Query 042673
Match_columns 280
No_of_seqs 127 out of 178
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:25:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042673.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042673hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06454 DUF1084: Protein of u 100.0 1.6E-81 3.4E-86 579.6 20.3 280 1-280 1-281 (281)
2 PF04479 RTA1: RTA1 like prote 65.6 21 0.00045 32.0 6.5 136 129-271 71-213 (226)
3 PF06664 MIG-14_Wnt-bd: Wnt-bi 63.9 1.2E+02 0.0027 28.0 16.3 17 108-124 127-143 (298)
4 PF04123 DUF373: Domain of unk 56.3 53 0.0011 31.7 7.8 94 125-229 153-246 (344)
5 TIGR02357 thia_yuaJ probable p 49.4 41 0.00088 29.4 5.4 58 212-269 115-177 (183)
6 PF13687 DUF4153: Domain of un 49.0 19 0.0004 32.0 3.3 39 42-80 138-176 (217)
7 PF10319 7TM_GPCR_Srj: Serpent 48.7 88 0.0019 29.8 7.9 131 73-203 68-239 (310)
8 PF03189 Otopetrin: Otopetrin; 47.9 1.8E+02 0.0038 29.0 10.3 86 188-279 296-385 (441)
9 KOG1589 Uncharacterized conser 47.1 16 0.00034 29.6 2.2 23 27-49 75-97 (118)
10 PF11044 TMEMspv1-c74-12: Plec 46.4 26 0.00057 23.8 2.9 17 178-194 17-33 (49)
11 KOG3494 Ubiquinol cytochrome c 30.5 16 0.00035 27.0 -0.1 19 7-25 44-62 (72)
12 COG5524 Bacteriorhodopsin [Gen 29.8 1.6E+02 0.0034 27.8 6.2 101 19-120 151-253 (285)
13 PF10323 7TM_GPCR_Srv: Serpent 28.6 1.1E+02 0.0024 28.0 5.2 63 162-226 163-227 (283)
14 PF09515 Thia_YuaJ: Thiamine t 26.4 23 0.00051 30.8 0.2 52 214-265 113-169 (177)
15 PF10326 7TM_GPCR_Str: Serpent 26.1 35 0.00076 31.3 1.3 32 174-205 207-238 (307)
16 PF03650 MPC: Uncharacterised 21.6 1.4E+02 0.003 24.6 3.7 24 27-50 71-94 (119)
17 COG3190 FliO Flagellar biogene 20.8 2.3E+02 0.005 23.8 5.0 36 161-196 19-54 (137)
No 1
>PF06454 DUF1084: Protein of unknown function (DUF1084); InterPro: IPR009457 This entry consists of several hypothetical plant specific proteins of unknown function.
Probab=100.00 E-value=1.6e-81 Score=579.64 Aligned_cols=280 Identities=60% Similarity=1.105 Sum_probs=272.3
Q ss_pred CCCcccccc-ccccchhcCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccchhhhhhHHHHhhhheeeEEE
Q 042673 1 MDVATPVVA-SNWWHDVNESPLWQDRIFHVLAALYGLVAAVALVQLIRIQLRVPEYGWTTQKVFHFLNFIVNAVRCVVFV 79 (280)
Q Consensus 1 ~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~La~iy~lv~~~a~~Qliri~~r~~~~g~t~qKvfhll~~l~~l~R~iyF~ 79 (280)
|.-++|++. .|||+|+||||+||+|++|+||++|++++++|++|++|+++|.|++|||+||+||+++++++++|++||+
T Consensus 1 ~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~La~iy~~v~~~aliQl~ri~~r~~~~~~t~qkvf~ll~~l~~~~R~iyF~ 80 (281)
T PF06454_consen 1 MPNSSAVAIANDWWNDVNESDKWQDGLFYALAAIYLLVALVALIQLIRIQYRVPKYGWTTQKVFHLLIFLANLVRAIYFF 80 (281)
T ss_pred CCCccccccccchHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHhheeEeccccCccHHHHHHHHHHHHHHHHeEEEE
Confidence 556778887 8999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecccccccchhhHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhcccCCCCccEEEeehhHHHHHHHhhhheeeeccchh
Q 042673 80 FRRDVQKLQPDIVRHIVLDMPSLAFFTTYALLVLFWAEIYYQARAVSTDGLRPSFFTVNAVVYIVQIALWLVLCWKPIPV 159 (280)
Q Consensus 80 ~~~~~~~~~~~v~~~iL~~lP~~lfFstytllllfWaeiy~~a~~~~~~~~~~~f~~iN~iiY~~~i~i~i~~~~~~~~~ 159 (280)
+.++++..+|++++++|+++|+++|||+|+++++||+|+||++++..++++|+.+.++|+++|++++++|++.+.++.+.
