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PR01914

Identifier
NEUROTROPHN3  [View Relations]  [View Alignment]  
Accession
PR01914
No. of Motifs
4
Creation Date
01-SEP-2008
Title
Neurotrophin-3 signature
Database References
PRINTS; PR00268 NGF
PRODOM; PD013017
INTERPRO; IPR015578
PDB; 1BND; 1B8K; 1NT3
SCOP; 1BND; 1B8K; 1NT3
CATH; 1BND; 1B8K; 1NT3
MIM; 162660
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. TESSAROLLO, L., VOGEL, K., PALKO, M., REID, S. AND PARADA, L. 
Targeted mutation in the neurotrophin-3 gene results in loss of muscle 
sensory neurons.
PROC.NATL.ACAD.SCI.U.S.A. 91 11844-11848 (1994).
 
5. GRENC, B., OZDINLER, P., MENDOZA, A. AND ERZURUMLU, R.
A chemoattractant role for NT-3 in proprioceptive axon guidance.
PLOS.BIOL. 2 e40 (2004).
 
6. JONSSON, E., BRENE, S., ZHANG, X., NIMGAONKAR, V., TYLEC, A., SCHALLING,
M. AND SEDVALL, G.
Schizophrenia and neurotrophin-3 alleles.
ACTA PSYCHIATR.SCAND. 95 414-419 (1997).
The neurotrophin also has a role in axon guidance [5]. Polymorphisms in the

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.
 
Neurotrophin-3 (NT-3) and its cognate receptor - neurotrophic tyrosine 
kinase receptor type 3 (NTRK3; also called TrkC) - are broadly expressed
in the nervous system, and also found in some non-neural tissues. NT-3 has
been shown to be vital for sensory neuronal survival and development [4].
The neurotrophin also has a role in axon guidance [5]. Polymorphisms in the
neurotrophin-3 gene are associated with schizophrenia [6].
 
NEUROTROPHN3 is a 4-element fingerprint that provides a signature for
neurotrophin-3. 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, within the propeptide, motif 1 spanning part of the
signal sequence. Two iterations on SPTR55_38f were required to reach
convergence, at which point a true set comprising 10 sequences was 
identified.
Summary Information
10 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
410101010
30000
20000
1234
True Positives
NT3_CHICK     NT3_HUMAN     NT3_MOUSE     NT3_RAT       
NT3_XENLA NTF3_BOVIN NTF3_FELCA NTF3_PIG
Q3V1A4_MOUSE Q6GLW9_XENLA
Sequence Titles
NT3_CHICK   NEUROTROPHIN-3 PRECURSOR (NT-3) (NEUROTROPHIC FACTOR) (HDNF) (NERVE GROWTH FACTOR 2) (NGF-2) - GALLUS GALLUS (CHICKEN). 
NT3_HUMAN NEUROTROPHIN-3 PRECURSOR (NT-3) (NEUROTROPHIC FACTOR) (HDNF) (NERVE GROWTH FACTOR 2) (NGF-2) - HOMO SAPIENS (HUMAN).
NT3_MOUSE NEUROTROPHIN-3 PRECURSOR (NT-3) (NEUROTROPHIC FACTOR) (HDNF) (NERVE GROWTH FACTOR 2) (NGF-2) - MUS MUSCULUS (MOUSE).
NT3_RAT NEUROTROPHIN-3 PRECURSOR (NT-3) (NEUROTROPHIC FACTOR) (HDNF) (NERVE GROWTH FACTOR 2) (NGF-2) - RATTUS NORVEGICUS (RAT).
NT3_XENLA NEUROTROPHIN-3 PRECURSOR (NT-3) (NEUROTROPHIC FACTOR) (HDNF) (NERVE GROWTH FACTOR 2) (NGF-2) - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
NTF3_BOVIN Neurotrophin-3 precursor (NT-3) - Bos taurus (Bovine).
NTF3_FELCA Neurotrophin-3 precursor (NT-3) (Neurotrophic factor) (HDNF) (Nerve growth factor 2) (NGF-2) - Felis silvestris catus (Cat).
NTF3_PIG Neurotrophin-3 precursor (NT-3) - Sus scrofa (Pig).
Q3V1A4_MOUSE 0 day neonate head cDNA, RIKEN full-length enriched library, clone:4833409A05 product:neurotrophin 3, full insert sequence - Mus musculus (Mouse).
Q6GLW9_XENLA MGC84157 protein - Xenopus laevis (African clawed frog).
Scan History
SPTR55_38f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
FLAYLRGIQGNNMDQRSL NT3_RAT 9 9 -
FLAYLRGIQGNNMDQRSL NTF3_FELCA 9 9 -
FLAYLRGIQSTNMDQRSL NT3_CHICK 9 9 -
FLPYLCGIHATNMDKRNL NT3_XENLA 9 9 -

