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Multiple Sequence Alignment Results
Movement Protein sequence
>Aclsv4.2
movement protein apple chlorotic leaf spot virus P863
MATMIRGHRLRIAEGDIPIAGVKSSRIYSDISPFKKASDLMIHWNEFVFKVMPEDIAGDGFRLASIPVIP
SSEVQAVLRKRESTNYVHWGALSISIDALFRKNAGVSGWCYVYDNRWETFEQAMLQKFHFNLDSGSATLV
TSPNFPVSLDDPGLSNSISVAVMFENLNFKFESYPISVRVGNMCRFFDSFLSSVKNKVDSNFLLEASNAD
PLGVGAFGFEQDDQVSELFNYIQTVPTQAIKFREHEIPKGFLGMMGKKKIKSFEFASGSKGMERRKPNRG
KQIDRSFSQRAVPGFRSQNEKVEHQGLSTDSDFENFLRNKRGNKAGVKSTASEGSSVDNISSREFQFARQ
NQAKEDGSSSEFAAQGGRKSKGISGRRKQTSSWKDRGNPGTDTGVHLREHSDPGNVRADGVSGPSGGSEI
NGGSISPRVLQPEGSGQLDQSFQDYLFGPEHQQNDIPSGL
>Apmvrna3.1
movement protein apple mosaic virus RNA3
MTTLGDKPSSDFEVGECSMEQFQQVSNDLHKLMLSAEMRNLPTKGCHVLRLRNMSKTKSLKLESKEQRGF
IAKMADGLRRKFTEMLVGFFIIYVPLIQKTTSGLMTLKMIQSDTGERSDIITDFEASEAKVIMDRWGRSL
VAEAHLELLYSIVCTDIRPEAVVGELMVFWDETMSRRVVYSERGNPIVFPIMETQPSRYLKDKNLLMSMI
RGRIEVGAEGCDVAPMQLKVEPLGDKRQVLTIKPKEEPMKESKDIKIEEVSDGKHLKEQTKAVEMGDKLP
NGNISG
Alignment result of movement protein
Aclsv4.2 MATMIRGHRLRIAEGDIPIAGVKSSRIYSDISPFKKASDLMIHWNEFVFKVMPEDIAGDG 60
Apmvrna3.1 ----------MTTLGDKPSSDFEVG--ECSMEQFQQVSN---DLHKLMLSAEMRNLPTKG 45
: ** * :..: . ..:. *::.*: . :::::.. .::. .*
Aclsv4.2 FRLASIPVIPSSEVQAVLRKRESTNYVHWGALSISIDALFRKN-AGVSGWCYVYDNRWET 119
Apmvrna3.1 CHVLRLRNMSKTKSLKLESKEQ------RGFIAKMADGLRRKFTEMLVGFFIIYVPLIQK 99
:: : :..:: : *.: * :: *.* ** : *: :* :.
Aclsv4.2 FEQAMLQKFHFNLDSGSATLVTSPNFPVSLDDPGLSNSISVAVMFENLNFKFESYPISVR 179
Apmvrna3.1 TTSGLMTLKMIQSDTG------------------------------------------ER 117
..:: :: *:* *
Aclsv4.2 VGNMCRFFDSFLSSVKNKVDSNFLLEASNADPLGVGAFGFEQDDQVSELFNYIQTVPTQA 239
Apmvrna3.1 SDIITDFEASEAKVIMDRWGRSLVAEAHLELLYSIVCTDIRPEAVVGELMVFWDETMSRR 177
. : * * . : :: . .:: ** .: . .:. : *.**: : : . ::
Aclsv4.2 IKFREHEIPKGFLGMMGKKKIKSFEFASGSKGMERRKPNRGKQIDRSFSQRAVPGFRSQN 299
Apmvrna3.1 VVYSERGNPIVFP-------------------IMETQPSR-------------------- 198
: : *: * * : . :*.*
Aclsv4.2 EKVEHQGLSTDSDFENFLRNKRGNKAGVKSTASEGSSVDNISSREFQFARQNQAKEDGSS 359
Apmvrna3.1 ----------------YLKDKNLLMSMIRGRIEVGAEGCDVAPMQLKVEP---------- 232
:*::*. : ::. . *:. :::. :::.
