Amino acid dipepetide frequency for Mycobacterium phage Patience

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
8.792AlaAla: 8.792 ± 1.229
0.718AlaCys: 0.718 ± 0.182
5.473AlaAsp: 5.473 ± 0.615
6.056AlaGlu: 6.056 ± 0.581
2.781AlaPhe: 2.781 ± 0.402
6.773AlaGly: 6.773 ± 0.906
1.839AlaHis: 1.839 ± 0.287
5.966AlaIle: 5.966 ± 0.601
5.607AlaLys: 5.607 ± 0.527
6.729AlaLeu: 6.729 ± 0.524
2.736AlaMet: 2.736 ± 0.415
4.172AlaAsn: 4.172 ± 0.591
3.185AlaPro: 3.185 ± 0.377
2.602AlaGln: 2.602 ± 0.376
4.845AlaArg: 4.845 ± 0.421
4.127AlaSer: 4.127 ± 0.378
4.934AlaThr: 4.934 ± 0.449
6.011AlaVal: 6.011 ± 0.559
1.57AlaTrp: 1.57 ± 0.299
2.602AlaTyr: 2.602 ± 0.37
0.0AlaXaa: 0.0 ± 0.0
Cys
0.628CysAla: 0.628 ± 0.192
0.224CysCys: 0.224 ± 0.114
0.942CysAsp: 0.942 ± 0.25
0.583CysGlu: 0.583 ± 0.151
0.269CysPhe: 0.269 ± 0.111
1.077CysGly: 1.077 ± 0.226
0.269CysHis: 0.269 ± 0.099
0.314CysIle: 0.314 ± 0.134
0.449CysLys: 0.449 ± 0.159
0.673CysLeu: 0.673 ± 0.184
0.09CysMet: 0.09 ± 0.067
0.538CysAsn: 0.538 ± 0.146
0.763CysPro: 0.763 ± 0.202
0.269CysGln: 0.269 ± 0.124
0.404CysArg: 0.404 ± 0.117
0.493CysSer: 0.493 ± 0.173
0.224CysThr: 0.224 ± 0.098
0.404CysVal: 0.404 ± 0.128
0.0CysTrp: 0.0 ± 0.0
0.135CysTyr: 0.135 ± 0.077
0.0CysXaa: 0.0 ± 0.0
Asp
5.159AspAla: 5.159 ± 0.569
0.538AspCys: 0.538 ± 0.171
4.979AspAsp: 4.979 ± 0.591
4.979AspGlu: 4.979 ± 0.715
2.602AspPhe: 2.602 ± 0.344
5.248AspGly: 5.248 ± 0.58
1.121AspHis: 1.121 ± 0.267
2.781AspIle: 2.781 ± 0.305
3.05AspLys: 3.05 ± 0.544
5.473AspLeu: 5.473 ± 0.376
1.705AspMet: 1.705 ± 0.302
2.243AspAsn: 2.243 ± 0.304
3.723AspPro: 3.723 ± 0.444
2.063AspGln: 2.063 ± 0.335
3.947AspArg: 3.947 ± 0.458
3.275AspSer: 3.275 ± 0.439
3.05AspThr: 3.05 ± 0.326
4.217AspVal: 4.217 ± 0.391
1.166AspTrp: 1.166 ± 0.241
2.377AspTyr: 2.377 ± 0.326
0.0AspXaa: 0.0 ± 0.0
Glu
5.742GluAla: 5.742 ± 0.449
0.359GluCys: 0.359 ± 0.113
4.665GluAsp: 4.665 ± 0.476
5.517GluGlu: 5.517 ± 0.595
2.781GluPhe: 2.781 ± 0.414
4.665GluGly: 4.665 ± 0.518
1.346GluHis: 1.346 ± 0.272
4.845GluIle: 4.845 ± 0.552
3.992GluLys: 3.992 ± 0.523
6.011GluLeu: 6.011 ± 0.507
2.063GluMet: 2.063 ± 0.323
3.633GluAsn: 3.633 ± 0.413
2.243GluPro: 2.243 ± 0.381
2.467GluGln: 2.467 ± 0.391
4.082GluArg: 4.082 ± 0.575
3.678GluSer: 3.678 ± 0.286
3.633GluThr: 3.633 ± 0.473
4.351GluVal: 4.351 ± 0.51
