Amino acid dipepetide frequency for Pseudomonas phage phi3

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
13.301AlaAla: 13.301 ± 1.87
0.782AlaCys: 0.782 ± 0.325
5.03AlaAsp: 5.03 ± 0.861
6.371AlaGlu: 6.371 ± 1.09
3.353AlaPhe: 3.353 ± 0.673
10.842AlaGly: 10.842 ± 1.244
2.235AlaHis: 2.235 ± 0.399
3.353AlaIle: 3.353 ± 0.647
5.03AlaLys: 5.03 ± 0.834
13.524AlaLeu: 13.524 ± 1.148
2.906AlaMet: 2.906 ± 0.641
3.353AlaAsn: 3.353 ± 0.584
4.471AlaPro: 4.471 ± 0.745
6.036AlaGln: 6.036 ± 0.983
6.93AlaArg: 6.93 ± 0.916
5.477AlaSer: 5.477 ± 0.797
6.147AlaThr: 6.147 ± 0.789
7.041AlaVal: 7.041 ± 0.968
1.565AlaTrp: 1.565 ± 0.458
2.571AlaTyr: 2.571 ± 0.615
0.0AlaXaa: 0.0 ± 0.0
Cys
0.447CysAla: 0.447 ± 0.212
0.0CysCys: 0.0 ± 0.0
0.559CysAsp: 0.559 ± 0.294
0.335CysGlu: 0.335 ± 0.248
0.559CysPhe: 0.559 ± 0.238
0.559CysGly: 0.559 ± 0.299
0.447CysHis: 0.447 ± 0.217
0.335CysIle: 0.335 ± 0.187
0.224CysLys: 0.224 ± 0.133
1.006CysLeu: 1.006 ± 0.417
0.112CysMet: 0.112 ± 0.13
0.335CysAsn: 0.335 ± 0.143
0.447CysPro: 0.447 ± 0.199
0.335CysGln: 0.335 ± 0.293
0.782CysArg: 0.782 ± 0.296
0.224CysSer: 0.224 ± 0.143
0.335CysThr: 0.335 ± 0.191
0.447CysVal: 0.447 ± 0.22
0.112CysTrp: 0.112 ± 0.109
0.335CysTyr: 0.335 ± 0.176
0.0CysXaa: 0.0 ± 0.0
Asp
6.594AspAla: 6.594 ± 0.895
0.671AspCys: 0.671 ± 0.301
2.571AspAsp: 2.571 ± 0.449
4.583AspGlu: 4.583 ± 0.807
2.459AspPhe: 2.459 ± 0.41
5.365AspGly: 5.365 ± 0.855
0.782AspHis: 0.782 ± 0.283
1.677AspIle: 1.677 ± 0.507
1.677AspLys: 1.677 ± 0.51
7.489AspLeu: 7.489 ± 0.884
1.006AspMet: 1.006 ± 0.349
1.565AspAsn: 1.565 ± 0.337
2.794AspPro: 2.794 ± 0.396
2.682AspGln: 2.682 ± 0.507
3.912AspArg: 3.912 ± 0.744
2.235AspSer: 2.235 ± 0.416
2.459AspThr: 2.459 ± 0.63
4.247AspVal: 4.247 ± 0.968
1.229AspTrp: 1.229 ± 0.398
1.677AspTyr: 1.677 ± 0.424
0.0AspXaa: 0.0 ± 0.0
Glu
6.036GluAla: 6.036 ± 0.899
0.447GluCys: 0.447 ± 0.238
2.012GluAsp: 2.012 ± 0.486
3.577GluGlu: 3.577 ± 0.729
2.235GluPhe: 2.235 ± 0.389
3.8GluGly: 3.8 ± 0.585
1.565GluHis: 1.565 ± 0.414
3.13GluIle: 3.13 ± 0.459
3.241GluLys: 3.241 ± 0.508
8.383GluLeu: 8.383 ± 0.95
0.782GluMet: 0.782 ± 0.461
1.788GluAsn: 1.788 ± 0.472
3.13GluPro: 3.13 ± 0.805
3.912GluGln: 3.912 ± 0.701
7.824GluArg: 7.824 ± 0.755
2.012GluSer: 2.012 ± 0.474
3.13GluThr: 3.13 ± 0.863
3.577GluVal: 3.577 ± 0.701
