Amino acid dipepetide frequency for Vibrio phage phi 3

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
7.74AlaAla: 7.74 ± 1.344
0.912AlaCys: 0.912 ± 0.159
4.027AlaAsp: 4.027 ± 0.348
5.317AlaGlu: 5.317 ± 0.49
3.02AlaPhe: 3.02 ± 0.343
4.782AlaGly: 4.782 ± 0.519
0.912AlaHis: 0.912 ± 0.17
4.184AlaIle: 4.184 ± 0.329
6.418AlaLys: 6.418 ± 0.478
7.048AlaLeu: 7.048 ± 0.511
1.856AlaMet: 1.856 ± 0.225
3.744AlaAsn: 3.744 ± 0.505
2.611AlaPro: 2.611 ± 0.265
2.517AlaGln: 2.517 ± 0.314
3.65AlaArg: 3.65 ± 0.397
6.544AlaSer: 6.544 ± 0.811
4.436AlaThr: 4.436 ± 0.58
5.097AlaVal: 5.097 ± 0.324
1.101AlaTrp: 1.101 ± 0.182
3.178AlaTyr: 3.178 ± 0.313
0.0AlaXaa: 0.0 ± 0.0
Cys
0.629CysAla: 0.629 ± 0.144
0.063CysCys: 0.063 ± 0.045
0.724CysAsp: 0.724 ± 0.171
0.724CysGlu: 0.724 ± 0.148
0.566CysPhe: 0.566 ± 0.132
0.755CysGly: 0.755 ± 0.177
0.315CysHis: 0.315 ± 0.125
0.535CysIle: 0.535 ± 0.124
1.196CysLys: 1.196 ± 0.224
0.692CysLeu: 0.692 ± 0.153
0.157CysMet: 0.157 ± 0.068
0.378CysAsn: 0.378 ± 0.111
0.598CysPro: 0.598 ± 0.146
0.503CysGln: 0.503 ± 0.122
0.409CysArg: 0.409 ± 0.104
0.944CysSer: 0.944 ± 0.158
0.881CysThr: 0.881 ± 0.181
0.944CysVal: 0.944 ± 0.191
0.157CysTrp: 0.157 ± 0.068
0.409CysTyr: 0.409 ± 0.108
0.0CysXaa: 0.0 ± 0.0
Asp
5.286AspAla: 5.286 ± 0.422
0.44AspCys: 0.44 ± 0.117
2.234AspAsp: 2.234 ± 0.264
4.247AspGlu: 4.247 ± 0.396
3.398AspPhe: 3.398 ± 0.301
3.272AspGly: 3.272 ± 0.393
0.881AspHis: 0.881 ± 0.207
4.468AspIle: 4.468 ± 0.501
3.87AspLys: 3.87 ± 0.359
5.443AspLeu: 5.443 ± 0.455
1.258AspMet: 1.258 ± 0.212
2.36AspAsn: 2.36 ± 0.299
2.171AspPro: 2.171 ± 0.268
1.73AspGln: 1.73 ± 0.237
2.517AspArg: 2.517 ± 0.328
4.436AspSer: 4.436 ± 0.438
2.706AspThr: 2.706 ± 0.334
3.241AspVal: 3.241 ± 0.291
0.818AspTrp: 0.818 ± 0.152
2.58AspTyr: 2.58 ± 0.237
0.0AspXaa: 0.0 ± 0.0
Glu
6.387GluAla: 6.387 ± 0.587
0.755GluCys: 0.755 ± 0.183
4.688GluAsp: 4.688 ± 0.514
4.814GluGlu: 4.814 ± 0.574
2.769GluPhe: 2.769 ± 0.291
3.807GluGly: 3.807 ± 0.398
1.196GluHis: 1.196 ± 0.183
4.468GluIle: 4.468 ± 0.328
4.499GluLys: 4.499 ± 0.486
6.639GluLeu: 6.639 ± 0.449
1.73GluMet: 1.73 ± 0.264
3.272GluAsn: 3.272 ± 0.305
1.605GluPro: 1.605 ± 0.21
2.737GluGln: 2.737 ± 0.359
2.517GluArg: 2.517 ± 0.401
3.461GluSer: 3.461 ± 0.305
3.366GluThr: 3.366 ± 0.325
5.569GluVal: 5.569 ± 0.406
