Amino acid dipepetide frequency for Methylopila sp. Yamaguchi

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
23.574AlaAla: 23.574 ± 0.214
1.099AlaCys: 1.099 ± 0.031
7.811AlaAsp: 7.811 ± 0.081
8.932AlaGlu: 8.932 ± 0.103
5.303AlaPhe: 5.303 ± 0.072
12.297AlaGly: 12.297 ± 0.116
2.344AlaHis: 2.344 ± 0.039
6.387AlaIle: 6.387 ± 0.071
4.667AlaLys: 4.667 ± 0.074
16.606AlaLeu: 16.606 ± 0.15
3.32AlaMet: 3.32 ± 0.062
2.75AlaAsn: 2.75 ± 0.059
7.812AlaPro: 7.812 ± 0.106
3.898AlaGln: 3.898 ± 0.059
11.058AlaArg: 11.058 ± 0.123
7.032AlaSer: 7.032 ± 0.08
7.074AlaThr: 7.074 ± 0.078
10.223AlaVal: 10.223 ± 0.097
1.656AlaTrp: 1.656 ± 0.039
2.735AlaTyr: 2.735 ± 0.049
0.0AlaXaa: 0.0 ± 0.0
Cys
1.01CysAla: 1.01 ± 0.033
0.094CysCys: 0.094 ± 0.009
0.446CysAsp: 0.446 ± 0.019
0.398CysGlu: 0.398 ± 0.018
0.259CysPhe: 0.259 ± 0.013
0.851CysGly: 0.851 ± 0.029
0.174CysHis: 0.174 ± 0.011
0.235CysIle: 0.235 ± 0.014
0.137CysLys: 0.137 ± 0.01
0.661CysLeu: 0.661 ± 0.024
0.122CysMet: 0.122 ± 0.01
0.126CysAsn: 0.126 ± 0.011
0.378CysPro: 0.378 ± 0.017
0.147CysGln: 0.147 ± 0.008
0.6CysArg: 0.6 ± 0.022
0.357CysSer: 0.357 ± 0.017
0.275CysThr: 0.275 ± 0.013
0.61CysVal: 0.61 ± 0.022
0.107CysTrp: 0.107 ± 0.008
0.15CysTyr: 0.15 ± 0.012
0.0CysXaa: 0.0 ± 0.0
Asp
8.387AspAla: 8.387 ± 0.09
0.387AspCys: 0.387 ± 0.018
3.528AspAsp: 3.528 ± 0.069
3.615AspGlu: 3.615 ± 0.05
1.965AspPhe: 1.965 ± 0.036
5.928AspGly: 5.928 ± 0.088
1.177AspHis: 1.177 ± 0.033
2.176AspIle: 2.176 ± 0.042
1.42AspLys: 1.42 ± 0.041
6.247AspLeu: 6.247 ± 0.068
1.092AspMet: 1.092 ± 0.026
0.967AspAsn: 0.967 ± 0.031
3.772AspPro: 3.772 ± 0.05
1.409AspGln: 1.409 ± 0.033
4.848AspArg: 4.848 ± 0.081
1.792AspSer: 1.792 ± 0.038
2.033AspThr: 2.033 ± 0.047
5.28AspVal: 5.28 ± 0.066
0.874AspTrp: 0.874 ± 0.027
1.27AspTyr: 1.27 ± 0.034
0.0AspXaa: 0.0 ± 0.0
Glu
8.972GluAla: 8.972 ± 0.093
0.26GluCys: 0.26 ± 0.014
2.684GluAsp: 2.684 ± 0.053
2.912GluGlu: 2.912 ± 0.064
1.489GluPhe: 1.489 ± 0.032
4.641GluGly: 4.641 ± 0.054
1.057GluHis: 1.057 ± 0.032
3.264GluIle: 3.264 ± 0.057
1.793GluLys: 1.793 ± 0.045
5.34GluLeu: 5.34 ± 0.069
1.291GluMet: 1.291 ± 0.033
1.287GluAsn: 1.287 ± 0.034
3.115GluPro: 3.115 ± 0.056
1.731GluGln: 1.731 ± 0.042
5.745GluArg: 5.745 ± 0.086
2.176GluSer: 2.176 ± 0.04
3.819GluThr: 3.819 ± 0.05
3.977GluVal: 3.977 ± 0.059
