Amino acid dipepetide frequency for Lactobacillus phage Nyseid

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
3.074AlaAla: 3.074 ± 0.805
0.213AlaCys: 0.213 ± 0.099
3.757AlaAsp: 3.757 ± 0.37
2.604AlaGlu: 2.604 ± 0.348
2.135AlaPhe: 2.135 ± 0.271
4.867AlaGly: 4.867 ± 0.786
0.811AlaHis: 0.811 ± 0.193
4.568AlaIle: 4.568 ± 0.468
5.55AlaLys: 5.55 ± 0.875
5.678AlaLeu: 5.678 ± 0.587
1.665AlaMet: 1.665 ± 0.296
3.33AlaAsn: 3.33 ± 0.37
1.537AlaPro: 1.537 ± 0.264
1.921AlaGln: 1.921 ± 0.309
1.921AlaArg: 1.921 ± 0.302
3.97AlaSer: 3.97 ± 0.844
3.629AlaThr: 3.629 ± 0.549
4.611AlaVal: 4.611 ± 0.546
0.982AlaTrp: 0.982 ± 0.194
2.775AlaTyr: 2.775 ± 0.376
0.0AlaXaa: 0.0 ± 0.0
Cys
0.427CysAla: 0.427 ± 0.157
0.043CysCys: 0.043 ± 0.047
0.256CysAsp: 0.256 ± 0.108
0.213CysGlu: 0.213 ± 0.091
0.427CysPhe: 0.427 ± 0.137
0.64CysGly: 0.64 ± 0.191
0.085CysHis: 0.085 ± 0.068
0.47CysIle: 0.47 ± 0.141
0.299CysLys: 0.299 ± 0.11
0.726CysLeu: 0.726 ± 0.198
0.128CysMet: 0.128 ± 0.071
0.598CysAsn: 0.598 ± 0.192
0.384CysPro: 0.384 ± 0.157
0.342CysGln: 0.342 ± 0.117
0.256CysArg: 0.256 ± 0.1
0.427CysSer: 0.427 ± 0.123
0.213CysThr: 0.213 ± 0.093
0.683CysVal: 0.683 ± 0.145
0.299CysTrp: 0.299 ± 0.123
0.64CysTyr: 0.64 ± 0.204
0.0CysXaa: 0.0 ± 0.0
Asp
3.97AspAla: 3.97 ± 0.373
0.555AspCys: 0.555 ± 0.158
6.19AspAsp: 6.19 ± 1.0
5.507AspGlu: 5.507 ± 0.617
3.159AspPhe: 3.159 ± 0.425
5.977AspGly: 5.977 ± 0.643
1.409AspHis: 1.409 ± 0.289
4.824AspIle: 4.824 ± 0.553
5.593AspLys: 5.593 ± 0.499
5.891AspLeu: 5.891 ± 0.639
2.177AspMet: 2.177 ± 0.309
4.013AspAsn: 4.013 ± 0.329
2.049AspPro: 2.049 ± 0.358
1.793AspGln: 1.793 ± 0.313
2.732AspArg: 2.732 ± 0.336
4.696AspSer: 4.696 ± 0.514
3.714AspThr: 3.714 ± 0.473
4.397AspVal: 4.397 ± 0.467
0.982AspTrp: 0.982 ± 0.189
3.629AspTyr: 3.629 ± 0.475
0.0AspXaa: 0.0 ± 0.0
Glu
2.86GluAla: 2.86 ± 0.39
0.897GluCys: 0.897 ± 0.2
4.013GluAsp: 4.013 ± 0.503
3.501GluGlu: 3.501 ± 0.48
2.263GluPhe: 2.263 ± 0.348
2.348GluGly: 2.348 ± 0.269
1.153GluHis: 1.153 ± 0.187
4.995GluIle: 4.995 ± 0.516
5.294GluLys: 5.294 ± 0.606
5.507GluLeu: 5.507 ± 0.469
2.561GluMet: 2.561 ± 0.345
3.842GluAsn: 3.842 ± 0.448
1.323GluPro: 1.323 ± 0.213
2.177GluGln: 2.177 ± 0.284
2.092GluArg: 2.092 ± 0.387
3.33GluSer: 3.33 ± 0.41
3.159GluThr: 3.159 ± 0.369
3.031GluVal: 3.031 ± 0.382
0.982GluTrp: 0.982 ± 0.239
