Query psy17035
Match_columns 60
No_of_seqs 111 out of 1130
Neff 10.0
Searched_HMMs 46136
Date Fri Aug 16 20:09:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17035.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17035hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA03234 DNA packaging protein 99.6 1.1E-16 2.3E-21 90.8 0.5 59 2-60 245-309 (338)
2 PHA03235 DNA packaging protein 99.5 4.7E-15 1E-19 85.9 0.5 59 2-60 252-316 (409)
3 PHA02834 chemokine receptor-li 99.5 5.1E-15 1.1E-19 83.3 0.2 59 2-60 237-302 (323)
4 PHA02638 CC chemokine receptor 99.5 1.1E-14 2.3E-19 84.6 0.5 59 2-60 321-390 (417)
5 KOG4219|consensus 99.5 9.3E-15 2E-19 84.2 0.0 58 2-59 269-327 (423)
6 PHA03087 G protein-coupled che 99.2 1.3E-12 2.8E-17 73.6 0.5 59 2-60 252-316 (335)
7 KOG4220|consensus 99.2 2.9E-13 6.2E-18 78.7 -4.0 55 2-59 425-479 (503)
8 PF00001 7tm_1: 7 transmembran 98.8 1.8E-09 4E-14 57.5 1.9 48 2-50 210-257 (257)
9 KOG2087|consensus 97.8 2.7E-07 6E-12 53.2 -4.8 54 4-59 245-298 (363)
10 PF10324 7TM_GPCR_Srw: Serpent 97.3 9.6E-05 2.1E-09 41.7 1.0 58 2-59 250-309 (318)
11 PF11970 Git3_C: G protein-cou 96.1 0.0035 7.6E-08 29.2 1.2 55 2-58 20-75 (76)
12 PF10320 7TM_GPCR_Srsx: Serpen 96.0 0.0042 9E-08 34.6 1.4 58 2-60 195-252 (257)
13 PF05462 Dicty_CAR: Slime mold 90.8 0.11 2.4E-06 30.0 0.8 52 2-58 210-261 (303)
14 PF02101 Ocular_alb: Ocular al 87.7 0.31 6.8E-06 29.3 1.1 18 2-19 252-269 (405)
15 PF10323 7TM_GPCR_Srv: Serpent 73.9 4.5 9.7E-05 23.0 2.5 27 34-60 250-276 (283)
16 PF10327 7TM_GPCR_Sri: Serpent 71.7 2.4 5.3E-05 24.4 1.1 50 6-59 252-301 (303)
17 PF10321 7TM_GPCR_Srt: Serpent 67.8 0.82 1.8E-05 26.6 -1.3 27 33-59 273-299 (313)
18 PF10317 7TM_GPCR_Srd: Serpent 62.7 5.2 0.00011 22.7 1.3 28 33-60 262-289 (292)
19 PF05296 TAS2R: Mammalian tast 60.6 3.1 6.7E-05 24.0 0.1 29 32-60 266-294 (303)
20 PF10326 7TM_GPCR_Str: Serpent 54.8 1.8 3.8E-05 24.6 -1.4 26 35-60 280-305 (307)
21 PF10328 7TM_GPCR_Srx: Serpent 44.3 8.8 0.00019 21.5 0.3 19 41-59 249-267 (274)
22 cd00930 Cyt_c_Oxidase_VIII Cyt 32.8 38 0.00083 14.1 1.3 26 34-59 16-42 (43)
23 PF10260 SAYSvFN: Uncharacteri 32.2 23 0.0005 16.4 0.6 12 48-59 45-56 (71)
24 KOG1735|consensus 30.3 27 0.00058 18.5 0.7 12 2-13 87-98 (146)
25 PF02285 COX8: Cytochrome oxid 28.5 44 0.00096 14.0 1.1 25 35-59 17-42 (44)
26 PF11036 YqgB: Virulence promo 25.5 24 0.00052 14.5 0.0 10 46-55 18-27 (43)
27 PF10319 7TM_GPCR_Srj: Serpent 25.3 1E+02 0.0022 18.4 2.5 19 42-60 291-309 (310)
No 1
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.61 E-value=1.1e-16 Score=90.85 Aligned_cols=59 Identities=14% Similarity=0.192 Sum_probs=44.1
Q ss_pred EEEeehhHHHHHHHHHHHcc---cCcc---hhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGY---IPRT---QNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~---~~~~---~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
+|++||+||++..+++.... .... ........++..++++|||+||+||++.+++||++
T Consensus 245 vF~iCWlPy~iv~l~~~~~~~~~~~~c~~~~~~~~~~~v~~~La~~nsclNPiIY~f~~~~FR~~ 309 (338)
T PHA03234 245 SFLCIQIPNIAILICEIAFLYIANNSCFGLAQREILQIIIRLMPEIHCFSNPLVYAFTGGDFRLR 309 (338)