Aclsv4.2 SEFAAQGGRKSKGISGRRKQTSSWKDRGNPGTDTGVHLREHSDPGNVRADGVSGPSGGSE 419
Apmvrna3.1 --------------LGDKRQVLTIKPKEEPMKESKDIKIEEVSDGKHLKEQTKAVEMGDK 278
* ::*. : * : :* .:: *. . *: : ... . *.:
Aclsv4.2 INGGSISPRVLQPEGSGQLDQSFQDYLFGPEHQQNDIPSGL 460
Apmvrna3.1 LPNGNISG--------------------------------- 286
: .*.**
As
we see that there is a big difference in the length of the movement
protein of the Apple chlorotic leaf spot virus P863 and apple mosaic
virus RNA3. So, it is difficult to identify the consensus pattern
with in these sequences but as ClustalW results shows that both
are partial conserved on following 8 positions.
Region 1:
11 RIAEGDIPIAGVKSS 25
1 MTTLGDKPSSDFEVG 15
: ** * :..: .
Region
2:
28
YSDISPFKKASD
39
16
ECSMEQFQQVSN
27
..:. *::.*:
Region
3:
43
HWNEFVFKVMPEDIAGDGFRLASIPVIPSSEVQAVLRKRE
82
28 DLHKLMLSAEMRNLPTKGCHVLRLRNMSKTKSLKLESKEQ
67
. :::::.. .::. .* :: : :..:: : *.:
Region 4:
89 WGALSISIDALFRKN-AGVSGWCYVYDNRWETFEQAMLQKFHFNLDSG 135
68 RGFIAKMADGLRRKFTEMLVGFFIIYVPLIQKTTSGLMTLKMIQSDTG
115
* :: *.* ** : *: :* :. ..:: :: *:*
Region 5:
178 VRVGNMCRFFDSFLSSVKNKVDSNFLLEASNADPLGVGAFGFEQDDQVSELFNYIQTVPTQAIKFREHEIPKGFL
252
116 ERSDIITDFEASEAKVIMDRWGRSLVAEAHLELLYSIVCTDIRPEAVVGELMVFWDETMSRRVVYSERGNPIVFP
190
* . : * * . : :: . .:: ** .: . .:. : *.**: : : . :: : : *: * *
Region 6:
272 MERRKPNR 279
191 IMETQPSR 198
: . :*.*
Region 7:
316 FLRNKRGNKAGVKSTASEGSSVDNISSREFQFAR 349
199 YLKDKNLLMSMIRGRIEVGAEGCDVAPMQLKVEP 232
:*::*.
: ::. . *:. :::. :::.
Region 8:
374 SGRRKQTSSWKDRGNPGTDTGVHLREHSDPGNVRADGVSGPSGGSEINGGSISP 427
233 LGDKRQVLTIKPKEEPMKESKDIKIEEVSDGKHLKEQTKAVEMGDKLPNGNISG 286
* ::*. : * : :* .:: *. . *: : ... . *.:: .*.**
> Apmvrna3.2
coat protein apple mosaic virus RNA3
MVCKYCNHTHPGSCAGCKWCHSTNRFAPPKRAVARQANPNKGKIPVSVSRAGRSIRRGGQLGRLGARMLS
RKFLKGHRVLSSREVTATVEGRFVNIDFADVFRDLLEKDLKVYTFIIRVNSLSSNGWIGLVEDYDESNPK
GPNPMDRKGFKKDQPRGGMWEAPPNTTFDDFVRKFRLVLEFKTNFAAGAKVFMRDLYVITSELPPVQIPT
NVLLIDEDLLEL
>Aclsv4.3
coat protein apple chlorotic leaf spot virus P863
MRRLNIKAYQQTAISRIFSETRGVIKLELNPLLQKGHQLITFLQENFSLLDRTRRRRMAAVLNLQLKVDA
SLKAFLGAENRPLHGKTGATLEQILESIFANIAIQGTSEQTEFLDLVVEVKSMEDQSVLGSYNLKEVVNL
IKAFKTTSSDPNINKMTFRQVCEAFAPEARNGLVKLKYKGVFTNLFTTMPEVGSKYPELMFDFNKGLNMF
IMNKAQQKVITNMNRRLLQTEFAKSENEAKLSSVSTDLCI
Alignment result of movement protein
Apmvrna3.2 MVCKYCNHTHPGSCAGCKWCHSTNRFAPPKRAVARQANPNKGKIPVSVSRAGRSIRR--G 58
Aclsv4.3 -MRRLNIKAYQQTAISRIFSETRGVIKLELNPLLQKGHQLITFLQENFSLLDRTRRRRMA 59
: : ::: :. . :..: . : ..: ::.: : ..* .*: ** .
