Amino acid dipepetide frequency for Yersinia phage PY54

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
12.281AlaAla: 12.281 ± 1.529
1.012AlaCys: 1.012 ± 0.311
5.128AlaAsp: 5.128 ± 0.534
7.22AlaGlu: 7.22 ± 0.747
2.362AlaPhe: 2.362 ± 0.407
7.76AlaGly: 7.76 ± 0.925
1.619AlaHis: 1.619 ± 0.392
6.208AlaIle: 6.208 ± 0.805
5.196AlaLys: 5.196 ± 0.64
8.974AlaLeu: 8.974 ± 0.85
2.429AlaMet: 2.429 ± 0.317
3.239AlaAsn: 3.239 ± 0.51
3.306AlaPro: 3.306 ± 0.521
3.509AlaGln: 3.509 ± 0.739
4.588AlaArg: 4.588 ± 0.562
6.748AlaSer: 6.748 ± 0.971
6.275AlaThr: 6.275 ± 0.707
5.331AlaVal: 5.331 ± 0.638
1.417AlaTrp: 1.417 ± 0.303
2.159AlaTyr: 2.159 ± 0.333
0.0AlaXaa: 0.0 ± 0.0
Cys
1.552CysAla: 1.552 ± 0.365
0.337CysCys: 0.337 ± 0.144
0.607CysAsp: 0.607 ± 0.287
0.742CysGlu: 0.742 ± 0.238
0.337CysPhe: 0.337 ± 0.146
1.147CysGly: 1.147 ± 0.287
0.405CysHis: 0.405 ± 0.176
1.282CysIle: 1.282 ± 0.281
0.472CysLys: 0.472 ± 0.201
0.742CysLeu: 0.742 ± 0.254
0.337CysMet: 0.337 ± 0.161
0.54CysAsn: 0.54 ± 0.179
0.607CysPro: 0.607 ± 0.195
0.81CysGln: 0.81 ± 0.224
1.012CysArg: 1.012 ± 0.254
0.675CysSer: 0.675 ± 0.215
0.675CysThr: 0.675 ± 0.216
0.742CysVal: 0.742 ± 0.232
0.337CysTrp: 0.337 ± 0.145
0.54CysTyr: 0.54 ± 0.194
0.0CysXaa: 0.0 ± 0.0
Asp
6.14AspAla: 6.14 ± 0.62
0.877AspCys: 0.877 ± 0.269
3.239AspAsp: 3.239 ± 0.58
4.251AspGlu: 4.251 ± 0.581
2.564AspPhe: 2.564 ± 0.45
5.196AspGly: 5.196 ± 0.742
1.012AspHis: 1.012 ± 0.276
3.441AspIle: 3.441 ± 0.536
2.834AspLys: 2.834 ± 0.498
5.061AspLeu: 5.061 ± 0.635
1.417AspMet: 1.417 ± 0.335
2.901AspAsn: 2.901 ± 0.443
2.497AspPro: 2.497 ± 0.384
1.282AspGln: 1.282 ± 0.393
2.362AspArg: 2.362 ± 0.38
3.711AspSer: 3.711 ± 0.569
2.699AspThr: 2.699 ± 0.459
3.036AspVal: 3.036 ± 0.413
0.877AspTrp: 0.877 ± 0.213
1.754AspTyr: 1.754 ± 0.361
0.0AspXaa: 0.0 ± 0.0
Glu
5.533GluAla: 5.533 ± 0.813
0.675GluCys: 0.675 ± 0.248
3.104GluAsp: 3.104 ± 0.712
3.441GluGlu: 3.441 ± 0.656
2.159GluPhe: 2.159 ± 0.458
2.294GluGly: 2.294 ± 0.317
1.687GluHis: 1.687 ± 0.342
4.656GluIle: 4.656 ± 0.565
3.509GluLys: 3.509 ± 0.517
6.748GluLeu: 6.748 ± 0.72
1.889GluMet: 1.889 ± 0.456
2.564GluAsn: 2.564 ± 0.391
2.024GluPro: 2.024 ± 0.42
3.711GluGln: 3.711 ± 0.538
4.049GluArg: 4.049 ± 0.615
3.644GluSer: 3.644 ± 0.409
3.036GluThr: 3.036 ± 0.392
3.374GluVal: 3.374 ± 0.471
