Amino acid dipepetide frequency for Streptomyces phage Yara

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
11.574AlaAla: 11.574 ± 1.042
1.501AlaCys: 1.501 ± 0.286
6.683AlaAsp: 6.683 ± 0.506
8.426AlaGlu: 8.426 ± 0.965
2.324AlaPhe: 2.324 ± 0.265
6.683AlaGly: 6.683 ± 0.71
2.131AlaHis: 2.131 ± 0.356
4.068AlaIle: 4.068 ± 0.41
5.085AlaLys: 5.085 ± 0.659
7.264AlaLeu: 7.264 ± 0.67
3.099AlaMet: 3.099 ± 0.48
4.213AlaAsn: 4.213 ± 0.797
4.6AlaPro: 4.6 ± 0.562
3.971AlaGln: 3.971 ± 0.63
5.182AlaArg: 5.182 ± 0.565
5.763AlaSer: 5.763 ± 0.477
6.925AlaThr: 6.925 ± 0.618
5.714AlaVal: 5.714 ± 0.527
1.743AlaTrp: 1.743 ± 0.399
1.985AlaTyr: 1.985 ± 0.259
0.0AlaXaa: 0.0 ± 0.0
Cys
0.92CysAla: 0.92 ± 0.2
0.242CysCys: 0.242 ± 0.129
0.823CysAsp: 0.823 ± 0.246
0.726CysGlu: 0.726 ± 0.243
0.291CysPhe: 0.291 ± 0.125
1.017CysGly: 1.017 ± 0.299
0.436CysHis: 0.436 ± 0.157
0.387CysIle: 0.387 ± 0.144
0.581CysLys: 0.581 ± 0.164
0.533CysLeu: 0.533 ± 0.152
0.291CysMet: 0.291 ± 0.136
0.387CysAsn: 0.387 ± 0.155
0.678CysPro: 0.678 ± 0.217
0.484CysGln: 0.484 ± 0.163
0.969CysArg: 0.969 ± 0.256
0.63CysSer: 0.63 ± 0.174
1.017CysThr: 1.017 ± 0.272
0.387CysVal: 0.387 ± 0.16
0.387CysTrp: 0.387 ± 0.145
0.145CysTyr: 0.145 ± 0.082
0.0CysXaa: 0.0 ± 0.0
Asp
6.489AspAla: 6.489 ± 0.669
0.823AspCys: 0.823 ± 0.17
4.988AspAsp: 4.988 ± 0.514
6.78AspGlu: 6.78 ± 1.032
2.276AspPhe: 2.276 ± 0.313
6.489AspGly: 6.489 ± 0.658
1.065AspHis: 1.065 ± 0.298
3.099AspIle: 3.099 ± 0.413
2.809AspLys: 2.809 ± 0.446
6.344AspLeu: 6.344 ± 0.509
1.501AspMet: 1.501 ± 0.358
2.567AspAsn: 2.567 ± 0.347
3.584AspPro: 3.584 ± 0.476
1.792AspGln: 1.792 ± 0.222
3.293AspArg: 3.293 ± 0.467
2.809AspSer: 2.809 ± 0.35
3.438AspThr: 3.438 ± 0.474
3.923AspVal: 3.923 ± 0.458
0.92AspTrp: 0.92 ± 0.179
2.179AspTyr: 2.179 ± 0.243
0.0AspXaa: 0.0 ± 0.0
Glu
8.523GluAla: 8.523 ± 0.824
0.726GluCys: 0.726 ± 0.23
6.344GluAsp: 6.344 ± 0.887
6.199GluGlu: 6.199 ± 1.025
2.809GluPhe: 2.809 ± 0.372
5.666GluGly: 5.666 ± 0.64
1.937GluHis: 1.937 ± 0.336
3.341GluIle: 3.341 ± 0.476
2.663GluLys: 2.663 ± 0.403
5.327GluLeu: 5.327 ± 0.576
1.985GluMet: 1.985 ± 0.319
2.228GluAsn: 2.228 ± 0.275
3.148GluPro: 3.148 ± 0.593
3.148GluGln: 3.148 ± 0.421
4.213GluArg: 4.213 ± 0.548
3.39GluSer: 3.39 ± 0.498
3.196GluThr: 3.196 ± 0.343
5.521GluVal: 5.521 ± 0.489
1.55GluTrp: 1.55 ± 0.251