3.031GluTyr: 3.031 ± 0.401
0.0GluXaa: 0.0 ± 0.0
Phe
2.092PheAla: 2.092 ± 0.295
0.555PheCys: 0.555 ± 0.15
3.415PheAsp: 3.415 ± 0.468
2.135PheGlu: 2.135 ± 0.371
1.793PhePhe: 1.793 ± 0.325
3.202PheGly: 3.202 ± 0.253
0.598PheHis: 0.598 ± 0.142
2.391PheIle: 2.391 ± 0.342
3.714PheLys: 3.714 ± 0.382
2.263PheLeu: 2.263 ± 0.384
0.939PheMet: 0.939 ± 0.204
2.348PheAsn: 2.348 ± 0.352
1.025PhePro: 1.025 ± 0.208
0.897PheGln: 0.897 ± 0.183
1.195PheArg: 1.195 ± 0.211
2.775PheSer: 2.775 ± 0.336
2.391PheThr: 2.391 ± 0.431
2.604PheVal: 2.604 ± 0.282
0.47PheTrp: 0.47 ± 0.12
1.964PheTyr: 1.964 ± 0.295
0.0PheXaa: 0.0 ± 0.0
Gly
4.269GlyAla: 4.269 ± 0.652
0.256GlyCys: 0.256 ± 0.112
4.824GlyAsp: 4.824 ± 0.41
3.885GlyGlu: 3.885 ± 0.481
2.903GlyPhe: 2.903 ± 0.271
4.781GlyGly: 4.781 ± 0.771
1.281GlyHis: 1.281 ± 0.245
4.952GlyIle: 4.952 ± 0.563
6.617GlyLys: 6.617 ± 0.908
6.148GlyLeu: 6.148 ± 0.474
2.177GlyMet: 2.177 ± 0.302
4.312GlyAsn: 4.312 ± 0.457
0.768GlyPro: 0.768 ± 0.255
2.006GlyGln: 2.006 ± 0.257
2.604GlyArg: 2.604 ± 0.35
5.166GlySer: 5.166 ± 0.662
4.867GlyThr: 4.867 ± 0.547
3.97GlyVal: 3.97 ± 0.427
1.281GlyTrp: 1.281 ± 0.239
3.586GlyTyr: 3.586 ± 0.325
0.0GlyXaa: 0.0 ± 0.0
His
0.64HisAla: 0.64 ± 0.156
0.085HisCys: 0.085 ± 0.06
1.452HisAsp: 1.452 ± 0.241
0.897HisGlu: 0.897 ± 0.186
0.854HisPhe: 0.854 ± 0.191
1.323HisGly: 1.323 ± 0.25
0.384HisHis: 0.384 ± 0.158
1.323HisIle: 1.323 ± 0.24
1.067HisLys: 1.067 ± 0.203
1.025HisLeu: 1.025 ± 0.19
0.384HisMet: 0.384 ± 0.113
1.281HisAsn: 1.281 ± 0.23
0.598HisPro: 0.598 ± 0.184
0.512HisGln: 0.512 ± 0.129
0.555HisArg: 0.555 ± 0.166
1.409HisSer: 1.409 ± 0.231
1.025HisThr: 1.025 ± 0.193
1.281HisVal: 1.281 ± 0.224
0.213HisTrp: 0.213 ± 0.108
0.982HisTyr: 0.982 ± 0.208
0.0HisXaa: 0.0 ± 0.0
Ile
4.483IleAla: 4.483 ± 0.48
0.427IleCys: 0.427 ± 0.115
6.019IleAsp: 6.019 ± 0.615
4.141IleGlu: 4.141 ± 0.44
2.049IlePhe: 2.049 ± 0.294
5.806IleGly: 5.806 ± 0.829
1.11IleHis: 1.11 ± 0.211
4.483IleIle: 4.483 ± 0.531
7.001IleLys: 7.001 ± 0.677
3.928IleLeu: 3.928 ± 0.431
2.006IleMet: 2.006 ± 0.353
5.977IleAsn: 5.977 ± 0.501
2.092IlePro: 2.092 ± 0.27
1.708IleGln: 1.708 ± 0.228
1.921IleArg: 1.921 ± 0.287
4.995IleSer: 4.995 ± 0.394
4.056IleThr: 4.056 ± 0.524
5.208IleVal: 5.208 ± 0.458
0.512IleTrp: 0.512 ± 0.165
2.732IleTyr: 2.732 ± 0.276