0.755GluTrp: 0.755 ± 0.221
3.272GluTyr: 3.272 ± 0.361
0.0GluXaa: 0.0 ± 0.0
Phe
2.423PheAla: 2.423 ± 0.363
0.692PheCys: 0.692 ± 0.154
2.706PheAsp: 2.706 ± 0.304
2.8PheGlu: 2.8 ± 0.34
1.51PhePhe: 1.51 ± 0.236
2.548PheGly: 2.548 ± 0.279
0.787PheHis: 0.787 ± 0.146
2.391PheIle: 2.391 ± 0.318
2.832PheLys: 2.832 ± 0.258
3.178PheLeu: 3.178 ± 0.346
0.912PheMet: 0.912 ± 0.166
2.643PheAsn: 2.643 ± 0.287
1.416PhePro: 1.416 ± 0.236
0.849PheGln: 0.849 ± 0.146
1.888PheArg: 1.888 ± 0.256
3.587PheSer: 3.587 ± 0.325
2.895PheThr: 2.895 ± 0.378
2.265PheVal: 2.265 ± 0.318
0.409PheTrp: 0.409 ± 0.12
1.699PheTyr: 1.699 ± 0.257
0.0PheXaa: 0.0 ± 0.0
Gly
4.405GlyAla: 4.405 ± 0.386
0.755GlyCys: 0.755 ± 0.191
3.461GlyAsp: 3.461 ± 0.363
3.996GlyGlu: 3.996 ± 0.357
2.611GlyPhe: 2.611 ± 0.217
3.807GlyGly: 3.807 ± 0.559
0.912GlyHis: 0.912 ± 0.185
3.87GlyIle: 3.87 ± 0.338
4.908GlyLys: 4.908 ± 0.364
5.978GlyLeu: 5.978 ± 0.438
1.321GlyMet: 1.321 ± 0.226
3.681GlyAsn: 3.681 ± 0.338
0.535GlyPro: 0.535 ± 0.137
2.171GlyGln: 2.171 ± 0.295
2.832GlyArg: 2.832 ± 0.343
5.537GlySer: 5.537 ± 0.795
4.94GlyThr: 4.94 ± 0.622
4.562GlyVal: 4.562 ± 0.469
0.818GlyTrp: 0.818 ± 0.148
2.486GlyTyr: 2.486 ± 0.338
0.0GlyXaa: 0.0 ± 0.0
His
0.912HisAla: 0.912 ± 0.189
0.346HisCys: 0.346 ± 0.101
1.007HisAsp: 1.007 ± 0.169
1.07HisGlu: 1.07 ± 0.16
0.755HisPhe: 0.755 ± 0.115
1.258HisGly: 1.258 ± 0.193
0.315HisHis: 0.315 ± 0.094
1.447HisIle: 1.447 ± 0.217
1.164HisLys: 1.164 ± 0.201
1.825HisLeu: 1.825 ± 0.287
0.566HisMet: 0.566 ± 0.152
0.787HisAsn: 0.787 ± 0.192
0.849HisPro: 0.849 ± 0.164
0.378HisGln: 0.378 ± 0.104
0.944HisArg: 0.944 ± 0.134
0.975HisSer: 0.975 ± 0.178
1.038HisThr: 1.038 ± 0.241
1.227HisVal: 1.227 ± 0.191
0.189HisTrp: 0.189 ± 0.075
0.849HisTyr: 0.849 ± 0.168
0.0HisXaa: 0.0 ± 0.0
Ile
4.499IleAla: 4.499 ± 0.409
0.535IleCys: 0.535 ± 0.13
4.373IleAsp: 4.373 ± 0.35
4.531IleGlu: 4.531 ± 0.47
1.605IlePhe: 1.605 ± 0.242
3.052IleGly: 3.052 ± 0.305
1.227IleHis: 1.227 ± 0.15
2.895IleIle: 2.895 ± 0.307
3.964IleLys: 3.964 ± 0.303
4.94IleLeu: 4.94 ± 0.386
1.164IleMet: 1.164 ± 0.199
3.398IleAsn: 3.398 ± 0.339
2.454IlePro: 2.454 ± 0.237
1.668IleGln: 1.668 ± 0.252
3.461IleArg: 3.461 ± 0.334
3.996IleSer: 3.996 ± 0.456
4.216IleThr: 4.216 ± 0.425
3.492IleVal: 3.492 ± 0.335
0.503IleTrp: 0.503 ± 0.148
2.108IleTyr: 2.108 ± 0.228
