Amino acid dipepetide frequency for Paenibacillus phage Vadim

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
3.525AlaAla: 3.525 ± 0.583
0.484AlaCys: 0.484 ± 0.185
4.423AlaAsp: 4.423 ± 0.567
6.773AlaGlu: 6.773 ± 0.646
2.142AlaPhe: 2.142 ± 0.479
5.183AlaGly: 5.183 ± 0.631
1.382AlaHis: 1.382 ± 0.282
4.838AlaIle: 4.838 ± 0.63
5.114AlaLys: 5.114 ± 0.644
6.842AlaLeu: 6.842 ± 0.977
2.142AlaMet: 2.142 ± 0.418
2.695AlaAsn: 2.695 ± 0.459
2.35AlaPro: 2.35 ± 0.373
2.281AlaGln: 2.281 ± 0.55
3.11AlaArg: 3.11 ± 0.507
4.423AlaSer: 4.423 ± 0.61
3.317AlaThr: 3.317 ± 0.615
4.492AlaVal: 4.492 ± 0.792
1.52AlaTrp: 1.52 ± 0.33
1.935AlaTyr: 1.935 ± 0.43
0.0AlaXaa: 0.0 ± 0.0
Cys
0.415CysAla: 0.415 ± 0.142
0.0CysCys: 0.0 ± 0.0
0.415CysAsp: 0.415 ± 0.15
0.484CysGlu: 0.484 ± 0.175
0.276CysPhe: 0.276 ± 0.127
1.106CysGly: 1.106 ± 0.315
0.415CysHis: 0.415 ± 0.158
0.415CysIle: 0.415 ± 0.165
1.106CysLys: 1.106 ± 0.273
0.691CysLeu: 0.691 ± 0.208
0.207CysMet: 0.207 ± 0.133
0.622CysAsn: 0.622 ± 0.232
0.484CysPro: 0.484 ± 0.216
0.415CysGln: 0.415 ± 0.176
0.415CysArg: 0.415 ± 0.191
0.553CysSer: 0.553 ± 0.197
0.276CysThr: 0.276 ± 0.111
0.691CysVal: 0.691 ± 0.203
0.207CysTrp: 0.207 ± 0.14
0.415CysTyr: 0.415 ± 0.207
0.0CysXaa: 0.0 ± 0.0
Asp
3.663AspAla: 3.663 ± 0.623
0.553AspCys: 0.553 ± 0.202
3.663AspAsp: 3.663 ± 0.529
5.529AspGlu: 5.529 ± 0.652
2.557AspPhe: 2.557 ± 0.355
4.147AspGly: 4.147 ± 0.618
1.106AspHis: 1.106 ± 0.344
2.833AspIle: 2.833 ± 0.378
3.732AspLys: 3.732 ± 0.491
4.285AspLeu: 4.285 ± 0.58
1.728AspMet: 1.728 ± 0.326
2.211AspAsn: 2.211 ± 0.379
2.073AspPro: 2.073 ± 0.422
2.211AspGln: 2.211 ± 0.509
2.695AspArg: 2.695 ± 0.493
2.833AspSer: 2.833 ± 0.396
3.041AspThr: 3.041 ± 0.379
3.87AspVal: 3.87 ± 0.534
1.451AspTrp: 1.451 ± 0.306
2.142AspTyr: 2.142 ± 0.383
0.0AspXaa: 0.0 ± 0.0
Glu
6.565GluAla: 6.565 ± 0.606
0.691GluCys: 0.691 ± 0.204
4.423GluAsp: 4.423 ± 0.648
6.22GluGlu: 6.22 ± 1.01
3.248GluPhe: 3.248 ± 0.422
3.87GluGly: 3.87 ± 0.601
1.728GluHis: 1.728 ± 0.407
6.151GluIle: 6.151 ± 0.61
6.842GluLys: 6.842 ± 0.848
7.947GluLeu: 7.947 ± 0.833
3.248GluMet: 3.248 ± 0.537
3.801GluAsn: 3.801 ± 0.526
2.211GluPro: 2.211 ± 0.481
4.147GluGln: 4.147 ± 0.653
4.561GluArg: 4.561 ± 0.559
4.285GluSer: 4.285 ± 0.593
3.455GluThr: 3.455 ± 0.497
4.976GluVal: 4.976 ± 0.627
1.728GluTrp: 1.728 ± 0.499