0.987GluTrp: 0.987 ± 0.258
2.019GluTyr: 2.019 ± 0.297
0.0GluXaa: 0.0 ± 0.0
Phe
3.095PheAla: 3.095 ± 0.47
0.583PheCys: 0.583 ± 0.204
2.647PheAsp: 2.647 ± 0.385
1.974PheGlu: 1.974 ± 0.37
1.256PhePhe: 1.256 ± 0.254
3.903PheGly: 3.903 ± 0.391
0.673PheHis: 0.673 ± 0.162
2.647PheIle: 2.647 ± 0.345
1.435PheLys: 1.435 ± 0.215
2.691PheLeu: 2.691 ± 0.321
0.942PheMet: 0.942 ± 0.197
1.525PheAsn: 1.525 ± 0.239
1.166PhePro: 1.166 ± 0.191
1.256PheGln: 1.256 ± 0.189
2.467PheArg: 2.467 ± 0.312
2.377PheSer: 2.377 ± 0.384
1.749PheThr: 1.749 ± 0.386
2.781PheVal: 2.781 ± 0.367
0.763PheTrp: 0.763 ± 0.194
1.077PheTyr: 1.077 ± 0.234
0.0PheXaa: 0.0 ± 0.0
Gly
6.19GlyAla: 6.19 ± 0.718
0.449GlyCys: 0.449 ± 0.165
4.665GlyAsp: 4.665 ± 0.514
5.383GlyGlu: 5.383 ± 0.625
2.736GlyPhe: 2.736 ± 0.367
6.953GlyGly: 6.953 ± 1.015
1.391GlyHis: 1.391 ± 0.251
4.934GlyIle: 4.934 ± 0.729
5.652GlyLys: 5.652 ± 0.58
5.921GlyLeu: 5.921 ± 0.69
1.749GlyMet: 1.749 ± 0.288
3.947GlyAsn: 3.947 ± 0.436
2.916GlyPro: 2.916 ± 0.395
2.961GlyGln: 2.961 ± 0.429
3.364GlyArg: 3.364 ± 0.419
5.203GlySer: 5.203 ± 0.651
5.697GlyThr: 5.697 ± 0.576
5.428GlyVal: 5.428 ± 0.626
1.615GlyTrp: 1.615 ± 0.274
2.691GlyTyr: 2.691 ± 0.412
0.0GlyXaa: 0.0 ± 0.0
His
1.48HisAla: 1.48 ± 0.407
0.224HisCys: 0.224 ± 0.096
1.077HisAsp: 1.077 ± 0.228
1.121HisGlu: 1.121 ± 0.242
0.538HisPhe: 0.538 ± 0.193
1.435HisGly: 1.435 ± 0.268
0.628HisHis: 0.628 ± 0.224
0.718HisIle: 0.718 ± 0.188
0.718HisLys: 0.718 ± 0.186
1.391HisLeu: 1.391 ± 0.295
0.359HisMet: 0.359 ± 0.141
1.256HisAsn: 1.256 ± 0.183
1.077HisPro: 1.077 ± 0.224
0.449HisGln: 0.449 ± 0.167
1.48HisArg: 1.48 ± 0.262
1.166HisSer: 1.166 ± 0.294
1.256HisThr: 1.256 ± 0.266
0.987HisVal: 0.987 ± 0.187
0.449HisTrp: 0.449 ± 0.142
0.718HisTyr: 0.718 ± 0.195
0.0HisXaa: 0.0 ± 0.0
Ile
5.248IleAla: 5.248 ± 0.47
0.359IleCys: 0.359 ± 0.11
3.723IleAsp: 3.723 ± 0.42
3.813IleGlu: 3.813 ± 0.414
2.377IlePhe: 2.377 ± 0.388
4.8IleGly: 4.8 ± 0.481
1.032IleHis: 1.032 ± 0.196
2.826IleIle: 2.826 ± 0.413
3.185IleLys: 3.185 ± 0.349
4.351IleLeu: 4.351 ± 0.534
1.032IleMet: 1.032 ± 0.227
2.916IleAsn: 2.916 ± 0.413
3.544IlePro: 3.544 ± 0.404
2.377IleGln: 2.377 ± 0.313
3.858IleArg: 3.858 ± 0.347
3.768IleSer: 3.768 ± 0.492
3.633IleThr: 3.633 ± 0.473
3.23IleVal: 3.23 ± 0.385
0.583IleTrp: 0.583 ± 0.131
1.57IleTyr: 1.57 ± 0.292
