Amino acid dipepetide frequency for Staphylococcus virus phiNM4

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
0.891AlaAla: 0.891 ± 0.27
0.223AlaCys: 0.223 ± 0.134
2.598AlaAsp: 2.598 ± 0.392
4.231AlaGlu: 4.231 ± 0.582
2.895AlaPhe: 2.895 ± 0.654
3.86AlaGly: 3.86 ± 0.78
1.336AlaHis: 1.336 ± 0.285
4.825AlaIle: 4.825 ± 0.599
5.419AlaLys: 5.419 ± 0.618
4.676AlaLeu: 4.676 ± 0.743
1.633AlaMet: 1.633 ± 0.37
3.711AlaAsn: 3.711 ± 0.531
1.707AlaPro: 1.707 ± 0.321
2.895AlaGln: 2.895 ± 0.542
2.45AlaArg: 2.45 ± 0.365
3.414AlaSer: 3.414 ± 0.667
3.934AlaThr: 3.934 ± 0.58
4.008AlaVal: 4.008 ± 0.795
0.965AlaTrp: 0.965 ± 0.408
2.672AlaTyr: 2.672 ± 0.498
0.0AlaXaa: 0.0 ± 0.0
Cys
0.074CysAla: 0.074 ± 0.061
0.0CysCys: 0.0 ± 0.0
0.148CysAsp: 0.148 ± 0.091
0.297CysGlu: 0.297 ± 0.202
0.297CysPhe: 0.297 ± 0.222
0.297CysGly: 0.297 ± 0.138
0.074CysHis: 0.074 ± 0.078
0.297CysIle: 0.297 ± 0.151
0.371CysLys: 0.371 ± 0.163
0.148CysLeu: 0.148 ± 0.096
0.074CysMet: 0.074 ± 0.077
0.297CysAsn: 0.297 ± 0.148
0.148CysPro: 0.148 ± 0.088
0.148CysGln: 0.148 ± 0.099
0.371CysArg: 0.371 ± 0.197
0.445CysSer: 0.445 ± 0.181
0.074CysThr: 0.074 ± 0.07
0.223CysVal: 0.223 ± 0.147
0.074CysTrp: 0.074 ± 0.07
0.223CysTyr: 0.223 ± 0.132
0.0CysXaa: 0.0 ± 0.0
Asp
3.86AspAla: 3.86 ± 0.668
0.223AspCys: 0.223 ± 0.119
5.048AspAsp: 5.048 ± 0.933
4.602AspGlu: 4.602 ± 0.805
3.934AspPhe: 3.934 ± 0.498
4.157AspGly: 4.157 ± 0.484
0.223AspHis: 0.223 ± 0.122
4.528AspIle: 4.528 ± 0.526
5.567AspLys: 5.567 ± 0.761
4.899AspLeu: 4.899 ± 0.563
2.004AspMet: 2.004 ± 0.344
3.489AspAsn: 3.489 ± 0.565
1.039AspPro: 1.039 ± 0.219
0.965AspGln: 0.965 ± 0.318
2.375AspArg: 2.375 ± 0.423
4.083AspSer: 4.083 ± 0.48
3.563AspThr: 3.563 ± 0.48
4.454AspVal: 4.454 ± 0.574
1.113AspTrp: 1.113 ± 0.301
3.118AspTyr: 3.118 ± 0.434
0.0AspXaa: 0.0 ± 0.0
Glu
4.602GluAla: 4.602 ± 0.543
0.445GluCys: 0.445 ± 0.164
3.934GluAsp: 3.934 ± 0.623
5.344GluGlu: 5.344 ± 0.884
3.192GluPhe: 3.192 ± 0.491
3.637GluGly: 3.637 ± 0.484
1.633GluHis: 1.633 ± 0.303
5.196GluIle: 5.196 ± 0.61
7.349GluLys: 7.349 ± 1.068
7.052GluLeu: 7.052 ± 0.802
2.746GluMet: 2.746 ± 0.642
4.528GluAsn: 4.528 ± 0.548
1.93GluPro: 1.93 ± 0.354
3.489GluGln: 3.489 ± 0.635
2.746GluArg: 2.746 ± 0.407
4.305GluSer: 4.305 ± 0.59
2.895GluThr: 2.895 ± 0.373
5.344GluVal: 5.344 ± 0.624