T Consensus 81 ~~~~~~~~~~~~~~~iL~~lP~~lfFSty~llvlfWaeIy~~ar~~~~~~l~~~~~~iN~~iY~~~i~i~i~~~~~~~~~ 160 (281)
T PF06454_consen 81 LLPSVFLIDPNVLDYILNDLPTFLFFSTYTLLVLFWAEIYYQARSVSTDKLRPIFIVINVVIYLFQIIIWILLFFSPSST 160 (281)
T ss_pred EhHhhHhcChHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHhheecccchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998889
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccceeEEEeeeehhhhhhHhHhhhhhhccccCCCCCCc
Q 042673 160 IIILSKMFFAAVSLFAALGFLLYGGRLFLMLQRFPVESKGRRKKLQEVGYVTTICFTCFLVRCIMMCFNAFDKAADLDVL 239 (280)
Q Consensus 160 ~~~~~~~~~a~isli~a~~F~~yG~~L~~~lr~~~~es~~~~kkl~~V~~vt~ic~~cF~~r~i~~~~~~~~~~~~~~~~ 239 (280)
++++++.++|++++++|+||++||+|+|.||||+|+|+++|+||++||+.+|++|++||++||+++++++++++.++|..
T Consensus 161 v~~i~~~~~A~isli~a~~Fl~YG~~L~~~Lr~~p~~s~~r~kkl~~V~~vt~ic~~cF~ir~i~~~~~~~~~~~~~d~~ 240 (281)
T PF06454_consen 161 VSIIYAIFIAVISLIAALGFLYYGGKLFFKLRRFPIESKGRSKKLRKVGFVTIICSVCFLIRCIMVLFSAFDKPANLDVL 240 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCccccccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhhccccccchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999888889999
Q ss_pred chhHHHHHHHHHHHHHhHHHHHhhhccCCCCCCCCCCcCCC
Q 042673 240 DHPVLNFIYYLLVEILPSTLVLFILRKLPPKRGITQYHPIR 280 (280)
Q Consensus 240 ~~~~~~~iyy~i~EiiPs~lvLy~~r~~p~~~~~~~~~~~~ 280 (280)
+|++++++||+++|++||+++||++||+||||.++|||||+
T Consensus 241 ~~~i~~~iyy~i~EivPs~lvL~~~r~lPp~~~~~~~~~~~ 281 (281)
T PF06454_consen 241 SHPILNFIYYFITEIVPSALVLYILRKLPPKRASAQYHPIR 281 (281)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcccccCCCCC
Confidence 99999999999999999999999999999999999999996
No 2
>PF04479 RTA1: RTA1 like protein; InterPro: IPR007568 This family is comprised of fungal proteins with multiple transmembrane regions. RTA1 (P53047 from SWISSPROT) is involved in resistance to 7-aminocholesterol [], while RTM1 (P40113 from SWISSPROT) confers resistance to an unknown toxic chemical in molasses []. These proteins may bind to the toxic substance, and thus prevent toxicity. They are not thought to be involved in the efflux of xenobiotics [].; GO: 0006950 response to stress, 0016021 integral to membrane
Probab=65.58 E-value=21 Score=32.03 Aligned_cols=136 Identities=17% Similarity=0.134 Sum_probs=70.9
Q ss_pred CCccEEEeehhHHHHHHHhhhheeeeccchhhHHhHHHHHHHHHH-H-HHHHHHHHHHHHHHHHhhccccccc----ccc
Q 042673 129 GLRPSFFTVNAVVYIVQIALWLVLCWKPIPVIIILSKMFFAAVSL-F-AALGFLLYGGRLFLMLQRFPVESKG----RRK 202 (280)
Q Consensus 129 ~~~~~f~~iN~iiY~~~i~i~i~~~~~~~~~~~~~~~~~~a~isl-i-~a~~F~~yG~~L~~~lr~~~~es~~----~~k 202 (280)
+....|+..+++..++|.+--.+....++ .+.-.++..|++.+ + .-..|.........++++.+.+.+. .++
