Amino acid dipepetide frequency for Lactobacillus apis

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
6.049AlaAla: 6.049 ± 0.15
0.455AlaCys: 0.455 ± 0.03
4.288AlaAsp: 4.288 ± 0.112
4.335AlaGlu: 4.335 ± 0.102
2.895AlaPhe: 2.895 ± 0.079
4.942AlaGly: 4.942 ± 0.114
1.286AlaHis: 1.286 ± 0.06
5.791AlaIle: 5.791 ± 0.154
6.365AlaLys: 6.365 ± 0.15
6.73AlaLeu: 6.73 ± 0.13
1.737AlaMet: 1.737 ± 0.069
3.906AlaAsn: 3.906 ± 0.115
2.042AlaPro: 2.042 ± 0.076
3.135AlaGln: 3.135 ± 0.097
2.563AlaArg: 2.563 ± 0.076
4.255AlaSer: 4.255 ± 0.089
4.138AlaThr: 4.138 ± 0.092
5.067AlaVal: 5.067 ± 0.116
0.591AlaTrp: 0.591 ± 0.037
2.418AlaTyr: 2.418 ± 0.074
0.0AlaXaa: 0.0 ± 0.0
Cys
0.414CysAla: 0.414 ± 0.028
0.078CysCys: 0.078 ± 0.012
0.404CysAsp: 0.404 ± 0.028
0.33CysGlu: 0.33 ± 0.023
0.306CysPhe: 0.306 ± 0.024
0.55CysGly: 0.55 ± 0.035
0.127CysHis: 0.127 ± 0.018
0.349CysIle: 0.349 ± 0.029
0.281CysLys: 0.281 ± 0.027
0.689CysLeu: 0.689 ± 0.042
0.125CysMet: 0.125 ± 0.016
0.265CysAsn: 0.265 ± 0.022
0.244CysPro: 0.244 ± 0.027
0.26CysGln: 0.26 ± 0.027
0.182CysArg: 0.182 ± 0.018
0.496CysSer: 0.496 ± 0.036
0.291CysThr: 0.291 ± 0.026
0.375CysVal: 0.375 ± 0.028
0.057CysTrp: 0.057 ± 0.013
0.234CysTyr: 0.234 ± 0.022
0.0CysXaa: 0.0 ± 0.0
Asp
3.951AspAla: 3.951 ± 0.131
0.375AspCys: 0.375 ± 0.025
3.681AspAsp: 3.681 ± 0.113
4.667AspGlu: 4.667 ± 0.115
2.988AspPhe: 2.988 ± 0.075
3.634AspGly: 3.634 ± 0.123
1.298AspHis: 1.298 ± 0.046
3.865AspIle: 3.865 ± 0.103
4.208AspLys: 4.208 ± 0.106
6.025AspLeu: 6.025 ± 0.134
1.425AspMet: 1.425 ± 0.061
3.08AspAsn: 3.08 ± 0.076
2.297AspPro: 2.297 ± 0.08
2.992AspGln: 2.992 ± 0.118
2.073AspArg: 2.073 ± 0.061
3.601AspSer: 3.601 ± 0.102
2.965AspThr: 2.965 ± 0.094
3.806AspVal: 3.806 ± 0.108
0.683AspTrp: 0.683 ± 0.042
2.709AspTyr: 2.709 ± 0.076
0.0AspXaa: 0.0 ± 0.0
Glu
4.101GluAla: 4.101 ± 0.101
0.306GluCys: 0.306 ± 0.024
3.418GluAsp: 3.418 ± 0.097
4.241GluGlu: 4.241 ± 0.121
2.266GluPhe: 2.266 ± 0.077
3.02GluGly: 3.02 ± 0.1
1.232GluHis: 1.232 ± 0.05
4.942GluIle: 4.942 ± 0.112
5.467GluLys: 5.467 ± 0.102
6.217GluLeu: 6.217 ± 0.115
1.835GluMet: 1.835 ± 0.058
3.64GluAsn: 3.64 ± 0.079
1.891GluPro: 1.891 ± 0.062
3.088GluGln: 3.088 ± 0.09
2.372GluArg: 2.372 ± 0.086
2.918GluSer: 2.918 ± 0.087
3.094GluThr: 3.094 ± 0.086
4.079GluVal: 4.079 ± 0.11
0.498GluTrp: 0.498 ± 0.031