0.559GluTrp: 0.559 ± 0.231
1.453GluTyr: 1.453 ± 0.3
0.0GluXaa: 0.0 ± 0.0
Phe
2.794PheAla: 2.794 ± 0.669
0.0PheCys: 0.0 ± 0.0
3.018PheAsp: 3.018 ± 0.543
1.677PheGlu: 1.677 ± 0.348
1.229PhePhe: 1.229 ± 0.406
2.347PheGly: 2.347 ± 0.594
0.559PheHis: 0.559 ± 0.326
1.006PheIle: 1.006 ± 0.26
1.341PheLys: 1.341 ± 0.346
3.577PheLeu: 3.577 ± 0.552
0.335PheMet: 0.335 ± 0.232
1.341PheAsn: 1.341 ± 0.347
1.9PhePro: 1.9 ± 0.645
1.677PheGln: 1.677 ± 0.388
2.906PheArg: 2.906 ± 0.46
2.012PheSer: 2.012 ± 0.465
1.788PheThr: 1.788 ± 0.556
2.906PheVal: 2.906 ± 0.509
0.671PheTrp: 0.671 ± 0.205
0.671PheTyr: 0.671 ± 0.325
0.0PheXaa: 0.0 ± 0.0
Gly
7.153GlyAla: 7.153 ± 1.076
0.894GlyCys: 0.894 ± 0.315
4.359GlyAsp: 4.359 ± 0.904
4.471GlyGlu: 4.471 ± 0.486
2.347GlyPhe: 2.347 ± 0.563
5.924GlyGly: 5.924 ± 0.798
1.229GlyHis: 1.229 ± 0.392
3.018GlyIle: 3.018 ± 0.44
4.583GlyLys: 4.583 ± 0.744
8.383GlyLeu: 8.383 ± 1.132
2.124GlyMet: 2.124 ± 0.62
2.235GlyAsn: 2.235 ± 0.62
2.012GlyPro: 2.012 ± 0.552
4.024GlyGln: 4.024 ± 0.667
4.806GlyArg: 4.806 ± 0.745
3.577GlySer: 3.577 ± 0.64
3.912GlyThr: 3.912 ± 1.022
5.588GlyVal: 5.588 ± 0.662
1.453GlyTrp: 1.453 ± 0.353
2.235GlyTyr: 2.235 ± 0.361
0.0GlyXaa: 0.0 ± 0.0
His
3.018HisAla: 3.018 ± 0.691
0.224HisCys: 0.224 ± 0.169
1.118HisAsp: 1.118 ± 0.419
1.006HisGlu: 1.006 ± 0.374
0.782HisPhe: 0.782 ± 0.293
2.012HisGly: 2.012 ± 0.509
0.335HisHis: 0.335 ± 0.168
1.118HisIle: 1.118 ± 0.297
0.782HisLys: 0.782 ± 0.378
2.124HisLeu: 2.124 ± 0.486
0.335HisMet: 0.335 ± 0.189
0.224HisAsn: 0.224 ± 0.137
1.006HisPro: 1.006 ± 0.383
1.677HisGln: 1.677 ± 0.418
0.671HisArg: 0.671 ± 0.269
0.782HisSer: 0.782 ± 0.324
1.565HisThr: 1.565 ± 0.579
1.229HisVal: 1.229 ± 0.364
0.335HisTrp: 0.335 ± 0.182
0.559HisTyr: 0.559 ± 0.214
0.0HisXaa: 0.0 ± 0.0
Ile
5.03IleAla: 5.03 ± 0.791
0.335IleCys: 0.335 ± 0.182
2.571IleAsp: 2.571 ± 0.5
3.912IleGlu: 3.912 ± 0.471
0.559IlePhe: 0.559 ± 0.329
2.459IleGly: 2.459 ± 0.482
0.671IleHis: 0.671 ± 0.279
1.565IleIle: 1.565 ± 0.42
1.229IleLys: 1.229 ± 0.334
3.018IleLeu: 3.018 ± 0.663
0.559IleMet: 0.559 ± 0.301
1.341IleAsn: 1.341 ± 0.325
2.906IlePro: 2.906 ± 0.679
2.459IleGln: 2.459 ± 0.444
2.347IleArg: 2.347 ± 0.445
1.677IleSer: 1.677 ± 0.412
3.353IleThr: 3.353 ± 0.416
1.788IleVal: 1.788 ± 0.436
0.559IleTrp: 0.559 ± 0.269