1.695GluTyr: 1.695 ± 0.348
0.0GluXaa: 0.0 ± 0.0
Phe
3.002PheAla: 3.002 ± 0.4
0.436PheCys: 0.436 ± 0.16
2.034PheAsp: 2.034 ± 0.449
2.228PheGlu: 2.228 ± 0.283
0.823PhePhe: 0.823 ± 0.259
2.567PheGly: 2.567 ± 0.266
0.436PheHis: 0.436 ± 0.151
1.453PheIle: 1.453 ± 0.27
1.501PheLys: 1.501 ± 0.279
1.792PheLeu: 1.792 ± 0.29
0.823PheMet: 0.823 ± 0.172
1.114PheAsn: 1.114 ± 0.25
1.743PhePro: 1.743 ± 0.298
1.55PheGln: 1.55 ± 0.305
1.84PheArg: 1.84 ± 0.339
1.695PheSer: 1.695 ± 0.313
1.937PheThr: 1.937 ± 0.294
2.082PheVal: 2.082 ± 0.368
0.775PheTrp: 0.775 ± 0.165
0.872PheTyr: 0.872 ± 0.275
0.0PheXaa: 0.0 ± 0.0
Gly
6.053GlyAla: 6.053 ± 0.787
0.726GlyCys: 0.726 ± 0.216
4.794GlyAsp: 4.794 ± 0.458
6.344GlyGlu: 6.344 ± 0.599
3.002GlyPhe: 3.002 ± 0.395
6.392GlyGly: 6.392 ± 0.661
1.695GlyHis: 1.695 ± 0.385
4.262GlyIle: 4.262 ± 0.43
4.891GlyLys: 4.891 ± 0.677
5.375GlyLeu: 5.375 ± 0.458
2.131GlyMet: 2.131 ± 0.332
2.373GlyAsn: 2.373 ± 0.313
3.584GlyPro: 3.584 ± 0.516
2.228GlyGln: 2.228 ± 0.338
4.939GlyArg: 4.939 ± 0.548
6.005GlySer: 6.005 ± 0.757
4.697GlyThr: 4.697 ± 0.473
6.247GlyVal: 6.247 ± 0.619
2.228GlyTrp: 2.228 ± 0.353
2.276GlyTyr: 2.276 ± 0.314
0.0GlyXaa: 0.0 ± 0.0
His
1.598HisAla: 1.598 ± 0.312
0.242HisCys: 0.242 ± 0.121
1.598HisAsp: 1.598 ± 0.26
1.114HisGlu: 1.114 ± 0.217
0.678HisPhe: 0.678 ± 0.178
1.065HisGly: 1.065 ± 0.286
0.678HisHis: 0.678 ± 0.226
1.356HisIle: 1.356 ± 0.251
1.404HisLys: 1.404 ± 0.245
2.082HisLeu: 2.082 ± 0.374
0.92HisMet: 0.92 ± 0.21
0.823HisAsn: 0.823 ± 0.207
1.114HisPro: 1.114 ± 0.261
0.92HisGln: 0.92 ± 0.25
1.211HisArg: 1.211 ± 0.271
0.969HisSer: 0.969 ± 0.213
0.823HisThr: 0.823 ± 0.19
1.017HisVal: 1.017 ± 0.217
0.484HisTrp: 0.484 ± 0.164
0.63HisTyr: 0.63 ± 0.167
0.0HisXaa: 0.0 ± 0.0
Ile
5.908IleAla: 5.908 ± 0.444
0.726IleCys: 0.726 ± 0.222
3.584IleAsp: 3.584 ± 0.449
4.262IleGlu: 4.262 ± 0.401
0.92IlePhe: 0.92 ± 0.211
3.051IleGly: 3.051 ± 0.334
1.211IleHis: 1.211 ± 0.295
1.598IleIle: 1.598 ± 0.352
2.276IleLys: 2.276 ± 0.361
3.341IleLeu: 3.341 ± 0.463
0.969IleMet: 0.969 ± 0.246
1.646IleAsn: 1.646 ± 0.274
2.324IlePro: 2.324 ± 0.352
2.082IleGln: 2.082 ± 0.291
3.535IleArg: 3.535 ± 0.44
2.954IleSer: 2.954 ± 0.408
2.954IleThr: 2.954 ± 0.418
3.051IleVal: 3.051 ± 0.44
0.775IleTrp: 0.775 ± 0.199
1.017IleTyr: 1.017 ± 0.229