0.81GluTrp: 0.81 ± 0.313
1.957GluTyr: 1.957 ± 0.377
0.0GluXaa: 0.0 ± 0.0
Phe
3.441PheAla: 3.441 ± 0.463
0.877PheCys: 0.877 ± 0.266
2.159PheAsp: 2.159 ± 0.335
1.957PheGlu: 1.957 ± 0.323
1.687PhePhe: 1.687 ± 0.326
2.362PheGly: 2.362 ± 0.399
0.337PheHis: 0.337 ± 0.151
2.092PheIle: 2.092 ± 0.458
1.889PheLys: 1.889 ± 0.396
1.754PheLeu: 1.754 ± 0.33
1.012PheMet: 1.012 ± 0.27
2.362PheAsn: 2.362 ± 0.441
1.282PhePro: 1.282 ± 0.276
0.54PheGln: 0.54 ± 0.224
1.822PheArg: 1.822 ± 0.341
3.711PheSer: 3.711 ± 0.387
2.564PheThr: 2.564 ± 0.43
2.024PheVal: 2.024 ± 0.409
0.405PheTrp: 0.405 ± 0.135
1.282PheTyr: 1.282 ± 0.279
0.0PheXaa: 0.0 ± 0.0
Gly
6.208GlyAla: 6.208 ± 0.942
0.742GlyCys: 0.742 ± 0.226
4.791GlyAsp: 4.791 ± 0.672
3.644GlyGlu: 3.644 ± 0.567
2.227GlyPhe: 2.227 ± 0.394
4.723GlyGly: 4.723 ± 0.783
0.742GlyHis: 0.742 ± 0.193
4.588GlyIle: 4.588 ± 0.581
4.116GlyLys: 4.116 ± 0.644
5.803GlyLeu: 5.803 ± 0.552
2.092GlyMet: 2.092 ± 0.472
3.239GlyAsn: 3.239 ± 0.526
2.159GlyPro: 2.159 ± 0.308
2.699GlyGln: 2.699 ± 0.341
3.104GlyArg: 3.104 ± 0.415
4.588GlySer: 4.588 ± 0.636
4.116GlyThr: 4.116 ± 0.715
5.263GlyVal: 5.263 ± 0.569
1.215GlyTrp: 1.215 ± 0.256
2.429GlyTyr: 2.429 ± 0.461
0.0GlyXaa: 0.0 ± 0.0
His
1.215HisAla: 1.215 ± 0.301
0.067HisCys: 0.067 ± 0.084
1.215HisAsp: 1.215 ± 0.329
1.012HisGlu: 1.012 ± 0.29
1.08HisPhe: 1.08 ± 0.283
0.607HisGly: 0.607 ± 0.184
0.54HisHis: 0.54 ± 0.186
1.282HisIle: 1.282 ± 0.279
0.607HisLys: 0.607 ± 0.236
1.822HisLeu: 1.822 ± 0.413
0.607HisMet: 0.607 ± 0.222
0.742HisAsn: 0.742 ± 0.193
0.81HisPro: 0.81 ± 0.216
1.08HisGln: 1.08 ± 0.222
1.08HisArg: 1.08 ± 0.365
1.822HisSer: 1.822 ± 0.378
0.81HisThr: 0.81 ± 0.231
0.607HisVal: 0.607 ± 0.239
0.27HisTrp: 0.27 ± 0.14
0.81HisTyr: 0.81 ± 0.257
0.0HisXaa: 0.0 ± 0.0
Ile
4.791IleAla: 4.791 ± 0.606
0.877IleCys: 0.877 ± 0.247
5.061IleAsp: 5.061 ± 0.531
4.926IleGlu: 4.926 ± 0.565
1.889IlePhe: 1.889 ± 0.371
4.251IleGly: 4.251 ± 0.829
1.012IleHis: 1.012 ± 0.29
3.779IleIle: 3.779 ± 0.584
4.723IleLys: 4.723 ± 0.583
4.858IleLeu: 4.858 ± 0.543
0.945IleMet: 0.945 ± 0.208
3.779IleAsn: 3.779 ± 0.584
2.767IlePro: 2.767 ± 0.451
1.957IleGln: 1.957 ± 0.305
3.576IleArg: 3.576 ± 0.523
5.196IleSer: 5.196 ± 0.578
5.061IleThr: 5.061 ± 0.547
3.036IleVal: 3.036 ± 0.466
0.945IleTrp: 0.945 ± 0.262
1.957IleTyr: 1.957 ± 0.354
