Amino acid dipepetide frequency for Gordonia phage Yikes

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
11.144AlaAla: 11.144 ± 1.512
0.688AlaCys: 0.688 ± 0.215
5.824AlaAsp: 5.824 ± 0.57
8.255AlaGlu: 8.255 ± 0.74
2.889AlaPhe: 2.889 ± 0.414
6.421AlaGly: 6.421 ± 0.721
1.605AlaHis: 1.605 ± 0.381
5.733AlaIle: 5.733 ± 0.528
6.466AlaLys: 6.466 ± 0.689
7.338AlaLeu: 7.338 ± 0.688
2.706AlaMet: 2.706 ± 0.379
4.403AlaAsn: 4.403 ± 0.598
2.568AlaPro: 2.568 ± 0.376
3.164AlaGln: 3.164 ± 0.38
5.778AlaArg: 5.778 ± 0.679
5.641AlaSer: 5.641 ± 0.775
4.907AlaThr: 4.907 ± 0.543
6.008AlaVal: 6.008 ± 0.713
1.376AlaTrp: 1.376 ± 0.226
2.568AlaTyr: 2.568 ± 0.372
0.0AlaXaa: 0.0 ± 0.0
Cys
0.642CysAla: 0.642 ± 0.213
0.092CysCys: 0.092 ± 0.066
0.413CysAsp: 0.413 ± 0.174
0.688CysGlu: 0.688 ± 0.206
0.046CysPhe: 0.046 ± 0.052
1.147CysGly: 1.147 ± 0.286
0.229CysHis: 0.229 ± 0.108
0.229CysIle: 0.229 ± 0.102
0.459CysLys: 0.459 ± 0.144
0.688CysLeu: 0.688 ± 0.145
0.046CysMet: 0.046 ± 0.04
0.504CysAsn: 0.504 ± 0.181
0.596CysPro: 0.596 ± 0.178
0.459CysGln: 0.459 ± 0.158
0.367CysArg: 0.367 ± 0.135
0.459CysSer: 0.459 ± 0.152
0.596CysThr: 0.596 ± 0.197
0.459CysVal: 0.459 ± 0.137
0.138CysTrp: 0.138 ± 0.094
0.367CysTyr: 0.367 ± 0.124
0.0CysXaa: 0.0 ± 0.0
Asp
6.191AspAla: 6.191 ± 0.561
0.367AspCys: 0.367 ± 0.197
5.366AspAsp: 5.366 ± 0.795
5.274AspGlu: 5.274 ± 0.856
2.66AspPhe: 2.66 ± 0.292
6.1AspGly: 6.1 ± 0.726
1.559AspHis: 1.559 ± 0.224
2.752AspIle: 2.752 ± 0.328
2.431AspLys: 2.431 ± 0.281
6.008AspLeu: 6.008 ± 0.587
1.422AspMet: 1.422 ± 0.247
1.834AspAsn: 1.834 ± 0.311
4.265AspPro: 4.265 ± 0.425
1.88AspGln: 1.88 ± 0.279
3.715AspArg: 3.715 ± 0.413
3.21AspSer: 3.21 ± 0.386
3.44AspThr: 3.44 ± 0.384
3.348AspVal: 3.348 ± 0.379
0.825AspTrp: 0.825 ± 0.22
1.88AspTyr: 1.88 ± 0.28
0.0AspXaa: 0.0 ± 0.0
Glu
7.613GluAla: 7.613 ± 0.534
0.55GluCys: 0.55 ± 0.192
4.036GluAsp: 4.036 ± 0.564
5.228GluGlu: 5.228 ± 0.641
2.706GluPhe: 2.706 ± 0.428
5.503GluGly: 5.503 ± 0.419
1.101GluHis: 1.101 ± 0.238
4.311GluIle: 4.311 ± 0.464
3.44GluLys: 3.44 ± 0.49
6.375GluLeu: 6.375 ± 0.643
2.11GluMet: 2.11 ± 0.311
2.11GluAsn: 2.11 ± 0.319
2.476GluPro: 2.476 ± 0.42
2.614GluGln: 2.614 ± 0.436
4.036GluArg: 4.036 ± 0.494
3.669GluSer: 3.669 ± 0.369
3.027GluThr: 3.027 ± 0.385
4.311GluVal: 4.311 ± 0.488
1.33GluTrp: 1.33 ± 0.286