0.0IleXaa: 0.0 ± 0.0
Lys
5.666LysAla: 5.666 ± 0.758
0.484LysCys: 0.484 ± 0.154
3.051LysAsp: 3.051 ± 0.469
2.809LysGlu: 2.809 ± 0.383
1.308LysPhe: 1.308 ± 0.236
3.826LysGly: 3.826 ± 0.441
0.969LysHis: 0.969 ± 0.299
2.518LysIle: 2.518 ± 0.331
3.39LysLys: 3.39 ± 0.634
3.39LysLeu: 3.39 ± 0.498
1.937LysMet: 1.937 ± 0.287
1.501LysAsn: 1.501 ± 0.319
3.535LysPro: 3.535 ± 0.422
1.985LysGln: 1.985 ± 0.397
2.906LysArg: 2.906 ± 0.434
2.179LysSer: 2.179 ± 0.349
3.826LysThr: 3.826 ± 0.454
3.196LysVal: 3.196 ± 0.362
1.065LysTrp: 1.065 ± 0.228
1.114LysTyr: 1.114 ± 0.259
0.0LysXaa: 0.0 ± 0.0
Leu
7.07LeuAla: 7.07 ± 0.624
0.969LeuCys: 0.969 ± 0.23
4.746LeuAsp: 4.746 ± 0.445
4.746LeuGlu: 4.746 ± 0.623
2.276LeuPhe: 2.276 ± 0.365
5.763LeuGly: 5.763 ± 0.581
1.792LeuHis: 1.792 ± 0.341
3.148LeuIle: 3.148 ± 0.38
3.923LeuLys: 3.923 ± 0.47
5.908LeuLeu: 5.908 ± 0.533
2.324LeuMet: 2.324 ± 0.357
2.324LeuAsn: 2.324 ± 0.424
3.535LeuPro: 3.535 ± 0.494
2.857LeuGln: 2.857 ± 0.331
5.23LeuArg: 5.23 ± 0.564
3.971LeuSer: 3.971 ± 0.41
4.31LeuThr: 4.31 ± 0.494
4.939LeuVal: 4.939 ± 0.362
1.308LeuTrp: 1.308 ± 0.263
2.324LeuTyr: 2.324 ± 0.314
0.0LeuXaa: 0.0 ± 0.0
Met
3.39MetAla: 3.39 ± 0.529
0.339MetCys: 0.339 ± 0.138
2.131MetAsp: 2.131 ± 0.346
1.937MetGlu: 1.937 ± 0.336
0.63MetPhe: 0.63 ± 0.179
2.179MetGly: 2.179 ± 0.319
0.242MetHis: 0.242 ± 0.145
1.453MetIle: 1.453 ± 0.323
1.308MetLys: 1.308 ± 0.233
1.937MetLeu: 1.937 ± 0.325
0.92MetMet: 0.92 ± 0.257
0.726MetAsn: 0.726 ± 0.208
1.356MetPro: 1.356 ± 0.247
0.726MetGln: 0.726 ± 0.189
2.179MetArg: 2.179 ± 0.315
1.937MetSer: 1.937 ± 0.336
2.373MetThr: 2.373 ± 0.401
1.501MetVal: 1.501 ± 0.246
0.823MetTrp: 0.823 ± 0.185
0.678MetTyr: 0.678 ± 0.159
0.0MetXaa: 0.0 ± 0.0
Asn
2.712AsnAla: 2.712 ± 0.375
0.291AsnCys: 0.291 ± 0.126
2.373AsnAsp: 2.373 ± 0.359
2.518AsnGlu: 2.518 ± 0.342
0.823AsnPhe: 0.823 ± 0.211
3.051AsnGly: 3.051 ± 0.439
0.484AsnHis: 0.484 ± 0.166
1.646AsnIle: 1.646 ± 0.363
1.937AsnLys: 1.937 ± 0.253
2.324AsnLeu: 2.324 ± 0.533
0.92AsnMet: 0.92 ± 0.229
1.065AsnAsn: 1.065 ± 0.209
2.518AsnPro: 2.518 ± 0.561
1.259AsnGln: 1.259 ± 0.312
1.792AsnArg: 1.792 ± 0.265
2.179AsnSer: 2.179 ± 0.342
2.276AsnThr: 2.276 ± 0.397
2.615AsnVal: 2.615 ± 0.32
0.436AsnTrp: 0.436 ± 0.178
1.114AsnTyr: 1.114 ± 0.276
0.0AsnXaa: 0.0 ± 0.0
Pro
4.552ProAla: 4.552 ± 0.535