0.63GluTrp: 0.63 ± 0.021
0.763GluTyr: 0.763 ± 0.022
0.0GluXaa: 0.0 ± 0.0
Phe
5.336PheAla: 5.336 ± 0.073
0.309PheCys: 0.309 ± 0.013
2.723PheAsp: 2.723 ± 0.049
2.182PheGlu: 2.182 ± 0.039
1.267PhePhe: 1.267 ± 0.038
3.87PheGly: 3.87 ± 0.061
0.63PheHis: 0.63 ± 0.025
1.25PheIle: 1.25 ± 0.035
0.909PheLys: 0.909 ± 0.029
3.143PheLeu: 3.143 ± 0.059
0.677PheMet: 0.677 ± 0.021
0.811PheAsn: 0.811 ± 0.029
1.629PhePro: 1.629 ± 0.038
0.868PheGln: 0.868 ± 0.024
2.417PheArg: 2.417 ± 0.047
1.859PheSer: 1.859 ± 0.039
1.718PheThr: 1.718 ± 0.037
3.125PheVal: 3.125 ± 0.053
0.513PheTrp: 0.513 ± 0.023
0.772PheTyr: 0.772 ± 0.026
0.0PheXaa: 0.0 ± 0.0
Gly
12.429GlyAla: 12.429 ± 0.113
0.79GlyCys: 0.79 ± 0.027
4.886GlyAsp: 4.886 ± 0.077
5.042GlyGlu: 5.042 ± 0.068
3.763GlyPhe: 3.763 ± 0.052
8.445GlyGly: 8.445 ± 0.12
1.753GlyHis: 1.753 ± 0.04
2.88GlyIle: 2.88 ± 0.053
2.75GlyLys: 2.75 ± 0.05
9.688GlyLeu: 9.688 ± 0.104
1.979GlyMet: 1.979 ± 0.044
1.439GlyAsn: 1.439 ± 0.038
4.16GlyPro: 4.16 ± 0.061
2.449GlyGln: 2.449 ± 0.058
7.529GlyArg: 7.529 ± 0.082
4.46GlySer: 4.46 ± 0.069
3.439GlyThr: 3.439 ± 0.057
8.324GlyVal: 8.324 ± 0.091
1.396GlyTrp: 1.396 ± 0.036
2.162GlyTyr: 2.162 ± 0.043
0.0GlyXaa: 0.0 ± 0.0
His
2.371HisAla: 2.371 ± 0.046
0.159HisCys: 0.159 ± 0.01
1.182HisAsp: 1.182 ± 0.027
0.925HisGlu: 0.925 ± 0.03
0.676HisPhe: 0.676 ± 0.025
1.887HisGly: 1.887 ± 0.038
0.467HisHis: 0.467 ± 0.024
0.692HisIle: 0.692 ± 0.023
0.378HisLys: 0.378 ± 0.018
1.817HisLeu: 1.817 ± 0.035
0.398HisMet: 0.398 ± 0.019
0.348HisAsn: 0.348 ± 0.016
1.225HisPro: 1.225 ± 0.037
0.443HisGln: 0.443 ± 0.017
1.254HisArg: 1.254 ± 0.031
0.672HisSer: 0.672 ± 0.023
0.646HisThr: 0.646 ± 0.022
1.621HisVal: 1.621 ± 0.038
0.268HisTrp: 0.268 ± 0.015
0.428HisTyr: 0.428 ± 0.021
0.0HisXaa: 0.0 ± 0.0
Ile
7.107IleAla: 7.107 ± 0.078
0.385IleCys: 0.385 ± 0.018
3.239IleAsp: 3.239 ± 0.054
3.075IleGlu: 3.075 ± 0.05
1.337IlePhe: 1.337 ± 0.035
4.471IleGly: 4.471 ± 0.062
0.76IleHis: 0.76 ± 0.026
1.33IleIle: 1.33 ± 0.035
1.073IleLys: 1.073 ± 0.027
3.593IleLeu: 3.593 ± 0.064
0.706IleMet: 0.706 ± 0.025
0.984IleAsn: 0.984 ± 0.025
1.905IlePro: 1.905 ± 0.035
0.911IleGln: 0.911 ± 0.029
2.811IleArg: 2.811 ± 0.047
2.096IleSer: 2.096 ± 0.043
1.919IleThr: 1.919 ± 0.044
4.083IleVal: 4.083 ± 0.06
0.471IleTrp: 0.471 ± 0.021
0.917IleTyr: 0.917 ± 0.026
0.0IleXaa: 0.0 ± 0.0
