Amino acid dipepetide frequency for Salmonella virus VSiP

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
10.948AlaAla: 10.948 ± 1.331
1.125AlaCys: 1.125 ± 0.313
6.674AlaAsp: 6.674 ± 0.629
6.374AlaGlu: 6.374 ± 0.814
3.824AlaPhe: 3.824 ± 0.553
7.424AlaGly: 7.424 ± 0.853
1.95AlaHis: 1.95 ± 0.42
5.024AlaIle: 5.024 ± 0.714
5.924AlaLys: 5.924 ± 0.808
8.473AlaLeu: 8.473 ± 0.739
1.875AlaMet: 1.875 ± 0.53
3.674AlaAsn: 3.674 ± 0.594
2.999AlaPro: 2.999 ± 0.423
3.524AlaGln: 3.524 ± 0.691
4.949AlaArg: 4.949 ± 0.647
6.524AlaSer: 6.524 ± 0.622
5.999AlaThr: 5.999 ± 0.937
6.074AlaVal: 6.074 ± 0.769
1.575AlaTrp: 1.575 ± 0.341
2.999AlaTyr: 2.999 ± 0.509
0.0AlaXaa: 0.0 ± 0.0
Cys
1.275CysAla: 1.275 ± 0.344
0.225CysCys: 0.225 ± 0.127
0.75CysAsp: 0.75 ± 0.202
0.75CysGlu: 0.75 ± 0.23
0.375CysPhe: 0.375 ± 0.159
1.5CysGly: 1.5 ± 0.442
0.525CysHis: 0.525 ± 0.246
0.675CysIle: 0.675 ± 0.267
0.825CysLys: 0.825 ± 0.22
0.75CysLeu: 0.75 ± 0.293
0.0CysMet: 0.0 ± 0.0
0.675CysAsn: 0.675 ± 0.199
0.6CysPro: 0.6 ± 0.209
0.675CysGln: 0.675 ± 0.283
0.9CysArg: 0.9 ± 0.335
0.6CysSer: 0.6 ± 0.206
0.375CysThr: 0.375 ± 0.142
0.525CysVal: 0.525 ± 0.194
0.225CysTrp: 0.225 ± 0.133
0.6CysTyr: 0.6 ± 0.205
0.0CysXaa: 0.0 ± 0.0
Asp
6.974AspAla: 6.974 ± 0.681
0.525AspCys: 0.525 ± 0.231
4.424AspAsp: 4.424 ± 0.693
5.324AspGlu: 5.324 ± 0.954
2.325AspPhe: 2.325 ± 0.389
5.624AspGly: 5.624 ± 0.755
0.675AspHis: 0.675 ± 0.21
3.974AspIle: 3.974 ± 0.46
3.824AspLys: 3.824 ± 0.616
4.949AspLeu: 4.949 ± 0.823
1.575AspMet: 1.575 ± 0.407
2.4AspAsn: 2.4 ± 0.426
1.65AspPro: 1.65 ± 0.268
1.2AspGln: 1.2 ± 0.294
2.549AspArg: 2.549 ± 0.524
3.449AspSer: 3.449 ± 0.484
4.049AspThr: 4.049 ± 0.535
3.749AspVal: 3.749 ± 0.539
1.05AspTrp: 1.05 ± 0.249
2.025AspTyr: 2.025 ± 0.335
0.0AspXaa: 0.0 ± 0.0
Glu
6.074GluAla: 6.074 ± 1.206
0.675GluCys: 0.675 ± 0.237
4.424GluAsp: 4.424 ± 0.704
3.749GluGlu: 3.749 ± 0.634
2.4GluPhe: 2.4 ± 0.406
4.574GluGly: 4.574 ± 0.593
1.125GluHis: 1.125 ± 0.333
3.074GluIle: 3.074 ± 0.394
3.824GluLys: 3.824 ± 0.643
5.999GluLeu: 5.999 ± 0.68
2.624GluMet: 2.624 ± 0.499
2.624GluAsn: 2.624 ± 0.537
2.999GluPro: 2.999 ± 0.447
3.224GluGln: 3.224 ± 0.51
3.374GluArg: 3.374 ± 0.579
3.749GluSer: 3.749 ± 0.394
3.974GluThr: 3.974 ± 0.611
3.824GluVal: 3.824 ± 0.518
