.786 ± 0.557
2.344LeuMet: 2.344 ± 0.44
2.563LeuAsn: 2.563 ± 0.384
4.175LeuPro: 4.175 ± 0.632
4.321LeuGln: 4.321 ± 0.707
4.98LeuArg: 4.98 ± 0.684
5.566LeuSer: 5.566 ± 0.697
4.394LeuThr: 4.394 ± 0.677
5.932LeuVal: 5.932 ± 0.702
0.513LeuTrp: 0.513 ± 0.206
3.003LeuTyr: 3.003 ± 0.443
0.0LeuXaa: 0.0 ± 0.0
Met
2.93MetAla: 2.93 ± 0.431
0.293MetCys: 0.293 ± 0.12
2.124MetAsp: 2.124 ± 0.445
1.318MetGlu: 1.318 ± 0.349
1.025MetPhe: 1.025 ± 0.293
2.124MetGly: 2.124 ± 0.323
0.732MetHis: 0.732 ± 0.208
1.465MetIle: 1.465 ± 0.329
1.758MetLys: 1.758 ± 0.344
2.637MetLeu: 2.637 ± 0.517
1.318MetMet: 1.318 ± 0.313
1.684MetAsn: 1.684 ± 0.332
0.879MetPro: 0.879 ± 0.262
2.124MetGln: 2.124 ± 0.345
2.27MetArg: 2.27 ± 0.374
1.611MetSer: 1.611 ± 0.258
1.977MetThr: 1.977 ± 0.353
1.758MetVal: 1.758 ± 0.302
0.366MetTrp: 0.366 ± 0.123
1.318MetTyr: 1.318 ± 0.271
0.0MetXaa: 0.0 ± 0.0
Asn
3.808AsnAla: 3.808 ± 0.581
0.073AsnCys: 0.073 ± 0.092
2.27AsnAsp: 2.27 ± 0.397
1.758AsnGlu: 1.758 ± 0.297
1.392AsnPhe: 1.392 ± 0.344
3.735AsnGly: 3.735 ± 0.515
0.659AsnHis: 0.659 ± 0.221
1.904AsnIle: 1.904 ± 0.338
2.051AsnLys: 2.051 ± 0.323
3.369AsnLeu: 3.369 ± 0.442
0.952AsnMet: 0.952 ± 0.267
2.124AsnAsn: 2.124 ± 0.549
2.563AsnPro: 2.563 ± 0.421
2.197AsnGln: 2.197 ± 0.34
3.149AsnArg: 3.149 ± 0.501
3.296AsnSer: 3.296 ± 0.532
3.589AsnThr: 3.589 ± 0.579
2.856AsnVal: 2.856 ± 0.529
0.439AsnTrp: 0.439 ± 0.147
1.025AsnTyr: 1.025 ± 0.302
0.0AsnXaa: 0.0 ± 0.0
Pro
4.614ProAla: 4.614 ± 0.874
0.146ProCys: 0.146 ± 0.101
3.003ProAsp: 3.003 ± 0.511
2.856ProGlu: 2.856 ± 0.452
1.099ProPhe: 1.099 ± 0.273
1.977ProGly: 1.977 ± 0.386
0.22ProHis: 0.22 ± 0.109
1.684ProIle: 1.684 ± 0.307
1.538ProLys: 1.538 ± 0.372
3.076ProLeu: 3.076 ± 0.55
1.392ProMet: 1.392 ± 0.224
0.806ProAsn: 0.806 ± 0.253
1.025ProPro: 1.025 ± 0.226
1.831ProGln: 1.831 ± 0.341
1.611ProArg: 1.611 ± 0.359
2.563ProSer: 2.563 ± 0.414
2.27ProThr: 2.27 ± 0.423
3.296ProVal: 3.296 ± 0.414
0.439ProTrp: 0.439 ± 0.191
1.465ProTyr: 1.465 ± 0.273
0.0ProXaa: 0.0 ± 0.0
Gln
5.566GlnAla: 5.566 ± 0.724
