Amino acid dipepetide frequency for Rice gall dwarf virus (RGDV)

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
3.984AlaAla: 3.984 ± 0.84
0.771AlaCys: 0.771 ± 0.149
2.313AlaAsp: 2.313 ± 0.464
1.928AlaGlu: 1.928 ± 0.699
2.956AlaPhe: 2.956 ± 0.478
3.341AlaGly: 3.341 ± 0.394
0.771AlaHis: 0.771 ± 0.176
5.526AlaIle: 5.526 ± 0.733
4.37AlaLys: 4.37 ± 0.78
4.241AlaLeu: 4.241 ± 0.738
2.185AlaMet: 2.185 ± 0.695
3.084AlaAsn: 3.084 ± 0.552
2.57AlaPro: 2.57 ± 0.523
1.414AlaGln: 1.414 ± 0.36
2.827AlaArg: 2.827 ± 0.357
6.169AlaSer: 6.169 ± 0.775
3.084AlaThr: 3.084 ± 0.639
4.113AlaVal: 4.113 ± 0.769
0.514AlaTrp: 0.514 ± 0.218
1.928AlaTyr: 1.928 ± 0.393
0.0AlaXaa: 0.0 ± 0.0
Cys
0.257CysAla: 0.257 ± 0.251
0.0CysCys: 0.0 ± 0.0
0.514CysAsp: 0.514 ± 0.139
0.771CysGlu: 0.771 ± 0.205
0.9CysPhe: 0.9 ± 0.3
0.514CysGly: 0.514 ± 0.207
0.386CysHis: 0.386 ± 0.169
0.514CysIle: 0.514 ± 0.202
0.643CysLys: 0.643 ± 0.246
0.643CysLeu: 0.643 ± 0.219
0.0CysMet: 0.0 ± 0.0
0.9CysAsn: 0.9 ± 0.335
0.643CysPro: 0.643 ± 0.366
0.514CysGln: 0.514 ± 0.254
0.129CysArg: 0.129 ± 0.134
0.514CysSer: 0.514 ± 0.256
0.386CysThr: 0.386 ± 0.189
1.671CysVal: 1.671 ± 0.509
0.129CysTrp: 0.129 ± 0.112
0.771CysTyr: 0.771 ± 0.393
0.0CysXaa: 0.0 ± 0.0
Asp
3.727AspAla: 3.727 ± 0.402
0.771AspCys: 0.771 ± 0.257
4.627AspAsp: 4.627 ± 0.582
4.498AspGlu: 4.498 ± 1.212
2.442AspPhe: 2.442 ± 0.438
2.827AspGly: 2.827 ± 0.823
1.028AspHis: 1.028 ± 0.403
4.884AspIle: 4.884 ± 0.674
1.285AspLys: 1.285 ± 0.335
5.783AspLeu: 5.783 ± 0.917
2.056AspMet: 2.056 ± 0.416
3.727AspAsn: 3.727 ± 0.458
1.542AspPro: 1.542 ± 0.286
2.056AspGln: 2.056 ± 0.362
3.084AspArg: 3.084 ± 0.523
5.269AspSer: 5.269 ± 0.769
2.956AspThr: 2.956 ± 1.107
6.169AspVal: 6.169 ± 0.559
0.514AspTrp: 0.514 ± 0.141
2.57AspTyr: 2.57 ± 0.572
0.0AspXaa: 0.0 ± 0.0
Glu
2.056GluAla: 2.056 ± 0.427
1.028GluCys: 1.028 ± 0.384
2.699GluAsp: 2.699 ± 0.533
3.984GluGlu: 3.984 ± 0.74
1.928GluPhe: 1.928 ± 0.287
1.799GluGly: 1.799 ± 0.415
1.028GluHis: 1.028 ± 0.257
3.856GluIle: 3.856 ± 0.561
3.856GluLys: 3.856 ± 0.994
5.398GluLeu: 5.398 ± 0.656
1.928GluMet: 1.928 ± 0.386
4.113GluAsn: 4.113 ± 0.639
1.285GluPro: 1.285 ± 0.422
1.542GluGln: 1.542 ± 0.3
3.341GluArg: 3.341 ± 0.732
4.241GluSer: 4.241 ± 0.697
3.084GluThr: 3.084 ± 0.777
3.341GluVal: 3.341 ± 0.576
