Query psy12172
Match_columns 84
No_of_seqs 210 out of 1309
Neff 9.6
Searched_HMMs 46136
Date Fri Aug 16 20:31:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12172.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12172hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4219|consensus 99.7 3.9E-18 8.4E-23 110.7 6.2 81 2-82 31-111 (423)
2 PHA03234 DNA packaging protein 99.7 1.2E-16 2.6E-21 103.2 7.7 77 5-83 31-109 (338)
3 PHA02834 chemokine receptor-li 99.5 4.1E-14 8.8E-19 90.7 7.0 75 5-82 27-101 (323)
4 PHA02638 CC chemokine receptor 99.5 1.3E-13 2.9E-18 91.2 8.3 75 5-82 97-171 (417)
5 KOG4220|consensus 99.4 9.9E-15 2.2E-19 95.5 -1.9 75 8-82 32-106 (503)
6 PHA03087 G protein-coupled che 99.3 3.1E-12 6.7E-17 82.0 5.5 76 5-82 39-114 (335)
7 PHA03235 DNA packaging protein 99.3 1.2E-11 2.6E-16 81.8 7.7 77 5-83 31-109 (409)
8 PF00001 7tm_1: 7 transmembran 99.2 1.2E-11 2.5E-16 75.0 4.3 60 23-82 1-60 (257)
9 PF10320 7TM_GPCR_Srsx: Serpen 98.5 4.4E-08 9.5E-13 61.4 1.8 49 18-66 2-50 (257)
10 KOG2087|consensus 97.9 8.9E-06 1.9E-10 53.2 2.3 72 12-83 30-108 (363)
11 PF05296 TAS2R: Mammalian tast 97.7 0.00044 9.6E-09 44.5 8.3 68 1-68 1-71 (303)
12 PF11710 Git3: G protein-coupl 97.4 0.0014 3.1E-08 40.0 6.7 49 35-83 30-78 (201)
13 PF05462 Dicty_CAR: Slime mold 97.4 0.0019 4E-08 41.8 7.5 77 3-83 3-79 (303)
14 PF10328 7TM_GPCR_Srx: Serpent 96.7 0.0077 1.7E-07 38.0 6.0 45 16-60 3-47 (274)
15 PF10324 7TM_GPCR_Srw: Serpent 96.7 0.0088 1.9E-07 38.3 6.0 53 16-69 6-59 (318)
16 PF03402 V1R: Vomeronasal orga 96.6 0.008 1.7E-07 38.3 5.4 44 38-82 8-51 (265)
17 PF10321 7TM_GPCR_Srt: Serpent 95.4 0.13 2.8E-06 33.6 6.7 55 5-59 31-85 (313)
18 PF10317 7TM_GPCR_Srd: Serpent 95.2 0.086 1.9E-06 33.7 5.5 52 12-63 4-56 (292)
19 PF00002 7tm_2: 7 transmembran 88.3 0.38 8.2E-06 29.6 1.9 42 17-58 11-52 (242)
20 PF10316 7TM_GPCR_Srbc: Serpen 73.8 21 0.00046 23.0 6.6 58 11-68 10-67 (273)
21 PF10327 7TM_GPCR_Sri: Serpent 72.1 7.3 0.00016 25.3 3.6 64 6-69 8-75 (303)
22 PF01102 Glycophorin_A: Glycop 64.2 12 0.00027 21.3 3.0 20 20-39 76-95 (122)
23 PF09882 DUF2109: Predicted me 60.4 23 0.00051 18.5 4.4 48 17-64 4-51 (78)
24 PF10326 7TM_GPCR_Str: Serpent 58.7 9 0.0002 24.5 2.1 46 15-60 7-53 (307)
25 PF10323 7TM_GPCR_Srv: Serpent 54.2 56 0.0012 20.9 5.9 40 21-60 9-52 (283)
26 PF11446 DUF2897: Protein of u 52.1 25 0.00054 17.1 2.5 19 14-32 9-27 (55)
27 PF02009 Rifin_STEVOR: Rifin/s 45.3 25 0.00054 23.1 2.5 27 12-38 259-285 (299)
