Amino acid dipepetide frequency for Gordonia phage Geodirt

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
16.768AlaAla: 16.768 ± 1.366
0.69AlaCys: 0.69 ± 0.179
7.8AlaAsp: 7.8 ± 0.736
9.339AlaGlu: 9.339 ± 1.035
3.237AlaPhe: 3.237 ± 0.561
11.037AlaGly: 11.037 ± 1.116
1.645AlaHis: 1.645 ± 0.247
7.27AlaIle: 7.27 ± 0.938
3.502AlaLys: 3.502 ± 0.496
9.286AlaLeu: 9.286 ± 0.998
2.388AlaMet: 2.388 ± 0.375
2.865AlaAsn: 2.865 ± 0.486
6.262AlaPro: 6.262 ± 0.707
4.829AlaGln: 4.829 ± 0.527
8.862AlaArg: 8.862 ± 0.894
5.784AlaSer: 5.784 ± 0.722
8.119AlaThr: 8.119 ± 0.736
8.331AlaVal: 8.331 ± 0.808
2.6AlaTrp: 2.6 ± 0.406
2.176AlaTyr: 2.176 ± 0.35
0.0AlaXaa: 0.0 ± 0.0
Cys
1.008CysAla: 1.008 ± 0.298
0.053CysCys: 0.053 ± 0.055
0.584CysAsp: 0.584 ± 0.225
0.371CysGlu: 0.371 ± 0.125
0.106CysPhe: 0.106 ± 0.064
1.061CysGly: 1.061 ± 0.297
0.478CysHis: 0.478 ± 0.179
0.106CysIle: 0.106 ± 0.08
0.106CysLys: 0.106 ± 0.073
0.212CysLeu: 0.212 ± 0.12
0.053CysMet: 0.053 ± 0.05
0.053CysAsn: 0.053 ± 0.051
0.743CysPro: 0.743 ± 0.196
0.212CysGln: 0.212 ± 0.094
0.584CysArg: 0.584 ± 0.263
0.425CysSer: 0.425 ± 0.144
0.425CysThr: 0.425 ± 0.162
0.531CysVal: 0.531 ± 0.199
0.053CysTrp: 0.053 ± 0.057
0.0CysTyr: 0.0 ± 0.0
0.0CysXaa: 0.0 ± 0.0
Asp
8.384AspAla: 8.384 ± 0.693
0.212AspCys: 0.212 ± 0.118
7.005AspAsp: 7.005 ± 0.887
5.731AspGlu: 5.731 ± 0.85
1.22AspPhe: 1.22 ± 0.286
6.633AspGly: 6.633 ± 0.703
1.645AspHis: 1.645 ± 0.31
1.804AspIle: 1.804 ± 0.289
1.857AspLys: 1.857 ± 0.287
4.935AspLeu: 4.935 ± 0.559
1.804AspMet: 1.804 ± 0.29
2.123AspAsn: 2.123 ± 0.4
7.217AspPro: 7.217 ± 0.889
2.706AspGln: 2.706 ± 0.573
5.36AspArg: 5.36 ± 0.599
2.388AspSer: 2.388 ± 0.288
3.715AspThr: 3.715 ± 0.44
5.731AspVal: 5.731 ± 0.595
1.751AspTrp: 1.751 ± 0.339
1.698AspTyr: 1.698 ± 0.343
0.0AspXaa: 0.0 ± 0.0
Glu
5.678GluAla: 5.678 ± 0.6
0.637GluCys: 0.637 ± 0.208
2.972GluAsp: 2.972 ± 0.472
1.433GluGlu: 1.433 ± 0.276
1.963GluPhe: 1.963 ± 0.351
3.874GluGly: 3.874 ± 0.61
2.282GluHis: 2.282 ± 0.414
2.282GluIle: 2.282 ± 0.339
1.274GluLys: 1.274 ± 0.299
4.882GluLeu: 4.882 ± 0.799
1.061GluMet: 1.061 ± 0.258
1.486GluAsn: 1.486 ± 0.256
3.396GluPro: 3.396 ± 0.611
4.086GluGln: 4.086 ± 0.476
4.298GluArg: 4.298 ± 0.672
3.078GluSer: 3.078 ± 0.5
2.919GluThr: 2.919 ± 0.455
5.094GluVal: 5.094 ± 0.441
1.804GluTrp: 1.804 ± 0.359
