Amino acid dipepetide frequency for Ruegeria lacuscaerulensis (strain DSM 11314 / KCTC 2953 / ITI-1157) (Silicibacter lacuscaerulensis)

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
15.676AlaAla: 15.676 ± 0.163
1.1AlaCys: 1.1 ± 0.038
6.84AlaAsp: 6.84 ± 0.085
8.297AlaGlu: 8.297 ± 0.109
4.109AlaPhe: 4.109 ± 0.062
9.842AlaGly: 9.842 ± 0.091
2.383AlaHis: 2.383 ± 0.053
5.745AlaIle: 5.745 ± 0.075
3.916AlaLys: 3.916 ± 0.07
12.916AlaLeu: 12.916 ± 0.142
3.741AlaMet: 3.741 ± 0.062
2.721AlaAsn: 2.721 ± 0.055
5.528AlaPro: 5.528 ± 0.099
4.896AlaGln: 4.896 ± 0.084
8.787AlaArg: 8.787 ± 0.116
5.148AlaSer: 5.148 ± 0.07
5.547AlaThr: 5.547 ± 0.067
8.272AlaVal: 8.272 ± 0.091
1.425AlaTrp: 1.425 ± 0.033
2.557AlaTyr: 2.557 ± 0.051
0.004AlaXaa: 0.004 ± 0.002
Cys
1.201CysAla: 1.201 ± 0.03
0.123CysCys: 0.123 ± 0.01
0.626CysAsp: 0.626 ± 0.027
0.442CysGlu: 0.442 ± 0.022
0.346CysPhe: 0.346 ± 0.019
0.979CysGly: 0.979 ± 0.033
0.307CysHis: 0.307 ± 0.017
0.456CysIle: 0.456 ± 0.022
0.242CysLys: 0.242 ± 0.016
0.856CysLeu: 0.856 ± 0.026
0.209CysMet: 0.209 ± 0.015
0.256CysAsn: 0.256 ± 0.016
0.544CysPro: 0.544 ± 0.025
0.264CysGln: 0.264 ± 0.016
0.621CysArg: 0.621 ± 0.023
0.523CysSer: 0.523 ± 0.024
0.463CysThr: 0.463 ± 0.022
0.64CysVal: 0.64 ± 0.027
0.133CysTrp: 0.133 ± 0.01
0.246CysTyr: 0.246 ± 0.015
0.0CysXaa: 0.0 ± 0.0
Asp
6.827AspAla: 6.827 ± 0.086
0.575AspCys: 0.575 ± 0.025
3.368AspAsp: 3.368 ± 0.069
3.646AspGlu: 3.646 ± 0.062
2.299AspPhe: 2.299 ± 0.044
5.423AspGly: 5.423 ± 0.085
1.432AspHis: 1.432 ± 0.04
3.045AspIle: 3.045 ± 0.047
1.876AspLys: 1.876 ± 0.046
6.656AspLeu: 6.656 ± 0.084
1.685AspMet: 1.685 ± 0.037
1.287AspAsn: 1.287 ± 0.039
3.897AspPro: 3.897 ± 0.059
2.181AspGln: 2.181 ± 0.048
4.652AspArg: 4.652 ± 0.067
2.182AspSer: 2.182 ± 0.045
2.852AspThr: 2.852 ± 0.055
4.235AspVal: 4.235 ± 0.059
1.244AspTrp: 1.244 ± 0.037
1.569AspTyr: 1.569 ± 0.043
0.001AspXaa: 0.001 ± 0.001
Glu
7.593GluAla: 7.593 ± 0.107
0.42GluCys: 0.42 ± 0.02
3.459GluAsp: 3.459 ± 0.058
3.418GluGlu: 3.418 ± 0.077
2.002GluPhe: 2.002 ± 0.042