1.113GluTrp: 1.113 ± 0.295
4.231GluTyr: 4.231 ± 0.675
0.0GluXaa: 0.0 ± 0.0
Phe
2.45PheAla: 2.45 ± 0.417
0.297PheCys: 0.297 ± 0.139
3.86PheAsp: 3.86 ± 0.449
3.86PheGlu: 3.86 ± 0.568
1.113PhePhe: 1.113 ± 0.27
2.524PheGly: 2.524 ± 0.601
0.817PheHis: 0.817 ± 0.225
3.043PheIle: 3.043 ± 0.407
4.676PheLys: 4.676 ± 0.595
2.895PheLeu: 2.895 ± 0.472
1.41PheMet: 1.41 ± 0.332
3.489PheAsn: 3.489 ± 0.398
0.817PhePro: 0.817 ± 0.325
0.817PheGln: 0.817 ± 0.319
1.633PheArg: 1.633 ± 0.303
2.746PheSer: 2.746 ± 0.517
2.746PheThr: 2.746 ± 0.461
2.821PheVal: 2.821 ± 0.482
0.297PheTrp: 0.297 ± 0.119
2.301PheTyr: 2.301 ± 0.357
0.0PheXaa: 0.0 ± 0.0
Gly
4.008GlyAla: 4.008 ± 0.551
0.223GlyCys: 0.223 ± 0.135
3.414GlyAsp: 3.414 ± 0.508
3.34GlyGlu: 3.34 ± 0.469
2.672GlyPhe: 2.672 ± 0.393
2.895GlyGly: 2.895 ± 0.59
2.004GlyHis: 2.004 ± 0.474
4.454GlyIle: 4.454 ± 0.522
5.048GlyLys: 5.048 ± 0.484
4.157GlyLeu: 4.157 ± 0.665
1.93GlyMet: 1.93 ± 0.393
3.192GlyAsn: 3.192 ± 0.658
0.594GlyPro: 0.594 ± 0.21
2.821GlyGln: 2.821 ± 0.489
2.45GlyArg: 2.45 ± 0.442
2.672GlySer: 2.672 ± 0.49
3.86GlyThr: 3.86 ± 0.544
5.567GlyVal: 5.567 ± 0.77
0.891GlyTrp: 0.891 ± 0.352
2.895GlyTyr: 2.895 ± 0.555
0.0GlyXaa: 0.0 ± 0.0
His
1.188HisAla: 1.188 ± 0.295
0.0HisCys: 0.0 ± 0.0
0.891HisAsp: 0.891 ± 0.195
1.039HisGlu: 1.039 ± 0.256
0.891HisPhe: 0.891 ± 0.251
1.188HisGly: 1.188 ± 0.27
0.445HisHis: 0.445 ± 0.21
1.188HisIle: 1.188 ± 0.356
1.336HisLys: 1.336 ± 0.26
1.41HisLeu: 1.41 ± 0.331
0.297HisMet: 0.297 ± 0.123
1.113HisAsn: 1.113 ± 0.296
0.817HisPro: 0.817 ± 0.294
0.742HisGln: 0.742 ± 0.249
0.742HisArg: 0.742 ± 0.274
1.336HisSer: 1.336 ± 0.288
1.113HisThr: 1.113 ± 0.29
1.336HisVal: 1.336 ± 0.294
0.148HisTrp: 0.148 ± 0.102
1.039HisTyr: 1.039 ± 0.349
0.0HisXaa: 0.0 ± 0.0
Ile
4.231IleAla: 4.231 ± 0.575
0.148IleCys: 0.148 ± 0.108
5.493IleAsp: 5.493 ± 0.785
7.645IleGlu: 7.645 ± 0.907
2.672IlePhe: 2.672 ± 0.395
4.899IleGly: 4.899 ± 0.832
1.113IleHis: 1.113 ± 0.263
3.192IleIle: 3.192 ± 0.494
8.314IleLys: 8.314 ± 0.725
4.379IleLeu: 4.379 ± 0.631
2.45IleMet: 2.45 ± 0.506
5.048IleAsn: 5.048 ± 0.747
1.93IlePro: 1.93 ± 0.345
2.821IleGln: 2.821 ± 0.445
3.043IleArg: 3.043 ± 0.575
4.083IleSer: 4.083 ± 0.659
4.676IleThr: 4.676 ± 0.672
3.86IleVal: 3.86 ± 0.44
0.891IleTrp: 0.891 ± 0.387
3.34IleTyr: 3.34 ± 0.665
