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PR01917

Identifier
VENOMNGF  [View Relations]  [View Alignment]  
Accession
PR01917
No. of Motifs
4
Creation Date
03-APR-2008
Title
Venom nerve growth factor signature
Database References
PRINTS; PR00268 NGF; PR01913 NGFBETA
Literature References
1. HOFER, M., PAGLIUSI, S.R., HOHN, A., LEIBROCK, J. AND BARDE, Y.A.
Regional distribution of brain-derived neurotrophic factor messenger RNA in
the adult mouse brain.
EMBO J. 9(8) 2459-2464 (1990).
 
2. KOYAMA, J.I., INOUE, S., IKEDA, K. AND HAYASHI, K.
Purification and amino acid sequence of a nerve growth factor from the
venom of Vipera russelli russelli.
BIOCHIM.BIOPHYS.ACTA 1160 287-292 (1992).
 
3. INOUE, S., ODA, T., KOYAMA, J., IKEDA, K. AND HAYASHI, K.
Amino acid sequences of nerve growth factors derived from cobra venoms.
FEBS LETT. 279(1) 38-40 (1991).
 
4. KOSTIZA, T. AND MEIER, J.
Nerve growth factors from snake venoms: chemical properties, mode of action
and biological significance.
TOXICON 34 787-806 (1996).
 
5. KATZIR, I., SHANI, J., GOSHEN, G., SELA, J., NINARY, E., DOGNOVSKI, A.,
SHABASHOV, D., INOUE, S., IKEDA, K., HAYASHI, K., GORINSTEIN, S.,
DEUTSCH, J. AND LAZAROVICI, P.
Characterization of nerve growth factors (NGFs) from snake venoms by use of
a novel, quantitative bioassay utilizing pheochromocytoma (PC12) cells 
overexpressing human trkA receptors.
TOXICON 42 481-490 (2003).
 
6. KUKHTINA, V., TSETLIN, V., UTKIN, Y., INOZEMTSEVA, L. AND GRIVENNIKOV, I.
Two forms of nerve growth factor from cobra venom prevent the death of PC12
cells in serum-free medium.
J.NAT.TOXINS 10 9-16 (2001).

Documentation
During the development of the vertebrate nervous system, many neurons
become redundant (because they have died, failed to connect to target
cells, etc.) and are eliminated. At the same time, developing neurons send
out axon outgrowths that contact their target cells [1]. Such cells control
their degree of innervation (the number of axon connections) by the
secretion of various specific neurotrophic factors that are essential for
neuron survival. One of these is nerve growth factor (NGF), which is
involved in the survival of some classes of embryonic neuron (e.g., peri-
pheral sympathetic neurons) [1]. NGF is mostly found outside the central
nervous system (CNS), but slight traces have been detected in adult CNS
tissues, although a physiological role for this is unknown [1]; it has also
been found in several snake venoms [2,3]. Proteins similar to NGF include
brain-derived neurotrophic factor (BDNF) and neurotrophins 3 to 7, all of
which demonstrate neuron survival and outgrowth activities.
 
In contrast to mammalian NGFs, which exist as multimeric complexes of 
alpha, beta and gamma subunits, snake venom NGFs exist almost exclusively 
as beta-chains [4]. They act as low-potency neurotrophic tyrosine kinase 
receptor type 1 (NTRK1; also called TrkA) agonists [5], and have been shown
to promote survival and differentiation of cultured cells [6].
 
