Identifier | BACTRLOPSIN  [View Relations]  [View Alignment]  
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Accession | PR00251 |
No. of Motifs | 7 |
Creation Date | 11-NOV-1993  (UPDATE 06-JUN-1999) |
Title | Bacterial opsin signature |
Database References | PRINTS; PR90007 7TM PROSITE; PS00950 BACTERIAL_OPSIN_1; PS00327 BACTERIAL_OPSIN_RET BLOCKS; BL00327 PFAM; PF01036 Bac_rhodopsin INTERPRO; IPR001425 PDB; 1BRD SCOP; 1BRD |
Literature References | 1. OESTERHELT, D. AND TITTOR, J.
Two pumps, one principle - Light-driven ion-transport in halobacteria.
TRENDS BIOCHEM.SCI. 14(2) 57-61 (1989).
2. BLANCK, A., OESTERHELT, D., FERRANDO, E., SCHEGK, E.S. AND LOTTSPEICH, F.
Primary structure of sensory rhodopsin-I, a prokaryotic photoreceptor.
EMBO J. 8(13) 3963-3971 (1989).
3. OTOMO, J., TOMIOKA, H. AND SASABE,H.
Properties and the primary structure of a new halorhodopsin from
halobacterial strain mex.
BIOCHIM.BIOPHYS.ACTA 1112 7-13 (1991).
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Documentation | The bacterial opsins are retinal-binding proteins that provide light-
dependent ion transport and sensory functions to a family of halophilic
bacteria [1,2]. They are integral membrane proteins believed to contain
7 transmembrane (TM) domains, the last of which contains the attachment
point for retinal (a conserved lysine). There are several classes of these
bacterial proteins: they include bacteriorhodopsin and archaerhodopsin,
which are light-driven proton pumps; halorhodopsin, a light-driven
chloride pump; and sensory rhodopsin, which mediates both photoattractant
(in the red) and photophobic (in the UV) responses.
BACTRLOPSIN is a 7-element fingerprint that provides a signature for the
bacterial opsins. The fingerprint was derived from an initial alignment
of 5 sequences: the motifs were drawn from the 7 putative membrane-
spanning domains - motif 3 includes the region encoded by PROSITE pattern
BACTERIAL_OPSIN_1 (PS00950), which contains a functionally important Arg
residue, and motif 7 encompasses the region encoded by PROSITE pattern
BACTERIAL_OPSIN_RET (PS00327), which contains the retinal-binding lysine.
Two iterations on OWL21.2 were required to reach convergence, at which
point a true set comprising 8 sequences was identified. A single partial
match was also found, a halorhodopsin fragment [3] lacking the first and
the seventh TM domains.
An update on SPTR37_9f identified a true set of 15 sequences, and 5
partial matches.
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Summary Information | 15 codes involving 7 elements 1 codes involving 6 elements 1 codes involving 5 elements 1 codes involving 4 elements 2 codes involving 3 elements 0 codes involving 2 elements