Lys
4.315LysAla: 4.315 ± 0.065
0.12LysCys: 0.12 ± 0.009
1.601LysAsp: 1.601 ± 0.036
1.384LysGlu: 1.384 ± 0.038
0.745LysPhe: 0.745 ± 0.031
2.462LysGly: 2.462 ± 0.046
0.441LysHis: 0.441 ± 0.021
1.57LysIle: 1.57 ± 0.037
0.998LysLys: 0.998 ± 0.03
3.165LysLeu: 3.165 ± 0.056
0.578LysMet: 0.578 ± 0.022
0.678LysAsn: 0.678 ± 0.025
2.064LysPro: 2.064 ± 0.053
0.72LysGln: 0.72 ± 0.027
2.401LysArg: 2.401 ± 0.037
1.497LysSer: 1.497 ± 0.038
1.944LysThr: 1.944 ± 0.044
2.295LysVal: 2.295 ± 0.048
0.267LysTrp: 0.267 ± 0.015
0.508LysTyr: 0.508 ± 0.021
0.0LysXaa: 0.0 ± 0.0
Leu
16.377LeuAla: 16.377 ± 0.139
0.739LeuCys: 0.739 ± 0.026
6.488LeuAsp: 6.488 ± 0.077
5.164LeuGlu: 5.164 ± 0.069
3.482LeuPhe: 3.482 ± 0.069
9.154LeuGly: 9.154 ± 0.104
1.658LeuHis: 1.658 ± 0.036
4.471LeuIle: 4.471 ± 0.066
3.756LeuLys: 3.756 ± 0.056
9.127LeuLeu: 9.127 ± 0.118
2.001LeuMet: 2.001 ± 0.04
2.213LeuAsn: 2.213 ± 0.052
5.435LeuPro: 5.435 ± 0.075
2.299LeuGln: 2.299 ± 0.044
7.006LeuArg: 7.006 ± 0.072
5.783LeuSer: 5.783 ± 0.076
5.682LeuThr: 5.682 ± 0.069
8.188LeuVal: 8.188 ± 0.092
1.185LeuTrp: 1.185 ± 0.036
1.912LeuTyr: 1.912 ± 0.041
0.0LeuXaa: 0.0 ± 0.0
Met
2.794MetAla: 2.794 ± 0.049
0.12MetCys: 0.12 ± 0.01
0.906MetAsp: 0.906 ± 0.025
0.905MetGlu: 0.905 ± 0.029
0.595MetPhe: 0.595 ± 0.021
1.562MetGly: 1.562 ± 0.03
0.316MetHis: 0.316 ± 0.014
1.167MetIle: 1.167 ± 0.031
0.738MetLys: 0.738 ± 0.021
2.113MetLeu: 2.113 ± 0.04
0.458MetMet: 0.458 ± 0.019
0.562MetAsn: 0.562 ± 0.021
1.269MetPro: 1.269 ± 0.033
0.53MetGln: 0.53 ± 0.022
1.667MetArg: 1.667 ± 0.039
1.532MetSer: 1.532 ± 0.035
1.93MetThr: 1.93 ± 0.039
1.334MetVal: 1.334 ± 0.036
0.17MetTrp: 0.17 ± 0.01
0.256MetTyr: 0.256 ± 0.016
0.0MetXaa: 0.0 ± 0.0
Asn
2.98AsnAla: 2.98 ± 0.05
0.165AsnCys: 0.165 ± 0.011
1.215AsnAsp: 1.215 ± 0.034
0.992AsnGlu: 0.992 ± 0.029
0.732AsnPhe: 0.732 ± 0.025
1.982AsnGly: 1.982 ± 0.049
0.417AsnHis: 0.417 ± 0.019
0.837AsnIle: 0.837 ± 0.023
0.517AsnLys: 0.517 ± 0.023
2.185AsnLeu: 2.185 ± 0.046
0.444AsnMet: 0.444 ± 0.02
0.462AsnAsn: 0.462 ± 0.022
1.552AsnPro: 1.552 ± 0.036
0.509AsnGln: 0.509 ± 0.02
1.507AsnArg: 1.507 ± 0.036
0.795AsnSer: 0.795 ± 0.029
0.881AsnThr: 0.881 ± 0.025
1.93AsnVal: 1.93 ± 0.043
0.3AsnTrp: 0.3 ± 0.017
0.514AsnTyr: 0.514 ± 0.02
0.0AsnXaa: 0.0 ± 0.0
Pro
7.565ProAla: 7.565 ± 0.101
0.293ProCys: 0.293 ± 0.016