0.0IleXaa: 0.0 ± 0.0
Lys
5.87LysAla: 5.87 ± 0.611
1.08LysCys: 1.08 ± 0.295
2.159LysAsp: 2.159 ± 0.326
3.171LysGlu: 3.171 ± 0.381
1.889LysPhe: 1.889 ± 0.428
3.779LysGly: 3.779 ± 0.521
0.945LysHis: 0.945 ± 0.282
3.306LysIle: 3.306 ± 0.444
3.576LysLys: 3.576 ± 0.555
4.251LysLeu: 4.251 ± 0.574
1.687LysMet: 1.687 ± 0.35
2.969LysAsn: 2.969 ± 0.428
2.699LysPro: 2.699 ± 0.495
2.497LysGln: 2.497 ± 0.484
2.969LysArg: 2.969 ± 0.672
2.969LysSer: 2.969 ± 0.519
3.171LysThr: 3.171 ± 0.507
2.497LysVal: 2.497 ± 0.424
0.742LysTrp: 0.742 ± 0.238
1.552LysTyr: 1.552 ± 0.313
0.0LysXaa: 0.0 ± 0.0
Leu
8.435LeuAla: 8.435 ± 0.736
1.147LeuCys: 1.147 ± 0.329
4.521LeuAsp: 4.521 ± 0.537
5.398LeuGlu: 5.398 ± 0.602
3.239LeuPhe: 3.239 ± 0.539
4.386LeuGly: 4.386 ± 0.562
1.754LeuHis: 1.754 ± 0.346
5.533LeuIle: 5.533 ± 0.535
4.588LeuLys: 4.588 ± 0.551
7.22LeuLeu: 7.22 ± 0.834
2.632LeuMet: 2.632 ± 0.386
3.441LeuAsn: 3.441 ± 0.487
4.251LeuPro: 4.251 ± 0.485
3.441LeuGln: 3.441 ± 0.439
4.926LeuArg: 4.926 ± 0.54
8.03LeuSer: 8.03 ± 1.019
5.87LeuThr: 5.87 ± 0.613
4.386LeuVal: 4.386 ± 0.611
0.54LeuTrp: 0.54 ± 0.18
2.227LeuTyr: 2.227 ± 0.498
0.0LeuXaa: 0.0 ± 0.0
Met
2.969MetAla: 2.969 ± 0.448
0.135MetCys: 0.135 ± 0.086
1.215MetAsp: 1.215 ± 0.263
1.35MetGlu: 1.35 ± 0.323
0.945MetPhe: 0.945 ± 0.202
1.687MetGly: 1.687 ± 0.382
0.202MetHis: 0.202 ± 0.097
1.417MetIle: 1.417 ± 0.33
2.227MetLys: 2.227 ± 0.428
2.564MetLeu: 2.564 ± 0.464
1.08MetMet: 1.08 ± 0.226
1.08MetAsn: 1.08 ± 0.298
1.215MetPro: 1.215 ± 0.293
1.08MetGln: 1.08 ± 0.25
1.282MetArg: 1.282 ± 0.375
1.619MetSer: 1.619 ± 0.344
2.024MetThr: 2.024 ± 0.384
1.552MetVal: 1.552 ± 0.355
0.337MetTrp: 0.337 ± 0.149
0.742MetTyr: 0.742 ± 0.231
0.0MetXaa: 0.0 ± 0.0
Asn
4.318AsnAla: 4.318 ± 0.588
0.607AsnCys: 0.607 ± 0.203
3.509AsnAsp: 3.509 ± 0.559
2.159AsnGlu: 2.159 ± 0.417
1.215AsnPhe: 1.215 ± 0.309
3.509AsnGly: 3.509 ± 0.426
0.81AsnHis: 0.81 ± 0.266
2.901AsnIle: 2.901 ± 0.705
2.024AsnLys: 2.024 ± 0.403
2.901AsnLeu: 2.901 ± 0.496
1.012AsnMet: 1.012 ± 0.324
1.687AsnAsn: 1.687 ± 0.341
1.889AsnPro: 1.889 ± 0.409
2.429AsnGln: 2.429 ± 0.651
2.767AsnArg: 2.767 ± 0.405
3.441AsnSer: 3.441 ± 0.419
2.159AsnThr: 2.159 ± 0.407
2.901AsnVal: 2.901 ± 0.487
0.675AsnTrp: 0.675 ± 0.243
1.619AsnTyr: 1.619 ± 0.414
0.0AsnXaa: 0.0 ± 0.0
Pro
3.846ProAla: 3.846 ± 0.593