0.0IleXaa: 0.0 ± 0.0
Lys
4.979LysAla: 4.979 ± 0.583
0.404LysCys: 0.404 ± 0.152
3.454LysAsp: 3.454 ± 0.441
4.261LysGlu: 4.261 ± 0.492
2.512LysPhe: 2.512 ± 0.296
3.544LysGly: 3.544 ± 0.343
1.211LysHis: 1.211 ± 0.243
3.633LysIle: 3.633 ± 0.44
6.011LysLys: 6.011 ± 0.911
3.678LysLeu: 3.678 ± 0.355
1.615LysMet: 1.615 ± 0.226
3.005LysAsn: 3.005 ± 0.368
3.14LysPro: 3.14 ± 0.388
1.839LysGln: 1.839 ± 0.287
4.889LysArg: 4.889 ± 0.577
3.005LysSer: 3.005 ± 0.512
3.005LysThr: 3.005 ± 0.467
3.275LysVal: 3.275 ± 0.377
1.301LysTrp: 1.301 ± 0.253
1.794LysTyr: 1.794 ± 0.318
0.0LysXaa: 0.0 ± 0.0
Leu
7.357LeuAla: 7.357 ± 0.52
1.211LeuCys: 1.211 ± 0.299
4.71LeuAsp: 4.71 ± 0.402
5.114LeuGlu: 5.114 ± 0.426
1.929LeuPhe: 1.929 ± 0.268
5.966LeuGly: 5.966 ± 0.744
0.987LeuHis: 0.987 ± 0.284
4.082LeuIle: 4.082 ± 0.42
4.396LeuLys: 4.396 ± 0.392
5.114LeuLeu: 5.114 ± 0.421
1.525LeuMet: 1.525 ± 0.319
2.916LeuAsn: 2.916 ± 0.345
3.723LeuPro: 3.723 ± 0.477
2.467LeuGln: 2.467 ± 0.285
4.8LeuArg: 4.8 ± 0.45
4.172LeuSer: 4.172 ± 0.32
3.858LeuThr: 3.858 ± 0.405
4.351LeuVal: 4.351 ± 0.519
1.615LeuTrp: 1.615 ± 0.298
1.794LeuTyr: 1.794 ± 0.264
0.0LeuXaa: 0.0 ± 0.0
Met
3.095MetAla: 3.095 ± 0.415
0.09MetCys: 0.09 ± 0.059
1.121MetAsp: 1.121 ± 0.174
1.615MetGlu: 1.615 ± 0.287
0.852MetPhe: 0.852 ± 0.172
1.346MetGly: 1.346 ± 0.206
0.449MetHis: 0.449 ± 0.124
1.615MetIle: 1.615 ± 0.298
1.391MetLys: 1.391 ± 0.302
0.807MetLeu: 0.807 ± 0.17
0.538MetMet: 0.538 ± 0.152
1.032MetAsn: 1.032 ± 0.209
1.346MetPro: 1.346 ± 0.209
0.942MetGln: 0.942 ± 0.201
1.66MetArg: 1.66 ± 0.254
1.929MetSer: 1.929 ± 0.295
1.749MetThr: 1.749 ± 0.29
1.211MetVal: 1.211 ± 0.249
0.359MetTrp: 0.359 ± 0.107
0.538MetTyr: 0.538 ± 0.167
0.0MetXaa: 0.0 ± 0.0
Asn
3.768AsnAla: 3.768 ± 0.509
0.404AsnCys: 0.404 ± 0.134
2.422AsnAsp: 2.422 ± 0.332
3.05AsnGlu: 3.05 ± 0.414
1.929AsnPhe: 1.929 ± 0.367
3.185AsnGly: 3.185 ± 0.333
0.718AsnHis: 0.718 ± 0.168
2.377AsnIle: 2.377 ± 0.311
2.288AsnLys: 2.288 ± 0.322
3.319AsnLeu: 3.319 ± 0.416
0.897AsnMet: 0.897 ± 0.211
2.063AsnAsn: 2.063 ± 0.256
3.095AsnPro: 3.095 ± 0.455
1.839AsnGln: 1.839 ± 0.293
3.095AsnArg: 3.095 ± 0.375
3.185AsnSer: 3.185 ± 0.377
2.377AsnThr: 2.377 ± 0.288
3.544AsnVal: 3.544 ± 0.454
0.852AsnTrp: 0.852 ± 0.308
1.301AsnTyr: 1.301 ± 0.222
0.0AsnXaa: 0.0 ± 0.0
Pro
3.589ProAla: 3.589 ± 0.391
