Amino acid dipepetide frequency for Staphylococcus phage PVL

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
2.1AlaAla: 2.1 ± 0.608
0.485AlaCys: 0.485 ± 0.197
1.858AlaAsp: 1.858 ± 0.323
3.15AlaGlu: 3.15 ± 0.544
2.584AlaPhe: 2.584 ± 0.521
4.2AlaGly: 4.2 ± 0.838
0.485AlaHis: 0.485 ± 0.226
3.877AlaIle: 3.877 ± 0.472
4.119AlaLys: 4.119 ± 0.651
4.846AlaLeu: 4.846 ± 0.781
1.777AlaMet: 1.777 ± 0.377
3.15AlaAsn: 3.15 ± 0.514
1.211AlaPro: 1.211 ± 0.286
2.504AlaGln: 2.504 ± 0.633
2.827AlaArg: 2.827 ± 0.49
3.392AlaSer: 3.392 ± 0.526
3.715AlaThr: 3.715 ± 0.587
2.827AlaVal: 2.827 ± 0.409
0.646AlaTrp: 0.646 ± 0.29
2.019AlaTyr: 2.019 ± 0.402
0.0AlaXaa: 0.0 ± 0.0
Cys
0.162CysAla: 0.162 ± 0.109
0.0CysCys: 0.0 ± 0.0
0.162CysAsp: 0.162 ± 0.141
0.162CysGlu: 0.162 ± 0.13
0.242CysPhe: 0.242 ± 0.139
0.242CysGly: 0.242 ± 0.154
0.242CysHis: 0.242 ± 0.133
0.888CysIle: 0.888 ± 0.257
0.323CysLys: 0.323 ± 0.161
0.565CysLeu: 0.565 ± 0.213
0.0CysMet: 0.0 ± 0.0
0.565CysAsn: 0.565 ± 0.233
0.0CysPro: 0.0 ± 0.0
0.0CysGln: 0.0 ± 0.0
0.162CysArg: 0.162 ± 0.117
0.323CysSer: 0.323 ± 0.156
0.323CysThr: 0.323 ± 0.144
0.485CysVal: 0.485 ± 0.174
0.0CysTrp: 0.0 ± 0.0
0.727CysTyr: 0.727 ± 0.267
0.0CysXaa: 0.0 ± 0.0
Asp
3.069AspAla: 3.069 ± 0.479
0.404AspCys: 0.404 ± 0.182
3.715AspAsp: 3.715 ± 0.587
5.25AspGlu: 5.25 ± 0.781
2.988AspPhe: 2.988 ± 0.522
3.554AspGly: 3.554 ± 0.647
0.888AspHis: 0.888 ± 0.24
4.603AspIle: 4.603 ± 0.745
5.896AspLys: 5.896 ± 0.734
4.927AspLeu: 4.927 ± 0.666
1.615AspMet: 1.615 ± 0.336
4.361AspAsn: 4.361 ± 0.595
1.454AspPro: 1.454 ± 0.454
0.808AspGln: 0.808 ± 0.24
2.584AspArg: 2.584 ± 0.556
3.877AspSer: 3.877 ± 0.749
4.361AspThr: 4.361 ± 0.671
3.877AspVal: 3.877 ± 0.774
0.565AspTrp: 0.565 ± 0.214
2.988AspTyr: 2.988 ± 0.373
0.0AspXaa: 0.0 ± 0.0
Glu
3.715GluAla: 3.715 ± 0.718
0.485GluCys: 0.485 ± 0.176
3.23GluAsp: 3.23 ± 0.502
6.138GluGlu: 6.138 ± 0.803
2.907GluPhe: 2.907 ± 0.499
2.423GluGly: 2.423 ± 0.503
0.969GluHis: 0.969 ± 0.245
6.542GluIle: 6.542 ± 0.978
6.38GluLys: 6.38 ± 0.98
6.219GluLeu: 6.219 ± 0.859
2.665GluMet: 2.665 ± 0.499
5.411GluAsn: 5.411 ± 0.631
1.777GluPro: 1.777 ± 0.356
3.877GluGln: 3.877 ± 0.687
3.715GluArg: 3.715 ± 0.571
4.361GluSer: 4.361 ± 0.581
3.311GluThr: 3.311 ± 0.428
4.523GluVal: 4.523 ± 0.539
0.646GluTrp: 0.646 ± 0.233