0.514GluTrp: 0.514 ± 0.141
3.213GluTyr: 3.213 ± 0.875
0.0GluXaa: 0.0 ± 0.0
Phe
2.313PheAla: 2.313 ± 0.393
0.514PheCys: 0.514 ± 0.341
2.313PheAsp: 2.313 ± 0.43
2.056PheGlu: 2.056 ± 0.557
1.157PhePhe: 1.157 ± 0.389
2.313PheGly: 2.313 ± 0.612
0.643PheHis: 0.643 ± 0.264
2.57PheIle: 2.57 ± 0.726
3.341PheLys: 3.341 ± 0.636
2.57PheLeu: 2.57 ± 0.649
1.542PheMet: 1.542 ± 0.602
1.542PheAsn: 1.542 ± 0.435
0.771PhePro: 0.771 ± 0.207
1.671PheGln: 1.671 ± 0.461
1.671PheArg: 1.671 ± 0.449
3.47PheSer: 3.47 ± 0.522
3.727PheThr: 3.727 ± 0.679
2.056PheVal: 2.056 ± 0.446
0.257PheTrp: 0.257 ± 0.187
1.157PheTyr: 1.157 ± 0.374
0.0PheXaa: 0.0 ± 0.0
Gly
2.57GlyAla: 2.57 ± 0.599
0.643GlyCys: 0.643 ± 0.28
2.827GlyAsp: 2.827 ± 0.622
3.47GlyGlu: 3.47 ± 0.603
1.285GlyPhe: 1.285 ± 0.295
3.084GlyGly: 3.084 ± 0.677
0.771GlyHis: 0.771 ± 0.33
3.727GlyIle: 3.727 ± 0.643
3.599GlyLys: 3.599 ± 0.384
3.984GlyLeu: 3.984 ± 0.748
1.542GlyMet: 1.542 ± 0.432
3.084GlyAsn: 3.084 ± 0.421
1.671GlyPro: 1.671 ± 0.436
0.9GlyGln: 0.9 ± 0.365
2.827GlyArg: 2.827 ± 0.544
5.012GlySer: 5.012 ± 0.834
3.213GlyThr: 3.213 ± 0.543
5.269GlyVal: 5.269 ± 0.768
0.514GlyTrp: 0.514 ± 0.21
2.185GlyTyr: 2.185 ± 0.493
0.0GlyXaa: 0.0 ± 0.0
His
1.028HisAla: 1.028 ± 0.353
0.0HisCys: 0.0 ± 0.0
0.9HisAsp: 0.9 ± 0.381
1.414HisGlu: 1.414 ± 0.375
1.414HisPhe: 1.414 ± 0.473
1.028HisGly: 1.028 ± 0.438
0.514HisHis: 0.514 ± 0.213
1.414HisIle: 1.414 ± 0.501
0.386HisLys: 0.386 ± 0.229
1.542HisLeu: 1.542 ± 0.304
0.771HisMet: 0.771 ± 0.246
1.157HisAsn: 1.157 ± 0.41
1.028HisPro: 1.028 ± 0.409
0.129HisGln: 0.129 ± 0.131
0.643HisArg: 0.643 ± 0.201
1.671HisSer: 1.671 ± 0.452
1.028HisThr: 1.028 ± 0.338
0.771HisVal: 0.771 ± 0.316
0.129HisTrp: 0.129 ± 0.093
0.514HisTyr: 0.514 ± 0.207
0.0HisXaa: 0.0 ± 0.0
Ile
4.498IleAla: 4.498 ± 0.892
0.771IleCys: 0.771 ± 0.344
5.783IleAsp: 5.783 ± 0.848
3.984IleGlu: 3.984 ± 0.698
2.57IlePhe: 2.57 ± 0.453
3.599IleGly: 3.599 ± 0.734
1.414IleHis: 1.414 ± 0.536
5.398IleIle: 5.398 ± 0.681
4.498IleLys: 4.498 ± 0.679
4.37IleLeu: 4.37 ± 0.874
1.671IleMet: 1.671 ± 0.43
5.012IleAsn: 5.012 ± 0.568
2.57IlePro: 2.57 ± 0.489
3.213IleGln: 3.213 ± 0.679
4.37IleArg: 4.37 ± 0.468
7.711IleSer: 7.711 ± 1.438
5.398IleThr: 5.398 ± 0.729
5.012IleVal: 5.012 ± 0.602
0.386IleTrp: 0.386 ± 0.265
2.442IleTyr: 2.442 ± 0.318
