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PR01802

Identifier
SYNEMBRYN  [View Relations]  [View Alignment]  
Accession
PR01802
No. of Motifs
6
Creation Date
25-SEP-2002  (UPDATE 02-APR-2003)
Title
Synembryn family signature
Database References
Literature References
1. TALL, G.G., KRUMINS, A.M. AND GILMAN, A.G.
Mammalian Ric-8A (Synembryn) Is a Heterotrimeric Galpha Protein Guanine
Nucleotide Exchange Factor.
J.BIOL.CHEM. 278(10) 8356-8362 (2003).
 
2. MILLER, K.G., EMERSON, M.D., MCMANUS, J.R. AND RAND, J.B.
RIC-8 (Synembryn): a novel conserved protein that is required for G(q)alpha
signaling in the C. elegans nervous system.
NEURON 27(2) 289-299 (2000).

Documentation
Heterotrimeric G proteins, composed of alpha, beta and gamma subunits,
transduce signals from seven transmembrane (7TM) helix receptors to various
downstream effector systems. They are involved in the regulation of a wide
range of intracellular pathways and functions. Normally, ligand binding to
the receptor causes it to act as a guanine nucleotide exchange factor (GEF),
binding the inactive GDP-bound G protein complex, and stimulating the release
of GDP from the G-alpha subunit. This facilitates dissociation of G-alpha-GTP
from the G-beta-gamma dimer, and thus from the recptor. The dissociated
G protein subunits then interact with their various effectors [1].
 
Synembryn is a novel non-receptor protein that acts as a potent GEF for
several G-alpha subunits. It is found in species as diverse as mammals and
the nematode C.elegans, where it was first discovered [2]. The role of
synembryn appears to be conserved across species, in that it is always
involved in regulating neurotransmitter transmission. The mechanism of
synembryn-mediated guanine nucleotide exchange is quite different from that
of the 7TM receptors. Synembryn binds to GDP-bound G-alpha in the absence of
the G-beta-gamma dimer, forming a stable, nucleotide-free G-alpha-synembryn
complex. To disrupt the complex, GTP-binding is required, releasing
synembryn and the activated G-alpha protein [2].
 
SYNEMBRYN is a 6-element fingerprint that provides a signature for the
synembryn family. The fingerprint was derived from an initial alignment of 6
sequences: the motifs were drawn from conserved regions in the C-terminal
portion of the alignment. Two iterations on SPTR40_20f were required to
reach convergence, at which point a true set comprising 9 sequences was
identified. Two partial matches were also found, Q9H9E7 from human and
Q9W356 from Drosophila, both of which have shorter C-termini.
Summary Information
   9 codes involving  6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
2 codes involving 2 elements
Composite Feature Index
6999999
5000000
4000000
3000000
2220000
123456
True Positives
Q96EZ1        Q96SZ2        Q9ERR6        Q9GSX9        
Q9H064 Q9H5H3 Q9NPQ8 Q9NVN3
Q9W358
True Positive Partials
Codes involving 2 elements
Q9H9E7 Q9W356
Sequence Titles
Q96EZ1      HYPOTHETICAL 47.3 KDA PROTEIN - Homo sapiens (Human). 
Q96SZ2 CDNA FLJ14555 FIS, CLONE NT2RM2001855 - Homo sapiens (Human).
Q9ERR6 SYNEMBRYN - Mus musculus (Mouse).
Q9GSX9 SYNEMBRYN (HYPOTHETICAL 63.4 KDA PROTEIN) - Caenorhabditis elegans.
Q9H064 HYPOTHETICAL 60.4 KDA PROTEIN - Homo sapiens (Human).
Q9H5H3 CDNA: FLJ23437 FIS, CLONE HRC13266 - Homo sapiens (Human).
Q9NPQ8 HYPOTHETICAL 59.7 KDA PROTEIN - Homo sapiens (Human).
Q9NVN3 CDNA FLJ10620 FIS, CLONE NT2RP2005495 - Homo sapiens (Human).
Q9W358 CG15797 PROTEIN - Drosophila melanogaster (Fruit fly).

Q9H9E7 CDNA FLJ12808 FIS, CLONE NT2RP2002373 - Homo sapiens (Human).
Q9W356 CG15910 PROTEIN - Drosophila melanogaster (Fruit fly).
Scan History
SPTR40_20f 2  100  NSINGLE    
Initial Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
KESVAPVLSVLTEC Q9H5H3 69 69 -
KESVAPVLSVLTEC Q9H064 328 328 -
KESVAPVLSVLTEC Q96SZ2 218 218 -
KECVAPVLNVLTEC Q9ERR6 327 327 -
HELLSPVLTVLVKC Q9W358 338 338 -
TDLVGPYFQVLARL Q9GSX9 358 358 -

Motif 2 width=19
Element Seqn Id St Int Rpt
RDVRTRPEVGEMLRNKLVR Q9H5H3 102 19 -
RDVRTRPEVGEMLRNKLVR Q9H064 367 25 -
RDVRTRPEVGEMLRNKLVR Q96SZ2 251 19 -
RDVRTRPEVGDLLRNKLVR Q9ERR6 360 19 -
RDVSQRPEVGQELRNHLCR Q9W358 371 19 -
EEVQKRPEENNTLRGRIAR Q9GSX9 393 21 -

Motif 3 width=14
Element Seqn Id St Int Rpt
AEFLFVLCSESVPR Q9H5H3 134 13 -
AEFLFVLCSESVPR Q9H064 399 13 -
AEFLFVLCSESVPR Q96SZ2 283 13 -
AEFLFVLCSESVPR Q9ERR6 392 13 -
AELLFVLCKENVGR Q9W358 403 13 -
AEFLFIICKRSVNR Q9GSX9 424 12 -

