Amino acid dipepetide frequency for Ralstonia phage Gamede

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
22.085AlaAla: 22.085 ± 1.587
1.027AlaCys: 1.027 ± 0.359
6.163AlaAsp: 6.163 ± 0.633
8.56AlaGlu: 8.56 ± 1.177
3.995AlaPhe: 3.995 ± 0.413
11.927AlaGly: 11.927 ± 1.361
1.997AlaHis: 1.997 ± 0.353
5.536AlaIle: 5.536 ± 0.661
6.335AlaLys: 6.335 ± 0.788
9.702AlaLeu: 9.702 ± 0.66
3.938AlaMet: 3.938 ± 0.54
4.109AlaAsn: 4.109 ± 0.64
7.647AlaPro: 7.647 ± 0.974
6.335AlaGln: 6.335 ± 0.592
7.989AlaArg: 7.989 ± 0.846
7.647AlaSer: 7.647 ± 0.731
5.364AlaThr: 5.364 ± 0.445
7.533AlaVal: 7.533 ± 0.525
1.655AlaTrp: 1.655 ± 0.289
3.253AlaTyr: 3.253 ± 0.445
0.0AlaXaa: 0.0 ± 0.0
Cys
0.571CysAla: 0.571 ± 0.242
0.228CysCys: 0.228 ± 0.132
0.228CysAsp: 0.228 ± 0.135
0.285CysGlu: 0.285 ± 0.16
0.342CysPhe: 0.342 ± 0.247
0.628CysGly: 0.628 ± 0.25
0.228CysHis: 0.228 ± 0.172
0.285CysIle: 0.285 ± 0.157
0.342CysLys: 0.342 ± 0.158
0.742CysLeu: 0.742 ± 0.311
0.228CysMet: 0.228 ± 0.129
0.228CysAsn: 0.228 ± 0.124
0.114CysPro: 0.114 ± 0.102
0.057CysGln: 0.057 ± 0.063
0.571CysArg: 0.571 ± 0.28
0.571CysSer: 0.571 ± 0.251
0.285CysThr: 0.285 ± 0.177
0.399CysVal: 0.399 ± 0.196
0.228CysTrp: 0.228 ± 0.116
0.285CysTyr: 0.285 ± 0.185
0.0CysXaa: 0.0 ± 0.0
Asp
8.674AspAla: 8.674 ± 0.794
0.342AspCys: 0.342 ± 0.208
3.824AspAsp: 3.824 ± 0.661
3.652AspGlu: 3.652 ± 0.464
1.883AspPhe: 1.883 ± 0.343
7.419AspGly: 7.419 ± 0.917
1.255AspHis: 1.255 ± 0.288
3.139AspIle: 3.139 ± 0.338
1.997AspLys: 1.997 ± 0.329
4.223AspLeu: 4.223 ± 0.429
1.427AspMet: 1.427 ± 0.296
1.883AspAsn: 1.883 ± 0.295
2.682AspPro: 2.682 ± 0.406
1.484AspGln: 1.484 ± 0.356
4.508AspArg: 4.508 ± 0.576
2.511AspSer: 2.511 ± 0.471
3.082AspThr: 3.082 ± 0.299
4.451AspVal: 4.451 ± 0.387
0.856AspTrp: 0.856 ± 0.241
2.226AspTyr: 2.226 ± 0.331
0.0AspXaa: 0.0 ± 0.0
Glu
7.476GluAla: 7.476 ± 0.84
0.399GluCys: 0.399 ± 0.187
3.538GluAsp: 3.538 ± 0.438
4.052GluGlu: 4.052 ± 0.688
2.682GluPhe: 2.682 ± 0.414
4.109GluGly: 4.109 ± 0.733
1.37GluHis: 1.37 ± 0.306
3.196GluIle: 3.196 ± 0.41
3.082GluLys: 3.082 ± 0.729
5.593GluLeu: 5.593 ± 0.503
1.826GluMet: 1.826 ± 0.33
2.34GluAsn: 2.34 ± 0.315
2.91GluPro: 2.91 ± 0.624
3.766GluGln: 3.766 ± 0.397
6.563GluArg: 6.563 ± 0.876
3.424GluSer: 3.424 ± 0.459
2.169GluThr: 2.169 ± 0.36
2.91GluVal: 2.91 ± 0.43
