Amino acid dipepetide frequency for Lactobacillus phage Dionysus

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
2.422AlaAla: 2.422 ± 0.444
0.22AlaCys: 0.22 ± 0.07
4.159AlaAsp: 4.159 ± 0.305
3.327AlaGlu: 3.327 ± 0.318
2.006AlaPhe: 2.006 ± 0.258
4.403AlaGly: 4.403 ± 0.537
0.734AlaHis: 0.734 ± 0.147
4.208AlaIle: 4.208 ± 0.33
6.654AlaLys: 6.654 ± 0.507
5.039AlaLeu: 5.039 ± 0.369
1.37AlaMet: 1.37 ± 0.159
3.645AlaAsn: 3.645 ± 0.314
1.908AlaPro: 1.908 ± 0.339
2.275AlaGln: 2.275 ± 0.268
2.299AlaArg: 2.299 ± 0.22
5.088AlaSer: 5.088 ± 0.434
4.526AlaThr: 4.526 ± 0.408
3.498AlaVal: 3.498 ± 0.281
0.636AlaTrp: 0.636 ± 0.131
3.082AlaTyr: 3.082 ± 0.34
0.0AlaXaa: 0.0 ± 0.0
Cys
0.22CysAla: 0.22 ± 0.083
0.073CysCys: 0.073 ± 0.057
0.342CysAsp: 0.342 ± 0.086
0.318CysGlu: 0.318 ± 0.091
0.122CysPhe: 0.122 ± 0.048
0.563CysGly: 0.563 ± 0.156
0.171CysHis: 0.171 ± 0.072
0.44CysIle: 0.44 ± 0.103
0.489CysLys: 0.489 ± 0.105
0.44CysLeu: 0.44 ± 0.109
0.049CysMet: 0.049 ± 0.032
0.44CysAsn: 0.44 ± 0.099
0.269CysPro: 0.269 ± 0.09
0.147CysGln: 0.147 ± 0.053
0.122CysArg: 0.122 ± 0.055
0.416CysSer: 0.416 ± 0.093
0.245CysThr: 0.245 ± 0.097
0.245CysVal: 0.245 ± 0.077
0.073CysTrp: 0.073 ± 0.051
0.196CysTyr: 0.196 ± 0.063
0.0CysXaa: 0.0 ± 0.0
Asp
4.574AspAla: 4.574 ± 0.419
0.489AspCys: 0.489 ± 0.112
5.749AspAsp: 5.749 ± 0.544
4.256AspGlu: 4.256 ± 0.384
2.764AspPhe: 2.764 ± 0.23
4.281AspGly: 4.281 ± 0.375
0.636AspHis: 0.636 ± 0.135
5.529AspIle: 5.529 ± 0.318
6.434AspLys: 6.434 ± 0.478
6.091AspLeu: 6.091 ± 0.463
2.006AspMet: 2.006 ± 0.222
5.944AspAsn: 5.944 ± 0.381
1.884AspPro: 1.884 ± 0.242
1.394AspGln: 1.394 ± 0.159
2.128AspArg: 2.128 ± 0.301
5.48AspSer: 5.48 ± 0.407
4.868AspThr: 4.868 ± 0.331
4.305AspVal: 4.305 ± 0.334
0.856AspTrp: 0.856 ± 0.143
3.718AspTyr: 3.718 ± 0.318
0.0AspXaa: 0.0 ± 0.0
Glu
4.623GluAla: 4.623 ± 0.511
0.318GluCys: 0.318 ± 0.097
4.281GluAsp: 4.281 ± 0.365
3.89GluGlu: 3.89 ± 0.439
2.104GluPhe: 2.104 ± 0.256
2.911GluGly: 2.911 ± 0.264
1.052GluHis: 1.052 ± 0.156
3.498GluIle: 3.498 ± 0.296
3.523GluLys: 3.523 ± 0.349
6.385GluLeu: 6.385 ± 0.484
1.419GluMet: 1.419 ± 0.186
2.935GluAsn: 2.935 ± 0.26
1.541GluPro: 1.541 ± 0.243
2.495GluGln: 2.495 ± 0.254
2.202GluArg: 2.202 ± 0.193
3.62GluSer: 3.62 ± 0.311
3.351GluThr: 3.351 ± 0.322
3.449GluVal: 3.449 ± 0.341
