Amino acid dipepetide frequency for Staphylococcus phage YMC/09/04/R1988

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
2.563AlaAla: 2.563 ± 0.778
0.293AlaCys: 0.293 ± 0.154
2.636AlaAsp: 2.636 ± 0.504
3.808AlaGlu: 3.808 ± 0.527
1.757AlaPhe: 1.757 ± 0.298
3.368AlaGly: 3.368 ± 0.68
1.025AlaHis: 1.025 ± 0.266
4.833AlaIle: 4.833 ± 0.631
6.591AlaLys: 6.591 ± 1.098
5.126AlaLeu: 5.126 ± 0.659
1.318AlaMet: 1.318 ± 0.276
3.954AlaAsn: 3.954 ± 0.763
1.391AlaPro: 1.391 ± 0.37
1.611AlaGln: 1.611 ± 0.316
2.417AlaArg: 2.417 ± 0.358
4.833AlaSer: 4.833 ± 0.727
3.076AlaThr: 3.076 ± 0.427
2.709AlaVal: 2.709 ± 0.437
1.391AlaTrp: 1.391 ± 0.364
2.929AlaTyr: 2.929 ± 0.576
0.0AlaXaa: 0.0 ± 0.0
Cys
0.22CysAla: 0.22 ± 0.115
0.0CysCys: 0.0 ± 0.0
0.073CysAsp: 0.073 ± 0.083
0.366CysGlu: 0.366 ± 0.191
0.293CysPhe: 0.293 ± 0.141
0.22CysGly: 0.22 ± 0.125
0.146CysHis: 0.146 ± 0.105
0.366CysIle: 0.366 ± 0.152
0.659CysLys: 0.659 ± 0.211
0.659CysLeu: 0.659 ± 0.237
0.073CysMet: 0.073 ± 0.065
0.366CysAsn: 0.366 ± 0.186
0.073CysPro: 0.073 ± 0.075
0.146CysGln: 0.146 ± 0.11
0.366CysArg: 0.366 ± 0.197
0.146CysSer: 0.146 ± 0.116
0.293CysThr: 0.293 ± 0.158
0.146CysVal: 0.146 ± 0.132
0.0CysTrp: 0.0 ± 0.0
0.366CysTyr: 0.366 ± 0.179
0.0CysXaa: 0.0 ± 0.0
Asp
2.783AspAla: 2.783 ± 0.607
0.293AspCys: 0.293 ± 0.147
3.881AspAsp: 3.881 ± 0.662
4.979AspGlu: 4.979 ± 0.766
3.222AspPhe: 3.222 ± 0.449
3.515AspGly: 3.515 ± 0.711
0.806AspHis: 0.806 ± 0.186
5.565AspIle: 5.565 ± 0.54
6.737AspLys: 6.737 ± 0.671
5.639AspLeu: 5.639 ± 0.543
2.27AspMet: 2.27 ± 0.377
2.783AspAsn: 2.783 ± 0.386
1.172AspPro: 1.172 ± 0.357
1.465AspGln: 1.465 ± 0.304
2.343AspArg: 2.343 ± 0.391
3.588AspSer: 3.588 ± 0.582
3.515AspThr: 3.515 ± 0.455
3.808AspVal: 3.808 ± 0.441
0.879AspTrp: 0.879 ± 0.322
3.295AspTyr: 3.295 ± 0.538
0.0AspXaa: 0.0 ± 0.0
Glu
4.76GluAla: 4.76 ± 0.577
0.439GluCys: 0.439 ± 0.199
4.613GluAsp: 4.613 ± 0.755
7.762GluGlu: 7.762 ± 0.917
3.368GluPhe: 3.368 ± 0.744
3.515GluGly: 3.515 ± 0.571
0.879GluHis: 0.879 ± 0.234
5.639GluIle: 5.639 ± 0.878
8.787GluLys: 8.787 ± 0.993
7.762GluLeu: 7.762 ± 0.842
2.709GluMet: 2.709 ± 0.431
4.833GluAsn: 4.833 ± 0.64
1.245GluPro: 1.245 ± 0.338
3.076GluGln: 3.076 ± 0.531
3.661GluArg: 3.661 ± 0.706
3.808GluSer: 3.808 ± 0.481
4.101GluThr: 4.101 ± 0.611
3.954GluVal: 3.954 ± 0.416