0.81ProCys: 0.81 ± 0.281
3.036ProAsp: 3.036 ± 0.388
2.901ProGlu: 2.901 ± 0.425
1.687ProPhe: 1.687 ± 0.28
2.767ProGly: 2.767 ± 0.513
0.877ProHis: 0.877 ± 0.26
2.767ProIle: 2.767 ± 0.576
1.957ProLys: 1.957 ± 0.368
3.374ProLeu: 3.374 ± 0.5
0.742ProMet: 0.742 ± 0.223
2.159ProAsn: 2.159 ± 0.39
1.889ProPro: 1.889 ± 0.413
1.957ProGln: 1.957 ± 0.311
1.889ProArg: 1.889 ± 0.476
2.969ProSer: 2.969 ± 0.468
2.362ProThr: 2.362 ± 0.319
3.441ProVal: 3.441 ± 0.432
0.337ProTrp: 0.337 ± 0.126
1.08ProTyr: 1.08 ± 0.264
0.0ProXaa: 0.0 ± 0.0
Gln
4.791GlnAla: 4.791 ± 1.323
0.337GlnCys: 0.337 ± 0.154
1.35GlnAsp: 1.35 ± 0.337
2.092GlnGlu: 2.092 ± 0.556
1.282GlnPhe: 1.282 ± 0.309
1.822GlnGly: 1.822 ± 0.266
0.877GlnHis: 0.877 ± 0.232
2.767GlnIle: 2.767 ± 0.366
2.227GlnLys: 2.227 ± 0.41
5.533GlnLeu: 5.533 ± 0.664
1.484GlnMet: 1.484 ± 0.327
1.552GlnAsn: 1.552 ± 0.287
0.877GlnPro: 0.877 ± 0.248
2.969GlnGln: 2.969 ± 0.571
2.632GlnArg: 2.632 ± 0.367
2.429GlnSer: 2.429 ± 0.607
2.294GlnThr: 2.294 ± 0.445
2.092GlnVal: 2.092 ± 0.375
0.742GlnTrp: 0.742 ± 0.26
1.552GlnTyr: 1.552 ± 0.335
0.0GlnXaa: 0.0 ± 0.0
Arg
4.993ArgAla: 4.993 ± 0.459
1.012ArgCys: 1.012 ± 0.358
3.576ArgAsp: 3.576 ± 0.55
2.901ArgGlu: 2.901 ± 0.464
2.227ArgPhe: 2.227 ± 0.418
3.441ArgGly: 3.441 ± 0.453
1.35ArgHis: 1.35 ± 0.334
2.901ArgIle: 2.901 ± 0.449
2.429ArgLys: 2.429 ± 0.392
4.858ArgLeu: 4.858 ± 0.58
1.282ArgMet: 1.282 ± 0.322
1.754ArgAsn: 1.754 ± 0.334
2.767ArgPro: 2.767 ± 0.455
2.159ArgGln: 2.159 ± 0.438
3.914ArgArg: 3.914 ± 0.518
3.779ArgSer: 3.779 ± 0.55
2.699ArgThr: 2.699 ± 0.463
4.386ArgVal: 4.386 ± 0.512
1.08ArgTrp: 1.08 ± 0.3
1.484ArgTyr: 1.484 ± 0.256
0.0ArgXaa: 0.0 ± 0.0
Ser
6.545SerAla: 6.545 ± 1.214
1.012SerCys: 1.012 ± 0.281
3.914SerAsp: 3.914 ± 0.555
3.914SerGlu: 3.914 ± 0.425
2.362SerPhe: 2.362 ± 0.374
6.14SerGly: 6.14 ± 0.584
1.619SerHis: 1.619 ± 0.363
4.993SerIle: 4.993 ± 0.591
3.981SerLys: 3.981 ± 0.514
7.085SerLeu: 7.085 ± 0.923
1.417SerMet: 1.417 ± 0.326
3.171SerAsn: 3.171 ± 0.565
2.901SerPro: 2.901 ± 0.454
2.564SerGln: 2.564 ± 0.507
3.576SerArg: 3.576 ± 0.594
4.588SerSer: 4.588 ± 0.766
4.521SerThr: 4.521 ± 0.493
4.386SerVal: 4.386 ± 0.529
0.877SerTrp: 0.877 ± 0.261
1.619SerTyr: 1.619 ± 0.307
0.0SerXaa: 0.0 ± 0.0
Thr
6.545ThrAla: 6.545 ± 0.822
0.607ThrCys: 0.607 ± 0.167
3.306ThrAsp: 3.306 ± 0.569
