NESdb

C->U-editing enzyme APOBEC-1 UniProt

Apolipoprotein B mRNA-editing enzyme 1

Rattus norvegicus (Rat)

LMB Sensitive ^{Ref.2The apolipoprotein B mRNA editing complex performs a multifunctional cycle and suppresses nonsense-mediated decay, Chester et al., EMBO J, 2003}

*highlighted yellow in the full sequence

L173F/L177F/L180F/L182F ^{Ref.2The apolipoprotein B mRNA editing complex performs a multifunctional cycle and suppresses nonsense-mediated decay, Chester et al., EMBO J, 2003}

Unknown

*shown as underlined residues in the full sequence

¹⁷³LWVRLYVLELYCIIL¹⁸⁷ ^{Ref.1Intracellular trafficking determinants in APOBEC-1, the catalytic subunit for cytidine to uridine editing of apolipoprotein B mRNA, Yang et al., Exp Cell Res, 2001}

Unknown

Show FASTA Format

>gi|585813|sp|P38483.1|ABEC1_RAT RecName: Full=C->U-editing enzyme APOBEC-1; AltName: Full=Apolipoprotein B mRNA-editing enzyme 1
MSSETGPVAVDPTLRRRIEPHEFEVFFDPRELRKETCLLYEINWGGRHSIWRHTSQNTNKHVEVNFIEKF
TTERYFCPNTRCSITWFLSWSPCGECSRAITEFLSRYPHVTLFIYIARLYHHADPRNRQGLRDLISSGVT
IQIMTEQESGYCWRNFVNYSPSNEAHWPRYPHLWVRLYVLELYCIILGLPPCLNILRRKQPQLTFFTIAL
QSCHYQRLPPHILWATGLK

Show Domain Info by CDD

Show Secondary Structure by PSIPRED

    	# PSIPRED HFORMAT (PSIPRED V3.2)

Conf: 999999987996335876612223211234689622899999959999700120489998
Pred: CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCEEECCCCCC
  AA: MSSETGPVAVDPTLRRRIEPHEFEVFFDPRELRKETCLLYEINWGGRHSIWRHTSQNTNK
              10        20        30        40        50        60


Conf: 267788442035656799950689995215983899999999983299827997830103
Pred: CHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEEEEEEC
  AA: HVEVNFIEKFTTERYFCPNTRCSITWFLSWSPCGECSRAITEFLSRYPHVTLFIYIARLY
              70        80        90       100       110       120


Conf: 448900299999998779958781377410221124107888879999992568998799
Pred: CCCCCCHHHHHHHHHHCCCEEEEECCCCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHH
  AA: HHADPRNRQGLRDLISSGVTIQIMTEQESGYCWRNFVNYSPSNEAHWPRYPHLWVRLYVL
             130       140       150       160       170       180


Conf: 9998890899643000112897423785307601334792101128999
Pred: HHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCHHHCCCCC
  AA: ELYCIILGLPPCLNILRRKQPQLTFFTIALQSCHYQRLPPHILWATGLK
             190       200       210       220