0.9GluTrp: 0.9 ± 0.211
2.475GluTyr: 2.475 ± 0.458
0.0GluXaa: 0.0 ± 0.0
Phe
2.549PheAla: 2.549 ± 0.399
0.675PheCys: 0.675 ± 0.263
2.774PheAsp: 2.774 ± 0.48
2.475PheGlu: 2.475 ± 0.369
1.05PhePhe: 1.05 ± 0.292
2.774PheGly: 2.774 ± 0.39
0.975PheHis: 0.975 ± 0.315
2.624PheIle: 2.624 ± 0.412
1.5PheLys: 1.5 ± 0.294
1.95PheLeu: 1.95 ± 0.459
0.675PheMet: 0.675 ± 0.231
1.875PheAsn: 1.875 ± 0.407
1.275PhePro: 1.275 ± 0.412
0.825PheGln: 0.825 ± 0.252
1.65PheArg: 1.65 ± 0.305
2.849PheSer: 2.849 ± 0.568
2.999PheThr: 2.999 ± 0.664
2.849PheVal: 2.849 ± 0.505
0.75PheTrp: 0.75 ± 0.295
0.9PheTyr: 0.9 ± 0.219
0.0PheXaa: 0.0 ± 0.0
Gly
6.749GlyAla: 6.749 ± 0.895
1.35GlyCys: 1.35 ± 0.37
4.349GlyAsp: 4.349 ± 0.448
5.099GlyGlu: 5.099 ± 0.533
2.924GlyPhe: 2.924 ± 0.397
5.924GlyGly: 5.924 ± 0.772
1.2GlyHis: 1.2 ± 0.362
3.524GlyIle: 3.524 ± 0.511
4.574GlyLys: 4.574 ± 0.562
5.924GlyLeu: 5.924 ± 0.755
1.875GlyMet: 1.875 ± 0.41
3.749GlyAsn: 3.749 ± 0.492
2.25GlyPro: 2.25 ± 0.379
2.999GlyGln: 2.999 ± 0.452
4.349GlyArg: 4.349 ± 0.595
4.949GlySer: 4.949 ± 0.608
4.499GlyThr: 4.499 ± 0.578
6.299GlyVal: 6.299 ± 0.68
1.125GlyTrp: 1.125 ± 0.302
2.774GlyTyr: 2.774 ± 0.388
0.0GlyXaa: 0.0 ± 0.0
His
1.575HisAla: 1.575 ± 0.332
0.45HisCys: 0.45 ± 0.174
0.9HisAsp: 0.9 ± 0.242
0.75HisGlu: 0.75 ± 0.278
0.75HisPhe: 0.75 ± 0.227
1.125HisGly: 1.125 ± 0.368
0.75HisHis: 0.75 ± 0.208
1.05HisIle: 1.05 ± 0.26
0.975HisLys: 0.975 ± 0.271
1.35HisLeu: 1.35 ± 0.343
0.225HisMet: 0.225 ± 0.164
0.675HisAsn: 0.675 ± 0.161
1.35HisPro: 1.35 ± 0.356
0.825HisGln: 0.825 ± 0.185
0.975HisArg: 0.975 ± 0.235
0.975HisSer: 0.975 ± 0.237
0.6HisThr: 0.6 ± 0.217
1.425HisVal: 1.425 ± 0.359
0.225HisTrp: 0.225 ± 0.115
0.6HisTyr: 0.6 ± 0.255
0.0HisXaa: 0.0 ± 0.0
Ile
5.399IleAla: 5.399 ± 0.748
0.975IleCys: 0.975 ± 0.265
3.149IleAsp: 3.149 ± 0.646
4.274IleGlu: 4.274 ± 0.513
1.425IlePhe: 1.425 ± 0.414
3.899IleGly: 3.899 ± 0.529
0.15IleHis: 0.15 ± 0.091
2.849IleIle: 2.849 ± 0.375
3.224IleLys: 3.224 ± 0.394
2.624IleLeu: 2.624 ± 0.466
1.275IleMet: 1.275 ± 0.279
2.774IleAsn: 2.774 ± 0.467
2.325IlePro: 2.325 ± 0.37
1.8IleGln: 1.8 ± 0.384
2.849IleArg: 2.849 ± 0.413
3.374IleSer: 3.374 ± 0.434
4.124IleThr: 4.124 ± 0.575
2.924IleVal: 2.924 ± 0.387
0.675IleTrp: 0.675 ± 0.246