VENOMNGF is a 4-element fingerprint that provides a signature for the venom
nerve growth factors. The fingerprint was derived from an initial alignment
of 4 sequences: the motifs were drawn from conserved regions in the
N-terminal half of the alignment, focusing on those sections that
characterise the snake venom nerve growth factors but distinguish them from
other closely related NGF beta subunits. Two iterations on SPTR55_38f were
required to reach convergence, at which point a true set comprising 29
sequences was identified.
Summary Information
29 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
429292929
30000
20000
1234
True Positives
A6MFL5_DEMVE  A6MFL6_DEMVE  A6MFL7_DEMVE  NGFV1_HOPST   
NGFV1_NAJSP NGFV1_NOTSC NGFV1_OXYMI NGFV1_PSEAU
NGFV1_PSETE NGFV1_TROCA NGFV2_HOPST NGFV2_NAJSP
NGFV2_NOTSC NGFV2_OXYMI NGFV2_PSEAU NGFV2_PSETE
NGFV2_TROCA NGFV3_NOTSC NGFV3_PSEAU NGFV3_TROCA
NGFV4_TROCA NGFV5_TROCA NGFV_BOTJR NGFV_CRODU
NGFV_PSEPO NGFV_VIPLE NGF_BUNMU Q1W7Q6_9SAUR
Q3I5F4_9SAUR
Sequence Titles
A6MFL5_DEMVE Venom nerve growth factor variant 1 precursor - Demansia vestigiata (Lesser black whip snake) (Demansia atra). 
A6MFL6_DEMVE Venom nerve growth factor variant 2 precursor - Demansia vestigiata (Lesser black whip snake) (Demansia atra).
A6MFL7_DEMVE Venom nerve growth factor variant 3 precursor - Demansia vestigiata (Lesser black whip snake) (Demansia atra).
NGFV1_HOPST Venom nerve growth factor 1 precursor (vNGF-1) - Hoplocephalus stephensii (Stephens' banded snake).
NGFV1_NAJSP Venom nerve growth factor 1 precursor (vNGF-1) (Nerve growth factor I) - Naja sputatrix (Malayan spitting cobra).
NGFV1_NOTSC Venom nerve growth factor 1 precursor (vNGF-1) - Notechis scutatus scutatus (Mainland tiger snake) (Common tiger snake).
NGFV1_OXYMI Venom nerve growth factor 1 precursor (vNGF-1) - Oxyuranus microlepidotus (Inland taipan).
NGFV1_PSEAU Venom nerve growth factor 1 precursor (vNGF-1) - Pseudechis australis (Mulga snake) (King brown snake).
NGFV1_PSETE Venom nerve growth factor 1 precursor (vNGF-1) - Pseudonaja textilis (Eastern brown snake).
NGFV1_TROCA Venom nerve growth factor 1 precursor (vNGF-1) - Tropidechis carinatus (Australian rough-scaled snake).
NGFV2_HOPST Venom nerve growth factor 2 precursor (vNGF-2) - Hoplocephalus stephensii (Stephens' banded snake).
NGFV2_NAJSP Venom nerve growth factor 2 precursor (vNGF-2) (Nerve growth factor II) - Naja sputatrix (Malayan spitting cobra).
NGFV2_NOTSC Venom nerve growth factor 2 precursor (vNGF-2) - Notechis scutatus scutatus (Mainland tiger snake) (Common tiger snake).
NGFV2_OXYMI Venom nerve growth factor 2 precursor (vNGF-2) - Oxyuranus microlepidotus (Inland taipan).
NGFV2_PSEAU Venom nerve growth factor 2 precursor (vNGF-2) - Pseudechis australis (Mulga snake) (King brown snake).
NGFV2_PSETE Venom nerve growth factor 2 precursor (vNGF-2) - Pseudonaja textilis (Eastern brown snake).
NGFV2_TROCA Venom nerve growth factor 2 precursor (vNGF-2) - Tropidechis carinatus (Australian rough-scaled snake).
NGFV3_NOTSC Venom nerve growth factor 3 precursor (vNGF-3) - Notechis scutatus scutatus (Mainland tiger snake) (Common tiger snake).
NGFV3_PSEAU Venom nerve growth factor 3 precursor (vNGF-3) - Pseudechis australis (Mulga snake) (King brown snake).
NGFV3_TROCA Venom nerve growth factor 3 precursor (vNGF-3) - Tropidechis carinatus (Australian rough-scaled snake).
NGFV4_TROCA Venom nerve growth factor 4 precursor (vNGF-4) - Tropidechis carinatus (Australian rough-scaled snake).
NGFV5_TROCA Venom nerve growth factor 5 precursor (vNGF-5) - Tropidechis carinatus (Australian rough-scaled snake).
NGFV_BOTJR Venom nerve growth factor precursor (vNGF) (Bj-NGF) - Bothrops jararacussu (Jararacussu).
NGFV_CRODU Venom nerve growth factor precursor (vNGF) - Crotalus durissus terrificus (South American rattlesnake).
NGFV_PSEPO Venom nerve growth factor precursor (vNGF) - Pseudechis porphyriacus (Red-bellied black snake).
NGFV_VIPLE Venom nerve growth factor precursor (v-NGF) - Vipera lebetina (Elephant snake) (Leventine viper).
NGF_BUNMU NERVE GROWTH FACTOR PRECURSOR (NGF) - BUNGARUS MULTICINCTUS (MANY-BANDED KRAIT).
Q1W7Q6_9SAUR Venom nerve growth factor preproprotein precursor - Rhinoplocephalus nigrescens.
Q3I5F4_9SAUR Venom nerve growth factor precursor - Oxyuranus scutellatus.
Scan History
SPTR55_38f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
IGIWAAPKSED NGFV1_OXYMI 14 14 -
IGIWAAPKSED NGFV2_OXYMI 14 14 -
IGIWAAPQSED NGFV1_PSEAU 14 14 -
IGIWAAPQSED NGFV3_PSEAU 14 14 -

