Amino acid dipepetide frequency for Staphylococcus phage phiSP119-2

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
4.143AlaAla: 4.143 ± 0.83
0.398AlaCys: 0.398 ± 0.199
3.426AlaAsp: 3.426 ± 0.488
4.541AlaGlu: 4.541 ± 0.568
2.231AlaPhe: 2.231 ± 0.466
3.426AlaGly: 3.426 ± 0.6
1.115AlaHis: 1.115 ± 0.279
3.665AlaIle: 3.665 ± 0.833
5.896AlaLys: 5.896 ± 1.061
4.86AlaLeu: 4.86 ± 0.732
1.275AlaMet: 1.275 ± 0.437
4.78AlaAsn: 4.78 ± 0.624
1.753AlaPro: 1.753 ± 0.464
2.39AlaGln: 2.39 ± 0.499
1.833AlaArg: 1.833 ± 0.319
4.223AlaSer: 4.223 ± 1.022
3.187AlaThr: 3.187 ± 0.656
3.824AlaVal: 3.824 ± 0.519
1.036AlaTrp: 1.036 ± 0.233
2.948AlaTyr: 2.948 ± 0.343
0.0AlaXaa: 0.0 ± 0.0
Cys
0.319CysAla: 0.319 ± 0.173
0.0CysCys: 0.0 ± 0.0
0.239CysAsp: 0.239 ± 0.158
0.478CysGlu: 0.478 ± 0.228
0.239CysPhe: 0.239 ± 0.138
0.239CysGly: 0.239 ± 0.145
0.239CysHis: 0.239 ± 0.126
0.876CysIle: 0.876 ± 0.356
0.558CysLys: 0.558 ± 0.196
0.319CysLeu: 0.319 ± 0.161
0.239CysMet: 0.239 ± 0.115
0.159CysAsn: 0.159 ± 0.111
0.0CysPro: 0.0 ± 0.0
0.159CysGln: 0.159 ± 0.102
0.239CysArg: 0.239 ± 0.139
0.08CysSer: 0.08 ± 0.089
0.239CysThr: 0.239 ± 0.11
0.478CysVal: 0.478 ± 0.174
0.08CysTrp: 0.08 ± 0.088
0.319CysTyr: 0.319 ± 0.15
0.0CysXaa: 0.0 ± 0.0
Asp
3.824AspAla: 3.824 ± 0.548
0.159AspCys: 0.159 ± 0.125
3.824AspAsp: 3.824 ± 0.681
6.852AspGlu: 6.852 ± 0.691
3.187AspPhe: 3.187 ± 0.527
4.382AspGly: 4.382 ± 0.545
0.876AspHis: 0.876 ± 0.224
4.382AspIle: 4.382 ± 0.53
6.055AspLys: 6.055 ± 0.634
5.737AspLeu: 5.737 ± 0.593
2.231AspMet: 2.231 ± 0.4
3.984AspAsn: 3.984 ± 0.755
1.434AspPro: 1.434 ± 0.28
1.195AspGln: 1.195 ± 0.239
1.434AspArg: 1.434 ± 0.272
3.745AspSer: 3.745 ± 0.565
3.187AspThr: 3.187 ± 0.495
4.143AspVal: 4.143 ± 0.474
0.558AspTrp: 0.558 ± 0.164
2.868AspTyr: 2.868 ± 0.443
0.0AspXaa: 0.0 ± 0.0
Glu
4.86GluAla: 4.86 ± 0.819
0.558GluCys: 0.558 ± 0.243
4.621GluAsp: 4.621 ± 0.692
6.215GluGlu: 6.215 ± 0.868
3.665GluPhe: 3.665 ± 0.634
2.868GluGly: 2.868 ± 0.427
1.275GluHis: 1.275 ± 0.376
6.852GluIle: 6.852 ± 0.844
8.047GluLys: 8.047 ± 1.143
8.207GluLeu: 8.207 ± 0.819
3.028GluMet: 3.028 ± 0.506
5.179GluAsn: 5.179 ± 0.64
1.912GluPro: 1.912 ± 0.328
2.948GluGln: 2.948 ± 0.441
3.745GluArg: 3.745 ± 0.585
5.737GluSer: 5.737 ± 0.694
3.267GluThr: 3.267 ± 0.575
5.577GluVal: 5.577 ± 0.706
