NESdb

Summary for SOD1 (NES ID: 308)

Full Name

Superoxide dismutase [Cu-Zn] UniProt

Alternative Names

Superoxide dismutase 1

Organism

Homo sapiens (Human)

Experimental Evidence for CRM1-mediated Export

LMB Sensitive, Binds CRM1 ^{Ref.1Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus, Zhong et al., eLife, 2017}

Mutations That Affect Nuclear Export

*highlighted yellow in the full sequence

I35R, L38R, L42R, L42Q, F45R, V47R ^{Ref.1Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus, Zhong et al., eLife, 2017}

Mutations That Affect CRM1 Binding

*shown as red residues in the full sequence

L38R ^{Ref.1Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus, Zhong et al., eLife, 2017}

Functional Export Signals

*shown as underlined residues in the full sequence

²⁴ESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTA⁵⁵ ^{Ref.1Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus, Zhong et al., eLife, 2017}

Secondary Structure of Export Signal

strand and loop

Other Residues Important for Export

*shown as green residues in the full sequence

A4, H46, C57, H80, D90, G85, G93, G108, H120, L126, L144 ^{Ref.1Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus, Zhong et al., eLife, 2017}

Sequence

Show FASTA Format

>sp|P00441|SODC_HUMAN Superoxide dismutase [Cu-Zn] OS=Homo sapiens OX=9606 GN=SOD1 PE=1 SV=2
ATKAVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTS
AGPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVV
HEKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ

Show Domain Info by CDD

Show Secondary Structure by PSIPRED

    	# PSIPRED HFORMAT (PSIPRED V3.2)

Conf: 933899973899702799999608999969999955179964401222104898985467
Pred: CCEEEEEECCCCCEEEEEEEEEECCCCCEEEEEEEEECCCCCCEEEEEEECCCCCCCCCC
  AA: ATKAVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTSA
              10        20        30        40        50        60


Conf: 989899999899999985455446656739997369998713187107961232368973
Pred: CCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEEEEEEECEEEEECCCCEEEEEEEEE
  AA: GPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVVH
              70        80        90       100       110       120


Conf: 799888998875433347888720235865419
Pred: CCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEC
  AA: EKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ
             130       140       150

Show Conservation Score by AL2CO

1     A      -1.000    *
2     T      -0.759
3     K      -0.298
4     A       0.534
5     V       0.178
6     C       0.015
7     V      -0.383
8     L       0.166
9     K      -0.947
10    G      -0.312
11    D      -0.736
12    G      -0.968
13    P      -1.232
14    V      -0.079
15    Q      -1.097
16    G       1.474
17    I      -0.894
18    I       0.280
19    N      -1.255
20    F       0.202
21    E      -1.214
22    Q       0.571
23    K      -1.191
24    E      -1.221
25    S      -1.204
26    N      -1.070
27    G      -0.967
28    P      -1.311
29    V      -0.065
30    K      -1.223
31    V       0.633
32    W      -1.216
33    G      -0.363
34    S      -1.036
35    I       0.201
36    K      -1.219
37    G       0.200
38    L      -0.337
39    T      -0.876
40    E      -0.767
41    G      -0.078
42    L      -1.040
43    H       1.068
44    G       1.016
45    F       0.344
46    H       1.842
47    V       0.347
48    H       1.842
49    E      -0.383
50    F      -0.697
51    G       1.842
52    D       1.842
53    N      -1.055
54    T       0.847
55    A      -0.774
56    G       0.833
57    C       1.475
58    T      -0.523
59    S       0.562
60    A      -0.010
61    G       1.327
62    P      -0.333
63    H       1.475
64    F       0.559
65    N       1.089
66    P       1.380
67    L      -1.275
68    S      -0.787
69    R      -1.033
70    K      -0.975
71    H       1.842
72    G       0.704
73    G      -0.079
74    P       0.040
75    K      -1.118
76    D      -0.079
77    E      -1.180
78    E      -0.931
79    R       1.406
80    H       1.842
81    V      -0.718
82    G       1.842
83    D       1.842
84    L       0.955
85    G       1.475
86    N       1.118
87    V      -0.027
88    T      -1.337
89    A      -0.083
90    D      -0.679
91    K      -1.080
92    D      -0.996
93    G      -0.195
94    V      -1.017
95    A      -0.301
96    D      -1.241
97    V      -0.866
98    S      -1.243
99    I      -0.859
100   E      -1.037
101   D       0.347
102   S      -1.322
103   V      -1.115
104   I       0.385
105   S      -0.770
106   L       0.670
107   S      -1.324
108   G       1.481
109   D      -1.239
110   H      -1.282
111   C      -0.181
112   I       0.839
113   I       0.148
114   G       1.475
115   R       0.888
116   T      -0.206
117   L      -0.439
118   V       0.076
119   V      -0.001
120   H       0.637
121   E      -0.816
122   K      -0.919
123   A      -0.939
124   D       1.842
125   D       1.842
126   L       0.617
127   G       1.842
128   K      -0.725
129   G       0.713
130   G      -0.772
131   N      -0.874
132   E      -0.548
133   E      -0.223
134   S       1.842
135   T      -0.516
136   K      -0.544
137   T       0.890
138   G       1.842
139   N       0.692
140   A       0.918
141   G       1.472
142   S      -0.436
143   R       1.472
144   L      -0.788
145   A       0.265
146   C       1.842
147   G       0.667
148   V       0.376
149   I       0.541
150   G       0.915
151   I      -0.387
152   A      -0.038
153   Q      -0.080
* gap fraction no less than  0.50; conservation set to M-S
  M: mean;  S: standard deviation

al2co - The parameters are:

Input alignment file - 308.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 
ATKAVCVLKG DGPVQGIINF EQKESNGPVK VWGSIKGLTE GLHGFHVHEF GDNTAGCTSA 
        70         80         90        100        110        120 
GPHFNPLSRK HGGPKDEERH VGDLGNVTAD KDGVADVSIE DSVISLSGDH CIIGRTLVVH 
       130        140        150                                  
EKADDLGKGG NEESTKTGNA GSRLACGVIG IAQ

3D Structures in PDB

1AZV (X-Ray,1.9 Å resolution)

Comments

SOD1 is a free-radical scavenging enzyme, which is mostly studied for its pathological aggregation and its association with Amyotrophic lateral sclerosis (ALS). Zhong et al. found that pathological mutants G85R and G93A are enriched in the cytoplasm when compared to wild type SOD1 in a LMB-sensitive manner. A putative NES can be identified that matches traditional NES consensus. Peptide was able to direct nuclear export and both peptide and full length protein can bind to CRM1 in a Ran-dependent manner in vitro. This NES sequence is normally part of a folded beta-sheet domain and is inaccessible to CRM1, but disease mutations or other chemical stimuli can cause the protein to unfold and expose the NES. Note that initiator methionine is removed in the sequence to match numbering in the paper.

References

[1]. "Nuclear Export of Misfolded SOD1 Mediated by a Normally Buried NES-like Sequence Reduces Proteotoxicity in the Nucleus"
Zhong Y, Wang J, Henderson MJ, Yang P, Hagen BM, Siddique T, Vogel BE, Deng HX, Fang S. (2017) eLife, 6:e23759 PubMed

User Input

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