Amino acid dipepetide frequency for Streptomyces phage Yosif

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
11.281AlaAla: 11.281 ± 1.064
0.525AlaCys: 0.525 ± 0.202
5.706AlaAsp: 5.706 ± 0.749
8.854AlaGlu: 8.854 ± 0.836
3.345AlaPhe: 3.345 ± 0.436
7.608AlaGly: 7.608 ± 0.89
1.181AlaHis: 1.181 ± 0.291
4.657AlaIle: 4.657 ± 0.428
5.116AlaLys: 5.116 ± 0.626
9.772AlaLeu: 9.772 ± 1.433
3.148AlaMet: 3.148 ± 0.469
3.476AlaAsn: 3.476 ± 0.445
4.066AlaPro: 4.066 ± 0.464
4.263AlaGln: 4.263 ± 0.501
6.559AlaArg: 6.559 ± 0.718
6.69AlaSer: 6.69 ± 0.895
5.706AlaThr: 5.706 ± 0.614
7.542AlaVal: 7.542 ± 0.801
2.033AlaTrp: 2.033 ± 0.358
3.083AlaTyr: 3.083 ± 0.44
0.0AlaXaa: 0.0 ± 0.0
Cys
0.59CysAla: 0.59 ± 0.192
0.131CysCys: 0.131 ± 0.091
0.197CysAsp: 0.197 ± 0.108
0.459CysGlu: 0.459 ± 0.186
0.262CysPhe: 0.262 ± 0.13
0.787CysGly: 0.787 ± 0.2
0.262CysHis: 0.262 ± 0.128
0.262CysIle: 0.262 ± 0.111
0.131CysLys: 0.131 ± 0.095
0.525CysLeu: 0.525 ± 0.16
0.066CysMet: 0.066 ± 0.053
0.131CysAsn: 0.131 ± 0.091
0.656CysPro: 0.656 ± 0.231
0.197CysGln: 0.197 ± 0.122
0.525CysArg: 0.525 ± 0.178
0.525CysSer: 0.525 ± 0.187
0.328CysThr: 0.328 ± 0.139
0.328CysVal: 0.328 ± 0.155
0.197CysTrp: 0.197 ± 0.155
0.197CysTyr: 0.197 ± 0.1
0.0CysXaa: 0.0 ± 0.0
Asp
6.427AspAla: 6.427 ± 0.732
0.59AspCys: 0.59 ± 0.241
4.788AspAsp: 4.788 ± 0.615
5.444AspGlu: 5.444 ± 0.717
1.574AspPhe: 1.574 ± 0.322
6.493AspGly: 6.493 ± 0.716
1.049AspHis: 1.049 ± 0.298
2.361AspIle: 2.361 ± 0.443
3.345AspLys: 3.345 ± 0.542
5.837AspLeu: 5.837 ± 0.621
1.181AspMet: 1.181 ± 0.259
1.574AspAsn: 1.574 ± 0.299
3.607AspPro: 3.607 ± 0.564
1.836AspGln: 1.836 ± 0.302
3.87AspArg: 3.87 ± 0.521
2.361AspSer: 2.361 ± 0.399
3.87AspThr: 3.87 ± 0.45
4.263AspVal: 4.263 ± 0.518
1.902AspTrp: 1.902 ± 0.315
1.836AspTyr: 1.836 ± 0.371
0.0AspXaa: 0.0 ± 0.0
Glu
7.542GluAla: 7.542 ± 0.933
0.787GluCys: 0.787 ± 0.277
4.525GluAsp: 4.525 ± 0.588
5.181GluGlu: 5.181 ± 0.897
1.574GluPhe: 1.574 ± 0.344
5.903GluGly: 5.903 ± 0.667
1.836GluHis: 1.836 ± 0.429
3.804GluIle: 3.804 ± 0.527
3.279GluLys: 3.279 ± 0.483
7.936GluLeu: 7.936 ± 0.86
1.443GluMet: 1.443 ± 0.29
2.099GluAsn: 2.099 ± 0.347
2.951GluPro: 2.951 ± 0.534
2.82GluGln: 2.82 ± 0.439
4.657GluArg: 4.657 ± 0.796
4.132GluSer: 4.132 ± 0.545
3.673GluThr: 3.673 ± 0.584
5.05GluVal: 5.05 ± 0.731