T ss_pred HHHHHHhHHHHHHHHHHHHHhcccCcchHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhHHHHHH
Confidence 58999999999887654321 1111 12234456788999999999999999999999963
No 2
>PHA03235 DNA packaging protein UL33; Provisional
Probab=99.49 E-value=4.7e-15 Score=85.92 Aligned_cols=59 Identities=24% Similarity=0.430 Sum_probs=44.0
Q ss_pred EEEeehhHHHHHHHHHHHccc--C-c---chhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYI--P-R---TQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~--~-~---~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
+|++||+||+++.++..+... + + .........+...++++||++||+||++++++||++
T Consensus 252 ~F~iCWlPy~v~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~La~~ns~lNPiIY~~~~~~FRk~ 316 (409)
T PHA03235 252 SFLCLQTPFVAIMIFDSYATLIWPSDCEHINLRDAVSTLSRLVPNLHCLLNPILYAFLGNDFLKR 316 (409)
T ss_pred HHHHHHhHHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHHHHHHHHHHhHhHHHHHHhhHHHHHH
Confidence 588999999999887654211 1 1 111224456778899999999999999999999973
No 3
>PHA02834 chemokine receptor-like protein; Provisional
Probab=99.48 E-value=5.1e-15 Score=83.34 Aligned_cols=59 Identities=14% Similarity=0.310 Sum_probs=43.5
Q ss_pred EEEeehhHHHHHHHHHHHcccC----cc---hhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYIP----RT---QNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~~----~~---~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
+|++||+|+++..++..+.+.. +. ........++..++++||++||+||++.+++||++
T Consensus 237 ~F~icWlPy~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~ns~iNPiIY~~~~~~fR~~ 302 (323)
T PHA02834 237 FTVVFWVPFNIVLFINSLQSVGLIDIGCYHFKKIVYSIDIAELISFVHCCVNPIIYAFVGKNFKKV 302 (323)
T ss_pred HHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHhhccccHHHHHHhcHHHHHH
Confidence 5789999999998876553211 11 11122345778899999999999999999999973
No 4
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=99.46 E-value=1.1e-14 Score=84.61 Aligned_cols=59 Identities=15% Similarity=0.272 Sum_probs=44.9
Q ss_pred EEEeehhHHHHHHHHHHHccc---------Cc--chhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYI---------PR--TQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~---------~~--~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
+|++||+|+.+..++..+... .. .........++..++++|||+||++|++++++||++
T Consensus 321 ~f~lcW~Py~i~~ll~~~~~~~~~~~~~~~~~c~~~~l~~~~~vt~~la~~~sclNPiIY~f~~~~FR~~ 390 (417)
T PHA02638 321 CSLICWIPLNIVILFATMYSFKGFNSIISEHICGFIKLGYAMMLAEAISLTHCCINPLIYTLIGENFRMH 390 (417)
T ss_pred HHHHHHhhHHHHHHHHHHHHhhccccccccccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHhCHHHHHH
Confidence 578999999999888765311 01 112234456788999999999999999999999973
No 5
>KOG4219|consensus
Probab=99.45 E-value=9.3e-15 Score=84.17 Aligned_cols=58 Identities=29% Similarity=0.509 Sum_probs=47.5
Q ss_pred EEEeehhHHHHHHHHHHHccc-CcchhHHHHHHHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYI-PRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
.|.+||+|+++..++....+. .........+....+++.+|+|+||+||++.|++||.
