Amino acid dipepetide frequency for Gordonia phage Woes

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
13.782AlaAla: 13.782 ± 3.954
0.746AlaCys: 0.746 ± 0.195
4.916AlaAsp: 4.916 ± 0.409
7.286AlaGlu: 7.286 ± 0.665
3.029AlaPhe: 3.029 ± 0.358
7.286AlaGly: 7.286 ± 0.783
1.097AlaHis: 1.097 ± 0.224
5.443AlaIle: 5.443 ± 0.767
4.038AlaLys: 4.038 ± 0.379
7.901AlaLeu: 7.901 ± 0.892
3.116AlaMet: 3.116 ± 0.401
2.897AlaAsn: 2.897 ± 0.421
4.696AlaPro: 4.696 ± 0.518
3.95AlaGln: 3.95 ± 0.76
5.882AlaArg: 5.882 ± 0.554
6.013AlaSer: 6.013 ± 0.685
5.838AlaThr: 5.838 ± 0.517
6.628AlaVal: 6.628 ± 0.724
1.975AlaTrp: 1.975 ± 0.571
2.634AlaTyr: 2.634 ± 0.288
0.0AlaXaa: 0.0 ± 0.0
Cys
0.79CysAla: 0.79 ± 0.2
0.132CysCys: 0.132 ± 0.074
0.614CysAsp: 0.614 ± 0.172
0.395CysGlu: 0.395 ± 0.116
0.219CysPhe: 0.219 ± 0.104
0.966CysGly: 0.966 ± 0.254
0.307CysHis: 0.307 ± 0.114
0.483CysIle: 0.483 ± 0.164
0.395CysLys: 0.395 ± 0.12
0.351CysLeu: 0.351 ± 0.113
0.219CysMet: 0.219 ± 0.091
0.351CysAsn: 0.351 ± 0.128
0.658CysPro: 0.658 ± 0.164
0.263CysGln: 0.263 ± 0.116
0.658CysArg: 0.658 ± 0.184
0.834CysSer: 0.834 ± 0.194
0.702CysThr: 0.702 ± 0.21
0.702CysVal: 0.702 ± 0.198
0.132CysTrp: 0.132 ± 0.063
0.307CysTyr: 0.307 ± 0.112
0.0CysXaa: 0.0 ± 0.0
Asp
5.399AspAla: 5.399 ± 0.522
0.483AspCys: 0.483 ± 0.14
4.214AspAsp: 4.214 ± 0.657
4.916AspGlu: 4.916 ± 0.67
2.282AspPhe: 2.282 ± 0.294
4.258AspGly: 4.258 ± 0.629
1.053AspHis: 1.053 ± 0.195
3.511AspIle: 3.511 ± 0.395
2.809AspLys: 2.809 ± 0.392
4.301AspLeu: 4.301 ± 0.444
1.361AspMet: 1.361 ± 0.234
2.677AspAsn: 2.677 ± 0.314
3.994AspPro: 3.994 ± 0.557
2.151AspGln: 2.151 ± 0.235
2.502AspArg: 2.502 ± 0.437
3.424AspSer: 3.424 ± 0.366
3.38AspThr: 3.38 ± 0.358
4.17AspVal: 4.17 ± 0.549
1.185AspTrp: 1.185 ± 0.194
2.239AspTyr: 2.239 ± 0.398
0.0AspXaa: 0.0 ± 0.0
Glu
6.54GluAla: 6.54 ± 0.6
0.922GluCys: 0.922 ± 0.252
3.863GluAsp: 3.863 ± 0.501
6.101GluGlu: 6.101 ± 0.683
2.502GluPhe: 2.502 ± 0.414
4.828GluGly: 4.828 ± 0.513
0.966GluHis: 0.966 ± 0.251
3.95GluIle: 3.95 ± 0.449
2.941GluLys: 2.941 ± 0.408
6.101GluLeu: 6.101 ± 0.776
1.536GluMet: 1.536 ± 0.243
1.8GluAsn: 1.8 ± 0.243
2.634GluPro: 2.634 ± 0.491
3.029GluGln: 3.029 ± 0.45
5.048GluArg: 5.048 ± 0.691
4.258GluSer: 4.258 ± 0.377
3.906GluThr: 3.906 ± 0.464
5.487GluVal: 5.487 ± 0.422
1.317GluTrp: 1.317 ± 0.278