2.706GluTyr: 2.706 ± 0.505
0.0GluXaa: 0.0 ± 0.0
Phe
2.339PheAla: 2.339 ± 0.292
0.092PheCys: 0.092 ± 0.059
2.476PheAsp: 2.476 ± 0.387
2.385PheGlu: 2.385 ± 0.366
0.825PhePhe: 0.825 ± 0.189
3.623PheGly: 3.623 ± 0.389
0.688PheHis: 0.688 ± 0.152
1.834PheIle: 1.834 ± 0.313
1.926PheLys: 1.926 ± 0.269
2.522PheLeu: 2.522 ± 0.361
0.917PheMet: 0.917 ± 0.178
1.468PheAsn: 1.468 ± 0.303
1.055PhePro: 1.055 ± 0.27
1.605PheGln: 1.605 ± 0.247
1.972PheArg: 1.972 ± 0.241
2.155PheSer: 2.155 ± 0.326
2.247PheThr: 2.247 ± 0.313
1.651PheVal: 1.651 ± 0.218
0.504PheTrp: 0.504 ± 0.148
0.78PheTyr: 0.78 ± 0.205
0.0PheXaa: 0.0 ± 0.0
Gly
8.347GlyAla: 8.347 ± 0.878
0.459GlyCys: 0.459 ± 0.163
5.228GlyAsp: 5.228 ± 0.55
4.999GlyGlu: 4.999 ± 0.601
3.852GlyPhe: 3.852 ± 0.432
8.668GlyGly: 8.668 ± 1.458
1.513GlyHis: 1.513 ± 0.274
4.861GlyIle: 4.861 ± 0.597
5.412GlyLys: 5.412 ± 0.479
5.778GlyLeu: 5.778 ± 0.64
2.614GlyMet: 2.614 ± 0.408
3.485GlyAsn: 3.485 ± 0.398
3.898GlyPro: 3.898 ± 0.421
3.623GlyGln: 3.623 ± 0.366
5.457GlyArg: 5.457 ± 0.522
5.503GlySer: 5.503 ± 0.626
6.512GlyThr: 6.512 ± 0.603
5.733GlyVal: 5.733 ± 0.619
1.789GlyTrp: 1.789 ± 0.294
2.293GlyTyr: 2.293 ± 0.346
0.0GlyXaa: 0.0 ± 0.0
His
1.651HisAla: 1.651 ± 0.244
0.321HisCys: 0.321 ± 0.132
1.101HisAsp: 1.101 ± 0.21
1.055HisGlu: 1.055 ± 0.198
0.596HisPhe: 0.596 ± 0.153
1.651HisGly: 1.651 ± 0.306
0.504HisHis: 0.504 ± 0.183
1.055HisIle: 1.055 ± 0.272
1.055HisLys: 1.055 ± 0.232
1.743HisLeu: 1.743 ± 0.297
0.55HisMet: 0.55 ± 0.147
0.825HisAsn: 0.825 ± 0.188
0.963HisPro: 0.963 ± 0.263
0.734HisGln: 0.734 ± 0.168
1.284HisArg: 1.284 ± 0.275
0.825HisSer: 0.825 ± 0.252
0.963HisThr: 0.963 ± 0.184
1.101HisVal: 1.101 ± 0.23
0.413HisTrp: 0.413 ± 0.149
0.688HisTyr: 0.688 ± 0.186
0.0HisXaa: 0.0 ± 0.0
Ile
4.265IleAla: 4.265 ± 0.56
0.642IleCys: 0.642 ± 0.21
3.806IleAsp: 3.806 ± 0.45
4.173IleGlu: 4.173 ± 0.336
1.238IlePhe: 1.238 ± 0.218
4.724IleGly: 4.724 ± 0.482
0.963IleHis: 0.963 ± 0.208
2.798IleIle: 2.798 ± 0.316
3.073IleLys: 3.073 ± 0.379
3.715IleLeu: 3.715 ± 0.436
1.101IleMet: 1.101 ± 0.194
2.476IleAsn: 2.476 ± 0.296
3.073IlePro: 3.073 ± 0.379
1.743IleGln: 1.743 ± 0.274
2.981IleArg: 2.981 ± 0.419
3.256IleSer: 3.256 ± 0.428
2.752IleThr: 2.752 ± 0.357
3.348IleVal: 3.348 ± 0.39
0.825IleTrp: 0.825 ± 0.18
1.422IleTyr: 1.422 ± 0.234