T Consensus 71 ~~~~iFv~~Dv~s~~lQ~~Gg~l~~~~~s--~~~G~~i~iaGl~~Ql~~~~~F~~~~~~f~~r~~~~~~~~~~~~~~~~~ 148 (226)
T PF04479_consen 71 WYTKIFVTLDVISLVLQAAGGGLAASANS--RKTGRNIVIAGLALQLAFFGIFLILALRFHYRLRRRPRKAVHRNRPKSW 148 (226)
T ss_pred hhhHHHHHHHHHHHHHhhcCcceeeeccc--ccCCCEEEEehHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccch
Confidence 33456777788888888664433332211 12222222222222 1 1112333334444555554443322 122
Q ss_pred cceeEEEeeeehhhhhhHhHhhhhhhccccCCCCCCcchhHHHHHHHHHHHHHhHHHHHhhhcc-CCCCC
Q 042673 203 KLQEVGYVTTICFTCFLVRCIMMCFNAFDKAADLDVLDHPVLNFIYYLLVEILPSTLVLFILRK-LPPKR 271 (280)
Q Consensus 203 kl~~V~~vt~ic~~cF~~r~i~~~~~~~~~~~~~~~~~~~~~~~iyy~i~EiiPs~lvLy~~r~-~p~~~ 271 (280)
+.+.....-.+++++-.+||++=+.--.+. .+- ...-.=.++.+.|-+|..+....++= .||+.
T Consensus 149 ~~~~~~~~L~~a~~li~iR~iyR~vE~~~G-~~g----~l~~~E~~fyvlDa~~m~l~~~~~~v~~hpg~ 213 (226)
T PF04479_consen 149 RWRIFLIALYVASLLILIRSIYRLVEFAQG-WDG----YLMTHEWYFYVLDALPMLLAMVILNVWFHPGY 213 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhheecCC-CCC----CchHhHHHHHHHHHHHHHHHHHHHHhhcCchh
Confidence 233444444557788899998776432211 111 11223467779999999999988887 78876
No 3
>PF06664 MIG-14_Wnt-bd: Wnt-binding factor required for Wnt secretion
Probab=63.91 E-value=1.2e+02 Score=27.99 Aligned_cols=17 Identities=41% Similarity=0.870 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHhhc
Q 042673 108 YALLVLFWAEIYYQARA 124 (280)
Q Consensus 108 ytllllfWaeiy~~a~~ 124 (280)
++.+++||--+++.-+.
T Consensus 127 ~~~Ll~FwL~~~~~~r~ 143 (298)
T PF06664_consen 127 YAYLLLFWLVFFDSLRM 143 (298)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 67788999999987664
No 4
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=56.33 E-value=53 Score=31.71 Aligned_cols=94 Identities=16% Similarity=0.209 Sum_probs=60.3
Q ss_pred ccCCCCccEEEeehhHHHHHHHhhhheeeeccchhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccc
Q 042673 125 VSTDGLRPSFFTVNAVVYIVQIALWLVLCWKPIPVIIILSKMFFAAVSLFAALGFLLYGGRLFLMLQRFPVESKGRRKKL 204 (280)
Q Consensus 125 ~~~~~~~~~f~~iN~iiY~~~i~i~i~~~~~~~~~~~~~~~~~~a~isli~a~~F~~yG~~L~~~lr~~~~es~~~~kkl 204 (280)
...++.++.+.-+=+++.++.-+.-+ .++ .+...+++.+++|+.+++.|..+...+++...+.+..- .-
T Consensus 153 l~Dp~~~~~~lGvPG~~lLiy~i~~l-~~~---------~~~a~~~i~~~iG~yll~kGfgld~~~~~~~~~~~~~l-~~ 221 (344)
T PF04123_consen 153 LSDPEYRRTFLGVPGLILLIYAILAL-LGY---------PAYALGIILLLIGLYLLYKGFGLDDYLREWLERFRESL-YE 221 (344)
T ss_pred hcChhhhceeecchHHHHHHHHHHHH-Hcc---------hHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHhcccc-cc
Confidence 34567777777333555444433222 211 34556888999999999999999999998766552211 23
Q ss_pred eeEEEeeeehhhhhhHhHhhhhhhc
Q 042673 205 QEVGYVTTICFTCFLVRCIMMCFNA 229 (280)
Q Consensus 205 ~~V~~vt~ic~~cF~~r~i~~~~~~ 229 (280)
.|+.++|.+.+....+=+++.-...