2.502GluTyr: 2.502 ± 0.44
0.0GluXaa: 0.0 ± 0.0
Phe
3.292PheAla: 3.292 ± 0.342
0.395PheCys: 0.395 ± 0.126
2.721PheAsp: 2.721 ± 0.367
2.765PheGlu: 2.765 ± 0.387
0.922PhePhe: 0.922 ± 0.183
3.38PheGly: 3.38 ± 0.414
0.702PheHis: 0.702 ± 0.194
1.756PheIle: 1.756 ± 0.315
2.282PheLys: 2.282 ± 0.24
1.843PheLeu: 1.843 ± 0.257
0.966PheMet: 0.966 ± 0.195
1.712PheAsn: 1.712 ± 0.203
1.492PhePro: 1.492 ± 0.302
1.141PheGln: 1.141 ± 0.171
1.624PheArg: 1.624 ± 0.24
2.502PheSer: 2.502 ± 0.349
2.239PheThr: 2.239 ± 0.333
2.195PheVal: 2.195 ± 0.35
0.439PheTrp: 0.439 ± 0.101
0.878PheTyr: 0.878 ± 0.197
0.0PheXaa: 0.0 ± 0.0
Gly
6.803GlyAla: 6.803 ± 0.886
0.878GlyCys: 0.878 ± 0.243
4.345GlyAsp: 4.345 ± 0.391
4.565GlyGlu: 4.565 ± 0.422
2.721GlyPhe: 2.721 ± 0.332
7.813GlyGly: 7.813 ± 1.012
1.097GlyHis: 1.097 ± 0.226
4.17GlyIle: 4.17 ± 0.522
4.872GlyLys: 4.872 ± 0.509
5.092GlyLeu: 5.092 ± 0.672
1.8GlyMet: 1.8 ± 0.25
3.599GlyAsn: 3.599 ± 0.423
3.467GlyPro: 3.467 ± 0.4
2.151GlyGln: 2.151 ± 0.333
4.126GlyArg: 4.126 ± 0.549
5.443GlySer: 5.443 ± 0.645
5.662GlyThr: 5.662 ± 0.666
5.574GlyVal: 5.574 ± 0.415
1.624GlyTrp: 1.624 ± 0.245
2.546GlyTyr: 2.546 ± 0.384
0.0GlyXaa: 0.0 ± 0.0
His
1.273HisAla: 1.273 ± 0.257
0.219HisCys: 0.219 ± 0.098
0.922HisAsp: 0.922 ± 0.224
0.966HisGlu: 0.966 ± 0.235
0.395HisPhe: 0.395 ± 0.113
1.097HisGly: 1.097 ± 0.246
0.307HisHis: 0.307 ± 0.144
1.053HisIle: 1.053 ± 0.184
0.878HisLys: 0.878 ± 0.235
1.58HisLeu: 1.58 ± 0.281
0.395HisMet: 0.395 ± 0.121
0.527HisAsn: 0.527 ± 0.109
1.141HisPro: 1.141 ± 0.203
0.79HisGln: 0.79 ± 0.229
1.185HisArg: 1.185 ± 0.271
1.097HisSer: 1.097 ± 0.216
0.878HisThr: 0.878 ± 0.239
1.053HisVal: 1.053 ± 0.268
0.263HisTrp: 0.263 ± 0.116
0.571HisTyr: 0.571 ± 0.137
0.0HisXaa: 0.0 ± 0.0
Ile
5.443IleAla: 5.443 ± 0.704
0.307IleCys: 0.307 ± 0.098
4.038IleAsp: 4.038 ± 0.389
3.994IleGlu: 3.994 ± 0.461
1.843IlePhe: 1.843 ± 0.298
4.96IleGly: 4.96 ± 0.655
0.79IleHis: 0.79 ± 0.139
3.16IleIle: 3.16 ± 0.347
3.116IleLys: 3.116 ± 0.423
3.116IleLeu: 3.116 ± 0.307
0.966IleMet: 0.966 ± 0.205
2.019IleAsn: 2.019 ± 0.232
2.502IlePro: 2.502 ± 0.313
2.809IleGln: 2.809 ± 0.298
3.072IleArg: 3.072 ± 0.368
2.853IleSer: 2.853 ± 0.302
2.721IleThr: 2.721 ± 0.294
3.775IleVal: 3.775 ± 0.424
0.922IleTrp: 0.922 ± 0.185
1.053IleTyr: 1.053 ± 0.22
0.0IleXaa: 0.0 ± 0.0