0.0IleXaa: 0.0 ± 0.0
Lys
8.072LysAla: 8.072 ± 0.943
0.459LysCys: 0.459 ± 0.16
3.21LysAsp: 3.21 ± 0.631
3.348LysGlu: 3.348 ± 0.485
1.88LysPhe: 1.88 ± 0.325
3.669LysGly: 3.669 ± 0.407
0.642LysHis: 0.642 ± 0.195
2.339LysIle: 2.339 ± 0.339
4.724LysLys: 4.724 ± 0.555
3.21LysLeu: 3.21 ± 0.367
2.247LysMet: 2.247 ± 0.322
2.522LysAsn: 2.522 ± 0.324
3.119LysPro: 3.119 ± 0.421
1.422LysGln: 1.422 ± 0.268
4.953LysArg: 4.953 ± 0.523
3.302LysSer: 3.302 ± 0.397
3.485LysThr: 3.485 ± 0.387
4.861LysVal: 4.861 ± 0.563
1.147LysTrp: 1.147 ± 0.259
1.88LysTyr: 1.88 ± 0.348
0.0LysXaa: 0.0 ± 0.0
Leu
6.65LeuAla: 6.65 ± 0.535
0.642LeuCys: 0.642 ± 0.189
6.054LeuAsp: 6.054 ± 0.562
5.182LeuGlu: 5.182 ± 0.557
1.926LeuPhe: 1.926 ± 0.235
7.108LeuGly: 7.108 ± 0.548
1.88LeuHis: 1.88 ± 0.321
2.889LeuIle: 2.889 ± 0.41
4.586LeuLys: 4.586 ± 0.655
3.898LeuLeu: 3.898 ± 0.418
1.513LeuMet: 1.513 ± 0.249
3.623LeuAsn: 3.623 ± 0.342
3.623LeuPro: 3.623 ± 0.404
2.293LeuGln: 2.293 ± 0.374
4.861LeuArg: 4.861 ± 0.436
4.357LeuSer: 4.357 ± 0.43
4.54LeuThr: 4.54 ± 0.413
4.861LeuVal: 4.861 ± 0.435
0.78LeuTrp: 0.78 ± 0.221
1.559LeuTyr: 1.559 ± 0.316
0.0LeuXaa: 0.0 ± 0.0
Met
3.027MetAla: 3.027 ± 0.401
0.138MetCys: 0.138 ± 0.077
1.88MetAsp: 1.88 ± 0.333
1.697MetGlu: 1.697 ± 0.314
0.734MetPhe: 0.734 ± 0.231
1.88MetGly: 1.88 ± 0.303
0.321MetHis: 0.321 ± 0.113
0.871MetIle: 0.871 ± 0.205
1.834MetLys: 1.834 ± 0.272
1.88MetLeu: 1.88 ± 0.318
0.504MetMet: 0.504 ± 0.143
0.734MetAsn: 0.734 ± 0.201
1.789MetPro: 1.789 ± 0.295
0.78MetGln: 0.78 ± 0.159
1.238MetArg: 1.238 ± 0.235
1.789MetSer: 1.789 ± 0.253
1.789MetThr: 1.789 ± 0.337
1.376MetVal: 1.376 ± 0.208
0.321MetTrp: 0.321 ± 0.115
0.825MetTyr: 0.825 ± 0.172
0.0MetXaa: 0.0 ± 0.0
Asn
4.265AsnAla: 4.265 ± 0.518
0.275AsnCys: 0.275 ± 0.102
1.972AsnAsp: 1.972 ± 0.274
2.889AsnGlu: 2.889 ± 0.267
1.376AsnPhe: 1.376 ± 0.254
4.678AsnGly: 4.678 ± 0.552
0.871AsnHis: 0.871 ± 0.175
2.431AsnIle: 2.431 ± 0.411
2.155AsnLys: 2.155 ± 0.349
3.027AsnLeu: 3.027 ± 0.433
1.055AsnMet: 1.055 ± 0.192
1.468AsnAsn: 1.468 ± 0.292
2.752AsnPro: 2.752 ± 0.281
1.376AsnGln: 1.376 ± 0.267
2.431AsnArg: 2.431 ± 0.289
2.201AsnSer: 2.201 ± 0.392
1.605AsnThr: 1.605 ± 0.343
2.614AsnVal: 2.614 ± 0.389
0.596AsnTrp: 0.596 ± 0.168
0.963AsnTyr: 0.963 ± 0.211
0.0AsnXaa: 0.0 ± 0.0
Pro
3.119ProAla: 3.119 ± 0.375
