Query psy8502
Match_columns 168
No_of_seqs 274 out of 1694
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 20:35:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8502.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8502hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4219|consensus 99.4 1.1E-13 2.5E-18 117.8 5.2 79 88-166 28-106 (423)
2 PHA03234 DNA packaging protein 99.3 1.4E-11 3.1E-16 104.1 8.1 71 94-166 31-103 (338)
3 KOG4220|consensus 99.2 6.2E-12 1.3E-16 107.7 0.7 73 94-166 29-101 (503)
4 PHA02834 chemokine receptor-li 99.0 1.2E-09 2.7E-14 91.4 8.7 70 94-166 27-96 (323)
5 PHA02638 CC chemokine receptor 99.0 1.8E-09 4E-14 93.7 8.7 70 94-166 97-166 (417)
6 PHA03235 DNA packaging protein 98.8 3.3E-08 7.1E-13 85.8 9.2 68 93-164 30-99 (409)
7 PHA03087 G protein-coupled che 98.8 2.7E-08 5.8E-13 83.0 8.2 72 92-165 37-108 (335)
8 PF00001 7tm_1: 7 transmembran 98.5 2E-07 4.4E-12 72.4 5.3 54 112-165 1-54 (257)
9 PF10320 7TM_GPCR_Srsx: Serpen 97.8 7.7E-06 1.7E-10 66.7 1.5 48 107-154 2-49 (257)
10 KOG2087|consensus 95.7 0.0059 1.3E-07 52.2 1.8 51 104-154 33-83 (363)
11 PF05296 TAS2R: Mammalian tast 94.9 0.18 4E-06 42.1 8.4 61 94-154 5-68 (303)
12 PF10328 7TM_GPCR_Srx: Serpent 93.7 0.16 3.5E-06 41.3 5.7 44 105-148 3-46 (274)
13 PF10324 7TM_GPCR_Srw: Serpent 93.0 0.12 2.6E-06 42.7 3.8 52 105-157 6-58 (318)
14 PF05462 Dicty_CAR: Slime mold 91.2 0.73 1.6E-05 38.7 6.5 54 96-149 7-60 (303)
15 PF11710 Git3: G protein-coupl 88.2 2.3 5E-05 33.5 6.8 34 124-157 30-63 (201)
16 PF10321 7TM_GPCR_Srt: Serpent 88.0 3.1 6.8E-05 35.1 7.9 54 94-147 31-84 (313)
17 PF10317 7TM_GPCR_Srd: Serpent 80.4 2.8 6.2E-05 34.5 4.4 48 101-148 4-52 (292)
18 PF00002 7tm_2: 7 transmembran 49.6 11 0.00024 29.5 1.8 43 104-146 9-51 (242)
19 PF09882 DUF2109: Predicted me 46.9 58 0.0013 21.9 4.6 47 107-153 5-51 (78)
20 PF10327 7TM_GPCR_Sri: Serpent 37.8 72 0.0016 26.5 4.9 60 96-155 9-72 (303)
21 PF12177 Proho_convert: Prohor 36.3 13 0.00029 21.7 0.2 27 8-35 11-37 (41)
22 PF10316 7TM_GPCR_Srbc: Serpen 35.5 1.5E+02 0.0033 24.4 6.5 56 100-155 10-65 (273)
23 PF11446 DUF2897: Protein of u 34.8 49 0.0011 20.7 2.7 17 104-120 10-26 (55)
24 PF10323 7TM_GPCR_Srv: Serpent 31.9 53 0.0011 26.9 3.2 36 113-148 12-51 (283)
25 PF01102 Glycophorin_A: Glycop 31.2 62 0.0014 23.6 3.1 12 109-120 76-87 (122)
26 PF03839 Sec62: Translocation 26.1 2.9E+02 0.0063 22.3 6.4 36 131-166 141-183 (224)
27 PF05393 Hum_adeno_E3A: Human 26.1 1.3E+02 0.0028 20.8 3.7 18 115-132 48-67 (94)
28 TIGR01477 RIFIN variant surfac 25.6 88 0.0019 27.1 3.5 29 99-127 311-339 (353)
29 PF15660 Imm49: Immunity prote 24.5 26 0.00056 22.9 0.1 31 9-39 47-77 (84)
30 PTZ00046 rifin; Provisional 23.8 1E+02 0.0022 26.8 3.5 28 100-127 317-344 (358)
31 PF02009 Rifin_STEVOR: Rifin/s 23.8 70 0.0015 27.0 2.5 27 100-126 258-284 (299)
32 PF10326 7TM_GPCR_Str: Serpent 23.6 71 0.0015 26.1 2.6 46 104-149 7-53 (307)
33 COG1230 CzcD Co/Zn/Cd efflux s 21.0 5.1E+02 0.011 21.8 7.2 58 102-161 127-186 (296)
34 PF08114 PMP1_2: ATPase proteo 20.9 60 0.0013 19.2 1.1 20 104-123 13-32 (43)
35 PF15330 SIT: SHP2-interacting 20.9 1.7E+02 0.0036 20.8 3.6 28 98-125 3-30 (107)
36 PF10329 DUF2417: Region of un 20.7 1.7E+02 0.0037 23.8 4.1 42 108-150 82-123 (232)
No 1
>KOG4219|consensus
Probab=99.43 E-value=1.1e-13 Score=117.81 Aligned_cols=79 Identities=27% Similarity=0.418 Sum_probs=73.3
Q ss_pred ccCCCchhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCCC
Q psy8502 88 YRHSPGVTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKSL 166 (168)