4.407GluGly: 4.407 ± 0.067
1.168GluHis: 1.168 ± 0.033
3.859GluIle: 3.859 ± 0.066
2.36GluLys: 2.36 ± 0.055
5.345GluLeu: 5.345 ± 0.074
1.825GluMet: 1.825 ± 0.044
1.924GluAsn: 1.924 ± 0.041
2.666GluPro: 2.666 ± 0.055
2.233GluGln: 2.233 ± 0.043
4.183GluArg: 4.183 ± 0.063
2.153GluSer: 2.153 ± 0.053
3.791GluThr: 3.791 ± 0.066
4.184GluVal: 4.184 ± 0.066
0.755GluTrp: 0.755 ± 0.026
1.193GluTyr: 1.193 ± 0.033
0.002GluXaa: 0.002 ± 0.001
Phe
4.405PheAla: 4.405 ± 0.072
0.471PheCys: 0.471 ± 0.022
2.951PheAsp: 2.951 ± 0.062
2.252PheGlu: 2.252 ± 0.051
1.452PhePhe: 1.452 ± 0.046
3.615PheGly: 3.615 ± 0.065
0.772PheHis: 0.772 ± 0.027
1.668PheIle: 1.668 ± 0.041
1.007PheLys: 1.007 ± 0.03
3.502PheLeu: 3.502 ± 0.064
0.878PheMet: 0.878 ± 0.031
1.061PheAsn: 1.061 ± 0.032
1.591PhePro: 1.591 ± 0.04
1.148PheGln: 1.148 ± 0.034
2.168PheArg: 2.168 ± 0.044
2.203PheSer: 2.203 ± 0.049
1.987PheThr: 1.987 ± 0.042
2.657PheVal: 2.657 ± 0.059
0.587PheTrp: 0.587 ± 0.024
0.972PheTyr: 0.972 ± 0.029
0.002PheXaa: 0.002 ± 0.001
Gly
9.216GlyAla: 9.216 ± 0.104
0.916GlyCys: 0.916 ± 0.033
4.626GlyAsp: 4.626 ± 0.07
4.435GlyGlu: 4.435 ± 0.057
3.688GlyPhe: 3.688 ± 0.057
7.035GlyGly: 7.035 ± 0.121
1.957GlyHis: 1.957 ± 0.041
4.291GlyIle: 4.291 ± 0.079
3.405GlyLys: 3.405 ± 0.068
9.099GlyLeu: 9.099 ± 0.119
2.503GlyMet: 2.503 ± 0.044
2.174GlyAsn: 2.174 ± 0.052
3.807GlyPro: 3.807 ± 0.059
3.359GlyGln: 3.359 ± 0.06
5.583GlyArg: 5.583 ± 0.079
4.048GlySer: 4.048 ± 0.062
4.449GlyThr: 4.449 ± 0.072
6.44GlyVal: 6.44 ± 0.076
1.468GlyTrp: 1.468 ± 0.037
2.335GlyTyr: 2.335 ± 0.051
0.006GlyXaa: 0.006 ± 0.002
His
2.288HisAla: 2.288 ± 0.049
0.257HisCys: 0.257 ± 0.016
1.353HisAsp: 1.353 ± 0.036
1.092HisGlu: 1.092 ± 0.031
0.835HisPhe: 0.835 ± 0.032
1.951HisGly: 1.951 ± 0.049
0.587HisHis: 0.587 ± 0.027
0.933HisIle: 0.933 ± 0.033
0.561HisLys: 0.561 ± 0.025
2.238HisLeu: 2.238 ± 0.04
0.558HisMet: 0.558 ± 0.023
0.458HisAsn: 0.458 ± 0.021
1.477HisPro: 1.477 ± 0.041
0.66HisGln: 0.66 ± 0.025
1.464HisArg: 1.464 ± 0.035
1.007HisSer: 1.007 ± 0.03
0.832HisThr: 0.832 ± 0.03