0.782IleTyr: 0.782 ± 0.29
0.0IleXaa: 0.0 ± 0.0
Lys
5.03LysAla: 5.03 ± 0.643
0.335LysCys: 0.335 ± 0.263
1.229LysAsp: 1.229 ± 0.417
2.124LysGlu: 2.124 ± 0.61
1.9LysPhe: 1.9 ± 0.63
3.241LysGly: 3.241 ± 0.817
0.894LysHis: 0.894 ± 0.304
1.006LysIle: 1.006 ± 0.365
1.9LysLys: 1.9 ± 0.453
4.359LysLeu: 4.359 ± 0.778
0.112LysMet: 0.112 ± 0.174
1.9LysAsn: 1.9 ± 0.544
2.571LysPro: 2.571 ± 0.556
1.677LysGln: 1.677 ± 0.384
4.583LysArg: 4.583 ± 0.837
1.788LysSer: 1.788 ± 0.392
1.453LysThr: 1.453 ± 0.35
2.794LysVal: 2.794 ± 0.541
0.671LysTrp: 0.671 ± 0.3
1.118LysTyr: 1.118 ± 0.471
0.0LysXaa: 0.0 ± 0.0
Leu
12.406LeuAla: 12.406 ± 1.191
1.341LeuCys: 1.341 ± 0.425
7.712LeuAsp: 7.712 ± 0.944
8.383LeuGlu: 8.383 ± 0.788
3.688LeuPhe: 3.688 ± 0.528
7.041LeuGly: 7.041 ± 1.309
2.459LeuHis: 2.459 ± 0.702
3.577LeuIle: 3.577 ± 0.522
5.03LeuLys: 5.03 ± 0.779
10.506LeuLeu: 10.506 ± 1.386
1.565LeuMet: 1.565 ± 0.377
4.247LeuAsn: 4.247 ± 0.641
6.036LeuPro: 6.036 ± 1.01
6.594LeuGln: 6.594 ± 0.772
6.93LeuArg: 6.93 ± 0.864
5.477LeuSer: 5.477 ± 0.745
4.471LeuThr: 4.471 ± 0.689
8.271LeuVal: 8.271 ± 0.937
1.453LeuTrp: 1.453 ± 0.329
2.459LeuTyr: 2.459 ± 0.525
0.0LeuXaa: 0.0 ± 0.0
Met
2.682MetAla: 2.682 ± 0.784
0.112MetCys: 0.112 ± 0.102
1.341MetAsp: 1.341 ± 0.298
0.894MetGlu: 0.894 ± 0.419
0.782MetPhe: 0.782 ± 0.234
1.118MetGly: 1.118 ± 0.402
0.224MetHis: 0.224 ± 0.153
0.671MetIle: 0.671 ± 0.248
0.782MetLys: 0.782 ± 0.289
1.565MetLeu: 1.565 ± 0.336
0.112MetMet: 0.112 ± 0.103
1.229MetAsn: 1.229 ± 0.372
0.559MetPro: 0.559 ± 0.25
0.671MetGln: 0.671 ± 0.297
1.341MetArg: 1.341 ± 0.447
1.118MetSer: 1.118 ± 0.284
1.229MetThr: 1.229 ± 0.417
1.453MetVal: 1.453 ± 0.447
0.112MetTrp: 0.112 ± 0.115
0.335MetTyr: 0.335 ± 0.162
0.0MetXaa: 0.0 ± 0.0
Asn
2.459AsnAla: 2.459 ± 0.567
0.224AsnCys: 0.224 ± 0.17
2.459AsnAsp: 2.459 ± 0.508
1.788AsnGlu: 1.788 ± 0.655
1.006AsnPhe: 1.006 ± 0.272
3.018AsnGly: 3.018 ± 0.691
1.006AsnHis: 1.006 ± 0.315
1.118AsnIle: 1.118 ± 0.495
1.118AsnLys: 1.118 ± 0.294
4.135AsnLeu: 4.135 ± 0.563
0.559AsnMet: 0.559 ± 0.236
1.9AsnAsn: 1.9 ± 0.48
2.347AsnPro: 2.347 ± 0.359
1.9AsnGln: 1.9 ± 0.397
2.235AsnArg: 2.235 ± 0.608
1.9AsnSer: 1.9 ± 0.431
1.677AsnThr: 1.677 ± 0.455
2.347AsnVal: 2.347 ± 0.48
0.447AsnTrp: 0.447 ± 0.194
0.671AsnTyr: 0.671 ± 0.27
0.0AsnXaa: 0.0 ± 0.0
Pro