Q Consensus 88 ~~~~~~~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~~ 166 (168)
+......+.++.++|.++.+++++||++|+|++..+|++|+.+|+||+|||+||++.++++.|+...+.+...|.||.+
T Consensus 28 f~lp~~~~~~wai~yg~l~~vAv~GN~iVlwIil~hrrMRtvtnyfL~NLAfADl~~s~Fn~~f~f~yal~~~W~~G~f 106 (423)
T KOG4219|consen 28 FVLPAWQQALWAIAYGLLVFVAVVGNLIVLWIILAHRRMRTVTNYFLVNLAFADLSMSIFNTVFNFQYALHQEWYFGSF 106 (423)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHhcCceEEEEEeehhehhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhccccccc
Confidence 3445667788899999999999999999999999999999999999999999999999999999999999999999983
No 2
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.27 E-value=1.4e-11 Score=104.09 Aligned_cols=71 Identities=15% Similarity=0.206 Sum_probs=58.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHH--hhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCCC
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVV--IRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKSL 166 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i--~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~~ 166 (168)
.+.++.++|.+++++|++||++|++++ .+++++|+++|+|++|||+||++++ +.+|+.+... .+.|+||++
T Consensus 31 ~~~~~~~~y~~vf~~gl~gN~lvl~v~~~~~~~~~rt~tn~fi~NLAvaDLL~~-l~lp~~~~~~-~~~w~fG~~ 103 (338)
T PHA03234 31 AQILESAINGIMLTLIIPMIIIVICTLIIYHKVAKHNATSFYLITLFASDFLHM-LCVFFLTLNR-EALFNFNQA 103 (338)
T ss_pred HHHHhhHHHHHHHHHHhhhHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHH-HHHHHHHHHH-hCCccCchh
Confidence 556778999999999999999999854 4556679999999999999999996 4667665543 467999975
No 3
>KOG4220|consensus
Probab=99.16 E-value=6.2e-12 Score=107.73 Aligned_cols=73 Identities=22% Similarity=0.349 Sum_probs=67.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCCC
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKSL 166 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~~ 166 (168)
.-+.++++...+.+++++||++|++.+.-+|+|++..|||+++||+|||+++.+.+|+...+.+.|+|++|..
T Consensus 29 q~v~i~~v~~~lsLVTv~GNlLVmiSfKvnrqLqTVnNYfLfSLAcADliIG~~SMnl~t~Y~lmg~W~LG~~ 101 (503)
T KOG4220|consen 29 QVVFIVVVTGSLSLVTVVGNLLVMISFKVNRQLQTVNNYFLFSLACADLIIGAFSMNLYTTYTLMGYWPLGPL 101 (503)
T ss_pred EEEeeehhhhHHHHHhhhccEEEEEEEEecceeeeecceeehHHHHhhhhhheeechHHHHHHHHcccccchH
Confidence 3456677788999999999999999999999999999999999999999999999999999999999999964
No 4
>PHA02834 chemokine receptor-like protein; Provisional
Probab=99.02 E-value=1.2e-09 Score=91.38 Aligned_cols=70 Identities=27% Similarity=0.524 Sum_probs=58.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCCC
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKSL 166 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~~ 166 (168)
...+..+++.+++++|++||+++++++.++++ ++++|+|++|||++|++. .+.+|+.+... .++|.+|+.
T Consensus 27 ~~~~~~~~~~li~v~~~~gN~lVi~vi~~~~~-~~~~n~~i~nLAiaDll~-~~~lP~~i~~~-~~~w~~g~~ 96 (323)
T PHA02834 27 VNYFVIVFYILLFIFGLIGNVLVIAVLIVKRF-MFVVDVYLFNIAMSDLML-VFSFPFIIHND-LNEWIFGEF 96 (323)
T ss_pred hhhhHHHHHHHHHHHHHhhHHHHHHHHHhccc-cchhhhhhHHHHHHHHHH-HHHHHHHHHHH-cCCcCCcch
Confidence 44577889999999999999999998887665 457899999999999986 67899876554 457999973
No 5
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=98.99 E-value=1.8e-09 Score=93.74 Aligned_cols=70 Identities=21% Similarity=0.569 Sum_probs=59.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCCC
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKSL 166 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~~ 166 (168)
....+.+++.+++++|++||++|++++.+ |++|++++++++|||++|+++ ++.+|+.+... .++|.||+.