2.833GluTyr: 2.833 ± 0.455
0.0GluXaa: 0.0 ± 0.0
Phe
1.935PheAla: 1.935 ± 0.515
0.898PheCys: 0.898 ± 0.268
2.972PheAsp: 2.972 ± 0.537
3.11PheGlu: 3.11 ± 0.448
1.106PhePhe: 1.106 ± 0.259
3.041PheGly: 3.041 ± 0.437
0.968PheHis: 0.968 ± 0.327
2.626PheIle: 2.626 ± 0.483
2.695PheLys: 2.695 ± 0.361
2.695PheLeu: 2.695 ± 0.453
0.898PheMet: 0.898 ± 0.29
2.419PheAsn: 2.419 ± 0.348
1.382PhePro: 1.382 ± 0.339
1.659PheGln: 1.659 ± 0.386
1.175PheArg: 1.175 ± 0.28
2.488PheSer: 2.488 ± 0.499
2.073PheThr: 2.073 ± 0.397
2.488PheVal: 2.488 ± 0.5
0.415PheTrp: 0.415 ± 0.197
1.52PheTyr: 1.52 ± 0.295
0.0PheXaa: 0.0 ± 0.0
Gly
3.87GlyAla: 3.87 ± 0.696
0.691GlyCys: 0.691 ± 0.205
4.561GlyAsp: 4.561 ± 0.535
5.667GlyGlu: 5.667 ± 0.764
2.211GlyPhe: 2.211 ± 0.36
4.354GlyGly: 4.354 ± 0.578
0.76GlyHis: 0.76 ± 0.262
4.423GlyIle: 4.423 ± 0.89
5.943GlyLys: 5.943 ± 0.837
4.768GlyLeu: 4.768 ± 0.701
2.073GlyMet: 2.073 ± 0.463
3.248GlyAsn: 3.248 ± 0.487
0.829GlyPro: 0.829 ± 0.245
2.073GlyGln: 2.073 ± 0.46
2.972GlyArg: 2.972 ± 0.626
3.732GlySer: 3.732 ± 0.436
2.972GlyThr: 2.972 ± 0.514
5.321GlyVal: 5.321 ± 0.628
1.451GlyTrp: 1.451 ± 0.331
2.626GlyTyr: 2.626 ± 0.364
0.069GlyXaa: 0.069 ± 0.066
His
1.037HisAla: 1.037 ± 0.233
0.346HisCys: 0.346 ± 0.148
0.898HisAsp: 0.898 ± 0.235
1.175HisGlu: 1.175 ± 0.31
1.313HisPhe: 1.313 ± 0.289
0.968HisGly: 0.968 ± 0.336
0.968HisHis: 0.968 ± 0.279
1.451HisIle: 1.451 ± 0.304
1.106HisLys: 1.106 ± 0.299
1.935HisLeu: 1.935 ± 0.439
0.553HisMet: 0.553 ± 0.206
0.829HisAsn: 0.829 ± 0.246
0.691HisPro: 0.691 ± 0.205
0.76HisGln: 0.76 ± 0.227
0.968HisArg: 0.968 ± 0.252
1.244HisSer: 1.244 ± 0.238
0.898HisThr: 0.898 ± 0.244
1.451HisVal: 1.451 ± 0.33
0.207HisTrp: 0.207 ± 0.119
0.346HisTyr: 0.346 ± 0.165
0.0HisXaa: 0.0 ± 0.0
Ile
5.183IleAla: 5.183 ± 0.824
0.898IleCys: 0.898 ± 0.219
4.285IleAsp: 4.285 ± 0.553
6.289IleGlu: 6.289 ± 0.591
2.073IlePhe: 2.073 ± 0.39
4.216IleGly: 4.216 ± 0.693
1.589IleHis: 1.589 ± 0.338
3.801IleIle: 3.801 ± 0.649
5.598IleLys: 5.598 ± 0.672
4.63IleLeu: 4.63 ± 0.534
1.659IleMet: 1.659 ± 0.446
2.764IleAsn: 2.764 ± 0.396
2.764IlePro: 2.764 ± 0.402
3.317IleGln: 3.317 ± 0.527
3.455IleArg: 3.455 ± 0.446
3.317IleSer: 3.317 ± 0.466
3.11IleThr: 3.11 ± 0.42
3.87IleVal: 3.87 ± 0.462
0.553IleTrp: 0.553 ± 0.172
1.52IleTyr: 1.52 ± 0.341
0.0IleXaa: 0.0 ± 0.0
Lys
6.151LysAla: 6.151 ± 0.665