3.311GluTyr: 3.311 ± 0.559
0.0GluXaa: 0.0 ± 0.0
Phe
1.777PheAla: 1.777 ± 0.343
0.242PheCys: 0.242 ± 0.15
2.665PheAsp: 2.665 ± 0.394
2.342PheGlu: 2.342 ± 0.422
1.131PhePhe: 1.131 ± 0.299
2.665PheGly: 2.665 ± 0.481
0.727PheHis: 0.727 ± 0.271
3.634PheIle: 3.634 ± 0.666
4.28PheLys: 4.28 ± 0.561
2.827PheLeu: 2.827 ± 0.514
1.373PheMet: 1.373 ± 0.371
4.442PheAsn: 4.442 ± 0.56
0.727PhePro: 0.727 ± 0.237
1.05PheGln: 1.05 ± 0.266
1.454PheArg: 1.454 ± 0.34
2.1PheSer: 2.1 ± 0.395
2.504PheThr: 2.504 ± 0.53
2.019PheVal: 2.019 ± 0.508
0.162PheTrp: 0.162 ± 0.1
1.615PheTyr: 1.615 ± 0.348
0.0PheXaa: 0.0 ± 0.0
Gly
3.311GlyAla: 3.311 ± 0.79
0.242GlyCys: 0.242 ± 0.133
2.665GlyAsp: 2.665 ± 0.448
3.473GlyGlu: 3.473 ± 0.521
2.746GlyPhe: 2.746 ± 0.506
3.23GlyGly: 3.23 ± 0.704
1.777GlyHis: 1.777 ± 0.361
4.119GlyIle: 4.119 ± 0.797
5.007GlyLys: 5.007 ± 0.83
5.25GlyLeu: 5.25 ± 0.92
1.211GlyMet: 1.211 ± 0.383
3.877GlyAsn: 3.877 ± 0.671
0.969GlyPro: 0.969 ± 0.295
2.423GlyGln: 2.423 ± 0.436
2.423GlyArg: 2.423 ± 0.436
3.554GlySer: 3.554 ± 0.46
2.665GlyThr: 2.665 ± 0.428
3.554GlyVal: 3.554 ± 0.561
1.211GlyTrp: 1.211 ± 0.294
3.311GlyTyr: 3.311 ± 0.59
0.0GlyXaa: 0.0 ± 0.0
His
0.808HisAla: 0.808 ± 0.234
0.081HisCys: 0.081 ± 0.086
0.888HisAsp: 0.888 ± 0.214
1.696HisGlu: 1.696 ± 0.374
0.888HisPhe: 0.888 ± 0.263
0.808HisGly: 0.808 ± 0.267
0.081HisHis: 0.081 ± 0.08
1.777HisIle: 1.777 ± 0.439
1.05HisLys: 1.05 ± 0.254
1.534HisLeu: 1.534 ± 0.336
0.485HisMet: 0.485 ± 0.22
0.888HisAsn: 0.888 ± 0.262
0.404HisPro: 0.404 ± 0.176
0.808HisGln: 0.808 ± 0.357
0.646HisArg: 0.646 ± 0.185
1.131HisSer: 1.131 ± 0.228
1.211HisThr: 1.211 ± 0.441
1.131HisVal: 1.131 ± 0.292
0.242HisTrp: 0.242 ± 0.112
0.565HisTyr: 0.565 ± 0.179
0.0HisXaa: 0.0 ± 0.0
Ile
4.927IleAla: 4.927 ± 0.548
0.323IleCys: 0.323 ± 0.161
5.411IleAsp: 5.411 ± 0.66
6.219IleGlu: 6.219 ± 0.762
2.827IlePhe: 2.827 ± 0.715
4.038IleGly: 4.038 ± 0.567
1.534IleHis: 1.534 ± 0.324
5.169IleIle: 5.169 ± 0.764
8.157IleLys: 8.157 ± 0.809
4.846IleLeu: 4.846 ± 0.609
1.696IleMet: 1.696 ± 0.371
7.43IleAsn: 7.43 ± 0.975
1.938IlePro: 1.938 ± 0.291
3.15IleGln: 3.15 ± 0.509
3.15IleArg: 3.15 ± 0.617
5.007IleSer: 5.007 ± 0.546
5.007IleThr: 5.007 ± 0.556
4.603IleVal: 4.603 ± 0.551
0.808IleTrp: 0.808 ± 0.398
2.665IleTyr: 2.665 ± 0.442
0.0IleXaa: 0.0 ± 0.0
Lys