3.698ProAsp: 3.698 ± 0.063
3.973ProGlu: 3.973 ± 0.058
2.135ProPhe: 2.135 ± 0.045
4.715ProGly: 4.715 ± 0.061
1.012ProHis: 1.012 ± 0.029
2.244ProIle: 2.244 ± 0.042
1.875ProLys: 1.875 ± 0.039
5.139ProLeu: 5.139 ± 0.066
1.061ProMet: 1.061 ± 0.032
1.304ProAsn: 1.304 ± 0.034
2.875ProPro: 2.875 ± 0.058
1.497ProGln: 1.497 ± 0.034
3.568ProArg: 3.568 ± 0.062
3.001ProSer: 3.001 ± 0.055
2.871ProThr: 2.871 ± 0.04
3.998ProVal: 3.998 ± 0.052
0.696ProTrp: 0.696 ± 0.025
1.146ProTyr: 1.146 ± 0.033
0.0ProXaa: 0.0 ± 0.0
Gln
3.774GlnAla: 3.774 ± 0.048
0.146GlnCys: 0.146 ± 0.011
1.226GlnAsp: 1.226 ± 0.031
1.148GlnGlu: 1.148 ± 0.038
0.819GlnPhe: 0.819 ± 0.027
2.093GlnGly: 2.093 ± 0.044
0.427GlnHis: 0.427 ± 0.018
1.542GlnIle: 1.542 ± 0.036
0.787GlnLys: 0.787 ± 0.028
2.295GlnLeu: 2.295 ± 0.042
0.61GlnMet: 0.61 ± 0.02
0.634GlnAsn: 0.634 ± 0.026
1.502GlnPro: 1.502 ± 0.039
0.812GlnGln: 0.812 ± 0.033
1.971GlnArg: 1.971 ± 0.045
1.347GlnSer: 1.347 ± 0.035
1.458GlnThr: 1.458 ± 0.035
1.895GlnVal: 1.895 ± 0.044
0.277GlnTrp: 0.277 ± 0.015
0.423GlnTyr: 0.423 ± 0.019
0.0GlnXaa: 0.0 ± 0.0
Arg
10.331ArgAla: 10.331 ± 0.111
0.477ArgCys: 0.477 ± 0.022
4.298ArgAsp: 4.298 ± 0.064
4.403ArgGlu: 4.403 ± 0.066
3.157ArgPhe: 3.157 ± 0.052
5.724ArgGly: 5.724 ± 0.072
1.543ArgHis: 1.543 ± 0.033
3.77ArgIle: 3.77 ± 0.051
2.008ArgLys: 2.008 ± 0.042
9.124ArgLeu: 9.124 ± 0.105
1.798ArgMet: 1.798 ± 0.036
1.466ArgAsn: 1.466 ± 0.033
4.318ArgPro: 4.318 ± 0.067
1.988ArgGln: 1.988 ± 0.043
7.147ArgArg: 7.147 ± 0.097
3.925ArgSer: 3.925 ± 0.063
3.591ArgThr: 3.591 ± 0.051
5.423ArgVal: 5.423 ± 0.068
1.019ArgTrp: 1.019 ± 0.028
1.555ArgTyr: 1.555 ± 0.04
0.0ArgXaa: 0.0 ± 0.0
Ser
6.61SerAla: 6.61 ± 0.083
0.328SerCys: 0.328 ± 0.017
2.775SerAsp: 2.775 ± 0.048
2.605SerGlu: 2.605 ± 0.05
2.114SerPhe: 2.114 ± 0.039
5.296SerGly: 5.296 ± 0.067
0.918SerHis: 0.918 ± 0.028
2.202SerIle: 2.202 ± 0.043
1.435SerLys: 1.435 ± 0.033
4.963SerLeu: 4.963 ± 0.07
1.081SerMet: 1.081 ± 0.027
1.102SerAsn: 1.102 ± 0.029
2.874SerPro: 2.874 ± 0.051
1.181SerGln: 1.181 ± 0.031
3.455SerArg: 3.455 ± 0.058
2.676SerSer: 2.676 ± 0.056
2.408SerThr: 2.408 ± 0.044
3.762SerVal: 3.762 ± 0.054
0.671SerTrp: 0.671 ± 0.023
1.162SerTyr: 1.162 ± 0.032
0.0SerXaa: 0.0 ± 0.0
Thr
6.359ThrAla: 6.359 ± 0.088
0.349ThrCys: 0.349 ± 0.016
2.553ThrAsp: 2.553 ± 0.05
