Amino acid dipepetide frequency for Vibrio phage pYD38-B

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
7.246AlaAla: 7.246 ± 1.175
0.453AlaCys: 0.453 ± 0.183
4.529AlaAsp: 4.529 ± 0.722
5.254AlaGlu: 5.254 ± 0.872
2.808AlaPhe: 2.808 ± 0.714
5.254AlaGly: 5.254 ± 0.843
1.178AlaHis: 1.178 ± 0.344
5.072AlaIle: 5.072 ± 0.658
7.699AlaLys: 7.699 ± 0.885
6.793AlaLeu: 6.793 ± 0.826
2.808AlaMet: 2.808 ± 0.659
3.895AlaAsn: 3.895 ± 0.616
2.264AlaPro: 2.264 ± 0.361
2.717AlaGln: 2.717 ± 0.559
4.167AlaArg: 4.167 ± 0.688
4.529AlaSer: 4.529 ± 0.76
4.891AlaThr: 4.891 ± 0.948
4.438AlaVal: 4.438 ± 0.627
0.634AlaTrp: 0.634 ± 0.216
2.536AlaTyr: 2.536 ± 0.46
0.0AlaXaa: 0.0 ± 0.0
Cys
0.543CysAla: 0.543 ± 0.212
0.272CysCys: 0.272 ± 0.146
0.453CysAsp: 0.453 ± 0.193
1.63CysGlu: 1.63 ± 0.319
0.272CysPhe: 0.272 ± 0.161
1.268CysGly: 1.268 ± 0.333
0.362CysHis: 0.362 ± 0.191
0.453CysIle: 0.453 ± 0.214
1.268CysLys: 1.268 ± 0.361
1.359CysLeu: 1.359 ± 0.403
0.272CysMet: 0.272 ± 0.168
0.362CysAsn: 0.362 ± 0.181
0.634CysPro: 0.634 ± 0.241
1.268CysGln: 1.268 ± 0.395
0.906CysArg: 0.906 ± 0.415
0.996CysSer: 0.996 ± 0.342
0.543CysThr: 0.543 ± 0.322
0.725CysVal: 0.725 ± 0.287
0.0CysTrp: 0.0 ± 0.0
0.272CysTyr: 0.272 ± 0.15
0.0CysXaa: 0.0 ± 0.0
Asp
5.072AspAla: 5.072 ± 0.675
0.996AspCys: 0.996 ± 0.296
3.351AspAsp: 3.351 ± 0.512
5.525AspGlu: 5.525 ± 0.596
2.989AspPhe: 2.989 ± 0.498
4.891AspGly: 4.891 ± 0.707
0.725AspHis: 0.725 ± 0.288
4.257AspIle: 4.257 ± 0.61
4.438AspLys: 4.438 ± 0.673
3.714AspLeu: 3.714 ± 0.555
1.178AspMet: 1.178 ± 0.309
3.17AspAsn: 3.17 ± 0.491
1.63AspPro: 1.63 ± 0.47
1.812AspGln: 1.812 ± 0.428
1.993AspArg: 1.993 ± 0.424
2.717AspSer: 2.717 ± 0.572
2.536AspThr: 2.536 ± 0.531
4.167AspVal: 4.167 ± 0.742
0.996AspTrp: 0.996 ± 0.421
2.083AspTyr: 2.083 ± 0.446
0.0AspXaa: 0.0 ± 0.0
Glu
6.431GluAla: 6.431 ± 0.899
0.634GluCys: 0.634 ± 0.262
3.623GluAsp: 3.623 ± 0.498
5.435GluGlu: 5.435 ± 0.816
2.536GluPhe: 2.536 ± 0.424
3.986GluGly: 3.986 ± 0.597
1.268GluHis: 1.268 ± 0.423
4.348GluIle: 4.348 ± 0.616
5.254GluLys: 5.254 ± 0.942
7.971GluLeu: 7.971 ± 0.955
2.264GluMet: 2.264 ± 0.503
4.167GluAsn: 4.167 ± 0.565
1.902GluPro: 1.902 ± 0.383
3.261GluGln: 3.261 ± 0.451
4.167GluArg: 4.167 ± 0.68
5.978GluSer: 5.978 ± 0.678
3.623GluThr: 3.623 ± 0.474
5.525GluVal: 5.525 ± 0.806