T Consensus 222 g~it~ityvva~~l~iig~i~g~~~ 246 (344)
T PF04123_consen 222 GRITFITYVVALLLIIIGIIYGYLT 246 (344)
T ss_pred ceeehHHHHHHHHHHHHHHHHHHHH
Confidence 3688888888877776666555443
No 5
>TIGR02357 thia_yuaJ probable proton-coupled thiamine transporter YuaJ. Members of this protein family have been assigned as thiamine transporters by a phylogenomic analysis of families of genes regulated by the THI element, a broadly conserved RNA secondary structure element through which thiamine pyrophosphate (TPP) levels can regulate transcription of many genes related to thiamine transport, salvage, and de novo biosynthesis. Species with this protein always lack the ThiBPQ ABC transporter. In some species (e.g. Steptococcus mutans and Streptoccus pyogenes), yuaJ is the only THI-regulated gene. Evidence from Bacillus cereus indicates thiamine uptake is coupled to proton translocation.
Probab=49.38 E-value=41 Score=29.36 Aligned_cols=58 Identities=24% Similarity=0.269 Sum_probs=28.4
Q ss_pred eehhhhhhHhHhhhhhhc--cccCCCCCCcchhHHHHHH---HHHHHHHhHHHHHhhhccCCC
Q 042673 212 TICFTCFLVRCIMMCFNA--FDKAADLDVLDHPVLNFIY---YLLVEILPSTLVLFILRKLPP 269 (280)
Q Consensus 212 ~ic~~cF~~r~i~~~~~~--~~~~~~~~~~~~~~~~~iy---y~i~EiiPs~lvLy~~r~~p~ 269 (280)
.-+.++...|.+..+.+. +..+..++..+-+.+++.| |.+.|.+=+..++..+.+-.|
T Consensus 115 ~g~iv~~~~r~~~~~i~g~iffg~yAp~g~~~~~ysl~yn~~~~~~e~ii~~iv~~~l~~~~~ 177 (183)
T TIGR02357 115 LGSLVASLLRYFWHFIAGVIFWGSYAPKGMSAWLYSLIYNGSSALVEALICAIVLILLPKKAP 177 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 334555566666554332 1111112222233444433 567777777777766664333
No 6
>PF13687 DUF4153: Domain of unknown function (DUF4153)
Probab=48.97 E-value=19 Score=31.98 Aligned_cols=39 Identities=23% Similarity=0.518 Sum_probs=28.0
Q ss_pred HHHHHHHHhhcCCCcccchhhhhhHHHHhhhheeeEEEE
Q 042673 42 LVQLIRIQLRVPEYGWTTQKVFHFLNFIVNAVRCVVFVF 80 (280)
Q Consensus 42 ~~Qliri~~r~~~~g~t~qKvfhll~~l~~l~R~iyF~~ 80 (280)
..|..-+..|..|+|||+.|..-++..+...+-++++..
T Consensus 138 ~l~~~ai~~RI~qYGlT~~R~~~~~~~~~~~~~~l~~~~ 176 (217)
T PF13687_consen 138 VLAFYAIWLRISQYGLTPNRYYALLLAIFLLIYALYYIF 176 (217)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666667888899999998888777766554444443
No 7
>PF10319 7TM_GPCR_Srj: Serpentine type 7TM GPCR chemoreceptor Srj; InterPro: IPR019423 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class j (Srj) from the Str superfamily [, ]. The Srj family is designated as the out-group based on its location in preliminary phylogenetic analyses of the entire superfamily [].