6.147ProAla: 6.147 ± 0.855
0.224ProCys: 0.224 ± 0.194
3.241ProAsp: 3.241 ± 0.61
3.577ProGlu: 3.577 ± 0.689
2.012ProPhe: 2.012 ± 0.436
3.8ProGly: 3.8 ± 0.817
0.894ProHis: 0.894 ± 0.253
1.565ProIle: 1.565 ± 0.434
2.571ProLys: 2.571 ± 0.512
4.135ProLeu: 4.135 ± 0.587
0.782ProMet: 0.782 ± 0.342
2.571ProAsn: 2.571 ± 0.47
2.012ProPro: 2.012 ± 0.519
1.9ProGln: 1.9 ± 0.45
3.13ProArg: 3.13 ± 0.529
2.794ProSer: 2.794 ± 0.683
2.347ProThr: 2.347 ± 0.44
4.135ProVal: 4.135 ± 0.754
0.894ProTrp: 0.894 ± 0.229
1.006ProTyr: 1.006 ± 0.293
0.0ProXaa: 0.0 ± 0.0
Gln
6.036GlnAla: 6.036 ± 0.914
0.224GlnCys: 0.224 ± 0.149
3.912GlnAsp: 3.912 ± 0.691
2.012GlnGlu: 2.012 ± 0.482
1.677GlnPhe: 1.677 ± 0.551
3.13GlnGly: 3.13 ± 0.607
1.006GlnHis: 1.006 ± 0.315
2.347GlnIle: 2.347 ± 0.408
1.006GlnLys: 1.006 ± 0.324
6.371GlnLeu: 6.371 ± 0.836
1.341GlnMet: 1.341 ± 0.407
1.118GlnAsn: 1.118 ± 0.323
2.347GlnPro: 2.347 ± 0.63
3.577GlnGln: 3.577 ± 0.636
3.465GlnArg: 3.465 ± 0.527
2.347GlnSer: 2.347 ± 0.651
2.794GlnThr: 2.794 ± 0.588
5.588GlnVal: 5.588 ± 0.985
0.894GlnTrp: 0.894 ± 0.299
0.559GlnTyr: 0.559 ± 0.221
0.0GlnXaa: 0.0 ± 0.0
Arg
7.489ArgAla: 7.489 ± 1.003
0.671ArgCys: 0.671 ± 0.252
3.8ArgAsp: 3.8 ± 0.601
3.8ArgGlu: 3.8 ± 0.475
2.459ArgPhe: 2.459 ± 0.598
4.806ArgGly: 4.806 ± 0.634
1.453ArgHis: 1.453 ± 0.377
4.471ArgIle: 4.471 ± 0.788
2.794ArgLys: 2.794 ± 0.544
8.159ArgLeu: 8.159 ± 1.199
2.235ArgMet: 2.235 ± 0.521
1.788ArgAsn: 1.788 ± 0.35
3.13ArgPro: 3.13 ± 0.614
3.13ArgGln: 3.13 ± 0.54
6.93ArgArg: 6.93 ± 1.225
4.471ArgSer: 4.471 ± 0.755
3.577ArgThr: 3.577 ± 0.537
6.259ArgVal: 6.259 ± 1.162
1.565ArgTrp: 1.565 ± 0.43
2.682ArgTyr: 2.682 ± 0.625
0.0ArgXaa: 0.0 ± 0.0
Ser
4.583SerAla: 4.583 ± 0.538
0.112SerCys: 0.112 ± 0.104
2.571SerAsp: 2.571 ± 0.495
3.13SerGlu: 3.13 ± 0.601
1.229SerPhe: 1.229 ± 0.327
4.024SerGly: 4.024 ± 0.609
0.782SerHis: 0.782 ± 0.238
2.347SerIle: 2.347 ± 0.531
1.677SerLys: 1.677 ± 0.513
5.253SerLeu: 5.253 ± 0.614
0.894SerMet: 0.894 ± 0.251
2.012SerAsn: 2.012 ± 0.31
2.906SerPro: 2.906 ± 0.599
2.012SerGln: 2.012 ± 0.552
4.135SerArg: 4.135 ± 0.692
2.906SerSer: 2.906 ± 0.741
3.688SerThr: 3.688 ± 0.59
2.794SerVal: 2.794 ± 0.723
1.118SerTrp: 1.118 ± 0.429
0.894SerTyr: 0.894 ± 0.336
0.0SerXaa: 0.0 ± 0.0
Thr
7.6ThrAla: 7.6 ± 0.879
0.447ThrCys: 0.447 ± 0.251