2.044GluTyr: 2.044 ± 0.063
0.0GluXaa: 0.0 ± 0.0
Phe
3.275PheAla: 3.275 ± 0.094
0.291PheCys: 0.291 ± 0.023
2.92PheAsp: 2.92 ± 0.089
2.229PheGlu: 2.229 ± 0.069
2.11PhePhe: 2.11 ± 0.079
2.928PheGly: 2.928 ± 0.082
0.74PheHis: 0.74 ± 0.035
3.123PheIle: 3.123 ± 0.109
2.94PheLys: 2.94 ± 0.078
4.033PheLeu: 4.033 ± 0.112
1.019PheMet: 1.019 ± 0.049
2.467PheAsn: 2.467 ± 0.075
1.335PhePro: 1.335 ± 0.055
1.259PheGln: 1.259 ± 0.055
1.304PheArg: 1.304 ± 0.054
3.076PheSer: 3.076 ± 0.096
2.549PheThr: 2.549 ± 0.077
2.957PheVal: 2.957 ± 0.085
0.525PheTrp: 0.525 ± 0.034
1.802PheTyr: 1.802 ± 0.07
0.0PheXaa: 0.0 ± 0.0
Gly
4.197GlyAla: 4.197 ± 0.106
0.461GlyCys: 0.461 ± 0.036
3.422GlyAsp: 3.422 ± 0.097
3.515GlyGlu: 3.515 ± 0.088
2.943GlyPhe: 2.943 ± 0.085
3.945GlyGly: 3.945 ± 0.105
1.431GlyHis: 1.431 ± 0.053
5.202GlyIle: 5.202 ± 0.118
5.436GlyLys: 5.436 ± 0.11
6.027GlyLeu: 6.027 ± 0.132
1.729GlyMet: 1.729 ± 0.067
3.119GlyAsn: 3.119 ± 0.096
1.474GlyPro: 1.474 ± 0.063
2.828GlyGln: 2.828 ± 0.078
2.325GlyArg: 2.325 ± 0.091
3.925GlySer: 3.925 ± 0.109
3.779GlyThr: 3.779 ± 0.091
4.214GlyVal: 4.214 ± 0.093
0.615GlyTrp: 0.615 ± 0.038
2.694GlyTyr: 2.694 ± 0.077
0.0GlyXaa: 0.0 ± 0.0
His
1.171HisAla: 1.171 ± 0.051
0.133HisCys: 0.133 ± 0.02
1.316HisAsp: 1.316 ± 0.057
1.218HisGlu: 1.218 ± 0.052
1.064HisPhe: 1.064 ± 0.056
1.368HisGly: 1.368 ± 0.061
0.568HisHis: 0.568 ± 0.033
1.249HisIle: 1.249 ± 0.05
1.089HisLys: 1.089 ± 0.048
1.784HisLeu: 1.784 ± 0.061
0.41HisMet: 0.41 ± 0.029
0.941HisAsn: 0.941 ± 0.048
0.867HisPro: 0.867 ± 0.045
0.783HisGln: 0.783 ± 0.04
0.798HisArg: 0.798 ± 0.043
1.025HisSer: 1.025 ± 0.048
0.851HisThr: 0.851 ± 0.047
1.312HisVal: 1.312 ± 0.051
0.205HisTrp: 0.205 ± 0.024
0.992HisTyr: 0.992 ± 0.047
0.0HisXaa: 0.0 ± 0.0
Ile
6.049IleAla: 6.049 ± 0.109
0.609IleCys: 0.609 ± 0.037
5.122IleAsp: 5.122 ± 0.103
4.284IleGlu: 4.284 ± 0.125
3.117IlePhe: 3.117 ± 0.111
5.096IleGly: 5.096 ± 0.114
1.185IleHis: 1.185 ± 0.056
5.604IleIle: 5.604 ± 0.147
5.461IleLys: 5.461 ± 0.111
6.615IleLeu: 6.615 ± 0.16
1.749IleMet: 1.749 ± 0.068
4.468IleAsn: 4.468 ± 0.125
2.801IlePro: 2.801 ± 0.088
2.206IleGln: 2.206 ± 0.072
2.504IleArg: 2.504 ± 0.075
5.292IleSer: 5.292 ± 0.122
4.407IleThr: 4.407 ± 0.097
5.235IleVal: 5.235 ± 0.129
0.654IleTrp: 0.654 ± 0.035
2.502IleTyr: 2.502 ± 0.077
