VopE, YopE, ExoSについて

Published on by anesth

Prediction of mitochondrial targeting sequencesで、VopEのミトコンドリア標的配列MTSを調べて見る。
コレラ菌のゲノムのデータベースより、VopEの配列をV. cholerae AM-19226: A33_1662 – hypothetical protein
引っ張ってくる。
VopE_info
VopEは、204アミノ酸からなる。
MKVLQRTCNYIRSNLNQSISRLNVAHIRNVKNERPISISVNAEANFFEGVSILNKPRTRVSNMRQLLPLESFERISKAYESKDVRLVARDSAFLGLQRAIRSERFELDNFKSNFPYLTVANGSLRTIVTGLKGIVEFDDGQMKDIAKEILDTQICGVPFSQFGTCSGSARDLVDNASYQQEKIIIKHLNELFEKVALHLVGAEV
VopE

MKVLQRTCNYIRSNLNQSISRLがMTSで、PROBABILITY of export to mitochondriaは0.9695！

??MitoPlotの結果：
Sequence name: VOPE
Input sequence length : 204 aa

VALUES OF COMPUTED PARAMETERS
Net charge of query sequence : +5
Analysed region : 32
Number of basic residues in targeting sequence : 6
Number of acidic residues in targeting sequence : 0
Cleavage site : 23
Cleaved sequence : MKVLQRTCNYIRSNLNQSISRL

HYDROPHOBIC SCALE USED
GES KD GVH1 ECS
H17 : 0.959 0.924 0.140 0.408
MesoH : -0.989 0.081 -0.442 0.131
MuHd_075 : 27.480 16.491 7.573 6.803
MuHd_095 : 40.447 34.391 13.510 10.344
MuHd_100 : 41.205 29.999 13.143 9.430
MuHd_105 : 40.001 24.098 10.997 8.579
Hmax_075 : -3.383 16.700 0.554 5.700
Hmax_095 : 15.600 19.075 4.824 5.060
Hmax_100 : 15.900 17.600 4.792 5.060
Hmax_105 : 9.713 13.800 1.723 3.080

PROBABILITY of export to mitochondria: 0.9695

ちなみにGAP domain相同性のエルシニア菌のYopEは219AAからなる。
MKISSFISTSLPLPTSVSGSSSVGEMSGRSVSQQTSDQYANNLAGRTESPQGSSLASRIIERLSSVAHSVIGFIQRMFSEGSHKPVVTPAPTPAQMPSPTSFSDSIKQLAAETLPKYMQQLNSLDAEMLQKNHDQFATGSGPLRGSITQCQGLMQFCGGELQAEASAILNTPVCGIPFSQWGTIGGAASAYVASGVDLTQAANEIKGLAQQMQKLLSLM
YopE

??MitoPlotの結果：PROBABILITY　of export to mitochondria: 0.2433で、どうやらVopEとは違うようだ。
似て非なるものなのか？

Sequence name: YOPE
Input sequence length : 219 aa

VALUES OF COMPUTED PARAMETERS
Net charge of query sequence : -1
Analysed region : 24
Number of basic residues in targeting sequence : 1
Number of acidic residues in targeting sequence : 0
Cleavage site : not predictable
Cleaved sequence :

HYDROPHOBIC SCALE USED
GES KD GVH1 ECS
H17 : 1.453 1.018 0.160 0.501
MesoH : 0.224 0.358 -0.140 0.283
MuHd_075 : 6.069 16.199 2.764 3.930
MuHd_095 : 8.434 12.407 3.031 3.604
MuHd_100 : 11.227 16.698 4.171 4.411
MuHd_105 : 14.137 19.911 5.454 5.360
Hmax_075 : 13.200 17.033 3.169 5.763
Hmax_095 : 13.037 12.800 1.999 4.860
Hmax_100 : 15.700 17.400 3.143 6.140
Hmax_105 : 18.550 22.167 4.193 7.023

PROBABILITY　of export to mitochondria: 0.2433

YopEとGAP domain相同性のある緑膿菌ExoSではどうだろうか？
MHIQSLQQSPSFAVELHQAASGRLGQIEARQVATPSEAQQLAQRQDAPKGEGLLARLGAALVRPFVAIMDWLGKLLGSHARTGPQPSQDAQPAVMSSAVVFKQMVLQQALPMTLKGLDKASELATLTPEGLAREHSRLASGDGALRSLSTALAGIRAGSQVEESRIQAGRLLERSIGGIALQQWGTTGGAASQLVLDASPELRREITDQLHQVMSEVALLRQAVESEVSRVSADKALADGLVKRFGADAEKYLGRQPGGIHSDAEVMALGLYTGIHYADLNRALRQGQELDAGQKLIDQGMSAAFEKSGQAEQVVKTFRGTRGGDAFNAVEEGKVGHDDGYLSTSLNPGVARSFGQGTISTVFGRSGIDVSGISNYKNEKEILYNKETDMRVLLSASDEQGVTRRVLEEAALGEQSGHSQGLLDALDLASKPERSGEVQEQDVRLRMRGLDLA
ExoS

??MitoPlotの結果：PROBABILITY　of export to mitochondria: 0.0093でまったく！
Sequence name: EXOS
Input sequence length : 453 aa

VALUES OF COMPUTED PARAMETERS
Net charge of query sequence : -8
Analysed region : 14
Number of basic residues in targeting sequence : 0
Number of acidic residues in targeting sequence : 0
Cleavage site : not predictable
Cleaved sequence :

HYDROPHOBIC SCALE USED
GES KD GVH1 ECS
H17 : 0.912 1.706 0.045 0.535
MesoH : -0.303 0.374 -0.361 0.208
MuHd_075 : 7.305 6.101 3.274 2.177
MuHd_095 : 16.503 7.704 2.957 2.775
MuHd_100 : 18.976 13.565 4.971 4.379
MuHd_105 : 19.761 18.215 6.944 5.392
Hmax_075 : 2.800 4.667 -1.787 2.380
Hmax_095 : 5.862 2.887 -2.111 2.354
Hmax_100 : 9.700 7.400 -0.487 3.540
Hmax_105 : 9.917 11.550 0.205 4.597

PROBABILITY　of export to mitochondria: 0.0093