0.97GluTrp: 0.97 ± 0.193
1.655GluTyr: 1.655 ± 0.428
0.0GluXaa: 0.0 ± 0.0
Phe
3.082PheAla: 3.082 ± 0.352
0.342PheCys: 0.342 ± 0.146
3.025PheAsp: 3.025 ± 0.449
1.541PheGlu: 1.541 ± 0.335
0.742PhePhe: 0.742 ± 0.239
2.968PheGly: 2.968 ± 0.407
0.514PheHis: 0.514 ± 0.147
1.598PheIle: 1.598 ± 0.405
1.198PheLys: 1.198 ± 0.309
1.769PheLeu: 1.769 ± 0.353
0.97PheMet: 0.97 ± 0.235
1.084PheAsn: 1.084 ± 0.214
1.084PhePro: 1.084 ± 0.214
0.913PheGln: 0.913 ± 0.175
1.769PheArg: 1.769 ± 0.472
2.112PheSer: 2.112 ± 0.37
1.255PheThr: 1.255 ± 0.242
2.853PheVal: 2.853 ± 0.348
0.399PheTrp: 0.399 ± 0.138
1.084PheTyr: 1.084 ± 0.198
0.0PheXaa: 0.0 ± 0.0
Gly
12.27GlyAla: 12.27 ± 1.402
0.399GlyCys: 0.399 ± 0.192
6.106GlyAsp: 6.106 ± 0.601
5.707GlyGlu: 5.707 ± 0.786
2.397GlyPhe: 2.397 ± 0.366
8.674GlyGly: 8.674 ± 1.204
1.313GlyHis: 1.313 ± 0.263
3.139GlyIle: 3.139 ± 0.342
5.307GlyLys: 5.307 ± 0.599
5.136GlyLeu: 5.136 ± 0.536
2.283GlyMet: 2.283 ± 0.414
3.196GlyAsn: 3.196 ± 0.604
2.34GlyPro: 2.34 ± 0.292
3.367GlyGln: 3.367 ± 0.46
6.22GlyArg: 6.22 ± 0.785
4.451GlySer: 4.451 ± 0.73
5.821GlyThr: 5.821 ± 0.635
5.364GlyVal: 5.364 ± 0.584
0.913GlyTrp: 0.913 ± 0.208
2.112GlyTyr: 2.112 ± 0.333
0.0GlyXaa: 0.0 ± 0.0
His
2.397HisAla: 2.397 ± 0.391
0.228HisCys: 0.228 ± 0.138
1.313HisAsp: 1.313 ± 0.277
1.655HisGlu: 1.655 ± 0.299
0.856HisPhe: 0.856 ± 0.212
1.255HisGly: 1.255 ± 0.257
0.571HisHis: 0.571 ± 0.272
0.97HisIle: 0.97 ± 0.185
0.571HisLys: 0.571 ± 0.218
0.799HisLeu: 0.799 ± 0.189
0.514HisMet: 0.514 ± 0.185
0.571HisAsn: 0.571 ± 0.189
0.685HisPro: 0.685 ± 0.179
0.342HisGln: 0.342 ± 0.106
1.37HisArg: 1.37 ± 0.273
0.856HisSer: 0.856 ± 0.271
0.742HisThr: 0.742 ± 0.207
0.97HisVal: 0.97 ± 0.211
0.171HisTrp: 0.171 ± 0.111
0.514HisTyr: 0.514 ± 0.208
0.0HisXaa: 0.0 ± 0.0
Ile
5.992IleAla: 5.992 ± 0.619
0.228IleCys: 0.228 ± 0.163
2.91IleAsp: 2.91 ± 0.357
4.394IleGlu: 4.394 ± 0.457
0.913IlePhe: 0.913 ± 0.235
4.052IleGly: 4.052 ± 0.504
0.399IleHis: 0.399 ± 0.141
1.769IleIle: 1.769 ± 0.423
2.112IleLys: 2.112 ± 0.35
1.997IleLeu: 1.997 ± 0.295
1.084IleMet: 1.084 ± 0.282
1.997IleAsn: 1.997 ± 0.348
1.769IlePro: 1.769 ± 0.318
1.883IleGln: 1.883 ± 0.408
3.139IleArg: 3.139 ± 0.491
2.34IleSer: 2.34 ± 0.4
2.796IleThr: 2.796 ± 0.482
3.367IleVal: 3.367 ± 0.607
0.285IleTrp: 0.285 ± 0.107
1.084IleTyr: 1.084 ± 0.27