1.246GluTrp: 1.246 ± 0.359
2.164GluTyr: 2.164 ± 0.394
0.0GluXaa: 0.0 ± 0.0
Phe
2.689PheAla: 2.689 ± 0.514
0.131PheCys: 0.131 ± 0.1
2.361PheAsp: 2.361 ± 0.297
2.558PheGlu: 2.558 ± 0.391
1.115PhePhe: 1.115 ± 0.23
2.689PheGly: 2.689 ± 0.372
0.721PheHis: 0.721 ± 0.218
1.574PheIle: 1.574 ± 0.31
1.181PheLys: 1.181 ± 0.268
2.23PheLeu: 2.23 ± 0.393
0.787PheMet: 0.787 ± 0.224
0.59PheAsn: 0.59 ± 0.172
1.246PhePro: 1.246 ± 0.289
0.525PheGln: 0.525 ± 0.178
1.902PheArg: 1.902 ± 0.292
1.574PheSer: 1.574 ± 0.334
2.164PheThr: 2.164 ± 0.473
1.836PheVal: 1.836 ± 0.36
0.787PheTrp: 0.787 ± 0.208
1.246PheTyr: 1.246 ± 0.337
0.0PheXaa: 0.0 ± 0.0
Gly
7.936GlyAla: 7.936 ± 1.605
0.262GlyCys: 0.262 ± 0.153
5.444GlyAsp: 5.444 ± 0.907
5.313GlyGlu: 5.313 ± 0.571
2.755GlyPhe: 2.755 ± 0.422
6.231GlyGly: 6.231 ± 0.764
2.361GlyHis: 2.361 ± 0.475
4.132GlyIle: 4.132 ± 0.961
4.198GlyLys: 4.198 ± 0.667
7.542GlyLeu: 7.542 ± 1.135
1.574GlyMet: 1.574 ± 0.301
2.558GlyAsn: 2.558 ± 0.375
3.345GlyPro: 3.345 ± 0.559
2.951GlyGln: 2.951 ± 0.425
4.525GlyArg: 4.525 ± 0.697
5.837GlySer: 5.837 ± 0.686
5.968GlyThr: 5.968 ± 0.757
6.755GlyVal: 6.755 ± 0.569
2.623GlyTrp: 2.623 ± 0.479
2.623GlyTyr: 2.623 ± 0.53
0.0GlyXaa: 0.0 ± 0.0
His
1.64HisAla: 1.64 ± 0.324
0.197HisCys: 0.197 ± 0.127
1.181HisAsp: 1.181 ± 0.263
1.181HisGlu: 1.181 ± 0.316
0.918HisPhe: 0.918 ± 0.214
1.508HisGly: 1.508 ± 0.312
0.59HisHis: 0.59 ± 0.177
0.918HisIle: 0.918 ± 0.31
0.721HisLys: 0.721 ± 0.269
1.968HisLeu: 1.968 ± 0.361
0.131HisMet: 0.131 ± 0.089
0.59HisAsn: 0.59 ± 0.187
0.984HisPro: 0.984 ± 0.252
1.115HisGln: 1.115 ± 0.281
1.115HisArg: 1.115 ± 0.289
0.918HisSer: 0.918 ± 0.41
1.377HisThr: 1.377 ± 0.347
1.377HisVal: 1.377 ± 0.465
0.787HisTrp: 0.787 ± 0.221
0.853HisTyr: 0.853 ± 0.303
0.0HisXaa: 0.0 ± 0.0
Ile
5.05IleAla: 5.05 ± 0.513
0.197IleCys: 0.197 ± 0.106
2.689IleAsp: 2.689 ± 0.461
3.87IleGlu: 3.87 ± 0.579
1.181IlePhe: 1.181 ± 0.292
4.46IleGly: 4.46 ± 0.816
0.721IleHis: 0.721 ± 0.18
2.033IleIle: 2.033 ± 0.621
2.099IleLys: 2.099 ± 0.573
3.017IleLeu: 3.017 ± 0.432
0.59IleMet: 0.59 ± 0.195
1.115IleAsn: 1.115 ± 0.305
2.099IlePro: 2.099 ± 0.378
1.049IleGln: 1.049 ± 0.286
3.476IleArg: 3.476 ± 0.444
2.82IleSer: 2.82 ± 0.614
2.755IleThr: 2.755 ± 0.371
3.148IleVal: 3.148 ± 0.417
0.525IleTrp: 0.525 ± 0.158
1.377IleTyr: 1.377 ± 0.31
0.0IleXaa: 0.0 ± 0.0