1.449GluTrp: 1.449 ± 0.314
2.808GluTyr: 2.808 ± 0.547
0.0GluXaa: 0.0 ± 0.0
Phe
1.902PheAla: 1.902 ± 0.395
0.634PheCys: 0.634 ± 0.265
2.989PheAsp: 2.989 ± 0.433
2.899PheGlu: 2.899 ± 0.53
1.54PhePhe: 1.54 ± 0.486
2.174PheGly: 2.174 ± 0.435
0.543PheHis: 0.543 ± 0.236
1.993PheIle: 1.993 ± 0.415
2.808PheLys: 2.808 ± 0.475
2.808PheLeu: 2.808 ± 0.399
1.54PheMet: 1.54 ± 0.332
2.808PheAsn: 2.808 ± 0.448
0.996PhePro: 0.996 ± 0.261
0.815PheGln: 0.815 ± 0.243
1.449PheArg: 1.449 ± 0.322
2.536PheSer: 2.536 ± 0.513
2.717PheThr: 2.717 ± 0.434
1.902PheVal: 1.902 ± 0.456
0.362PheTrp: 0.362 ± 0.212
1.812PheTyr: 1.812 ± 0.423
0.0PheXaa: 0.0 ± 0.0
Gly
4.257GlyAla: 4.257 ± 0.901
1.178GlyCys: 1.178 ± 0.331
4.348GlyAsp: 4.348 ± 0.705
4.71GlyGlu: 4.71 ± 0.581
4.076GlyPhe: 4.076 ± 0.546
5.797GlyGly: 5.797 ± 0.765
0.906GlyHis: 0.906 ± 0.294
4.62GlyIle: 4.62 ± 0.702
4.71GlyLys: 4.71 ± 0.791
5.707GlyLeu: 5.707 ± 0.733
2.627GlyMet: 2.627 ± 0.527
3.442GlyAsn: 3.442 ± 0.743
0.725GlyPro: 0.725 ± 0.282
2.717GlyGln: 2.717 ± 0.54
2.174GlyArg: 2.174 ± 0.451
4.982GlySer: 4.982 ± 0.896
2.899GlyThr: 2.899 ± 0.529
4.982GlyVal: 4.982 ± 0.714
1.359GlyTrp: 1.359 ± 0.315
3.442GlyTyr: 3.442 ± 0.564
0.0GlyXaa: 0.0 ± 0.0
His
1.63HisAla: 1.63 ± 0.395
0.181HisCys: 0.181 ± 0.12
0.725HisAsp: 0.725 ± 0.28
1.268HisGlu: 1.268 ± 0.327
0.634HisPhe: 0.634 ± 0.237
1.63HisGly: 1.63 ± 0.444
0.543HisHis: 0.543 ± 0.228
1.087HisIle: 1.087 ± 0.322
1.178HisLys: 1.178 ± 0.349
1.449HisLeu: 1.449 ± 0.353
0.725HisMet: 0.725 ± 0.305
0.543HisAsn: 0.543 ± 0.22
0.725HisPro: 0.725 ± 0.291
0.453HisGln: 0.453 ± 0.207
1.268HisArg: 1.268 ± 0.335
1.178HisSer: 1.178 ± 0.339
0.634HisThr: 0.634 ± 0.237
0.543HisVal: 0.543 ± 0.22
0.725HisTrp: 0.725 ± 0.259
0.815HisTyr: 0.815 ± 0.244
0.0HisXaa: 0.0 ± 0.0
Ile
4.257IleAla: 4.257 ± 0.513
1.449IleCys: 1.449 ± 0.356
5.163IleAsp: 5.163 ± 0.578
6.341IleGlu: 6.341 ± 0.995
1.268IlePhe: 1.268 ± 0.337
4.438IleGly: 4.438 ± 0.574
0.996IleHis: 0.996 ± 0.337
3.442IleIle: 3.442 ± 0.676
4.982IleLys: 4.982 ± 0.764
3.261IleLeu: 3.261 ± 0.486
1.902IleMet: 1.902 ± 0.316
3.261IleAsn: 3.261 ± 0.468
2.899IlePro: 2.899 ± 0.532
1.812IleGln: 1.812 ± 0.335
1.902IleArg: 1.902 ± 0.435
4.167IleSer: 4.167 ± 0.706
3.623IleThr: 3.623 ± 0.531
2.899IleVal: 2.899 ± 0.533
0.996IleTrp: 0.996 ± 0.251
1.449IleTyr: 1.449 ± 0.324