T Consensus 269 ~FaicWlPyh~y~il~~~~~~i~~~k~i~~vyl~~~WLaMSst~yNPiIY~~lN~Rfr~ 327 (423)
T KOG4219|consen 269 IFAICWLPYHIYFILNATNPEINRKKFIQQVYLAIYWLAMSSTCYNPIIYCFLNKRFRG 327 (423)
T ss_pred HHHHhccChhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhccHhhhhhHHHHHH
Confidence 589999999999998875432 2234455667778999999999999999999999985
No 6
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=99.25 E-value=1.3e-12 Score=73.57 Aligned_cols=59 Identities=17% Similarity=0.299 Sum_probs=43.1
Q ss_pred EEEeehhHHHHHHHHHHHc---ccCc---chhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYG---YIPR---TQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~---~~~~---~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
+|++||.|+.+..++.... ..+. .........+...++.+|+++||+||++++++||++
T Consensus 252 ~f~i~w~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~ns~~NPiIY~~~~~~fr~~ 316 (335)
T PHA03087 252 LFVIFWLPFNVSVFVYSLHILHFKSGCKAVKYIQYALHVTEIISLSHCCINPLIYAFVSEFFNKH 316 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHHHHHhhhhhHHHHcCHHHHHH
Confidence 4789999999987765431 1111 122334456778899999999999999999999963
No 7
>KOG4220|consensus
Probab=99.19 E-value=2.9e-13 Score=78.70 Aligned_cols=55 Identities=25% Similarity=0.414 Sum_probs=46.8
Q ss_pred EEEeehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
.|+++|+||.++.++..+.. ......++.+..++.|+||-+||++|++.|+.||+
T Consensus 425 AFIiTWtPYNImVlv~tFC~---~CiP~tlW~~gYwLCYINSTiNP~CYALCNatFrk 479 (503)
T KOG4220|consen 425 AFILTWTPYNIMVLVNTFCK---NCIPETLWTFGYWLCYINSTINPLCYALCNATFRK 479 (503)
T ss_pred HHHHHcccceeeeehHhhcc---cccchhHhhhhhheeeecccccHHHHHHHhHHHHH
Confidence 58899999999999998743 23345667778899999999999999999999986
No 8
>PF00001 7tm_1: 7 transmembrane receptor (rhodopsin family) Rhodopsin-like GPCR superfamily signature 5-hydroxytryptamine 7 receptor signature bradykinin receptor signature gastrin receptor signature melatonin receptor signature olfactory receptor signature; InterPro: IPR000276 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 rhodopsin-like GPCRs themselves represent a widespread protein family that includes hormone, neurotransmitter and light receptors, all of which transduce extracellular signals through interaction with guanine nucleotide-binding (G) proteins. Although their activating ligands vary widely in structure and character, the amino acid sequences of the receptors are very similar and are believed to adopt a common structural framework comprising 7 transmembrane (TM) helices [, , ].; GO: 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 2KI9_A 3QAK_A 2YDV_A 3VGA_A 3PWH_A 3RFM_A 3EML_A 3VG9_A 3REY_A 3UZA_A ....
Probab=98.83 E-value=1.8e-09 Score=57.49 Aligned_cols=48 Identities=40% Similarity=0.663 Sum_probs=39.3
Q ss_pred EEEeehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhh
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIY 50 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy 50 (60)
+|++||+|+.+..++....+.... .......++.+++++|+++||++|
T Consensus 210 ~f~~~~~P~~i~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~s~~nP~iY 257 (257)
T PF00001_consen 210 VFLLCWLPYFILSLLSVFSPSSSL-ISSILFYISYFLAFLNSCLNPIIY 257 (257)
T ss_dssp HHHHHHHHHHHHHHHHHHSSTSTC-SHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccCCceeHHHHHHHHcCccch-hhHHHHHHHHHHHHHHHhhCcEEC
Confidence 478999999999998887654422 455667788899999999999998
No 9
>KOG2087|consensus
Probab=97.81 E-value=2.7e-07 Score=53.23 Aligned_cols=54 Identities=26% Similarity=0.490 Sum_probs=37.7
Q ss_pred EeehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 4 VLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 4 ~~~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
.+||.|...+.+....+..-... .....+...+.-.|||+||+.|++.++.||+
T Consensus 245 ~icw~Pi~f~~~~al~~~~li~~--~~sk~llv~flPlns~~NP~LYa~fT~~fk~ 298 (363)
T KOG2087|consen 245 CICWCPIAFFKFSALIGVELISV--SYSKWLLVFFLPLNSCLNPFLYAFFTPVFKE 298 (363)
T ss_pred ccccCchheeeeHHhcCCcccCh--hhceeEEEEEEEcccccCchhHHHcCHHHHH
Confidence 58999999988877654211111 1111223456678999999999999999986
No 10
>PF10324 7TM_GPCR_Srw: Serpentine type 7TM GPCR chemoreceptor Srw; InterPro: IPR019427 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 w (Srw), which is a solo family amongst the superfamilies of chemoreceptors. The genes encoding Srw do not appear to be under as strong an adaptive evolutionary pressure as those of Srz [].