T Consensus 97 ~~~~l~~~y~lvfvlgliGN~LVl~il~~-k~lrt~t~i~llnLAisDLl~-~l~lPf~i~~~-~~~W~fg~~ 166 (417)
T PHA02638 97 ISEYIKIFYIIIFILGLFGNAAIIMILFC-KKIKTITDIYIFNLAISDLIF-VIDFPFIIYNE-FDQWIFGDF 166 (417)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCHhHHHHHHHHHHHHHH-HHHHHHHHHHH-hcccccccc
Confidence 44567788999999999999999987654 778999999999999999988 57899887654 478999974
No 6
>PHA03235 DNA packaging protein UL33; Provisional
Probab=98.78 E-value=3.3e-08 Score=85.79 Aligned_cols=68 Identities=19% Similarity=0.243 Sum_probs=51.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCC--CchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCC
Q psy8502 93 GVTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRM--RNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLK 164 (168)
Q Consensus 93 ~~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l--~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG 164 (168)
..+.+..+++.+++++|++||++|++++.++++. ++..++|++|||++|++. ++++|+.+.. ..|.+|
T Consensus 30 ~~~~~~~~~~~li~vvGiigN~lVL~~~~~~~r~~~~~~~~~~I~NLAvsDLl~-l~~lP~~i~~---~~~~~~ 99 (409)
T PHA03235 30 AARTTETFINLLIISVGGPLNLIVLVTQLLANRVHGFSTPTLYMTNLYLANLLT-VFVLPFIMLS---NQGLLS 99 (409)
T ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCccHHHHHHHHHHHHHH-HHHHHHHHHh---cCcccc
Confidence 3556788899999999999999999876433332 356689999999999987 6789987643 345544
No 7
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=98.77 E-value=2.7e-08 Score=83.05 Aligned_cols=72 Identities=28% Similarity=0.596 Sum_probs=61.0
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCC
Q psy8502 92 PGVTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKS 165 (168)
Q Consensus 92 ~~~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~ 165 (168)
...+.+..+++.+++++|++||+++++++.++ ++|++.|+++.|||++|++.+ +..|..+.....++|.+|+
T Consensus 37 ~~~~~~~~~~~~~i~~~gl~gN~lvl~~~~~~-~~~~~~~~ll~~laisDll~~-~~~~~~~~~~~~~~~~~~~ 108 (335)
T PHA03087 37 DTNSTILIVVYSTIFFFGLVGNIIVIYVLTKT-KIKTPMDIYLLNLAVSDLLFV-MTLPFQIYYYILFQWSFGE 108 (335)
T ss_pred cchhhHHHHHHHHHHHHHHHhhHhEEeeehhc-cccCchHHHHHHHHHHHHHHH-HhHHHHHHHHhCCCCCCCc
Confidence 34556777888999999999999999998887 889999999999999999875 5678777666678898875
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=98.49 E-value=2e-07 Score=72.36 Aligned_cols=54 Identities=41% Similarity=0.688 Sum_probs=48.3
Q ss_pred HHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhCCCcCCC
Q psy8502 112 GNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMANIYVHFDLKS 165 (168)
Q Consensus 112 GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~~W~fG~ 165 (168)
||+++++++.++|++|++.++|++|||++|++.++...|..+.....+.|.+|+
T Consensus 1 GN~lvi~~~~~~~~~~~~~~~~l~~Lav~Dll~~~~~~~~~~~~~~~~~~~~~~ 54 (257)
T PF00001_consen 1 GNILVILVILRSKRLRTPSNILLLNLAVADLLVGLFCIPFYIYSLLFDDWIFSS 54 (257)
T ss_dssp HHHHHHHHHHHSGGG-SHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHSSCTSHH
T ss_pred CchhehhhhhhhccCCChhHHHHHHHHHHHHhhccccccccccccccccccccc
Confidence 899999999999999999999999999999999998889888777778888764
No 9
>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=97.81 E-value=7.7e-06 Score=66.67 Aligned_cols=48 Identities=33% Similarity=0.562 Sum_probs=43.9
Q ss_pred HHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHH
Q psy8502 107 LIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLM 154 (168)
Q Consensus 107 l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~ 154 (168)
++|++||..++.++.++|++|+|++++++.+|++|+++.+..+|..+.