1.025GluTrp: 1.025 ± 0.237
2.417GluTyr: 2.417 ± 0.533
0.0GluXaa: 0.0 ± 0.0
Phe
1.977PheAla: 1.977 ± 0.395
0.439PheCys: 0.439 ± 0.16
3.076PheAsp: 3.076 ± 0.422
3.002PheGlu: 3.002 ± 0.503
1.172PhePhe: 1.172 ± 0.265
3.149PheGly: 3.149 ± 0.508
0.586PheHis: 0.586 ± 0.178
3.222PheIle: 3.222 ± 0.573
4.76PheLys: 4.76 ± 0.847
1.977PheLeu: 1.977 ± 0.313
1.172PheMet: 1.172 ± 0.224
3.295PheAsn: 3.295 ± 0.502
0.806PhePro: 0.806 ± 0.307
0.952PheGln: 0.952 ± 0.258
1.172PheArg: 1.172 ± 0.25
2.05PheSer: 2.05 ± 0.41
1.831PheThr: 1.831 ± 0.372
1.977PheVal: 1.977 ± 0.419
0.293PheTrp: 0.293 ± 0.126
1.977PheTyr: 1.977 ± 0.389
0.0PheXaa: 0.0 ± 0.0
Gly
4.101GlyAla: 4.101 ± 0.907
0.22GlyCys: 0.22 ± 0.113
4.101GlyAsp: 4.101 ± 0.489
3.515GlyGlu: 3.515 ± 0.508
2.563GlyPhe: 2.563 ± 0.444
5.126GlyGly: 5.126 ± 1.017
1.391GlyHis: 1.391 ± 0.355
3.515GlyIle: 3.515 ± 0.565
6.224GlyLys: 6.224 ± 0.663
5.419GlyLeu: 5.419 ± 0.867
1.172GlyMet: 1.172 ± 0.356
2.856GlyAsn: 2.856 ± 0.374
0.952GlyPro: 0.952 ± 0.22
1.831GlyGln: 1.831 ± 0.354
2.124GlyArg: 2.124 ± 0.449
3.661GlySer: 3.661 ± 0.617
3.954GlyThr: 3.954 ± 0.534
4.394GlyVal: 4.394 ± 0.641
1.025GlyTrp: 1.025 ± 0.296
2.636GlyTyr: 2.636 ± 0.496
0.0GlyXaa: 0.0 ± 0.0
His
0.952HisAla: 0.952 ± 0.224
0.073HisCys: 0.073 ± 0.075
0.732HisAsp: 0.732 ± 0.276
0.952HisGlu: 0.952 ± 0.221
0.952HisPhe: 0.952 ± 0.256
1.098HisGly: 1.098 ± 0.295
0.366HisHis: 0.366 ± 0.195
1.757HisIle: 1.757 ± 0.465
1.245HisLys: 1.245 ± 0.262
1.538HisLeu: 1.538 ± 0.324
0.22HisMet: 0.22 ± 0.122
0.806HisAsn: 0.806 ± 0.228
1.025HisPro: 1.025 ± 0.175
0.659HisGln: 0.659 ± 0.223
0.879HisArg: 0.879 ± 0.237
1.098HisSer: 1.098 ± 0.251
1.098HisThr: 1.098 ± 0.265
0.879HisVal: 0.879 ± 0.286
0.22HisTrp: 0.22 ± 0.142
0.879HisTyr: 0.879 ± 0.225
0.0HisXaa: 0.0 ± 0.0
Ile
4.32IleAla: 4.32 ± 0.657
0.293IleCys: 0.293 ± 0.161
5.565IleAsp: 5.565 ± 0.834
6.151IleGlu: 6.151 ± 0.581
2.563IlePhe: 2.563 ± 0.514
3.002IleGly: 3.002 ± 0.522
1.757IleHis: 1.757 ± 0.335
4.54IleIle: 4.54 ± 0.662
7.25IleLys: 7.25 ± 0.677
4.687IleLeu: 4.687 ± 0.763
1.684IleMet: 1.684 ± 0.367
4.833IleAsn: 4.833 ± 0.605
2.636IlePro: 2.636 ± 0.388
1.904IleGln: 1.904 ± 0.319
3.588IleArg: 3.588 ± 0.422
5.053IleSer: 5.053 ± 0.598
4.247IleThr: 4.247 ± 0.599
3.954IleVal: 3.954 ± 0.703
0.513IleTrp: 0.513 ± 0.182