Motif 2 width=16
Element Seqn Id St Int Rpt
DLSDTSCAQTHEGLKT NGFV1_OXYMI 35 10 -
DLSDTSCAQTHEGLKT NGFV2_OXYMI 35 10 -
DLSDTSCAQTHEGLKT NGFV1_PSEAU 35 10 -
DLSDTSCAQTHEGLKT NGFV3_PSEAU 35 10 -

Motif 3 width=17
Element Seqn Id St Int Rpt
DQRHPAPKKAEDQELGS NGFV1_OXYMI 55 4 -
DQHHPAPKKAEDQELGS NGFV2_OXYMI 55 4 -
DQRHPAPKKVDDQELGS NGFV1_PSEAU 55 4 -
DQRHPAPKKVDDQEPGS NGFV3_PSEAU 55 4 -

Motif 4 width=15
Element Seqn Id St Int Rpt
LSRDEQSVEFLDNED NGFV1_OXYMI 101 29 -
LSRDEQSVEFLDNED NGFV2_OXYMI 101 29 -
LSRDEQSVEFLDNED NGFV1_PSEAU 101 29 -
LSRDEQSVEFLNNED NGFV3_PSEAU 101 29 -
Final Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
IGIWAAPKSED NGFV1_HOPST 14 14 -
IGIWAAPKSED Q3I5F4_9SAUR 14 14 -
IGIWAAPKSED NGFV5_TROCA 14 14 -
IGIWAAPKSED NGFV3_TROCA 14 14 -
IGIWAAPKSED NGFV3_NOTSC 14 14 -
IGIWAAPKSED NGFV2_NOTSC 14 14 -
IGIWAAPKSED NGFV2_HOPST 14 14 -
IGIWAAPKSED NGFV1_TROCA 14 14 -
IGIWAAPKSED NGFV1_PSETE 14 14 -
IGIWAAPKSED NGFV1_OXYMI 14 14 -
IGIWAAPKSED NGFV1_NOTSC 14 14 -
IGIWAAPKSED NGFV2_OXYMI 14 14 -
IGIWAAPKSED NGFV_PSEPO 14 14 -
IGIWAAPKSED NGFV2_PSETE 14 14 -
IGIWAAPKSED Q1W7Q6_9SAUR 14 14 -
IGIWAAPKSED NGFV4_TROCA 14 14 -
IGIWAAPKSED A6MFL7_DEMVE 14 14 -
IGTWAAPKSED NGFV2_TROCA 14 14 -
IGIWAAPKSED A6MFL5_DEMVE 14 14 -
IGIWAAPKSED A6MFL6_DEMVE 14 14 -
IGIWAAPQSED NGFV2_PSEAU 14 14 -
IGIWAAPQSED NGFV1_PSEAU 14 14 -
IGIWAAPKSED NGFV2_NAJSP 14 14 -
IGIWAAPQSED NGFV3_PSEAU 14 14 -
IGIWAAPKSED NGFV_VIPLE 14 14 -
IGIWAAPKSED NGF_BUNMU 14 14 -
IGIWAVPKSED NGFV1_NAJSP 14 14 -
IGIWAAPKSED NGFV_CRODU 14 14 -
IGIWAAPKSED NGFV_BOTJR 14 14 -