T Consensus 2 ~ig~~gN~~~i~~~~~~~~Lrs~~~~li~~~~~~d~~~~~~~~~~~~~ 49 (257)
T PF10320_consen 2 IIGLFGNLLLIILIFRNKSLRSPCYILICILCFADLICLLGTLPFMLF 49 (257)
T ss_pred EEEEEccHHHHHHHHhccccccchHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 468999999999999999999999999999999999998888887763
No 10
>KOG2087|consensus
Probab=95.65 E-value=0.0059 Score=52.19 Aligned_cols=51 Identities=29% Similarity=0.338 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHH
Q psy8502 104 AVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLM 154 (168)
Q Consensus 104 ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~ 154 (168)
++.+++++||.+|++.....+...+...++++|||++|+++++-..-...+
T Consensus 33 ~i~~lAi~gN~~Vl~~~~~~~~~~~~~~~li~~la~ad~~mGiYl~~ia~v 83 (363)
T KOG2087|consen 33 VIALLAIVGNLLVLLTRFTSRYELNSHRFLICNLAFADLLMGIYLGLIASV 83 (363)
T ss_pred hhhhHHhccCeeeeeeeeehhhhccchHHHHHHHHHHHHHcchHHHHHHHh
Confidence 567788999999998877766666778899999999999987644444333
No 11
>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=94.89 E-value=0.18 Score=42.08 Aligned_cols=61 Identities=23% Similarity=0.462 Sum_probs=44.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHHh---hcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHH
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVVI---RSPRMRNVTNYFIVNLAVADMLVITLCLPATLM 154 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i~---~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~ 154 (168)
.+.+..++..+.+++|++||+.++.+.+ .++|.-.|.+..+.+||++.++...+..-....
T Consensus 5 ~~~i~~~i~~~~~~~Gi~~N~FI~~vn~~~w~k~~~l~~~d~IL~~La~sr~~l~~~~~~~~~~ 68 (303)
T PF05296_consen 5 LEIIFLIILVVEFIIGILGNGFIVLVNCSDWVKSRKLSPSDQILTSLAISRILLQWVILLNSFL 68 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677888899999999998876653 344445689999999999998876544433333
No 12
>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=93.74 E-value=0.16 Score=41.30 Aligned_cols=44 Identities=20% Similarity=0.429 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhh
Q psy8502 105 VFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLC 148 (168)
Q Consensus 105 i~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~ 148 (168)
+.++|++.|.++++.+.+.+++|++.+++-.+.|++|.+.++..
T Consensus 3 ~s~~G~~~N~~v~~~~~~~~~~~~sF~~l~~~~a~~n~i~~~~~ 46 (274)
T PF10328_consen 3 ISIIGIILNWLVFIIIFKLKSLRNSFGILCASQAIANIIICLIF 46 (274)
T ss_pred eeHHHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999987643
No 13
>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=92.96 E-value=0.12 Score=42.72 Aligned_cols=52 Identities=25% Similarity=0.356 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHhhHHHhhcCCCCc-hhHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy8502 105 VFLIGLVGNSLVIAVVIRSPRMRN-VTNYFIVNLAVADMLVITLCLPATLMANI 157 (168)
Q Consensus 105 i~l~gl~GN~lvl~~i~~~~~l~~-~~~~fi~nLA~aDLl~~~~~~P~~i~~~~ 157 (168)
+.++|+++|.+-+.++. +|.+|+ ++|.++.-+|++|++..+..++..+....
T Consensus 6 ~~~~g~~~N~~h~~VLt-rk~mR~~~in~~l~~Iai~Dl~~~~~~~~~~~~~~~ 58 (318)
T PF10324_consen 6 LSIFGLFINIFHLIVLT-RKSMRSSSINILLIGIAICDLLYMLSILIWELFFFI 58 (318)
T ss_pred EeHHHHHHHHHHhhhcC-ChhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45789999998876554 566786 89999999999999998888877664443
No 14
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=91.23 E-value=0.73 Score=38.74 Aligned_cols=54 Identities=22% Similarity=0.284 Sum_probs=44.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhh
Q psy8502 96 ITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCL 149 (168)
Q Consensus 96 ~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~ 149 (168)
..+.++..+..+++++|-++++..+++.|++|++.+-++.-++++|++..+..+
T Consensus 7 ~~~~~i~~~~s~lSllGclfiI~tf~~~k~~r~~~~rli~yl~~~~ll~~v~~~ 60 (303)
T PF05462_consen 7 RTLYAIELVASVLSLLGCLFIIITFCLFKRLRKPINRLIFYLSIANLLTNVASM 60 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHH
Confidence 344556667788899999999999999999999999999999999998765443
No 15
>PF11710 Git3: G protein-coupled glucose receptor regulating Gpa2; InterPro: IPR023041 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 is the conserved N-terminal domain of the member proteins.
Probab=88.20 E-value=2.3 Score=33.50 Aligned_cols=34 Identities=24% Similarity=0.230 Sum_probs=24.6
Q ss_pred CCCCchhHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy8502 124 PRMRNVTNYFIVNLAVADMLVITLCLPATLMANI 157 (168)
Q Consensus 124 ~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~ 157 (168)
++.+...+-++.||.++|++.++..+...+.+..