2.526ThrGlu: 2.526 ± 0.047
2.01ThrPhe: 2.01 ± 0.035
4.645ThrGly: 4.645 ± 0.066
0.9ThrHis: 0.9 ± 0.027
2.502ThrIle: 2.502 ± 0.043
1.361ThrLys: 1.361 ± 0.032
6.135ThrLeu: 6.135 ± 0.075
0.944ThrMet: 0.944 ± 0.024
1.122ThrAsn: 1.122 ± 0.033
3.786ThrPro: 3.786 ± 0.063
1.116ThrGln: 1.116 ± 0.032
3.301ThrArg: 3.301 ± 0.048
2.624ThrSer: 2.624 ± 0.049
2.907ThrThr: 2.907 ± 0.054
4.302ThrVal: 4.302 ± 0.066
0.616ThrTrp: 0.616 ± 0.024
1.071ThrTyr: 1.071 ± 0.028
0.0ThrXaa: 0.0 ± 0.0
Val
12.174ValAla: 12.174 ± 0.113
0.61ValCys: 0.61 ± 0.021
4.837ValAsp: 4.837 ± 0.07
5.09ValGlu: 5.09 ± 0.064
2.89ValPhe: 2.89 ± 0.048
6.734ValGly: 6.734 ± 0.077
1.291ValHis: 1.291 ± 0.034
3.475ValIle: 3.475 ± 0.053
2.266ValLys: 2.266 ± 0.048
7.266ValLeu: 7.266 ± 0.083
1.716ValMet: 1.716 ± 0.037
1.845ValAsn: 1.845 ± 0.04
3.426ValPro: 3.426 ± 0.053
1.844ValGln: 1.844 ± 0.036
5.792ValArg: 5.792 ± 0.066
4.253ValSer: 4.253 ± 0.061
4.894ValThr: 4.894 ± 0.065
7.542ValVal: 7.542 ± 0.087
0.976ValTrp: 0.976 ± 0.031
1.512ValTyr: 1.512 ± 0.036
0.0ValXaa: 0.0 ± 0.0
Trp
1.34TrpAla: 1.34 ± 0.033
0.124TrpCys: 0.124 ± 0.01
0.588TrpAsp: 0.588 ± 0.022
0.489TrpGlu: 0.489 ± 0.021
0.519TrpPhe: 0.519 ± 0.018
0.911TrpGly: 0.911 ± 0.028
0.213TrpHis: 0.213 ± 0.011
0.615TrpIle: 0.615 ± 0.024
0.38TrpLys: 0.38 ± 0.016
1.476TrpLeu: 1.476 ± 0.042
0.301TrpMet: 0.301 ± 0.015
0.372TrpAsn: 0.372 ± 0.018
0.65TrpPro: 0.65 ± 0.023
0.312TrpGln: 0.312 ± 0.016
1.418TrpArg: 1.418 ± 0.036
0.861TrpSer: 0.861 ± 0.03
0.871TrpThr: 0.871 ± 0.029
0.705TrpVal: 0.705 ± 0.024
0.207TrpTrp: 0.207 ± 0.012
0.241TrpTyr: 0.241 ± 0.013
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.774TyrAla: 2.774 ± 0.054
0.183TyrCys: 0.183 ± 0.012
1.482TyrAsp: 1.482 ± 0.039
1.185TyrGlu: 1.185 ± 0.032
0.752TyrPhe: 0.752 ± 0.025
2.091TyrGly: 2.091 ± 0.044
0.36TyrHis: 0.36 ± 0.015
0.565TyrIle: 0.565 ± 0.022
0.508TyrLys: 0.508 ± 0.021
2.041TyrLeu: 2.041 ± 0.049
0.345TyrMet: 0.345 ± 0.017
0.445TyrAsn: 0.445 ± 0.019
0.917TyrPro: 0.917 ± 0.029
0.523TyrGln: 0.523 ± 0.019
1.567TyrArg: 1.567 ± 0.038
0.877TyrSer: 0.877 ± 0.031
0.772TyrThr: 0.772 ± 0.024
1.816TyrVal: 1.816 ± 0.035
0.296TyrTrp: 0.296 ± 0.018
0.477TyrTyr: 0.477 ± 0.02
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 4120 proteins (1302561 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