1.592HisVal: 1.592 ± 0.044
0.359HisTrp: 0.359 ± 0.021
0.553HisTyr: 0.553 ± 0.022
0.0HisXaa: 0.0 ± 0.0
Ile
6.689IleAla: 6.689 ± 0.081
0.61IleCys: 0.61 ± 0.026
3.528IleAsp: 3.528 ± 0.054
3.687IleGlu: 3.687 ± 0.058
1.699IlePhe: 1.699 ± 0.041
4.719IleGly: 4.719 ± 0.074
0.934IleHis: 0.934 ± 0.031
2.197IleIle: 2.197 ± 0.051
1.549IleLys: 1.549 ± 0.044
4.906IleLeu: 4.906 ± 0.083
1.105IleMet: 1.105 ± 0.032
1.371IleAsn: 1.371 ± 0.036
2.535IlePro: 2.535 ± 0.042
1.378IleGln: 1.378 ± 0.035
3.399IleArg: 3.399 ± 0.063
2.894IleSer: 2.894 ± 0.054
2.743IleThr: 2.743 ± 0.052
3.719IleVal: 3.719 ± 0.067
0.771IleTrp: 0.771 ± 0.022
1.137IleTyr: 1.137 ± 0.036
0.002IleXaa: 0.002 ± 0.001
Lys
4.151LysAla: 4.151 ± 0.073
0.226LysCys: 0.226 ± 0.014
1.836LysAsp: 1.836 ± 0.043
1.699LysGlu: 1.699 ± 0.045
1.02LysPhe: 1.02 ± 0.033
2.845LysGly: 2.845 ± 0.058
0.624LysHis: 0.624 ± 0.024
1.799LysIle: 1.799 ± 0.043
1.401LysLys: 1.401 ± 0.046
3.211LysLeu: 3.211 ± 0.054
0.936LysMet: 0.936 ± 0.029
0.894LysAsn: 0.894 ± 0.031
2.008LysPro: 2.008 ± 0.046
1.098LysGln: 1.098 ± 0.032
2.334LysArg: 2.334 ± 0.051
1.817LysSer: 1.817 ± 0.045
2.112LysThr: 2.112 ± 0.048
2.477LysVal: 2.477 ± 0.054
0.445LysTrp: 0.445 ± 0.019
0.753LysTyr: 0.753 ± 0.03
0.001LysXaa: 0.001 ± 0.001
Leu
12.308LeuAla: 12.308 ± 0.132
0.954LeuCys: 0.954 ± 0.029
6.046LeuAsp: 6.046 ± 0.09
5.257LeuGlu: 5.257 ± 0.084
3.55LeuPhe: 3.55 ± 0.069
8.252LeuGly: 8.252 ± 0.106
1.946LeuHis: 1.946 ± 0.041
5.259LeuIle: 5.259 ± 0.085
3.453LeuLys: 3.453 ± 0.048
8.668LeuLeu: 8.668 ± 0.117
2.636LeuMet: 2.636 ± 0.051
2.898LeuAsn: 2.898 ± 0.059
5.538LeuPro: 5.538 ± 0.076
2.946LeuGln: 2.946 ± 0.057
7.015LeuArg: 7.015 ± 0.102
6.341LeuSer: 6.341 ± 0.083
6.05LeuThr: 6.05 ± 0.076
6.79LeuVal: 6.79 ± 0.092
1.348LeuTrp: 1.348 ± 0.038
1.938LeuTyr: 1.938 ± 0.048
0.002LeuXaa: 0.002 ± 0.001
Met
3.435MetAla: 3.435 ± 0.066
0.217MetCys: 0.217 ± 0.013
1.457MetAsp: 1.457 ± 0.036
1.333MetGlu: 1.333 ± 0.035
0.82MetPhe: 0.82 ± 0.03
2.213MetGly: 2.213 ± 0.05
0.51MetHis: 0.51 ± 0.024
1.535MetIle: 1.535 ± 0.041