0.415LysCys: 0.415 ± 0.194
3.248LysAsp: 3.248 ± 0.438
6.634LysGlu: 6.634 ± 0.631
2.833LysPhe: 2.833 ± 0.412
5.598LysGly: 5.598 ± 0.569
1.244LysHis: 1.244 ± 0.319
3.732LysIle: 3.732 ± 0.533
5.736LysLys: 5.736 ± 0.707
8.017LysLeu: 8.017 ± 0.673
2.695LysMet: 2.695 ± 0.502
4.285LysAsn: 4.285 ± 0.577
2.488LysPro: 2.488 ± 0.402
3.801LysGln: 3.801 ± 0.599
5.321LysArg: 5.321 ± 0.666
4.354LysSer: 4.354 ± 0.547
4.699LysThr: 4.699 ± 0.626
4.285LysVal: 4.285 ± 0.526
0.829LysTrp: 0.829 ± 0.218
2.833LysTyr: 2.833 ± 0.516
0.0LysXaa: 0.0 ± 0.0
Leu
7.187LeuAla: 7.187 ± 0.627
1.175LeuCys: 1.175 ± 0.326
4.838LeuAsp: 4.838 ± 0.662
7.395LeuGlu: 7.395 ± 0.796
3.041LeuPhe: 3.041 ± 0.475
5.183LeuGly: 5.183 ± 0.754
1.728LeuHis: 1.728 ± 0.375
5.045LeuIle: 5.045 ± 0.475
7.74LeuLys: 7.74 ± 0.769
6.082LeuLeu: 6.082 ± 0.747
1.866LeuMet: 1.866 ± 0.438
4.077LeuAsn: 4.077 ± 0.434
3.525LeuPro: 3.525 ± 0.466
3.317LeuGln: 3.317 ± 0.454
5.114LeuArg: 5.114 ± 0.667
6.151LeuSer: 6.151 ± 0.586
4.561LeuThr: 4.561 ± 0.543
4.63LeuVal: 4.63 ± 0.634
0.76LeuTrp: 0.76 ± 0.242
2.626LeuTyr: 2.626 ± 0.437
0.0LeuXaa: 0.0 ± 0.0
Met
1.797MetAla: 1.797 ± 0.374
0.207MetCys: 0.207 ± 0.131
1.313MetAsp: 1.313 ± 0.305
2.695MetGlu: 2.695 ± 0.451
1.106MetPhe: 1.106 ± 0.3
2.281MetGly: 2.281 ± 0.387
0.346MetHis: 0.346 ± 0.15
2.211MetIle: 2.211 ± 0.422
2.903MetLys: 2.903 ± 0.401
2.35MetLeu: 2.35 ± 0.438
0.829MetMet: 0.829 ± 0.266
1.659MetAsn: 1.659 ± 0.422
1.313MetPro: 1.313 ± 0.284
1.313MetGln: 1.313 ± 0.341
1.797MetArg: 1.797 ± 0.354
2.004MetSer: 2.004 ± 0.358
1.659MetThr: 1.659 ± 0.351
1.313MetVal: 1.313 ± 0.345
0.415MetTrp: 0.415 ± 0.129
0.76MetTyr: 0.76 ± 0.264
0.0MetXaa: 0.0 ± 0.0
Asn
3.317AsnAla: 3.317 ± 0.593
0.415AsnCys: 0.415 ± 0.185
1.659AsnAsp: 1.659 ± 0.33
2.557AsnGlu: 2.557 ± 0.472
1.037AsnPhe: 1.037 ± 0.232
4.354AsnGly: 4.354 ± 0.427
0.553AsnHis: 0.553 ± 0.224
2.764AsnIle: 2.764 ± 0.484
3.11AsnLys: 3.11 ± 0.482
4.423AsnLeu: 4.423 ± 0.47
1.866AsnMet: 1.866 ± 0.449
1.659AsnAsn: 1.659 ± 0.333
2.419AsnPro: 2.419 ± 0.465
2.833AsnGln: 2.833 ± 0.46
2.972AsnArg: 2.972 ± 0.514
2.35AsnSer: 2.35 ± 0.381
1.935AsnThr: 1.935 ± 0.335
2.903AsnVal: 2.903 ± 0.512
0.829AsnTrp: 0.829 ± 0.262
1.797AsnTyr: 1.797 ± 0.374
0.0AsnXaa: 0.0 ± 0.0
Pro
2.488ProAla: 2.488 ± 0.399
0.207ProCys: 0.207 ± 0.109
2.419ProAsp: 2.419 ± 0.466