0.0IleXaa: 0.0 ± 0.0
Lys
5.864LysAla: 5.864 ± 0.648
0.594LysCys: 0.594 ± 0.242
5.567LysAsp: 5.567 ± 0.711
7.349LysGlu: 7.349 ± 0.866
4.157LysPhe: 4.157 ± 0.492
5.344LysGly: 5.344 ± 0.666
2.227LysHis: 2.227 ± 0.391
6.681LysIle: 6.681 ± 0.611
8.165LysLys: 8.165 ± 1.065
6.606LysLeu: 6.606 ± 0.673
3.043LysMet: 3.043 ± 0.45
6.309LysAsn: 6.309 ± 0.877
2.969LysPro: 2.969 ± 0.608
4.008LysGln: 4.008 ± 0.679
3.86LysArg: 3.86 ± 0.657
5.27LysSer: 5.27 ± 0.568
5.048LysThr: 5.048 ± 0.621
4.825LysVal: 4.825 ± 0.511
1.113LysTrp: 1.113 ± 0.324
4.676LysTyr: 4.676 ± 0.75
0.0LysXaa: 0.0 ± 0.0
Leu
4.008LeuAla: 4.008 ± 0.645
0.223LeuCys: 0.223 ± 0.143
5.419LeuAsp: 5.419 ± 0.575
5.716LeuGlu: 5.716 ± 0.78
3.489LeuPhe: 3.489 ± 0.54
3.637LeuGly: 3.637 ± 0.65
1.039LeuHis: 1.039 ± 0.305
5.641LeuIle: 5.641 ± 0.599
7.645LeuLys: 7.645 ± 0.69
4.973LeuLeu: 4.973 ± 0.546
1.559LeuMet: 1.559 ± 0.438
5.344LeuAsn: 5.344 ± 0.499
2.153LeuPro: 2.153 ± 0.381
2.746LeuGln: 2.746 ± 0.391
3.266LeuArg: 3.266 ± 0.514
4.454LeuSer: 4.454 ± 0.564
4.157LeuThr: 4.157 ± 0.543
3.637LeuVal: 3.637 ± 0.481
0.371LeuTrp: 0.371 ± 0.188
4.083LeuTyr: 4.083 ± 0.56
0.0LeuXaa: 0.0 ± 0.0
Met
2.45MetAla: 2.45 ± 0.518
0.223MetCys: 0.223 ± 0.154
1.262MetAsp: 1.262 ± 0.311
1.41MetGlu: 1.41 ± 0.37
1.262MetPhe: 1.262 ± 0.29
1.113MetGly: 1.113 ± 0.271
0.223MetHis: 0.223 ± 0.123
1.633MetIle: 1.633 ± 0.294
2.153MetLys: 2.153 ± 0.41
2.078MetLeu: 2.078 ± 0.366
0.668MetMet: 0.668 ± 0.227
1.781MetAsn: 1.781 ± 0.386
1.41MetPro: 1.41 ± 0.331
1.485MetGln: 1.485 ± 0.409
1.113MetArg: 1.113 ± 0.263
1.707MetSer: 1.707 ± 0.433
2.672MetThr: 2.672 ± 0.468
0.817MetVal: 0.817 ± 0.248
0.445MetTrp: 0.445 ± 0.165
1.113MetTyr: 1.113 ± 0.294
0.0MetXaa: 0.0 ± 0.0
Asn
3.86AsnAla: 3.86 ± 0.674
0.148AsnCys: 0.148 ± 0.117
4.528AsnAsp: 4.528 ± 0.663
4.825AsnGlu: 4.825 ± 0.529
2.746AsnPhe: 2.746 ± 0.47
5.048AsnGly: 5.048 ± 0.719
0.965AsnHis: 0.965 ± 0.296
4.379AsnIle: 4.379 ± 0.456
6.161AsnLys: 6.161 ± 0.839
3.711AsnLeu: 3.711 ± 0.536
1.781AsnMet: 1.781 ± 0.342
5.493AsnAsn: 5.493 ± 0.762
3.118AsnPro: 3.118 ± 0.423
2.45AsnGln: 2.45 ± 0.363
2.598AsnArg: 2.598 ± 0.421
3.266AsnSer: 3.266 ± 0.407
3.266AsnThr: 3.266 ± 0.48
4.379AsnVal: 4.379 ± 0.709
0.668AsnTrp: 0.668 ± 0.216
2.598AsnTyr: 2.598 ± 0.604
0.0AsnXaa: 0.0 ± 0.0
Pro
1.633ProAla: 1.633 ± 0.332