T Consensus 30 ~r~~~fR~~LIl~L~~aD~~qal~~~i~~~~~l~ 63 (201)
T PF11710_consen 30 YRRRSFRHQLILNLLLADFIQALAFLISPIRWLA 63 (201)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456777789999999999998766554444443
No 16
>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=88.03 E-value=3.1 Score=35.09 Aligned_cols=54 Identities=11% Similarity=0.106 Sum_probs=42.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhh
Q psy8502 94 VTITFIIGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITL 147 (168)
Q Consensus 94 ~~~~~~~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~ 147 (168)
.+.++++.+.+.+++-.+-....+.++.++++.|.+.|-.+.-||+.|++...+
T Consensus 31 ~~p~~G~~~~~~g~~~~~lY~p~~~~i~~~~~~k~~~ykiM~~L~i~Di~~l~~ 84 (313)
T PF10321_consen 31 KRPILGIYFLIFGIIIIILYIPCLIAIFKKKLFKMSCYKIMFFLAIFDIIQLFI 84 (313)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHHHh
Confidence 445666666677777777788888888887777889999999999999987543
No 17
>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=80.39 E-value=2.8 Score=34.46 Aligned_cols=48 Identities=21% Similarity=0.379 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHhhc-CCCCchhHHHHHHHHHHHHHHHhhh
Q psy8502 101 GYLAVFLIGLVGNSLVIAVVIRS-PRMRNVTNYFIVNLAVADMLVITLC 148 (168)
Q Consensus 101 ~~~ii~l~gl~GN~lvl~~i~~~-~~l~~~~~~fi~nLA~aDLl~~~~~ 148 (168)
++.+.+.+|++-|++.++++.++ ++.-+..-+++.|-|+.|++.++..
T Consensus 4 ~~~~~~~~~~~~n~~Ll~~i~~~tp~~l~~~~~~l~~~~~~~~~~~~~~ 52 (292)
T PF10317_consen 4 YHPIFFILGIILNILLLYLIIFKTPKSLRTYSILLLNTAIFDLISIISA 52 (292)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677889999999999877654 4434457789999999999886443
No 18
>PF00002 7tm_2: 7 transmembrane receptor (Secretin family); InterPro: IPR000832 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 secretin-like GPCRs include secretin [], calcitonin [], parathyroid hormone/parathyroid hormone-related peptides [] and vasoactive intestinal peptide [], all of which activate adenylyl cyclase and the phosphatidyl-inositol-calcium pathway. These receptors contain seven transmembrane regions, in a manner reminiscent of the rhodopsins and other receptors believed to interact with G-proteins (however there is no significant sequence identity between these families, the secretin-like receptors thus bear their own unique '7TM' signature). Their N terminus is probably located on the extracellular side of the membrane and potentially glycosylated. This N-terminal region contains a long conserved region which allow the binding of large peptidic ligand such as glucagon, secretin, VIP and PACAP; this region contains five conserved cysteines residues which could be involved in disulphide bond. The C-terminal region of these receptor is probably cytoplasmic. Every receptor gene in this family is encoded on multiple exons, and several of these genes are alternatively spliced to yield functionally distinct products. ; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 3L2J_A 1BL1_A.
Probab=49.65 E-value=11 Score=29.55 Aligned_cols=43 Identities=16% Similarity=0.174 Sum_probs=1.6
Q ss_pred HHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHh
Q psy8502 104 AVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVIT 146 (168)
Q Consensus 104 ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~ 146 (168)
+-+.+++++-++++......|++|+..+....||++++++..+
T Consensus 9 vg~~~Si~~ll~~i~~~~~~r~lr~~~~~i~~~l~~sll~~~~ 51 (242)
T PF00002_consen 9 VGCSLSIICLLLTIITYLLFRKLRSFRNKIHLNLCLSLLLANL 51 (242)
T ss_dssp HHHH---------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccchhhhhhhHHHHHHHHH
Confidence 3344445554555554455567777778888999999887654
No 19
>PF09882 DUF2109: Predicted membrane protein (DUF2109); InterPro: IPR019214 This entry is found in various hypothetical archaeal proteins and has no known function.
Probab=46.93 E-value=58 Score=21.91 Aligned_cols=47 Identities=19% Similarity=0.439 Sum_probs=32.2
Q ss_pred HHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHH
Q psy8502 107 LIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATL 153 (168)
Q Consensus 107 l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i 153 (168)
+.|+++=..++-++..+.+.++-.|.-..|-+++-++....--|+-.