0.0IleXaa: 0.0 ± 0.0
Lys
4.098LysAla: 4.098 ± 0.655
0.555LysCys: 0.555 ± 0.186
5.849LysAsp: 5.849 ± 0.593
5.038LysGlu: 5.038 ± 0.455
2.903LysPhe: 2.903 ± 0.338
4.141LysGly: 4.141 ± 0.508
1.323LysHis: 1.323 ± 0.232
6.233LysIle: 6.233 ± 0.562
6.361LysLys: 6.361 ± 0.538
7.001LysLeu: 7.001 ± 0.658
2.647LysMet: 2.647 ± 0.369
6.361LysAsn: 6.361 ± 0.628
2.006LysPro: 2.006 ± 0.342
3.415LysGln: 3.415 ± 0.329
3.543LysArg: 3.543 ± 0.453
4.824LysSer: 4.824 ± 0.599
5.123LysThr: 5.123 ± 0.418
4.995LysVal: 4.995 ± 0.545
1.195LysTrp: 1.195 ± 0.37
4.184LysTyr: 4.184 ± 0.467
0.0LysXaa: 0.0 ± 0.0
Leu
5.123LeuAla: 5.123 ± 0.55
0.427LeuCys: 0.427 ± 0.142
5.635LeuAsp: 5.635 ± 0.537
5.464LeuGlu: 5.464 ± 0.539
2.903LeuPhe: 2.903 ± 0.328
4.995LeuGly: 4.995 ± 0.509
1.238LeuHis: 1.238 ± 0.226
5.166LeuIle: 5.166 ± 0.501
5.721LeuLys: 5.721 ± 0.489
5.891LeuLeu: 5.891 ± 0.509
1.921LeuMet: 1.921 ± 0.349
4.525LeuAsn: 4.525 ± 0.424
2.903LeuPro: 2.903 ± 0.255
2.391LeuGln: 2.391 ± 0.307
3.586LeuArg: 3.586 ± 0.402
6.66LeuSer: 6.66 ± 0.478
4.568LeuThr: 4.568 ± 0.428
4.995LeuVal: 4.995 ± 0.557
0.939LeuTrp: 0.939 ± 0.198
2.775LeuTyr: 2.775 ± 0.409
0.0LeuXaa: 0.0 ± 0.0
Met
1.58MetAla: 1.58 ± 0.295
0.299MetCys: 0.299 ± 0.113
1.11MetAsp: 1.11 ± 0.218
1.793MetGlu: 1.793 ± 0.276
1.067MetPhe: 1.067 ± 0.246
1.452MetGly: 1.452 ± 0.28
0.384MetHis: 0.384 ± 0.149
2.135MetIle: 2.135 ± 0.266
2.305MetLys: 2.305 ± 0.297
2.775MetLeu: 2.775 ± 0.373
0.683MetMet: 0.683 ± 0.167
1.708MetAsn: 1.708 ± 0.325
0.384MetPro: 0.384 ± 0.135
1.281MetGln: 1.281 ± 0.177
1.025MetArg: 1.025 ± 0.191
2.519MetSer: 2.519 ± 0.344
1.75MetThr: 1.75 ± 0.272
2.006MetVal: 2.006 ± 0.354
0.299MetTrp: 0.299 ± 0.096
0.811MetTyr: 0.811 ± 0.188
0.0MetXaa: 0.0 ± 0.0
Asn
4.098AsnAla: 4.098 ± 0.456
0.512AsnCys: 0.512 ± 0.145
4.056AsnAsp: 4.056 ± 0.405
3.842AsnGlu: 3.842 ± 0.407
2.604AsnPhe: 2.604 ± 0.304
5.891AsnGly: 5.891 ± 0.527
1.153AsnHis: 1.153 ± 0.249
4.525AsnIle: 4.525 ± 0.503
5.678AsnLys: 5.678 ± 0.54
3.757AsnLeu: 3.757 ± 0.356
2.092AsnMet: 2.092 ± 0.348
4.355AsnAsn: 4.355 ± 0.537
1.836AsnPro: 1.836 ± 0.285
2.177AsnGln: 2.177 ± 0.363
2.135AsnArg: 2.135 ± 0.324
3.714AsnSer: 3.714 ± 0.557
4.056AsnThr: 4.056 ± 0.435
4.312AsnVal: 4.312 ± 0.526
0.854AsnTrp: 0.854 ± 0.205
3.33AsnTyr: 3.33 ± 0.391
0.0AsnXaa: 0.0 ± 0.0
Pro
1.665ProAla: 1.665 ± 0.3