4.453ThrGlu: 4.453 ± 0.499
2.024ThrPhe: 2.024 ± 0.404
5.263ThrGly: 5.263 ± 0.673
0.607ThrHis: 0.607 ± 0.206
3.441ThrIle: 3.441 ± 0.642
2.227ThrLys: 2.227 ± 0.359
4.386ThrLeu: 4.386 ± 0.522
1.822ThrMet: 1.822 ± 0.332
3.239ThrAsn: 3.239 ± 0.583
3.104ThrPro: 3.104 ± 0.496
2.429ThrGln: 2.429 ± 0.462
3.171ThrArg: 3.171 ± 0.403
3.576ThrSer: 3.576 ± 0.642
3.171ThrThr: 3.171 ± 0.368
3.576ThrVal: 3.576 ± 0.43
0.405ThrTrp: 0.405 ± 0.149
1.822ThrTyr: 1.822 ± 0.36
0.0ThrXaa: 0.0 ± 0.0
Val
4.116ValAla: 4.116 ± 0.437
0.81ValCys: 0.81 ± 0.288
3.036ValAsp: 3.036 ± 0.379
3.306ValGlu: 3.306 ± 0.575
2.227ValPhe: 2.227 ± 0.342
4.049ValGly: 4.049 ± 0.582
0.877ValHis: 0.877 ± 0.187
5.196ValIle: 5.196 ± 0.631
2.699ValLys: 2.699 ± 0.389
4.386ValLeu: 4.386 ± 0.53
1.282ValMet: 1.282 ± 0.293
2.901ValAsn: 2.901 ± 0.531
3.779ValPro: 3.779 ± 0.475
2.024ValGln: 2.024 ± 0.382
3.171ValArg: 3.171 ± 0.365
4.723ValSer: 4.723 ± 0.493
3.711ValThr: 3.711 ± 0.504
4.386ValVal: 4.386 ± 0.62
1.35ValTrp: 1.35 ± 0.308
1.552ValTyr: 1.552 ± 0.334
0.0ValXaa: 0.0 ± 0.0
Trp
0.945TrpAla: 0.945 ± 0.274
0.27TrpCys: 0.27 ± 0.121
0.675TrpAsp: 0.675 ± 0.223
0.54TrpGlu: 0.54 ± 0.254
0.877TrpPhe: 0.877 ± 0.259
1.147TrpGly: 1.147 ± 0.316
0.067TrpHis: 0.067 ± 0.065
0.877TrpIle: 0.877 ± 0.253
0.81TrpLys: 0.81 ± 0.23
1.417TrpLeu: 1.417 ± 0.264
0.472TrpMet: 0.472 ± 0.187
0.54TrpAsn: 0.54 ± 0.171
0.472TrpPro: 0.472 ± 0.193
0.945TrpGln: 0.945 ± 0.276
0.742TrpArg: 0.742 ± 0.221
0.81TrpSer: 0.81 ± 0.271
0.675TrpThr: 0.675 ± 0.229
1.012TrpVal: 1.012 ± 0.324
0.135TrpTrp: 0.135 ± 0.118
0.337TrpTyr: 0.337 ± 0.153
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.227TyrAla: 2.227 ± 0.365
0.607TyrCys: 0.607 ± 0.226
1.552TyrAsp: 1.552 ± 0.302
1.484TyrGlu: 1.484 ± 0.319
1.35TyrPhe: 1.35 ± 0.301
2.159TyrGly: 2.159 ± 0.4
0.742TyrHis: 0.742 ± 0.225
1.957TyrIle: 1.957 ± 0.357
1.687TyrLys: 1.687 ± 0.359
2.227TyrLeu: 2.227 ± 0.36
1.012TyrMet: 1.012 ± 0.232
0.675TyrAsn: 0.675 ± 0.24
1.552TyrPro: 1.552 ± 0.334
1.619TyrGln: 1.619 ± 0.335
2.362TyrArg: 2.362 ± 0.443
2.159TyrSer: 2.159 ± 0.4
1.282TyrThr: 1.282 ± 0.261
1.552TyrVal: 1.552 ± 0.323
0.27TyrTrp: 0.27 ± 0.128
1.08TyrTyr: 1.08 ± 0.308
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 67 proteins (14821 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