0.0IleXaa: 0.0 ± 0.0
Lys
5.34LysAla: 5.34 ± 0.154
0.277LysCys: 0.277 ± 0.023
4.571LysAsp: 4.571 ± 0.118
5.149LysGlu: 5.149 ± 0.104
2.432LysPhe: 2.432 ± 0.071
3.851LysGly: 3.851 ± 0.102
1.298LysHis: 1.298 ± 0.049
5.932LysIle: 5.932 ± 0.121
7.425LysLys: 7.425 ± 0.163
6.867LysLeu: 6.867 ± 0.123
2.467LysMet: 2.467 ± 0.077
4.956LysAsn: 4.956 ± 0.11
2.588LysPro: 2.588 ± 0.074
3.716LysGln: 3.716 ± 0.108
3.277LysArg: 3.277 ± 0.093
4.087LysSer: 4.087 ± 0.117
4.466LysThr: 4.466 ± 0.1
5.135LysVal: 5.135 ± 0.101
0.619LysTrp: 0.619 ± 0.035
3.057LysTyr: 3.057 ± 0.083
0.0LysXaa: 0.0 ± 0.0
Leu
7.823LeuAla: 7.823 ± 0.154
0.597LeuCys: 0.597 ± 0.04
5.547LeuAsp: 5.547 ± 0.105
4.893LeuGlu: 4.893 ± 0.11
4.099LeuPhe: 4.099 ± 0.128
5.951LeuGly: 5.951 ± 0.129
1.63LeuHis: 1.63 ± 0.065
7.218LeuIle: 7.218 ± 0.17
6.873LeuLys: 6.873 ± 0.116
8.949LeuLeu: 8.949 ± 0.196
2.131LeuMet: 2.131 ± 0.072
5.227LeuAsn: 5.227 ± 0.113
3.828LeuPro: 3.828 ± 0.091
3.303LeuGln: 3.303 ± 0.085
3.572LeuArg: 3.572 ± 0.088
6.402LeuSer: 6.402 ± 0.121
6.172LeuThr: 6.172 ± 0.122
6.595LeuVal: 6.595 ± 0.141
0.726LeuTrp: 0.726 ± 0.038
2.766LeuTyr: 2.766 ± 0.082
0.0LeuXaa: 0.0 ± 0.0
Met
2.016MetAla: 2.016 ± 0.067
0.137MetCys: 0.137 ± 0.015
1.241MetAsp: 1.241 ± 0.049
1.189MetGlu: 1.189 ± 0.049
1.023MetPhe: 1.023 ± 0.067
1.569MetGly: 1.569 ± 0.056
0.519MetHis: 0.519 ± 0.036
1.878MetIle: 1.878 ± 0.071
1.991MetLys: 1.991 ± 0.057
2.165MetLeu: 2.165 ± 0.061
0.728MetMet: 0.728 ± 0.045
1.366MetAsn: 1.366 ± 0.049
1.099MetPro: 1.099 ± 0.047
1.077MetGln: 1.077 ± 0.046
0.984MetArg: 0.984 ± 0.048
1.747MetSer: 1.747 ± 0.059
1.731MetThr: 1.731 ± 0.059
1.595MetVal: 1.595 ± 0.062
0.172MetTrp: 0.172 ± 0.021
0.691MetTyr: 0.691 ± 0.045
0.0MetXaa: 0.0 ± 0.0
Asn
3.541AsnAla: 3.541 ± 0.118
0.377AsnCys: 0.377 ± 0.029
3.416AsnAsp: 3.416 ± 0.105
3.457AsnGlu: 3.457 ± 0.094
2.586AsnPhe: 2.586 ± 0.079
3.9AsnGly: 3.9 ± 0.1
1.204AsnHis: 1.204 ± 0.051
3.65AsnIle: 3.65 ± 0.103
4.103AsnLys: 4.103 ± 0.107
5.233AsnLeu: 5.233 ± 0.1
1.419AsnMet: 1.419 ± 0.053
3.295AsnAsn: 3.295 ± 0.14
2.348AsnPro: 2.348 ± 0.071
2.602AsnGln: 2.602 ± 0.08
2.036AsnArg: 2.036 ± 0.06
3.617AsnSer: 3.617 ± 0.113
2.637AsnThr: 2.637 ± 0.095
3.467AsnVal: 3.467 ± 0.085
0.634AsnTrp: 0.634 ± 0.037
2.331AsnTyr: 2.331 ± 0.076
0.0AsnXaa: 0.0 ± 0.0
Pro
2.67ProAla: 2.67 ± 0.082
