WORKLIST ENTRIES (1):
BACTRLOPSIN View alignment View Structure Bacterial opsin signature
Type of fingerprint: COMPOUND with 7 elements
Links:
PRINTS; PR00237 GPCRRHODOPSN; PR00247 GPCRCAMP; PR00248 GPCRMGR
PRINTS; PR00249 GPCRSECRETIN; PR00250 GPCRSTE2; PR00899 GPCRSTE3
PRINTS; PR00238 OPSIN
INTERPRO; IPR001425
PROSITE; PS00950 BACTERIAL_OPSIN_1; PS00327 BACTERIAL_OPSIN_RET
PFAM; PF01036 Bac_rhodopsin
PDB; 1BRD 3Dinfo
SCOP; 1BRD
Creation date 11-NOV-1993; UPDATE 06-JUN-1999
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).
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.
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
COMPOSITE FINGERPRINT 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
True positives..
BACH_HALHP BACH_HALHS BACH_HALVA BAC3_HALSD
BAC2_HALS2 BACH_NATPH BACH_HALSS BAC1_HALS1
BACR_HALAR BACR_HALVA BACH_HALSP BACR_HALSR
BACR_HALHA BACS_HALHA BACS_HALSS
Subfamily: Codes involving 6 elements
Subfamily True positives..
BAC3_HALVA
Subfamily: Codes involving 5 elements
Subfamily True positives..
BACT_NATPH
Subfamily: Codes involving 4 elements
Subfamily True positives..
BACT_HALVA
Subfamily: Codes involving 3 elements
Subfamily True positives..
BACT_HALSA O74631
PROTEIN TITLES
BACH_HALHP HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM HALOBIUM (STRAI
BACH_HALHS HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM HALOBIUM (STRAI
BACH_HALVA CRUXHALORHODOPSIN-3 PRECURSOR (CHR-3) - HALOARCULA VALLISMOR
BAC3_HALSD ARCHAERHODOPSIN 3 PRECURSOR (AR 3) - HALORUBRUM SODOMENSE.
BAC2_HALS2 ARCHAERHODOPSIN 2 PRECURSOR (AR 2) - HALOBACTERIUM SP. (STRA
BACH_NATPH HALORHODOPSIN (HR) - NATRONOMONAS PHARAONIS (NATRONOBACTERIU
BACH_HALSS HALORHODOPSIN (HR) - HALOBACTERIUM SP. (STRAIN SG1).
BAC1_HALS1 ARCHAERHODOPSIN 1 PRECURSOR (AR 1) - HALOBACTERIUM SP. (STRA
BACR_HALAR CRUXRHODOPSIN-1 (COP-1) (CR-1) - HALOARCULA ARGENTINOS (HALO
BACR_HALVA CRUXRHODOPSIN-3 (COP-3) (CR-3) - HALOARCULA VALLISMORTIS.
BACH_HALSP HALORHODOPSIN PRECURSOR (HR) - HALOBACTERIUM SP.
BACR_HALSR CRUXRHODOPSIN-2 (COP-2) (CR-2) - HALOARCULA SP. (STRAIN ARG-
BACR_HALHA BACTERIORHODOPSIN PRECURSOR (BR) - HALOBACTERIUM HALOBIUM.
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 (NATRO
BACT_HALVA SENSORY RHODOPSIN II (SR-II) - HALOARCULA VALLISMORTIS.
BACT_HALSA SENSORY RHODOPSIN II (SR-II) - HALOBACTERIUM SALINARIUM.
O74631 HEAT SHOCK PROTEIN - CORIOLUS VERSICOLOR.