0.637GluTrp: 0.637 ± 0.263
2.55GluTyr: 2.55 ± 0.508
0.0GluXaa: 0.0 ± 0.0
Phe
1.354PheAla: 1.354 ± 0.373
0.478PheCys: 0.478 ± 0.191
3.506PheAsp: 3.506 ± 0.479
4.382PheGlu: 4.382 ± 0.677
1.275PhePhe: 1.275 ± 0.351
3.506PheGly: 3.506 ± 0.743
0.797PheHis: 0.797 ± 0.206
3.585PheIle: 3.585 ± 0.681
4.063PheLys: 4.063 ± 0.539
2.55PheLeu: 2.55 ± 0.558
0.956PheMet: 0.956 ± 0.292
3.346PheAsn: 3.346 ± 0.485
0.558PhePro: 0.558 ± 0.236
0.637PheGln: 0.637 ± 0.257
1.992PheArg: 1.992 ± 0.435
1.992PheSer: 1.992 ± 0.389
2.231PheThr: 2.231 ± 0.515
2.47PheVal: 2.47 ± 0.456
0.319PheTrp: 0.319 ± 0.191
1.912PheTyr: 1.912 ± 0.51
0.0PheXaa: 0.0 ± 0.0
Gly
3.107GlyAla: 3.107 ± 1.157
0.319GlyCys: 0.319 ± 0.134
3.426GlyAsp: 3.426 ± 0.527
3.506GlyGlu: 3.506 ± 0.645
2.311GlyPhe: 2.311 ± 0.429
3.426GlyGly: 3.426 ± 1.192
1.036GlyHis: 1.036 ± 0.237
3.665GlyIle: 3.665 ± 0.52
5.099GlyLys: 5.099 ± 0.553
6.374GlyLeu: 6.374 ± 0.866
1.434GlyMet: 1.434 ± 0.565
2.868GlyAsn: 2.868 ± 0.707
1.115GlyPro: 1.115 ± 0.306
2.151GlyGln: 2.151 ± 0.378
2.39GlyArg: 2.39 ± 0.437
3.346GlySer: 3.346 ± 0.607
3.745GlyThr: 3.745 ± 0.647
4.302GlyVal: 4.302 ± 0.671
0.478GlyTrp: 0.478 ± 0.211
2.072GlyTyr: 2.072 ± 0.421
0.0GlyXaa: 0.0 ± 0.0
His
0.876HisAla: 0.876 ± 0.249
0.08HisCys: 0.08 ± 0.079
1.036HisAsp: 1.036 ± 0.304
1.753HisGlu: 1.753 ± 0.401
1.195HisPhe: 1.195 ± 0.335
1.195HisGly: 1.195 ± 0.226
0.478HisHis: 0.478 ± 0.183
1.195HisIle: 1.195 ± 0.266
1.593HisLys: 1.593 ± 0.3
1.593HisLeu: 1.593 ± 0.328
0.478HisMet: 0.478 ± 0.199
0.876HisAsn: 0.876 ± 0.262
0.637HisPro: 0.637 ± 0.199
0.876HisGln: 0.876 ± 0.244
0.478HisArg: 0.478 ± 0.185
1.036HisSer: 1.036 ± 0.225
0.797HisThr: 0.797 ± 0.22
1.115HisVal: 1.115 ± 0.289
0.239HisTrp: 0.239 ± 0.156
0.876HisTyr: 0.876 ± 0.227
0.0HisXaa: 0.0 ± 0.0
Ile
5.099IleAla: 5.099 ± 0.637
0.558IleCys: 0.558 ± 0.185
5.02IleAsp: 5.02 ± 0.909
7.967IleGlu: 7.967 ± 1.107
2.39IlePhe: 2.39 ± 0.459
2.709IleGly: 2.709 ± 0.514
2.072IleHis: 2.072 ± 0.383
4.621IleIle: 4.621 ± 0.792
8.525IleLys: 8.525 ± 0.833
5.099IleLeu: 5.099 ± 0.75
1.036IleMet: 1.036 ± 0.274
5.577IleAsn: 5.577 ± 0.664
1.753IlePro: 1.753 ± 0.308
3.187IleGln: 3.187 ± 0.399
2.789IleArg: 2.789 ± 0.38
3.904IleSer: 3.904 ± 0.614
4.462IleThr: 4.462 ± 0.622
4.382IleVal: 4.382 ± 0.611
0.478IleTrp: 0.478 ± 0.17
2.948IleTyr: 2.948 ± 0.416