2.856IleTyr: 2.856 ± 0.459
0.0IleXaa: 0.0 ± 0.0
Lys
8.128LysAla: 8.128 ± 1.117
0.22LysCys: 0.22 ± 0.137
5.419LysAsp: 5.419 ± 0.465
9.446LysGlu: 9.446 ± 0.828
2.417LysPhe: 2.417 ± 0.35
5.053LysGly: 5.053 ± 0.906
1.684LysHis: 1.684 ± 0.356
6.883LysIle: 6.883 ± 0.812
7.909LysLys: 7.909 ± 0.912
9.153LysLeu: 9.153 ± 1.04
2.563LysMet: 2.563 ± 0.374
5.858LysAsn: 5.858 ± 0.83
2.417LysPro: 2.417 ± 0.454
4.906LysGln: 4.906 ± 0.545
3.808LysArg: 3.808 ± 0.546
6.224LysSer: 6.224 ± 1.128
5.053LysThr: 5.053 ± 0.611
5.492LysVal: 5.492 ± 0.718
1.977LysTrp: 1.977 ± 0.449
5.126LysTyr: 5.126 ± 0.6
0.0LysXaa: 0.0 ± 0.0
Leu
4.247LeuAla: 4.247 ± 0.768
0.513LeuCys: 0.513 ± 0.215
5.272LeuAsp: 5.272 ± 0.942
6.737LeuGlu: 6.737 ± 0.77
2.783LeuPhe: 2.783 ± 0.34
4.394LeuGly: 4.394 ± 0.879
1.318LeuHis: 1.318 ± 0.391
5.126LeuIle: 5.126 ± 0.63
8.861LeuLys: 8.861 ± 1.195
5.858LeuLeu: 5.858 ± 0.758
1.977LeuMet: 1.977 ± 0.334
6.444LeuAsn: 6.444 ± 0.606
3.002LeuPro: 3.002 ± 0.496
3.149LeuGln: 3.149 ± 0.708
3.515LeuArg: 3.515 ± 0.426
5.931LeuSer: 5.931 ± 0.718
5.712LeuThr: 5.712 ± 0.697
3.808LeuVal: 3.808 ± 0.439
0.586LeuTrp: 0.586 ± 0.247
3.222LeuTyr: 3.222 ± 0.751
0.0LeuXaa: 0.0 ± 0.0
Met
1.098MetAla: 1.098 ± 0.249
0.22MetCys: 0.22 ± 0.145
0.952MetAsp: 0.952 ± 0.276
1.684MetGlu: 1.684 ± 0.399
0.952MetPhe: 0.952 ± 0.286
1.538MetGly: 1.538 ± 0.475
0.513MetHis: 0.513 ± 0.209
1.245MetIle: 1.245 ± 0.229
3.076MetLys: 3.076 ± 0.502
2.124MetLeu: 2.124 ± 0.497
0.366MetMet: 0.366 ± 0.163
1.757MetAsn: 1.757 ± 0.375
0.806MetPro: 0.806 ± 0.17
1.611MetGln: 1.611 ± 0.434
0.952MetArg: 0.952 ± 0.224
1.977MetSer: 1.977 ± 0.329
2.27MetThr: 2.27 ± 0.288
0.952MetVal: 0.952 ± 0.19
0.293MetTrp: 0.293 ± 0.142
0.952MetTyr: 0.952 ± 0.223
0.0MetXaa: 0.0 ± 0.0
Asn
3.368AsnAla: 3.368 ± 0.544
0.22AsnCys: 0.22 ± 0.135
4.247AsnAsp: 4.247 ± 0.5
4.174AsnGlu: 4.174 ± 0.514
1.977AsnPhe: 1.977 ± 0.284
4.467AsnGly: 4.467 ± 0.727
0.952AsnHis: 0.952 ± 0.273
3.954AsnIle: 3.954 ± 0.428
6.957AsnLys: 6.957 ± 0.75
5.053AsnLeu: 5.053 ± 0.611
0.952AsnMet: 0.952 ± 0.253
3.735AsnAsn: 3.735 ± 0.596
2.27AsnPro: 2.27 ± 0.342
2.709AsnGln: 2.709 ± 0.46
2.856AsnArg: 2.856 ± 0.449
4.247AsnSer: 4.247 ± 0.555
4.101AsnThr: 4.101 ± 0.451
3.076AsnVal: 3.076 ± 0.553
1.098AsnTrp: 1.098 ± 0.334
2.27AsnTyr: 2.27 ± 0.474
0.0AsnXaa: 0.0 ± 0.0
Pro