Lys
4.788LysAla: 4.788 ± 0.589
0.066LysCys: 0.066 ± 0.072
2.427LysAsp: 2.427 ± 0.508
1.968LysGlu: 1.968 ± 0.365
1.115LysPhe: 1.115 ± 0.239
5.509LysGly: 5.509 ± 0.622
0.984LysHis: 0.984 ± 0.305
1.836LysIle: 1.836 ± 0.469
3.083LysLys: 3.083 ± 0.688
4.001LysLeu: 4.001 ± 0.538
1.115LysMet: 1.115 ± 0.303
0.984LysAsn: 0.984 ± 0.255
3.476LysPro: 3.476 ± 0.597
1.705LysGln: 1.705 ± 0.277
3.607LysArg: 3.607 ± 0.636
2.427LysSer: 2.427 ± 0.497
2.492LysThr: 2.492 ± 0.45
3.542LysVal: 3.542 ± 0.546
0.394LysTrp: 0.394 ± 0.144
1.705LysTyr: 1.705 ± 0.333
0.0LysXaa: 0.0 ± 0.0
Leu
10.756LeuAla: 10.756 ± 1.111
0.459LeuCys: 0.459 ± 0.176
6.755LeuAsp: 6.755 ± 0.585
5.313LeuGlu: 5.313 ± 0.566
1.312LeuPhe: 1.312 ± 0.387
6.755LeuGly: 6.755 ± 0.974
1.312LeuHis: 1.312 ± 0.297
3.411LeuIle: 3.411 ± 0.528
3.214LeuLys: 3.214 ± 0.73
6.559LeuLeu: 6.559 ± 0.787
1.771LeuMet: 1.771 ± 0.363
3.083LeuAsn: 3.083 ± 0.465
3.935LeuPro: 3.935 ± 0.536
2.558LeuGln: 2.558 ± 0.375
5.509LeuArg: 5.509 ± 0.586
6.034LeuSer: 6.034 ± 0.611
4.788LeuThr: 4.788 ± 0.525
6.559LeuVal: 6.559 ± 0.722
1.246LeuTrp: 1.246 ± 0.284
2.296LeuTyr: 2.296 ± 0.43
0.0LeuXaa: 0.0 ± 0.0
Met
3.083MetAla: 3.083 ± 0.436
0.262MetCys: 0.262 ± 0.13
0.918MetAsp: 0.918 ± 0.219
1.312MetGlu: 1.312 ± 0.297
0.59MetPhe: 0.59 ± 0.23
1.377MetGly: 1.377 ± 0.3
0.394MetHis: 0.394 ± 0.156
0.787MetIle: 0.787 ± 0.225
0.853MetLys: 0.853 ± 0.191
1.508MetLeu: 1.508 ± 0.282
0.394MetMet: 0.394 ± 0.164
1.049MetAsn: 1.049 ± 0.19
1.312MetPro: 1.312 ± 0.266
0.59MetGln: 0.59 ± 0.183
1.377MetArg: 1.377 ± 0.34
1.968MetSer: 1.968 ± 0.295
1.836MetThr: 1.836 ± 0.334
1.574MetVal: 1.574 ± 0.287
0.262MetTrp: 0.262 ± 0.135
0.459MetTyr: 0.459 ± 0.15
0.0MetXaa: 0.0 ± 0.0
Asn
2.033AsnAla: 2.033 ± 0.307
0.525AsnCys: 0.525 ± 0.179
2.296AsnAsp: 2.296 ± 0.37
2.23AsnGlu: 2.23 ± 0.363
1.049AsnPhe: 1.049 ± 0.306
2.951AsnGly: 2.951 ± 0.418
0.721AsnHis: 0.721 ± 0.193
1.312AsnIle: 1.312 ± 0.252
1.443AsnLys: 1.443 ± 0.293
3.148AsnLeu: 3.148 ± 0.396
0.0AsnMet: 0.0 ± 0.0
0.787AsnAsn: 0.787 ± 0.216
1.968AsnPro: 1.968 ± 0.412
0.918AsnGln: 0.918 ± 0.259
1.836AsnArg: 1.836 ± 0.319
1.246AsnSer: 1.246 ± 0.383
1.705AsnThr: 1.705 ± 0.395
1.902AsnVal: 1.902 ± 0.396
0.525AsnTrp: 0.525 ± 0.19
0.853AsnTyr: 0.853 ± 0.215
0.0AsnXaa: 0.0 ± 0.0
Pro
5.444ProAla: 5.444 ± 0.776