Probab=97.30 E-value=9.6e-05 Score=41.72 Aligned_cols=58 Identities=17% Similarity=0.221 Sum_probs=43.1
Q ss_pred EEEeehhHHHHHHHHHHHcc-cC-cchhHHHHHHHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGY-IP-RTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
.|+++=+|..+..+++.... .. ..........+...+...|++.|++||.++|.|||+
T Consensus 250 ~f~i~e~p~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~h~~ic~~mSsqYR~ 309 (318)
T PF10324_consen 250 SFLISELPQGIIFLLESFFEEDSGLIFIIIQLSIIFNILITINSSIHFFICCFMSSQYRK 309 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhHHHhhhhhhHHHHH
Confidence 35667788888888877522 11 122334555677889999999999999999999997
No 11
>PF11970 Git3_C: G protein-coupled glucose receptor regulating Gpa2 C-term; InterPro: IPR022596 This entry contains a functionally uncharacterised region belonging to the Git3 G-protein coupled receptor. Git3 is one of six proteins required for glucose-triggered adenylate cyclase activation, and is a G protein-coupled receptor responsible for the activation of adenylate cyclase through Gpa2 - heterotrimeric G protein alpha subunit, part of the glucose-detection pathway. Git3 contains seven predicted transmembrane domains, a third cytoplasmic loop and a cytoplasmic tail []. This family is the conserved C-terminal domain of the member proteins.
Probab=96.06 E-value=0.0035 Score=29.22 Aligned_cols=55 Identities=7% Similarity=0.248 Sum_probs=36.6
Q ss_pred EEEeehh-HHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCcc
Q psy17035 2 AFVLCWS-PYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNN 58 (60)
Q Consensus 2 ~f~~~w~-P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr 58 (60)
+|+++|+ |+..-.+-...+. ...+...+..+...+..+|+.+|-++|.+.-|.-|
T Consensus 20 ~Yi~lwlfP~~~~~~~~~~~~--~~~p~~~l~~i~~~~~~~~G~VD~lvf~~~erpw~ 75 (76)
T PF11970_consen 20 VYIVLWLFPFAAHRMQYMYEI--GHGPSFWLFCIAGFMQPSQGFVDCLVFTLRERPWR 75 (76)
T ss_pred HHHHHHHHHHHHHHHHHHhcc--CCCCchHHHHHHHHHHHccCHHHhhheeeecccCC
Confidence 4678898 8776555444221 22333445566778889999999999998766544
No 12
>PF10320 7TM_GPCR_Srsx: Serpentine type 7TM GPCR chemoreceptor Srsx; InterPro: IPR019424 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 sx (Srsx), which is a solo family amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=95.98 E-value=0.0042 Score=34.59 Aligned_cols=58 Identities=7% Similarity=0.142 Sum_probs=37.6
Q ss_pred EEEeehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
.|+..|.=-.+...+....+.+ ............++...|.+.|-.+|.+.|+|||++
T Consensus 195 i~i~~w~~s~~~~~v~~~~~~~-~~~~~~i~~~~~i~v~~~~s~~ffV~~~~S~EYR~a 252 (257)
T PF10320_consen 195 IFIFSWFLSQIINTVSLALGLD-GETIAIIQMYAGIFVNISYSQNFFVYYWRSSEYRKA 252 (257)
T ss_pred eeeHHHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHHHHHHHHheEEEEcCHHHHHH
Confidence 4556666555555444332211 222333444567889999999999999999999974
No 13
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=90.83 E-value=0.11 Score=29.96 Aligned_cols=52 Identities=21% Similarity=0.406 Sum_probs=35.0
Q ss_pred EEEeehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCcc
Q psy17035 2 AFVLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNN 58 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr 58 (60)
+|++||+|-.+-.+.+..+..+ .....++ ..++-+....|.++|...++..+
T Consensus 210 ifiicw~fa~INRI~~~~~~~~---~~l~~Lh--~~~s~lqGf~nsivy~~n~~~~~ 261 (303)
T PF05462_consen 210 IFIICWIFATINRIYNFIGKNP---FWLSVLH--VGFSPLQGFFNSIVYGYNNSLMW 261 (303)