Show Conservation Score by AL2CO

1     M      -1.000    *
2     S      -1.000    *
3     S      -1.000    *
4     E      -1.000    *
5     T      -1.000    *
6     G      -1.000    *
7     P      -1.000    *
8     V      -1.000    *
9     A      -1.000    *
10    V      -1.000    *
11    D      -1.000    *
12    P      -1.000    *
13    T      -1.000    *
14    L      -1.000    *
15    R       0.782
16    R      -0.425
17    R       0.047
18    I       1.154
19    E      -0.655
20    P      -0.124
21    H      -0.899
22    E      -0.454
23    F       1.647
24    E      -0.969
25    V      -0.905
26    F       0.118
27    F       2.141
28    D      -0.733
29    P       1.419
30    R      -0.899
31    E      -0.887
32    L      -0.888
33    R      -0.475
34    K      -0.210
35    E      -0.706
36    T       0.115
37    C       0.174
38    L       1.582
39    L       1.819
40    Y       1.325
41    E      -0.570
42    I       1.368
43    N      -0.226
44    W      -0.755
45    G      -0.935
46    G      -0.718
47    R      -0.725
48    H      -0.873
49    S      -0.976
50    I      -0.784
51    W      -0.780
52    R      -0.672
53    H      -0.827
54    T      -0.840
55    S      -0.839
56    Q      -0.786
57    N      -0.506
58    T      -0.787
59    N      -0.722
60    K      -0.784
61    H       1.435
62    V       1.037
63    E       1.349
64    V      -0.727
65    N      -0.661
66    F       0.897
67    I       0.741
68    E      -0.550
69    K      -0.784
70    F      -0.429
71    T      -1.054
72    T      -0.784
73    E      -0.886
74    R      -0.739
75    Y      -1.096
76    F      -0.451
77    C      -0.722
78    P      -0.532
79    N      -0.907
80    T      -0.805
81    R      -0.896
82    C       0.212
83    S      -0.640
84    I       1.436
85    T       0.634
86    W       1.836
87    F       1.862
88    L       0.347
89    S       1.962
90    W       0.436
91    S       1.780
92    P       2.794
93    C       2.207
94    G      -0.957
95    E      -0.816
96    C       2.123
97    S       0.861
98    R      -0.930
99    A      -0.621
100   I       1.308
101   T      -0.472
102   E      -0.502
103   F       0.828
104   L       0.138
105   S      -0.581
106   R      -0.704
107   Y      -0.256
108   P      -0.262
109   H      -0.101
110   V       1.242
111   T      -0.371
112   L       1.530
113   F      -0.730
114   I       1.416
115   Y      -0.129
116   I       0.358
117   A       1.379
118   R       0.734
119   L       1.555
120   Y       0.711
121   H      -0.873
122   H      -0.738
123   A      -0.855
124   D      -0.847
125   P      -0.823
126   R      -0.923
127   N      -0.563
128   R      -0.103
129   Q      -0.559
130   G       0.824
131   L       2.301
132   R       0.308
133   D      -0.804
134   L       2.418
135   I      -0.952
136   S      -0.711
137   S      -0.730
138   G       0.438
139   V       0.952
140   T      -0.702
141   I       0.842
142   Q      -0.790
143   I       0.866
144   M       2.384
145   T      -0.482
146   E      -0.816
147   Q      -0.809
148   E       0.506
149   S       0.634
150   G      -0.897
151   Y      -0.341
152   C       0.555
153   W       1.768
154   R      -0.430
155   N      -0.637
156   F       2.075
157   V       1.745
158   N      -0.530
159   Y      -0.514
160   S      -0.490
161   P      -0.603
162   S      -0.736
163   N      -0.730
164   E       0.410
165   A      -0.875
166   H      -0.462
167   W       0.051
168   P      -0.383
169   R      -0.851
170   Y      -0.513
171   P      -0.880
172   H      -0.704
173   L      -0.663
174   W      -0.452
175   V      -0.880
176   R      -0.873
177   L      -0.242
178   Y      -0.678
179   V      -0.805
180   L      -0.783
181   E       0.565
182   L       2.334
183   Y      -0.670
184   C      -0.455
185   I       1.899
186   I       0.607
187   L       0.266
188   G      -1.000    *
189   L      -1.000    *
190   P      -1.000    *
191   P      -1.000    *
192   C      -1.000    *
193   L      -1.000    *
194   N      -1.000    *
195   I      -1.000    *
196   L      -1.000    *
197   R      -1.000    *
198   R      -1.000    *
199   K      -1.000    *
200   Q      -1.000    *
201   P      -1.000    *
202   Q      -1.000    *
203   L      -1.000    *
204   T      -1.000    *
205   F      -1.000    *
206   F      -1.000    *
207   T      -1.000    *
208   I      -1.000    *
209   A      -1.000    *
210   L      -1.000    *
211   Q      -1.000    *
212   S      -1.000    *
213   C      -1.000    *
214   H      -1.000    *
215   Y      -1.000    *
216   Q      -1.000    *
217   R      -1.000    *
218   L      -1.000    *
219   P      -1.000    *
220   P      -1.000    *
221   H      -1.000    *
222   I      -1.000    *
223   L      -1.000    *
224   W      -1.000    *
225   A      -1.000    *
226   T      -1.000    *
227   G      -1.000    *
228   L      -1.000    *
229   K      -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 - 76.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 MSSETGPVAV DPTLRRRIEP HEFEVFFDPR ELRKETCLLY EINWGGRHSI WRHTSQNTNK 
        70         80         90        100        110        120 HVEVNFIEKF TTERYFCPNT RCSITWFLSW SPCGECSRAI TEFLSRYPHV TLFIYIARLY 
       130        140        150        160        170        180 
HHADPRNRQG LRDLISSGVT IQIMTEQESG YCWRNFVNYS PSNEAHWPRY PHLWVRLYVL 
       190        200        210        220                       
ELYCIILGLP PCLNILRRKQ PQLTFFTIAL QSCHYQRLPP HILWATGLK

Not Available

APOBEC1 catalyze the C to U RNA editing of apoB mRNA. The reaction requires APOBEC1 complementation factor ACF. Chester et al. demonstrated that APOBEC1 shuttles between the nucleus and the cytoplasm in a LMB dependent manner using a heterokyaron assay. Deletion experiment showed that removal of the last 81 aa resulted in the nucleus accumulation, so did multating the four leucines between aa 173-182 to phenylalanine. Yang et al. showed that aa 173-187 can direct the export of reporter protein SV40NLS-CMPK. Note that there is controversy regarding the trafficking of this protein. Yang et al. showed that neither the full length protein or aa 168-229 can replace the export function of HIV-Rev. And the cellular distribution of APOBEC1 is insensitive to LMB. However, this is probably due to the fact that APOBEC1 is small and can diffuse through NPC.

[1]. "Intracellular trafficking determinants in APOBEC-1, the catalytic subunit for cytidine to uridine editing of apolipoprotein B mRNA"
Yang, Y., Sowden, M.P., Yang, Y., Smith, H.C. (2001) Exp Cell Res, 267:153-164 PubMed
[2]. "The apolipoprotein B mRNA editing complex performs a multifunctional cycle and suppresses nonsense-mediated decay"
Chester, A., Somasekaram, A., Tzimina, M., Jarmuz, A., Gisbourne, J., O'Keefe, R., Scott, J., Navaratnam, N. (2003) EMBO J, 22:3971-3982 PubMed

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