Amino acid dipepetide frequency for Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi)

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
17.23AlaAla: 17.23 ± 0.179
1.187AlaCys: 1.187 ± 0.034
6.922AlaAsp: 6.922 ± 0.084
8.456AlaGlu: 8.456 ± 0.11
4.108AlaPhe: 4.108 ± 0.058
11.01AlaGly: 11.01 ± 0.099
2.461AlaHis: 2.461 ± 0.049
5.624AlaIle: 5.624 ± 0.078
3.219AlaLys: 3.219 ± 0.061
14.531AlaLeu: 14.531 ± 0.147
3.931AlaMet: 3.931 ± 0.056
2.693AlaAsn: 2.693 ± 0.049
6.01AlaPro: 6.01 ± 0.091
4.709AlaGln: 4.709 ± 0.072
9.73AlaArg: 9.73 ± 0.12
5.35AlaSer: 5.35 ± 0.074
5.606AlaThr: 5.606 ± 0.068
8.3AlaVal: 8.3 ± 0.086
1.475AlaTrp: 1.475 ± 0.036
2.677AlaTyr: 2.677 ± 0.046
0.0AlaXaa: 0.0 ± 0.0
Cys
1.227CysAla: 1.227 ± 0.034
0.118CysCys: 0.118 ± 0.008
0.662CysAsp: 0.662 ± 0.025
0.423CysGlu: 0.423 ± 0.018
0.354CysPhe: 0.354 ± 0.017
1.009CysGly: 1.009 ± 0.026
0.318CysHis: 0.318 ± 0.016
0.413CysIle: 0.413 ± 0.018
0.213CysLys: 0.213 ± 0.013
0.932CysLeu: 0.932 ± 0.027
0.177CysMet: 0.177 ± 0.011
0.24CysAsn: 0.24 ± 0.013
0.561CysPro: 0.561 ± 0.023
0.243CysGln: 0.243 ± 0.014
0.599CysArg: 0.599 ± 0.022
0.485CysSer: 0.485 ± 0.018
0.485CysThr: 0.485 ± 0.02
0.618CysVal: 0.618 ± 0.021
0.121CysTrp: 0.121 ± 0.01
0.245CysTyr: 0.245 ± 0.015
0.0CysXaa: 0.0 ± 0.0
Asp
6.714AspAla: 6.714 ± 0.083
0.588AspCys: 0.588 ± 0.022
3.064AspAsp: 3.064 ± 0.084
3.471AspGlu: 3.471 ± 0.171
2.211AspPhe: 2.211 ± 0.043
5.454AspGly: 5.454 ± 0.089
1.408AspHis: 1.408 ± 0.037
3.06AspIle: 3.06 ± 0.047
1.66AspLys: 1.66 ± 0.037
6.547AspLeu: 6.547 ± 0.078
1.672AspMet: 1.672 ± 0.035
1.261AspAsn: 1.261 ± 0.042
3.874AspPro: 3.874 ± 0.059
1.976AspGln: 1.976 ± 0.044
4.338AspArg: 4.338 ± 0.057
2.311AspSer: 2.311 ± 0.051
2.999AspThr: 2.999 ± 0.066
3.812AspVal: 3.812 ± 0.061
1.225AspTrp: 1.225 ± 0.031
1.54AspTyr: 1.54 ± 0.032
0.0AspXaa: 0.0 ± 0.0
Glu
8.052GluAla: 8.052 ± 0.104
0.379GluCys: 0.379 ± 0.017
3.097GluAsp: 3.097 ± 0.068
3.283GluGlu: 3.283 ± 0.058
1.818GluPhe: 1.818 ± 0.037
4.959GluGly: 4.959 ± 0.162
1.142GluHis: 1.142 ± 0.034
3.61GluIle: 3.61 ± 0.063
1.821GluLys: 1.821 ± 0.043
5.315GluLeu: 5.315 ± 0.067
1.89GluMet: 1.89 ± 0.039
1.643GluAsn: 1.643 ± 0.044
2.545GluPro: 2.545 ± 0.05
2.105GluGln: 2.105 ± 0.044
4.357GluArg: 4.357 ± 0.071
1.994GluSer: 1.994 ± 0.043
3.765GluThr: 3.765 ± 0.048
4.302GluVal: 4.302 ± 0.051