0.0IleXaa: 0.0 ± 0.0
Lys
5.852LysAla: 5.852 ± 0.629
0.409LysCys: 0.409 ± 0.141
3.65LysAsp: 3.65 ± 0.284
5.978LysGlu: 5.978 ± 0.612
2.36LysPhe: 2.36 ± 0.281
3.304LysGly: 3.304 ± 0.362
1.196LysHis: 1.196 ± 0.164
3.901LysIle: 3.901 ± 0.419
3.933LysLys: 3.933 ± 0.371
6.827LysLeu: 6.827 ± 0.487
1.919LysMet: 1.919 ± 0.298
3.398LysAsn: 3.398 ± 0.303
2.391LysPro: 2.391 ± 0.267
2.769LysGln: 2.769 ± 0.272
2.989LysArg: 2.989 ± 0.291
3.681LysSer: 3.681 ± 0.303
3.901LysThr: 3.901 ± 0.378
5.883LysVal: 5.883 ± 0.514
0.724LysTrp: 0.724 ± 0.15
3.115LysTyr: 3.115 ± 0.376
0.0LysXaa: 0.0 ± 0.0
Leu
6.953LeuAla: 6.953 ± 0.48
1.133LeuCys: 1.133 ± 0.181
6.072LeuAsp: 6.072 ± 0.446
7.425LeuGlu: 7.425 ± 0.539
2.769LeuPhe: 2.769 ± 0.288
6.45LeuGly: 6.45 ± 0.453
1.73LeuHis: 1.73 ± 0.258
4.562LeuIle: 4.562 ± 0.382
5.569LeuLys: 5.569 ± 0.593
7.929LeuLeu: 7.929 ± 0.522
1.888LeuMet: 1.888 ± 0.231
3.964LeuAsn: 3.964 ± 0.314
4.279LeuPro: 4.279 ± 0.426
2.863LeuGln: 2.863 ± 0.308
4.247LeuArg: 4.247 ± 0.388
5.506LeuSer: 5.506 ± 0.417
5.663LeuThr: 5.663 ± 0.446
7.362LeuVal: 7.362 ± 0.496
0.755LeuTrp: 0.755 ± 0.162
2.863LeuTyr: 2.863 ± 0.299
0.0LeuXaa: 0.0 ± 0.0
Met
1.888MetAla: 1.888 ± 0.297
0.22MetCys: 0.22 ± 0.089
1.007MetAsp: 1.007 ± 0.174
1.321MetGlu: 1.321 ± 0.194
0.724MetPhe: 0.724 ± 0.143
1.573MetGly: 1.573 ± 0.21
0.598MetHis: 0.598 ± 0.171
1.164MetIle: 1.164 ± 0.214
1.919MetLys: 1.919 ± 0.271
2.077MetLeu: 2.077 ± 0.256
0.378MetMet: 0.378 ± 0.123
1.321MetAsn: 1.321 ± 0.173
0.881MetPro: 0.881 ± 0.158
0.661MetGln: 0.661 ± 0.161
0.818MetArg: 0.818 ± 0.152
1.888MetSer: 1.888 ± 0.256
1.793MetThr: 1.793 ± 0.252
1.416MetVal: 1.416 ± 0.265
0.346MetTrp: 0.346 ± 0.109
1.227MetTyr: 1.227 ± 0.214
0.0MetXaa: 0.0 ± 0.0
Asn
3.65AsnAla: 3.65 ± 0.517
0.787AsnCys: 0.787 ± 0.154
1.73AsnAsp: 1.73 ± 0.243
2.769AsnGlu: 2.769 ± 0.307
1.888AsnPhe: 1.888 ± 0.294
3.178AsnGly: 3.178 ± 0.357
0.818AsnHis: 0.818 ± 0.164
3.366AsnIle: 3.366 ± 0.348
3.587AsnLys: 3.587 ± 0.431
4.719AsnLeu: 4.719 ± 0.384
1.416AsnMet: 1.416 ± 0.21
2.36AsnAsn: 2.36 ± 0.304
2.486AsnPro: 2.486 ± 0.252
1.605AsnGln: 1.605 ± 0.222
2.517AsnArg: 2.517 ± 0.341
3.933AsnSer: 3.933 ± 0.437
3.398AsnThr: 3.398 ± 0.39
2.706AsnVal: 2.706 ± 0.285
0.912AsnTrp: 0.912 ± 0.177
2.265AsnTyr: 2.265 ± 0.388
0.0AsnXaa: 0.0 ± 0.0
Pro
2.58ProAla: 2.58 ± 0.344