T ss_pred HHHHHHHHHHHHHHHHHhcCCc---hHHHHHH--HHHHHHHHHHHHHHHHhCCHHHH
Confidence 5788999998888888765322 2222222 34666778889999998877533
No 14
>PF02101 Ocular_alb: Ocular albinism type 1 protein; InterPro: IPR001414 Ocular albinism type 1 (OA1) is an X-linked disorder characterised by severe impairment of visual acuity, retinal hypopigmentation and the presence of macromelanosomes. A novel transcript from the OA1 critical region is expressed in high levels in RNA samples from retina and from melanoma and encodes a potential integral membrane protein []. This protein is of unknown function but is known to bind heterotrimeric G proteins.; GO: 0016020 membrane
Probab=87.72 E-value=0.31 Score=29.30 Aligned_cols=18 Identities=39% Similarity=0.942 Sum_probs=14.2
Q ss_pred EEEeehhHHHHHHHHHHH
Q psy17035 2 AFVLCWSPYIVFDLLQVY 19 (60)
Q Consensus 2 ~f~~~w~P~~~~~~~~~~ 19 (60)
+|.+||+|..+-.++-.+
T Consensus 252 VF~iCWlpNIINg~LL~~ 269 (405)
T PF02101_consen 252 VFYICWLPNIINGSLLFY 269 (405)
T ss_pred HHHHHhhhhhHhHHHHHH
Confidence 688999999988775543
No 15
>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=73.92 E-value=4.5 Score=23.03 Aligned_cols=27 Identities=26% Similarity=0.288 Sum_probs=21.5
Q ss_pred HHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 34 LIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 34 ~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
..-.+.-..|.+||+.--..||+.||+
T Consensus 250 ~y~~~~~~~s~inP~~LLi~n~~lr~~ 276 (283)
T PF10323_consen 250 FYPILNGLLSFINPWMLLIFNKDLRKQ 276 (283)
T ss_pred HHHHHHHHHHhhhhHHhhhccHHHHHH
Confidence 444566677889999999999999873
No 16
>PF10327 7TM_GPCR_Sri: Serpentine type 7TM GPCR chemoreceptor Sri; InterPro: IPR019429 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 Sri, which is part of the Str superfamily of chemoreceptors.
Probab=71.69 E-value=2.4 Score=24.40 Aligned_cols=50 Identities=14% Similarity=0.339 Sum_probs=32.5
Q ss_pred ehhHHHHHHHHHHHcccCcchhHHHHHHHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 6 CWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 6 ~w~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
|-+|-.+...+...+. ...+.+-..+.....++|.+|-++-.+.++.||+
T Consensus 252 ~~~P~~~~~~~~~~~~----~~~q~i~~~~~~~f~~HS~~n~ivli~t~ppYR~ 301 (303)
T PF10327_consen 252 CILPPFIFVVVVIFEF----EDAQVISEICLAIFSSHSSVNMIVLIITTPPYRK 301 (303)
T ss_pred HHHHHHHhhhhheecC----CCcHHHHHHHHHHHHHhhHhhheeeeEcCcchhh
Confidence 3456555544443322 1223344455567788899999999999999997
No 17
>PF10321 7TM_GPCR_Srt: Serpentine type 7TM GPCR chemoreceptor Srt; InterPro: IPR019425 Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type []. Srt is a member of the Srg superfamily of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=67.83 E-value=0.82 Score=26.61 Aligned_cols=27 Identities=26% Similarity=0.262 Sum_probs=21.8
Q ss_pred HHHHHHhchhhchhhhhhhhccCCccC
Q psy17035 33 TLIQSLAPLNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 33 ~~~~~l~~~ns~~nP~iy~~~~~~fr~ 59 (60)
.+.+..=-.++..+|+||-.+||..|+
T Consensus 273 ~~~~~~Wql~~g~~~iIYl~lNrtIR~ 299 (313)
T PF10321_consen 273 IIGQISWQLSHGCPPIIYLTLNRTIRN 299 (313)
T ss_pred HHHHHHHhccCCccceEEEEECHHHHH
Confidence 344566677888999999999999886
No 18
>PF10317 7TM_GPCR_Srd: Serpentine type 7TM GPCR chemoreceptor Srd; InterPro: IPR019421 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 the chemoreceptor Srd [].