0.653GluTrp: 0.653 ± 0.022
1.031GluTyr: 1.031 ± 0.029
0.0GluXaa: 0.0 ± 0.0
Phe
4.564PheAla: 4.564 ± 0.065
0.464PheCys: 0.464 ± 0.017
2.906PheAsp: 2.906 ± 0.054
2.116PheGlu: 2.116 ± 0.041
1.342PhePhe: 1.342 ± 0.037
3.66PheGly: 3.66 ± 0.06
0.781PheHis: 0.781 ± 0.025
1.519PheIle: 1.519 ± 0.036
0.872PheLys: 0.872 ± 0.026
3.422PheLeu: 3.422 ± 0.056
0.855PheMet: 0.855 ± 0.027
1.007PheAsn: 1.007 ± 0.03
1.496PhePro: 1.496 ± 0.029
1.044PheGln: 1.044 ± 0.026
2.157PheArg: 2.157 ± 0.041
2.075PheSer: 2.075 ± 0.044
2.031PheThr: 2.031 ± 0.041
2.643PheVal: 2.643 ± 0.051
0.61PheTrp: 0.61 ± 0.022
0.918PheTyr: 0.918 ± 0.028
0.0PheXaa: 0.0 ± 0.0
Gly
10.47GlyAla: 10.47 ± 0.108
0.913GlyCys: 0.913 ± 0.031
5.025GlyAsp: 5.025 ± 0.144
4.767GlyGlu: 4.767 ± 0.076
3.806GlyPhe: 3.806 ± 0.054
7.779GlyGly: 7.779 ± 0.116
2.124GlyHis: 2.124 ± 0.05
4.424GlyIle: 4.424 ± 0.056
3.06GlyLys: 3.06 ± 0.052
9.561GlyLeu: 9.561 ± 0.092
2.714GlyMet: 2.714 ± 0.047
2.28GlyAsn: 2.28 ± 0.088
3.857GlyPro: 3.857 ± 0.055
3.472GlyGln: 3.472 ± 0.053
5.924GlyArg: 5.924 ± 0.081
4.243GlySer: 4.243 ± 0.072
4.61GlyThr: 4.61 ± 0.07
6.411GlyVal: 6.411 ± 0.081
1.568GlyTrp: 1.568 ± 0.036
2.398GlyTyr: 2.398 ± 0.045
0.0GlyXaa: 0.0 ± 0.0
His
2.456HisAla: 2.456 ± 0.057
0.268HisCys: 0.268 ± 0.014
1.27HisAsp: 1.27 ± 0.035
1.012HisGlu: 1.012 ± 0.024
0.829HisPhe: 0.829 ± 0.024
2.026HisGly: 2.026 ± 0.035
0.6HisHis: 0.6 ± 0.023
0.998HisIle: 0.998 ± 0.029
0.499HisLys: 0.499 ± 0.017
2.308HisLeu: 2.308 ± 0.044
0.562HisMet: 0.562 ± 0.021
0.488HisAsn: 0.488 ± 0.018
1.496HisPro: 1.496 ± 0.035
0.642HisGln: 0.642 ± 0.021
1.434HisArg: 1.434 ± 0.035
0.985HisSer: 0.985 ± 0.029
0.827HisThr: 0.827 ± 0.024
1.61HisVal: 1.61 ± 0.037
0.388HisTrp: 0.388 ± 0.017
0.564HisTyr: 0.564 ± 0.019
0.0HisXaa: 0.0 ± 0.0
Ile
6.862IleAla: 6.862 ± 0.079
0.605IleCys: 0.605 ± 0.021
3.281IleAsp: 3.281 ± 0.053
3.435IleGlu: 3.435 ± 0.049
1.566IlePhe: 1.566 ± 0.043
4.811IleGly: 4.811 ± 0.059
0.924IleHis: 0.924 ± 0.022
1.902IleIle: 1.902 ± 0.044
1.265IleLys: 1.265 ± 0.033
4.739IleLeu: 4.739 ± 0.061
1.017IleMet: 1.017 ± 0.031
1.274IleAsn: 1.274 ± 0.034
2.36IlePro: 2.36 ± 0.042
1.211IleGln: 1.211 ± 0.028
3.383IleArg: 3.383 ± 0.057
2.874IleSer: 2.874 ± 0.053
2.81IleThr: 2.81 ± 0.053
3.618IleVal: 3.618 ± 0.059
0.757IleTrp: 0.757 ± 0.023
1.145IleTyr: 1.145 ± 0.028
