WORKLIST ENTRIES (1): KCNE3CHANNEL View alignment KCNE voltage-gated K+ channel subfamily E3 signature Type of fingerprint: COMPOUND with 3 elements Links: PRINTS; PR01491 KVCHANNEL; PR00168 KCNECHANNEL; PR01604 KCNE1CHANNEL PRINTS; PR01605 KCNE2CHANNEL Creation date 12-SEP-2001 1. MILLER, C. An overview of the potassium channel family. GENOME BIOL. 1(4) 1-5 (2000). 2. CONLEY, E.C. AND BRAMMAR, W.J. MinK. IN THE ION CHANNEL FACTSBOOK, VOLUME IV, ACADEMIC PRESS, 1999, PP.703-767. 3. ABBOT, G.W., BUTLER, M.H., BENDAHHOU, S., DALAKAS, M.C., PTACEK, L.J. AND GOLDSTEIN, S.A.N. MiRP2 forms potassium channels in skeletal muscle with Kv3.4 and is associated with periodic paralysis. CELL 104 217-231 (2001). 4. SCHROEDER, B.C., WALDEGGER, S., FEHR, S., BLEICH, M., WARTH, R., GREGER, R. AND JENTSCH, T.J. A constitutively open potassium channel formed by KCNQ1 and KCNE3. NATURE 403 196-199 (2000). Potassium ion (K+) channels are a structurally diverse group of proteins that facilitate the flow of K+ ions across cell membranes. They are ubiquitous, being present in virtually all cell types. Activation of K+ channels tends to hyperpolarise cells, reducing the membrane's electrical resistance, dampening nervous activity. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, and act as effectors in signal transduction pathways involving G protein- coupled receptors (GPCRs). In prokaryotic cells, they play a role in the maintenance of ionic homeostasis . Some types of K+ channel are closed at the resting potential of the cell, but open on membrane depolarisation, and are thus known as voltage-gated channels. Each of these types of channel typically comprises 4 pore-forming alpha subunits that may associate with one of a number of different types of beta subunit. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels . KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). KCNE3 is known to associate with the pore forming subunits KCNQ1, KCNQ4, HERG and Kv3.4. KCNE3 forms complexes with Kv3.4 in skeletal muscle - KCNE3 mutations have been identified in families with skeletal muscle disorders . In the intestine, KCNE3 associates with KCNQ1 to form channels that are stimulated by cAMP and are thought to be involved in secretory diarrhoea and cystic fibrosis . KCNE3CHANNEL is a 3-element fingerprint that provides a signature for the KCNE voltage-gated K+ channel subfamily E3. The fingerprint was derived from an initial alignment of 3 sequences: the motifs were drawn from conserved regions spanning the N-terminal portion of the alignment, focusing on those sections that characterise the KCNE3 subunits but distinguish them from the rest of the KCNE family - motifs 1-3 lie in the extracellular N-terminus. A single iteration on SPTR39.22_17.3f was required to reach convergence, no further sequences being identified beyond the starting set. SUMMARY INFORMATION 3 codes involving 3 elements 0 codes involving 2 elements COMPOSITE FINGERPRINT INDEX 3| 3 3 3 2| 0 0 0 --+---------------- | 1 2 3 True positives.. MIR2_MOUSE MIR2_RAT MIR2_HUMAN PROTEIN TITLES MIR2_MOUSE MINIMUM POTASSIUM ION CHANNEL-RELATED PEPTIDE 2 (MIRP2) (MIN MIR2_RAT MINIMUM POTASSIUM ION CHANNEL-RELATED PEPTIDE 2 (MIRP2) (MIN MIR2_HUMAN MINIMUM POTASSIUM ION CHANNEL-RELATED PEPTIDE 2 (MIRP2) (MIN
SCAN HISTORY SPTR39.22_17.3f 1 100 NSINGLE INITIAL MOTIF SETS KCNE3CHANNEL1 Length of motif = 18 Motif number = 1 KCNE voltage-gated K+ channel subfamily E3 motif I - 1 PCODE ST INT METTNGTETWYESLHAVL MIR2_HUMAN 1 1 METSNGTETWYMSLHAVL MIR2_MOUSE 1 1 METSNGTETWYKSLHAVL MIR2_RAT 1 1 KCNE3CHANNEL2 Length of motif = 20 Motif number = 2 KCNE voltage-gated K+ channel subfamily E3 motif II - 1 PCODE ST INT KALNATLHSNLLCRPGPGLG MIR2_HUMAN 19 0 KALNTTLHSHLLCRPGPGPG MIR2_MOUSE 19 0 KALNTTLHSHLLCRPGPGPG MIR2_RAT 19 0 KCNE3CHANNEL3 Length of motif = 18 Motif number = 3 KCNE voltage-gated K+ channel subfamily E3 motif III - 1 PCODE ST INT PDNQTEERRASLPGRDDN MIR2_HUMAN 39 0 PDNQTEDRRASLPGRNDN MIR2_MOUSE 39 0 PDNQTEDHRASLPGRNDN MIR2_RAT 43 4 FINAL MOTIF SETS KCNE3CHANNEL1 Length of motif = 18 Motif number = 1 KCNE voltage-gated K+ channel subfamily E3 motif I - 1 PCODE ST INT METSNGTETWYMSLHAVL MIR2_MOUSE 1 1 METSNGTETWYKSLHAVL MIR2_RAT 1 1 METTNGTETWYESLHAVL MIR2_HUMAN 1 1 KCNE3CHANNEL2 Length of motif = 20 Motif number = 2 KCNE voltage-gated K+ channel subfamily E3 motif II - 1 PCODE ST INT KALNTTLHSHLLCRPGPGPG MIR2_MOUSE 19 0 KALNTTLHSHLLCRPGPGPG MIR2_RAT 19 0 KALNATLHSNLLCRPGPGLG MIR2_HUMAN 19 0 KCNE3CHANNEL3 Length of motif = 18 Motif number = 3 KCNE voltage-gated K+ channel subfamily E3 motif III - 1 PCODE ST INT PDNQTEDRRASLPGRNDN MIR2_MOUSE 39 0 PDNQTEDHRASLPGRNDN MIR2_RAT 43 4 PDNQTEERRASLPGRDDN MIR2_HUMAN 39 0
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