0.0IleXaa: 0.0 ± 0.0
Lys
3.984LysAla: 3.984 ± 0.607
0.9LysCys: 0.9 ± 0.313
3.213LysAsp: 3.213 ± 0.728
2.699LysGlu: 2.699 ± 0.494
2.313LysPhe: 2.313 ± 0.365
2.699LysGly: 2.699 ± 0.82
0.643LysHis: 0.643 ± 0.273
3.599LysIle: 3.599 ± 0.525
3.856LysLys: 3.856 ± 0.809
5.783LysLeu: 5.783 ± 0.534
3.084LysMet: 3.084 ± 0.795
3.47LysAsn: 3.47 ± 0.825
2.57LysPro: 2.57 ± 0.47
1.542LysGln: 1.542 ± 0.424
2.442LysArg: 2.442 ± 0.504
5.012LysSer: 5.012 ± 0.724
3.213LysThr: 3.213 ± 0.592
2.956LysVal: 2.956 ± 0.446
0.514LysTrp: 0.514 ± 0.384
3.47LysTyr: 3.47 ± 0.711
0.0LysXaa: 0.0 ± 0.0
Leu
5.269LeuAla: 5.269 ± 0.742
1.285LeuCys: 1.285 ± 0.579
6.04LeuAsp: 6.04 ± 0.979
3.47LeuGlu: 3.47 ± 0.637
2.699LeuPhe: 2.699 ± 0.461
3.341LeuGly: 3.341 ± 0.46
1.414LeuHis: 1.414 ± 0.391
5.398LeuIle: 5.398 ± 0.543
4.241LeuLys: 4.241 ± 0.734
7.84LeuLeu: 7.84 ± 0.802
2.956LeuMet: 2.956 ± 0.423
6.426LeuAsn: 6.426 ± 0.91
4.241LeuPro: 4.241 ± 0.889
2.185LeuGln: 2.185 ± 0.845
3.599LeuArg: 3.599 ± 0.735
7.711LeuSer: 7.711 ± 0.818
6.683LeuThr: 6.683 ± 0.978
5.269LeuVal: 5.269 ± 0.778
0.643LeuTrp: 0.643 ± 0.259
2.442LeuTyr: 2.442 ± 0.412
0.0LeuXaa: 0.0 ± 0.0
Met
1.414MetAla: 1.414 ± 0.425
0.129MetCys: 0.129 ± 0.093
1.671MetAsp: 1.671 ± 0.339
2.185MetGlu: 2.185 ± 0.375
2.442MetPhe: 2.442 ± 0.535
2.185MetGly: 2.185 ± 0.49
0.771MetHis: 0.771 ± 0.206
2.699MetIle: 2.699 ± 0.559
1.799MetLys: 1.799 ± 0.387
3.213MetLeu: 3.213 ± 0.655
1.542MetMet: 1.542 ± 0.425
2.185MetAsn: 2.185 ± 0.414
1.028MetPro: 1.028 ± 0.302
0.9MetGln: 0.9 ± 0.373
2.956MetArg: 2.956 ± 0.618
3.727MetSer: 3.727 ± 0.786
2.056MetThr: 2.056 ± 0.483
1.928MetVal: 1.928 ± 0.794
0.386MetTrp: 0.386 ± 0.19
1.028MetTyr: 1.028 ± 0.4
0.0MetXaa: 0.0 ± 0.0
Asn
3.984AsnAla: 3.984 ± 0.537
0.643AsnCys: 0.643 ± 0.182
4.755AsnAsp: 4.755 ± 0.412
3.984AsnGlu: 3.984 ± 0.708
2.056AsnPhe: 2.056 ± 0.535
3.47AsnGly: 3.47 ± 0.588
1.285AsnHis: 1.285 ± 0.301
4.498AsnIle: 4.498 ± 0.942
2.57AsnLys: 2.57 ± 0.617
5.526AsnLeu: 5.526 ± 0.709
2.313AsnMet: 2.313 ± 0.555
4.627AsnAsn: 4.627 ± 0.596
3.341AsnPro: 3.341 ± 0.644
2.827AsnGln: 2.827 ± 0.678
2.57AsnArg: 2.57 ± 0.564
4.627AsnSer: 4.627 ± 0.354
3.599AsnThr: 3.599 ± 0.863
5.526AsnVal: 5.526 ± 1.158
0.257AsnTrp: 0.257 ± 0.172
1.671AsnTyr: 1.671 ± 0.394
0.0AsnXaa: 0.0 ± 0.0
Pro
2.056ProAla: 2.056 ± 0.196