Probab=62.67 E-value=5.2 Score=22.74 Aligned_cols=28 Identities=29% Similarity=0.301 Sum_probs=20.9
Q ss_pred HHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 33 TLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 33 ~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
.....++..-+.+||++....-+-+|++
T Consensus 262 ~~~~~~~~~~~~~~P~itl~fv~PYR~~ 289 (292)
T PF10317_consen 262 YLIFMLASLPPLIDPLITLYFVRPYRKA 289 (292)
T ss_pred HHHHHHHHHHHHhchHhheeeeHhHHHH
Confidence 3444567777889999998888888863
No 19
>PF05296 TAS2R: Mammalian taste receptor protein (TAS2R); InterPro: IPR007960 This family consists of several forms of mammalian taste receptor proteins (TAS2Rs). TAS2Rs are G protein-coupled receptors expressed in subsets of taste receptor cells of the tongue and palate epithelia and are organised in the genome in clusters. The proteins are genetically linked to loci that influence bitter perception in mice and humans [].; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0050909 sensory perception of taste, 0016021 integral to membrane
Probab=60.56 E-value=3.1 Score=23.99 Aligned_cols=29 Identities=10% Similarity=0.054 Sum_probs=24.1
Q ss_pred HHHHHHHhchhhchhhhhhhhccCCccCC
Q psy17035 32 ATLIQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 32 ~~~~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
..+...+....++.+|++-.+.|++.|++
T Consensus 266 ~~~~~~i~~~yps~hs~iLIlgn~KLr~~ 294 (303)
T PF05296_consen 266 FWVCEIIIALYPSGHSIILILGNPKLRQA 294 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCchHHHHH
Confidence 34566788889999999999999999874
No 20
>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=54.83 E-value=1.8 Score=24.59 Aligned_cols=26 Identities=19% Similarity=0.224 Sum_probs=21.6
Q ss_pred HHHHhchhhchhhhhhhhccCCccCC
Q psy17035 35 IQSLAPLNSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 35 ~~~l~~~ns~~nP~iy~~~~~~fr~~ 60 (60)
.......-+++||++-.+.-||+|++
T Consensus 280 ~~~~~~~yP~iDpl~~i~~ik~yR~~ 305 (307)
T PF10326_consen 280 ISILISLYPAIDPLPVIFIIKDYRKA 305 (307)
T ss_pred hhhhEEEEeehhhheeeEeeHHHHHh
Confidence 34567778899999999999999985
No 21
>PF10328 7TM_GPCR_Srx: Serpentine type 7TM GPCR chemoreceptor Srx; InterPro: IPR019430 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 x (Srx) 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=44.32 E-value=8.8 Score=21.50 Aligned_cols=19 Identities=26% Similarity=0.322 Sum_probs=15.7
Q ss_pred hhhchhhhhhhhccCCccC
Q psy17035 41 LNSAANPIIYCIFRTGNNN 59 (60)
Q Consensus 41 ~ns~~nP~iy~~~~~~fr~ 59 (60)
..-+.|++|+...|+|.|+
T Consensus 249 ~~h~~DG~i~l~fN~~~r~ 267 (274)
T PF10328_consen 249 LVHALDGLIMLIFNSEIRR 267 (274)
T ss_pred HHHHhcceeEeEEcHHHHH
Confidence 3345799999999999986
No 22
>cd00930 Cyt_c_Oxidase_VIII Cytochrome oxidase c subunit VIII. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIII is the smallest of the nuclear-encoded subunits. It exists in muscle-specific and non-muscle-specific isoforms that are differently expressed in different species, suggesting species-specific regulation of energy metabolism.
Probab=32.81 E-value=38 Score=14.09 Aligned_cols=26 Identities=8% Similarity=-0.012 Sum_probs=13.7
Q ss_pred HHHHHhchhhchhhhhhhhcc-CCccC
Q psy17035 34 LIQSLAPLNSAANPIIYCIFR-TGNNN 59 (60)
Q Consensus 34 ~~~~l~~~ns~~nP~iy~~~~-~~fr~ 59 (60)
+..+..++-+++=|--|.+.+ ++||+
T Consensus 16 aigl~~~f~~~L~p~gWVLshL~~YKk 42 (43)
T cd00930 16 AIGLSVFFTTFLLPAGWVLSHLENYKK 42 (43)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHhcc
Confidence 334444555555665566555 55554
No 23
>PF10260 SAYSvFN: Uncharacterized conserved domain (SAYSvFN); InterPro: IPR019387 This domain of approximately 75 residues contains a highly conserved SATSv/iFN motif. The function is unknown but the domain is conserved from plants to humans.