5.33LysAla: 5.33 ± 0.682
0.162LysCys: 0.162 ± 0.114
5.653LysAsp: 5.653 ± 0.565
6.865LysGlu: 6.865 ± 0.942
3.715LysPhe: 3.715 ± 0.585
5.25LysGly: 5.25 ± 0.784
1.454LysHis: 1.454 ± 0.378
6.219LysIle: 6.219 ± 0.793
7.511LysLys: 7.511 ± 0.671
8.238LysLeu: 8.238 ± 0.916
2.342LysMet: 2.342 ± 0.52
4.038LysAsn: 4.038 ± 0.564
2.584LysPro: 2.584 ± 0.537
4.523LysGln: 4.523 ± 0.716
4.28LysArg: 4.28 ± 0.623
4.765LysSer: 4.765 ± 0.598
6.623LysThr: 6.623 ± 0.813
5.411LysVal: 5.411 ± 0.626
1.292LysTrp: 1.292 ± 0.356
4.927LysTyr: 4.927 ± 0.655
0.0LysXaa: 0.0 ± 0.0
Leu
3.473LeuAla: 3.473 ± 0.63
0.485LeuCys: 0.485 ± 0.192
6.057LeuAsp: 6.057 ± 0.627
7.511LeuGlu: 7.511 ± 0.791
3.473LeuPhe: 3.473 ± 0.502
4.2LeuGly: 4.2 ± 0.708
0.969LeuHis: 0.969 ± 0.229
5.169LeuIle: 5.169 ± 0.653
8.319LeuLys: 8.319 ± 0.937
6.623LeuLeu: 6.623 ± 0.778
1.534LeuMet: 1.534 ± 0.3
5.896LeuAsn: 5.896 ± 0.683
2.342LeuPro: 2.342 ± 0.374
2.907LeuGln: 2.907 ± 0.484
3.634LeuArg: 3.634 ± 0.591
5.815LeuSer: 5.815 ± 0.761
4.603LeuThr: 4.603 ± 0.618
4.361LeuVal: 4.361 ± 0.55
0.727LeuTrp: 0.727 ± 0.275
2.827LeuTyr: 2.827 ± 0.419
0.0LeuXaa: 0.0 ± 0.0
Met
1.131MetAla: 1.131 ± 0.308
0.081MetCys: 0.081 ± 0.075
1.211MetAsp: 1.211 ± 0.273
2.019MetGlu: 2.019 ± 0.408
1.05MetPhe: 1.05 ± 0.256
1.131MetGly: 1.131 ± 0.39
0.162MetHis: 0.162 ± 0.099
1.858MetIle: 1.858 ± 0.32
2.019MetLys: 2.019 ± 0.371
1.858MetLeu: 1.858 ± 0.423
0.969MetMet: 0.969 ± 0.324
1.858MetAsn: 1.858 ± 0.423
1.454MetPro: 1.454 ± 0.396
1.131MetGln: 1.131 ± 0.327
1.534MetArg: 1.534 ± 0.267
2.019MetSer: 2.019 ± 0.307
1.615MetThr: 1.615 ± 0.339
1.454MetVal: 1.454 ± 0.325
0.323MetTrp: 0.323 ± 0.151
1.131MetTyr: 1.131 ± 0.278
0.0MetXaa: 0.0 ± 0.0
Asn
3.554AsnAla: 3.554 ± 0.474
0.162AsnCys: 0.162 ± 0.092
4.765AsnAsp: 4.765 ± 0.656
4.684AsnGlu: 4.684 ± 0.622
2.261AsnPhe: 2.261 ± 0.52
5.492AsnGly: 5.492 ± 0.813
1.131AsnHis: 1.131 ± 0.304
5.573AsnIle: 5.573 ± 0.636
6.542AsnLys: 6.542 ± 0.996
6.219AsnLeu: 6.219 ± 0.593
1.292AsnMet: 1.292 ± 0.274
5.653AsnAsn: 5.653 ± 0.681
2.746AsnPro: 2.746 ± 0.436
3.554AsnGln: 3.554 ± 0.446
2.827AsnArg: 2.827 ± 0.472
3.311AsnSer: 3.311 ± 0.505
3.15AsnThr: 3.15 ± 0.443
4.442AsnVal: 4.442 ± 0.673
0.888AsnTrp: 0.888 ± 0.339
3.311AsnTyr: 3.311 ± 0.581
0.0AsnXaa: 0.0 ± 0.0
Pro
0.727ProAla: 0.727 ± 0.27