Lys
5.443LysAla: 5.443 ± 0.735
0.307LysCys: 0.307 ± 0.123
3.204LysAsp: 3.204 ± 0.55
2.809LysGlu: 2.809 ± 0.471
2.063LysPhe: 2.063 ± 0.245
3.511LysGly: 3.511 ± 0.414
0.79LysHis: 0.79 ± 0.187
2.721LysIle: 2.721 ± 0.332
3.116LysLys: 3.116 ± 0.328
4.433LysLeu: 4.433 ± 0.43
1.273LysMet: 1.273 ± 0.287
2.414LysAsn: 2.414 ± 0.283
2.546LysPro: 2.546 ± 0.43
1.843LysGln: 1.843 ± 0.308
3.38LysArg: 3.38 ± 0.522
2.502LysSer: 2.502 ± 0.351
2.721LysThr: 2.721 ± 0.322
3.775LysVal: 3.775 ± 0.363
0.571LysTrp: 0.571 ± 0.174
1.536LysTyr: 1.536 ± 0.279
0.0LysXaa: 0.0 ± 0.0
Leu
6.935LeuAla: 6.935 ± 0.667
0.658LeuCys: 0.658 ± 0.173
4.477LeuAsp: 4.477 ± 0.433
6.364LeuGlu: 6.364 ± 0.77
2.765LeuPhe: 2.765 ± 0.317
5.048LeuGly: 5.048 ± 0.417
1.273LeuHis: 1.273 ± 0.247
3.643LeuIle: 3.643 ± 0.407
3.643LeuLys: 3.643 ± 0.436
5.311LeuLeu: 5.311 ± 0.42
1.975LeuMet: 1.975 ± 0.265
3.16LeuAsn: 3.16 ± 0.412
3.819LeuPro: 3.819 ± 0.365
2.985LeuGln: 2.985 ± 0.475
4.301LeuArg: 4.301 ± 0.398
4.082LeuSer: 4.082 ± 0.445
4.74LeuThr: 4.74 ± 0.523
4.565LeuVal: 4.565 ± 0.484
1.273LeuTrp: 1.273 ± 0.178
1.712LeuTyr: 1.712 ± 0.445
0.0LeuXaa: 0.0 ± 0.0
Met
2.414MetAla: 2.414 ± 0.357
0.263MetCys: 0.263 ± 0.105
1.097MetAsp: 1.097 ± 0.193
1.141MetGlu: 1.141 ± 0.203
0.658MetPhe: 0.658 ± 0.201
1.492MetGly: 1.492 ± 0.265
0.439MetHis: 0.439 ± 0.152
0.878MetIle: 0.878 ± 0.168
1.712MetLys: 1.712 ± 0.289
1.843MetLeu: 1.843 ± 0.239
0.658MetMet: 0.658 ± 0.198
1.361MetAsn: 1.361 ± 0.226
1.317MetPro: 1.317 ± 0.293
1.097MetGln: 1.097 ± 0.258
1.273MetArg: 1.273 ± 0.231
1.931MetSer: 1.931 ± 0.243
1.931MetThr: 1.931 ± 0.272
1.712MetVal: 1.712 ± 0.396
0.219MetTrp: 0.219 ± 0.086
0.966MetTyr: 0.966 ± 0.214
0.0MetXaa: 0.0 ± 0.0
Asn
4.082AsnAla: 4.082 ± 0.549
0.351AsnCys: 0.351 ± 0.125
2.37AsnAsp: 2.37 ± 0.407
1.931AsnGlu: 1.931 ± 0.27
1.273AsnPhe: 1.273 ± 0.23
4.038AsnGly: 4.038 ± 0.381
0.614AsnHis: 0.614 ± 0.188
2.546AsnIle: 2.546 ± 0.293
2.151AsnLys: 2.151 ± 0.341
2.941AsnLeu: 2.941 ± 0.327
1.053AsnMet: 1.053 ± 0.195
1.843AsnAsn: 1.843 ± 0.307
2.721AsnPro: 2.721 ± 0.287
1.712AsnGln: 1.712 ± 0.221
1.931AsnArg: 1.931 ± 0.346
2.59AsnSer: 2.59 ± 0.331
2.063AsnThr: 2.063 ± 0.326
2.634AsnVal: 2.634 ± 0.331
0.527AsnTrp: 0.527 ± 0.131
1.448AsnTyr: 1.448 ± 0.223
0.0AsnXaa: 0.0 ± 0.0
Pro
4.96ProAla: 4.96 ± 0.462