1.698GluTyr: 1.698 ± 0.338
0.0GluXaa: 0.0 ± 0.0
Phe
3.449PheAla: 3.449 ± 0.427
0.371PheCys: 0.371 ± 0.158
2.706PheAsp: 2.706 ± 0.458
1.539PheGlu: 1.539 ± 0.364
0.425PhePhe: 0.425 ± 0.21
2.653PheGly: 2.653 ± 0.269
0.371PheHis: 0.371 ± 0.139
1.167PheIle: 1.167 ± 0.226
0.637PheLys: 0.637 ± 0.169
1.592PheLeu: 1.592 ± 0.305
0.584PheMet: 0.584 ± 0.197
0.849PheAsn: 0.849 ± 0.215
0.955PhePro: 0.955 ± 0.212
0.478PheGln: 0.478 ± 0.162
1.167PheArg: 1.167 ± 0.245
1.114PheSer: 1.114 ± 0.251
1.804PheThr: 1.804 ± 0.313
2.388PheVal: 2.388 ± 0.305
0.318PheTrp: 0.318 ± 0.122
0.212PheTyr: 0.212 ± 0.106
0.0PheXaa: 0.0 ± 0.0
Gly
9.605GlyAla: 9.605 ± 0.976
0.425GlyCys: 0.425 ± 0.165
6.049GlyAsp: 6.049 ± 0.705
4.723GlyGlu: 4.723 ± 0.632
1.804GlyPhe: 1.804 ± 0.314
7.588GlyGly: 7.588 ± 1.009
2.176GlyHis: 2.176 ± 0.34
3.98GlyIle: 3.98 ± 0.423
3.343GlyLys: 3.343 ± 0.51
5.731GlyLeu: 5.731 ± 0.794
1.804GlyMet: 1.804 ± 0.289
2.812GlyAsn: 2.812 ± 0.455
3.927GlyPro: 3.927 ± 0.511
3.821GlyGln: 3.821 ± 0.443
5.837GlyArg: 5.837 ± 0.53
5.413GlySer: 5.413 ± 0.756
5.731GlyThr: 5.731 ± 0.854
7.005GlyVal: 7.005 ± 0.732
1.38GlyTrp: 1.38 ± 0.261
1.645GlyTyr: 1.645 ± 0.353
0.0GlyXaa: 0.0 ± 0.0
His
1.857HisAla: 1.857 ± 0.349
0.106HisCys: 0.106 ± 0.074
2.176HisAsp: 2.176 ± 0.358
1.539HisGlu: 1.539 ± 0.337
0.318HisPhe: 0.318 ± 0.115
1.645HisGly: 1.645 ± 0.28
0.531HisHis: 0.531 ± 0.178
0.955HisIle: 0.955 ± 0.259
0.425HisLys: 0.425 ± 0.137
1.751HisLeu: 1.751 ± 0.334
0.371HisMet: 0.371 ± 0.146
0.425HisAsn: 0.425 ± 0.152
1.061HisPro: 1.061 ± 0.221
0.743HisGln: 0.743 ± 0.171
1.539HisArg: 1.539 ± 0.288
0.849HisSer: 0.849 ± 0.209
1.91HisThr: 1.91 ± 0.353
1.857HisVal: 1.857 ± 0.311
0.318HisTrp: 0.318 ± 0.124
0.478HisTyr: 0.478 ± 0.17
0.0HisXaa: 0.0 ± 0.0
Ile
6.58IleAla: 6.58 ± 0.478
0.265IleCys: 0.265 ± 0.121
4.139IleAsp: 4.139 ± 0.502
3.874IleGlu: 3.874 ± 0.429
0.425IlePhe: 0.425 ± 0.193
4.829IleGly: 4.829 ± 0.938
0.743IleHis: 0.743 ± 0.202
2.441IleIle: 2.441 ± 0.449
0.955IleLys: 0.955 ± 0.373
2.388IleLeu: 2.388 ± 0.333
0.637IleMet: 0.637 ± 0.181
0.955IleAsn: 0.955 ± 0.251
3.078IlePro: 3.078 ± 0.377
1.274IleGln: 1.274 ± 0.306
2.653IleArg: 2.653 ± 0.365
1.804IleSer: 1.804 ± 0.394
3.608IleThr: 3.608 ± 0.476
3.237IleVal: 3.237 ± 0.415
0.637IleTrp: 0.637 ± 0.19
1.008IleTyr: 1.008 ± 0.182