0.0ProCys: 0.0 ± 0.0
1.534ProAsp: 1.534 ± 0.349
1.696ProGlu: 1.696 ± 0.385
1.05ProPhe: 1.05 ± 0.277
0.808ProGly: 0.808 ± 0.248
0.646ProHis: 0.646 ± 0.255
2.342ProIle: 2.342 ± 0.407
2.423ProLys: 2.423 ± 0.453
2.019ProLeu: 2.019 ± 0.468
0.969ProMet: 0.969 ± 0.237
2.181ProAsn: 2.181 ± 0.361
0.888ProPro: 0.888 ± 0.213
0.565ProGln: 0.565 ± 0.192
0.727ProArg: 0.727 ± 0.277
1.696ProSer: 1.696 ± 0.429
1.615ProThr: 1.615 ± 0.479
1.938ProVal: 1.938 ± 0.347
0.162ProTrp: 0.162 ± 0.11
1.131ProTyr: 1.131 ± 0.232
0.0ProXaa: 0.0 ± 0.0
Gln
3.554GlnAla: 3.554 ± 0.479
0.404GlnCys: 0.404 ± 0.186
2.665GlnAsp: 2.665 ± 0.487
3.15GlnGlu: 3.15 ± 0.606
0.969GlnPhe: 0.969 ± 0.259
1.454GlnGly: 1.454 ± 0.339
0.888GlnHis: 0.888 ± 0.262
3.554GlnIle: 3.554 ± 0.439
2.907GlnLys: 2.907 ± 0.486
3.069GlnLeu: 3.069 ± 0.396
1.05GlnMet: 1.05 ± 0.284
2.827GlnAsn: 2.827 ± 0.472
0.646GlnPro: 0.646 ± 0.173
1.858GlnGln: 1.858 ± 0.444
2.181GlnArg: 2.181 ± 0.406
2.504GlnSer: 2.504 ± 0.482
2.181GlnThr: 2.181 ± 0.342
2.019GlnVal: 2.019 ± 0.457
0.242GlnTrp: 0.242 ± 0.129
2.181GlnTyr: 2.181 ± 0.378
0.0GlnXaa: 0.0 ± 0.0
Arg
2.1ArgAla: 2.1 ± 0.415
0.323ArgCys: 0.323 ± 0.203
3.15ArgAsp: 3.15 ± 0.434
3.311ArgGlu: 3.311 ± 0.543
1.615ArgPhe: 1.615 ± 0.361
2.181ArgGly: 2.181 ± 0.319
0.888ArgHis: 0.888 ± 0.253
4.119ArgIle: 4.119 ± 0.634
3.473ArgLys: 3.473 ± 0.484
3.392ArgLeu: 3.392 ± 0.485
0.727ArgMet: 0.727 ± 0.269
2.907ArgAsn: 2.907 ± 0.439
0.727ArgPro: 0.727 ± 0.268
1.696ArgGln: 1.696 ± 0.414
2.261ArgArg: 2.261 ± 0.401
2.1ArgSer: 2.1 ± 0.413
2.827ArgThr: 2.827 ± 0.494
2.423ArgVal: 2.423 ± 0.503
0.565ArgTrp: 0.565 ± 0.189
2.504ArgTyr: 2.504 ± 0.546
0.0ArgXaa: 0.0 ± 0.0
Ser
2.907SerAla: 2.907 ± 0.534
0.323SerCys: 0.323 ± 0.167
4.523SerAsp: 4.523 ± 0.653
4.765SerGlu: 4.765 ± 0.75
2.827SerPhe: 2.827 ± 0.545
3.877SerGly: 3.877 ± 0.722
1.131SerHis: 1.131 ± 0.294
5.896SerIle: 5.896 ± 0.632
6.38SerLys: 6.38 ± 0.987
3.634SerLeu: 3.634 ± 0.515
1.777SerMet: 1.777 ± 0.346
4.765SerAsn: 4.765 ± 0.523
0.646SerPro: 0.646 ± 0.234
2.907SerGln: 2.907 ± 0.554
2.584SerArg: 2.584 ± 0.44
3.715SerSer: 3.715 ± 0.716
3.392SerThr: 3.392 ± 0.382
2.827SerVal: 2.827 ± 0.487
0.646SerTrp: 0.646 ± 0.171
2.504SerTyr: 2.504 ± 0.48
0.0SerXaa: 0.0 ± 0.0
Thr
3.311ThrAla: 3.311 ± 0.477
0.404ThrCys: 0.404 ± 0.181
4.361ThrAsp: 4.361 ± 0.678