0.612GluTrp: 0.612 ± 0.131
2.96GluTyr: 2.96 ± 0.283
0.0GluXaa: 0.0 ± 0.0
Phe
1.492PheAla: 1.492 ± 0.187
0.22PheCys: 0.22 ± 0.068
2.691PheAsp: 2.691 ± 0.254
1.663PheGlu: 1.663 ± 0.211
0.905PhePhe: 0.905 ± 0.149
2.03PheGly: 2.03 ± 0.221
0.514PheHis: 0.514 ± 0.106
2.299PheIle: 2.299 ± 0.242
3.058PheLys: 3.058 ± 0.252
2.324PheLeu: 2.324 ± 0.245
1.003PheMet: 1.003 ± 0.163
3.229PheAsn: 3.229 ± 0.323
1.052PhePro: 1.052 ± 0.19
1.052PheGln: 1.052 ± 0.156
1.15PheArg: 1.15 ± 0.186
3.18PheSer: 3.18 ± 0.271
2.544PheThr: 2.544 ± 0.231
2.324PheVal: 2.324 ± 0.261
0.342PheTrp: 0.342 ± 0.081
1.566PheTyr: 1.566 ± 0.194
0.0PheXaa: 0.0 ± 0.0
Gly
3.645GlyAla: 3.645 ± 0.45
0.269GlyCys: 0.269 ± 0.082
4.452GlyAsp: 4.452 ± 0.325
3.645GlyGlu: 3.645 ± 0.293
2.569GlyPhe: 2.569 ± 0.227
3.743GlyGly: 3.743 ± 0.447
1.101GlyHis: 1.101 ± 0.169
4.672GlyIle: 4.672 ± 0.37
5.113GlyLys: 5.113 ± 0.37
5.431GlyLeu: 5.431 ± 0.41
1.835GlyMet: 1.835 ± 0.221
4.183GlyAsn: 4.183 ± 0.418
0.66GlyPro: 0.66 ± 0.139
1.712GlyGln: 1.712 ± 0.182
1.688GlyArg: 1.688 ± 0.201
4.477GlySer: 4.477 ± 0.55
4.648GlyThr: 4.648 ± 0.56
4.599GlyVal: 4.599 ± 0.353
0.66GlyTrp: 0.66 ± 0.109
3.254GlyTyr: 3.254 ± 0.297
0.0GlyXaa: 0.0 ± 0.0
His
0.832HisAla: 0.832 ± 0.128
0.294HisCys: 0.294 ± 0.099
1.394HisAsp: 1.394 ± 0.188
0.832HisGlu: 0.832 ± 0.141
0.587HisPhe: 0.587 ± 0.121
0.807HisGly: 0.807 ± 0.153
0.416HisHis: 0.416 ± 0.098
1.003HisIle: 1.003 ± 0.144
1.468HisLys: 1.468 ± 0.234
1.199HisLeu: 1.199 ± 0.164
0.416HisMet: 0.416 ± 0.099
1.15HisAsn: 1.15 ± 0.147
0.587HisPro: 0.587 ± 0.115
0.367HisGln: 0.367 ± 0.086
0.587HisArg: 0.587 ± 0.112
0.954HisSer: 0.954 ± 0.15
0.881HisThr: 0.881 ± 0.163
0.881HisVal: 0.881 ± 0.151
0.122HisTrp: 0.122 ± 0.054
0.881HisTyr: 0.881 ± 0.156
0.0HisXaa: 0.0 ± 0.0
Ile
3.89IleAla: 3.89 ± 0.332
0.367IleCys: 0.367 ± 0.118
5.064IleAsp: 5.064 ± 0.337
3.669IleGlu: 3.669 ± 0.324
1.125IlePhe: 1.125 ± 0.146
4.012IleGly: 4.012 ± 0.313
0.856IleHis: 0.856 ± 0.139
3.963IleIle: 3.963 ± 0.325
6.14IleLys: 6.14 ± 0.431
3.89IleLeu: 3.89 ± 0.312
1.663IleMet: 1.663 ± 0.194
5.186IleAsn: 5.186 ± 0.402
2.397IlePro: 2.397 ± 0.254
1.908IleGln: 1.908 ± 0.208
2.52IleArg: 2.52 ± 0.245
5.822IleSer: 5.822 ± 0.42
4.697IleThr: 4.697 ± 0.353
4.501IleVal: 4.501 ± 0.377
0.367IleTrp: 0.367 ± 0.081
2.764IleTyr: 2.764 ± 0.266