0.275ProCys: 0.275 ± 0.133
3.715ProAsp: 3.715 ± 0.379
3.44ProGlu: 3.44 ± 0.433
1.376ProPhe: 1.376 ± 0.249
4.54ProGly: 4.54 ± 0.322
1.009ProHis: 1.009 ± 0.225
2.431ProIle: 2.431 ± 0.381
3.806ProLys: 3.806 ± 0.52
3.21ProLeu: 3.21 ± 0.326
1.147ProMet: 1.147 ± 0.233
2.155ProAsn: 2.155 ± 0.287
1.972ProPro: 1.972 ± 0.351
1.238ProGln: 1.238 ± 0.222
2.247ProArg: 2.247 ± 0.28
3.073ProSer: 3.073 ± 0.482
2.568ProThr: 2.568 ± 0.376
2.798ProVal: 2.798 ± 0.401
1.055ProTrp: 1.055 ± 0.234
1.559ProTyr: 1.559 ± 0.294
0.0ProXaa: 0.0 ± 0.0
Gln
3.623GlnAla: 3.623 ± 0.524
0.459GlnCys: 0.459 ± 0.181
1.422GlnAsp: 1.422 ± 0.209
2.614GlnGlu: 2.614 ± 0.299
1.238GlnPhe: 1.238 ± 0.248
2.018GlnGly: 2.018 ± 0.297
0.459GlnHis: 0.459 ± 0.17
2.247GlnIle: 2.247 ± 0.346
2.431GlnLys: 2.431 ± 0.291
2.522GlnLeu: 2.522 ± 0.32
1.147GlnMet: 1.147 ± 0.22
1.376GlnAsn: 1.376 ± 0.357
1.284GlnPro: 1.284 ± 0.269
1.376GlnGln: 1.376 ± 0.297
2.018GlnArg: 2.018 ± 0.26
1.605GlnSer: 1.605 ± 0.252
2.155GlnThr: 2.155 ± 0.28
2.018GlnVal: 2.018 ± 0.299
0.688GlnTrp: 0.688 ± 0.187
1.422GlnTyr: 1.422 ± 0.229
0.0GlnXaa: 0.0 ± 0.0
Arg
4.219ArgAla: 4.219 ± 0.585
0.963ArgCys: 0.963 ± 0.23
3.485ArgAsp: 3.485 ± 0.38
3.852ArgGlu: 3.852 ± 0.405
2.201ArgPhe: 2.201 ± 0.308
5.274ArgGly: 5.274 ± 0.506
1.284ArgHis: 1.284 ± 0.256
3.99ArgIle: 3.99 ± 0.492
4.953ArgLys: 4.953 ± 0.637
4.678ArgLeu: 4.678 ± 0.519
1.513ArgMet: 1.513 ± 0.252
2.568ArgAsn: 2.568 ± 0.367
2.889ArgPro: 2.889 ± 0.431
2.476ArgGln: 2.476 ± 0.323
4.907ArgArg: 4.907 ± 0.697
3.164ArgSer: 3.164 ± 0.335
3.119ArgThr: 3.119 ± 0.386
3.44ArgVal: 3.44 ± 0.427
1.055ArgTrp: 1.055 ± 0.192
2.155ArgTyr: 2.155 ± 0.34
0.0ArgXaa: 0.0 ± 0.0
Ser
5.228SerAla: 5.228 ± 0.478
0.459SerCys: 0.459 ± 0.154
2.935SerAsp: 2.935 ± 0.379
2.614SerGlu: 2.614 ± 0.291
2.11SerPhe: 2.11 ± 0.303
6.971SerGly: 6.971 ± 0.647
1.101SerHis: 1.101 ± 0.226
3.027SerIle: 3.027 ± 0.397
2.843SerLys: 2.843 ± 0.35
3.669SerLeu: 3.669 ± 0.401
1.513SerMet: 1.513 ± 0.239
2.201SerAsn: 2.201 ± 0.329
2.431SerPro: 2.431 ± 0.353
2.201SerGln: 2.201 ± 0.237
3.256SerArg: 3.256 ± 0.45
4.127SerSer: 4.127 ± 0.589
3.669SerThr: 3.669 ± 0.443
3.852SerVal: 3.852 ± 0.484
1.101SerTrp: 1.101 ± 0.24
2.064SerTyr: 2.064 ± 0.301
0.0SerXaa: 0.0 ± 0.0
Thr
5.182ThrAla: 5.182 ± 0.485
0.504ThrCys: 0.504 ± 0.157
3.44ThrAsp: 3.44 ± 0.384