1.097MetLys: 1.097 ± 0.034
2.6MetLeu: 2.6 ± 0.058
0.777MetMet: 0.777 ± 0.027
0.907MetAsn: 0.907 ± 0.029
1.505MetPro: 1.505 ± 0.038
1.104MetGln: 1.104 ± 0.033
1.91MetArg: 1.91 ± 0.042
1.697MetSer: 1.697 ± 0.036
2.079MetThr: 2.079 ± 0.045
1.892MetVal: 1.892 ± 0.049
0.258MetTrp: 0.258 ± 0.016
0.349MetTyr: 0.349 ± 0.021
0.0MetXaa: 0.0 ± 0.0
Asn
3.123AsnAla: 3.123 ± 0.055
0.291AsnCys: 0.291 ± 0.017
1.488AsnAsp: 1.488 ± 0.043
1.216AsnGlu: 1.216 ± 0.033
0.998AsnPhe: 0.998 ± 0.029
2.511AsnGly: 2.511 ± 0.048
0.518AsnHis: 0.518 ± 0.021
1.373AsnIle: 1.373 ± 0.037
0.769AsnLys: 0.769 ± 0.027
2.602AsnLeu: 2.602 ± 0.051
0.691AsnMet: 0.691 ± 0.025
0.646AsnAsn: 0.646 ± 0.024
1.996AsnPro: 1.996 ± 0.034
0.823AsnGln: 0.823 ± 0.026
1.915AsnArg: 1.915 ± 0.039
1.219AsnSer: 1.219 ± 0.037
1.402AsnThr: 1.402 ± 0.036
1.796AsnVal: 1.796 ± 0.052
0.497AsnTrp: 0.497 ± 0.024
0.674AsnTyr: 0.674 ± 0.025
0.0AsnXaa: 0.0 ± 0.0
Pro
5.621ProAla: 5.621 ± 0.092
0.411ProCys: 0.411 ± 0.019
4.212ProAsp: 4.212 ± 0.058
4.382ProGlu: 4.382 ± 0.073
1.989ProPhe: 1.989 ± 0.041
4.663ProGly: 4.663 ± 0.069
1.106ProHis: 1.106 ± 0.03
2.386ProIle: 2.386 ± 0.048
1.807ProLys: 1.807 ± 0.043
4.555ProLeu: 4.555 ± 0.072
1.308ProMet: 1.308 ± 0.039
1.468ProAsn: 1.468 ± 0.043
2.319ProPro: 2.319 ± 0.056
1.798ProGln: 1.798 ± 0.044
2.878ProArg: 2.878 ± 0.054
2.516ProSer: 2.516 ± 0.051
2.489ProThr: 2.489 ± 0.045
4.346ProVal: 4.346 ± 0.062
0.719ProTrp: 0.719 ± 0.027
1.214ProTyr: 1.214 ± 0.036
0.002ProXaa: 0.002 ± 0.001
Gln
4.736GlnAla: 4.736 ± 0.082
0.235GlnCys: 0.235 ± 0.015
1.913GlnAsp: 1.913 ± 0.048
1.68GlnGlu: 1.68 ± 0.041
1.191GlnPhe: 1.191 ± 0.034
2.873GlnGly: 2.873 ± 0.053
0.634GlnHis: 0.634 ± 0.025
2.213GlnIle: 2.213 ± 0.046
1.211GlnLys: 1.211 ± 0.034
2.99GlnLeu: 2.99 ± 0.057
1.194GlnMet: 1.194 ± 0.034
0.969GlnAsn: 0.969 ± 0.025
1.862GlnPro: 1.862 ± 0.045
1.283GlnGln: 1.283 ± 0.045
2.446GlnArg: 2.446 ± 0.053
1.761GlnSer: 1.761 ± 0.047
1.876GlnThr: 1.876 ± 0.045
2.714GlnVal: 2.714 ± 0.047
0.437GlnTrp: 0.437 ± 0.02
0.663GlnTyr: 0.663 ± 0.023
