Amino acid dipepetide frequency for Mycobacterium phage Charm

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
12.77AlaAla: 12.77 ± 1.414
0.303AlaCys: 0.303 ± 0.143
4.963AlaAsp: 4.963 ± 0.577
7.505AlaGlu: 7.505 ± 0.789
3.873AlaPhe: 3.873 ± 0.517
8.291AlaGly: 8.291 ± 0.883
1.331AlaHis: 1.331 ± 0.297
4.902AlaIle: 4.902 ± 0.519
5.205AlaLys: 5.205 ± 0.528
9.502AlaLeu: 9.502 ± 0.857
3.087AlaMet: 3.087 ± 0.547
3.329AlaAsn: 3.329 ± 0.489
4.902AlaPro: 4.902 ± 0.907
4.055AlaGln: 4.055 ± 0.532
5.568AlaArg: 5.568 ± 0.628
5.265AlaSer: 5.265 ± 0.485
5.992AlaThr: 5.992 ± 0.762
7.505AlaVal: 7.505 ± 0.756
1.392AlaTrp: 1.392 ± 0.365
1.997AlaTyr: 1.997 ± 0.348
0.0AlaXaa: 0.0 ± 0.0
Cys
0.908CysAla: 0.908 ± 0.229
0.0CysCys: 0.0 ± 0.0
0.666CysAsp: 0.666 ± 0.215
0.666CysGlu: 0.666 ± 0.204
0.303CysPhe: 0.303 ± 0.135
0.787CysGly: 0.787 ± 0.196
0.182CysHis: 0.182 ± 0.105
0.484CysIle: 0.484 ± 0.189
0.303CysLys: 0.303 ± 0.128
0.424CysLeu: 0.424 ± 0.153
0.303CysMet: 0.303 ± 0.127
0.666CysAsn: 0.666 ± 0.21
0.484CysPro: 0.484 ± 0.214
0.242CysGln: 0.242 ± 0.122
0.363CysArg: 0.363 ± 0.136
0.605CysSer: 0.605 ± 0.239
0.484CysThr: 0.484 ± 0.181
0.605CysVal: 0.605 ± 0.206
0.303CysTrp: 0.303 ± 0.148
0.242CysTyr: 0.242 ± 0.124
0.0CysXaa: 0.0 ± 0.0
Asp
5.992AspAla: 5.992 ± 0.643
0.908AspCys: 0.908 ± 0.277
3.45AspAsp: 3.45 ± 0.537
4.6AspGlu: 4.6 ± 0.535
1.937AspPhe: 1.937 ± 0.398
5.326AspGly: 5.326 ± 0.57
1.513AspHis: 1.513 ± 0.374
3.45AspIle: 3.45 ± 0.401
2.602AspLys: 2.602 ± 0.425
6.234AspLeu: 6.234 ± 0.672
1.453AspMet: 1.453 ± 0.307
2.118AspAsn: 2.118 ± 0.379
4.297AspPro: 4.297 ± 0.627
1.816AspGln: 1.816 ± 0.37
3.51AspArg: 3.51 ± 0.671
2.966AspSer: 2.966 ± 0.409
3.692AspThr: 3.692 ± 0.445
3.994AspVal: 3.994 ± 0.508
1.15AspTrp: 1.15 ± 0.281
2.481AspTyr: 2.481 ± 0.406
0.0AspXaa: 0.0 ± 0.0
Glu
6.778GluAla: 6.778 ± 0.724
0.182GluCys: 0.182 ± 0.126
4.418GluAsp: 4.418 ± 0.568
4.539GluGlu: 4.539 ± 0.54
2.966GluPhe: 2.966 ± 0.395
5.265GluGly: 5.265 ± 0.56
1.15GluHis: 1.15 ± 0.254
3.631GluIle: 3.631 ± 0.494
2.542GluLys: 2.542 ± 0.389
5.75GluLeu: 5.75 ± 0.614
1.755GluMet: 1.755 ± 0.254
1.816GluAsn: 1.816 ± 0.359
3.268GluPro: 3.268 ± 0.439
2.239GluGln: 2.239 ± 0.329
4.66GluArg: 4.66 ± 0.662
3.329GluSer: 3.329 ± 0.467
3.268GluThr: 3.268 ± 0.488
4.963GluVal: 4.963 ± 0.515