0.0IleXaa: 0.0 ± 0.0
Lys
5.064LysAla: 5.064 ± 0.393
0.391LysCys: 0.391 ± 0.094
6.042LysAsp: 6.042 ± 0.433
5.406LysGlu: 5.406 ± 0.471
3.033LysPhe: 3.033 ± 0.315
4.966LysGly: 4.966 ± 0.399
1.737LysHis: 1.737 ± 0.229
4.11LysIle: 4.11 ± 0.38
5.113LysLys: 5.113 ± 0.425
8.268LysLeu: 8.268 ± 0.563
2.202LysMet: 2.202 ± 0.232
4.256LysAsn: 4.256 ± 0.369
2.544LysPro: 2.544 ± 0.331
3.718LysGln: 3.718 ± 0.333
3.229LysArg: 3.229 ± 0.259
5.333LysSer: 5.333 ± 0.533
4.159LysThr: 4.159 ± 0.289
5.602LysVal: 5.602 ± 0.385
0.881LysTrp: 0.881 ± 0.144
3.547LysTyr: 3.547 ± 0.349
0.0LysXaa: 0.0 ± 0.0
Leu
5.822LeuAla: 5.822 ± 0.396
0.318LeuCys: 0.318 ± 0.084
6.458LeuAsp: 6.458 ± 0.43
5.382LeuGlu: 5.382 ± 0.347
3.205LeuPhe: 3.205 ± 0.281
5.137LeuGly: 5.137 ± 0.361
1.345LeuHis: 1.345 ± 0.19
5.015LeuIle: 5.015 ± 0.439
6.287LeuLys: 6.287 ± 0.427
6.091LeuLeu: 6.091 ± 0.416
2.153LeuMet: 2.153 ± 0.256
6.018LeuAsn: 6.018 ± 0.295
2.251LeuPro: 2.251 ± 0.253
2.813LeuGln: 2.813 ± 0.247
2.593LeuArg: 2.593 ± 0.245
7.534LeuSer: 7.534 ± 0.426
5.944LeuThr: 5.944 ± 0.384
5.651LeuVal: 5.651 ± 0.397
0.807LeuTrp: 0.807 ± 0.156
3.694LeuTyr: 3.694 ± 0.326
0.0LeuXaa: 0.0 ± 0.0
Met
2.055MetAla: 2.055 ± 0.219
0.098MetCys: 0.098 ± 0.039
1.59MetAsp: 1.59 ± 0.217
1.443MetGlu: 1.443 ± 0.163
0.905MetPhe: 0.905 ± 0.16
1.101MetGly: 1.101 ± 0.181
0.294MetHis: 0.294 ± 0.074
1.37MetIle: 1.37 ± 0.161
2.055MetLys: 2.055 ± 0.195
2.251MetLeu: 2.251 ± 0.211
0.391MetMet: 0.391 ± 0.115
1.761MetAsn: 1.761 ± 0.194
0.636MetPro: 0.636 ± 0.112
1.101MetGln: 1.101 ± 0.16
0.832MetArg: 0.832 ± 0.143
1.859MetSer: 1.859 ± 0.211
1.492MetThr: 1.492 ± 0.18
1.419MetVal: 1.419 ± 0.19
0.147MetTrp: 0.147 ± 0.062
0.783MetTyr: 0.783 ± 0.133
0.0MetXaa: 0.0 ± 0.0
Asn
3.841AsnAla: 3.841 ± 0.371
0.342AsnCys: 0.342 ± 0.109
4.623AsnAsp: 4.623 ± 0.325
3.254AsnGlu: 3.254 ± 0.284
2.177AsnPhe: 2.177 ± 0.216
5.259AsnGly: 5.259 ± 0.449
1.517AsnHis: 1.517 ± 0.174
3.841AsnIle: 3.841 ± 0.285
5.92AsnLys: 5.92 ± 0.475
5.357AsnLeu: 5.357 ± 0.351
1.761AsnMet: 1.761 ± 0.25
4.599AsnAsn: 4.599 ± 0.372
2.471AsnPro: 2.471 ± 0.269
2.984AsnGln: 2.984 ± 0.281
2.544AsnArg: 2.544 ± 0.226
5.113AsnSer: 5.113 ± 0.503
4.721AsnThr: 4.721 ± 0.394
3.4AsnVal: 3.4 ± 0.281
0.734AsnTrp: 0.734 ± 0.133
3.718AsnTyr: 3.718 ± 0.309
0.0AsnXaa: 0.0 ± 0.0
Pro
1.663ProAla: 1.663 ± 0.199