0.0IleXaa: 0.0 ± 0.0
Lys
3.501LysAla: 3.501 ± 0.063
0.179LysCys: 0.179 ± 0.011
1.514LysAsp: 1.514 ± 0.037
1.412LysGlu: 1.412 ± 0.034
0.864LysPhe: 0.864 ± 0.027
2.612LysGly: 2.612 ± 0.059
0.527LysHis: 0.527 ± 0.02
1.467LysIle: 1.467 ± 0.035
1.036LysLys: 1.036 ± 0.035
2.688LysLeu: 2.688 ± 0.046
0.789LysMet: 0.789 ± 0.027
0.701LysAsn: 0.701 ± 0.026
1.753LysPro: 1.753 ± 0.041
0.889LysGln: 0.889 ± 0.028
2.071LysArg: 2.071 ± 0.039
1.641LysSer: 1.641 ± 0.043
1.782LysThr: 1.782 ± 0.037
2.082LysVal: 2.082 ± 0.046
0.371LysTrp: 0.371 ± 0.018
0.613LysTyr: 0.613 ± 0.025
0.0LysXaa: 0.0 ± 0.0
Leu
13.642LeuAla: 13.642 ± 0.135
1.09LeuCys: 1.09 ± 0.026
6.281LeuAsp: 6.281 ± 0.07
5.307LeuGlu: 5.307 ± 0.069
3.656LeuPhe: 3.656 ± 0.056
8.927LeuGly: 8.927 ± 0.111
1.999LeuHis: 1.999 ± 0.039
5.273LeuIle: 5.273 ± 0.065
3.081LeuLys: 3.081 ± 0.055
9.356LeuLeu: 9.356 ± 0.121
2.743LeuMet: 2.743 ± 0.05
2.781LeuAsn: 2.781 ± 0.04
5.737LeuPro: 5.737 ± 0.075
2.564LeuGln: 2.564 ± 0.04
7.365LeuArg: 7.365 ± 0.075
6.792LeuSer: 6.792 ± 0.077
6.009LeuThr: 6.009 ± 0.065
7.092LeuVal: 7.092 ± 0.087
1.361LeuTrp: 1.361 ± 0.034
2.079LeuTyr: 2.079 ± 0.036
0.0LeuXaa: 0.0 ± 0.0
Met
3.468MetAla: 3.468 ± 0.055
0.195MetCys: 0.195 ± 0.012
1.387MetAsp: 1.387 ± 0.035
1.339MetGlu: 1.339 ± 0.029
0.831MetPhe: 0.831 ± 0.023
2.353MetGly: 2.353 ± 0.045
0.493MetHis: 0.493 ± 0.018
1.499MetIle: 1.499 ± 0.034
1.001MetLys: 1.001 ± 0.029
2.725MetLeu: 2.725 ± 0.051
0.832MetMet: 0.832 ± 0.023
0.818MetAsn: 0.818 ± 0.023
1.558MetPro: 1.558 ± 0.036
1.108MetGln: 1.108 ± 0.026
2.02MetArg: 2.02 ± 0.043
1.801MetSer: 1.801 ± 0.036
2.142MetThr: 2.142 ± 0.038
1.961MetVal: 1.961 ± 0.042
0.249MetTrp: 0.249 ± 0.014
0.349MetTyr: 0.349 ± 0.015
0.0MetXaa: 0.0 ± 0.0
Asn
3.001AsnAla: 3.001 ± 0.051
0.263AsnCys: 0.263 ± 0.014
1.411AsnAsp: 1.411 ± 0.055
1.211AsnGlu: 1.211 ± 0.091
0.922AsnPhe: 0.922 ± 0.031
2.345AsnGly: 2.345 ± 0.052
0.514AsnHis: 0.514 ± 0.019
1.291AsnIle: 1.291 ± 0.036
0.648AsnLys: 0.648 ± 0.024
2.48AsnLeu: 2.48 ± 0.047
0.722AsnMet: 0.722 ± 0.023
0.672AsnAsn: 0.672 ± 0.026
1.894AsnPro: 1.894 ± 0.039
0.724AsnGln: 0.724 ± 0.025
1.802AsnArg: 1.802 ± 0.036
1.194AsnSer: 1.194 ± 0.034
1.351AsnThr: 1.351 ± 0.036
1.693AsnVal: 1.693 ± 0.038
0.462AsnTrp: 0.462 ± 0.019
0.618AsnTyr: 0.618 ± 0.022
0.0AsnXaa: 0.0 ± 0.0
Pro