SCAN HISTORY
OWL21_2 2 50 NSINGLE
OWL26_0 1 100 NSINGLE
SPTR37_9f 2 92 NSINGLE
INITIAL MOTIF SETS
BACTRLOPSIN1 Length of motif = 20 Motif number = 1
Bacterial opsin TM motif I - 1
PCODE ST INT
LYINIALAGLSILLFVFMTR BACH_NATPH 37 37
AYLGGAVALIVGVAFVWLLY BACS_HALHA 6 6
LWVNVALAGIAILVFVYMGR BACH_HALSP 32 32
LWLGIGTLLMLIGTFYFIVK BAC1_HALS1 22 22
IWLALGTALMGLGTLYFLVK BACR_HALHA 23 23
BACTRLOPSIN2 Length of motif = 21 Motif number = 2
Bacterial opsin TM motif II - 1
PCODE ST INT
IAVSTILVPVVSIASYTGLAS BACH_NATPH 66 9
ALAPLAIIPVFAGLSYVGMAY BACS_HALHA 36 10
IWGATLMIPLVSISSYLGLLS BACH_HALSP 61 9
YYSITILVPGIASAAYLSMFF BAC1_HALS1 53 11
FYAITTLVPAIAFTMYLSMLL BACR_HALHA 54 11
BACTRLOPSIN3 Length of motif = 22 Motif number = 3
Bacterial opsin TM motif III - 1
PCODE ST INT
WGRYLTWALSTPMILLALGLLA BACH_NATPH 120 33
GLRYIDWLVTTPILVGYVGYAA BACS_HALHA 70 13
WGRYLTWALSTPMILLALGLLA BACH_HALSP 105 23
YARYADWLFTTPLLLLDLALLA BAC1_HALS1 91 17
WARYADWLFTTPLLLLDLALLV BACR_HALHA 92 17
BACTRLOPSIN4 Length of motif = 20 Motif number = 4
Bacterial opsin TM motif IV - 1
PCODE ST INT
LFTAITFDIAMCVTGLAAAL BACH_NATPH 148 6
IIGVMVADALMIAVGAGAVV BACS_HALHA 98 6
LFTVIAADIGMCVTGLAAAM BACH_HALSP 133 6
IGTLVGVDALMIVTGLVGAL BAC1_HALS1 119 6
ILALVGADGIMIGTGLVGAL BACR_HALHA 120 6
BACTRLOPSIN5 Length of motif = 22 Motif number = 5
Bacterial opsin TM motif V - 1
PCODE ST INT
MRWFWYAISCACFLVVLYILLV BACH_NATPH 174 6
LKWALFGVSSIFHLSLFAYLYV BACS_HALHA 122 4
FRWAFYAISCAFFVVVLSALVT BACH_HALSP 159 6
ARYTWWLFSTICMIVVLYFLAT BAC1_HALS1 144 5
YRFVWWAISTAAMLYILYVLFF BACR_HALHA 145 5
BACTRLOPSIN6 Length of motif = 19 Motif number = 6
Bacterial opsin TM motif VI - 1
PCODE ST INT
LKLLTVVMWLGYPIVWALG BACH_NATPH 213 17
LKNHIGLLWLAYPLVWLFG BACS_HALHA 162 18
LRVLTVVLWLGYPIVWAVG BACH_HALSP 198 17
LTALVLVLWTAYPILWIIG BAC1_HALS1 185 19
LRNVTVVLWSAYPVVWLIG BACR_HALHA 186 19
BACTRLOPSIN7 Length of motif = 19 Motif number = 7
Bacterial opsin TM motif VII - 1
PCODE ST INT
WGYSFLDIVAKYIFAFLLL BACH_NATPH 245 13
LTYVFLDVLAKVPYVYFFY BACS_HALHA 194 13
WAYSVLDVFAKYVFAFILL BACH_HALSP 231 14
LLFMVLDVTAKVGFGFILL BAC1_HALS1 217 13
LLFMVLDVSAKVGFGLILL BACR_HALHA 218 13
FINAL MOTIF SETS
BACTRLOPSIN1 Length of motif = 20 Motif number = 1
Bacterial opsin TM motif I - 2
PCODE ST INT
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 38 38
LWINIALAGLSILLFVYMGR BACH_HALSS 38 38
LWLGIGTLLMLIGTFYFIVK BAC1_HALS1 23 23
IWLWLGTAGMFLGMLYFIAR BACR_HALAR 9 9
IWLWLGTAGMFLGMLYFIAR BACR_HALVA 9 9
LWVNVALAGIAILVFVYMGR BACH_HALSP 33 33
IFLWVGTAGMFLGMLYFIAR BACR_HALSR 16 16
IWLALGTALMGLGTLYFLVK BACR_HALHA 24 24
AYLGGAVALIVGVAFVWLLY BACS_HALHA 7 7
AYWIAAVAFLVGLGITAALY BACS_HALSS 8 8
BACTRLOPSIN2 Length of motif = 21 Motif number = 2
Bacterial opsin TM motif II - 2
PCODE ST INT
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 67 9
IFVATLMVPLVSISSYTGLVS BACH_HALSS 67 9
YYSITILVPGIASAAYLSMFF BAC1_HALS1 54 11