0.131ProCys: 0.131 ± 0.017
2.317ProAsp: 2.317 ± 0.072
2.91ProGlu: 2.91 ± 0.096
1.556ProPhe: 1.556 ± 0.061
2.046ProGly: 2.046 ± 0.063
0.619ProHis: 0.619 ± 0.041
2.649ProIle: 2.649 ± 0.091
2.772ProLys: 2.772 ± 0.088
3.029ProLeu: 3.029 ± 0.096
0.705ProMet: 0.705 ± 0.04
1.919ProAsn: 1.919 ± 0.063
0.539ProPro: 0.539 ± 0.03
1.347ProGln: 1.347 ± 0.055
1.005ProArg: 1.005 ± 0.051
2.014ProSer: 2.014 ± 0.065
2.112ProThr: 2.112 ± 0.073
2.633ProVal: 2.633 ± 0.08
0.299ProTrp: 0.299 ± 0.026
1.275ProTyr: 1.275 ± 0.057
0.0ProXaa: 0.0 ± 0.0
Gln
3.133GlnAla: 3.133 ± 0.09
0.141GlnCys: 0.141 ± 0.018
2.194GlnAsp: 2.194 ± 0.083
2.709GlnGlu: 2.709 ± 0.088
1.503GlnPhe: 1.503 ± 0.058
2.157GlnGly: 2.157 ± 0.064
0.675GlnHis: 0.675 ± 0.035
3.375GlnIle: 3.375 ± 0.086
3.927GlnLys: 3.927 ± 0.103
4.232GlnLeu: 4.232 ± 0.102
1.206GlnMet: 1.206 ± 0.043
2.344GlnAsn: 2.344 ± 0.086
1.337GlnPro: 1.337 ± 0.057
1.897GlnGln: 1.897 ± 0.088
1.526GlnArg: 1.526 ± 0.061
2.106GlnSer: 2.106 ± 0.073
2.401GlnThr: 2.401 ± 0.073
3.109GlnVal: 3.109 ± 0.08
0.34GlnTrp: 0.34 ± 0.029
1.423GlnTyr: 1.423 ± 0.059
0.0GlnXaa: 0.0 ± 0.0
Arg
2.5ArgAla: 2.5 ± 0.069
0.201ArgCys: 0.201 ± 0.019
2.024ArgAsp: 2.024 ± 0.076
2.518ArgGlu: 2.518 ± 0.085
1.558ArgPhe: 1.558 ± 0.057
2.022ArgGly: 2.022 ± 0.077
0.826ArgHis: 0.826 ± 0.042
2.897ArgIle: 2.897 ± 0.083
2.902ArgLys: 2.902 ± 0.09
3.33ArgLeu: 3.33 ± 0.1
0.945ArgMet: 0.945 ± 0.049
1.973ArgAsn: 1.973 ± 0.066
1.232ArgPro: 1.232 ± 0.056
1.702ArgGln: 1.702 ± 0.056
1.774ArgArg: 1.774 ± 0.072
1.999ArgSer: 1.999 ± 0.069
1.837ArgThr: 1.837 ± 0.062
2.479ArgVal: 2.479 ± 0.082
0.254ArgTrp: 0.254 ± 0.021
1.692ArgTyr: 1.692 ± 0.056
0.0ArgXaa: 0.0 ± 0.0
Ser
4.3SerAla: 4.3 ± 0.121
0.344SerCys: 0.344 ± 0.027
3.814SerAsp: 3.814 ± 0.103
3.508SerGlu: 3.508 ± 0.091
3.023SerPhe: 3.023 ± 0.095
4.532SerGly: 4.532 ± 0.108
1.175SerHis: 1.175 ± 0.051
4.382SerIle: 4.382 ± 0.113
4.282SerLys: 4.282 ± 0.102
5.922SerLeu: 5.922 ± 0.128
1.464SerMet: 1.464 ± 0.051
3.467SerAsn: 3.467 ± 0.108
1.8SerPro: 1.8 ± 0.058
2.539SerGln: 2.539 ± 0.072
2.264SerArg: 2.264 ± 0.066
4.558SerSer: 4.558 ± 0.139
3.457SerThr: 3.457 ± 0.1
4.081SerVal: 4.081 ± 0.084
0.634SerTrp: 0.634 ± 0.035
2.625SerTyr: 2.625 ± 0.084
0.0SerXaa: 0.0 ± 0.0
Thr
4.349ThrAla: 4.349 ± 0.111
0.303ThrCys: 0.303 ± 0.029
3.629ThrAsp: 3.629 ± 0.105