Probab=48.69 E-value=88 Score=29.79 Aligned_cols=131 Identities=14% Similarity=0.245 Sum_probs=69.5
Q ss_pred heeeEEEEecccccccchhhHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhh--cccCCCCccEEEeehhHHHHHHHhhhh
Q 042673 73 VRCVVFVFRRDVQKLQPDIVRHIVLDMPSLAFFTTYALLVLFWAEIYYQAR--AVSTDGLRPSFFTVNAVVYIVQIALWL 150 (280)
Q Consensus 73 ~R~iyF~~~~~~~~~~~~v~~~iL~~lP~~lfFstytllllfWaeiy~~a~--~~~~~~~~~~f~~iN~iiY~~~i~i~i 150 (280)
-|-.++.+..+|.-.+.+..+..+...-.-+--.||++|..--.--|-.-. +...+..+|...+..+...++....|.
T Consensus 68 yry~F~~fi~dG~F~~~s~l~~~~ls~RCsfIs~sYaIL~~HFvYRYl~l~~~~~~~~~F~p~gl~~s~~~~~~h~~~W~ 147 (310)
T PF10319_consen 68 YRYAFVVFISDGPFFEKSELGQHLLSIRCSFISGSYAILHIHFVYRYLVLFNSKFINKYFMPYGLIGSILYCLFHFASWH 147 (310)
T ss_pred cceEEEEEEcCCcCcCcchHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhCcHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 566666666677655555566666666766777778877654322221111 112234445555555555555555555
Q ss_pred eeee-----ccc----------------------------h-hhHHhHH-----HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042673 151 VLCW-----KPI----------------------------P-VIIILSK-----MFFAAVSLFAALGFLLYGGRLFLMLQ 191 (280)
Q Consensus 151 ~~~~-----~~~----------------------------~-~~~~~~~-----~~~a~isli~a~~F~~yG~~L~~~lr 191 (280)
.... +++ + .-+.... ....++|...-..++..|.++-.|++
T Consensus 148 ~ic~~~~~ad~EiR~YIre~F~e~YG~Ds~diNml~alY~eaS~~~v~rSW~gi~~~T~iS~~Si~~y~vlg~~I~~kL~ 227 (310)
T PF10319_consen 148 VICYFCMYADDEIRDYIRESFREVYGVDSMDINMLIALYNEASDETVFRSWIGIIILTIISSYSIILYFVLGYKIMKKLN 227 (310)
T ss_pred HHHHhhcCCCHHHHHHHHHHHHHHhCCCCCcCceEeeeeccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3221 110 0 0111111 22355566666678999999999997
Q ss_pred hccccccccccc
Q 042673 192 RFPVESKGRRKK 203 (280)
Q Consensus 192 ~~~~es~~~~kk 203 (280)
+...+-+.+.||
T Consensus 228 ~~~~~mS~~T~~ 239 (310)
T PF10319_consen 228 KMSSTMSKKTKR 239 (310)
T ss_pred hchhhhCHhHHH
Confidence 654443333333
No 8
>PF03189 Otopetrin: Otopetrin; InterPro: IPR004878 The otopetrins are a group of proteins that are restricted to the metazoa. The structure of otopetrin-1 (Q80VM9 from SWISSPROT) shows it to have 12 transmembrane domains, with three conserved sub-domains (OD-1 to OD-III) []. Otopetrins modulate calcium homeostasis and influx of calcium in response to extracellular ATP. The otopetrins are required for normal formation of otoconia/otoliths in the inner ear. Otoconia are minute biomineral particles embedded in a gelatinous membrane that overlies the sensory epithelium in the inner ear. Gravity and acceleration cause the octoconia to deflect the stereocilia of sensory hair cells. Otoconia are required for normal processing of information regarding spatial orientation and acceleration.