0.0IleXaa: 0.0 ± 0.0
Lys
5.072LysAla: 5.072 ± 0.552
1.178LysCys: 1.178 ± 0.523
3.714LysAsp: 3.714 ± 0.626
6.069LysGlu: 6.069 ± 0.854
2.536LysPhe: 2.536 ± 0.539
3.442LysGly: 3.442 ± 0.531
1.54LysHis: 1.54 ± 0.434
3.804LysIle: 3.804 ± 0.523
6.341LysLys: 6.341 ± 0.91
7.246LysLeu: 7.246 ± 1.133
3.261LysMet: 3.261 ± 0.516
2.899LysAsn: 2.899 ± 0.549
2.536LysPro: 2.536 ± 0.506
2.989LysGln: 2.989 ± 0.549
4.076LysArg: 4.076 ± 0.715
5.797LysSer: 5.797 ± 1.264
4.348LysThr: 4.348 ± 0.686
4.167LysVal: 4.167 ± 0.682
1.902LysTrp: 1.902 ± 0.385
2.174LysTyr: 2.174 ± 0.418
0.0LysXaa: 0.0 ± 0.0
Leu
6.884LeuAla: 6.884 ± 1.114
1.993LeuCys: 1.993 ± 0.518
4.982LeuAsp: 4.982 ± 0.634
6.159LeuGlu: 6.159 ± 0.741
2.355LeuPhe: 2.355 ± 0.49
5.978LeuGly: 5.978 ± 0.842
1.359LeuHis: 1.359 ± 0.384
4.348LeuIle: 4.348 ± 0.775
5.707LeuLys: 5.707 ± 0.895
4.71LeuLeu: 4.71 ± 0.766
2.355LeuMet: 2.355 ± 0.397
4.982LeuAsn: 4.982 ± 0.613
2.446LeuPro: 2.446 ± 0.517
2.355LeuGln: 2.355 ± 0.538
3.714LeuArg: 3.714 ± 0.579
6.793LeuSer: 6.793 ± 0.863
3.714LeuThr: 3.714 ± 0.515
3.533LeuVal: 3.533 ± 0.676
0.815LeuTrp: 0.815 ± 0.241
2.536LeuTyr: 2.536 ± 0.536
0.0LeuXaa: 0.0 ± 0.0
Met
3.533MetAla: 3.533 ± 0.627
0.634MetCys: 0.634 ± 0.254
1.54MetAsp: 1.54 ± 0.324
2.264MetGlu: 2.264 ± 0.601
1.63MetPhe: 1.63 ± 0.358
1.902MetGly: 1.902 ± 0.442
0.453MetHis: 0.453 ± 0.205
1.721MetIle: 1.721 ± 0.446
2.899MetLys: 2.899 ± 0.587
2.174MetLeu: 2.174 ± 0.428
0.634MetMet: 0.634 ± 0.261
1.721MetAsn: 1.721 ± 0.354
0.815MetPro: 0.815 ± 0.249
1.54MetGln: 1.54 ± 0.35
1.449MetArg: 1.449 ± 0.38
3.08MetSer: 3.08 ± 0.631
1.812MetThr: 1.812 ± 0.398
1.993MetVal: 1.993 ± 0.383
0.362MetTrp: 0.362 ± 0.175
0.634MetTyr: 0.634 ± 0.209
0.0MetXaa: 0.0 ± 0.0
Asn
3.623AsnAla: 3.623 ± 0.618
0.634AsnCys: 0.634 ± 0.221
2.717AsnAsp: 2.717 ± 0.562
3.261AsnGlu: 3.261 ± 0.545
1.902AsnPhe: 1.902 ± 0.409
4.348AsnGly: 4.348 ± 0.697
1.359AsnHis: 1.359 ± 0.368
2.989AsnIle: 2.989 ± 0.461
4.167AsnLys: 4.167 ± 0.551
4.348AsnLeu: 4.348 ± 0.66
1.359AsnMet: 1.359 ± 0.354
3.08AsnAsn: 3.08 ± 0.493
2.083AsnPro: 2.083 ± 0.553
3.08AsnGln: 3.08 ± 0.687
1.812AsnArg: 1.812 ± 0.374
3.442AsnSer: 3.442 ± 0.657
2.174AsnThr: 2.174 ± 0.531
3.623AsnVal: 3.623 ± 0.577
1.268AsnTrp: 1.268 ± 0.347
2.264AsnTyr: 2.264 ± 0.348
0.0AsnXaa: 0.0 ± 0.0
Pro
2.446ProAla: 2.446 ± 0.53