0.0IleXaa: 0.0 ± 0.0
Lys
6.932LysAla: 6.932 ± 1.515
0.558LysCys: 0.558 ± 0.266
6.533LysAsp: 6.533 ± 0.625
9.083LysGlu: 9.083 ± 0.769
3.665LysPhe: 3.665 ± 0.709
6.055LysGly: 6.055 ± 0.955
1.992LysHis: 1.992 ± 0.404
7.25LysIle: 7.25 ± 0.782
7.011LysLys: 7.011 ± 0.835
7.489LysLeu: 7.489 ± 0.856
1.753LysMet: 1.753 ± 0.314
6.215LysAsn: 6.215 ± 0.505
1.833LysPro: 1.833 ± 0.386
4.701LysGln: 4.701 ± 0.673
4.143LysArg: 4.143 ± 0.565
6.135LysSer: 6.135 ± 0.566
6.852LysThr: 6.852 ± 0.809
6.693LysVal: 6.693 ± 0.715
0.956LysTrp: 0.956 ± 0.254
2.709LysTyr: 2.709 ± 0.5
0.0LysXaa: 0.0 ± 0.0
Leu
4.143LeuAla: 4.143 ± 0.885
0.478LeuCys: 0.478 ± 0.24
5.418LeuAsp: 5.418 ± 0.592
6.772LeuGlu: 6.772 ± 0.615
3.426LeuPhe: 3.426 ± 0.48
3.824LeuGly: 3.824 ± 0.979
1.275LeuHis: 1.275 ± 0.283
5.896LeuIle: 5.896 ± 0.781
10.597LeuLys: 10.597 ± 1.144
6.852LeuLeu: 6.852 ± 0.709
2.231LeuMet: 2.231 ± 0.492
6.055LeuAsn: 6.055 ± 0.62
2.629LeuPro: 2.629 ± 0.479
2.55LeuGln: 2.55 ± 0.498
2.311LeuArg: 2.311 ± 0.347
5.577LeuSer: 5.577 ± 1.093
5.259LeuThr: 5.259 ± 0.712
4.382LeuVal: 4.382 ± 0.639
0.239LeuTrp: 0.239 ± 0.143
3.107LeuTyr: 3.107 ± 0.551
0.0LeuXaa: 0.0 ± 0.0
Met
1.354MetAla: 1.354 ± 0.311
0.0MetCys: 0.0 ± 0.0
1.195MetAsp: 1.195 ± 0.344
1.115MetGlu: 1.115 ± 0.277
1.036MetPhe: 1.036 ± 0.236
1.275MetGly: 1.275 ± 0.379
0.558MetHis: 0.558 ± 0.177
1.992MetIle: 1.992 ± 0.308
2.948MetLys: 2.948 ± 0.485
1.992MetLeu: 1.992 ± 0.452
0.398MetMet: 0.398 ± 0.177
1.673MetAsn: 1.673 ± 0.486
0.558MetPro: 0.558 ± 0.187
1.115MetGln: 1.115 ± 0.315
0.956MetArg: 0.956 ± 0.25
2.709MetSer: 2.709 ± 0.52
1.593MetThr: 1.593 ± 0.328
1.275MetVal: 1.275 ± 0.285
0.319MetTrp: 0.319 ± 0.219
0.637MetTyr: 0.637 ± 0.255
0.0MetXaa: 0.0 ± 0.0
Asn
5.02AsnAla: 5.02 ± 0.763
0.398AsnCys: 0.398 ± 0.237
3.187AsnAsp: 3.187 ± 0.466
4.94AsnGlu: 4.94 ± 0.467
3.187AsnPhe: 3.187 ± 0.43
4.541AsnGly: 4.541 ± 0.505
1.195AsnHis: 1.195 ± 0.297
4.223AsnIle: 4.223 ± 0.58
7.011AsnLys: 7.011 ± 0.632
4.462AsnLeu: 4.462 ± 0.621
1.833AsnMet: 1.833 ± 0.306
4.382AsnAsn: 4.382 ± 0.592
1.833AsnPro: 1.833 ± 0.429
1.992AsnGln: 1.992 ± 0.354
2.709AsnArg: 2.709 ± 0.412
4.302AsnSer: 4.302 ± 0.492
2.948AsnThr: 2.948 ± 0.499
3.426AsnVal: 3.426 ± 0.621
0.797AsnTrp: 0.797 ± 0.39
2.55AsnTyr: 2.55 ± 0.464
0.0AsnXaa: 0.0 ± 0.0
Pro
1.593ProAla: 1.593 ± 0.402
