The Eukaryote Linear Motif resource for Functional Sites in Proteins
Accession:
Functional site class:
Homeodomain ligand
Functional site description:
The YPWM motif in HOX proteins confers binding to PBX homeobox domains.
ELM Description:
The Homeobox (Hox) family consists of a large number of transcription factors which have a vital role in development of the embryo in determining the anterior/posterior and rosto/caudal axis in multicellular organisms. Hox proteins share a conserved 60 amino-acid region; homeodomain, which has specific DNA binding activity, and promotes regulation of multiple target genes (Gehring,1994). The YPWM functional site, is found in several Hox proteins and is located N-terminal in respect to the homeodomain (Qian,1992), and acts as a ligand to the extended Pbx homeodomain, forming a hetrodimer. This interaction increases the DNA binding affinity of the Hox proteins containing the YPWM functional site. Structural data (1LFU; Sprules,2003) suggest a lock and key mechanism where the YPWM motif engages in an interaction in a hydrophobic pocket located in the extended Pbx homeodomain.
Pattern: [FY][DEP]WM
Pattern Probability: 9.953e-07
Present in taxon: Metazoa
Interaction Domain:
Homeobox (PF00046) Homeobox domain (Stochiometry: 1 : 1)
PDB Structure: 1B72
<a href="http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1B72" title="" target="_blank"><img src="/media/pdb.ico.png"/>1B72</a>
o See 16 Instances for LIG_HOMEOBOX
o Abstract
The YPWM motif in HOX proteins confers binding to PBX homeodomains.
o 2 selected references:

o 4 GO-Terms:

o 16 Instances for LIG_HOMEOBOX
(click table headers for sorting; Notes column: =Number of Switches, =Number of Interactions)
Protein NameGene NameStartEndSubsequenceLogic#Ev.OrganismNotes
HXC8_HUMAN HOXC8 139 142 QNSSPSLMFPWMRPHAPGRR TP 1 Homo sapiens (Human)
HXA1_HUMAN HOXA1 205 208 ETSSPAQTFDWMKVKRNPPK TP 1 Homo sapiens (Human)
HXB2_HUMAN HOXB2 95 98 PAAPPAPEFPWMKEKKSAKK TP 1 Homo sapiens (Human)
HXB4_HUMAN HOXB4 142 145 SACKEPVVYPWMRKVHVSTV TP 1 Homo sapiens (Human)
HXB5_HUMAN HOXB5 177 180 PEGQTPQIFPWMRKLHISHD TP 1 Homo sapiens (Human)
HXB8_HUMAN HOXB8 135 138 QSPSPTQLFPWMRPQAAAGR TP 1 Homo sapiens (Human)
HXD4_HUMAN HOXD4 134 137 ALKQPAVVYPWMKKVHVNSV TP 1 Homo sapiens (Human)
PDX1_HUMAN PDX1 119 122 EPNRVQLPFPWMKSTKAHAW TP 1 Homo sapiens (Human)
TLX1_HUMAN TLX1 174 177 VNNLTGLTFPWMESNRRYTK TP 1 Homo sapiens (Human)
TLX2_HUMAN TLX2 118 121 AGGLAGLTFPWMDSGRRFAK TP 1 Homo sapiens (Human)
CDX1_HUMAN CDX1 133 136 PGAQRPTPYEWMRRSVAAGG TP 1 Homo sapiens (Human)
HXB1_HUMAN HOXB1 180 183 PNTPTARTFDWMKVKRNPPK TP 2 Homo sapiens (Human)
HXB3_HUMAN HOXB3 130 133 NSTLTKQIFPWMKESRQTSK TP 1 Homo sapiens (Human)
HXB6_HUMAN HOXB6 128 131 EQKCSTPVYPWMQRMNSCNS TP 1 Homo sapiens (Human)
TLX3_HUMAN TLX3 125 128 VSSLGGLNFPWMESSRRFVK TP 1 Homo sapiens (Human)
HXB7_HUMAN HOXB7 127 130 AAESNFRIYPWMRSSGTDRK TP 1 Homo sapiens (Human)
Please cite: The Eukaryotic Linear Motif Resource ELM: 10 Years and Counting (PMID:24214962)

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