0.0IleXaa: 0.0 ± 0.0
Lys
6.905LysAla: 6.905 ± 0.545
0.399LysCys: 0.399 ± 0.199
2.682LysAsp: 2.682 ± 0.378
2.796LysGlu: 2.796 ± 0.689
1.37LysPhe: 1.37 ± 0.291
3.424LysGly: 3.424 ± 0.676
0.685LysHis: 0.685 ± 0.189
1.94LysIle: 1.94 ± 0.383
2.34LysLys: 2.34 ± 0.332
3.766LysLeu: 3.766 ± 0.439
1.084LysMet: 1.084 ± 0.32
1.427LysAsn: 1.427 ± 0.301
2.796LysPro: 2.796 ± 0.492
2.968LysGln: 2.968 ± 0.459
3.995LysArg: 3.995 ± 0.588
2.226LysSer: 2.226 ± 0.358
2.968LysThr: 2.968 ± 0.459
2.968LysVal: 2.968 ± 0.407
0.742LysTrp: 0.742 ± 0.213
0.856LysTyr: 0.856 ± 0.184
0.0LysXaa: 0.0 ± 0.0
Leu
6.791LeuAla: 6.791 ± 0.65
0.399LeuCys: 0.399 ± 0.178
5.307LeuAsp: 5.307 ± 0.586
3.938LeuGlu: 3.938 ± 0.543
2.283LeuPhe: 2.283 ± 0.306
6.449LeuGly: 6.449 ± 0.581
1.198LeuHis: 1.198 ± 0.247
3.652LeuIle: 3.652 ± 0.562
4.052LeuLys: 4.052 ± 0.595
4.394LeuLeu: 4.394 ± 0.551
1.826LeuMet: 1.826 ± 0.311
2.226LeuAsn: 2.226 ± 0.371
4.451LeuPro: 4.451 ± 0.81
2.054LeuGln: 2.054 ± 0.238
5.193LeuArg: 5.193 ± 0.501
4.851LeuSer: 4.851 ± 0.575
4.394LeuThr: 4.394 ± 0.415
3.938LeuVal: 3.938 ± 0.761
0.685LeuTrp: 0.685 ± 0.238
1.484LeuTyr: 1.484 ± 0.233
0.0LeuXaa: 0.0 ± 0.0
Met
2.511MetAla: 2.511 ± 0.399
0.114MetCys: 0.114 ± 0.086
1.37MetAsp: 1.37 ± 0.276
0.97MetGlu: 0.97 ± 0.215
0.856MetPhe: 0.856 ± 0.257
2.112MetGly: 2.112 ± 0.354
0.457MetHis: 0.457 ± 0.162
0.628MetIle: 0.628 ± 0.185
1.826MetLys: 1.826 ± 0.277
2.054MetLeu: 2.054 ± 0.313
0.856MetMet: 0.856 ± 0.168
1.141MetAsn: 1.141 ± 0.241
1.883MetPro: 1.883 ± 0.302
1.484MetGln: 1.484 ± 0.353
2.226MetArg: 2.226 ± 0.402
2.397MetSer: 2.397 ± 0.397
1.94MetThr: 1.94 ± 0.338
1.255MetVal: 1.255 ± 0.288
0.228MetTrp: 0.228 ± 0.1
0.571MetTyr: 0.571 ± 0.172
0.0MetXaa: 0.0 ± 0.0
Asn
4.166AsnAla: 4.166 ± 0.556
0.171AsnCys: 0.171 ± 0.12
2.283AsnAsp: 2.283 ± 0.351
2.112AsnGlu: 2.112 ± 0.33
0.856AsnPhe: 0.856 ± 0.244
3.766AsnGly: 3.766 ± 0.58
0.685AsnHis: 0.685 ± 0.196
1.37AsnIle: 1.37 ± 0.301
1.313AsnLys: 1.313 ± 0.313
1.997AsnLeu: 1.997 ± 0.283
0.742AsnMet: 0.742 ± 0.221
1.198AsnAsn: 1.198 ± 0.276
2.34AsnPro: 2.34 ± 0.427
1.598AsnGln: 1.598 ± 0.422
2.169AsnArg: 2.169 ± 0.286
1.598AsnSer: 1.598 ± 0.303
1.997AsnThr: 1.997 ± 0.546
3.025AsnVal: 3.025 ± 0.371
0.685AsnTrp: 0.685 ± 0.179
0.457AsnTyr: 0.457 ± 0.236
0.0AsnXaa: 0.0 ± 0.0
Pro
8.446ProAla: 8.446 ± 1.224