0.0ProCys: 0.0 ± 0.0
1.195ProAsp: 1.195 ± 0.204
2.311ProGlu: 2.311 ± 0.408
1.514ProPhe: 1.514 ± 0.452
0.876ProGly: 0.876 ± 0.337
0.239ProHis: 0.239 ± 0.131
1.753ProIle: 1.753 ± 0.325
2.55ProLys: 2.55 ± 0.557
2.55ProLeu: 2.55 ± 0.446
0.478ProMet: 0.478 ± 0.187
1.673ProAsn: 1.673 ± 0.527
0.398ProPro: 0.398 ± 0.145
0.319ProGln: 0.319 ± 0.149
0.956ProArg: 0.956 ± 0.24
1.673ProSer: 1.673 ± 0.326
1.036ProThr: 1.036 ± 0.228
1.753ProVal: 1.753 ± 0.409
0.08ProTrp: 0.08 ± 0.071
1.434ProTyr: 1.434 ± 0.364
0.0ProXaa: 0.0 ± 0.0
Gln
2.231GlnAla: 2.231 ± 0.542
0.319GlnCys: 0.319 ± 0.141
1.593GlnAsp: 1.593 ± 0.319
2.072GlnGlu: 2.072 ± 0.397
1.833GlnPhe: 1.833 ± 0.308
1.833GlnGly: 1.833 ± 0.323
0.558GlnHis: 0.558 ± 0.183
2.948GlnIle: 2.948 ± 0.436
3.187GlnLys: 3.187 ± 0.493
3.665GlnLeu: 3.665 ± 0.508
1.354GlnMet: 1.354 ± 0.356
1.514GlnAsn: 1.514 ± 0.379
0.717GlnPro: 0.717 ± 0.255
1.434GlnGln: 1.434 ± 0.405
1.992GlnArg: 1.992 ± 0.546
2.47GlnSer: 2.47 ± 0.48
1.673GlnThr: 1.673 ± 0.315
1.354GlnVal: 1.354 ± 0.319
0.398GlnTrp: 0.398 ± 0.152
1.115GlnTyr: 1.115 ± 0.23
0.0GlnXaa: 0.0 ± 0.0
Arg
2.151ArgAla: 2.151 ± 0.474
0.319ArgCys: 0.319 ± 0.212
2.55ArgAsp: 2.55 ± 0.452
2.311ArgGlu: 2.311 ± 0.403
1.753ArgPhe: 1.753 ± 0.322
2.629ArgGly: 2.629 ± 0.474
0.558ArgHis: 0.558 ± 0.154
2.868ArgIle: 2.868 ± 0.497
4.302ArgLys: 4.302 ± 0.603
2.55ArgLeu: 2.55 ± 0.443
1.275ArgMet: 1.275 ± 0.287
1.912ArgAsn: 1.912 ± 0.312
0.637ArgPro: 0.637 ± 0.256
1.354ArgGln: 1.354 ± 0.288
1.195ArgArg: 1.195 ± 0.366
1.673ArgSer: 1.673 ± 0.33
2.629ArgThr: 2.629 ± 0.366
2.072ArgVal: 2.072 ± 0.302
0.478ArgTrp: 0.478 ± 0.195
1.992ArgTyr: 1.992 ± 0.498
0.0ArgXaa: 0.0 ± 0.0
Ser
3.028SerAla: 3.028 ± 0.678
0.159SerCys: 0.159 ± 0.12
5.099SerAsp: 5.099 ± 0.697
5.737SerGlu: 5.737 ± 0.598
2.311SerPhe: 2.311 ± 0.463
3.904SerGly: 3.904 ± 0.661
0.956SerHis: 0.956 ± 0.35
5.338SerIle: 5.338 ± 0.578
6.613SerLys: 6.613 ± 0.918
4.382SerLeu: 4.382 ± 0.682
0.956SerMet: 0.956 ± 0.224
4.621SerAsn: 4.621 ± 0.513
1.753SerPro: 1.753 ± 0.373
1.275SerGln: 1.275 ± 0.26
2.311SerArg: 2.311 ± 0.442
2.948SerSer: 2.948 ± 0.451
3.984SerThr: 3.984 ± 0.475
3.426SerVal: 3.426 ± 0.361
0.558SerTrp: 0.558 ± 0.235
1.833SerTyr: 1.833 ± 0.381
0.0SerXaa: 0.0 ± 0.0
Thr
4.063ThrAla: 4.063 ± 0.841
0.478ThrCys: 0.478 ± 0.229
4.86ThrAsp: 4.86 ± 0.472