0.0IleXaa: 0.0 ± 0.0
Lys
2.653LysAla: 2.653 ± 0.354
0.106LysCys: 0.106 ± 0.077
1.008LysAsp: 1.008 ± 0.229
0.531LysGlu: 0.531 ± 0.161
1.008LysPhe: 1.008 ± 0.281
1.698LysGly: 1.698 ± 0.395
0.743LysHis: 0.743 ± 0.171
1.433LysIle: 1.433 ± 0.227
0.584LysLys: 0.584 ± 0.174
2.176LysLeu: 2.176 ± 0.379
0.584LysMet: 0.584 ± 0.183
0.743LysAsn: 0.743 ± 0.237
2.07LysPro: 2.07 ± 0.348
0.955LysGln: 0.955 ± 0.23
2.441LysArg: 2.441 ± 0.43
2.016LysSer: 2.016 ± 0.367
1.804LysThr: 1.804 ± 0.318
2.07LysVal: 2.07 ± 0.394
0.425LysTrp: 0.425 ± 0.156
0.796LysTyr: 0.796 ± 0.238
0.0LysXaa: 0.0 ± 0.0
Leu
8.862LeuAla: 8.862 ± 0.807
0.531LeuCys: 0.531 ± 0.196
6.102LeuAsp: 6.102 ± 0.746
2.759LeuGlu: 2.759 ± 0.413
2.335LeuPhe: 2.335 ± 0.402
6.845LeuGly: 6.845 ± 1.083
1.592LeuHis: 1.592 ± 0.296
3.449LeuIle: 3.449 ± 0.443
1.22LeuLys: 1.22 ± 0.25
5.678LeuLeu: 5.678 ± 0.642
1.486LeuMet: 1.486 ± 0.264
2.229LeuAsn: 2.229 ± 0.319
5.041LeuPro: 5.041 ± 0.61
2.812LeuGln: 2.812 ± 0.379
6.474LeuArg: 6.474 ± 0.621
3.661LeuSer: 3.661 ± 0.421
5.36LeuThr: 5.36 ± 0.53
5.625LeuVal: 5.625 ± 0.548
1.963LeuTrp: 1.963 ± 0.315
1.751LeuTyr: 1.751 ± 0.324
0.0LeuXaa: 0.0 ± 0.0
Met
2.176MetAla: 2.176 ± 0.354
0.106MetCys: 0.106 ± 0.077
0.955MetAsp: 0.955 ± 0.193
0.955MetGlu: 0.955 ± 0.265
0.584MetPhe: 0.584 ± 0.211
0.955MetGly: 0.955 ± 0.257
0.159MetHis: 0.159 ± 0.091
0.69MetIle: 0.69 ± 0.152
0.637MetLys: 0.637 ± 0.204
2.016MetLeu: 2.016 ± 0.372
0.318MetMet: 0.318 ± 0.132
0.478MetAsn: 0.478 ± 0.197
1.91MetPro: 1.91 ± 0.279
0.955MetGln: 0.955 ± 0.292
1.486MetArg: 1.486 ± 0.308
1.38MetSer: 1.38 ± 0.234
3.396MetThr: 3.396 ± 0.414
1.274MetVal: 1.274 ± 0.293
0.478MetTrp: 0.478 ± 0.147
0.159MetTyr: 0.159 ± 0.095
0.0MetXaa: 0.0 ± 0.0
Asn
3.502AsnAla: 3.502 ± 0.558
0.265AsnCys: 0.265 ± 0.12
2.016AsnAsp: 2.016 ± 0.307
1.433AsnGlu: 1.433 ± 0.322
0.584AsnPhe: 0.584 ± 0.154
2.972AsnGly: 2.972 ± 0.372
0.478AsnHis: 0.478 ± 0.165
1.008AsnIle: 1.008 ± 0.225
0.425AsnLys: 0.425 ± 0.159
2.123AsnLeu: 2.123 ± 0.332
0.69AsnMet: 0.69 ± 0.176
0.743AsnAsn: 0.743 ± 0.181
2.282AsnPro: 2.282 ± 0.377
0.849AsnGln: 0.849 ± 0.278
1.539AsnArg: 1.539 ± 0.311
1.167AsnSer: 1.167 ± 0.262
1.592AsnThr: 1.592 ± 0.291
1.857AsnVal: 1.857 ± 0.343
0.743AsnTrp: 0.743 ± 0.229
0.69AsnTyr: 0.69 ± 0.16
0.0AsnXaa: 0.0 ± 0.0
Pro
8.437ProAla: 8.437 ± 0.803