0.196ProCys: 0.196 ± 0.075
2.055ProAsp: 2.055 ± 0.258
2.569ProGlu: 2.569 ± 0.321
1.027ProPhe: 1.027 ± 0.147
0.685ProGly: 0.685 ± 0.149
0.587ProHis: 0.587 ± 0.124
1.81ProIle: 1.81 ± 0.188
2.495ProLys: 2.495 ± 0.324
2.911ProLeu: 2.911 ± 0.227
0.342ProMet: 0.342 ± 0.08
2.177ProAsn: 2.177 ± 0.244
0.342ProPro: 0.342 ± 0.102
0.758ProGln: 0.758 ± 0.19
1.101ProArg: 1.101 ± 0.171
2.055ProSer: 2.055 ± 0.224
1.712ProThr: 1.712 ± 0.23
2.324ProVal: 2.324 ± 0.279
0.245ProTrp: 0.245 ± 0.08
1.835ProTyr: 1.835 ± 0.22
0.0ProXaa: 0.0 ± 0.0
Gln
3.229GlnAla: 3.229 ± 0.346
0.171GlnCys: 0.171 ± 0.066
2.03GlnAsp: 2.03 ± 0.22
2.348GlnGlu: 2.348 ± 0.226
1.272GlnPhe: 1.272 ± 0.18
2.348GlnGly: 2.348 ± 0.398
0.489GlnHis: 0.489 ± 0.089
2.128GlnIle: 2.128 ± 0.234
1.884GlnLys: 1.884 ± 0.215
3.645GlnLeu: 3.645 ± 0.282
0.66GlnMet: 0.66 ± 0.15
1.615GlnAsn: 1.615 ± 0.192
1.125GlnPro: 1.125 ± 0.23
1.761GlnGln: 1.761 ± 0.235
1.37GlnArg: 1.37 ± 0.187
2.887GlnSer: 2.887 ± 0.376
1.859GlnThr: 1.859 ± 0.229
2.593GlnVal: 2.593 ± 0.253
0.342GlnTrp: 0.342 ± 0.1
1.688GlnTyr: 1.688 ± 0.184
0.0GlnXaa: 0.0 ± 0.0
Arg
2.153ArgAla: 2.153 ± 0.219
0.147ArgCys: 0.147 ± 0.072
2.128ArgAsp: 2.128 ± 0.197
1.835ArgGlu: 1.835 ± 0.231
1.712ArgPhe: 1.712 ± 0.186
2.446ArgGly: 2.446 ± 0.328
0.367ArgHis: 0.367 ± 0.112
2.348ArgIle: 2.348 ± 0.227
2.838ArgLys: 2.838 ± 0.333
3.474ArgLeu: 3.474 ± 0.282
0.881ArgMet: 0.881 ± 0.129
1.835ArgAsn: 1.835 ± 0.215
1.003ArgPro: 1.003 ± 0.159
1.248ArgGln: 1.248 ± 0.159
1.394ArgArg: 1.394 ± 0.196
2.006ArgSer: 2.006 ± 0.241
2.055ArgThr: 2.055 ± 0.251
2.984ArgVal: 2.984 ± 0.27
0.44ArgTrp: 0.44 ± 0.103
1.639ArgTyr: 1.639 ± 0.224
0.0ArgXaa: 0.0 ± 0.0
Ser
4.281SerAla: 4.281 ± 0.351
0.269SerCys: 0.269 ± 0.081
6.434SerAsp: 6.434 ± 0.461
3.816SerGlu: 3.816 ± 0.315
2.397SerPhe: 2.397 ± 0.257
5.7SerGly: 5.7 ± 0.52
1.199SerHis: 1.199 ± 0.162
5.137SerIle: 5.137 ± 0.421
6.287SerLys: 6.287 ± 0.548
6.189SerLeu: 6.189 ± 0.44
1.81SerMet: 1.81 ± 0.186
5.259SerAsn: 5.259 ± 0.384
2.128SerPro: 2.128 ± 0.23
3.254SerGln: 3.254 ± 0.296
2.617SerArg: 2.617 ± 0.291
6.165SerSer: 6.165 ± 0.64
4.428SerThr: 4.428 ± 0.514
5.235SerVal: 5.235 ± 0.36
1.101SerTrp: 1.101 ± 0.173
3.474SerTyr: 3.474 ± 0.281
0.0SerXaa: 0.0 ± 0.0
Thr
3.816ThrAla: 3.816 ± 0.374
0.318ThrCys: 0.318 ± 0.088
4.648ThrAsp: 4.648 ± 0.334