0.293GlnCys: 0.293 ± 0.144
2.93GlnAsp: 2.93 ± 0.341
2.27GlnGlu: 2.27 ± 0.289
1.904GlnPhe: 1.904 ± 0.283
3.955GlnGly: 3.955 ± 0.658
0.659GlnHis: 0.659 ± 0.244
1.538GlnIle: 1.538 ± 0.399
2.27GlnLys: 2.27 ± 0.382
3.808GlnLeu: 3.808 ± 0.668
1.611GlnMet: 1.611 ± 0.282
3.003GlnAsn: 3.003 ± 0.405
1.538GlnPro: 1.538 ± 0.265
3.955GlnGln: 3.955 ± 0.774
2.93GlnArg: 2.93 ± 0.376
3.222GlnSer: 3.222 ± 0.585
3.076GlnThr: 3.076 ± 0.476
2.27GlnVal: 2.27 ± 0.359
0.806GlnTrp: 0.806 ± 0.215
2.417GlnTyr: 2.417 ± 0.392
0.0GlnXaa: 0.0 ± 0.0
Arg
5.127ArgAla: 5.127 ± 0.612
0.513ArgCys: 0.513 ± 0.228
3.149ArgAsp: 3.149 ± 0.431
3.296ArgGlu: 3.296 ± 0.477
2.197ArgPhe: 2.197 ± 0.342
3.882ArgGly: 3.882 ± 0.452
1.099ArgHis: 1.099 ± 0.271
3.296ArgIle: 3.296 ± 0.464
3.003ArgLys: 3.003 ± 0.476
5.786ArgLeu: 5.786 ± 0.712
2.051ArgMet: 2.051 ± 0.398
2.71ArgAsn: 2.71 ± 0.401
1.318ArgPro: 1.318 ± 0.303
2.27ArgGln: 2.27 ± 0.378
4.248ArgArg: 4.248 ± 0.625
3.003ArgSer: 3.003 ± 0.524
3.589ArgThr: 3.589 ± 0.557
4.248ArgVal: 4.248 ± 0.49
0.952ArgTrp: 0.952 ± 0.224
1.904ArgTyr: 1.904 ± 0.34
0.0ArgXaa: 0.0 ± 0.0
Ser
7.251SerAla: 7.251 ± 0.777
0.659SerCys: 0.659 ± 0.19
3.955SerAsp: 3.955 ± 0.411
3.882SerGlu: 3.882 ± 0.497
2.27SerPhe: 2.27 ± 0.463
6.225SerGly: 6.225 ± 0.581
1.245SerHis: 1.245 ± 0.3
2.637SerIle: 2.637 ± 0.388
3.149SerLys: 3.149 ± 0.414
4.248SerLeu: 4.248 ± 0.604
1.831SerMet: 1.831 ± 0.461
3.296SerAsn: 3.296 ± 0.483
1.831SerPro: 1.831 ± 0.336
2.71SerGln: 2.71 ± 0.542
3.222SerArg: 3.222 ± 0.545
3.735SerSer: 3.735 ± 0.719
4.834SerThr: 4.834 ± 0.659
4.687SerVal: 4.687 ± 0.561
1.318SerTrp: 1.318 ± 0.285
1.318SerTyr: 1.318 ± 0.33
0.0SerXaa: 0.0 ± 0.0
Thr
7.104ThrAla: 7.104 ± 0.906
0.439ThrCys: 0.439 ± 0.174
4.468ThrAsp: 4.468 ± 0.429
3.589ThrGlu: 3.589 ± 0.417
1.904ThrPhe: 1.904 ± 0.277
6.445ThrGly: 6.445 ± 0.698
1.318ThrHis: 1.318 ± 0.257
3.003ThrIle: 3.003 ± 0.518
3.003ThrLys: 3.003 ± 0.387
4.761ThrLeu: 4.761 ± 0.513
1.318ThrMet: 1.318 ± 0.374
2.93ThrAsn: 2.93 ± 0.388
2.417ThrPro: 2.417 ± 0.502
2.563ThrGln: 2.563 ± 0.451