T Consensus 5 i~g~Iai~~~iR~~~~~~r~~KL~yLnv~~F~iaalIaL~i~~P~g~ 51 (78)
T PF09882_consen 5 IIGIIAILMAIRIFLTKSRARKLLYLNVINFAIAALIALYIKSPMGA 51 (78)
T ss_pred HHHHHHHHHHHHHHHhHhHHHhhhHHHHHHHHHHHHHHHHhCCcHHH
Confidence 34444445555555556666777888889999999887766667644
No 20
>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=37.78 E-value=72 Score=26.50 Aligned_cols=60 Identities=27% Similarity=0.433 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhHHHh-hcCCCCchhHHHH---HHHHHHHHHHHhhhhhHHHHH
Q psy8502 96 ITFIIGYLAVFLIGLVGNSLVIAVVI-RSPRMRNVTNYFI---VNLAVADMLVITLCLPATLMA 155 (168)
Q Consensus 96 ~~~~~~~~ii~l~gl~GN~lvl~~i~-~~~~l~~~~~~fi---~nLA~aDLl~~~~~~P~~i~~ 155 (168)
.++...+-+++.++++-|.++++++. +.+|+.+..|+++ +...+.|+-.+.+.-|..+.-
T Consensus 9 ~~li~~~~~ig~iS~~~n~~~iyLi~fks~k~~~fry~ll~~Qi~~~l~di~~t~L~qpipLfP 72 (303)
T PF10327_consen 9 QWLINYYHIIGVISFILNSLGIYLIIFKSPKLDNFRYYLLYFQISCTLTDIHLTFLMQPIPLFP 72 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHheeEEEecCCccchhhHHHHHHHHHHHhhhhhhhhccchhhcc
Confidence 45667788899999999999997764 4566666555443 234567988877766665543
No 21
>PF12177 Proho_convert: Prohormone convertase enzyme; InterPro: IPR022005 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with PF01483 from PFAM, PF00082 from PFAM. There are two completely conserved residues (Y and D) that may be functionally important. This protein is the C-terminal domain of a prohormone convertase enzyme which targets hormones in dense core secretory granules. This C-terminal tail domain is the domain responsible for targeting these dense core secretory granules. The domain adopts an alpha helical structure []. ; PDB: 2KE3_A 2KDT_A.
Probab=36.27 E-value=13 Score=21.67 Aligned_cols=27 Identities=22% Similarity=0.169 Sum_probs=18.8
Q ss_pred CcchhccccccCCCCCchhhhhcccccc
Q psy8502 8 SEYYHIDLSSRDNYGLNTFLLQQGAEDM 35 (168)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~ 35 (168)
+| |.|-|.|+.-+-||--+|+|+--||
T Consensus 11 ~D-y~D~FYn~kPYkHRDDrLlQAL~~~ 37 (41)
T PF12177_consen 11 SD-YVDGFYNTKPYKHRDDRLLQALFDI 37 (41)
T ss_dssp HH-HHHCCCT---SS-SCHHHHHHHHHH
T ss_pred hh-hhhhhhcCCCcccccHHHHHHHHHH
Confidence 45 8899999999999999999976444
No 22
>PF10316 7TM_GPCR_Srbc: Serpentine type 7TM GPCR chemoreceptor Srbc ; InterPro: IPR019420 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 b (Srb) from the Sra superfamily []. Srb receptors contain 6-8 hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures. Srbc is a solo family amongst the superfamilies of chemoreceptors.
Probab=35.55 E-value=1.5e+02 Score=24.43 Aligned_cols=56 Identities=9% Similarity=-0.063 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhhHHHHH
Q psy8502 100 IGYLAVFLIGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLPATLMA 155 (168)
Q Consensus 100 ~~~~ii~l~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~ 155 (168)
.+-.+..+.....|...++.+...|+.+++-..++---.+.|.+++....+..+..
T Consensus 10 ~i~i~~s~~~~~iN~~lL~~if~~Kk~kk~~l~LfY~Rf~~D~~~~~~~~~~~~~~ 65 (273)
T PF10316_consen 10 IIGIIFSIITCLINFYLLYSIFYSKKKKKPDLSLFYFRFAIDVFYGFSVFIYLIYY 65 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccCCCCEEeeHHHHHHHHHHHHHHHHHHHHH
Confidence 33445566778899998888876555444433333335778999987766654433
No 23
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=34.78 E-value=49 Score=20.69 Aligned_cols=17 Identities=18% Similarity=0.260 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHhhHHH
Q psy8502 104 AVFLIGLVGNSLVIAVV 120 (168)
Q Consensus 104 ii~l~gl~GN~lvl~~i 120 (168)
++.+--++||+.++-..
T Consensus 10 viVlgvIigNia~LK~s 26 (55)
T PF11446_consen 10 VIVLGVIIGNIAALKYS 26 (55)
T ss_pred HHHHHHHHhHHHHHHHh
Confidence 34444578999887544
No 24
>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=31.88 E-value=53 Score=26.92 Aligned_cols=36 Identities=8% Similarity=0.324 Sum_probs=24.3
Q ss_pred HHHhhHHHhhcCC----CCchhHHHHHHHHHHHHHHHhhh
Q psy8502 113 NSLVIAVVIRSPR----MRNVTNYFIVNLAVADMLVITLC 148 (168)
Q Consensus 113 N~lvl~~i~~~~~----l~~~~~~fi~nLA~aDLl~~~~~ 148 (168)
...+++++.+.|+ .+++.+-.+.+-+++|++..+..