3.11ProGlu: 3.11 ± 0.529
1.175ProPhe: 1.175 ± 0.289
1.728ProGly: 1.728 ± 0.327
0.898ProHis: 0.898 ± 0.261
2.557ProIle: 2.557 ± 0.446
3.041ProLys: 3.041 ± 0.498
2.903ProLeu: 2.903 ± 0.455
0.622ProMet: 0.622 ± 0.26
1.935ProAsn: 1.935 ± 0.278
1.728ProPro: 1.728 ± 0.396
1.106ProGln: 1.106 ± 0.346
1.589ProArg: 1.589 ± 0.323
2.419ProSer: 2.419 ± 0.493
2.004ProThr: 2.004 ± 0.336
2.419ProVal: 2.419 ± 0.463
0.207ProTrp: 0.207 ± 0.104
0.968ProTyr: 0.968 ± 0.282
0.0ProXaa: 0.0 ± 0.0
Gln
4.216GlnAla: 4.216 ± 0.591
0.346GlnCys: 0.346 ± 0.135
2.142GlnAsp: 2.142 ± 0.406
2.903GlnGlu: 2.903 ± 0.483
2.004GlnPhe: 2.004 ± 0.36
2.211GlnGly: 2.211 ± 0.33
0.691GlnHis: 0.691 ± 0.217
2.903GlnIle: 2.903 ± 0.475
3.386GlnLys: 3.386 ± 0.523
4.354GlnLeu: 4.354 ± 0.618
2.281GlnMet: 2.281 ± 0.396
1.589GlnAsn: 1.589 ± 0.339
1.382GlnPro: 1.382 ± 0.317
2.35GlnGln: 2.35 ± 0.597
2.073GlnArg: 2.073 ± 0.414
1.866GlnSer: 1.866 ± 0.354
2.281GlnThr: 2.281 ± 0.391
2.972GlnVal: 2.972 ± 0.531
0.415GlnTrp: 0.415 ± 0.169
1.313GlnTyr: 1.313 ± 0.323
0.0GlnXaa: 0.0 ± 0.0
Arg
2.142ArgAla: 2.142 ± 0.287
0.276ArgCys: 0.276 ± 0.139
2.557ArgAsp: 2.557 ± 0.327
4.838ArgGlu: 4.838 ± 0.647
2.419ArgPhe: 2.419 ± 0.371
2.764ArgGly: 2.764 ± 0.693
1.313ArgHis: 1.313 ± 0.306
3.801ArgIle: 3.801 ± 0.583
5.252ArgLys: 5.252 ± 0.596
4.838ArgLeu: 4.838 ± 0.697
1.313ArgMet: 1.313 ± 0.28
2.419ArgAsn: 2.419 ± 0.359
1.797ArgPro: 1.797 ± 0.397
2.833ArgGln: 2.833 ± 0.533
2.764ArgArg: 2.764 ± 0.443
2.972ArgSer: 2.972 ± 0.484
2.073ArgThr: 2.073 ± 0.298
2.972ArgVal: 2.972 ± 0.646
0.898ArgTrp: 0.898 ± 0.323
2.281ArgTyr: 2.281 ± 0.466
0.0ArgXaa: 0.0 ± 0.0
Ser
4.838SerAla: 4.838 ± 0.62
0.622SerCys: 0.622 ± 0.188
2.695SerAsp: 2.695 ± 0.377
4.077SerGlu: 4.077 ± 0.589
2.695SerPhe: 2.695 ± 0.456
3.732SerGly: 3.732 ± 0.482
1.037SerHis: 1.037 ± 0.286
4.354SerIle: 4.354 ± 0.462
4.423SerLys: 4.423 ± 0.555
4.699SerLeu: 4.699 ± 0.516
1.728SerMet: 1.728 ± 0.283
2.695SerAsn: 2.695 ± 0.503
2.004SerPro: 2.004 ± 0.316
2.419SerGln: 2.419 ± 0.419
2.903SerArg: 2.903 ± 0.536
3.317SerSer: 3.317 ± 0.589
3.041SerThr: 3.041 ± 0.451
4.077SerVal: 4.077 ± 0.516
0.622SerTrp: 0.622 ± 0.182
2.281SerTyr: 2.281 ± 0.407
0.0SerXaa: 0.0 ± 0.0
Thr
3.732ThrAla: 3.732 ± 0.485
0.207ThrCys: 0.207 ± 0.11
2.35ThrAsp: 2.35 ± 0.418
4.077ThrGlu: 4.077 ± 0.577
1.866ThrPhe: 1.866 ± 0.322