3.003ThrArg: 3.003 ± 0.559
4.687ThrSer: 4.687 ± 0.974
3.076ThrThr: 3.076 ± 0.526
5.493ThrVal: 5.493 ± 0.787
0.952ThrTrp: 0.952 ± 0.274
2.197ThrTyr: 2.197 ± 0.285
0.0ThrXaa: 0.0 ± 0.0
Val
7.397ValAla: 7.397 ± 0.86
0.732ValCys: 0.732 ± 0.283
3.955ValAsp: 3.955 ± 0.594
4.394ValGlu: 4.394 ± 0.462
1.538ValPhe: 1.538 ± 0.268
4.541ValGly: 4.541 ± 0.443
1.245ValHis: 1.245 ± 0.276
2.71ValIle: 2.71 ± 0.49
3.369ValLys: 3.369 ± 0.599
5.566ValLeu: 5.566 ± 0.636
1.831ValMet: 1.831 ± 0.331
3.296ValAsn: 3.296 ± 0.402
2.417ValPro: 2.417 ± 0.342
3.149ValGln: 3.149 ± 0.541
3.369ValArg: 3.369 ± 0.406
5.273ValSer: 5.273 ± 0.636
5.566ValThr: 5.566 ± 0.984
4.834ValVal: 4.834 ± 0.643
0.586ValTrp: 0.586 ± 0.177
1.684ValTyr: 1.684 ± 0.366
0.0ValXaa: 0.0 ± 0.0
Trp
0.513TrpAla: 0.513 ± 0.209
0.293TrpCys: 0.293 ± 0.193
0.879TrpAsp: 0.879 ± 0.307
1.025TrpGlu: 1.025 ± 0.324
0.586TrpPhe: 0.586 ± 0.188
0.293TrpGly: 0.293 ± 0.124
0.439TrpHis: 0.439 ± 0.178
0.439TrpIle: 0.439 ± 0.203
0.366TrpLys: 0.366 ± 0.17
1.318TrpLeu: 1.318 ± 0.289
0.366TrpMet: 0.366 ± 0.16
0.586TrpAsn: 0.586 ± 0.178
0.366TrpPro: 0.366 ± 0.149
0.586TrpGln: 0.586 ± 0.198
1.172TrpArg: 1.172 ± 0.316
0.806TrpSer: 0.806 ± 0.231
0.586TrpThr: 0.586 ± 0.186
1.172TrpVal: 1.172 ± 0.294
0.366TrpTrp: 0.366 ± 0.165
0.806TrpTyr: 0.806 ± 0.215
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.563TyrAla: 2.563 ± 0.428
0.586TyrCys: 0.586 ± 0.265
2.49TyrAsp: 2.49 ± 0.431
1.611TyrGlu: 1.611 ± 0.405
0.952TyrPhe: 0.952 ± 0.269
3.076TyrGly: 3.076 ± 0.459
0.366TyrHis: 0.366 ± 0.195
1.904TyrIle: 1.904 ± 0.312
1.465TyrLys: 1.465 ± 0.398
2.197TyrLeu: 2.197 ± 0.363
0.952TyrMet: 0.952 ± 0.219
1.465TyrAsn: 1.465 ± 0.304
1.245TyrPro: 1.245 ± 0.35
2.27TyrGln: 2.27 ± 0.452
2.051TyrArg: 2.051 ± 0.352
2.417TyrSer: 2.417 ± 0.416
2.197TyrThr: 2.197 ± 0.444
1.904TyrVal: 1.904 ± 0.462
0.732TyrTrp: 0.732 ± 0.263
0.879TyrTyr: 0.879 ± 0.32
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 55 proteins (13655 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