T Consensus 12 y~~il~~l~~~r~~~~~~~~~Fy~l~~~~~iaDi~~~~~~ 51 (283)
T PF10323_consen 12 YIFILYCLLKLRKRSKTFKSTFYTLLIQHCIADILSMLFY 51 (283)
T ss_pred HHHHHHHHHHcccCccccCCHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444332 56888999999999999876543
No 25
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=31.24 E-value=62 Score=23.61 Aligned_cols=12 Identities=33% Similarity=0.647 Sum_probs=5.2
Q ss_pred HHHHHHHhhHHH
Q psy8502 109 GLVGNSLVIAVV 120 (168)
Q Consensus 109 gl~GN~lvl~~i 120 (168)
|++|=++.|+.+
T Consensus 76 GvIg~Illi~y~ 87 (122)
T PF01102_consen 76 GVIGIILLISYC 87 (122)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 445544444333
No 26
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=26.14 E-value=2.9e+02 Score=22.29 Aligned_cols=36 Identities=6% Similarity=-0.053 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHhhhh---hHHHHHHhh-C---CCcCCCC
Q psy8502 131 NYFIVNLAVADMLVITLCL---PATLMANIY-V---HFDLKSL 166 (168)
Q Consensus 131 ~~fi~nLA~aDLl~~~~~~---P~~i~~~~~-~---~W~fG~~ 166 (168)
|+-+.-|++.-+++++.++ -+.+++.+. | -|.|..+
T Consensus 141 YlS~~~lgll~~~~~laivRlilf~i~w~~~~g~~~fWlfPNL 183 (224)
T PF03839_consen 141 YLSVGALGLLGLFFALAIVRLILFLITWFFTGGKHGFWLFPNL 183 (224)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCEEeCCcc
Confidence 3333444444444433332 234555554 3 3888765
No 27
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=26.08 E-value=1.3e+02 Score=20.82 Aligned_cols=18 Identities=17% Similarity=0.117 Sum_probs=9.4
Q ss_pred HhhHHHhh--cCCCCchhHH
Q psy8502 115 LVIAVVIR--SPRMRNVTNY 132 (168)
Q Consensus 115 lvl~~i~~--~~~l~~~~~~ 132 (168)
+++|++++ +||-|.|.|-
T Consensus 48 VilwfvCC~kRkrsRrPIYr 67 (94)
T PF05393_consen 48 VILWFVCCKKRKRSRRPIYR 67 (94)
T ss_pred HHHHHHHHHHhhhccCCccc
Confidence 34555543 3445667653
No 28
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=25.63 E-value=88 Score=27.05 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHhhcCCCC
Q psy8502 99 IIGYLAVFLIGLVGNSLVIAVVIRSPRMR 127 (168)
Q Consensus 99 ~~~~~ii~l~gl~GN~lvl~~i~~~~~l~ 127 (168)
.+..+++.++.++--.++|+++.|+||.+
T Consensus 311 ~IiaSiIAIvvIVLIMvIIYLILRYRRKK 339 (353)
T TIGR01477 311 PIIASIIAILIIVLIMVIIYLILRYRRKK 339 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 34556666666777778888888877644
No 29
>PF15660 Imm49: Immunity protein 49
Probab=24.55 E-value=26 Score=22.89 Aligned_cols=31 Identities=16% Similarity=0.429 Sum_probs=26.3
Q ss_pred cchhccccccCCCCCchhhhhcccccccccc
Q psy8502 9 EYYHIDLSSRDNYGLNTFLLQQGAEDMGLII 39 (168)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~ 39 (168)
-||..||-+|..-|.|-.+||+-..|++.|.
T Consensus 47 vyfnpdfagtptfgrrlyrlrdwtddladwv 77 (84)
T PF15660_consen 47 VYFNPDFAGTPTFGRRLYRLRDWTDDLADWV 77 (84)
T ss_pred EEeCCCcCCCcchhhhhhhhhhhhhHHHHHH
Confidence 4899999999999999999998888876654
No 30
>PTZ00046 rifin; Provisional
Probab=23.80 E-value=1e+02 Score=26.76 Aligned_cols=28 Identities=21% Similarity=0.216 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhcCCCC
Q psy8502 100 IGYLAVFLIGLVGNSLVIAVVIRSPRMR 127 (168)
Q Consensus 100 ~~~~ii~l~gl~GN~lvl~~i~~~~~l~ 127 (168)
+..+++.++-++--.++|+++.|+||.+
T Consensus 317 IiaSiiAIvVIVLIMvIIYLILRYRRKK 344 (358)
T PTZ00046 317 IIASIVAIVVIVLIMVIIYLILRYRRKK 344 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 4556666666777778888888877644
No 31
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=23.80 E-value=70 Score=26.97 Aligned_cols=27 Identities=19% Similarity=0.168 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhcCCC
Q psy8502 100 IGYLAVFLIGLVGNSLVIAVVIRSPRM 126 (168)
Q Consensus 100 ~~~~ii~l~gl~GN~lvl~~i~~~~~l 126 (168)
+..+++.++-++-=.++|++++|+||.