0.342ProCys: 0.342 ± 0.154
3.367ProAsp: 3.367 ± 0.348
3.139ProGlu: 3.139 ± 0.444
1.484ProPhe: 1.484 ± 0.343
4.223ProGly: 4.223 ± 0.693
0.685ProHis: 0.685 ± 0.258
1.94ProIle: 1.94 ± 0.339
2.625ProLys: 2.625 ± 0.438
2.796ProLeu: 2.796 ± 0.396
0.913ProMet: 0.913 ± 0.355
1.313ProAsn: 1.313 ± 0.353
2.226ProPro: 2.226 ± 0.401
1.769ProGln: 1.769 ± 0.365
2.625ProArg: 2.625 ± 0.36
3.595ProSer: 3.595 ± 0.5
2.682ProThr: 2.682 ± 0.479
2.853ProVal: 2.853 ± 0.342
0.457ProTrp: 0.457 ± 0.148
1.084ProTyr: 1.084 ± 0.311
0.0ProXaa: 0.0 ± 0.0
Gln
6.506GlnAla: 6.506 ± 0.667
0.057GlnCys: 0.057 ± 0.075
2.397GlnAsp: 2.397 ± 0.381
2.739GlnGlu: 2.739 ± 0.473
1.027GlnPhe: 1.027 ± 0.261
2.91GlnGly: 2.91 ± 0.413
0.799GlnHis: 0.799 ± 0.27
1.826GlnIle: 1.826 ± 0.327
1.826GlnLys: 1.826 ± 0.326
3.424GlnLeu: 3.424 ± 0.295
1.484GlnMet: 1.484 ± 0.404
1.484GlnAsn: 1.484 ± 0.363
1.598GlnPro: 1.598 ± 0.221
3.938GlnGln: 3.938 ± 0.85
2.511GlnArg: 2.511 ± 0.416
1.94GlnSer: 1.94 ± 0.337
1.883GlnThr: 1.883 ± 0.383
3.025GlnVal: 3.025 ± 0.376
0.685GlnTrp: 0.685 ± 0.184
1.141GlnTyr: 1.141 ± 0.349
0.0GlnXaa: 0.0 ± 0.0
Arg
9.53ArgAla: 9.53 ± 0.907
0.514ArgCys: 0.514 ± 0.203
4.166ArgAsp: 4.166 ± 0.452
4.394ArgGlu: 4.394 ± 0.649
2.796ArgPhe: 2.796 ± 0.392
4.508ArgGly: 4.508 ± 0.633
1.141ArgHis: 1.141 ± 0.256
3.595ArgIle: 3.595 ± 0.492
3.652ArgLys: 3.652 ± 0.509
5.878ArgLeu: 5.878 ± 0.529
2.226ArgMet: 2.226 ± 0.337
2.682ArgAsn: 2.682 ± 0.326
2.739ArgPro: 2.739 ± 0.547
3.424ArgGln: 3.424 ± 0.527
4.68ArgArg: 4.68 ± 0.704
3.538ArgSer: 3.538 ± 0.365
2.91ArgThr: 2.91 ± 0.341
4.737ArgVal: 4.737 ± 0.529
1.084ArgTrp: 1.084 ± 0.235
2.568ArgTyr: 2.568 ± 0.374
0.0ArgXaa: 0.0 ± 0.0
Ser
7.191SerAla: 7.191 ± 0.906
0.514SerCys: 0.514 ± 0.256
3.652SerAsp: 3.652 ± 0.445
2.91SerGlu: 2.91 ± 0.401
1.541SerPhe: 1.541 ± 0.29
4.794SerGly: 4.794 ± 0.617
1.255SerHis: 1.255 ± 0.281
2.397SerIle: 2.397 ± 0.318
2.511SerLys: 2.511 ± 0.294
4.109SerLeu: 4.109 ± 0.381
1.37SerMet: 1.37 ± 0.364
2.112SerAsn: 2.112 ± 0.465
2.625SerPro: 2.625 ± 0.43
2.796SerGln: 2.796 ± 0.367
3.766SerArg: 3.766 ± 0.546
3.082SerSer: 3.082 ± 0.445
3.766SerThr: 3.766 ± 0.44
3.652SerVal: 3.652 ± 0.43
1.084SerTrp: 1.084 ± 0.237
1.37SerTyr: 1.37 ± 0.277
0.0SerXaa: 0.0 ± 0.0
Thr
6.049ThrAla: 6.049 ± 0.599
0.114ThrCys: 0.114 ± 0.089
2.568ThrAsp: 2.568 ± 0.388
