NESdb

Respiratory syncytial virus matrix protein UniProt

None

Human respiratory syncytial virus A (strain A2)

LMB Sensitive ^{Ref.1The respiratory syncytial virus matrix protein possesses a Crm1-mediated nuclear export mechanism, Ghildyal et al., J. Virol., 2009}

*highlighted yellow in the full sequence

²⁰⁰LLLV²⁰³ mutated to A ^{Ref.1The respiratory syncytial virus matrix protein possesses a Crm1-mediated nuclear export mechanism, Ghildyal et al., J. Virol., 2009}

Unknown

*shown as underlined residues in the full sequence

¹¹⁰CEIKACSLTCLKSKNMLTTVKDLTMKTLNPTHDIIALCEFENIVTSKKVIIPTYLRSISV
RNKDLNTLENITTTEFKNAITNAKIIPYSGLLLVITVTDNK²¹⁰ ^{Ref.1The respiratory syncytial virus matrix protein possesses a Crm1-mediated nuclear export mechanism, Ghildyal et al., J. Virol., 2009}

β-strand

Unknown

Show FASTA Format

>gi|138727|sp|P03419.1|MATRX_HRSVA RecName: Full=Matrix protein
METYVNKLHEGSTYTAAVQYNVLEKDDDPASLTIWVPMFQSSMPADLLIKELANVNILVKQISTPKGPSL
RVMINSRSAVLAQMPSKFTICANVSLDERSKLAYDVTTPCEIKACSLTCLKSKNMLTTVKDLTMKTLNPT
HDIIALCEFENIVTSKKVIIPTYLRSISVRNKDLNTLENITTTEFKNAITNAKIIPYSGLLLVITVTDNK
GAFKYIKPQSQFIVDLGAYLEKESIYYVTTNWKHTATRFAIKPMED

Show Domain Info by CDD

Show Secondary Structure by PSIPRED

    	# PSIPRED HFORMAT (PSIPRED V3.2)

Conf: 910211202685023689874110479983168887312358996779986013017899
Pred: CCCHHHHHCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHCCCEEEEE
  AA: METYVNKLHEGSTYTAAVQYNVLEKDDDPASLTIWVPMFQSSMPADLLIKELANVNILVK
              10        20        30        40        50        60


Conf: 820799984899603431132218851357657741223474346101011112797752
Pred: EEECCCCCEEEEEECCCCHHHHCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEEEEEEEE
  AA: QISTPKGPSLRVMINSRSAVLAQMPSKFTICANVSLDERSKLAYDVTTPCEIKACSLTCL
              70        80        90       100       110       120


Conf: 014520100010000379754056502111111241254110246544204440235665
Pred: ECCCCHHHCCCCCCCCCCCCCCEEECCCCCCCCCCCEEEECEEEEEEEECCCCCHHHHHH
  AA: KSKNMLTTVKDLTMKTLNPTHDIIALCEFENIVTSKKVIIPTYLRSISVRNKDLNTLENI
             130       140       150       160       170       180


Conf: 411676532212101355449999971783201003677279883132000234766630
Pred: HHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHH
  AA: TTTEFKNAITNAKIIPYSGLLLVITVTDNKGAFKYIKPQSQFIVDLGAYLEKESIYYVTT
             190       200       210       220       230       240