0.394ProCys: 0.394 ± 0.148
2.755ProAsp: 2.755 ± 0.368
4.263ProGlu: 4.263 ± 0.69
1.312ProPhe: 1.312 ± 0.366
3.607ProGly: 3.607 ± 0.442
0.787ProHis: 0.787 ± 0.213
1.902ProIle: 1.902 ± 0.466
2.558ProLys: 2.558 ± 0.551
3.476ProLeu: 3.476 ± 0.521
1.049ProMet: 1.049 ± 0.257
1.246ProAsn: 1.246 ± 0.334
2.623ProPro: 2.623 ± 0.561
1.508ProGln: 1.508 ± 0.299
2.886ProArg: 2.886 ± 0.415
3.017ProSer: 3.017 ± 0.512
3.345ProThr: 3.345 ± 0.601
4.657ProVal: 4.657 ± 0.48
0.721ProTrp: 0.721 ± 0.21
0.984ProTyr: 0.984 ± 0.289
0.0ProXaa: 0.0 ± 0.0
Gln
4.525GlnAla: 4.525 ± 0.509
0.197GlnCys: 0.197 ± 0.126
1.508GlnAsp: 1.508 ± 0.375
2.623GlnGlu: 2.623 ± 0.429
1.508GlnPhe: 1.508 ± 0.321
2.951GlnGly: 2.951 ± 0.48
0.525GlnHis: 0.525 ± 0.184
1.64GlnIle: 1.64 ± 0.306
1.246GlnLys: 1.246 ± 0.267
2.033GlnLeu: 2.033 ± 0.565
0.656GlnMet: 0.656 ± 0.166
1.049GlnAsn: 1.049 ± 0.199
0.984GlnPro: 0.984 ± 0.232
0.984GlnGln: 0.984 ± 0.213
2.689GlnArg: 2.689 ± 0.45
1.836GlnSer: 1.836 ± 0.34
1.968GlnThr: 1.968 ± 0.48
3.017GlnVal: 3.017 ± 0.51
0.525GlnTrp: 0.525 ± 0.193
1.049GlnTyr: 1.049 ± 0.279
0.0GlnXaa: 0.0 ± 0.0
Arg
6.559ArgAla: 6.559 ± 0.675
0.656ArgCys: 0.656 ± 0.211
4.329ArgAsp: 4.329 ± 0.561
4.722ArgGlu: 4.722 ± 0.743
2.623ArgPhe: 2.623 ± 0.413
4.132ArgGly: 4.132 ± 0.68
1.574ArgHis: 1.574 ± 0.336
2.82ArgIle: 2.82 ± 0.443
3.935ArgLys: 3.935 ± 0.564
5.378ArgLeu: 5.378 ± 0.68
1.508ArgMet: 1.508 ± 0.249
1.443ArgAsn: 1.443 ± 0.273
2.951ArgPro: 2.951 ± 0.497
2.492ArgGln: 2.492 ± 0.404
5.64ArgArg: 5.64 ± 0.845
3.935ArgSer: 3.935 ± 0.44
3.279ArgThr: 3.279 ± 0.492
4.853ArgVal: 4.853 ± 0.702
0.984ArgTrp: 0.984 ± 0.275
1.771ArgTyr: 1.771 ± 0.394
0.0ArgXaa: 0.0 ± 0.0
Ser
5.378SerAla: 5.378 ± 0.701
0.262SerCys: 0.262 ± 0.135
3.673SerAsp: 3.673 ± 0.558
3.935SerGlu: 3.935 ± 0.584
2.23SerPhe: 2.23 ± 0.407
5.837SerGly: 5.837 ± 0.695
1.246SerHis: 1.246 ± 0.414
3.214SerIle: 3.214 ± 0.596
1.771SerLys: 1.771 ± 0.4
4.985SerLeu: 4.985 ± 0.649
1.443SerMet: 1.443 ± 0.501
1.902SerAsn: 1.902 ± 0.303
3.148SerPro: 3.148 ± 0.465
1.312SerGln: 1.312 ± 0.265
3.87SerArg: 3.87 ± 0.603
4.525SerSer: 4.525 ± 0.665
4.722SerThr: 4.722 ± 0.781
4.657SerVal: 4.657 ± 0.609
0.984SerTrp: 0.984 ± 0.244
1.312SerTyr: 1.312 ± 0.256
0.0SerXaa: 0.0 ± 0.0
Thr
5.837ThrAla: 5.837 ± 0.692
0.328ThrCys: 0.328 ± 0.148
3.673ThrAsp: 3.673 ± 0.523