4.166ThrGlu: 4.166 ± 0.393
1.541ThrPhe: 1.541 ± 0.355
5.25ThrGly: 5.25 ± 0.574
1.198ThrHis: 1.198 ± 0.227
2.968ThrIle: 2.968 ± 0.42
2.968ThrLys: 2.968 ± 0.385
4.109ThrLeu: 4.109 ± 0.698
1.541ThrMet: 1.541 ± 0.249
1.598ThrAsn: 1.598 ± 0.294
3.196ThrPro: 3.196 ± 0.382
1.141ThrGln: 1.141 ± 0.262
3.196ThrArg: 3.196 ± 0.661
2.796ThrSer: 2.796 ± 0.532
3.139ThrThr: 3.139 ± 0.548
4.223ThrVal: 4.223 ± 0.672
0.571ThrTrp: 0.571 ± 0.169
1.541ThrTyr: 1.541 ± 0.33
0.0ThrXaa: 0.0 ± 0.0
Val
7.989ValAla: 7.989 ± 0.561
0.571ValCys: 0.571 ± 0.241
3.995ValAsp: 3.995 ± 0.477
4.68ValGlu: 4.68 ± 0.58
1.313ValPhe: 1.313 ± 0.289
5.136ValGly: 5.136 ± 0.495
0.856ValHis: 0.856 ± 0.272
2.568ValIle: 2.568 ± 0.476
2.853ValLys: 2.853 ± 0.593
3.367ValLeu: 3.367 ± 0.401
1.655ValMet: 1.655 ± 0.236
2.34ValAsn: 2.34 ± 0.444
4.166ValPro: 4.166 ± 0.58
2.568ValGln: 2.568 ± 0.388
5.079ValArg: 5.079 ± 0.632
4.28ValSer: 4.28 ± 0.518
4.109ValThr: 4.109 ± 0.504
5.022ValVal: 5.022 ± 0.648
0.97ValTrp: 0.97 ± 0.299
1.598ValTyr: 1.598 ± 0.272
0.0ValXaa: 0.0 ± 0.0
Trp
1.255TrpAla: 1.255 ± 0.224
0.171TrpCys: 0.171 ± 0.111
0.628TrpAsp: 0.628 ± 0.259
0.571TrpGlu: 0.571 ± 0.221
0.514TrpPhe: 0.514 ± 0.188
1.027TrpGly: 1.027 ± 0.211
0.399TrpHis: 0.399 ± 0.22
0.799TrpIle: 0.799 ± 0.189
0.457TrpLys: 0.457 ± 0.184
1.37TrpLeu: 1.37 ± 0.303
0.457TrpMet: 0.457 ± 0.141
0.399TrpAsn: 0.399 ± 0.189
0.399TrpPro: 0.399 ± 0.187
0.457TrpGln: 0.457 ± 0.138
1.313TrpArg: 1.313 ± 0.357
0.799TrpSer: 0.799 ± 0.209
0.856TrpThr: 0.856 ± 0.253
0.856TrpVal: 0.856 ± 0.204
0.171TrpTrp: 0.171 ± 0.136
0.228TrpTyr: 0.228 ± 0.126
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.91TyrAla: 2.91 ± 0.371
0.285TyrCys: 0.285 ± 0.142
1.997TyrAsp: 1.997 ± 0.19
1.769TyrGlu: 1.769 ± 0.293
0.913TyrPhe: 0.913 ± 0.205
1.883TyrGly: 1.883 ± 0.339
0.342TyrHis: 0.342 ± 0.131
1.198TyrIle: 1.198 ± 0.314
0.97TyrLys: 0.97 ± 0.176
2.34TyrLeu: 2.34 ± 0.443
0.399TyrMet: 0.399 ± 0.113
1.198TyrAsn: 1.198 ± 0.233
0.97TyrPro: 0.97 ± 0.233
0.856TyrGln: 0.856 ± 0.197
1.883TyrArg: 1.883 ± 0.299
1.484TyrSer: 1.484 ± 0.356
1.712TyrThr: 1.712 ± 0.366
1.712TyrVal: 1.712 ± 0.279
0.285TyrTrp: 0.285 ± 0.252
0.571TyrTyr: 0.571 ± 0.139
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 66 proteins (17524 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