1.245ProAla: 1.245 ± 0.245
0.22ProCys: 0.22 ± 0.118
1.611ProAsp: 1.611 ± 0.36
1.977ProGlu: 1.977 ± 0.454
1.318ProPhe: 1.318 ± 0.336
1.757ProGly: 1.757 ± 0.379
0.293ProHis: 0.293 ± 0.142
1.831ProIle: 1.831 ± 0.378
1.977ProLys: 1.977 ± 0.47
2.49ProLeu: 2.49 ± 0.517
0.586ProMet: 0.586 ± 0.268
1.904ProAsn: 1.904 ± 0.4
0.586ProPro: 0.586 ± 0.218
1.245ProGln: 1.245 ± 0.307
1.245ProArg: 1.245 ± 0.288
2.197ProSer: 2.197 ± 0.29
1.904ProThr: 1.904 ± 0.406
1.098ProVal: 1.098 ± 0.36
0.366ProTrp: 0.366 ± 0.152
1.098ProTyr: 1.098 ± 0.288
0.0ProXaa: 0.0 ± 0.0
Gln
2.49GlnAla: 2.49 ± 0.338
0.22GlnCys: 0.22 ± 0.124
2.343GlnAsp: 2.343 ± 0.378
2.929GlnGlu: 2.929 ± 0.489
1.465GlnPhe: 1.465 ± 0.343
2.197GlnGly: 2.197 ± 0.472
0.586GlnHis: 0.586 ± 0.174
3.149GlnIle: 3.149 ± 0.653
3.368GlnLys: 3.368 ± 0.379
3.661GlnLeu: 3.661 ± 0.467
0.879GlnMet: 0.879 ± 0.316
1.684GlnAsn: 1.684 ± 0.327
1.098GlnPro: 1.098 ± 0.227
0.952GlnGln: 0.952 ± 0.294
1.977GlnArg: 1.977 ± 0.378
2.197GlnSer: 2.197 ± 0.327
1.098GlnThr: 1.098 ± 0.364
2.197GlnVal: 2.197 ± 0.38
0.293GlnTrp: 0.293 ± 0.188
1.831GlnTyr: 1.831 ± 0.425
0.0GlnXaa: 0.0 ± 0.0
Arg
2.417ArgAla: 2.417 ± 0.5
0.0ArgCys: 0.0 ± 0.0
3.002ArgAsp: 3.002 ± 0.403
2.709ArgGlu: 2.709 ± 0.566
2.197ArgPhe: 2.197 ± 0.4
2.27ArgGly: 2.27 ± 0.414
0.732ArgHis: 0.732 ± 0.218
3.442ArgIle: 3.442 ± 0.566
3.808ArgLys: 3.808 ± 0.483
3.808ArgLeu: 3.808 ± 0.707
0.952ArgMet: 0.952 ± 0.235
2.856ArgAsn: 2.856 ± 0.472
0.732ArgPro: 0.732 ± 0.34
1.391ArgGln: 1.391 ± 0.297
1.465ArgArg: 1.465 ± 0.416
1.904ArgSer: 1.904 ± 0.392
2.197ArgThr: 2.197 ± 0.323
2.417ArgVal: 2.417 ± 0.377
0.366ArgTrp: 0.366 ± 0.21
2.636ArgTyr: 2.636 ± 0.514
0.0ArgXaa: 0.0 ± 0.0
Ser
3.588SerAla: 3.588 ± 0.693
0.366SerCys: 0.366 ± 0.17
4.613SerAsp: 4.613 ± 0.464
4.613SerGlu: 4.613 ± 0.635
2.417SerPhe: 2.417 ± 0.506
4.833SerGly: 4.833 ± 0.718
1.025SerHis: 1.025 ± 0.223
4.101SerIle: 4.101 ± 0.564
6.883SerLys: 6.883 ± 1.125
4.101SerLeu: 4.101 ± 0.479
2.27SerMet: 2.27 ± 0.383
4.394SerAsn: 4.394 ± 0.593
1.684SerPro: 1.684 ± 0.392
2.783SerGln: 2.783 ± 0.424
2.27SerArg: 2.27 ± 0.319
4.467SerSer: 4.467 ± 0.567
3.588SerThr: 3.588 ± 0.562
3.808SerVal: 3.808 ± 0.623
0.879SerTrp: 0.879 ± 0.229
2.124SerTyr: 2.124 ± 0.373
0.0SerXaa: 0.0 ± 0.0
Thr
3.295ThrAla: 3.295 ± 0.54
0.146ThrCys: 0.146 ± 0.106