0.148ProCys: 0.148 ± 0.092
1.559ProAsp: 1.559 ± 0.279
2.227ProGlu: 2.227 ± 0.376
1.113ProPhe: 1.113 ± 0.295
1.707ProGly: 1.707 ± 0.439
0.297ProHis: 0.297 ± 0.151
2.672ProIle: 2.672 ± 0.4
2.895ProLys: 2.895 ± 0.539
1.856ProLeu: 1.856 ± 0.449
0.742ProMet: 0.742 ± 0.221
2.078ProAsn: 2.078 ± 0.409
0.668ProPro: 0.668 ± 0.26
1.262ProGln: 1.262 ± 0.333
0.52ProArg: 0.52 ± 0.228
1.336ProSer: 1.336 ± 0.326
2.821ProThr: 2.821 ± 0.516
1.188ProVal: 1.188 ± 0.234
0.148ProTrp: 0.148 ± 0.108
1.781ProTyr: 1.781 ± 0.496
0.0ProXaa: 0.0 ± 0.0
Gln
3.266GlnAla: 3.266 ± 0.524
0.297GlnCys: 0.297 ± 0.183
1.781GlnAsp: 1.781 ± 0.378
2.672GlnGlu: 2.672 ± 0.489
2.153GlnPhe: 2.153 ± 0.523
2.524GlnGly: 2.524 ± 0.303
0.965GlnHis: 0.965 ± 0.222
2.746GlnIle: 2.746 ± 0.381
2.524GlnLys: 2.524 ± 0.396
2.895GlnLeu: 2.895 ± 0.491
0.742GlnMet: 0.742 ± 0.262
2.301GlnAsn: 2.301 ± 0.418
1.113GlnPro: 1.113 ± 0.254
1.559GlnGln: 1.559 ± 0.415
1.93GlnArg: 1.93 ± 0.49
2.227GlnSer: 2.227 ± 0.405
2.004GlnThr: 2.004 ± 0.394
2.375GlnVal: 2.375 ± 0.403
0.223GlnTrp: 0.223 ± 0.121
1.559GlnTyr: 1.559 ± 0.33
0.0GlnXaa: 0.0 ± 0.0
Arg
2.227ArgAla: 2.227 ± 0.319
0.297ArgCys: 0.297 ± 0.149
3.118ArgAsp: 3.118 ± 0.483
3.043ArgGlu: 3.043 ± 0.426
1.856ArgPhe: 1.856 ± 0.424
1.707ArgGly: 1.707 ± 0.35
1.188ArgHis: 1.188 ± 0.247
3.637ArgIle: 3.637 ± 0.455
4.231ArgLys: 4.231 ± 0.539
4.008ArgLeu: 4.008 ± 0.595
0.817ArgMet: 0.817 ± 0.243
2.746ArgAsn: 2.746 ± 0.359
1.039ArgPro: 1.039 ± 0.253
1.336ArgGln: 1.336 ± 0.348
1.633ArgArg: 1.633 ± 0.362
0.965ArgSer: 0.965 ± 0.249
1.188ArgThr: 1.188 ± 0.282
2.004ArgVal: 2.004 ± 0.314
0.445ArgTrp: 0.445 ± 0.184
2.375ArgTyr: 2.375 ± 0.453
0.0ArgXaa: 0.0 ± 0.0
Ser
3.786SerAla: 3.786 ± 0.513
0.0SerCys: 0.0 ± 0.0
3.86SerAsp: 3.86 ± 0.577
3.414SerGlu: 3.414 ± 0.557
2.969SerPhe: 2.969 ± 0.49
3.86SerGly: 3.86 ± 0.65
0.594SerHis: 0.594 ± 0.186
5.716SerIle: 5.716 ± 0.774
5.27SerLys: 5.27 ± 0.6
3.711SerLeu: 3.711 ± 0.537
1.781SerMet: 1.781 ± 0.314
3.118SerAsn: 3.118 ± 0.477
1.336SerPro: 1.336 ± 0.43
2.821SerGln: 2.821 ± 0.535
2.301SerArg: 2.301 ± 0.381
3.786SerSer: 3.786 ± 0.557
3.414SerThr: 3.414 ± 0.473
3.414SerVal: 3.414 ± 0.54
0.52SerTrp: 0.52 ± 0.228
1.781SerTyr: 1.781 ± 0.32
0.0SerXaa: 0.0 ± 0.0
Thr
2.895ThrAla: 2.895 ± 0.397
0.148ThrCys: 0.148 ± 0.106
3.414ThrAsp: 3.414 ± 0.484