5.99ProAla: 5.99 ± 0.08
0.393ProCys: 0.393 ± 0.019
3.903ProAsp: 3.903 ± 0.053
4.308ProGlu: 4.308 ± 0.068
1.924ProPhe: 1.924 ± 0.036
5.169ProGly: 5.169 ± 0.071
1.135ProHis: 1.135 ± 0.03
2.185ProIle: 2.185 ± 0.04
1.465ProLys: 1.465 ± 0.044
4.996ProLeu: 4.996 ± 0.066
1.361ProMet: 1.361 ± 0.028
1.276ProAsn: 1.276 ± 0.03
2.356ProPro: 2.356 ± 0.052
1.791ProGln: 1.791 ± 0.036
2.964ProArg: 2.964 ± 0.056
2.323ProSer: 2.323 ± 0.045
2.254ProThr: 2.254 ± 0.043
4.48ProVal: 4.48 ± 0.049
0.699ProTrp: 0.699 ± 0.022
1.162ProTyr: 1.162 ± 0.031
0.0ProXaa: 0.0 ± 0.0
Gln
4.432GlnAla: 4.432 ± 0.065
0.233GlnCys: 0.233 ± 0.013
1.715GlnAsp: 1.715 ± 0.034
1.557GlnGlu: 1.557 ± 0.035
1.102GlnPhe: 1.102 ± 0.03
2.877GlnGly: 2.877 ± 0.049
0.609GlnHis: 0.609 ± 0.022
1.99GlnIle: 1.99 ± 0.036
0.985GlnLys: 0.985 ± 0.029
3.011GlnLeu: 3.011 ± 0.048
1.129GlnMet: 1.129 ± 0.032
0.849GlnAsn: 0.849 ± 0.027
1.671GlnPro: 1.671 ± 0.039
1.177GlnGln: 1.177 ± 0.033
2.271GlnArg: 2.271 ± 0.048
1.786GlnSer: 1.786 ± 0.037
1.812GlnThr: 1.812 ± 0.036
2.603GlnVal: 2.603 ± 0.047
0.366GlnTrp: 0.366 ± 0.015
0.602GlnTyr: 0.602 ± 0.022
0.0GlnXaa: 0.0 ± 0.0
Arg
9.015ArgAla: 9.015 ± 0.1
0.536ArgCys: 0.536 ± 0.018
4.293ArgAsp: 4.293 ± 0.059
3.722ArgGlu: 3.722 ± 0.06
2.81ArgPhe: 2.81 ± 0.048
4.859ArgGly: 4.859 ± 0.076
1.683ArgHis: 1.683 ± 0.038
4.042ArgIle: 4.042 ± 0.057
2.16ArgLys: 2.16 ± 0.051
7.776ArgLeu: 7.776 ± 0.1
2.097ArgMet: 2.097 ± 0.042
1.794ArgAsn: 1.794 ± 0.036
3.576ArgPro: 3.576 ± 0.059
2.547ArgGln: 2.547 ± 0.052
5.217ArgArg: 5.217 ± 0.084
3.158ArgSer: 3.158 ± 0.051
2.96ArgThr: 2.96 ± 0.039
4.867ArgVal: 4.867 ± 0.056
1.002ArgTrp: 1.002 ± 0.028
1.596ArgTyr: 1.596 ± 0.037
0.0ArgXaa: 0.0 ± 0.0
Ser
5.852SerAla: 5.852 ± 0.06
0.461SerCys: 0.461 ± 0.018
3.229SerAsp: 3.229 ± 0.062
2.758SerGlu: 2.758 ± 0.043
2.198SerPhe: 2.198 ± 0.045
5.539SerGly: 5.539 ± 0.084
1.113SerHis: 1.113 ± 0.03
2.307SerIle: 2.307 ± 0.05
1.338SerLys: 1.338 ± 0.03
4.917SerLeu: 4.917 ± 0.072
1.334SerMet: 1.334 ± 0.029
1.298SerAsn: 1.298 ± 0.037
2.507SerPro: 2.507 ± 0.042
1.562SerGln: 1.562 ± 0.033
3.259SerArg: 3.259 ± 0.055
2.377SerSer: 2.377 ± 0.054
2.424SerThr: 2.424 ± 0.053
3.684SerVal: 3.684 ± 0.062
0.732SerTrp: 0.732 ± 0.024
1.314SerTyr: 1.314 ± 0.028
0.0SerXaa: 0.0 ± 0.0
Thr
6.047ThrAla: 6.047 ± 0.072
0.509ThrCys: 0.509 ± 0.023
2.94ThrAsp: 2.94 ± 0.051