3.295ThrAsp: 3.295 ± 0.531
4.101ThrGlu: 4.101 ± 0.518
2.783ThrPhe: 2.783 ± 0.359
4.467ThrGly: 4.467 ± 0.587
1.391ThrHis: 1.391 ± 0.348
4.613ThrIle: 4.613 ± 0.543
5.712ThrLys: 5.712 ± 0.793
4.54ThrLeu: 4.54 ± 0.673
0.732ThrMet: 0.732 ± 0.25
3.735ThrAsn: 3.735 ± 0.494
2.197ThrPro: 2.197 ± 0.356
1.538ThrGln: 1.538 ± 0.311
1.684ThrArg: 1.684 ± 0.34
3.295ThrSer: 3.295 ± 0.562
2.929ThrThr: 2.929 ± 0.523
3.881ThrVal: 3.881 ± 0.489
0.439ThrTrp: 0.439 ± 0.232
2.27ThrTyr: 2.27 ± 0.468
0.0ThrXaa: 0.0 ± 0.0
Val
2.856ValAla: 2.856 ± 0.426
0.366ValCys: 0.366 ± 0.179
3.881ValAsp: 3.881 ± 0.612
5.492ValGlu: 5.492 ± 0.594
2.124ValPhe: 2.124 ± 0.43
3.808ValGly: 3.808 ± 0.526
1.025ValHis: 1.025 ± 0.275
4.101ValIle: 4.101 ± 0.443
4.394ValLys: 4.394 ± 0.566
3.588ValLeu: 3.588 ± 0.456
1.465ValMet: 1.465 ± 0.294
3.368ValAsn: 3.368 ± 0.607
1.538ValPro: 1.538 ± 0.356
2.197ValGln: 2.197 ± 0.325
2.563ValArg: 2.563 ± 0.477
3.881ValSer: 3.881 ± 0.517
3.002ValThr: 3.002 ± 0.664
2.636ValVal: 2.636 ± 0.402
0.439ValTrp: 0.439 ± 0.195
2.197ValTyr: 2.197 ± 0.594
0.0ValXaa: 0.0 ± 0.0
Trp
0.732TrpAla: 0.732 ± 0.208
0.0TrpCys: 0.0 ± 0.0
0.586TrpAsp: 0.586 ± 0.23
0.879TrpGlu: 0.879 ± 0.32
1.172TrpPhe: 1.172 ± 0.302
0.366TrpGly: 0.366 ± 0.138
0.0TrpHis: 0.0 ± 0.0
0.879TrpIle: 0.879 ± 0.281
1.098TrpLys: 1.098 ± 0.328
1.245TrpLeu: 1.245 ± 0.25
0.513TrpMet: 0.513 ± 0.196
0.879TrpAsn: 0.879 ± 0.259
0.293TrpPro: 0.293 ± 0.237
0.586TrpGln: 0.586 ± 0.17
0.439TrpArg: 0.439 ± 0.194
1.098TrpSer: 1.098 ± 0.432
0.586TrpThr: 0.586 ± 0.215
0.732TrpVal: 0.732 ± 0.207
0.146TrpTrp: 0.146 ± 0.108
0.659TrpTyr: 0.659 ± 0.229
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.49TyrAla: 2.49 ± 0.282
0.439TyrCys: 0.439 ± 0.157
2.636TyrAsp: 2.636 ± 0.516
3.076TyrGlu: 3.076 ± 0.496
1.391TyrPhe: 1.391 ± 0.383
2.636TyrGly: 2.636 ± 0.567
0.952TyrHis: 0.952 ± 0.277
2.636TyrIle: 2.636 ± 0.531
3.515TyrLys: 3.515 ± 0.528
4.028TyrLeu: 4.028 ± 0.728
1.391TyrMet: 1.391 ± 0.242
2.343TyrAsn: 2.343 ± 0.499
1.025TyrPro: 1.025 ± 0.265
1.904TyrGln: 1.904 ± 0.332
1.977TyrArg: 1.977 ± 0.541
3.149TyrSer: 3.149 ± 0.38
2.49TyrThr: 2.49 ± 0.471
3.002TyrVal: 3.002 ± 0.521
0.659TyrTrp: 0.659 ± 0.227
1.538TyrTyr: 1.538 ± 0.445
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 (13657 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