0.272ProCys: 0.272 ± 0.143
1.449ProAsp: 1.449 ± 0.323
3.261ProGlu: 3.261 ± 0.745
1.449ProPhe: 1.449 ± 0.291
1.178ProGly: 1.178 ± 0.323
0.725ProHis: 0.725 ± 0.248
1.902ProIle: 1.902 ± 0.459
1.268ProLys: 1.268 ± 0.305
1.902ProLeu: 1.902 ± 0.468
1.268ProMet: 1.268 ± 0.365
1.268ProAsn: 1.268 ± 0.363
1.087ProPro: 1.087 ± 0.238
1.087ProGln: 1.087 ± 0.463
0.906ProArg: 0.906 ± 0.287
2.174ProSer: 2.174 ± 0.342
2.446ProThr: 2.446 ± 0.514
3.17ProVal: 3.17 ± 0.626
0.181ProTrp: 0.181 ± 0.125
1.359ProTyr: 1.359 ± 0.286
0.0ProXaa: 0.0 ± 0.0
Gln
3.623GlnAla: 3.623 ± 0.785
0.543GlnCys: 0.543 ± 0.227
2.355GlnAsp: 2.355 ± 0.357
2.989GlnGlu: 2.989 ± 0.647
1.268GlnPhe: 1.268 ± 0.364
2.083GlnGly: 2.083 ± 0.532
0.634GlnHis: 0.634 ± 0.246
2.627GlnIle: 2.627 ± 0.624
2.536GlnLys: 2.536 ± 0.464
3.442GlnLeu: 3.442 ± 0.641
1.359GlnMet: 1.359 ± 0.349
1.359GlnAsn: 1.359 ± 0.363
1.268GlnPro: 1.268 ± 0.365
2.355GlnGln: 2.355 ± 0.927
0.815GlnArg: 0.815 ± 0.306
2.717GlnSer: 2.717 ± 0.476
1.993GlnThr: 1.993 ± 0.454
2.808GlnVal: 2.808 ± 0.464
0.725GlnTrp: 0.725 ± 0.248
1.449GlnTyr: 1.449 ± 0.444
0.0GlnXaa: 0.0 ± 0.0
Arg
3.442ArgAla: 3.442 ± 0.697
0.453ArgCys: 0.453 ± 0.213
2.536ArgAsp: 2.536 ± 0.458
3.261ArgGlu: 3.261 ± 0.592
1.721ArgPhe: 1.721 ± 0.428
3.351ArgGly: 3.351 ± 0.48
0.725ArgHis: 0.725 ± 0.25
3.351ArgIle: 3.351 ± 0.529
3.17ArgLys: 3.17 ± 0.476
3.08ArgLeu: 3.08 ± 0.514
1.993ArgMet: 1.993 ± 0.483
2.536ArgAsn: 2.536 ± 0.669
0.815ArgPro: 0.815 ± 0.351
1.902ArgGln: 1.902 ± 0.479
2.264ArgArg: 2.264 ± 0.4
1.902ArgSer: 1.902 ± 0.438
1.812ArgThr: 1.812 ± 0.368
3.08ArgVal: 3.08 ± 0.624
0.362ArgTrp: 0.362 ± 0.202
0.725ArgTyr: 0.725 ± 0.296
0.0ArgXaa: 0.0 ± 0.0
Ser
4.257SerAla: 4.257 ± 0.783
0.815SerCys: 0.815 ± 0.291
4.71SerAsp: 4.71 ± 0.677
3.986SerGlu: 3.986 ± 0.501
1.721SerPhe: 1.721 ± 0.393
5.888SerGly: 5.888 ± 0.79
1.721SerHis: 1.721 ± 0.422
4.167SerIle: 4.167 ± 0.652
5.435SerLys: 5.435 ± 0.689
4.891SerLeu: 4.891 ± 0.768
1.993SerMet: 1.993 ± 0.472
3.895SerAsn: 3.895 ± 0.698
2.083SerPro: 2.083 ± 0.428
2.808SerGln: 2.808 ± 0.507
3.261SerArg: 3.261 ± 0.409
4.801SerSer: 4.801 ± 0.778
4.438SerThr: 4.438 ± 0.663
5.525SerVal: 5.525 ± 0.781
0.906SerTrp: 0.906 ± 0.281
1.993SerTyr: 1.993 ± 0.457
0.0SerXaa: 0.0 ± 0.0
Thr
5.072ThrAla: 5.072 ± 0.958
0.181ThrCys: 0.181 ± 0.129
3.714ThrAsp: 3.714 ± 0.472