3.476ThrGlu: 3.476 ± 0.484
2.23ThrPhe: 2.23 ± 0.402
5.837ThrGly: 5.837 ± 1.16
1.705ThrHis: 1.705 ± 0.301
3.083ThrIle: 3.083 ± 0.394
2.82ThrLys: 2.82 ± 0.373
4.919ThrLeu: 4.919 ± 0.626
1.312ThrMet: 1.312 ± 0.211
1.836ThrAsn: 1.836 ± 0.391
3.804ThrPro: 3.804 ± 0.771
1.902ThrGln: 1.902 ± 0.303
3.476ThrArg: 3.476 ± 0.473
4.066ThrSer: 4.066 ± 0.711
4.263ThrThr: 4.263 ± 0.678
4.46ThrVal: 4.46 ± 0.584
0.787ThrTrp: 0.787 ± 0.244
1.902ThrTyr: 1.902 ± 0.303
0.0ThrXaa: 0.0 ± 0.0
Val
7.411ValAla: 7.411 ± 0.643
0.525ValCys: 0.525 ± 0.174
4.853ValAsp: 4.853 ± 0.596
6.165ValGlu: 6.165 ± 0.789
2.164ValPhe: 2.164 ± 0.464
5.903ValGly: 5.903 ± 0.691
1.574ValHis: 1.574 ± 0.34
3.279ValIle: 3.279 ± 0.438
4.066ValLys: 4.066 ± 0.555
5.05ValLeu: 5.05 ± 0.607
2.361ValMet: 2.361 ± 0.39
1.771ValAsn: 1.771 ± 0.362
3.607ValPro: 3.607 ± 0.478
2.689ValGln: 2.689 ± 0.454
4.853ValArg: 4.853 ± 0.589
3.804ValSer: 3.804 ± 0.417
5.116ValThr: 5.116 ± 0.511
4.657ValVal: 4.657 ± 0.693
1.443ValTrp: 1.443 ± 0.239
1.836ValTyr: 1.836 ± 0.386
0.0ValXaa: 0.0 ± 0.0
Trp
2.164TrpAla: 2.164 ± 0.385
0.197TrpCys: 0.197 ± 0.112
2.23TrpAsp: 2.23 ± 0.432
1.115TrpGlu: 1.115 ± 0.27
0.394TrpPhe: 0.394 ± 0.127
0.984TrpGly: 0.984 ± 0.258
0.394TrpHis: 0.394 ± 0.154
0.262TrpIle: 0.262 ± 0.133
1.246TrpLys: 1.246 ± 0.26
1.181TrpLeu: 1.181 ± 0.276
0.59TrpMet: 0.59 ± 0.177
0.787TrpAsn: 0.787 ± 0.259
0.459TrpPro: 0.459 ± 0.203
0.918TrpGln: 0.918 ± 0.247
1.312TrpArg: 1.312 ± 0.277
1.115TrpSer: 1.115 ± 0.232
1.312TrpThr: 1.312 ± 0.29
1.115TrpVal: 1.115 ± 0.239
0.328TrpTrp: 0.328 ± 0.179
0.59TrpTyr: 0.59 ± 0.213
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.476TyrAla: 3.476 ± 0.482
0.066TyrCys: 0.066 ± 0.061
1.902TyrAsp: 1.902 ± 0.404
2.623TyrGlu: 2.623 ± 0.526
0.656TyrPhe: 0.656 ± 0.223
3.411TyrGly: 3.411 ± 0.585
0.131TyrHis: 0.131 ± 0.093
0.984TyrIle: 0.984 ± 0.282
0.918TyrLys: 0.918 ± 0.272
2.558TyrLeu: 2.558 ± 0.458
0.721TyrMet: 0.721 ± 0.219
1.377TyrAsn: 1.377 ± 0.283
1.312TyrPro: 1.312 ± 0.288
1.181TyrGln: 1.181 ± 0.34
1.902TyrArg: 1.902 ± 0.338
1.64TyrSer: 1.64 ± 0.404
1.049TyrThr: 1.049 ± 0.277
1.836TyrVal: 1.836 ± 0.354
0.394TyrTrp: 0.394 ± 0.168
0.721TyrTyr: 0.721 ± 0.177
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 78 proteins (15248 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