0.129ProCys: 0.129 ± 0.134
2.313ProAsp: 2.313 ± 0.447
1.414ProGlu: 1.414 ± 0.378
1.285ProPhe: 1.285 ± 0.438
1.542ProGly: 1.542 ± 0.501
1.157ProHis: 1.157 ± 0.276
2.827ProIle: 2.827 ± 0.89
3.084ProLys: 3.084 ± 0.5
3.213ProLeu: 3.213 ± 0.679
1.414ProMet: 1.414 ± 0.363
3.341ProAsn: 3.341 ± 0.803
2.313ProPro: 2.313 ± 0.478
1.414ProGln: 1.414 ± 0.277
1.285ProArg: 1.285 ± 0.453
3.213ProSer: 3.213 ± 0.499
1.671ProThr: 1.671 ± 0.426
3.084ProVal: 3.084 ± 1.066
0.771ProTrp: 0.771 ± 0.337
2.056ProTyr: 2.056 ± 0.374
0.0ProXaa: 0.0 ± 0.0
Gln
1.928GlnAla: 1.928 ± 0.472
0.257GlnCys: 0.257 ± 0.128
2.185GlnAsp: 2.185 ± 0.508
1.157GlnGlu: 1.157 ± 0.437
1.028GlnPhe: 1.028 ± 0.36
1.414GlnGly: 1.414 ± 0.3
0.129GlnHis: 0.129 ± 0.119
2.056GlnIle: 2.056 ± 0.335
1.671GlnLys: 1.671 ± 0.427
1.799GlnLeu: 1.799 ± 0.573
1.542GlnMet: 1.542 ± 0.449
1.928GlnAsn: 1.928 ± 0.561
1.028GlnPro: 1.028 ± 0.496
0.9GlnGln: 0.9 ± 0.198
1.285GlnArg: 1.285 ± 0.372
1.799GlnSer: 1.799 ± 0.691
2.442GlnThr: 2.442 ± 0.414
2.699GlnVal: 2.699 ± 0.478
0.514GlnTrp: 0.514 ± 0.19
1.414GlnTyr: 1.414 ± 0.394
0.0GlnXaa: 0.0 ± 0.0
Arg
2.699ArgAla: 2.699 ± 0.475
0.386ArgCys: 0.386 ± 0.21
2.956ArgAsp: 2.956 ± 0.793
2.442ArgGlu: 2.442 ± 0.346
1.671ArgPhe: 1.671 ± 0.447
3.47ArgGly: 3.47 ± 1.049
0.771ArgHis: 0.771 ± 0.394
3.47ArgIle: 3.47 ± 0.825
2.57ArgLys: 2.57 ± 0.509
4.113ArgLeu: 4.113 ± 0.732
1.928ArgMet: 1.928 ± 0.41
3.599ArgAsn: 3.599 ± 0.605
1.928ArgPro: 1.928 ± 0.496
1.285ArgGln: 1.285 ± 0.567
1.928ArgArg: 1.928 ± 0.473
4.113ArgSer: 4.113 ± 0.845
3.213ArgThr: 3.213 ± 0.602
3.084ArgVal: 3.084 ± 0.489
0.129ArgTrp: 0.129 ± 0.119
2.956ArgTyr: 2.956 ± 0.553
0.0ArgXaa: 0.0 ± 0.0
Ser
5.141SerAla: 5.141 ± 0.705
0.514SerCys: 0.514 ± 0.183
5.398SerAsp: 5.398 ± 0.907
5.912SerGlu: 5.912 ± 0.877
2.699SerPhe: 2.699 ± 0.555
5.398SerGly: 5.398 ± 0.68
2.056SerHis: 2.056 ± 0.566
6.04SerIle: 6.04 ± 0.828
5.012SerLys: 5.012 ± 1.008
9.382SerLeu: 9.382 ± 1.091
3.47SerMet: 3.47 ± 0.718
5.912SerAsn: 5.912 ± 0.868
2.956SerPro: 2.956 ± 0.349
1.928SerGln: 1.928 ± 0.542
5.141SerArg: 5.141 ± 0.951
8.996SerSer: 8.996 ± 0.863
5.398SerThr: 5.398 ± 0.411
6.169SerVal: 6.169 ± 1.025
0.9SerTrp: 0.9 ± 0.342
2.442SerTyr: 2.442 ± 0.332
0.0SerXaa: 0.0 ± 0.0
Thr
3.47ThrAla: 3.47 ± 0.761
0.514ThrCys: 0.514 ± 0.224