FYIATILITAIAFVNYLAMAL BACR_HALAR 40 11
FYIATILITAIAFVNYLAMAL BACR_HALVA 40 11
IWGATLMIPLVSISSYLGLLS BACH_HALSP 62 9
FYIATIMIAAIAFVNYLSMAL BACR_HALSR 47 11
FYAITTLVPAIAFTMYLSMLL BACR_HALHA 55 11
ALAPLAIIPVFAGLSYVGMAY BACS_HALHA 37 10
RLAALAVIPGFAGLAYAGMAL BACS_HALSS 38 10
BACTRLOPSIN3 Length of motif = 22 Motif number = 3
Bacterial opsin TM motif III - 2
PCODE ST INT
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 121 33
WGRYLTWALSTPMILIAVGLLA BACH_HALSS 111 23
YARYADWLFTTPLLLLDLALLA BAC1_HALS1 92 17
WARYSDWLFTTPLLLYDLGLLA BACR_HALAR 78 17
WARYSDWLFTTPLLLYDLGLLA BACR_HALVA 78 17
WGRYLTWALSTPMILLALGLLA BACH_HALSP 106 23
WARYTDWLFTTPLLLYDLALLA BACR_HALSR 85 17
WARYADWLFTTPLLLLDLALLV BACR_HALHA 93 17
GLRYIDWLVTTPILVGYVGYAA BACS_HALHA 71 13
GLRYVDWIVTTPLLVGFIGYVA BACS_HALSS 72 13
BACTRLOPSIN4 Length of motif = 20 Motif number = 4
Bacterial opsin TM motif IV - 2
PCODE ST INT
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 149 6
LFTAVVADIGMCVTGLAAAL BACH_HALSS 139 6
IGTLVGVDALMIVTGLVGAL BAC1_HALS1 120 6
ITSLVSLDVLMIGTGLVATL BACR_HALAR 106 6
ISSLVSLDVLMIGTGLVATL BACR_HALVA 106 6
LFTVIAADIGMCVTGLAAAM BACH_HALSP 134 6
IYSLVGLDVLMIGTGALATL BACR_HALSR 113 6
ILALVGADGIMIGTGLVGAL BACR_HALHA 121 6
IIGVMVADALMIAVGAGAVV BACS_HALHA 99 6
IAGVMLADALMIAFGAGAVV BACS_HALSS 100 6
BACTRLOPSIN5 Length of motif = 22 Motif number = 5
Bacterial opsin TM motif V - 2
PCODE ST INT
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 175 6
LRWVWYAISCAFFVVVLYILLA BACH_HALSS 165 6
ARYTWWLFSTICMIVVLYFLAT BAC1_HALS1 145 5
ERLVWWGISTAFLLVLLYFLFS BACR_HALAR 137 11
ERLVWWGISTAFLLVLLYFLFS BACR_HALVA 137 11
FRWAFYAISCAFFVVVLSALVT BACH_HALSP 160 6
ERLVWWGISTGFLLVLLYFLFS BACR_HALSR 144 11
YRFVWWAISTAAMLYILYVLFF BACR_HALHA 146 5
LKWALFGVSSIFHLSLFAYLYV BACS_HALHA 123 4
LKWVLFGVSSIFHVTLFAYLYV BACS_HALSS 124 4
BACTRLOPSIN6 Length of motif = 19 Motif number = 6
Bacterial opsin TM motif VI - 2
PCODE ST INT
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 214 17
LKVLTVVLWLGYPIFWALG BACH_HALSS 204 17
LTALVLVLWTAYPILWIIG BAC1_HALS1 186 19
LRNLVTVVWLVYPVWWLIG BACR_HALAR 178 19
LRNLVTVVWLVYPVWWLVG BACR_HALVA 178 19
LRVLTVVLWLGYPIVWAVG BACH_HALSP 199 17
LRNLVLVLWLVYPVLWLVG BACR_HALSR 185 19
LRNVTVVLWSAYPVVWLIG BACR_HALHA 187 19
LKNHIGLLWLAYPLVWLFG BACS_HALHA 163 18
LKNHVGLLWLAYPFVWLMG BACS_HALSS 164 18
BACTRLOPSIN7 Length of motif = 19 Motif number = 7
Bacterial opsin TM motif VII - 2
PCODE ST INT
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 246 13
WAYSGMDIVAKYLFAFLLL BACH_HALSS 236 13
LLFMVLDVTAKVGFGFILL BAC1_HALS1 218 13
AGFMVIDLTAKVGFGIILL BACR_HALAR 210 13
AGFMVIDLVAKVGFGIILL BACR_HALVA 210 13
WAYSVLDVFAKYVFAFILL BACH_HALSP 232 14
AAFMVLDLTAKIGFGIILL BACR_HALSR 217 13
LLFMVLDVSAKVGFGLILL BACR_HALHA 219 13
LTYVFLDVLAKVPYVYFFY BACS_HALHA 195 13
LTYAFLDVLAKVPYVYFFY BACS_HALSS 196 13
User query: Display/Full Code "BACTRLOPSIN"