1.392GluTrp: 1.392 ± 0.341
1.392GluTyr: 1.392 ± 0.237
0.0GluXaa: 0.0 ± 0.0
Phe
3.389PheAla: 3.389 ± 0.509
0.242PheCys: 0.242 ± 0.116
2.663PheAsp: 2.663 ± 0.431
2.966PheGlu: 2.966 ± 0.453
0.787PhePhe: 0.787 ± 0.218
3.389PheGly: 3.389 ± 0.425
0.726PheHis: 0.726 ± 0.243
1.876PheIle: 1.876 ± 0.339
1.21PheLys: 1.21 ± 0.233
2.36PheLeu: 2.36 ± 0.369
0.605PheMet: 0.605 ± 0.181
1.997PheAsn: 1.997 ± 0.278
1.453PhePro: 1.453 ± 0.251
1.271PheGln: 1.271 ± 0.268
1.937PheArg: 1.937 ± 0.318
2.239PheSer: 2.239 ± 0.382
2.542PheThr: 2.542 ± 0.372
1.816PheVal: 1.816 ± 0.356
0.545PheTrp: 0.545 ± 0.198
0.847PheTyr: 0.847 ± 0.227
0.0PheXaa: 0.0 ± 0.0
Gly
7.686GlyAla: 7.686 ± 0.951
0.968GlyCys: 0.968 ± 0.276
6.052GlyAsp: 6.052 ± 0.653
4.6GlyGlu: 4.6 ± 0.624
3.087GlyPhe: 3.087 ± 0.392
8.715GlyGly: 8.715 ± 1.392
1.816GlyHis: 1.816 ± 0.363
4.358GlyIle: 4.358 ± 0.609
4.721GlyLys: 4.721 ± 0.65
6.778GlyLeu: 6.778 ± 0.959
2.239GlyMet: 2.239 ± 0.44
3.389GlyAsn: 3.389 ± 0.519
3.208GlyPro: 3.208 ± 0.402
2.905GlyGln: 2.905 ± 0.54
3.752GlyArg: 3.752 ± 0.358
4.6GlySer: 4.6 ± 0.496
5.507GlyThr: 5.507 ± 0.838
5.507GlyVal: 5.507 ± 0.69
1.816GlyTrp: 1.816 ± 0.258
2.179GlyTyr: 2.179 ± 0.396
0.0GlyXaa: 0.0 ± 0.0
His
1.089HisAla: 1.089 ± 0.28
0.182HisCys: 0.182 ± 0.092
1.331HisAsp: 1.331 ± 0.366
0.847HisGlu: 0.847 ± 0.232
0.605HisPhe: 0.605 ± 0.189
1.695HisGly: 1.695 ± 0.336
0.787HisHis: 0.787 ± 0.316
0.847HisIle: 0.847 ± 0.226
0.847HisLys: 0.847 ± 0.268
1.271HisLeu: 1.271 ± 0.272
0.363HisMet: 0.363 ± 0.132
0.605HisAsn: 0.605 ± 0.214
1.634HisPro: 1.634 ± 0.331
0.847HisGln: 0.847 ± 0.221
1.695HisArg: 1.695 ± 0.355
0.968HisSer: 0.968 ± 0.255
0.968HisThr: 0.968 ± 0.222
0.968HisVal: 0.968 ± 0.272
0.242HisTrp: 0.242 ± 0.129
0.605HisTyr: 0.605 ± 0.242
0.0HisXaa: 0.0 ± 0.0
Ile
4.66IleAla: 4.66 ± 0.473
0.484IleCys: 0.484 ± 0.211
3.813IleAsp: 3.813 ± 0.41
4.115IleGlu: 4.115 ± 0.474
1.331IlePhe: 1.331 ± 0.273
3.571IleGly: 3.571 ± 0.513
0.787IleHis: 0.787 ± 0.172
1.453IleIle: 1.453 ± 0.32
2.784IleLys: 2.784 ± 0.394
4.358IleLeu: 4.358 ± 0.422
0.726IleMet: 0.726 ± 0.2
2.421IleAsn: 2.421 ± 0.373
3.813IlePro: 3.813 ± 0.456
1.453IleGln: 1.453 ± 0.313
3.45IleArg: 3.45 ± 0.477
2.966IleSer: 2.966 ± 0.528
3.147IleThr: 3.147 ± 0.461
3.329IleVal: 3.329 ± 0.427
0.968IleTrp: 0.968 ± 0.254
0.968IleTyr: 0.968 ± 0.284