0.242ProCys: 0.242 ± 0.113
3.632ProAsp: 3.632 ± 0.472
3.971ProGlu: 3.971 ± 0.57
1.55ProPhe: 1.55 ± 0.292
4.649ProGly: 4.649 ± 0.452
0.678ProHis: 0.678 ± 0.194
2.373ProIle: 2.373 ± 0.294
2.324ProLys: 2.324 ± 0.46
3.535ProLeu: 3.535 ± 0.403
1.356ProMet: 1.356 ± 0.26
1.695ProAsn: 1.695 ± 0.44
1.937ProPro: 1.937 ± 0.331
1.598ProGln: 1.598 ± 0.263
2.809ProArg: 2.809 ± 0.391
3.245ProSer: 3.245 ± 0.505
3.341ProThr: 3.341 ± 0.424
3.535ProVal: 3.535 ± 0.478
0.775ProTrp: 0.775 ± 0.177
1.453ProTyr: 1.453 ± 0.237
0.0ProXaa: 0.0 ± 0.0
Gln
4.455GlnAla: 4.455 ± 0.794
0.484GlnCys: 0.484 ± 0.155
1.743GlnAsp: 1.743 ± 0.274
2.421GlnGlu: 2.421 ± 0.411
0.969GlnPhe: 0.969 ± 0.194
2.567GlnGly: 2.567 ± 0.349
0.872GlnHis: 0.872 ± 0.225
1.889GlnIle: 1.889 ± 0.282
1.743GlnLys: 1.743 ± 0.406
3.293GlnLeu: 3.293 ± 0.385
1.259GlnMet: 1.259 ± 0.26
0.872GlnAsn: 0.872 ± 0.281
2.082GlnPro: 2.082 ± 0.291
1.356GlnGln: 1.356 ± 0.269
2.567GlnArg: 2.567 ± 0.286
1.937GlnSer: 1.937 ± 0.338
2.034GlnThr: 2.034 ± 0.455
1.985GlnVal: 1.985 ± 0.371
0.63GlnTrp: 0.63 ± 0.198
0.92GlnTyr: 0.92 ± 0.189
0.0GlnXaa: 0.0 ± 0.0
Arg
5.86ArgAla: 5.86 ± 0.638
0.533ArgCys: 0.533 ± 0.168
3.245ArgAsp: 3.245 ± 0.382
4.019ArgGlu: 4.019 ± 0.465
2.663ArgPhe: 2.663 ± 0.426
4.455ArgGly: 4.455 ± 0.508
1.114ArgHis: 1.114 ± 0.215
4.068ArgIle: 4.068 ± 0.523
4.116ArgLys: 4.116 ± 0.54
4.988ArgLeu: 4.988 ± 0.492
2.615ArgMet: 2.615 ± 0.361
1.889ArgAsn: 1.889 ± 0.262
2.324ArgPro: 2.324 ± 0.362
1.308ArgGln: 1.308 ± 0.243
5.182ArgArg: 5.182 ± 0.644
3.632ArgSer: 3.632 ± 0.422
3.051ArgThr: 3.051 ± 0.475
4.31ArgVal: 4.31 ± 0.55
1.065ArgTrp: 1.065 ± 0.225
2.76ArgTyr: 2.76 ± 0.435
0.0ArgXaa: 0.0 ± 0.0
Ser
5.424SerAla: 5.424 ± 0.581
0.678SerCys: 0.678 ± 0.216
3.632SerAsp: 3.632 ± 0.408
2.809SerGlu: 2.809 ± 0.38
1.743SerPhe: 1.743 ± 0.276
5.811SerGly: 5.811 ± 0.605
0.872SerHis: 0.872 ± 0.243
2.712SerIle: 2.712 ± 0.379
2.276SerLys: 2.276 ± 0.344
4.649SerLeu: 4.649 ± 0.404
2.131SerMet: 2.131 ± 0.342
2.034SerAsn: 2.034 ± 0.36
2.954SerPro: 2.954 ± 0.36
2.131SerGln: 2.131 ± 0.37
3.293SerArg: 3.293 ± 0.387
3.923SerSer: 3.923 ± 0.476
3.148SerThr: 3.148 ± 0.448
3.874SerVal: 3.874 ± 0.394
1.308SerTrp: 1.308 ± 0.233
1.308SerTyr: 1.308 ± 0.242
0.0SerXaa: 0.0 ± 0.0
Thr
4.988ThrAla: 4.988 ± 0.579
0.581ThrCys: 0.581 ± 0.181
3.051ThrAsp: 3.051 ± 0.444