3.213ThrAsp: 3.213 ± 0.705
3.213ThrGlu: 3.213 ± 0.625
2.827ThrPhe: 2.827 ± 0.7
2.956ThrGly: 2.956 ± 0.379
1.028ThrHis: 1.028 ± 0.26
7.326ThrIle: 7.326 ± 0.788
5.398ThrLys: 5.398 ± 0.582
5.141ThrLeu: 5.141 ± 0.566
1.799ThrMet: 1.799 ± 0.558
2.57ThrAsn: 2.57 ± 0.327
2.827ThrPro: 2.827 ± 0.482
1.028ThrGln: 1.028 ± 0.305
2.313ThrArg: 2.313 ± 0.375
5.526ThrSer: 5.526 ± 0.617
3.984ThrThr: 3.984 ± 0.602
3.856ThrVal: 3.856 ± 0.598
0.257ThrTrp: 0.257 ± 0.142
2.827ThrTyr: 2.827 ± 0.435
0.0ThrXaa: 0.0 ± 0.0
Val
4.241ValAla: 4.241 ± 0.899
0.9ValCys: 0.9 ± 0.384
5.655ValAsp: 5.655 ± 0.603
3.341ValGlu: 3.341 ± 0.722
2.056ValPhe: 2.056 ± 0.33
3.984ValGly: 3.984 ± 0.649
0.9ValHis: 0.9 ± 0.413
5.269ValIle: 5.269 ± 0.613
3.856ValLys: 3.856 ± 0.677
5.655ValLeu: 5.655 ± 0.784
2.313ValMet: 2.313 ± 0.626
4.627ValAsn: 4.627 ± 1.11
2.827ValPro: 2.827 ± 0.703
2.57ValGln: 2.57 ± 0.38
3.727ValArg: 3.727 ± 1.026
6.554ValSer: 6.554 ± 0.704
4.627ValThr: 4.627 ± 0.69
4.755ValVal: 4.755 ± 0.91
0.514ValTrp: 0.514 ± 0.253
3.47ValTyr: 3.47 ± 0.84
0.0ValXaa: 0.0 ± 0.0
Trp
0.386TrpAla: 0.386 ± 0.266
0.129TrpCys: 0.129 ± 0.119
0.129TrpAsp: 0.129 ± 0.093
0.514TrpGlu: 0.514 ± 0.215
0.643TrpPhe: 0.643 ± 0.287
0.129TrpGly: 0.129 ± 0.112
0.129TrpHis: 0.129 ± 0.126
0.643TrpIle: 0.643 ± 0.215
0.129TrpLys: 0.129 ± 0.115
0.257TrpLeu: 0.257 ± 0.179
0.257TrpMet: 0.257 ± 0.128
0.9TrpAsn: 0.9 ± 0.446
0.129TrpPro: 0.129 ± 0.152
0.129TrpGln: 0.129 ± 0.093
0.514TrpArg: 0.514 ± 0.244
0.9TrpSer: 0.9 ± 0.278
0.514TrpThr: 0.514 ± 0.192
0.9TrpVal: 0.9 ± 0.352
0.0TrpTrp: 0.0 ± 0.0
0.514TrpTyr: 0.514 ± 0.309
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.084TyrAla: 3.084 ± 0.505
0.514TyrCys: 0.514 ± 0.266
2.313TyrAsp: 2.313 ± 0.611
1.799TyrGlu: 1.799 ± 0.287
1.285TyrPhe: 1.285 ± 0.337
3.084TyrGly: 3.084 ± 0.619
0.643TyrHis: 0.643 ± 0.28
2.956TyrIle: 2.956 ± 0.649
1.799TyrLys: 1.799 ± 0.475
2.699TyrLeu: 2.699 ± 0.669
1.799TyrMet: 1.799 ± 0.439
1.928TyrAsn: 1.928 ± 0.331
2.313TyrPro: 2.313 ± 0.392
1.028TyrGln: 1.028 ± 0.487
2.056TyrArg: 2.056 ± 0.568
4.755TyrSer: 4.755 ± 0.675
1.799TyrThr: 1.799 ± 0.38
3.213TyrVal: 3.213 ± 0.804
0.0TyrTrp: 0.0 ± 0.0
2.442TyrTyr: 2.442 ± 0.573
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 12 proteins (7782 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