3.8ThrAsp: 3.8 ± 0.556
3.13ThrGlu: 3.13 ± 0.742
1.677ThrPhe: 1.677 ± 0.434
3.688ThrGly: 3.688 ± 0.693
1.565ThrHis: 1.565 ± 0.498
1.9ThrIle: 1.9 ± 0.437
1.9ThrLys: 1.9 ± 0.408
4.918ThrLeu: 4.918 ± 0.829
1.006ThrMet: 1.006 ± 0.348
1.229ThrAsn: 1.229 ± 0.342
3.018ThrPro: 3.018 ± 0.503
2.682ThrGln: 2.682 ± 0.595
3.688ThrArg: 3.688 ± 0.588
2.235ThrSer: 2.235 ± 0.566
2.794ThrThr: 2.794 ± 0.452
3.688ThrVal: 3.688 ± 0.725
0.782ThrTrp: 0.782 ± 0.243
1.565ThrTyr: 1.565 ± 0.39
0.0ThrXaa: 0.0 ± 0.0
Val
7.712ValAla: 7.712 ± 0.979
0.447ValCys: 0.447 ± 0.246
4.024ValAsp: 4.024 ± 0.846
5.924ValGlu: 5.924 ± 0.951
2.235ValPhe: 2.235 ± 0.577
4.918ValGly: 4.918 ± 0.698
1.9ValHis: 1.9 ± 0.483
3.13ValIle: 3.13 ± 0.604
2.571ValLys: 2.571 ± 0.581
7.265ValLeu: 7.265 ± 0.993
1.006ValMet: 1.006 ± 0.345
2.682ValAsn: 2.682 ± 0.636
4.471ValPro: 4.471 ± 0.746
3.018ValGln: 3.018 ± 0.601
5.477ValArg: 5.477 ± 0.785
3.353ValSer: 3.353 ± 0.704
4.583ValThr: 4.583 ± 0.718
4.024ValVal: 4.024 ± 0.519
0.671ValTrp: 0.671 ± 0.263
1.565ValTyr: 1.565 ± 0.489
0.0ValXaa: 0.0 ± 0.0
Trp
2.012TrpAla: 2.012 ± 0.396
0.224TrpCys: 0.224 ± 0.131
1.118TrpAsp: 1.118 ± 0.356
0.782TrpGlu: 0.782 ± 0.264
0.447TrpPhe: 0.447 ± 0.186
0.559TrpGly: 0.559 ± 0.268
0.335TrpHis: 0.335 ± 0.211
0.782TrpIle: 0.782 ± 0.275
0.559TrpLys: 0.559 ± 0.239
2.571TrpLeu: 2.571 ± 0.451
0.112TrpMet: 0.112 ± 0.109
0.335TrpAsn: 0.335 ± 0.195
0.559TrpPro: 0.559 ± 0.201
0.782TrpGln: 0.782 ± 0.26
1.677TrpArg: 1.677 ± 0.4
0.559TrpSer: 0.559 ± 0.255
1.229TrpThr: 1.229 ± 0.476
0.894TrpVal: 0.894 ± 0.267
0.335TrpTrp: 0.335 ± 0.188
0.112TrpTyr: 0.112 ± 0.129
0.0TrpXaa: 0.0 ± 0.0
Tyr
1.788TyrAla: 1.788 ± 0.391
0.224TyrCys: 0.224 ± 0.152
1.229TyrAsp: 1.229 ± 0.382
1.118TyrGlu: 1.118 ± 0.383
1.118TyrPhe: 1.118 ± 0.345
1.677TyrGly: 1.677 ± 0.315
0.559TyrHis: 0.559 ± 0.187
1.006TyrIle: 1.006 ± 0.366
0.782TyrLys: 0.782 ± 0.372
2.906TyrLeu: 2.906 ± 0.733
0.335TyrMet: 0.335 ± 0.151
1.118TyrAsn: 1.118 ± 0.372
1.118TyrPro: 1.118 ± 0.355
1.006TyrGln: 1.006 ± 0.275
1.9TyrArg: 1.9 ± 0.391
2.124TyrSer: 2.124 ± 0.574
0.782TyrThr: 0.782 ± 0.341
1.9TyrVal: 1.9 ± 0.582
0.559TyrTrp: 0.559 ± 0.251
0.671TyrTyr: 0.671 ± 0.271
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 36 proteins (8948 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