3.577ThrGlu: 3.577 ± 0.417
1.926ThrPhe: 1.926 ± 0.357
5.641ThrGly: 5.641 ± 0.463
0.642ThrHis: 0.642 ± 0.165
3.119ThrIle: 3.119 ± 0.334
3.531ThrLys: 3.531 ± 0.423
4.54ThrLeu: 4.54 ± 0.453
1.055ThrMet: 1.055 ± 0.213
2.385ThrAsn: 2.385 ± 0.382
2.889ThrPro: 2.889 ± 0.494
1.513ThrGln: 1.513 ± 0.251
2.843ThrArg: 2.843 ± 0.387
2.568ThrSer: 2.568 ± 0.401
3.531ThrThr: 3.531 ± 0.558
4.861ThrVal: 4.861 ± 0.523
1.513ThrTrp: 1.513 ± 0.261
1.33ThrTyr: 1.33 ± 0.196
0.0ThrXaa: 0.0 ± 0.0
Val
6.237ValAla: 6.237 ± 0.615
0.642ValCys: 0.642 ± 0.168
4.311ValAsp: 4.311 ± 0.445
4.632ValGlu: 4.632 ± 0.522
2.018ValPhe: 2.018 ± 0.283
6.237ValGly: 6.237 ± 0.563
1.513ValHis: 1.513 ± 0.285
3.348ValIle: 3.348 ± 0.438
3.44ValLys: 3.44 ± 0.411
4.127ValLeu: 4.127 ± 0.483
1.238ValMet: 1.238 ± 0.308
2.706ValAsn: 2.706 ± 0.339
2.981ValPro: 2.981 ± 0.424
2.064ValGln: 2.064 ± 0.274
3.944ValArg: 3.944 ± 0.34
3.531ValSer: 3.531 ± 0.472
3.394ValThr: 3.394 ± 0.407
3.531ValVal: 3.531 ± 0.417
1.376ValTrp: 1.376 ± 0.256
1.926ValTyr: 1.926 ± 0.315
0.0ValXaa: 0.0 ± 0.0
Trp
1.422TrpAla: 1.422 ± 0.262
0.229TrpCys: 0.229 ± 0.092
1.513TrpAsp: 1.513 ± 0.285
1.147TrpGlu: 1.147 ± 0.253
0.504TrpPhe: 0.504 ± 0.168
1.468TrpGly: 1.468 ± 0.274
0.459TrpHis: 0.459 ± 0.154
0.504TrpIle: 0.504 ± 0.144
0.642TrpLys: 0.642 ± 0.15
1.605TrpLeu: 1.605 ± 0.268
0.367TrpMet: 0.367 ± 0.118
0.871TrpAsn: 0.871 ± 0.259
0.688TrpPro: 0.688 ± 0.189
0.688TrpGln: 0.688 ± 0.179
1.192TrpArg: 1.192 ± 0.295
1.284TrpSer: 1.284 ± 0.244
0.917TrpThr: 0.917 ± 0.197
1.101TrpVal: 1.101 ± 0.209
0.321TrpTrp: 0.321 ± 0.129
0.734TrpTyr: 0.734 ± 0.214
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.247TyrAla: 2.247 ± 0.307
0.367TyrCys: 0.367 ± 0.161
2.339TyrAsp: 2.339 ± 0.4
2.201TyrGlu: 2.201 ± 0.331
0.963TyrPhe: 0.963 ± 0.181
2.752TyrGly: 2.752 ± 0.361
0.734TyrHis: 0.734 ± 0.182
1.605TyrIle: 1.605 ± 0.281
1.284TyrLys: 1.284 ± 0.222
2.293TyrLeu: 2.293 ± 0.387
0.596TyrMet: 0.596 ± 0.201
1.284TyrAsn: 1.284 ± 0.201
1.422TyrPro: 1.422 ± 0.302
0.871TyrGln: 0.871 ± 0.196
2.706TyrArg: 2.706 ± 0.334
1.651TyrSer: 1.651 ± 0.249
1.376TyrThr: 1.376 ± 0.245
1.926TyrVal: 1.926 ± 0.367
0.504TyrTrp: 0.504 ± 0.194
0.871TyrTyr: 0.871 ± 0.17
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 98 proteins (21806 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