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Composite Feature Index | 7 | 15 | 15 | 15 | 15 | 15 | 15 | 15 | 6 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 5 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 4 | 0 | 1 | 1 | 0 | 0 | 1 | 1 | 3 | 0 | 0 | 2 | 2 | 0 | 1 | 1 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | | 1 | 2 | 3 | 4 | 5 | 6 | 7 |
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True Positives | BAC1_HALS1 BAC2_HALS2 BAC3_HALSD BACH_HALHP BACH_HALHS BACH_HALSP BACH_HALSS BACH_HALVA BACH_NATPH BACR_HALAR BACR_HALHA BACR_HALSR BACR_HALVA BACS_HALHA BACS_HALSS |
True Positive Partials | |
Sequence Titles | BAC1_HALS1 ARCHAERHODOPSIN 1 PRECURSOR (AR 1) - HALOBACTERIUM SP. (STRAIN AUS-1), AND HALOBACTERIUM SP. (STRAIN SG1). BAC2_HALS2 ARCHAERHODOPSIN 2 PRECURSOR (AR 2) - HALOBACTERIUM SP. (STRAIN AUS-2). BAC3_HALSD ARCHAERHODOPSIN 3 PRECURSOR (AR 3) - HALORUBRUM SODOMENSE. BACH_HALHP HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM HALOBIUM (STRAIN PORT). BACH_HALHS HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM HALOBIUM (STRAIN SHARK). BACH_HALSP HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM SP. BACH_HALSS HALORHODOPSIN (HR) - HALOBACTERIUM SP. (STRAIN SG1). BACH_HALVA CRUXHALORHODOPSIN-3 PRECURSOR (CHR-3) - HALOARCULA VALLISMORTIS. BACH_NATPH HALORHODOPSIN (HR) - NATRONOMONAS PHARAONIS (NATRONOBACTERIUM PHARAONIS). BACR_HALAR CRUXRHODOPSIN-1 (COP-1) (CR-1) - HALOARCULA ARGENTINOS (HALOARCULA STRAIN ARG-1). BACR_HALHA BACTERIORHODOPSIN PRECURSOR (BR) - HALOBACTERIUM HALOBIUM. BACR_HALSR CRUXRHODOPSIN-2 (COP-2) (CR-2) - HALOARCULA SP. (STRAIN ARG-2 / ANDES HEIGHTS). BACR_HALVA CRUXRHODOPSIN-3 (COP-3) (CR-3) - HALOARCULA VALLISMORTIS. BACS_HALHA SENSORY RHODOPSIN I (SR-I) - HALOBACTERIUM HALOBIUM. BACS_HALSS SENSORY RHODOPSIN I (SR-I) - HALOBACTERIUM SP. (STRAIN SG1). BAC3_HALVA BACTERIAL RHODOPSIN CSR3 - HALOARCULA VALLISMORTIS. BACT_NATPH SENSORY RHODOPSIN II (SR-II) - NATRONOMONAS PHARAONIS (NATRONOBACTERIUM PHARAONIS). BACT_HALVA SENSORY RHODOPSIN II (SR-II) - HALOARCULA VALLISMORTIS. BACT_HALSA SENSORY RHODOPSIN II (SR-II) - HALOBACTERIUM SALINARIUM. O74631 HEAT SHOCK PROTEIN - CORIOLUS VERSICOLOR.
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Scan History | OWL21_2 2 50 NSINGLE OWL26_0 1 100 NSINGLE SPTR37_9f 2 92 NSINGLE
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Initial Motifs | Motif 1 width=20 Element Seqn Id St Int Rpt LYINIALAGLSILLFVFMTR BACH_NATPH 37 37 - LWLGIGTLLMLIGTFYFIVK BAC1_HALS1 22 22 - LWVNVALAGIAILVFVYMGR BACH_HALSP 32 32 - IWLALGTALMGLGTLYFLVK BACR_HALHA 23 23 - AYLGGAVALIVGVAFVWLLY BACS_HALHA 6 6 - Motif 2 width=21 Element Seqn Id St Int Rpt IAVSTILVPVVSIASYTGLAS BACH_NATPH 66 9 - YYSITILVPGIASAAYLSMFF BAC1_HALS1 53 11 - IWGATLMIPLVSISSYLGLLS BACH_HALSP 61 9 - FYAITTLVPAIAFTMYLSMLL BACR_HALHA 54 11 - ALAPLAIIPVFAGLSYVGMAY BACS_HALHA 36 10 - Motif 3 width=22 Element Seqn Id St Int Rpt WGRYLTWALSTPMILLALGLLA BACH_NATPH 120 33 - YARYADWLFTTPLLLLDLALLA BAC1_HALS1 91 17 - WGRYLTWALSTPMILLALGLLA