0.219ProCys: 0.219 ± 0.125
3.599ProAsp: 3.599 ± 0.433
4.565ProGlu: 4.565 ± 0.623
1.843ProPhe: 1.843 ± 0.298
4.653ProGly: 4.653 ± 0.502
0.834ProHis: 0.834 ± 0.24
2.151ProIle: 2.151 ± 0.272
2.809ProLys: 2.809 ± 0.392
2.897ProLeu: 2.897 ± 0.291
1.229ProMet: 1.229 ± 0.199
2.502ProAsn: 2.502 ± 0.331
2.546ProPro: 2.546 ± 0.354
1.8ProGln: 1.8 ± 0.354
1.624ProArg: 1.624 ± 0.343
3.467ProSer: 3.467 ± 0.486
3.204ProThr: 3.204 ± 0.48
4.389ProVal: 4.389 ± 0.446
1.053ProTrp: 1.053 ± 0.211
1.668ProTyr: 1.668 ± 0.255
0.0ProXaa: 0.0 ± 0.0
Gln
3.994GlnAla: 3.994 ± 0.585
0.219GlnCys: 0.219 ± 0.113
1.668GlnAsp: 1.668 ± 0.286
2.502GlnGlu: 2.502 ± 0.476
1.536GlnPhe: 1.536 ± 0.239
2.326GlnGly: 2.326 ± 0.298
0.614GlnHis: 0.614 ± 0.141
2.107GlnIle: 2.107 ± 0.358
1.756GlnLys: 1.756 ± 0.295
2.941GlnLeu: 2.941 ± 0.347
0.746GlnMet: 0.746 ± 0.167
1.361GlnAsn: 1.361 ± 0.336
1.843GlnPro: 1.843 ± 0.361
1.668GlnGln: 1.668 ± 0.26
2.634GlnArg: 2.634 ± 0.485
1.887GlnSer: 1.887 ± 0.304
1.843GlnThr: 1.843 ± 0.341
3.248GlnVal: 3.248 ± 0.283
0.79GlnTrp: 0.79 ± 0.186
1.229GlnTyr: 1.229 ± 0.226
0.0GlnXaa: 0.0 ± 0.0
Arg
4.872ArgAla: 4.872 ± 0.442
0.79ArgCys: 0.79 ± 0.203
2.897ArgAsp: 2.897 ± 0.526
4.258ArgGlu: 4.258 ± 0.463
2.019ArgPhe: 2.019 ± 0.334
3.555ArgGly: 3.555 ± 0.365
1.448ArgHis: 1.448 ± 0.263
3.072ArgIle: 3.072 ± 0.366
3.072ArgLys: 3.072 ± 0.433
5.004ArgLeu: 5.004 ± 0.559
1.624ArgMet: 1.624 ± 0.253
2.502ArgAsn: 2.502 ± 0.374
3.029ArgPro: 3.029 ± 0.442
2.458ArgGln: 2.458 ± 0.353
4.433ArgArg: 4.433 ± 0.657
2.326ArgSer: 2.326 ± 0.287
2.721ArgThr: 2.721 ± 0.325
4.258ArgVal: 4.258 ± 0.598
0.702ArgTrp: 0.702 ± 0.22
2.239ArgTyr: 2.239 ± 0.299
0.0ArgXaa: 0.0 ± 0.0
Ser
5.969SerAla: 5.969 ± 0.516
0.351SerCys: 0.351 ± 0.138
4.214SerAsp: 4.214 ± 0.404
3.204SerGlu: 3.204 ± 0.405
2.239SerPhe: 2.239 ± 0.385
4.74SerGly: 4.74 ± 0.481
1.097SerHis: 1.097 ± 0.214
4.126SerIle: 4.126 ± 0.466
2.941SerLys: 2.941 ± 0.317
4.126SerLeu: 4.126 ± 0.48
1.712SerMet: 1.712 ± 0.259
2.546SerAsn: 2.546 ± 0.382
3.467SerPro: 3.467 ± 0.321
1.712SerGln: 1.712 ± 0.29
3.424SerArg: 3.424 ± 0.314
4.96SerSer: 4.96 ± 0.424
3.599SerThr: 3.599 ± 0.362
4.565SerVal: 4.565 ± 0.439
0.966SerTrp: 0.966 ± 0.171
2.019SerTyr: 2.019 ± 0.296
0.0SerXaa: 0.0 ± 0.0
Thr
6.321ThrAla: 6.321 ± 0.742
0.571ThrCys: 0.571 ± 0.189
3.555ThrAsp: 3.555 ± 0.613