2.887ThrGlu: 2.887 ± 0.287
2.348ThrPhe: 2.348 ± 0.255
4.844ThrGly: 4.844 ± 0.452
0.66ThrHis: 0.66 ± 0.119
4.623ThrIle: 4.623 ± 0.456
4.917ThrLys: 4.917 ± 0.359
5.333ThrLeu: 5.333 ± 0.421
1.027ThrMet: 1.027 ± 0.161
4.672ThrAsn: 4.672 ± 0.372
2.202ThrPro: 2.202 ± 0.268
2.006ThrGln: 2.006 ± 0.201
1.688ThrArg: 1.688 ± 0.202
4.966ThrSer: 4.966 ± 0.594
5.847ThrThr: 5.847 ± 1.21
5.431ThrVal: 5.431 ± 0.481
0.685ThrTrp: 0.685 ± 0.131
3.376ThrTyr: 3.376 ± 0.35
0.0ThrXaa: 0.0 ± 0.0
Val
4.305ValAla: 4.305 ± 0.305
0.416ValCys: 0.416 ± 0.108
5.333ValAsp: 5.333 ± 0.372
3.474ValGlu: 3.474 ± 0.306
2.324ValPhe: 2.324 ± 0.269
3.4ValGly: 3.4 ± 0.312
0.832ValHis: 0.832 ± 0.146
4.844ValIle: 4.844 ± 0.328
4.892ValLys: 4.892 ± 0.34
5.064ValLeu: 5.064 ± 0.358
1.248ValMet: 1.248 ± 0.206
4.99ValAsn: 4.99 ± 0.417
2.055ValPro: 2.055 ± 0.236
2.299ValGln: 2.299 ± 0.262
2.202ValArg: 2.202 ± 0.205
5.871ValSer: 5.871 ± 0.371
4.868ValThr: 4.868 ± 0.318
4.256ValVal: 4.256 ± 0.403
0.514ValTrp: 0.514 ± 0.122
3.572ValTyr: 3.572 ± 0.345
0.0ValXaa: 0.0 ± 0.0
Trp
0.416TrpAla: 0.416 ± 0.084
0.049TrpCys: 0.049 ± 0.033
0.563TrpAsp: 0.563 ± 0.127
0.612TrpGlu: 0.612 ± 0.129
0.465TrpPhe: 0.465 ± 0.091
0.685TrpGly: 0.685 ± 0.121
0.171TrpHis: 0.171 ± 0.07
0.66TrpIle: 0.66 ± 0.151
0.612TrpLys: 0.612 ± 0.125
1.027TrpLeu: 1.027 ± 0.172
0.269TrpMet: 0.269 ± 0.081
0.783TrpAsn: 0.783 ± 0.141
0.098TrpPro: 0.098 ± 0.054
0.318TrpGln: 0.318 ± 0.097
0.367TrpArg: 0.367 ± 0.083
0.856TrpSer: 0.856 ± 0.177
0.587TrpThr: 0.587 ± 0.133
0.856TrpVal: 0.856 ± 0.128
0.171TrpTrp: 0.171 ± 0.071
0.807TrpTyr: 0.807 ± 0.139
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.156TyrAla: 3.156 ± 0.233
0.416TyrCys: 0.416 ± 0.11
3.351TyrAsp: 3.351 ± 0.303
2.544TyrGlu: 2.544 ± 0.254
1.59TyrPhe: 1.59 ± 0.182
3.033TyrGly: 3.033 ± 0.283
0.978TyrHis: 0.978 ± 0.189
3.302TyrIle: 3.302 ± 0.274
3.449TyrLys: 3.449 ± 0.314
4.11TyrLeu: 4.11 ± 0.364
1.052TyrMet: 1.052 ± 0.149
3.498TyrAsn: 3.498 ± 0.31
1.737TyrPro: 1.737 ± 0.215
1.835TyrGln: 1.835 ± 0.241
2.299TyrArg: 2.299 ± 0.243
3.498TyrSer: 3.498 ± 0.406
2.862TyrThr: 2.862 ± 0.277
3.205TyrVal: 3.205 ± 0.233
0.636TyrTrp: 0.636 ± 0.125
2.813TyrTyr: 2.813 ± 0.267
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 172 proteins (40880 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