BACH_HALSP 105 23 - WARYADWLFTTPLLLLDLALLV BACR_HALHA 92 17 - GLRYIDWLVTTPILVGYVGYAA BACS_HALHA 70 13 - Motif 4 width=20 Element Seqn Id St Int Rpt LFTAITFDIAMCVTGLAAAL BACH_NATPH 148 6 - IGTLVGVDALMIVTGLVGAL BAC1_HALS1 119 6 - LFTVIAADIGMCVTGLAAAM BACH_HALSP 133 6 - ILALVGADGIMIGTGLVGAL BACR_HALHA 120 6 - IIGVMVADALMIAVGAGAVV BACS_HALHA 98 6 - Motif 5 width=22 Element Seqn Id St Int Rpt MRWFWYAISCACFLVVLYILLV BACH_NATPH 174 6 - ARYTWWLFSTICMIVVLYFLAT BAC1_HALS1 144 5 - FRWAFYAISCAFFVVVLSALVT BACH_HALSP 159 6 - YRFVWWAISTAAMLYILYVLFF BACR_HALHA 145 5 - LKWALFGVSSIFHLSLFAYLYV BACS_HALHA 122 4 - Motif 6 width=19 Element Seqn Id St Int Rpt LKLLTVVMWLGYPIVWALG BACH_NATPH 213 17 - LTALVLVLWTAYPILWIIG BAC1_HALS1 185 19 - LRVLTVVLWLGYPIVWAVG BACH_HALSP 198 17 - LRNVTVVLWSAYPVVWLIG BACR_HALHA 186 19 - LKNHIGLLWLAYPLVWLFG BACS_HALHA 162 18 - Motif 7 width=19 Element Seqn Id St Int Rpt WGYSFLDIVAKYIFAFLLL BACH_NATPH 245 13 - LLFMVLDVTAKVGFGFILL BAC1_HALS1 217 13 - WAYSVLDVFAKYVFAFILL BACH_HALSP 231 14 - LLFMVLDVSAKVGFGLILL BACR_HALHA 218 13 - LTYVFLDVLAKVPYVYFFY BACS_HALHA 194 13 -
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Final Motifs | Motif 1 width=20 Element Seqn Id St Int Rpt IWVNIALAGVVILLFVAMGR BACH_HALHP 33 33 - IWVNIALAGVVILLFVAMGR BACH_HALHS 33 33 - LWVNIALAGVVILLFVAMGR BACH_HALVA 33 33 - LWLGIGTLLMLIGTFYFLVR BAC3_HALSD 21 21 - LWLGIGTLLMLIGTFYFIAR BAC2_HALS2 21 21 - LYINIALAGLSILLFVFMTR BACH_NATPH 37 37 - LWINIALAGLSILLFVYMGR BACH_HALSS 38 38 - LWLGIGTLLMLIGTFYFIVK BAC1_HALS1 22 22 - IWLWLGTAGMFLGMLYFIAR BACR_HALAR 9 9 - IWLWLGTAGMFLGMLYFIAR BACR_HALVA 9 9 - LWVNVALAGIAILVFVYMGR BACH_HALSP 32 32 - IFLWVGTAGMFLGMLYFIAR BACR_HALSR 16 16 - IWLALGTALMGLGTLYFLVK BACR_HALHA 23 23 - AYLGGAVALIVGVAFVWLLY BACS_HALHA 6 6 - AYWIAAVAFLVGLGITAALY BACS_HALSS 8 8 - Motif 2 width=21 Element Seqn Id St Int Rpt IWVATMLVPLVSISSYAGLAS BACH_HALHP 62 9 - IWVATMLVPLVSISSYAGLAS BACH_HALHS 62 9 - IWVATMLVPLVSISSYAGLAS BACH_HALVA 62 9 - YYAVTILVPGIASAAYLSMFF BAC3_HALSD 52 11 - YYAITILVPGIASAAYLAMFF BAC2_HALS2 52 11 - IAVSTILVPVVSIASYTGLAS BACH_NATPH 66 9 - IFVATLMVPLVSISSYTGLVS BACH_HALSS 67 9 - YYSITILVPGIASAAYLSMFF BAC1_HALS1 53 11 - FYIATILITAIAFVNYLAMAL BACR_HALAR 40 11 - FYIATILITAIAFVNYLAMAL BACR_HALVA 40 11 - IWGATLMIPLVSISSYLGLLS BACH_HALSP 61 9 - FYIATIMIAAIAFVNYLSMAL BACR_HALSR 47 11 - FYAITTLVPAIAFTMYLSMLL BACR_HALHA 54 11 - ALAPLAIIPVFAGLSYVGMAY BACS_HALHA 36 10 - RLAALAVIPGFAGLAYAGMAL BACS_HALSS 38 10 - Motif 3 width=22 Element Seqn Id St Int Rpt WGRYLTWTFSTPMILLALGLLA BACH_HALHP 106 23 - WGRYLTWTFSTPMILLALGLLA BACH_HALHS 106 23 - WGRYLTWTFSTPMILLALGLLA BACH_HALVA 106 23 - YARYADWLFTTPLLLLDLALLA BAC3_HALSD 90 17 - YARYADWLFTTPLLLLDLALLA BAC2_HALS2 91 18 - WGRYLTWALSTPMILLALGLLA BACH_NATPH 120 33 - WGRYLTWALSTPMILIAVGLLA BACH_HALSS 111 23 - YARYADWLFTTPLLLLDLALLA BAC1_HALS1 91 17 - WARYSDWLFTTPLLLYDLGLLA BACR_HALAR 78 17 - WARYSDWLFTTPLLLYDLGLLA