0.0GlnXaa: 0.0 ± 0.0
Arg
8.196ArgAla: 8.196 ± 0.104
0.547ArgCys: 0.547 ± 0.023
4.287ArgAsp: 4.287 ± 0.067
3.768ArgGlu: 3.768 ± 0.065
2.738ArgPhe: 2.738 ± 0.052
4.607ArgGly: 4.607 ± 0.062
1.612ArgHis: 1.612 ± 0.041
3.915ArgIle: 3.915 ± 0.067
2.577ArgLys: 2.577 ± 0.052
7.313ArgLeu: 7.313 ± 0.114
2.03ArgMet: 2.03 ± 0.041
1.929ArgAsn: 1.929 ± 0.037
3.55ArgPro: 3.55 ± 0.064
2.576ArgGln: 2.576 ± 0.054
5.182ArgArg: 5.182 ± 0.088
3.282ArgSer: 3.282 ± 0.052
3.007ArgThr: 3.007 ± 0.056
4.777ArgVal: 4.777 ± 0.067
0.985ArgTrp: 0.985 ± 0.035
1.521ArgTyr: 1.521 ± 0.038
0.001ArgXaa: 0.001 ± 0.001
Ser
5.635SerAla: 5.635 ± 0.074
0.464SerCys: 0.464 ± 0.023
3.33SerAsp: 3.33 ± 0.057
2.83SerGlu: 2.83 ± 0.063
2.114SerPhe: 2.114 ± 0.047
5.243SerGly: 5.243 ± 0.073
1.079SerHis: 1.079 ± 0.035
2.359SerIle: 2.359 ± 0.048
1.558SerLys: 1.558 ± 0.037
4.652SerLeu: 4.652 ± 0.077
1.365SerMet: 1.365 ± 0.036
1.334SerAsn: 1.334 ± 0.03
2.512SerPro: 2.512 ± 0.046
1.67SerGln: 1.67 ± 0.037
3.191SerArg: 3.191 ± 0.061
2.344SerSer: 2.344 ± 0.054
2.347SerThr: 2.347 ± 0.052
3.806SerVal: 3.806 ± 0.052
0.677SerTrp: 0.677 ± 0.021
1.219SerTyr: 1.219 ± 0.037
0.003SerXaa: 0.003 ± 0.002
Thr
5.955ThrAla: 5.955 ± 0.089
0.523ThrCys: 0.523 ± 0.024
3.103ThrAsp: 3.103 ± 0.057
3.093ThrGlu: 3.093 ± 0.054
1.959ThrPhe: 1.959 ± 0.044
5.215ThrGly: 5.215 ± 0.073
1.184ThrHis: 1.184 ± 0.035
2.713ThrIle: 2.713 ± 0.051
1.484ThrLys: 1.484 ± 0.041
5.589ThrLeu: 5.589 ± 0.076
1.221ThrMet: 1.221 ± 0.035
1.272ThrAsn: 1.272 ± 0.033
3.331ThrPro: 3.331 ± 0.061
1.7ThrGln: 1.7 ± 0.039
3.564ThrArg: 3.564 ± 0.066
2.374ThrSer: 2.374 ± 0.048
2.621ThrThr: 2.621 ± 0.054
4.156ThrVal: 4.156 ± 0.062
0.664ThrTrp: 0.664 ± 0.022
1.257ThrTyr: 1.257 ± 0.039
0.005ThrXaa: 0.005 ± 0.002
Val
8.413ValAla: 8.413 ± 0.09
0.689ValCys: 0.689 ± 0.026
4.056ValAsp: 4.056 ± 0.066
4.457ValGlu: 4.457 ± 0.071
2.963ValPhe: 2.963 ± 0.061
5.426ValGly: 5.426 ± 0.086
1.4ValHis: 1.4 ± 0.033
4.246ValIle: 4.246 ± 0.062
2.237ValLys: 2.237 ± 0.057
7.508ValLeu: 7.508 ± 0.1
2.091ValMet: 2.091 ± 0.049
