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PR01257

Identifier
OTX2HOMEOBOX  [View Relations]  [View Alignment]  
Accession
PR01257
No. of Motifs
4
Creation Date
06-DEC-1999
Title
Otx2 transcription factor signature
Database References
PRINTS; PR01255 OTXHOMEOBOX
PRODOM; PD015654
INTERPRO; IPR003022
Literature References
1. ACAMPORA, D. AND SIMEONE, A.
Understanding the roles of Otx1 and Otx2 in the control of brain
morphogenesis.
TRENDS NEUROSCIENCE 22 116-122 (1999).
 
2. HIRTH, F. AND REICHERT, H.
Conserved genetic programs in insect and mammalian brain development.
BIOESSAYS 21 677-684 (1999).
 
3. KLEIN, W.H. AND LI, X.
Function and evolution of Otx proteins.
BIOCHEM.BIOPHYS.RES.COMMUN. 258 229-233 (1999).
 
4. MATSUO, I., KURATANI, S., KIMURA, C., TAKEDA N. AND AIZAWA, S.
Mouse Otx2 functions in the formation and patterning of rostral head.
GENES DEV. 9 2646-26458 (1995).

Documentation
Otx proteins constitute a class of vertebrate homeodomain-containing
transcription factors that have been shown to be essential for anterior
head formation, including brain morphogenesis. They are orthologous to the
product of the Drosophila head gap gene, orthodenticle (Otd), and appear to
play similar roles in both, since the developmental abnormalities caused by
disruption of these transcription factors in one, can be recovered by
substitution of the factor(s) from the other. Such studies have provided
strong evidence that there exists a conserved genetic programme for insect
and mammalian brain development, which presumably arose in a more primitive
common ancestor [1,2].
 
Two vertebrate orthodenticle-related transcription factors have been
indentified, Otx1 and Otx2, which have sizes of 355 and 289 residues
respectively. They contain a bicoid-like homeodomain, which features a
conserved lysine residue at position 9 of the DNA recognition helix, which
is thought to confer high-affinity binding to TAATCC/T elements on DNA [3].
Otd-like transcription factors have also been found in zebrafish and 
certain lamprey species.
 
Mice completely lacking Otx2 (due to targeted gene disruption) die during
early embryogenesis. Analysis reveals that they lack the neuroectoderm
that is destined to become the forebrain, midbrain and rostral hindbrain.
They also show major abnomalities in their body plan. Mice that have
artificially-reduced levels of Otx2 develop head abnormalities reminiscent
of otocephaly [4].
 
OTX2HOMEOBOX is a 4-element fingerprint that provides a signature for the
Otx2 transcription factor. The fingerprint was derived from an initial 
alignment of 3 sequences: the motifs were drawn from conserved regions 
spanning virtually the full alignment length, focusing on those sections
that characterise Otx2 but distinguish it from other Otx isoforms - motif 1
lies at the N-terminus, before the homeobox DNA-binding domain; and motifs
2-4 lie in the C-terminal half of the alignment, occuring after the poly-
glutamine tract. Two iterations on SPTR37_10f were required to reach
convergence, at which point a true set comprising 4 sequences was identified. 
Summary Information
4 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
44444
30000
20000
1234
True Positives
OTX2_BRARE    OTX2_HUMAN    OTX2_MOUSE    OTX2_XENLA    
Sequence Titles
OTX2_BRARE  HOMEOBOX PROTEIN OTX2 (ZOTX2) - BRACHYDANIO RERIO (ZEBRAFISH) (ZEBRA DANIO). 
OTX2_HUMAN HOMEOBOX PROTEIN OTX2 - HOMO SAPIENS (HUMAN).
OTX2_MOUSE HOMEOBOX PROTEIN OTX2 - MUS MUSCULUS (MOUSE).
OTX2_XENLA HOMEOBOX PROTEIN OTX2 (XOTX2) (ORTHODENTICLE 2) - XENOPUS LAEVIS (AFRICAN CLAWED
Scan History
SPTR37_10f 2  100  NSINGLE    
Initial Motifs
Motif 1  width=7
Element Seqn Id St Int Rpt
LSLTTSG OTX2_HUMAN 15 15 -
LSLTTSG OTX2_MOUSE 15 15 -
LSLTASG OTX2_XENLA 15 15 -

Motif 2 width=10
Element Seqn Id St Int Rpt
PLSDPLSTSS OTX2_HUMAN 159 137 -
PLSDPLSTSS OTX2_MOUSE 159 137 -
PLSDPLSTSS OTX2_XENLA 159 137 -

Motif 3 width=7
Element Seqn Id St Int Rpt
TYTQASG OTX2_HUMAN 178 9 -
TYTQASG OTX2_MOUSE 178 9 -
TYTQASG OTX2_XENLA 178 9 -

Motif 4 width=10
Element Seqn Id St Int Rpt
HLNQSPASLS OTX2_HUMAN 230 45 -
HLNQSPASLS OTX2_MOUSE 230 45 -
HLNQSPVALS OTX2_XENLA 230 45 -
Final Motifs
Motif 1  width=7
Element Seqn Id St Int Rpt
LSLTTSG OTX2_HUMAN 15 15 -
LSLTTSG OTX2_MOUSE 15 15 -
LSLTTSG OTX2_BRARE 15 15 -
LSLTASG OTX2_XENLA 15 15 -

Motif 2 width=10
Element Seqn Id St Int Rpt
PLSDPLSTSS OTX2_HUMAN 159 137 -
PLSDPLSTSS OTX2_MOUSE 159 137 -
PLSDPLSTSS OTX2_BRARE 159 137 -
PLSDPLSTSS OTX2_XENLA 159 137 -

Motif 3 width=7
Element Seqn Id St Int Rpt
TYTQASG OTX2_HUMAN 178 9 -
TYTQASG OTX2_MOUSE 178 9 -
TYTQASG OTX2_BRARE 178 9 -
TYTQASG OTX2_XENLA 178 9 -

Motif 4 width=10
Element Seqn Id St Int Rpt
HLNQSPASLS OTX2_HUMAN 230 45 -
HLNQSPASLS OTX2_MOUSE 230 45 -
HLNQSPASLP OTX2_BRARE 230 45 -
HLNQSPVALS OTX2_XENLA 230 45 -