BACR_HALVA 78 17 - WGRYLTWALSTPMILLALGLLA BACH_HALSP 105 23 - WARYTDWLFTTPLLLYDLALLA BACR_HALSR 85 17 - WARYADWLFTTPLLLLDLALLV BACR_HALHA 92 17 - GLRYIDWLVTTPILVGYVGYAA BACS_HALHA 70 13 - GLRYVDWIVTTPLLVGFIGYVA BACS_HALSS 72 13 - Motif 4 width=20 Element Seqn Id St Int Rpt LFTAITMDIGMCVTGLAAAL BACH_HALHP 134 6 - LFTAITMDIGMCVTGLAAAL BACH_HALHS 134 6 - LFTAITMDIGMCITGLAAAL BACH_HALVA 134 6 - IGTLVGVDALMIVTGLIGAL BAC3_HALSD 118 6 - IGTLIGVDALMIVTGLIGAL BAC2_HALS2 119 6 - LFTAITFDIAMCVTGLAAAL BACH_NATPH 148 6 - LFTAVVADIGMCVTGLAAAL BACH_HALSS 139 6 - IGTLVGVDALMIVTGLVGAL BAC1_HALS1 119 6 - ITSLVSLDVLMIGTGLVATL BACR_HALAR 106 6 - ISSLVSLDVLMIGTGLVATL BACR_HALVA 106 6 - LFTVIAADIGMCVTGLAAAM BACH_HALSP 133 6 - IYSLVGLDVLMIGTGALATL BACR_HALSR 113 6 - ILALVGADGIMIGTGLVGAL BACR_HALHA 120 6 - IIGVMVADALMIAVGAGAVV BACS_HALHA 98 6 - IAGVMLADALMIAFGAGAVV BACS_HALSS 100 6 - Motif 5 width=22 Element Seqn Id St Int Rpt LRWVFYGISCAFFVAVLYVLLV BACH_HALHP 160 6 - LRWVFYGISCAFFVAVLYVLLV BACH_HALHS 160 6 - LRWVFYGISCAFFIAVLYVLLV BACH_HALVA 160 6 - ARYSWWLFSTICMIVVLYFLAT BAC3_HALSD 143 5 - ARYTWWLFSTIAFLFVLYYLLT BAC2_HALS2 144 5 - MRWFWYAISCACFLVVLYILLV BACH_NATPH 174 6 - LRWVWYAISCAFFVVVLYILLA BACH_HALSS 165 6 - ARYTWWLFSTICMIVVLYFLAT BAC1_HALS1 144 5 - ERLVWWGISTAFLLVLLYFLFS BACR_HALAR 137 11 - ERLVWWGISTAFLLVLLYFLFS BACR_HALVA 137 11 - FRWAFYAISCAFFVVVLSALVT BACH_HALSP 159 6 - ERLVWWGISTGFLLVLLYFLFS BACR_HALSR 144 11 - YRFVWWAISTAAMLYILYVLFF BACR_HALHA 145 5 - LKWALFGVSSIFHLSLFAYLYV BACS_HALHA 122 4 - LKWVLFGVSSIFHVTLFAYLYV BACS_HALSS 124 4 - Motif 6 width=19 Element Seqn Id St Int Rpt LKILTVVLWLGYPILWALG BACH_HALHP 199 17 - LKILTVVLWLGYPILWALG BACH_HALHS 199 17 - LKLLTVVLWLGYPILWALG BACH_HALVA 199 17 - LTALVLVLWTAYPILWIIG BAC3_HALSD 184 19 - LTALVAVLWTAYPILWIVG BAC2_HALS2 185 19 - LKLLTVVMWLGYPIVWALG BACH_NATPH 213 17 - LKVLTVVLWLGYPIFWALG BACH_HALSS 204 17 - LTALVLVLWTAYPILWIIG BAC1_HALS1 185 19 - LRNLVTVVWLVYPVWWLIG BACR_HALAR 178 19 - LRNLVTVVWLVYPVWWLVG BACR_HALVA 178 19 - LRVLTVVLWLGYPIVWAVG BACH_HALSP 198 17 - LRNLVLVLWLVYPVLWLVG BACR_HALSR 185 19 - LRNVTVVLWSAYPVVWLIG BACR_HALHA 186 19 - LKNHIGLLWLAYPLVWLFG BACS_HALHA 162 18 - LKNHVGLLWLAYPFVWLMG BACS_HALSS 164 18 - Motif 7 width=19 Element Seqn Id St Int Rpt WGYSGLDILAKYVFAFLLL BACH_HALHP 231 13 - WGYSGLDILAKYVFAFLLL BACH_HALHS 231 13 - WGYSGLDILAKYVFAFLLL BACH_HALVA 231 13 - LLFMVLDVTAKVGFGFILL BAC3_HALSD 216 13 - LAFMVLDVTAKVGFGFVLL BAC2_HALS2 217 13 - WGYSFLDIVAKYIFAFLLL BACH_NATPH 245 13 - WAYSGMDIVAKYLFAFLLL BACH_HALSS 236 13 - LLFMVLDVTAKVGFGFILL BAC1_HALS1 217 13 - AGFMVIDLTAKVGFGIILL BACR_HALAR 210 13 - AGFMVIDLVAKVGFGIILL BACR_HALVA 210 13 - WAYSVLDVFAKYVFAFILL BACH_HALSP 231 14 - AAFMVLDLTAKIGFGIILL BACR_HALSR 217 13 - LLFMVLDVSAKVGFGLILL BACR_HALHA 218 13 - LTYVFLDVLAKVPYVYFFY BACS_HALHA 194 13 - LTYAFLDVLAKVPYVYFFY BACS_HALSS 196 13 -
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