0.503ProCys: 0.503 ± 0.13
2.108ProAsp: 2.108 ± 0.247
2.486ProGlu: 2.486 ± 0.277
1.384ProPhe: 1.384 ± 0.203
1.856ProGly: 1.856 ± 0.234
0.818ProHis: 0.818 ± 0.18
2.297ProIle: 2.297 ± 0.243
2.171ProLys: 2.171 ± 0.298
2.957ProLeu: 2.957 ± 0.338
0.503ProMet: 0.503 ± 0.134
2.202ProAsn: 2.202 ± 0.232
1.258ProPro: 1.258 ± 0.228
0.724ProGln: 0.724 ± 0.14
1.353ProArg: 1.353 ± 0.241
2.643ProSer: 2.643 ± 0.326
2.454ProThr: 2.454 ± 0.359
3.713ProVal: 3.713 ± 0.306
0.378ProTrp: 0.378 ± 0.111
1.384ProTyr: 1.384 ± 0.214
0.0ProXaa: 0.0 ± 0.0
Gln
2.863GlnAla: 2.863 ± 0.328
0.503GlnCys: 0.503 ± 0.137
1.542GlnAsp: 1.542 ± 0.235
2.36GlnGlu: 2.36 ± 0.283
1.101GlnPhe: 1.101 ± 0.155
2.36GlnGly: 2.36 ± 0.277
0.598GlnHis: 0.598 ± 0.137
1.888GlnIle: 1.888 ± 0.268
1.951GlnLys: 1.951 ± 0.258
3.115GlnLeu: 3.115 ± 0.347
0.975GlnMet: 0.975 ± 0.17
1.227GlnAsn: 1.227 ± 0.193
1.164GlnPro: 1.164 ± 0.19
0.849GlnGln: 0.849 ± 0.175
1.321GlnArg: 1.321 ± 0.224
1.982GlnSer: 1.982 ± 0.272
1.762GlnThr: 1.762 ± 0.245
2.454GlnVal: 2.454 ± 0.267
0.566GlnTrp: 0.566 ± 0.144
1.258GlnTyr: 1.258 ± 0.223
0.0GlnXaa: 0.0 ± 0.0
Arg
3.65ArgAla: 3.65 ± 0.34
0.598ArgCys: 0.598 ± 0.15
2.611ArgAsp: 2.611 ± 0.273
2.8ArgGlu: 2.8 ± 0.296
2.423ArgPhe: 2.423 ± 0.223
2.957ArgGly: 2.957 ± 0.272
0.944ArgHis: 0.944 ± 0.168
2.895ArgIle: 2.895 ± 0.325
2.957ArgLys: 2.957 ± 0.344
4.31ArgLeu: 4.31 ± 0.482
1.321ArgMet: 1.321 ± 0.209
2.36ArgAsn: 2.36 ± 0.363
1.51ArgPro: 1.51 ± 0.25
1.668ArgGln: 1.668 ± 0.254
2.36ArgArg: 2.36 ± 0.327
2.423ArgSer: 2.423 ± 0.259
1.793ArgThr: 1.793 ± 0.217
3.335ArgVal: 3.335 ± 0.266
0.346ArgTrp: 0.346 ± 0.103
1.573ArgTyr: 1.573 ± 0.223
0.0ArgXaa: 0.0 ± 0.0
Ser
5.726SerAla: 5.726 ± 0.758
0.755SerCys: 0.755 ± 0.173
3.87SerAsp: 3.87 ± 0.362
3.713SerGlu: 3.713 ± 0.427
3.335SerPhe: 3.335 ± 0.331
6.387SerGly: 6.387 ± 0.775
1.29SerHis: 1.29 ± 0.19
3.587SerIle: 3.587 ± 0.42
5.065SerLys: 5.065 ± 0.441
6.292SerLeu: 6.292 ± 0.473
1.605SerMet: 1.605 ± 0.229
3.87SerAsn: 3.87 ± 0.433
2.423SerPro: 2.423 ± 0.32
2.014SerGln: 2.014 ± 0.251
2.58SerArg: 2.58 ± 0.22
5.821SerSer: 5.821 ± 0.674
4.279SerThr: 4.279 ± 0.475
5.034SerVal: 5.034 ± 0.421
0.849SerTrp: 0.849 ± 0.185
3.115SerTyr: 3.115 ± 0.358
0.0SerXaa: 0.0 ± 0.0
Thr
5.003ThrAla: 5.003 ± 0.689
0.566ThrCys: 0.566 ± 0.167
3.492ThrAsp: 3.492 ± 0.334