1.875IleTyr: 1.875 ± 0.387
0.0IleXaa: 0.0 ± 0.0
Lys
5.474LysAla: 5.474 ± 0.879
0.975LysCys: 0.975 ± 0.306
2.549LysAsp: 2.549 ± 0.399
3.524LysGlu: 3.524 ± 0.675
1.8LysPhe: 1.8 ± 0.339
4.199LysGly: 4.199 ± 0.569
1.65LysHis: 1.65 ± 0.417
2.549LysIle: 2.549 ± 0.363
3.299LysLys: 3.299 ± 0.521
5.174LysLeu: 5.174 ± 0.769
2.25LysMet: 2.25 ± 0.485
2.325LysAsn: 2.325 ± 0.454
3.299LysPro: 3.299 ± 0.641
2.175LysGln: 2.175 ± 0.404
3.674LysArg: 3.674 ± 0.469
2.999LysSer: 2.999 ± 0.585
3.749LysThr: 3.749 ± 0.485
3.149LysVal: 3.149 ± 0.45
0.6LysTrp: 0.6 ± 0.189
2.624LysTyr: 2.624 ± 0.452
0.0LysXaa: 0.0 ± 0.0
Leu
7.648LeuAla: 7.648 ± 0.804
1.05LeuCys: 1.05 ± 0.308
4.799LeuAsp: 4.799 ± 0.566
4.949LeuGlu: 4.949 ± 0.621
2.025LeuPhe: 2.025 ± 0.374
4.574LeuGly: 4.574 ± 0.521
1.05LeuHis: 1.05 ± 0.295
2.849LeuIle: 2.849 ± 0.408
4.724LeuLys: 4.724 ± 0.657
5.849LeuLeu: 5.849 ± 0.687
1.8LeuMet: 1.8 ± 0.383
4.124LeuAsn: 4.124 ± 0.561
3.374LeuPro: 3.374 ± 0.611
2.774LeuGln: 2.774 ± 0.537
5.099LeuArg: 5.099 ± 0.601
4.649LeuSer: 4.649 ± 0.595
4.424LeuThr: 4.424 ± 0.547
5.699LeuVal: 5.699 ± 0.667
0.975LeuTrp: 0.975 ± 0.3
2.475LeuTyr: 2.475 ± 0.354
0.0LeuXaa: 0.0 ± 0.0
Met
3.074MetAla: 3.074 ± 0.411
0.45MetCys: 0.45 ± 0.161
1.275MetAsp: 1.275 ± 0.401
1.5MetGlu: 1.5 ± 0.344
1.05MetPhe: 1.05 ± 0.266
1.2MetGly: 1.2 ± 0.292
0.45MetHis: 0.45 ± 0.184
1.2MetIle: 1.2 ± 0.326
1.575MetLys: 1.575 ± 0.331
1.725MetLeu: 1.725 ± 0.483
0.75MetMet: 0.75 ± 0.249
1.125MetAsn: 1.125 ± 0.367
1.05MetPro: 1.05 ± 0.262
1.125MetGln: 1.125 ± 0.292
1.95MetArg: 1.95 ± 0.457
1.5MetSer: 1.5 ± 0.293
2.1MetThr: 2.1 ± 0.405
1.275MetVal: 1.275 ± 0.351
0.15MetTrp: 0.15 ± 0.112
0.75MetTyr: 0.75 ± 0.312
0.0MetXaa: 0.0 ± 0.0
Asn
3.749AsnAla: 3.749 ± 0.625
0.375AsnCys: 0.375 ± 0.161
2.924AsnAsp: 2.924 ± 0.416
2.4AsnGlu: 2.4 ± 0.395
1.5AsnPhe: 1.5 ± 0.305
4.724AsnGly: 4.724 ± 0.53
1.125AsnHis: 1.125 ± 0.297
3.074AsnIle: 3.074 ± 0.469
2.475AsnLys: 2.475 ± 0.646
2.849AsnLeu: 2.849 ± 0.395
0.975AsnMet: 0.975 ± 0.272
2.774AsnAsn: 2.774 ± 0.509
1.725AsnPro: 1.725 ± 0.413
1.275AsnGln: 1.275 ± 0.332
2.849AsnArg: 2.849 ± 0.502
2.849AsnSer: 2.849 ± 0.498
3.074AsnThr: 3.074 ± 0.468
2.624AsnVal: 2.624 ± 0.532
0.75AsnTrp: 0.75 ± 0.223
1.275AsnTyr: 1.275 ± 0.295
0.0AsnXaa: 0.0 ± 0.0
Pro