Motif 2 width=16
Element Seqn Id St Int Rpt
DLSDTSCAQTHEGLKT NGFV1_HOPST 35 10 -
DLSDTSCAQTHEGLKT Q3I5F4_9SAUR 35 10 -
DLSDTSCAQTHEGLKT NGFV5_TROCA 35 10 -
DLSDTSCAQTHEGLKT NGFV3_TROCA 35 10 -
DLSDTSCAQTHEGLKT NGFV3_NOTSC 35 10 -
DLSDTSCAQTHEGLKT NGFV2_NOTSC 35 10 -
DLSDTSCAQTHEGLKT NGFV2_HOPST 35 10 -
DLSDTSCAQTHEGLKT NGFV1_TROCA 35 10 -
DLSDTSCAQTHEGLKT NGFV1_PSETE 35 10 -
DLSDTSCAQTHEGLKT NGFV1_OXYMI 35 10 -
DLSDTSCAQTHEGLKT NGFV1_NOTSC 35 10 -
DLSDTSCAQTHEGLKT NGFV2_OXYMI 35 10 -
DLSDTSCAQTHEGLKT NGFV_PSEPO 35 10 -
DLSDTSCAQTHEGLKT NGFV2_PSETE 35 10 -
DLSDTSCAQTHEGLKT Q1W7Q6_9SAUR 35 10 -
DLSDTSCAQTHEGLKT NGFV4_TROCA 35 10 -
DLSDTSCAQTHEALKT A6MFL7_DEMVE 35 10 -
DLSDTSCAQTHEGLKT NGFV2_TROCA 35 10 -
DLSDTSCAQTHKALKT A6MFL5_DEMVE 35 10 -
DLSDTSCAQTHKALKT A6MFL6_DEMVE 35 10 -
DLSDTSCAQTHEDLKT NGFV2_PSEAU 35 10 -
DLSDTSCAQTHEGLKT NGFV1_PSEAU 35 10 -
DLSDTSCAQTHEGLKT NGFV2_NAJSP 35 10 -
DLSDTSCAQTHEGLKT NGFV3_PSEAU 35 10 -
DLSDTSCAKTHEALKT NGFV_VIPLE 35 10 -
DFSDTNCAQTHEGLKT NGF_BUNMU 35 10 -
DLSDTSCAQTHEGLKT NGFV1_NAJSP 35 10 -
DLSDTSCAKTHEALKT NGFV_CRODU 35 10 -
DLSVTSCTKTHEALKT NGFV_BOTJR 35 10 -