1.962ValAsn: 1.962 ± 0.047
3.69ValPro: 3.69 ± 0.057
2.395ValGln: 2.395 ± 0.048
4.353ValArg: 4.353 ± 0.064
4.236ValSer: 4.236 ± 0.07
4.452ValThr: 4.452 ± 0.068
5.63ValVal: 5.63 ± 0.082
0.998ValTrp: 0.998 ± 0.029
1.549ValTyr: 1.549 ± 0.04
0.001ValXaa: 0.001 ± 0.001
Trp
1.528TrpAla: 1.528 ± 0.042
0.17TrpCys: 0.17 ± 0.011
0.781TrpAsp: 0.781 ± 0.029
0.647TrpGlu: 0.647 ± 0.026
0.62TrpPhe: 0.62 ± 0.021
0.986TrpGly: 0.986 ± 0.029
0.333TrpHis: 0.333 ± 0.017
0.674TrpIle: 0.674 ± 0.023
0.517TrpLys: 0.517 ± 0.02
1.662TrpLeu: 1.662 ± 0.042
0.416TrpMet: 0.416 ± 0.018
0.43TrpAsn: 0.43 ± 0.018
0.747TrpPro: 0.747 ± 0.028
0.616TrpGln: 0.616 ± 0.026
1.135TrpArg: 1.135 ± 0.034
0.823TrpSer: 0.823 ± 0.031
0.791TrpThr: 0.791 ± 0.024
0.992TrpVal: 0.992 ± 0.034
0.231TrpTrp: 0.231 ± 0.017
0.294TrpTyr: 0.294 ± 0.018
0.002TrpXaa: 0.002 ± 0.001
Tyr
2.45TyrAla: 2.45 ± 0.05
0.279TyrCys: 0.279 ± 0.017
1.67TyrAsp: 1.67 ± 0.039
1.308TyrGlu: 1.308 ± 0.041
0.954TyrPhe: 0.954 ± 0.035
2.031TyrGly: 2.031 ± 0.046
0.566TyrHis: 0.566 ± 0.023
0.908TyrIle: 0.908 ± 0.03
0.659TyrLys: 0.659 ± 0.024
2.325TyrLeu: 2.325 ± 0.047
0.525TyrMet: 0.525 ± 0.019
0.589TyrAsn: 0.589 ± 0.024
1.083TyrPro: 1.083 ± 0.03
0.751TyrGln: 0.751 ± 0.029
1.617TyrArg: 1.617 ± 0.037
1.16TyrSer: 1.16 ± 0.035
1.09TyrThr: 1.09 ± 0.034
1.637TyrVal: 1.637 ± 0.041
0.393TyrTrp: 0.393 ± 0.018
0.608TyrTyr: 0.608 ± 0.025
0.0TyrXaa: 0.0 ± 0.0
Xaa
0.002XaaAla: 0.002 ± 0.001
0.001XaaCys: 0.001 ± 0.001
0.001XaaAsp: 0.001 ± 0.001
0.0XaaGlu: 0.0 ± 0.0
0.004XaaPhe: 0.004 ± 0.002
0.004XaaGly: 0.004 ± 0.002
0.001XaaHis: 0.001 ± 0.001
0.0XaaIle: 0.0 ± 0.0
0.0XaaLys: 0.0 ± 0.0
0.002XaaLeu: 0.002 ± 0.001
0.0XaaMet: 0.0 ± 0.0
0.001XaaAsn: 0.001 ± 0.001
0.003XaaPro: 0.003 ± 0.002
0.001XaaGln: 0.001 ± 0.001
0.004XaaArg: 0.004 ± 0.002
0.003XaaSer: 0.003 ± 0.002
0.004XaaThr: 0.004 ± 0.002
0.002XaaVal: 0.002 ± 0.001
0.0XaaTrp: 0.0 ± 0.0
0.001XaaTyr: 0.001 ± 0.001
1.299XaaXaa: 1.299 ± 0.339
Statistics based on 3603 proteins (1059865 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