0.0IleXaa: 0.0 ± 0.0
Lys
4.842LysAla: 4.842 ± 0.575
0.363LysCys: 0.363 ± 0.136
2.723LysAsp: 2.723 ± 0.355
3.147LysGlu: 3.147 ± 0.457
1.453LysPhe: 1.453 ± 0.273
3.389LysGly: 3.389 ± 0.431
0.363LysHis: 0.363 ± 0.182
2.481LysIle: 2.481 ± 0.454
2.723LysLys: 2.723 ± 0.481
3.994LysLeu: 3.994 ± 0.495
1.271LysMet: 1.271 ± 0.364
1.392LysAsn: 1.392 ± 0.266
2.723LysPro: 2.723 ± 0.471
1.937LysGln: 1.937 ± 0.443
3.51LysArg: 3.51 ± 0.596
2.118LysSer: 2.118 ± 0.356
2.845LysThr: 2.845 ± 0.386
3.813LysVal: 3.813 ± 0.581
0.968LysTrp: 0.968 ± 0.264
1.21LysTyr: 1.21 ± 0.259
0.0LysXaa: 0.0 ± 0.0
Leu
9.32LeuAla: 9.32 ± 0.785
0.847LeuCys: 0.847 ± 0.236
4.115LeuAsp: 4.115 ± 0.611
5.447LeuGlu: 5.447 ± 0.647
2.784LeuPhe: 2.784 ± 0.316
6.778LeuGly: 6.778 ± 1.038
1.392LeuHis: 1.392 ± 0.324
4.539LeuIle: 4.539 ± 0.479
3.873LeuLys: 3.873 ± 0.474
5.568LeuLeu: 5.568 ± 0.641
2.118LeuMet: 2.118 ± 0.398
3.208LeuAsn: 3.208 ± 0.43
4.902LeuPro: 4.902 ± 0.537
2.239LeuGln: 2.239 ± 0.39
5.144LeuArg: 5.144 ± 0.604
5.084LeuSer: 5.084 ± 0.581
6.234LeuThr: 6.234 ± 0.714
5.205LeuVal: 5.205 ± 0.54
1.695LeuTrp: 1.695 ± 0.292
1.513LeuTyr: 1.513 ± 0.359
0.0LeuXaa: 0.0 ± 0.0
Met
2.845MetAla: 2.845 ± 0.322
0.242MetCys: 0.242 ± 0.128
0.968MetAsp: 0.968 ± 0.262
1.574MetGlu: 1.574 ± 0.353
0.605MetPhe: 0.605 ± 0.188
2.058MetGly: 2.058 ± 0.391
0.363MetHis: 0.363 ± 0.147
1.574MetIle: 1.574 ± 0.335
1.271MetLys: 1.271 ± 0.264
1.513MetLeu: 1.513 ± 0.34
0.484MetMet: 0.484 ± 0.188
0.424MetAsn: 0.424 ± 0.155
1.15MetPro: 1.15 ± 0.277
0.847MetGln: 0.847 ± 0.257
1.755MetArg: 1.755 ± 0.394
2.36MetSer: 2.36 ± 0.337
2.118MetThr: 2.118 ± 0.319
0.968MetVal: 0.968 ± 0.236
0.545MetTrp: 0.545 ± 0.178
0.605MetTyr: 0.605 ± 0.193
0.0MetXaa: 0.0 ± 0.0
Asn
4.6AsnAla: 4.6 ± 0.76
0.424AsnCys: 0.424 ± 0.154
1.997AsnAsp: 1.997 ± 0.354
1.816AsnGlu: 1.816 ± 0.346
1.029AsnPhe: 1.029 ± 0.383
2.905AsnGly: 2.905 ± 0.481
0.847AsnHis: 0.847 ± 0.208
1.392AsnIle: 1.392 ± 0.296
1.089AsnLys: 1.089 ± 0.255
3.268AsnLeu: 3.268 ± 0.489
0.968AsnMet: 0.968 ± 0.238
1.029AsnAsn: 1.029 ± 0.211
3.026AsnPro: 3.026 ± 0.461
0.847AsnGln: 0.847 ± 0.224
2.179AsnArg: 2.179 ± 0.394
1.997AsnSer: 1.997 ± 0.301
2.118AsnThr: 2.118 ± 0.369
2.905AsnVal: 2.905 ± 0.364
1.029AsnTrp: 1.029 ± 0.255
1.029AsnTyr: 1.029 ± 0.221
0.0AsnXaa: 0.0 ± 0.0
Pro