0.212ProCys: 0.212 ± 0.128
5.2ProAsp: 5.2 ± 0.749
3.608ProGlu: 3.608 ± 0.547
1.804ProPhe: 1.804 ± 0.308
5.2ProGly: 5.2 ± 0.475
0.849ProHis: 0.849 ± 0.196
3.396ProIle: 3.396 ± 0.436
1.698ProLys: 1.698 ± 0.356
3.874ProLeu: 3.874 ± 0.452
1.592ProMet: 1.592 ± 0.256
2.176ProAsn: 2.176 ± 0.338
4.617ProPro: 4.617 ± 0.667
2.176ProGln: 2.176 ± 0.342
3.343ProArg: 3.343 ± 0.511
3.555ProSer: 3.555 ± 0.469
4.457ProThr: 4.457 ± 0.63
4.617ProVal: 4.617 ± 0.593
1.061ProTrp: 1.061 ± 0.246
1.22ProTyr: 1.22 ± 0.227
0.0ProXaa: 0.0 ± 0.0
Gln
5.2GlnAla: 5.2 ± 0.495
0.318GlnCys: 0.318 ± 0.13
1.327GlnAsp: 1.327 ± 0.312
0.955GlnGlu: 0.955 ± 0.206
1.114GlnPhe: 1.114 ± 0.212
2.07GlnGly: 2.07 ± 0.315
1.061GlnHis: 1.061 ± 0.253
2.07GlnIle: 2.07 ± 0.329
1.008GlnLys: 1.008 ± 0.226
3.927GlnLeu: 3.927 ± 0.457
0.955GlnMet: 0.955 ± 0.237
0.902GlnAsn: 0.902 ± 0.234
2.6GlnPro: 2.6 ± 0.299
2.547GlnGln: 2.547 ± 0.415
3.768GlnArg: 3.768 ± 0.577
1.857GlnSer: 1.857 ± 0.33
2.441GlnThr: 2.441 ± 0.354
2.759GlnVal: 2.759 ± 0.411
0.955GlnTrp: 0.955 ± 0.223
0.743GlnTyr: 0.743 ± 0.177
0.0GlnXaa: 0.0 ± 0.0
Arg
9.976ArgAla: 9.976 ± 0.839
0.584ArgCys: 0.584 ± 0.198
4.829ArgAsp: 4.829 ± 0.526
3.821ArgGlu: 3.821 ± 0.54
2.282ArgPhe: 2.282 ± 0.411
4.67ArgGly: 4.67 ± 0.557
1.433ArgHis: 1.433 ± 0.326
3.555ArgIle: 3.555 ± 0.535
2.07ArgLys: 2.07 ± 0.423
5.36ArgLeu: 5.36 ± 0.533
2.123ArgMet: 2.123 ± 0.315
2.016ArgAsn: 2.016 ± 0.363
3.555ArgPro: 3.555 ± 0.502
2.6ArgGln: 2.6 ± 0.412
8.543ArgArg: 8.543 ± 1.28
3.237ArgSer: 3.237 ± 0.386
4.033ArgThr: 4.033 ± 0.515
5.413ArgVal: 5.413 ± 0.801
1.698ArgTrp: 1.698 ± 0.368
1.857ArgTyr: 1.857 ± 0.308
0.0ArgXaa: 0.0 ± 0.0
Ser
5.041SerAla: 5.041 ± 0.689
0.531SerCys: 0.531 ± 0.17
3.821SerAsp: 3.821 ± 0.521
2.812SerGlu: 2.812 ± 0.468
0.955SerPhe: 0.955 ± 0.261
5.572SerGly: 5.572 ± 0.864
0.902SerHis: 0.902 ± 0.217
1.963SerIle: 1.963 ± 0.379
1.274SerLys: 1.274 ± 0.243
3.715SerLeu: 3.715 ± 0.483
1.114SerMet: 1.114 ± 0.296
0.955SerAsn: 0.955 ± 0.213
3.025SerPro: 3.025 ± 0.44
1.327SerGln: 1.327 ± 0.285
3.768SerArg: 3.768 ± 0.518
3.025SerSer: 3.025 ± 0.502
4.457SerThr: 4.457 ± 0.517
4.192SerVal: 4.192 ± 0.4
1.114SerTrp: 1.114 ± 0.239
1.167SerTyr: 1.167 ± 0.24
0.0SerXaa: 0.0 ± 0.0
Thr
10.454ThrAla: 10.454 ± 0.867
0.796ThrCys: 0.796 ± 0.247
5.2ThrAsp: 5.2 ± 0.535