3.374ProAla: 3.374 ± 0.567
0.525ProCys: 0.525 ± 0.243
2.849ProAsp: 2.849 ± 0.349
4.574ProGlu: 4.574 ± 0.539
1.65ProPhe: 1.65 ± 0.363
2.549ProGly: 2.549 ± 0.684
0.375ProHis: 0.375 ± 0.177
1.575ProIle: 1.575 ± 0.343
1.95ProLys: 1.95 ± 0.327
3.074ProLeu: 3.074 ± 0.5
1.05ProMet: 1.05 ± 0.309
1.725ProAsn: 1.725 ± 0.433
0.525ProPro: 0.525 ± 0.206
1.425ProGln: 1.425 ± 0.36
2.025ProArg: 2.025 ± 0.403
1.8ProSer: 1.8 ± 0.32
2.4ProThr: 2.4 ± 0.349
3.524ProVal: 3.524 ± 0.58
0.075ProTrp: 0.075 ± 0.069
1.125ProTyr: 1.125 ± 0.4
0.0ProXaa: 0.0 ± 0.0
Gln
4.874GlnAla: 4.874 ± 0.598
0.375GlnCys: 0.375 ± 0.149
1.95GlnAsp: 1.95 ± 0.482
2.325GlnGlu: 2.325 ± 0.354
1.425GlnPhe: 1.425 ± 0.353
1.875GlnGly: 1.875 ± 0.418
0.9GlnHis: 0.9 ± 0.316
2.774GlnIle: 2.774 ± 0.47
2.025GlnLys: 2.025 ± 0.462
2.849GlnLeu: 2.849 ± 0.47
1.5GlnMet: 1.5 ± 0.323
1.65GlnAsn: 1.65 ± 0.416
1.575GlnPro: 1.575 ± 0.299
2.624GlnGln: 2.624 ± 0.72
2.549GlnArg: 2.549 ± 0.519
1.65GlnSer: 1.65 ± 0.408
2.4GlnThr: 2.4 ± 0.416
2.4GlnVal: 2.4 ± 0.445
0.825GlnTrp: 0.825 ± 0.234
1.425GlnTyr: 1.425 ± 0.355
0.0GlnXaa: 0.0 ± 0.0
Arg
4.799ArgAla: 4.799 ± 0.592
0.6ArgCys: 0.6 ± 0.278
3.299ArgAsp: 3.299 ± 0.506
2.849ArgGlu: 2.849 ± 0.483
1.8ArgPhe: 1.8 ± 0.313
4.124ArgGly: 4.124 ± 0.637
0.9ArgHis: 0.9 ± 0.246
3.674ArgIle: 3.674 ± 0.492
4.424ArgLys: 4.424 ± 0.661
4.274ArgLeu: 4.274 ± 0.545
1.5ArgMet: 1.5 ± 0.364
3.224ArgAsn: 3.224 ± 0.49
1.95ArgPro: 1.95 ± 0.466
3.449ArgGln: 3.449 ± 0.499
3.749ArgArg: 3.749 ± 0.675
2.325ArgSer: 2.325 ± 0.312
2.849ArgThr: 2.849 ± 0.407
4.274ArgVal: 4.274 ± 0.545
0.9ArgTrp: 0.9 ± 0.301
1.575ArgTyr: 1.575 ± 0.304
0.0ArgXaa: 0.0 ± 0.0
Ser
6.074SerAla: 6.074 ± 0.964
0.225SerCys: 0.225 ± 0.163
3.674SerAsp: 3.674 ± 0.597
2.924SerGlu: 2.924 ± 0.564
3.224SerPhe: 3.224 ± 0.466
5.324SerGly: 5.324 ± 0.79
0.9SerHis: 0.9 ± 0.312
2.999SerIle: 2.999 ± 0.539
2.924SerLys: 2.924 ± 0.467
4.349SerLeu: 4.349 ± 0.43
1.575SerMet: 1.575 ± 0.355
2.325SerAsn: 2.325 ± 0.385
1.95SerPro: 1.95 ± 0.363
2.025SerGln: 2.025 ± 0.619
3.524SerArg: 3.524 ± 0.57
3.599SerSer: 3.599 ± 0.681
3.974SerThr: 3.974 ± 0.541
4.574SerVal: 4.574 ± 0.801
0.75SerTrp: 0.75 ± 0.236
2.175SerTyr: 2.175 ± 0.368
0.0SerXaa: 0.0 ± 0.0
Thr
6.374ThrAla: 6.374 ± 0.725
0.525ThrCys: 0.525 ± 0.213