5.75ProAla: 5.75 ± 0.787
0.303ProCys: 0.303 ± 0.159
3.692ProAsp: 3.692 ± 0.418
4.237ProGlu: 4.237 ± 0.547
1.997ProPhe: 1.997 ± 0.389
4.6ProGly: 4.6 ± 0.628
0.908ProHis: 0.908 ± 0.246
3.208ProIle: 3.208 ± 0.41
2.663ProLys: 2.663 ± 0.508
3.813ProLeu: 3.813 ± 0.421
0.666ProMet: 0.666 ± 0.209
2.602ProAsn: 2.602 ± 0.473
2.179ProPro: 2.179 ± 0.446
1.634ProGln: 1.634 ± 0.298
2.663ProArg: 2.663 ± 0.494
2.723ProSer: 2.723 ± 0.442
3.692ProThr: 3.692 ± 0.509
4.176ProVal: 4.176 ± 0.495
0.666ProTrp: 0.666 ± 0.224
1.331ProTyr: 1.331 ± 0.217
0.0ProXaa: 0.0 ± 0.0
Gln
4.6GlnAla: 4.6 ± 0.712
0.242GlnCys: 0.242 ± 0.115
1.816GlnAsp: 1.816 ± 0.309
1.331GlnGlu: 1.331 ± 0.27
1.453GlnPhe: 1.453 ± 0.252
2.663GlnGly: 2.663 ± 0.423
0.908GlnHis: 0.908 ± 0.204
2.058GlnIle: 2.058 ± 0.309
1.21GlnLys: 1.21 ± 0.302
3.026GlnLeu: 3.026 ± 0.638
1.029GlnMet: 1.029 ± 0.29
0.968GlnAsn: 0.968 ± 0.297
1.15GlnPro: 1.15 ± 0.292
1.816GlnGln: 1.816 ± 0.427
2.663GlnArg: 2.663 ± 0.425
1.574GlnSer: 1.574 ± 0.278
1.997GlnThr: 1.997 ± 0.459
2.481GlnVal: 2.481 ± 0.394
0.908GlnTrp: 0.908 ± 0.196
1.21GlnTyr: 1.21 ± 0.279
0.0GlnXaa: 0.0 ± 0.0
Arg
5.326ArgAla: 5.326 ± 0.709
0.666ArgCys: 0.666 ± 0.25
4.297ArgAsp: 4.297 ± 0.471
4.176ArgGlu: 4.176 ± 0.474
2.784ArgPhe: 2.784 ± 0.4
3.692ArgGly: 3.692 ± 0.477
1.21ArgHis: 1.21 ± 0.326
3.752ArgIle: 3.752 ± 0.478
2.784ArgLys: 2.784 ± 0.443
4.902ArgLeu: 4.902 ± 0.686
1.755ArgMet: 1.755 ± 0.343
2.3ArgAsn: 2.3 ± 0.382
2.966ArgPro: 2.966 ± 0.365
2.3ArgGln: 2.3 ± 0.342
4.358ArgArg: 4.358 ± 0.597
2.421ArgSer: 2.421 ± 0.329
3.208ArgThr: 3.208 ± 0.421
4.418ArgVal: 4.418 ± 0.527
1.816ArgTrp: 1.816 ± 0.26
1.997ArgTyr: 1.997 ± 0.313
0.0ArgXaa: 0.0 ± 0.0
Ser
4.66SerAla: 4.66 ± 0.429
0.484SerCys: 0.484 ± 0.164
3.51SerAsp: 3.51 ± 0.46
3.208SerGlu: 3.208 ± 0.499
2.481SerPhe: 2.481 ± 0.499
5.205SerGly: 5.205 ± 0.584
0.847SerHis: 0.847 ± 0.28
2.421SerIle: 2.421 ± 0.334
3.026SerLys: 3.026 ± 0.565
4.055SerLeu: 4.055 ± 0.606
1.453SerMet: 1.453 ± 0.248
1.513SerAsn: 1.513 ± 0.331
2.784SerPro: 2.784 ± 0.411
1.997SerGln: 1.997 ± 0.369
3.571SerArg: 3.571 ± 0.429
3.026SerSer: 3.026 ± 0.524
2.966SerThr: 2.966 ± 0.434
3.51SerVal: 3.51 ± 0.411
1.21SerTrp: 1.21 ± 0.275
1.755SerTyr: 1.755 ± 0.324
0.0SerXaa: 0.0 ± 0.0
Thr
6.234ThrAla: 6.234 ± 0.82
0.726ThrCys: 0.726 ± 0.271
4.358ThrAsp: 4.358 ± 0.549