0.449ProCys: 0.449 ± 0.142
3.544ProAsp: 3.544 ± 0.567
5.114ProGlu: 5.114 ± 0.548
1.839ProPhe: 1.839 ± 0.269
4.396ProGly: 4.396 ± 0.366
0.807ProHis: 0.807 ± 0.206
2.557ProIle: 2.557 ± 0.311
2.243ProLys: 2.243 ± 0.354
2.557ProLeu: 2.557 ± 0.37
0.897ProMet: 0.897 ± 0.201
2.512ProAsn: 2.512 ± 0.343
2.063ProPro: 2.063 ± 0.369
1.794ProGln: 1.794 ± 0.284
2.422ProArg: 2.422 ± 0.326
2.512ProSer: 2.512 ± 0.422
2.736ProThr: 2.736 ± 0.366
3.678ProVal: 3.678 ± 0.463
1.211ProTrp: 1.211 ± 0.227
1.211ProTyr: 1.211 ± 0.317
0.0ProXaa: 0.0 ± 0.0
Gln
3.768GlnAla: 3.768 ± 0.513
0.179GlnCys: 0.179 ± 0.11
1.57GlnAsp: 1.57 ± 0.247
1.974GlnGlu: 1.974 ± 0.332
1.749GlnPhe: 1.749 ± 0.265
2.063GlnGly: 2.063 ± 0.277
0.628GlnHis: 0.628 ± 0.165
2.647GlnIle: 2.647 ± 0.297
2.333GlnLys: 2.333 ± 0.368
2.961GlnLeu: 2.961 ± 0.42
1.301GlnMet: 1.301 ± 0.303
1.256GlnAsn: 1.256 ± 0.283
1.391GlnPro: 1.391 ± 0.245
1.974GlnGln: 1.974 ± 0.349
2.243GlnArg: 2.243 ± 0.28
2.288GlnSer: 2.288 ± 0.336
2.557GlnThr: 2.557 ± 0.323
1.794GlnVal: 1.794 ± 0.326
0.852GlnTrp: 0.852 ± 0.191
0.942GlnTyr: 0.942 ± 0.191
0.0GlnXaa: 0.0 ± 0.0
Arg
5.383ArgAla: 5.383 ± 0.545
0.449ArgCys: 0.449 ± 0.134
3.499ArgAsp: 3.499 ± 0.315
3.544ArgGlu: 3.544 ± 0.473
2.153ArgPhe: 2.153 ± 0.303
4.665ArgGly: 4.665 ± 0.504
1.032ArgHis: 1.032 ± 0.308
3.947ArgIle: 3.947 ± 0.343
4.934ArgLys: 4.934 ± 0.714
4.261ArgLeu: 4.261 ± 0.46
1.929ArgMet: 1.929 ± 0.292
2.781ArgAsn: 2.781 ± 0.356
2.781ArgPro: 2.781 ± 0.348
2.736ArgGln: 2.736 ± 0.474
5.114ArgArg: 5.114 ± 0.689
2.961ArgSer: 2.961 ± 0.419
3.275ArgThr: 3.275 ± 0.328
4.172ArgVal: 4.172 ± 0.562
1.121ArgTrp: 1.121 ± 0.217
2.377ArgTyr: 2.377 ± 0.356
0.0ArgXaa: 0.0 ± 0.0
Ser
5.293SerAla: 5.293 ± 0.577
0.359SerCys: 0.359 ± 0.111
4.306SerAsp: 4.306 ± 0.414
4.531SerGlu: 4.531 ± 0.43
2.512SerPhe: 2.512 ± 0.352
5.562SerGly: 5.562 ± 0.595
0.897SerHis: 0.897 ± 0.215
3.005SerIle: 3.005 ± 0.407
2.916SerLys: 2.916 ± 0.324
4.261SerLeu: 4.261 ± 0.488
1.077SerMet: 1.077 ± 0.21
2.377SerAsn: 2.377 ± 0.397
2.781SerPro: 2.781 ± 0.34
2.063SerGln: 2.063 ± 0.285
2.781SerArg: 2.781 ± 0.354
2.871SerSer: 2.871 ± 0.415
3.947SerThr: 3.947 ± 0.415
3.544SerVal: 3.544 ± 0.417
0.897SerTrp: 0.897 ± 0.212
1.615SerTyr: 1.615 ± 0.298
0.0SerXaa: 0.0 ± 0.0
Thr
4.62ThrAla: 4.62 ± 0.484
0.449ThrCys: 0.449 ± 0.136
3.14ThrAsp: 3.14 ± 0.319