Probab=47.91 E-value=1.8e+02 Score=28.95 Aligned_cols=86 Identities=16% Similarity=0.176 Sum_probs=50.4
Q ss_pred HHHhhcccccccccccceeEEEeeeehhhhhhHhHhhhhhhccccCCCCCCcchhHHHHHHHHHHH----HHhHHHHHhh
Q 042673 188 LMLQRFPVESKGRRKKLQEVGYVTTICFTCFLVRCIMMCFNAFDKAADLDVLDHPVLNFIYYLLVE----ILPSTLVLFI 263 (280)
Q Consensus 188 ~~lr~~~~es~~~~kkl~~V~~vt~ic~~cF~~r~i~~~~~~~~~~~~~~~~~~~~~~~iyy~i~E----iiPs~lvLy~ 263 (280)
.++|+.+.+.+++.+.+..+.++ ++..+..+-|.+.++.....+.+.+ .+ .+.++ +.+.+ .+=+.+++..
T Consensus 296 ~~~r~l~~~~~~~~~~LD~iLL~--va~~G~~ly~~fsIia~~~~~~~~~-~~--~l~l~-~~ll~iiQv~~QtlFIl~a 369 (441)
T PF03189_consen 296 YRMRKLKFSSKNPGRSLDVILLV--VAAFGEFLYSYFSIIAGIFTDPHGS-LN--WLNLI-YSLLRIIQVTLQTLFILDA 369 (441)
T ss_pred HHhhhccccccCccccHhHHHHH--HHHHHHHHHHHHHHHHHHhcCCCCC-cC--hHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 35776665444455556665554 6777888888888876543321111 11 22222 22333 3456788888
Q ss_pred hccCCCCCCCCCCcCC
Q 042673 264 LRKLPPKRGITQYHPI 279 (280)
Q Consensus 264 ~r~~p~~~~~~~~~~~ 279 (280)
.|+-+.++.+...+|-
T Consensus 370 ~rR~~~~~~~~~~kpg 385 (441)
T PF03189_consen 370 SRRRCSSEEQQRRKPG 385 (441)
T ss_pred HhccccccccccchHH
Confidence 8887777776677764
No 9
>KOG1589 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.14 E-value=16 Score=29.57 Aligned_cols=23 Identities=30% Similarity=0.226 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 042673 27 FHVLAALYGLVAAVALVQLIRIQ 49 (280)
Q Consensus 27 ~~~La~iy~lv~~~a~~Qliri~ 49 (280)
+|-|+++-+.+++.+.+||.|+.
T Consensus 75 N~~LfsVN~f~~~tg~~QL~Ri~ 97 (118)
T KOG1589|consen 75 NYSLFSVNFFVAITGIYQLTRIA 97 (118)
T ss_pred chhhhHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999993
No 10
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=46.37 E-value=26 Score=23.81 Aligned_cols=17 Identities=12% Similarity=0.251 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhhcc
Q 042673 178 GFLLYGGRLFLMLQRFP 194 (280)
Q Consensus 178 ~F~~yG~~L~~~lr~~~ 194 (280)
-|++.|..+|.++|..+
T Consensus 17 If~~iGl~IyQkikqIr 33 (49)
T PF11044_consen 17 IFAWIGLSIYQKIKQIR 33 (49)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 37899999999998654
No 11
>KOG3494 consensus Ubiquinol cytochrome c oxidoreductase, subunit QCR9 [Energy production and conversion]
Probab=30.49 E-value=16 Score=26.97 Aligned_cols=19 Identities=32% Similarity=0.686 Sum_probs=15.4
Q ss_pred cccccccchhcCCcchhhH
Q 042673 7 VVASNWWHDVNESPLWQDR 25 (280)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~ 25 (280)
|+.-+|||+.|+...|.+.