3.674ThrAsp: 3.674 ± 0.562
3.749ThrGlu: 3.749 ± 0.648
2.325ThrPhe: 2.325 ± 0.504
6.749ThrGly: 6.749 ± 0.937
0.525ThrHis: 0.525 ± 0.185
3.224ThrIle: 3.224 ± 0.492
2.25ThrLys: 2.25 ± 0.458
5.099ThrLeu: 5.099 ± 0.568
1.275ThrMet: 1.275 ± 0.307
2.25ThrAsn: 2.25 ± 0.375
3.524ThrPro: 3.524 ± 0.517
2.549ThrGln: 2.549 ± 0.433
2.475ThrArg: 2.475 ± 0.417
4.349ThrSer: 4.349 ± 0.704
4.574ThrThr: 4.574 ± 0.745
5.174ThrVal: 5.174 ± 0.735
1.275ThrTrp: 1.275 ± 0.338
2.325ThrTyr: 2.325 ± 0.413
0.0ThrXaa: 0.0 ± 0.0
Val
6.299ValAla: 6.299 ± 0.753
0.975ValCys: 0.975 ± 0.26
4.124ValAsp: 4.124 ± 0.37
4.799ValGlu: 4.799 ± 0.635
1.875ValPhe: 1.875 ± 0.431
4.274ValGly: 4.274 ± 0.517
1.2ValHis: 1.2 ± 0.302
3.749ValIle: 3.749 ± 0.433
4.724ValLys: 4.724 ± 0.554
3.899ValLeu: 3.899 ± 0.454
1.5ValMet: 1.5 ± 0.368
3.524ValAsn: 3.524 ± 0.622
2.025ValPro: 2.025 ± 0.43
2.699ValGln: 2.699 ± 0.376
4.499ValArg: 4.499 ± 0.531
3.974ValSer: 3.974 ± 0.532
5.474ValThr: 5.474 ± 0.799
5.624ValVal: 5.624 ± 0.898
1.125ValTrp: 1.125 ± 0.297
2.475ValTyr: 2.475 ± 0.425
0.0ValXaa: 0.0 ± 0.0
Trp
1.05TrpAla: 1.05 ± 0.416
0.15TrpCys: 0.15 ± 0.1
0.975TrpAsp: 0.975 ± 0.254
0.9TrpGlu: 0.9 ± 0.25
0.75TrpPhe: 0.75 ± 0.226
0.9TrpGly: 0.9 ± 0.365
0.45TrpHis: 0.45 ± 0.188
0.45TrpIle: 0.45 ± 0.17
0.675TrpLys: 0.675 ± 0.214
1.725TrpLeu: 1.725 ± 0.327
0.375TrpMet: 0.375 ± 0.16
0.75TrpAsn: 0.75 ± 0.195
0.3TrpPro: 0.3 ± 0.174
0.9TrpGln: 0.9 ± 0.254
0.9TrpArg: 0.9 ± 0.266
1.125TrpSer: 1.125 ± 0.267
0.6TrpThr: 0.6 ± 0.173
1.125TrpVal: 1.125 ± 0.261
0.3TrpTrp: 0.3 ± 0.119
0.45TrpTyr: 0.45 ± 0.16
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.599TyrAla: 3.599 ± 0.568
0.6TyrCys: 0.6 ± 0.191
2.774TyrAsp: 2.774 ± 0.487
2.475TyrGlu: 2.475 ± 0.45
1.5TyrPhe: 1.5 ± 0.323
3.149TyrGly: 3.149 ± 0.421
0.675TyrHis: 0.675 ± 0.19
1.05TyrIle: 1.05 ± 0.333
2.325TyrLys: 2.325 ± 0.402
2.025TyrLeu: 2.025 ± 0.301
0.525TyrMet: 0.525 ± 0.209
1.125TyrAsn: 1.125 ± 0.28
1.425TyrPro: 1.425 ± 0.431
1.875TyrGln: 1.875 ± 0.55
1.65TyrArg: 1.65 ± 0.297
1.8TyrSer: 1.8 ± 0.382
2.025TyrThr: 2.025 ± 0.49
1.725TyrVal: 1.725 ± 0.387
0.6TyrTrp: 0.6 ± 0.197
1.05TyrTyr: 1.05 ± 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 73 proteins (13337 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