4.62ThrGlu: 4.62 ± 0.615
1.902ThrPhe: 1.902 ± 0.456
4.348ThrGly: 4.348 ± 0.511
0.815ThrHis: 0.815 ± 0.331
3.08ThrIle: 3.08 ± 0.482
2.717ThrLys: 2.717 ± 0.537
4.167ThrLeu: 4.167 ± 0.638
1.449ThrMet: 1.449 ± 0.49
2.536ThrAsn: 2.536 ± 0.351
2.808ThrPro: 2.808 ± 0.593
2.083ThrGln: 2.083 ± 0.5
1.54ThrArg: 1.54 ± 0.328
3.714ThrSer: 3.714 ± 0.586
3.442ThrThr: 3.442 ± 0.637
3.442ThrVal: 3.442 ± 0.532
0.453ThrTrp: 0.453 ± 0.201
2.083ThrTyr: 2.083 ± 0.5
0.0ThrXaa: 0.0 ± 0.0
Val
5.616ValAla: 5.616 ± 0.797
0.725ValCys: 0.725 ± 0.286
3.08ValAsp: 3.08 ± 0.566
4.076ValGlu: 4.076 ± 0.615
2.627ValPhe: 2.627 ± 0.555
4.076ValGly: 4.076 ± 0.721
0.634ValHis: 0.634 ± 0.227
4.62ValIle: 4.62 ± 0.696
4.982ValLys: 4.982 ± 0.706
4.529ValLeu: 4.529 ± 0.732
2.446ValMet: 2.446 ± 0.503
4.801ValAsn: 4.801 ± 0.808
1.54ValPro: 1.54 ± 0.273
1.359ValGln: 1.359 ± 0.368
2.717ValArg: 2.717 ± 0.461
4.71ValSer: 4.71 ± 0.502
3.623ValThr: 3.623 ± 0.558
4.438ValVal: 4.438 ± 0.617
0.362ValTrp: 0.362 ± 0.234
2.264ValTyr: 2.264 ± 0.462
0.0ValXaa: 0.0 ± 0.0
Trp
1.178TrpAla: 1.178 ± 0.259
0.272TrpCys: 0.272 ± 0.161
0.543TrpAsp: 0.543 ± 0.191
1.359TrpGlu: 1.359 ± 0.344
0.453TrpPhe: 0.453 ± 0.219
0.543TrpGly: 0.543 ± 0.191
0.634TrpHis: 0.634 ± 0.263
1.268TrpIle: 1.268 ± 0.342
0.815TrpLys: 0.815 ± 0.255
1.902TrpLeu: 1.902 ± 0.373
0.362TrpMet: 0.362 ± 0.181
0.543TrpAsn: 0.543 ± 0.199
0.272TrpPro: 0.272 ± 0.145
0.815TrpGln: 0.815 ± 0.268
0.996TrpArg: 0.996 ± 0.339
0.815TrpSer: 0.815 ± 0.243
0.453TrpThr: 0.453 ± 0.191
0.362TrpVal: 0.362 ± 0.175
0.181TrpTrp: 0.181 ± 0.117
0.543TrpTyr: 0.543 ± 0.282
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.17TyrAla: 3.17 ± 0.449
0.362TyrCys: 0.362 ± 0.238
1.721TyrAsp: 1.721 ± 0.463
2.264TyrGlu: 2.264 ± 0.418
1.54TyrPhe: 1.54 ± 0.346
3.08TyrGly: 3.08 ± 0.516
0.815TyrHis: 0.815 ± 0.323
1.359TyrIle: 1.359 ± 0.358
2.717TyrLys: 2.717 ± 0.533
2.264TyrLeu: 2.264 ± 0.472
0.906TyrMet: 0.906 ± 0.298
2.264TyrAsn: 2.264 ± 0.495
1.268TyrPro: 1.268 ± 0.266
1.721TyrGln: 1.721 ± 0.349
0.906TyrArg: 0.906 ± 0.312
2.264TyrSer: 2.264 ± 0.518
2.446TyrThr: 2.446 ± 0.434
1.902TyrVal: 1.902 ± 0.51
0.272TyrTrp: 0.272 ± 0.185
1.178TyrTyr: 1.178 ± 0.312
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 57 proteins (11041 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