4.143ThrGlu: 4.143 ± 0.649
1.992ThrPhe: 1.992 ± 0.387
3.028ThrGly: 3.028 ± 0.548
1.195ThrHis: 1.195 ± 0.345
3.904ThrIle: 3.904 ± 0.595
5.338ThrLys: 5.338 ± 0.57
5.498ThrLeu: 5.498 ± 0.532
0.717ThrMet: 0.717 ± 0.21
3.904ThrAsn: 3.904 ± 0.599
2.231ThrPro: 2.231 ± 0.396
1.753ThrGln: 1.753 ± 0.349
1.753ThrArg: 1.753 ± 0.373
3.267ThrSer: 3.267 ± 0.559
3.984ThrThr: 3.984 ± 0.667
3.904ThrVal: 3.904 ± 0.81
0.558ThrTrp: 0.558 ± 0.208
2.231ThrTyr: 2.231 ± 0.385
0.0ThrXaa: 0.0 ± 0.0
Val
3.824ValAla: 3.824 ± 0.715
0.08ValCys: 0.08 ± 0.092
4.382ValAsp: 4.382 ± 0.479
3.984ValGlu: 3.984 ± 0.513
2.629ValPhe: 2.629 ± 0.544
3.585ValGly: 3.585 ± 0.682
0.797ValHis: 0.797 ± 0.294
5.02ValIle: 5.02 ± 0.705
5.657ValLys: 5.657 ± 0.638
5.02ValLeu: 5.02 ± 0.628
1.514ValMet: 1.514 ± 0.289
3.426ValAsn: 3.426 ± 0.515
1.434ValPro: 1.434 ± 0.272
1.992ValGln: 1.992 ± 0.371
1.673ValArg: 1.673 ± 0.404
3.904ValSer: 3.904 ± 0.73
4.621ValThr: 4.621 ± 0.894
4.302ValVal: 4.302 ± 0.864
0.956ValTrp: 0.956 ± 0.226
2.948ValTyr: 2.948 ± 0.678
0.0ValXaa: 0.0 ± 0.0
Trp
0.558TrpAla: 0.558 ± 0.252
0.0TrpCys: 0.0 ± 0.0
0.797TrpAsp: 0.797 ± 0.327
0.717TrpGlu: 0.717 ± 0.264
0.478TrpPhe: 0.478 ± 0.293
0.398TrpGly: 0.398 ± 0.15
0.239TrpHis: 0.239 ± 0.171
0.478TrpIle: 0.478 ± 0.173
0.398TrpLys: 0.398 ± 0.186
1.354TrpLeu: 1.354 ± 0.326
0.637TrpMet: 0.637 ± 0.241
0.717TrpAsn: 0.717 ± 0.241
0.159TrpPro: 0.159 ± 0.094
0.319TrpGln: 0.319 ± 0.158
0.319TrpArg: 0.319 ± 0.147
0.558TrpSer: 0.558 ± 0.212
0.319TrpThr: 0.319 ± 0.139
0.478TrpVal: 0.478 ± 0.185
0.08TrpTrp: 0.08 ± 0.081
0.398TrpTyr: 0.398 ± 0.177
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.47TyrAla: 2.47 ± 0.386
0.159TyrCys: 0.159 ± 0.093
2.151TyrAsp: 2.151 ± 0.397
2.868TyrGlu: 2.868 ± 0.533
1.593TyrPhe: 1.593 ± 0.468
2.47TyrGly: 2.47 ± 0.434
0.956TyrHis: 0.956 ± 0.303
4.063TyrIle: 4.063 ± 0.556
3.107TyrLys: 3.107 ± 0.548
2.47TyrLeu: 2.47 ± 0.554
0.797TyrMet: 0.797 ± 0.251
2.151TyrAsn: 2.151 ± 0.366
1.036TyrPro: 1.036 ± 0.23
1.912TyrGln: 1.912 ± 0.341
1.992TyrArg: 1.992 ± 0.468
1.912TyrSer: 1.912 ± 0.459
2.789TyrThr: 2.789 ± 0.396
2.39TyrVal: 2.39 ± 0.464
0.159TyrTrp: 0.159 ± 0.144
1.036TyrTyr: 1.036 ± 0.4
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 63 proteins (12552 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