2.835ThrGlu: 2.835 ± 0.056
1.845ThrPhe: 1.845 ± 0.039
5.538ThrGly: 5.538 ± 0.073
1.131ThrHis: 1.131 ± 0.028
2.473ThrIle: 2.473 ± 0.05
1.213ThrLys: 1.213 ± 0.032
5.944ThrLeu: 5.944 ± 0.07
1.249ThrMet: 1.249 ± 0.031
1.219ThrAsn: 1.219 ± 0.035
3.424ThrPro: 3.424 ± 0.048
1.532ThrGln: 1.532 ± 0.031
3.809ThrArg: 3.809 ± 0.055
2.527ThrSer: 2.527 ± 0.047
2.595ThrThr: 2.595 ± 0.047
4.15ThrVal: 4.15 ± 0.064
0.664ThrTrp: 0.664 ± 0.024
1.229ThrTyr: 1.229 ± 0.033
0.0ThrXaa: 0.0 ± 0.0
Val
8.629ValAla: 8.629 ± 0.079
0.655ValCys: 0.655 ± 0.02
3.876ValAsp: 3.876 ± 0.059
4.48ValGlu: 4.48 ± 0.061
2.797ValPhe: 2.797 ± 0.053
5.275ValGly: 5.275 ± 0.071
1.398ValHis: 1.398 ± 0.036
4.236ValIle: 4.236 ± 0.061
1.951ValLys: 1.951 ± 0.043
7.762ValLeu: 7.762 ± 0.088
2.136ValMet: 2.136 ± 0.044
1.948ValAsn: 1.948 ± 0.046
3.614ValPro: 3.614 ± 0.047
2.094ValGln: 2.094 ± 0.042
4.28ValArg: 4.28 ± 0.056
4.284ValSer: 4.284 ± 0.06
4.534ValThr: 4.534 ± 0.065
5.484ValVal: 5.484 ± 0.084
0.98ValTrp: 0.98 ± 0.03
1.517ValTyr: 1.517 ± 0.038
0.0ValXaa: 0.0 ± 0.0
Trp
1.508TrpAla: 1.508 ± 0.034
0.161TrpCys: 0.161 ± 0.011
0.754TrpAsp: 0.754 ± 0.024
0.651TrpGlu: 0.651 ± 0.022
0.568TrpPhe: 0.568 ± 0.021
1.047TrpGly: 1.047 ± 0.028
0.355TrpHis: 0.355 ± 0.015
0.685TrpIle: 0.685 ± 0.021
0.422TrpLys: 0.422 ± 0.018
1.727TrpLeu: 1.727 ± 0.037
0.412TrpMet: 0.412 ± 0.018
0.42TrpAsn: 0.42 ± 0.019
0.734TrpPro: 0.734 ± 0.023
0.641TrpGln: 0.641 ± 0.02
1.113TrpArg: 1.113 ± 0.035
0.813TrpSer: 0.813 ± 0.025
0.786TrpThr: 0.786 ± 0.025
0.949TrpVal: 0.949 ± 0.03
0.23TrpTrp: 0.23 ± 0.013
0.307TrpTyr: 0.307 ± 0.013
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.569TyrAla: 2.569 ± 0.044
0.244TyrCys: 0.244 ± 0.014
1.652TyrAsp: 1.652 ± 0.033
1.215TyrGlu: 1.215 ± 0.031
0.927TyrPhe: 0.927 ± 0.026
2.156TyrGly: 2.156 ± 0.043
0.548TyrHis: 0.548 ± 0.022
0.844TyrIle: 0.844 ± 0.022
0.581TyrLys: 0.581 ± 0.021
2.399TyrLeu: 2.399 ± 0.041
0.51TyrMet: 0.51 ± 0.021
0.557TyrAsn: 0.557 ± 0.02
1.111TyrPro: 1.111 ± 0.03
0.746TyrGln: 0.746 ± 0.024
1.618TyrArg: 1.618 ± 0.032
1.194TyrSer: 1.194 ± 0.027
1.092TyrThr: 1.092 ± 0.03
1.57TyrVal: 1.57 ± 0.037
0.37TyrTrp: 0.37 ± 0.016
0.601TyrTyr: 0.601 ± 0.024
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 4269 proteins (1375997 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