3.786ThrGlu: 3.786 ± 0.522
2.672ThrPhe: 2.672 ± 0.538
3.711ThrGly: 3.711 ± 0.447
1.41ThrHis: 1.41 ± 0.35
5.27ThrIle: 5.27 ± 0.76
5.196ThrLys: 5.196 ± 0.635
4.676ThrLeu: 4.676 ± 0.602
1.039ThrMet: 1.039 ± 0.276
4.083ThrAsn: 4.083 ± 0.65
1.707ThrPro: 1.707 ± 0.367
1.856ThrGln: 1.856 ± 0.452
2.45ThrArg: 2.45 ± 0.465
4.305ThrSer: 4.305 ± 0.868
3.414ThrThr: 3.414 ± 0.544
3.266ThrVal: 3.266 ± 0.476
0.52ThrTrp: 0.52 ± 0.185
2.301ThrTyr: 2.301 ± 0.469
0.0ThrXaa: 0.0 ± 0.0
Val
3.711ValAla: 3.711 ± 0.821
0.148ValCys: 0.148 ± 0.1
4.454ValAsp: 4.454 ± 0.665
6.384ValGlu: 6.384 ± 0.602
1.93ValPhe: 1.93 ± 0.397
3.192ValGly: 3.192 ± 0.475
0.668ValHis: 0.668 ± 0.234
4.973ValIle: 4.973 ± 0.519
6.012ValLys: 6.012 ± 0.78
4.825ValLeu: 4.825 ± 0.583
1.262ValMet: 1.262 ± 0.26
3.414ValAsn: 3.414 ± 0.477
2.746ValPro: 2.746 ± 0.576
1.559ValGln: 1.559 ± 0.395
2.004ValArg: 2.004 ± 0.385
3.711ValSer: 3.711 ± 0.747
3.489ValThr: 3.489 ± 0.536
4.973ValVal: 4.973 ± 0.712
0.668ValTrp: 0.668 ± 0.215
2.153ValTyr: 2.153 ± 0.465
0.0ValXaa: 0.0 ± 0.0
Trp
0.891TrpAla: 0.891 ± 0.313
0.074TrpCys: 0.074 ± 0.07
0.445TrpAsp: 0.445 ± 0.166
0.668TrpGlu: 0.668 ± 0.183
0.668TrpPhe: 0.668 ± 0.179
0.817TrpGly: 0.817 ± 0.315
0.148TrpHis: 0.148 ± 0.107
0.52TrpIle: 0.52 ± 0.228
0.965TrpLys: 0.965 ± 0.246
0.891TrpLeu: 0.891 ± 0.244
0.223TrpMet: 0.223 ± 0.127
0.891TrpAsn: 0.891 ± 0.244
0.074TrpPro: 0.074 ± 0.067
0.594TrpGln: 0.594 ± 0.206
0.445TrpArg: 0.445 ± 0.212
0.817TrpSer: 0.817 ± 0.345
0.817TrpThr: 0.817 ± 0.218
0.817TrpVal: 0.817 ± 0.239
0.0TrpTrp: 0.0 ± 0.0
0.668TrpTyr: 0.668 ± 0.237
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.45TyrAla: 2.45 ± 0.42
0.223TyrCys: 0.223 ± 0.121
2.45TyrAsp: 2.45 ± 0.608
3.86TyrGlu: 3.86 ± 0.672
1.93TyrPhe: 1.93 ± 0.453
2.969TyrGly: 2.969 ± 0.632
0.891TyrHis: 0.891 ± 0.302
3.711TyrIle: 3.711 ± 0.57
4.379TyrLys: 4.379 ± 0.613
3.711TyrLeu: 3.711 ± 0.669
0.742TyrMet: 0.742 ± 0.258
3.563TyrAsn: 3.563 ± 0.477
1.336TyrPro: 1.336 ± 0.361
1.485TyrGln: 1.485 ± 0.312
1.93TyrArg: 1.93 ± 0.488
2.524TyrSer: 2.524 ± 0.425
2.969TyrThr: 2.969 ± 0.525
2.969TyrVal: 2.969 ± 0.46
0.817TyrTrp: 0.817 ± 0.242
1.633TyrTyr: 1.633 ± 0.385
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 68 proteins (13473 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