T Consensus 258 I~aSiiaIliIVLIMvIIYLILRYRRK 284 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILRYRRK 284 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555556777888777663
No 32
>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=23.64 E-value=71 Score=26.06 Aligned_cols=46 Identities=17% Similarity=0.341 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhhHHHhhcCCCCchhH-HHHHHHHHHHHHHHhhhh
Q psy8502 104 AVFLIGLVGNSLVIAVVIRSPRMRNVTN-YFIVNLAVADMLVITLCL 149 (168)
Q Consensus 104 ii~l~gl~GN~lvl~~i~~~~~l~~~~~-~fi~nLA~aDLl~~~~~~ 149 (168)
+.++++++.|++.++++.++.+.+...| +++.-.|+.|+.++++-.
T Consensus 7 ~~~~~s~~~N~~Li~Li~~~s~k~~G~Yk~Lm~~fs~~~i~fs~~~~ 53 (307)
T PF10326_consen 7 IGFVLSLFLNSLLIYLILTKSPKSLGSYKYLMIYFSIFEIIFSILDF 53 (307)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCEEEEEehhHHHHHHHHHHHH
Confidence 5677889999999988765543333332 444556778888766544
No 33
>COG1230 CzcD Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]
Probab=21.00 E-value=5.1e+02 Score=21.82 Aligned_cols=58 Identities=19% Similarity=0.225 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhhHHHhhcCC-CCchhHHHHHHHHHHHHHHHhhhhhHHHHHHhhC-CC
Q psy8502 102 YLAVFLIGLVGNSLVIAVVIRSPR-MRNVTNYFIVNLAVADMLVITLCLPATLMANIYV-HF 161 (168)
Q Consensus 102 ~~ii~l~gl~GN~lvl~~i~~~~~-l~~~~~~fi~nLA~aDLl~~~~~~P~~i~~~~~~-~W 161 (168)
++++.++|++-|++..+.+.+.+. -.+.--.|+- +++|++-++-.+--.+.-.+++ .|
T Consensus 127 ml~va~~GL~vN~~~a~ll~~~~~~~lN~r~a~LH--vl~D~Lgsv~vIia~i~i~~~~w~~ 186 (296)
T COG1230 127 MLVVAIIGLVVNLVSALLLHKGHEENLNMRGAYLH--VLGDALGSVGVIIAAIVIRFTGWSW 186 (296)
T ss_pred hHHHHHHHHHHHHHHHHHhhCCCcccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 345678899999999888877522 1122222222 3579887665555444444444 44
No 34
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=20.88 E-value=60 Score=19.18 Aligned_cols=20 Identities=35% Similarity=0.604 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHhhHHHhhc
Q psy8502 104 AVFLIGLVGNSLVIAVVIRS 123 (168)
Q Consensus 104 ii~l~gl~GN~lvl~~i~~~ 123 (168)
+.+++|++|-.++...+.++
T Consensus 13 VF~lVglv~i~iva~~iYRK 32 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRK 32 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHH
Confidence 34555666666666555443
No 35
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=20.85 E-value=1.7e+02 Score=20.80 Aligned_cols=28 Identities=14% Similarity=0.174 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHhhcCC
Q psy8502 98 FIIGYLAVFLIGLVGNSLVIAVVIRSPR 125 (168)
Q Consensus 98 ~~~~~~ii~l~gl~GN~lvl~~i~~~~~ 125 (168)
+..++.++.++.++.|++......++++
T Consensus 3 Ll~il~llLll~l~asl~~wr~~~rq~k 30 (107)
T PF15330_consen 3 LLGILALLLLLSLAASLLAWRMKQRQKK 30 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3455566667777777766544444333
No 36
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=20.72 E-value=1.7e+02 Score=23.76 Aligned_cols=42 Identities=17% Similarity=0.390 Sum_probs=22.8
Q ss_pred HHHHHHHHhhHHHhhcCCCCchhHHHHHHHHHHHHHHHhhhhh
Q psy8502 108 IGLVGNSLVIAVVIRSPRMRNVTNYFIVNLAVADMLVITLCLP 150 (168)
Q Consensus 108 ~gl~GN~lvl~~i~~~~~l~~~~~~fi~nLA~aDLl~~~~~~P 150 (168)
++++.|++.++.+.-..+.-+..++.++-|-+.|++. +..+|
T Consensus 82 lsl~~~~~~L~Ff~vpS~~~r~l~~vl~~Lllvdlil-il~V~ 123 (232)
T PF10329_consen 82 LSLITNLFNLWFFGVPSKLERILNIVLAGLLLVDLIL-ILAVP 123 (232)
T ss_pred HHHHHHHHHHHheecCcHHHHHHHHHHHHHHHHHHHH-HHhhH
Confidence 4455555555554444444444566666666777666 33444
Done!