3.246ThrGlu: 3.246 ± 0.087
2.42ThrPhe: 2.42 ± 0.077
4.202ThrGly: 4.202 ± 0.092
0.951ThrHis: 0.951 ± 0.045
4.446ThrIle: 4.446 ± 0.098
4.314ThrLys: 4.314 ± 0.097
4.919ThrLeu: 4.919 ± 0.092
1.198ThrMet: 1.198 ± 0.059
3.178ThrAsn: 3.178 ± 0.102
2.424ThrPro: 2.424 ± 0.08
1.942ThrGln: 1.942 ± 0.062
1.743ThrArg: 1.743 ± 0.06
3.705ThrSer: 3.705 ± 0.102
3.5ThrThr: 3.5 ± 0.085
4.087ThrVal: 4.087 ± 0.091
0.509ThrTrp: 0.509 ± 0.033
2.022ThrTyr: 2.022 ± 0.067
0.0ThrXaa: 0.0 ± 0.0
Val
5.202ValAla: 5.202 ± 0.118
0.474ValCys: 0.474 ± 0.029
4.154ValAsp: 4.154 ± 0.107
3.796ValGlu: 3.796 ± 0.098
2.641ValPhe: 2.641 ± 0.069
4.427ValGly: 4.427 ± 0.101
1.107ValHis: 1.107 ± 0.048
5.532ValIle: 5.532 ± 0.122
5.317ValLys: 5.317 ± 0.11
6.25ValLeu: 6.25 ± 0.137
1.612ValMet: 1.612 ± 0.052
3.824ValAsn: 3.824 ± 0.101
2.737ValPro: 2.737 ± 0.067
2.375ValGln: 2.375 ± 0.074
2.297ValArg: 2.297 ± 0.078
4.388ValSer: 4.388 ± 0.094
4.263ValThr: 4.263 ± 0.098
5.026ValVal: 5.026 ± 0.115
0.519ValTrp: 0.519 ± 0.037
2.307ValTyr: 2.307 ± 0.07
0.0ValXaa: 0.0 ± 0.0
Trp
0.572TrpAla: 0.572 ± 0.036
0.078TrpCys: 0.078 ± 0.012
0.48TrpAsp: 0.48 ± 0.034
0.39TrpGlu: 0.39 ± 0.029
0.404TrpPhe: 0.404 ± 0.028
0.603TrpGly: 0.603 ± 0.042
0.275TrpHis: 0.275 ± 0.026
0.634TrpIle: 0.634 ± 0.037
0.445TrpLys: 0.445 ± 0.034
1.171TrpLeu: 1.171 ± 0.053
0.248TrpMet: 0.248 ± 0.025
0.488TrpAsn: 0.488 ± 0.033
0.273TrpPro: 0.273 ± 0.024
0.597TrpGln: 0.597 ± 0.039
0.379TrpArg: 0.379 ± 0.027
0.537TrpSer: 0.537 ± 0.037
0.486TrpThr: 0.486 ± 0.033
0.515TrpVal: 0.515 ± 0.032
0.09TrpTrp: 0.09 ± 0.014
0.392TrpTyr: 0.392 ± 0.03
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.334TyrAla: 2.334 ± 0.073
0.287TyrCys: 0.287 ± 0.023
2.362TyrAsp: 2.362 ± 0.075
2.087TyrGlu: 2.087 ± 0.072
1.95TyrPhe: 1.95 ± 0.072
2.541TyrGly: 2.541 ± 0.08
0.999TyrHis: 0.999 ± 0.047
2.243TyrIle: 2.243 ± 0.074
1.911TyrLys: 1.911 ± 0.069
4.113TyrLeu: 4.113 ± 0.117
0.765TyrMet: 0.765 ± 0.038
1.932TyrAsn: 1.932 ± 0.069
1.392TyrPro: 1.392 ± 0.057
2.087TyrGln: 2.087 ± 0.078
1.688TyrArg: 1.688 ± 0.055
2.422TyrSer: 2.422 ± 0.075
1.95TyrThr: 1.95 ± 0.066
2.483TyrVal: 2.483 ± 0.063
0.431TyrTrp: 0.431 ± 0.035
1.62TyrTyr: 1.62 ± 0.069
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 1508 proteins (487674 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