Apmvrna3.2 GQLGRLGARMLSRKFLKGHRVLSSREVTATVEGRFVNIDFADVFRDLLEKDLKVYTFIIR 118
Aclsv4.3 AVLNLQLKVDASLKAFLGAENRPLHGKTGATLEQILESIFANIAIQGTSEQTEFLDLVVE 119
. *. * * : * . . : *.:. :::: **:: : .:: :. :::.
Apmvrna3.2 VNSLSSNGWIG------LVEDYDESNPKGPNP-MDRKGFKK------DQPRGGMWEAPPN 165
Aclsv4.3 VKSMEDQSVLGSYNLKEVVNLIKAFKTTSSDPNINKMTFRQVCEAFAPEARNGLVKLKYK 179
*:*:..:. :* :*: . :....:* ::: *:: :.*.*: : :
Apmvrna3.2 TTFDDFVRKFRLV----LEFKTNFAAGAKVFMR-----------DLYVITSELPPVQIPT 210
Aclsv4.3 GVFTNLFTTMPEVGSKYPELMFDFNKGLNMFIMNKAQQKVITNMNRRLLQTEFAKSENEA 239
.* ::. .: * *: :* * ::*: : :: :*:. : :
Apmvrna3.2 NVLLIDEDLLEL 222
Aclsv4.3 KLSSVSTDLCI- 250
:: :. **
Region 1:
2
VCKYCNHTHPGSCAGCKWCHSTNRFAPPKRAVARQANPNKGKIPVSVSRAGRSIRR
57
1
MRRLNIKAYQQTAISRIFSETRGVIKLELNPLLQKGHQLITFLQENFSLLDRTRRR
56
: : :::
:. .
:..: . : ..: ::.: : ..* .*: **
Region 2:
58
GGQLGRLGARMLSRKFLKGHRVLSSREVTATVEGRFVNIDFADVFRDLLEKDLKVYTFIIRVNSLSSNGWIG
129
59
AAVLNLQLKVDASLKAFLGAENRPLHGKTGATLEQILESIFANIAIQGTSEQTEFLDLVVEVKSMEDQSVLG
130
..*.
* * :* . . :*.:. :::: **:: : .:: :. :::. *:*:..: :*
Region 3:
130
LVEDYDESNPKGPNP-MDRKGFKK 152
137
VVNLIKAFKTTSSDPNINKMTFRQ
160
:*: . :....:* ::: *::
Region
4:
153
DQPRGGMWEAPPNTTFDDFVRKFRLV
178
167
PEARNGLVKLKYKGVFTNLFTTMPEV
192
:.*.*: : : .* ::. .: *
Region 5:
179
LEFKTNFAAGAKVFMR
194
197
PELMFDFNKGLNMFIM
212
*:
:* *
::*:
Region
6:
195
DLYVITSELPPVQIPTNVLLIDEDLLEL
222
224
NRRLLQTEFAKSENEAKLSSVSTDLCI- 250
: :: :*:. : ::: :. **
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