Motif 3 width=17
Element Seqn Id St Int Rpt
DQRHPAPKKAEDQELGS NGFV1_HOPST 55 4 -
DQRHPAPKKAEDQELGS Q3I5F4_9SAUR 55 4 -
DQRHPAPKKAEDQELGS NGFV5_TROCA 55 4 -
DQRHPAPKKAEDQELGS NGFV3_TROCA 55 4 -
DQRHPAPKKAEDQELGS NGFV3_NOTSC 55 4 -
DQRHPAPKKAEDQELGS NGFV2_NOTSC 55 4 -
DQRHPAPKKAEDQELGS NGFV2_HOPST 55 4 -
DQRHPAPKKAEDQELGS NGFV1_TROCA 55 4 -
DQRHPAPKKAEDQELGS NGFV1_PSETE 55 4 -
DQRHPAPKKAEDQELGS NGFV1_OXYMI 55 4 -
DQRHPAPKKAEDQELGS NGFV1_NOTSC 55 4 -
DQHHPAPKKAEDQELGS NGFV2_OXYMI 55 4 -
DQRHPAPKKADDQELGS NGFV_PSEPO 55 4 -
DQRHPAPKKAEDQELAS NGFV2_PSETE 55 4 -
DQRHLAPKKAEDQELGS Q1W7Q6_9SAUR 55 4 -
DQRHPAPKKAEDQELGS NGFV4_TROCA 55 4 -
DQRHPAPKKAEDQELGS A6MFL7_DEMVE 55 4 -
DQRHPAPKKAEDQELGS NGFV2_TROCA 55 4 -
DQRHPAPKKAEDQELGS A6MFL5_DEMVE 55 4 -
DQRHPAPKKAEDQELGS A6MFL6_DEMVE 55 4 -
DQRHPAPKKADDQELGS NGFV2_PSEAU 55 4 -
DQRHPAPKKVDDQELGS NGFV1_PSEAU 55 4 -
DQRHPAPQKAEDQELRT NGFV2_NAJSP 55 4 -
DQRHPAPKKVDDQEPGS NGFV3_PSEAU 55 4 -
DQHYPAPKKAEDQEFGS NGFV_VIPLE 55 4 -
DQHHPTPKKSEDQELGS NGF_BUNMU 55 4 -
DQRHPAPRSQRIKQFGS NGFV1_NAJSP 55 4 -
DQHYPAPKKAEDQEFGS NGFV_CRODU 55 4 -
DQHYPAPKKEEDQEFGS NGFV_BOTJR 55 4 -

Motif 4 width=15
Element Seqn Id St Int Rpt
LSRDEQSVEFLDNED NGFV1_HOPST 101 29 -
LSRDEQSVEFLDNED Q3I5F4_9SAUR 101 29 -
LSRDEQSVEFLDNED NGFV5_TROCA 101 29 -
LSRDEQSVEFLDNED NGFV3_TROCA 101 29 -
LSRDEQSVEFLDNED NGFV3_NOTSC 101 29 -
LSRDEQSVEFLDNED NGFV2_NOTSC 101 29 -
LSRDEQSVEFLDNED NGFV2_HOPST 101 29 -
LSRDEQSVEFLDNED NGFV1_TROCA 101 29 -
LSRDEQSVEFLDNED NGFV1_PSETE 101 29 -
LSRDEQSVEFLDNED NGFV1_OXYMI 101 29 -
LSRDEQSVEFLDNED NGFV1_NOTSC 101 29 -
LSRDEQSVEFLDNED NGFV2_OXYMI 101 29 -
LSRDEQSVEFLDNED NGFV_PSEPO 101 29 -
LSRDEQSVEFLDNED NGFV2_PSETE 101 29 -
LSRDEQSVEFLDNED Q1W7Q6_9SAUR 101 29 -
LSRGEQSVEFLDNED NGFV4_TROCA 101 29 -
LSRDEQSVEFLENED A6MFL7_DEMVE 101 29 -
LSRDEQSVEFLDNED NGFV2_TROCA 101 29 -
LSRDEQSVEFLENED A6MFL5_DEMVE 101 29 -
LSRDEQSVEFLENED A6MFL6_DEMVE 101 29 -
LSRDEQSVEFLDNED NGFV2_PSEAU 101 29 -
LSRDEQSVEFLDNED NGFV1_PSEAU 101 29 -
LSRDEESVEFLDNED NGFV2_NAJSP 101 29 -
LSRDEQSVEFLNNED NGFV3_PSEAU 101 29 -
LSRDEQSVEFLDNAD NGFV_VIPLE 101 29 -
LSRDEQSVKFLDTED NGF_BUNMU 101 29 -
LSRDEQSVEFLDNED NGFV1_NAJSP 101 29 -
LSRDEQSVDNANSLN NGFV_CRODU 101 29 -
LSRDEQSVDDANSLN NGFV_BOTJR 101 29 -