3.775ThrGlu: 3.775 ± 0.542
1.843ThrPhe: 1.843 ± 0.297
5.618ThrGly: 5.618 ± 0.543
0.746ThrHis: 0.746 ± 0.212
2.897ThrIle: 2.897 ± 0.371
2.37ThrLys: 2.37 ± 0.247
4.653ThrLeu: 4.653 ± 0.4
0.966ThrMet: 0.966 ± 0.274
2.458ThrAsn: 2.458 ± 0.309
3.994ThrPro: 3.994 ± 0.585
1.405ThrGln: 1.405 ± 0.232
2.634ThrArg: 2.634 ± 0.367
4.301ThrSer: 4.301 ± 0.483
4.828ThrThr: 4.828 ± 0.553
5.048ThrVal: 5.048 ± 0.562
1.317ThrTrp: 1.317 ± 0.201
1.624ThrTyr: 1.624 ± 0.276
0.0ThrXaa: 0.0 ± 0.0
Val
6.628ValAla: 6.628 ± 0.75
0.702ValCys: 0.702 ± 0.208
4.521ValAsp: 4.521 ± 0.411
5.53ValGlu: 5.53 ± 0.474
2.941ValPhe: 2.941 ± 0.361
4.828ValGly: 4.828 ± 0.692
1.536ValHis: 1.536 ± 0.26
3.775ValIle: 3.775 ± 0.572
3.687ValLys: 3.687 ± 0.399
4.872ValLeu: 4.872 ± 0.404
1.756ValMet: 1.756 ± 0.245
2.809ValAsn: 2.809 ± 0.357
3.863ValPro: 3.863 ± 0.411
2.151ValGln: 2.151 ± 0.333
4.17ValArg: 4.17 ± 0.39
5.092ValSer: 5.092 ± 0.653
4.696ValThr: 4.696 ± 0.515
4.784ValVal: 4.784 ± 0.415
1.317ValTrp: 1.317 ± 0.211
1.843ValTyr: 1.843 ± 0.293
0.0ValXaa: 0.0 ± 0.0
Trp
1.58TrpAla: 1.58 ± 0.492
0.439TrpCys: 0.439 ± 0.148
1.229TrpAsp: 1.229 ± 0.214
1.317TrpGlu: 1.317 ± 0.204
0.834TrpPhe: 0.834 ± 0.199
1.273TrpGly: 1.273 ± 0.243
0.351TrpHis: 0.351 ± 0.132
0.658TrpIle: 0.658 ± 0.193
1.01TrpLys: 1.01 ± 0.196
1.185TrpLeu: 1.185 ± 0.179
0.219TrpMet: 0.219 ± 0.086
0.614TrpAsn: 0.614 ± 0.23
0.79TrpPro: 0.79 ± 0.153
0.746TrpGln: 0.746 ± 0.221
1.273TrpArg: 1.273 ± 0.218
0.922TrpSer: 0.922 ± 0.197
1.273TrpThr: 1.273 ± 0.285
0.922TrpVal: 0.922 ± 0.187
0.176TrpTrp: 0.176 ± 0.092
0.483TrpTyr: 0.483 ± 0.128
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.634TyrAla: 2.634 ± 0.433
0.527TyrCys: 0.527 ± 0.167
1.843TyrAsp: 1.843 ± 0.332
1.843TyrGlu: 1.843 ± 0.361
1.317TyrPhe: 1.317 ± 0.258
2.677TyrGly: 2.677 ± 0.356
0.527TyrHis: 0.527 ± 0.143
1.361TyrIle: 1.361 ± 0.265
1.405TyrLys: 1.405 ± 0.213
2.239TyrLeu: 2.239 ± 0.361
0.79TyrMet: 0.79 ± 0.182
1.668TyrAsn: 1.668 ± 0.274
1.492TyrPro: 1.492 ± 0.241
1.053TyrGln: 1.053 ± 0.233
2.107TyrArg: 2.107 ± 0.373
1.492TyrSer: 1.492 ± 0.273
1.975TyrThr: 1.975 ± 0.3
2.019TyrVal: 2.019 ± 0.387
0.527TyrTrp: 0.527 ± 0.173
0.878TyrTyr: 0.878 ± 0.21
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 91 proteins (22784 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