3.618ThrGlu: 3.618 ± 0.398
2.832ThrPhe: 2.832 ± 0.246
4.499ThrGly: 4.499 ± 0.552
1.227ThrHis: 1.227 ± 0.174
3.398ThrIle: 3.398 ± 0.374
4.279ThrLys: 4.279 ± 0.345
5.034ThrLeu: 5.034 ± 0.475
1.07ThrMet: 1.07 ± 0.199
3.304ThrAsn: 3.304 ± 0.338
2.832ThrPro: 2.832 ± 0.437
1.668ThrGln: 1.668 ± 0.216
2.423ThrArg: 2.423 ± 0.289
4.499ThrSer: 4.499 ± 0.511
3.807ThrThr: 3.807 ± 0.617
4.719ThrVal: 4.719 ± 0.452
0.724ThrTrp: 0.724 ± 0.182
2.957ThrTyr: 2.957 ± 0.327
0.0ThrXaa: 0.0 ± 0.0
Val
5.506ValAla: 5.506 ± 0.389
0.755ValCys: 0.755 ± 0.143
4.468ValAsp: 4.468 ± 0.4
4.877ValGlu: 4.877 ± 0.365
3.02ValPhe: 3.02 ± 0.287
4.814ValGly: 4.814 ± 0.4
0.755ValHis: 0.755 ± 0.173
3.87ValIle: 3.87 ± 0.371
4.436ValLys: 4.436 ± 0.379
5.789ValLeu: 5.789 ± 0.44
1.793ValMet: 1.793 ± 0.235
2.989ValAsn: 2.989 ± 0.32
2.454ValPro: 2.454 ± 0.346
2.454ValGln: 2.454 ± 0.274
3.429ValArg: 3.429 ± 0.334
5.758ValSer: 5.758 ± 0.462
5.254ValThr: 5.254 ± 0.457
5.506ValVal: 5.506 ± 0.48
1.038ValTrp: 1.038 ± 0.195
3.272ValTyr: 3.272 ± 0.299
0.0ValXaa: 0.0 ± 0.0
Trp
0.787TrpAla: 0.787 ± 0.177
0.157TrpCys: 0.157 ± 0.063
1.101TrpAsp: 1.101 ± 0.257
0.818TrpGlu: 0.818 ± 0.144
0.598TrpPhe: 0.598 ± 0.177
0.566TrpGly: 0.566 ± 0.129
0.409TrpHis: 0.409 ± 0.111
0.346TrpIle: 0.346 ± 0.105
0.692TrpLys: 0.692 ± 0.158
1.447TrpLeu: 1.447 ± 0.236
0.378TrpMet: 0.378 ± 0.136
0.724TrpAsn: 0.724 ± 0.161
0.22TrpPro: 0.22 ± 0.078
0.409TrpGln: 0.409 ± 0.12
0.378TrpArg: 0.378 ± 0.088
0.755TrpSer: 0.755 ± 0.198
0.724TrpThr: 0.724 ± 0.163
1.101TrpVal: 1.101 ± 0.18
0.189TrpTrp: 0.189 ± 0.064
0.44TrpTyr: 0.44 ± 0.131
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.36TyrAla: 2.36 ± 0.247
0.692TyrCys: 0.692 ± 0.148
2.486TyrAsp: 2.486 ± 0.248
2.643TyrGlu: 2.643 ± 0.28
1.762TyrPhe: 1.762 ± 0.252
2.36TyrGly: 2.36 ± 0.299
0.975TyrHis: 0.975 ± 0.188
2.548TyrIle: 2.548 ± 0.326
2.769TyrLys: 2.769 ± 0.327
3.744TyrLeu: 3.744 ± 0.366
0.975TyrMet: 0.975 ± 0.176
2.108TyrAsn: 2.108 ± 0.266
1.636TyrPro: 1.636 ± 0.271
1.605TyrGln: 1.605 ± 0.241
2.234TyrArg: 2.234 ± 0.278
3.241TyrSer: 3.241 ± 0.424
2.643TyrThr: 2.643 ± 0.35
2.611TyrVal: 2.611 ± 0.257
0.661TyrTrp: 0.661 ± 0.131
1.668TyrTyr: 1.668 ± 0.232
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 145 proteins (31785 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