3.473ThrGlu: 3.473 ± 0.581
2.1ThrPhe: 2.1 ± 0.413
4.038ThrGly: 4.038 ± 0.622
1.696ThrHis: 1.696 ± 0.388
5.088ThrIle: 5.088 ± 0.544
4.846ThrLys: 4.846 ± 0.77
4.684ThrLeu: 4.684 ± 0.515
0.969ThrMet: 0.969 ± 0.279
2.988ThrAsn: 2.988 ± 0.436
1.938ThrPro: 1.938 ± 0.513
2.1ThrGln: 2.1 ± 0.406
2.746ThrArg: 2.746 ± 0.54
5.169ThrSer: 5.169 ± 0.733
4.2ThrThr: 4.2 ± 0.699
3.796ThrVal: 3.796 ± 0.56
1.131ThrTrp: 1.131 ± 0.284
2.504ThrTyr: 2.504 ± 0.523
0.0ThrXaa: 0.0 ± 0.0
Val
2.907ValAla: 2.907 ± 0.559
0.404ValCys: 0.404 ± 0.177
3.634ValAsp: 3.634 ± 0.49
3.23ValGlu: 3.23 ± 0.448
2.181ValPhe: 2.181 ± 0.413
3.957ValGly: 3.957 ± 0.775
0.404ValHis: 0.404 ± 0.156
4.119ValIle: 4.119 ± 0.547
6.542ValLys: 6.542 ± 0.705
4.927ValLeu: 4.927 ± 0.66
1.696ValMet: 1.696 ± 0.346
4.2ValAsn: 4.2 ± 0.616
1.615ValPro: 1.615 ± 0.312
2.181ValGln: 2.181 ± 0.367
1.615ValArg: 1.615 ± 0.448
3.634ValSer: 3.634 ± 0.532
5.573ValThr: 5.573 ± 0.835
4.442ValVal: 4.442 ± 0.614
0.162ValTrp: 0.162 ± 0.131
1.615ValTyr: 1.615 ± 0.34
0.0ValXaa: 0.0 ± 0.0
Trp
0.404TrpAla: 0.404 ± 0.188
0.0TrpCys: 0.0 ± 0.0
0.565TrpAsp: 0.565 ± 0.196
0.727TrpGlu: 0.727 ± 0.207
0.565TrpPhe: 0.565 ± 0.18
0.727TrpGly: 0.727 ± 0.227
0.081TrpHis: 0.081 ± 0.074
1.05TrpIle: 1.05 ± 0.254
0.646TrpLys: 0.646 ± 0.196
1.292TrpLeu: 1.292 ± 0.378
0.565TrpMet: 0.565 ± 0.195
1.05TrpAsn: 1.05 ± 0.466
0.162TrpPro: 0.162 ± 0.119
0.323TrpGln: 0.323 ± 0.142
0.242TrpArg: 0.242 ± 0.132
0.727TrpSer: 0.727 ± 0.239
0.565TrpThr: 0.565 ± 0.161
0.727TrpVal: 0.727 ± 0.216
0.162TrpTrp: 0.162 ± 0.132
0.323TrpTyr: 0.323 ± 0.169
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.504TyrAla: 2.504 ± 0.394
0.565TyrCys: 0.565 ± 0.246
3.069TyrAsp: 3.069 ± 0.54
2.746TyrGlu: 2.746 ± 0.43
1.615TyrPhe: 1.615 ± 0.358
2.746TyrGly: 2.746 ± 0.575
0.969TyrHis: 0.969 ± 0.287
3.311TyrIle: 3.311 ± 0.509
4.361TyrLys: 4.361 ± 0.485
3.957TyrLeu: 3.957 ± 0.513
1.211TyrMet: 1.211 ± 0.265
3.069TyrAsn: 3.069 ± 0.548
0.888TyrPro: 0.888 ± 0.224
1.938TyrGln: 1.938 ± 0.335
1.696TyrArg: 1.696 ± 0.381
2.827TyrSer: 2.827 ± 0.513
2.181TyrThr: 2.181 ± 0.429
2.181TyrVal: 2.181 ± 0.392
0.323TyrTrp: 0.323 ± 0.145
1.454TyrTyr: 1.454 ± 0.41
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 62 proteins (12383 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