Probab=32.18 E-value=23 Score=16.38 Aligned_cols=12 Identities=25% Similarity=0.606 Sum_probs=8.6
Q ss_pred hhhhhccCCccC
Q psy17035 48 IIYCIFRTGNNN 59 (60)
Q Consensus 48 ~iy~~~~~~fr~ 59 (60)
=-|..+|+++|+
T Consensus 45 SAYSVFN~~~~~ 56 (71)
T PF10260_consen 45 SAYSVFNKGCER 56 (71)
T ss_pred cchhhhCCCccc
Confidence 357888888775
No 24
>KOG1735|consensus
Probab=30.31 E-value=27 Score=18.47 Aligned_cols=12 Identities=33% Similarity=0.736 Sum_probs=9.1
Q ss_pred EEEeehhHHHHH
Q psy17035 2 AFVLCWSPYIVF 13 (60)
Q Consensus 2 ~f~~~w~P~~~~ 13 (60)
+|+++|.|...-
T Consensus 87 i~f~~wsPd~a~ 98 (146)
T KOG1735|consen 87 IFFIAWSPDTAP 98 (146)
T ss_pred EEEEEECCCccc
Confidence 578999988653
No 25
>PF02285 COX8: Cytochrome oxidase c subunit VIII; InterPro: IPR003205 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits.This family is composed of cytochrome c oxidase subunit VIII. ; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG3_Z 3ABM_M 1OCC_Z 3ASO_Z 3AG2_Z 3ABL_M 3AG4_M 3AG1_M 3ASN_M 1OCZ_M ....
Probab=28.52 E-value=44 Score=13.97 Aligned_cols=25 Identities=8% Similarity=0.033 Sum_probs=12.3
Q ss_pred HHHHhchhhchhhhhhhhcc-CCccC
Q psy17035 35 IQSLAPLNSAANPIIYCIFR-TGNNN 59 (60)
Q Consensus 35 ~~~l~~~ns~~nP~iy~~~~-~~fr~ 59 (60)
..+..++-+++=|--|.+.+ ++||+
T Consensus 17 igltv~f~~~L~PagWVLshL~~YKk 42 (44)
T PF02285_consen 17 IGLTVCFVTFLGPAGWVLSHLESYKK 42 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHTHHHHHT
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHhhc
Confidence 33444455555565555544 44443
No 26
>PF11036 YqgB: Virulence promoting factor; InterPro: IPR020196 The yqgB and yqfZ genes are associated with the genomes of bacteria with distinct pathogenic properties and consequently fall into the category of being virulence genes []. However, yqgB and yqfZ genes are not true virulence factors but instead are probably lifestyle determinant genes where the gene products act in concert, enabling the bacteria to cope with its suboptimal physical environment and thus facilitating host colonization [].
Probab=25.54 E-value=24 Score=14.55 Aligned_cols=10 Identities=30% Similarity=0.803 Sum_probs=6.5
Q ss_pred hhhhhhhccC
Q psy17035 46 NPIIYCIFRT 55 (60)
Q Consensus 46 nP~iy~~~~~ 55 (60)
||.+|++.++
T Consensus 18 ~~~vyGLLS~ 27 (43)
T PF11036_consen 18 NPAVYGLLSQ 27 (43)
T ss_pred CchhhhhHhh
Confidence 6667776653
No 27
>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=25.31 E-value=1e+02 Score=18.43 Aligned_cols=19 Identities=16% Similarity=0.176 Sum_probs=15.7
Q ss_pred hhchhhhhhhhccCCccCC
Q psy17035 42 NSAANPIIYCIFRTGNNNR 60 (60)
Q Consensus 42 ns~~nP~iy~~~~~~fr~~ 60 (60)
=+.+||+.-.+.-+.+|++
T Consensus 291 FPf~DPlAii~~lP~~R~r 309 (310)
T PF10319_consen 291 FPFLDPLAIILCLPAFRNR 309 (310)
T ss_pred ccccCchHhheecHHhhcc
Confidence 3688999888888888875
Done!