Motif 4 width=17
Element Seqn Id St Int Rpt
IKYTGYGNAAGLLAARG Q9H5H3 149 1 -
IKYTGYGNAAGLLAARG Q9H064 414 1 -
IKYTGYGNAAGLLAARG Q96SZ2 298 1 -
IKYTGYGNAAGLLAARG Q9ERR6 407 1 -
IKYTGYGNAAGLFAKRG Q9W358 418 1 -
IKYLGFGHSAGHLANLG Q9GSX9 439 1 -

Motif 5 width=18
Element Seqn Id St Int Rpt
EDTDTDEYKEAKASINPV Q9H5H3 180 14 -
EDTDTDEYKEAKASINPV Q9H064 445 14 -
EDTDTDEYKEAKASINPV Q96SZ2 329 14 -
EDTDTEEYREAKASINPV Q9ERR6 438 14 -
EDSDTEEYKQQQQGINPV Q9W358 451 16 -
EDSETEDYNQIKDSVNPV Q9GSX9 470 14 -

Motif 6 width=14
Element Seqn Id St Int Rpt
MTEEQKEHEAMKLV Q9H5H3 212 14 -
MTEEQKEHEAMKLV Q9H064 477 14 -
MTEEQKEHEAMKLV Q96SZ2 361 14 -
MTEEQKEHEAMKLV Q9ERR6 470 14 -
ISEEQKEYEAMQLV Q9W358 483 14 -
MSEEQKEYEAMKLV Q9GSX9 503 15 -
Final Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
KESVAPVLSVLTEC Q96EZ1 217 217 -
KESVAPVLSVLTEC Q9NPQ8 328 328 -
KESVAPVLSVLTEC Q9H5H3 69 69 -
KESVAPVLSVLTEC Q9H064 328 328 -
KESVAPVLSVLTEC Q96SZ2 218 218 -
KECVAPVLNVLTEC Q9ERR6 327 327 -
REGLTPVLSLLTEC Q9NVN3 360 360 -
HELLSPVLTVLVKC Q9W358 338 338 -
TDLVGPYFQVLARL Q9GSX9 358 358 -

Motif 2 width=19
Element Seqn Id St Int Rpt
RDVRTRPEVGEMLRNKLVR Q96EZ1 250 19 -
RDVRTRPEVGEMLRNKLVR Q9NPQ8 361 19 -
RDVRTRPEVGEMLRNKLVR Q9H5H3 102 19 -
RDVRTRPEVGEMLRNKLVR Q9H064 367 25 -
RDVRTRPEVGEMLRNKLVR Q96SZ2 251 19 -
RDVRTRPEVGDLLRNKLVR Q9ERR6 360 19 -
RDVTNRPEVGSTVRNKLVR Q9NVN3 393 19 -
RDVSQRPEVGQELRNHLCR Q9W358 371 19 -
EEVQKRPEENNTLRGRIAR Q9GSX9 393 21 -

Motif 3 width=14
Element Seqn Id St Int Rpt
AEFLFVLCSESVPR Q96EZ1 282 13 -
AEFLFVLCSESVPR Q9NPQ8 393 13 -
AEFLFVLCSESVPR Q9H5H3 134 13 -
AEFLFVLCSESVPR Q9H064 399 13 -
AEFLFVLCSESVPR Q96SZ2 283 13 -
AEFLFVLCSESVPR Q9ERR6 392 13 -
AEFLFVLCKERVDS Q9NVN3 425 13 -
AELLFVLCKENVGR Q9W358 403 13 -
AEFLFIICKRSVNR Q9GSX9 424 12 -

Motif 4 width=17
Element Seqn Id St Int Rpt
IKYTGYGNAAGLLAARG Q96EZ1 297 1 -
IKYTGYGNAAGLLAARG Q9NPQ8 408 1 -
IKYTGYGNAAGLLAARG Q9H5H3 149 1 -
IKYTGYGNAAGLLAARG Q9H064 414 1 -
IKYTGYGNAAGLLAARG Q96SZ2 298 1 -
IKYTGYGNAAGLLAARG Q9ERR6 407 1 -
LKYTGYGNAAGLLAARG Q9NVN3 440 1 -
IKYTGYGNAAGLFAKRG Q9W358 418 1 -
IKYLGFGHSAGHLANLG Q9GSX9 439 1 -

Motif 5 width=18
Element Seqn Id St Int Rpt
EDTDTDEYKEAKASINPV Q96EZ1 328 14 -
EDTDTDEYKEAKASINPV Q9NPQ8 439 14 -
EDTDTDEYKEAKASINPV Q9H5H3 180 14 -
EDTDTDEYKEAKASINPV Q9H064 445 14 -
EDTDTDEYKEAKASINPV Q96SZ2 329 14 -
EDTDTEEYREAKASINPV Q9ERR6 438 14 -
EDTDTEEYKNAKPNINLI Q9NVN3 471 14 -
EDSDTEEYKQQQQGINPV Q9W358 451 16 -
EDSETEDYNQIKDSVNPV Q9GSX9 470 14 -

Motif 6 width=14
Element Seqn Id St Int Rpt
MTEEQKEHEAMKLV Q96EZ1 360 14 -
MTEEQKEHEAMKLV Q9NPQ8 471 14 -
MTEEQKEHEAMKLV Q9H5H3 212 14 -
MTEEQKEHEAMKLV Q9H064 477 14 -
MTEEQKEHEAMKLV Q96SZ2 361 14 -
MTEEQKEHEAMKLV Q9ERR6 470 14 -
MTEEQKEYEAMKLV Q9NVN3 503 14 -
ISEEQKEYEAMQLV Q9W358 483 14 -
MSEEQKEYEAMKLV Q9GSX9 503 15 -