3.078ThrGlu: 3.078 ± 0.46
1.38ThrPhe: 1.38 ± 0.313
5.837ThrGly: 5.837 ± 0.633
1.22ThrHis: 1.22 ± 0.315
3.078ThrIle: 3.078 ± 0.405
2.016ThrLys: 2.016 ± 0.314
6.049ThrLeu: 6.049 ± 0.578
1.061ThrMet: 1.061 ± 0.204
1.751ThrAsn: 1.751 ± 0.314
5.094ThrPro: 5.094 ± 0.446
1.539ThrGln: 1.539 ± 0.231
3.874ThrArg: 3.874 ± 0.39
3.927ThrSer: 3.927 ± 0.461
4.457ThrThr: 4.457 ± 0.609
4.723ThrVal: 4.723 ± 0.717
1.167ThrTrp: 1.167 ± 0.263
1.592ThrTyr: 1.592 ± 0.353
0.0ThrXaa: 0.0 ± 0.0
Val
8.437ValAla: 8.437 ± 0.773
0.531ValCys: 0.531 ± 0.179
7.323ValAsp: 7.323 ± 0.669
4.935ValGlu: 4.935 ± 0.645
1.751ValPhe: 1.751 ± 0.319
6.633ValGly: 6.633 ± 0.631
1.698ValHis: 1.698 ± 0.329
3.131ValIle: 3.131 ± 0.369
1.698ValLys: 1.698 ± 0.29
5.996ValLeu: 5.996 ± 0.599
1.167ValMet: 1.167 ± 0.195
2.441ValAsn: 2.441 ± 0.386
3.768ValPro: 3.768 ± 0.469
3.025ValGln: 3.025 ± 0.327
4.351ValArg: 4.351 ± 0.485
3.874ValSer: 3.874 ± 0.562
5.784ValThr: 5.784 ± 0.681
6.262ValVal: 6.262 ± 0.766
2.016ValTrp: 2.016 ± 0.317
2.07ValTyr: 2.07 ± 0.384
0.0ValXaa: 0.0 ± 0.0
Trp
2.016TrpAla: 2.016 ± 0.331
0.265TrpCys: 0.265 ± 0.113
1.008TrpAsp: 1.008 ± 0.22
1.114TrpGlu: 1.114 ± 0.218
0.743TrpPhe: 0.743 ± 0.212
1.167TrpGly: 1.167 ± 0.289
0.425TrpHis: 0.425 ± 0.159
0.902TrpIle: 0.902 ± 0.236
0.743TrpLys: 0.743 ± 0.238
2.388TrpLeu: 2.388 ± 0.371
0.796TrpMet: 0.796 ± 0.196
0.69TrpAsn: 0.69 ± 0.215
1.167TrpPro: 1.167 ± 0.234
1.061TrpGln: 1.061 ± 0.175
1.804TrpArg: 1.804 ± 0.39
1.327TrpSer: 1.327 ± 0.266
1.167TrpThr: 1.167 ± 0.282
1.751TrpVal: 1.751 ± 0.279
0.318TrpTrp: 0.318 ± 0.164
0.425TrpTyr: 0.425 ± 0.133
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.706TyrAla: 2.706 ± 0.447
0.159TyrCys: 0.159 ± 0.09
1.698TyrAsp: 1.698 ± 0.308
1.645TyrGlu: 1.645 ± 0.354
0.743TyrPhe: 0.743 ± 0.19
1.857TyrGly: 1.857 ± 0.284
0.425TyrHis: 0.425 ± 0.141
0.849TyrIle: 0.849 ± 0.209
0.371TyrLys: 0.371 ± 0.129
1.698TyrLeu: 1.698 ± 0.325
0.425TyrMet: 0.425 ± 0.159
0.265TyrAsn: 0.265 ± 0.094
1.327TyrPro: 1.327 ± 0.322
0.584TyrGln: 0.584 ± 0.178
2.016TyrArg: 2.016 ± 0.316
0.849TyrSer: 0.849 ± 0.181
1.114TyrThr: 1.114 ± 0.265
2.176TyrVal: 2.176 ± 0.451
0.478TyrTrp: 0.478 ± 0.152
0.425TyrTyr: 0.425 ± 0.158
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 85 proteins (18846 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