Conf: 3643201467403899
Pred: CCCCCEEEEEECCCCC
  AA: NWKHTATRFAIKPMED
             250

Show Conservation Score by AL2CO

1     M       1.525
2     E       1.525
3     T      -0.754
4     Y       1.525
5     V      -0.700
6     N      -0.700
7     K      -0.754
8     L      -0.754
9     H       0.160
10    E      -0.754
11    G       1.525
12    S      -0.688
13    T       0.160
14    Y       1.525
15    T       1.525
16    A       1.525
17    A       1.525
18    V       1.525
19    Q       1.525
20    Y      -1.362
21    N       0.091
22    V       0.160
23    L       0.160
24    E       1.525
25    K       1.525
26    D       0.182
27    D      -1.835
28    D      -1.367
29    P       0.182
30    A       0.182
31    S      -0.620
32    L       1.525
33    T       1.525
34    I       0.080
35    W       1.525
36    V      -0.754
37    P       1.525
38    M       0.091
39    F       1.525
40    Q       1.525
41    S      -0.718
42    S       0.178
43    M      -1.353
44    P       0.244
45    A      -0.717
46    D      -1.835
47    L      -0.754
48    L       0.182
49    I      -0.754
50    K      -0.688
51    E      -0.754
52    L       1.525
53    A      -1.353
54    N      -0.754
55    V       0.091
56    N      -0.700
57    I       0.182
58    L      -0.754
59    V      -0.754
60    K      -1.833
61    Q       0.091
62    I      -0.723
63    S       0.091
64    T       0.092
65    P      -1.325
66    K      -1.320
67    G       1.525
68    P       1.525
69    S      -1.367
70    L       0.189
71    R      -0.610
72    V       0.251
73    M      -0.749
74    I      -0.749
75    N      -0.674
76    S       0.088
77    R      -0.749
78    S      -0.749
79    A       1.525
80    V      -0.749
81    L       0.088
82    A       0.088
83    Q      -1.358
84    M       0.088
85    P       1.525
86    S      -1.348
87    K      -0.654
88    F       1.525
89    T      -2.215
90    I       0.088
91    C      -0.697
92    A       1.525
93    N      -1.833
94    V       0.202
95    S       0.168
96    L       1.525
97    D       1.525
98    E       0.086
99    R      -0.749
100   S       0.191
101   K      -0.662
102   L       0.191
103   A      -0.711
104   Y       0.087
105   D      -0.702
106   V      -1.255
107   T      -0.748
108   T       0.191
109   P      -0.748
110   C       0.191
111   E       0.083
112   I      -1.356
113   K       0.192
114   A      -0.703
115   C      -1.355
116   S      -0.748
117   L       0.191
118   T       1.525
119   C      -0.749
120   L       0.201
121   K       1.525
122   S      -0.652
123   K       0.087
124   N       0.087
125   M       1.525
126   L       0.087
127   T      -0.749
128   T       0.087
129   V      -0.732
130   K      -1.356
131   D      -1.330
132   L      -1.832
133   T      -1.319
134   M      -1.366
135   K      -1.828
136   T       0.087
137   L      -1.348
138   N      -0.716
139   P       0.087
140   T       1.525
141   H       1.525
142   D       0.090
143   I       0.163
144   I       1.525
145   A       1.525
146   L       0.211
147   C       1.525
148   E      -0.749
149   F       1.525
150   E      -1.832
151   N       0.087
152   I      -1.298
153   V      -0.733
154   T      -0.725
155   S      -1.358
156   K      -0.744
157   K      -0.749
158   V      -0.651
159   I      -1.348
160   I       1.525
161   P       1.525
162   T      -0.749
163   Y       0.080
164   L       0.163
165   R       0.087
166   S       0.078
167   I      -0.749
168   S       0.257
169   V       0.163
170   R       0.079
171   N      -1.832
172   K      -0.749
173   D       0.087
174   L       0.087
175   N      -0.732
176   T       0.090
177   L       0.163
178   E       1.525
179   N      -0.749
180   I       0.163
181   T      -0.652
182   T       0.163
183   T      -0.741
184   E       0.211
185   F      -0.749
186   K       0.163
187   N      -0.749
188   A       1.525
189   I       0.264
190   T       1.525
191   N      -0.749
192   A       1.525
193   K       0.080
194   I       0.211
195   I       0.163
196   P       1.525
197   Y       1.525
198   S       0.263
199   G       1.525
200   L       1.525
201   L      -1.348
202   L       0.212
203   V       0.142
204   I       0.087
205   T       0.191
206   V      -0.748
207   T       0.087
208   D      -0.748
209   N      -0.748
210   K       1.525
211   G       1.525
212   A       0.087
213   F       1.525
214   K       0.271
215   Y      -0.748
216   I       0.173
217   K       0.087
218   P       0.173
219   Q       0.160
220   S      -0.724
221   Q       1.525
222   F      -0.754
223   I       0.182
224   V       0.182
225   D       0.160
226   L       1.525
227   G       1.525
228   A       0.079
229   Y       1.525
230   L       0.091
231   E      -0.754
232   K      -0.754
233   E       0.182
234   S       1.525
235   I       0.079
236   Y      -1.367
237   Y      -1.367
238   V       0.091
239   T      -0.754
240   T      -1.362
241   N      -0.621
242   W       1.525
243   K      -0.718
244   H       1.525
245   T       0.091
246   A      -0.700
247   T       1.525
248   R       0.182
249   F       0.160
250   A      -1.353
251   I       0.160
252   K       1.525
253   P      -1.000    *
254   M      -1.000    *
255   E      -1.000    *
256   D      -1.000    *
* gap fraction no less than  0.50; conservation set to M-S
  M: mean;  S: standard deviation

al2co - The parameters are:

Input alignment file - 79.paln
Output conservation - STDOUT
Weighting scheme - independent-count based
Conservation calculation method - entropy-based
Window size - 1
Conservation normalized to zero mean and unity variance
Gap fraction to suppress calculation -  0.50

        10         20         30         40         50         60 METYVNKLHE GSTYTAAVQY NVLEKDDDPA SLTIWVPMFQ SSMPADLLIK ELANVNILVK 
        70         80         90        100        110        120 
QISTPKGPSL RVMINSRSAV LAQMPSKFTI CANVSLDERS KLAYDVTTPC EIKACSLTCL 
       130        140        150        160        170        180 
KSKNMLTTVK DLTMKTLNPT HDIIALCEFE NIVTSKKVII PTYLRSISVR NKDLNTLENI 
       190        200        210        220        230        240 
TTTEFKNAIT NAKIIPYSGL LLVITVTDNK GAFKYIKPQS QFIVDLGAYL EKESIYYVTT 
       250                                                        NWKHTATRFA IKPMED

2VQP (X-Ray,1.60 Å resolution)

The RSV M protein is important for viral assembly in the cytoplasm and at the plasma membrane of infected cells. It is localized to the nucleus early in infection and mainly in the cytoplasm later in infection. CRM1-mediate nuclear export is critical to the infectious cycle of RSV - LMB inhibits export of M from the nucleus and decreases virion production while RSV with NES mutation cannot replicate.

[1]. "The respiratory syncytial virus matrix protein possesses a Crm1-mediated nuclear export mechanism"
Ghildyal R, Ho A, Dias M, Soegiyono L, Bardin PG, Tran KC, Teng MN, Jans DA. (2009) J. Virol., 83:5353-5362 PubMed

Accurate identification of NESs is difficult because many sequences in the genome match the NES consensus. Therefore, some published NESs may be mistakenly identified. Please help us improve the accuracy of NESdb by providing either a positive or negative flag for the NES in this entry. Supporting comments are required to process the flag.

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