T Consensus 44 v~~~s~wer~NkGk~wkdi 62 (72)
T KOG3494|consen 44 VGVHSLWERNNKGKLWKDI 62 (72)
T ss_pred HhHHHHHhhccccchHHHh
Confidence 3455999999999999763
No 12
>COG5524 Bacteriorhodopsin [General function prediction only]
Probab=29.80 E-value=1.6e+02 Score=27.76 Aligned_cols=101 Identities=12% Similarity=-0.004 Sum_probs=62.5
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhc--CCCcccchhhhhhHHHHhhhheeeEEEEecccccccchhhHHHH
Q 042673 19 SPLWQDRIFHVLAALYGLVAAVALVQLIRIQLRV--PEYGWTTQKVFHFLNFIVNAVRCVVFVFRRDVQKLQPDIVRHIV 96 (280)
Q Consensus 19 ~~~~~~~l~~~La~iy~lv~~~a~~Qliri~~r~--~~~g~t~qKvfhll~~l~~l~R~iyF~~~~~~~~~~~~v~~~iL 96 (280)
...+.+-.+|+.++..+++.++.+.+..+..-+. ++.+.+..++...+.++..+ .=+.+.+.+.|.-.-++..+-++
T Consensus 151 ~~~tykW~~y~ig~~a~lvvl~~l~~~~~~~a~~~~~~v~~~F~~l~~~~vvLWl~-YPivW~ig~~G~g~iq~~g~ti~ 229 (285)
T COG5524 151 THSTYKWAYYAIGAAAFLVVLAVLVTGFFAKAKTRGTEVRSLFLTLRNYTVVLWLG-YPIVWLIGPGGNGVIQPDGETIF 229 (285)
T ss_pred hchhhhHHHHHHHHHHHHHHHHHHHhhhhhhhcccchHHHHHHHHHHHHHHHHHHh-ccceeEEccccCceEccccceee
Confidence 3455666999999999999999999888664322 22222333444444444443 66777778877632223344444
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH
Q 042673 97 LDMPSLAFFTTYALLVLFWAEIYY 120 (280)
Q Consensus 97 ~~lP~~lfFstytllllfWaeiy~ 120 (280)
+.+=.++=+..|..+++-|++...
T Consensus 230 y~vLDl~~kv~f~~~ll~~~~~~g 253 (285)
T COG5524 230 YGVLDLFAKVGFPFLLLRGARNFG 253 (285)
T ss_pred eehHHHHHHHhHHHHHHHHHHhcC
Confidence 444444556667777777887776
No 13
>PF10323 7TM_GPCR_Srv: Serpentine type 7TM GPCR chemoreceptor Srv; InterPro: IPR019426 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class v (Srv) from the Srg superfamily [, ]. Srg receptors contain seven hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures.
Probab=28.63 E-value=1.1e+02 Score=28.03 Aligned_cols=63 Identities=16% Similarity=0.240 Sum_probs=28.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccccccccc-ccceeEEEeeeehhhhhhHhHhhhh
Q 042673 162 ILSKMFFAAVSLFAALGFLLYGGRLFLMLQR-FPVESKGRR-KKLQEVGYVTTICFTCFLVRCIMMC 226 (280)
Q Consensus 162 ~~~~~~~a~isli~a~~F~~yG~~L~~~lr~-~~~es~~~~-kkl~~V~~vt~ic~~cF~~r~i~~~ 226 (280)
..+.+-.+..+.......+.||.-.+. +|| .+.++++.+ ++.||.- ++.-+++.|..-+++.+
T Consensus 163 ~~~~~~~~~~~~~cv~~iv~Y~~i~~~-iRk~~k~~s~~~s~~~~rE~~-L~~~~~i~~~a~~~~~~ 227 (283)
T PF10323_consen 163 RNFLIAFIFVSVTCVICIVCYGIIFIF-IRKRNKKKSKSSSRSRRREIR-LAIQVFILFCAFFVILV 227 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhhhHhhhhhhhHhHH-HHHHHHHHHHHHHHHHH
Confidence 333333344455555556677766554 443 222222222 2333433 44444554444444444
No 14
>PF09515 Thia_YuaJ: Thiamine transporter protein (Thia_YuaJ); InterPro: IPR012651 Members of this protein family have been assigned as thiamine transporters by a phylogenomic analysis of families of genes regulated by the THI element, a broadly conserved RNA secondary structure element through which thiamine pyrophosphate (TPP) levels can regulate transcription of many genes related to thiamine transport, salvage, and de novo biosynthesis. Species with this protein always lack the ThiBPQ ABC transporter. In some species (e.g. Streptococcus mutans and Streptococcus pyogenes), YuaJ is the only THI-regulated gene. The thiamine transporter YuaJ, also known as ThiT, is a member of the energy coupling factor (ECF) transporters, a new class of transport proteins that shares some resemblance with ABC transporters [, ]. ; PDB: 3RLB_B.