0.085ProCys: 0.085 ± 0.059
2.348ProAsp: 2.348 ± 0.276
2.092ProGlu: 2.092 ± 0.366
0.555ProPhe: 0.555 ± 0.152
1.153ProGly: 1.153 ± 0.19
0.47ProHis: 0.47 ± 0.135
2.135ProIle: 2.135 ± 0.335
1.75ProLys: 1.75 ± 0.266
1.494ProLeu: 1.494 ± 0.216
0.256ProMet: 0.256 ± 0.09
1.58ProAsn: 1.58 ± 0.251
0.384ProPro: 0.384 ± 0.171
1.025ProGln: 1.025 ± 0.208
0.768ProArg: 0.768 ± 0.211
2.135ProSer: 2.135 ± 0.262
1.878ProThr: 1.878 ± 0.262
2.433ProVal: 2.433 ± 0.283
0.299ProTrp: 0.299 ± 0.103
1.793ProTyr: 1.793 ± 0.261
0.0ProXaa: 0.0 ± 0.0
Gln
2.433GlnAla: 2.433 ± 0.412
0.299GlnCys: 0.299 ± 0.108
1.921GlnAsp: 1.921 ± 0.273
2.049GlnGlu: 2.049 ± 0.28
1.494GlnPhe: 1.494 ± 0.285
1.878GlnGly: 1.878 ± 0.353
0.726GlnHis: 0.726 ± 0.171
2.818GlnIle: 2.818 ± 0.321
2.049GlnLys: 2.049 ± 0.303
2.476GlnLeu: 2.476 ± 0.257
0.811GlnMet: 0.811 ± 0.162
1.665GlnAsn: 1.665 ± 0.326
0.854GlnPro: 0.854 ± 0.235
1.238GlnGln: 1.238 ± 0.191
1.153GlnArg: 1.153 ± 0.241
2.775GlnSer: 2.775 ± 0.338
2.604GlnThr: 2.604 ± 0.503
1.878GlnVal: 1.878 ± 0.267
0.213GlnTrp: 0.213 ± 0.079
1.921GlnTyr: 1.921 ± 0.259
0.0GlnXaa: 0.0 ± 0.0
Arg
1.964ArgAla: 1.964 ± 0.297
0.256ArgCys: 0.256 ± 0.098
2.647ArgAsp: 2.647 ± 0.412
1.964ArgGlu: 1.964 ± 0.377
1.622ArgPhe: 1.622 ± 0.222
2.22ArgGly: 2.22 ± 0.28
0.683ArgHis: 0.683 ± 0.177
2.22ArgIle: 2.22 ± 0.375
3.116ArgLys: 3.116 ± 0.322
2.561ArgLeu: 2.561 ± 0.322
0.939ArgMet: 0.939 ± 0.188
1.793ArgAsn: 1.793 ± 0.272
1.067ArgPro: 1.067 ± 0.256
0.939ArgGln: 0.939 ± 0.167
1.195ArgArg: 1.195 ± 0.224
2.561ArgSer: 2.561 ± 0.36
2.006ArgThr: 2.006 ± 0.314
2.092ArgVal: 2.092 ± 0.306
0.384ArgTrp: 0.384 ± 0.108
1.964ArgTyr: 1.964 ± 0.381
0.0ArgXaa: 0.0 ± 0.0
Ser
4.867SerAla: 4.867 ± 0.735
0.384SerCys: 0.384 ± 0.125
5.763SerAsp: 5.763 ± 0.556
4.269SerGlu: 4.269 ± 0.476
2.69SerPhe: 2.69 ± 0.332
5.849SerGly: 5.849 ± 0.868
1.409SerHis: 1.409 ± 0.231
4.44SerIle: 4.44 ± 0.401
5.593SerLys: 5.593 ± 0.501
5.294SerLeu: 5.294 ± 0.373
1.665SerMet: 1.665 ± 0.237
4.867SerAsn: 4.867 ± 0.436
1.836SerPro: 1.836 ± 0.224
2.903SerGln: 2.903 ± 0.533
2.049SerArg: 2.049 ± 0.264
5.763SerSer: 5.763 ± 0.516
3.586SerThr: 3.586 ± 0.521
4.909SerVal: 4.909 ± 0.434
1.067SerTrp: 1.067 ± 0.191
3.415SerTyr: 3.415 ± 0.438
0.0SerXaa: 0.0 ± 0.0
Thr
4.525ThrAla: 4.525 ± 0.626
0.299ThrCys: 0.299 ± 0.101