3.14ThrGlu: 3.14 ± 0.351
2.108ThrPhe: 2.108 ± 0.218
5.383ThrGly: 5.383 ± 0.509
1.032ThrHis: 1.032 ± 0.178
3.858ThrIle: 3.858 ± 0.364
3.678ThrLys: 3.678 ± 0.35
3.813ThrLeu: 3.813 ± 0.531
0.942ThrMet: 0.942 ± 0.171
2.243ThrAsn: 2.243 ± 0.386
3.589ThrPro: 3.589 ± 0.522
2.333ThrGln: 2.333 ± 0.317
3.678ThrArg: 3.678 ± 0.422
3.364ThrSer: 3.364 ± 0.504
3.005ThrThr: 3.005 ± 0.675
4.755ThrVal: 4.755 ± 0.581
1.032ThrTrp: 1.032 ± 0.236
1.48ThrTyr: 1.48 ± 0.294
0.0ThrXaa: 0.0 ± 0.0
Val
5.562ValAla: 5.562 ± 0.574
0.763ValCys: 0.763 ± 0.211
4.306ValAsp: 4.306 ± 0.476
3.947ValGlu: 3.947 ± 0.472
2.377ValPhe: 2.377 ± 0.391
4.8ValGly: 4.8 ± 0.563
1.391ValHis: 1.391 ± 0.247
3.095ValIle: 3.095 ± 0.413
3.633ValLys: 3.633 ± 0.532
4.351ValLeu: 4.351 ± 0.327
1.525ValMet: 1.525 ± 0.228
2.961ValAsn: 2.961 ± 0.346
3.589ValPro: 3.589 ± 0.518
2.467ValGln: 2.467 ± 0.353
4.575ValArg: 4.575 ± 0.536
4.845ValSer: 4.845 ± 0.488
4.217ValThr: 4.217 ± 0.458
3.813ValVal: 3.813 ± 0.6
0.852ValTrp: 0.852 ± 0.201
1.794ValTyr: 1.794 ± 0.258
0.0ValXaa: 0.0 ± 0.0
Trp
1.211TrpAla: 1.211 ± 0.195
0.179TrpCys: 0.179 ± 0.086
0.987TrpAsp: 0.987 ± 0.22
1.346TrpGlu: 1.346 ± 0.24
0.763TrpPhe: 0.763 ± 0.197
1.435TrpGly: 1.435 ± 0.217
0.628TrpHis: 0.628 ± 0.143
1.121TrpIle: 1.121 ± 0.241
0.942TrpLys: 0.942 ± 0.235
1.525TrpLeu: 1.525 ± 0.326
0.314TrpMet: 0.314 ± 0.107
1.301TrpAsn: 1.301 ± 0.266
0.583TrpPro: 0.583 ± 0.149
0.583TrpGln: 0.583 ± 0.174
1.211TrpArg: 1.211 ± 0.263
1.166TrpSer: 1.166 ± 0.245
0.987TrpThr: 0.987 ± 0.21
1.121TrpVal: 1.121 ± 0.274
0.493TrpTrp: 0.493 ± 0.17
0.449TrpTyr: 0.449 ± 0.126
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.557TyrAla: 2.557 ± 0.392
0.359TyrCys: 0.359 ± 0.132
2.512TyrAsp: 2.512 ± 0.312
2.019TyrGlu: 2.019 ± 0.301
0.942TyrPhe: 0.942 ± 0.208
2.647TyrGly: 2.647 ± 0.412
0.449TyrHis: 0.449 ± 0.148
1.256TyrIle: 1.256 ± 0.207
1.705TyrLys: 1.705 ± 0.356
2.198TyrLeu: 2.198 ± 0.288
0.404TyrMet: 0.404 ± 0.133
1.032TyrAsn: 1.032 ± 0.258
1.435TyrPro: 1.435 ± 0.275
0.987TyrGln: 0.987 ± 0.231
2.198TyrArg: 2.198 ± 0.41
1.211TyrSer: 1.211 ± 0.28
1.749TyrThr: 1.749 ± 0.347
2.198TyrVal: 2.198 ± 0.324
0.628TyrTrp: 0.628 ± 0.174
0.673TyrTyr: 0.673 ± 0.175
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 110 proteins (22294 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