Probab=26.35 E-value=23 Score=30.84 Aligned_cols=52 Identities=25% Similarity=0.413 Sum_probs=25.9
Q ss_pred hhhhhhHhHhhhhhh--ccccCCCCCCcchhHHHHHH---HHHHHHHhHHHHHhhhc
Q 042673 214 CFTCFLVRCIMMCFN--AFDKAADLDVLDHPVLNFIY---YLLVEILPSTLVLFILR 265 (280)
Q Consensus 214 c~~cF~~r~i~~~~~--~~~~~~~~~~~~~~~~~~iy---y~i~EiiPs~lvLy~~r 265 (280)
+.++...|-+.-.++ .++.+..++..+.|+.+++| |.++|.+=+..++.++.
T Consensus 113 ~~i~~~~r~~~h~isGvif~~~yAp~g~~~~~YS~~yN~sy~l~~~~i~~iv~~ll~ 169 (177)
T PF09515_consen 113 TFIAVFLRYFCHFISGVIFFGSYAPEGMNPWLYSFIYNGSYMLPELLITLIVLSLLY 169 (177)
T ss_dssp HHHHHHHHHHHHHHHHHHH-GGG--TT--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444445554444433 13333334444566666665 46678877777775544
No 15
>PF10326 7TM_GPCR_Str: Serpentine type 7TM GPCR chemoreceptor Str; InterPro: IPR019428 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class r (Str) from the Str superfamily [, ]. Almost a quarter (22.5%) of str and srj family genes and pseudogenes in C. elegans appear to have been newly formed by gene duplications since the species split [].
Probab=26.09 E-value=35 Score=31.27 Aligned_cols=32 Identities=13% Similarity=0.311 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccccccccce
Q 042673 174 FAALGFLLYGGRLFLMLQRFPVESKGRRKKLQ 205 (280)
Q Consensus 174 i~a~~F~~yG~~L~~~lr~~~~es~~~~kkl~ 205 (280)
+.-..-.++|.|.|+++++.....+++.||++
T Consensus 207 ~s~~iii~cg~~~~~~i~~~~~~~S~~~~~lq 238 (307)
T PF10326_consen 207 ISFFIIIYCGIKIYKKIKKLSSIMSSKTRKLQ 238 (307)
T ss_pred hHHHHHHHHHhhhHHHHhccccccChhhHHHH
Confidence 33444679999999999876655233334433
No 16
>PF03650 MPC: Uncharacterised protein family (UPF0041); InterPro: IPR005336 This is a family of proteins of unknown function.
Probab=21.61 E-value=1.4e+02 Score=24.56 Aligned_cols=24 Identities=29% Similarity=0.030 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 042673 27 FHVLAALYGLVAAVALVQLIRIQL 50 (280)
Q Consensus 27 ~~~La~iy~lv~~~a~~Qliri~~ 50 (280)
+|.|++.-+..+..+++|+.|...
T Consensus 71 Ny~L~a~n~~~~~~q~~Ql~R~~~ 94 (119)
T PF03650_consen 71 NYLLFACNFFNATTQLYQLYRKLN 94 (119)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578899999999999999999943
No 17
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=20.75 E-value=2.3e+02 Score=23.83 Aligned_cols=36 Identities=22% Similarity=0.152 Sum_probs=27.4
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 042673 161 IILSKMFFAAVSLFAALGFLLYGGRLFLMLQRFPVE 196 (280)
Q Consensus 161 ~~~~~~~~a~isli~a~~F~~yG~~L~~~lr~~~~e 196 (280)
..-.+..+-..+++..++++..+..+.+++.+.|..
T Consensus 19 ~~~~~~~~~~gsL~~iL~lil~~~wl~kr~~~~~~~ 54 (137)
T COG3190 19 SAALELAQMFGSLILILALILFLAWLVKRLGRAPLF 54 (137)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 344456677788888899999999999998875543
Done!