3.874ThrGlu: 3.874 ± 0.449
2.567ThrPhe: 2.567 ± 0.5
6.005ThrGly: 6.005 ± 0.857
1.598ThrHis: 1.598 ± 0.313
2.906ThrIle: 2.906 ± 0.374
2.276ThrLys: 2.276 ± 0.317
3.438ThrLeu: 3.438 ± 0.414
1.259ThrMet: 1.259 ± 0.211
2.47ThrAsn: 2.47 ± 0.48
3.341ThrPro: 3.341 ± 0.38
1.598ThrGln: 1.598 ± 0.254
4.019ThrArg: 4.019 ± 0.436
3.293ThrSer: 3.293 ± 0.484
3.923ThrThr: 3.923 ± 0.602
6.053ThrVal: 6.053 ± 0.624
1.453ThrTrp: 1.453 ± 0.255
1.743ThrTyr: 1.743 ± 0.301
0.0ThrXaa: 0.0 ± 0.0
Val
6.634ValAla: 6.634 ± 0.735
0.533ValCys: 0.533 ± 0.178
4.939ValAsp: 4.939 ± 0.527
5.085ValGlu: 5.085 ± 0.595
1.792ValPhe: 1.792 ± 0.319
5.375ValGly: 5.375 ± 0.572
1.792ValHis: 1.792 ± 0.257
3.438ValIle: 3.438 ± 0.331
3.438ValLys: 3.438 ± 0.417
4.649ValLeu: 4.649 ± 0.475
1.017ValMet: 1.017 ± 0.256
2.567ValAsn: 2.567 ± 0.426
2.906ValPro: 2.906 ± 0.372
2.954ValGln: 2.954 ± 0.433
4.891ValArg: 4.891 ± 0.453
3.874ValSer: 3.874 ± 0.53
4.358ValThr: 4.358 ± 0.509
5.327ValVal: 5.327 ± 0.522
1.259ValTrp: 1.259 ± 0.254
1.889ValTyr: 1.889 ± 0.285
0.0ValXaa: 0.0 ± 0.0
Trp
1.55TrpAla: 1.55 ± 0.228
0.387TrpCys: 0.387 ± 0.151
1.453TrpAsp: 1.453 ± 0.34
1.501TrpGlu: 1.501 ± 0.228
0.436TrpPhe: 0.436 ± 0.218
1.55TrpGly: 1.55 ± 0.378
0.242TrpHis: 0.242 ± 0.099
1.259TrpIle: 1.259 ± 0.282
1.356TrpLys: 1.356 ± 0.247
1.743TrpLeu: 1.743 ± 0.258
0.484TrpMet: 0.484 ± 0.175
0.775TrpAsn: 0.775 ± 0.231
0.823TrpPro: 0.823 ± 0.2
0.775TrpGln: 0.775 ± 0.23
0.969TrpArg: 0.969 ± 0.212
1.065TrpSer: 1.065 ± 0.242
1.356TrpThr: 1.356 ± 0.265
1.453TrpVal: 1.453 ± 0.267
0.436TrpTrp: 0.436 ± 0.143
0.581TrpTyr: 0.581 ± 0.174
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.567TyrAla: 2.567 ± 0.304
0.387TyrCys: 0.387 ± 0.136
2.324TyrAsp: 2.324 ± 0.29
1.84TyrGlu: 1.84 ± 0.356
0.823TyrPhe: 0.823 ± 0.189
2.082TyrGly: 2.082 ± 0.36
0.484TyrHis: 0.484 ± 0.137
1.211TyrIle: 1.211 ± 0.25
1.356TyrLys: 1.356 ± 0.267
1.598TyrLeu: 1.598 ± 0.273
0.775TyrMet: 0.775 ± 0.17
1.065TyrAsn: 1.065 ± 0.21
1.162TyrPro: 1.162 ± 0.304
1.356TyrGln: 1.356 ± 0.309
2.179TyrArg: 2.179 ± 0.428
1.259TyrSer: 1.259 ± 0.251
1.453TyrThr: 1.453 ± 0.333
1.985TyrVal: 1.985 ± 0.296
0.775TyrTrp: 0.775 ± 0.192
0.63TyrTyr: 0.63 ± 0.199
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 105 proteins (20651 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