2.905ThrGlu: 2.905 ± 0.396
1.937ThrPhe: 1.937 ± 0.304
6.052ThrGly: 6.052 ± 0.721
1.15ThrHis: 1.15 ± 0.276
2.723ThrIle: 2.723 ± 0.533
2.784ThrLys: 2.784 ± 0.348
5.689ThrLeu: 5.689 ± 0.629
1.331ThrMet: 1.331 ± 0.265
2.239ThrAsn: 2.239 ± 0.383
4.115ThrPro: 4.115 ± 0.525
1.997ThrGln: 1.997 ± 0.441
3.329ThrArg: 3.329 ± 0.367
3.026ThrSer: 3.026 ± 0.402
3.45ThrThr: 3.45 ± 0.734
4.358ThrVal: 4.358 ± 0.61
0.908ThrTrp: 0.908 ± 0.233
2.723ThrTyr: 2.723 ± 0.35
0.0ThrXaa: 0.0 ± 0.0
Val
6.113ValAla: 6.113 ± 0.607
0.726ValCys: 0.726 ± 0.2
5.326ValAsp: 5.326 ± 0.557
4.418ValGlu: 4.418 ± 0.55
2.239ValPhe: 2.239 ± 0.491
5.871ValGly: 5.871 ± 0.704
1.453ValHis: 1.453 ± 0.392
3.51ValIle: 3.51 ± 0.485
3.692ValLys: 3.692 ± 0.455
5.084ValLeu: 5.084 ± 0.658
1.15ValMet: 1.15 ± 0.279
2.602ValAsn: 2.602 ± 0.507
3.389ValPro: 3.389 ± 0.398
2.3ValGln: 2.3 ± 0.373
4.115ValArg: 4.115 ± 0.419
3.994ValSer: 3.994 ± 0.579
4.781ValThr: 4.781 ± 0.669
5.326ValVal: 5.326 ± 0.554
1.695ValTrp: 1.695 ± 0.333
1.997ValTyr: 1.997 ± 0.471
0.0ValXaa: 0.0 ± 0.0
Trp
1.513TrpAla: 1.513 ± 0.348
0.484TrpCys: 0.484 ± 0.174
1.271TrpAsp: 1.271 ± 0.24
1.271TrpGlu: 1.271 ± 0.292
0.484TrpPhe: 0.484 ± 0.167
1.331TrpGly: 1.331 ± 0.372
0.484TrpHis: 0.484 ± 0.194
0.847TrpIle: 0.847 ± 0.201
0.968TrpLys: 0.968 ± 0.212
1.574TrpLeu: 1.574 ± 0.27
0.847TrpMet: 0.847 ± 0.23
0.726TrpAsn: 0.726 ± 0.2
0.908TrpPro: 0.908 ± 0.18
1.331TrpGln: 1.331 ± 0.234
1.15TrpArg: 1.15 ± 0.235
0.908TrpSer: 0.908 ± 0.242
1.513TrpThr: 1.513 ± 0.295
1.513TrpVal: 1.513 ± 0.314
0.363TrpTrp: 0.363 ± 0.154
0.484TrpTyr: 0.484 ± 0.186
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.663TyrAla: 2.663 ± 0.419
0.242TyrCys: 0.242 ± 0.13
2.058TyrAsp: 2.058 ± 0.363
1.937TyrGlu: 1.937 ± 0.388
0.726TyrPhe: 0.726 ± 0.21
2.3TyrGly: 2.3 ± 0.362
0.242TyrHis: 0.242 ± 0.117
1.089TyrIle: 1.089 ± 0.24
0.968TyrLys: 0.968 ± 0.263
2.845TyrLeu: 2.845 ± 0.496
0.605TyrMet: 0.605 ± 0.199
1.15TyrAsn: 1.15 ± 0.258
1.15TyrPro: 1.15 ± 0.262
1.029TyrGln: 1.029 ± 0.225
1.755TyrArg: 1.755 ± 0.36
1.513TyrSer: 1.513 ± 0.271
1.513TyrThr: 1.513 ± 0.33
2.421TyrVal: 2.421 ± 0.349
0.363TyrTrp: 0.363 ± 0.144
0.908TyrTyr: 0.908 ± 0.229
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 92 proteins (16524 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