4.483ThrAsp: 4.483 ± 0.474
3.074ThrGlu: 3.074 ± 0.327
2.263ThrPhe: 2.263 ± 0.414
4.269ThrGly: 4.269 ± 0.55
1.11ThrHis: 1.11 ± 0.224
4.867ThrIle: 4.867 ± 0.496
4.312ThrLys: 4.312 ± 0.351
4.867ThrLeu: 4.867 ± 0.447
1.025ThrMet: 1.025 ± 0.184
3.415ThrAsn: 3.415 ± 0.396
2.006ThrPro: 2.006 ± 0.309
1.964ThrGln: 1.964 ± 0.28
1.366ThrArg: 1.366 ± 0.249
4.952ThrSer: 4.952 ± 0.666
3.757ThrThr: 3.757 ± 0.461
4.44ThrVal: 4.44 ± 0.594
0.256ThrTrp: 0.256 ± 0.091
2.818ThrTyr: 2.818 ± 0.363
0.0ThrXaa: 0.0 ± 0.0
Val
4.098ValAla: 4.098 ± 0.494
0.64ValCys: 0.64 ± 0.174
4.312ValAsp: 4.312 ± 0.504
3.33ValGlu: 3.33 ± 0.38
2.69ValPhe: 2.69 ± 0.355
5.08ValGly: 5.08 ± 0.52
1.025ValHis: 1.025 ± 0.208
4.44ValIle: 4.44 ± 0.464
5.55ValLys: 5.55 ± 0.429
5.721ValLeu: 5.721 ± 0.601
1.622ValMet: 1.622 ± 0.24
4.867ValAsn: 4.867 ± 0.455
1.793ValPro: 1.793 ± 0.269
1.836ValGln: 1.836 ± 0.315
1.878ValArg: 1.878 ± 0.327
5.379ValSer: 5.379 ± 0.419
4.141ValThr: 4.141 ± 0.485
3.8ValVal: 3.8 ± 0.468
0.768ValTrp: 0.768 ± 0.194
2.263ValTyr: 2.263 ± 0.306
0.0ValXaa: 0.0 ± 0.0
Trp
0.768TrpAla: 0.768 ± 0.164
0.171TrpCys: 0.171 ± 0.095
1.025TrpAsp: 1.025 ± 0.197
0.64TrpGlu: 0.64 ± 0.137
0.982TrpPhe: 0.982 ± 0.231
0.897TrpGly: 0.897 ± 0.2
0.128TrpHis: 0.128 ± 0.072
0.768TrpIle: 0.768 ± 0.17
0.64TrpLys: 0.64 ± 0.185
0.982TrpLeu: 0.982 ± 0.259
0.299TrpMet: 0.299 ± 0.115
0.683TrpAsn: 0.683 ± 0.138
0.171TrpPro: 0.171 ± 0.077
0.598TrpGln: 0.598 ± 0.145
0.683TrpArg: 0.683 ± 0.14
1.281TrpSer: 1.281 ± 0.198
0.64TrpThr: 0.64 ± 0.153
0.683TrpVal: 0.683 ± 0.18
0.342TrpTrp: 0.342 ± 0.12
0.512TrpTyr: 0.512 ± 0.151
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.561TyrAla: 2.561 ± 0.334
0.598TyrCys: 0.598 ± 0.182
4.184TyrAsp: 4.184 ± 0.519
1.921TyrGlu: 1.921 ± 0.361
1.409TyrPhe: 1.409 ± 0.266
3.885TyrGly: 3.885 ± 0.453
0.811TyrHis: 0.811 ± 0.2
2.903TyrIle: 2.903 ± 0.374
3.586TyrLys: 3.586 ± 0.45
3.842TyrLeu: 3.842 ± 0.439
1.323TyrMet: 1.323 ± 0.214
3.501TyrAsn: 3.501 ± 0.365
1.281TyrPro: 1.281 ± 0.234
2.135TyrGln: 2.135 ± 0.37
1.537TyrArg: 1.537 ± 0.273
3.287TyrSer: 3.287 ± 0.386
2.903TyrThr: 2.903 ± 0.34
2.903TyrVal: 2.903 ± 0.402
0.555TyrTrp: 0.555 ± 0.137
2.22TyrTyr: 2.22 ± 0.324
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 125 proteins (23425 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