3.525ThrGly: 3.525 ± 0.38
0.484ThrHis: 0.484 ± 0.182
2.972ThrIle: 2.972 ± 0.456
3.248ThrLys: 3.248 ± 0.473
4.216ThrLeu: 4.216 ± 0.538
1.037ThrMet: 1.037 ± 0.321
2.419ThrAsn: 2.419 ± 0.432
2.833ThrPro: 2.833 ± 0.508
1.866ThrGln: 1.866 ± 0.325
2.073ThrArg: 2.073 ± 0.412
2.695ThrSer: 2.695 ± 0.375
2.903ThrThr: 2.903 ± 0.504
4.077ThrVal: 4.077 ± 0.528
0.76ThrTrp: 0.76 ± 0.248
2.073ThrTyr: 2.073 ± 0.4
0.0ThrXaa: 0.0 ± 0.0
Val
3.87ValAla: 3.87 ± 0.623
0.622ValCys: 0.622 ± 0.187
3.732ValAsp: 3.732 ± 0.541
5.114ValGlu: 5.114 ± 0.618
3.248ValPhe: 3.248 ± 0.504
3.386ValGly: 3.386 ± 0.404
1.175ValHis: 1.175 ± 0.296
4.976ValIle: 4.976 ± 0.882
5.114ValLys: 5.114 ± 0.57
6.012ValLeu: 6.012 ± 0.685
1.797ValMet: 1.797 ± 0.443
2.004ValAsn: 2.004 ± 0.38
2.211ValPro: 2.211 ± 0.317
2.419ValGln: 2.419 ± 0.417
3.939ValArg: 3.939 ± 0.47
4.699ValSer: 4.699 ± 0.657
3.386ValThr: 3.386 ± 0.462
5.252ValVal: 5.252 ± 0.595
0.898ValTrp: 0.898 ± 0.251
1.451ValTyr: 1.451 ± 0.322
0.0ValXaa: 0.0 ± 0.0
Trp
0.968TrpAla: 0.968 ± 0.225
0.207TrpCys: 0.207 ± 0.139
1.313TrpAsp: 1.313 ± 0.312
0.76TrpGlu: 0.76 ± 0.252
0.76TrpPhe: 0.76 ± 0.236
0.968TrpGly: 0.968 ± 0.258
0.276TrpHis: 0.276 ± 0.138
1.313TrpIle: 1.313 ± 0.394
1.106TrpLys: 1.106 ± 0.284
1.313TrpLeu: 1.313 ± 0.324
0.553TrpMet: 0.553 ± 0.195
0.76TrpAsn: 0.76 ± 0.24
0.138TrpPro: 0.138 ± 0.085
0.622TrpGln: 0.622 ± 0.2
0.829TrpArg: 0.829 ± 0.294
1.106TrpSer: 1.106 ± 0.225
0.276TrpThr: 0.276 ± 0.13
0.691TrpVal: 0.691 ± 0.245
0.276TrpTrp: 0.276 ± 0.151
0.622TrpTyr: 0.622 ± 0.203
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.073TyrAla: 2.073 ± 0.35
0.346TyrCys: 0.346 ± 0.173
2.419TyrAsp: 2.419 ± 0.477
3.455TyrGlu: 3.455 ± 0.489
1.451TyrPhe: 1.451 ± 0.307
2.004TyrGly: 2.004 ± 0.401
0.484TyrHis: 0.484 ± 0.216
1.728TyrIle: 1.728 ± 0.363
2.004TyrLys: 2.004 ± 0.341
3.041TyrLeu: 3.041 ± 0.566
1.106TyrMet: 1.106 ± 0.277
1.659TyrAsn: 1.659 ± 0.308
0.968TyrPro: 0.968 ± 0.231
1.935TyrGln: 1.935 ± 0.318
1.797TyrArg: 1.797 ± 0.348
1.451TyrSer: 1.451 ± 0.322
1.451TyrThr: 1.451 ± 0.336
2.557TyrVal: 2.557 ± 0.457
0.415TyrTrp: 0.415 ± 0.166
1.728TyrTyr: 1.728 ± 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
0.069XaaGlu: 0.069 ± 0.066
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 86 proteins (14471 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