Motif 2 width=12
Element Seqn Id St Int Rpt
IKLIQADILKNK NT3_RAT 36 9 -
IKLIQADILKNK NTF3_FELCA 36 9 -
IKLIRADILKNK NT3_CHICK 36 9 -
IKLIQADLLKNK NT3_XENLA 36 9 -

Motif 3 width=10
Element Seqn Id St Int Rpt
KQMVDVKENY NT3_RAT 50 2 -
KQMVDLKENY NTF3_FELCA 50 2 -
KQVMDVKENY NT3_CHICK 50 2 -
KQTVDTKENH NT3_XENLA 50 2 -

Motif 4 width=15
Element Seqn Id St Int Rpt
EFQPMIATDTELLRQ NT3_RAT 81 21 -
EFQPVTAMDTELLRQ NTF3_FELCA 81 21 -
DFQPVISMDTDLLRQ NT3_CHICK 81 21 -
DFQPVISLEAELVKQ NT3_XENLA 81 21 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
FLAYLRGIQGNNMDQRSL NT3_RAT 9 9 -
FLAYLRGIQGNNMDQRSL NT3_HUMAN 9 9 -
FLAYLRGIQGNSMDQRSL NT3_MOUSE 9 9 -
FLAYLRGIQGNSMDQRSL Q3V1A4_MOUSE 22 22 -
FLAYLRGIQGNNMDQRSL NTF3_FELCA 9 9 -
FLAYLRGVQGNSMDQRSL NTF3_BOVIN 9 9 -
FLAYLRGIQSTNMDQRSL NT3_CHICK 9 9 -
FLAYLRGIQGNSMDQRRL NTF3_PIG 9 9 -
FLPYLCGIHATNMDKRNL NT3_XENLA 9 9 -
FLPYLCGIHATNMDKRNL Q6GLW9_XENLA 9 9 -

Motif 2 width=12
Element Seqn Id St Int Rpt
IKLIQADILKNK NT3_RAT 36 9 -
IKLIQADILKNK NT3_HUMAN 36 9 -
IKLIQADILKNK NT3_MOUSE 36 9 -
IKLIQADILKNK Q3V1A4_MOUSE 49 9 -
IKLIQADILKNK NTF3_FELCA 36 9 -
IKLIQADILKNK NTF3_BOVIN 36 9 -
IKLIRADILKNK NT3_CHICK 36 9 -
IKLIQADILKNK NTF3_PIG 36 9 -
IKLIQADLLKNK NT3_XENLA 36 9 -
IKLIQADLLKNK Q6GLW9_XENLA 36 9 -

Motif 3 width=10
Element Seqn Id St Int Rpt
KQMVDVKENY NT3_RAT 50 2 -
KQMVDVKENY NT3_HUMAN 50 2 -
KQMVDVKENY NT3_MOUSE 50 2 -
KQMVDVKENY Q3V1A4_MOUSE 63 2 -
KQMVDLKENY NTF3_FELCA 50 2 -
KQMVDVKENY NTF3_BOVIN 50 2 -
KQVMDVKENY NT3_CHICK 50 2 -
KQMVDLQENY NTF3_PIG 50 2 -
KQTVDTKENH NT3_XENLA 50 2 -
KQSVDTKENH Q6GLW9_XENLA 50 2 -

Motif 4 width=15
Element Seqn Id St Int Rpt
EFQPMIATDTELLRQ NT3_RAT 81 21 -
AFQPVIAMDTELLRQ NT3_HUMAN 81 21 -
EFQPMIATDTELLRQ NT3_MOUSE 81 21 -
EFQPMIATDTELLRQ Q3V1A4_MOUSE 94 21 -
EFQPVTAMDTELLRQ NTF3_FELCA 81 21 -
EFQPVTAMGPELLRQ NTF3_BOVIN 77 17 -
DFQPVISMDTDLLRQ NT3_CHICK 81 21 -
EFQPVTAVGPEWLRH NTF3_PIG 81 21 -
DFQPVISLEAELVKQ NT3_XENLA 81 21 -
DFQPIISLEAELVKQ Q6GLW9_XENLA 81 21 -