28 PHA03164 hypothetical protein; 45.1 39 0.00085 17.7 2.7 27 31-58 50-76 (88)
29 TIGR01477 RIFIN variant surfac 44.4 55 0.0012 22.2 4.0 30 10-39 311-340 (353)
30 PRK13183 psbN photosystem II r 43.8 30 0.00065 16.2 2.0 32 10-41 10-41 (46)
31 PTZ00046 rifin; Provisional 42.3 65 0.0014 21.9 4.1 29 10-38 316-344 (358)
32 PF02468 PsbN: Photosystem II 37.5 48 0.001 15.3 2.3 32 10-41 7-38 (43)
33 COG2164 Uncharacterized conser 35.7 21 0.00046 19.9 0.9 14 71-84 72-85 (126)
34 PF10292 7TM_GPCR_Srab: Serpen 34.8 1.3E+02 0.0029 19.6 9.0 51 10-60 20-70 (324)
35 PF05393 Hum_adeno_E3A: Human 32.7 62 0.0013 17.5 2.3 16 27-42 49-66 (94)
36 CHL00020 psbN photosystem II p 32.6 42 0.00091 15.5 1.5 31 11-41 8-38 (43)
37 PF10319 7TM_GPCR_Srj: Serpent 31.6 1.2E+02 0.0026 20.2 4.0 44 15-58 13-57 (310)
38 PF10329 DUF2417: Region of un 27.7 1.7E+02 0.0037 18.7 4.5 42 17-58 80-121 (232)
39 KOG4564|consensus 27.4 2.3E+02 0.005 20.1 8.1 55 12-66 150-204 (473)
40 PF10873 DUF2668: Protein of u 27.0 69 0.0015 19.0 2.1 26 10-35 65-90 (155)
41 PF02532 PsbI: Photosystem II 24.9 80 0.0017 14.0 3.2 15 10-24 12-26 (36)
42 PRK13664 hypothetical protein; 22.8 1.2E+02 0.0025 15.1 2.3 15 13-27 11-25 (62)
43 CHL00024 psbI photosystem II p 22.7 50 0.0011 14.6 0.8 15 10-24 12-26 (36)
44 PF15330 SIT: SHP2-interacting 22.7 1.5E+02 0.0033 16.4 3.9 27 9-35 3-29 (107)
45 PF08114 PMP1_2: ATPase proteo 21.7 53 0.0012 15.0 0.8 21 14-34 12-32 (43)
46 PRK02655 psbI photosystem II r 20.3 58 0.0012 14.6 0.7 14 11-24 13-26 (38)
No 1
>KOG4219|consensus
Probab=99.74 E-value=3.9e-18 Score=110.69 Aligned_cols=81 Identities=28% Similarity=0.430 Sum_probs=76.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCcccccccccee
Q psy12172 2 HPLWYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRF 81 (84)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~ 81 (84)
+.+.+.+.+++|..+..++++||.+|+|++..+|++|+.+|+|+.|||+||+.++++..|+........+|.+|.+.|++
T Consensus 31 p~~~~~~wai~yg~l~~vAv~GN~iVlwIil~hrrMRtvtnyfL~NLAfADl~~s~Fn~~f~f~yal~~~W~~G~f~C~f 110 (423)
T KOG4219|consen 31 PAWQQALWAIAYGLLVFVAVVGNLIVLWIILAHRRMRTVTNYFLVNLAFADLSMSIFNTVFNFQYALHQEWYFGSFYCRF 110 (423)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcCceEEEEEeehhehhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhccccccceeee
Confidence 55677889999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred e
Q psy12172 82 L 82 (84)
Q Consensus 82 ~ 82 (84)
.
T Consensus 111 ~ 111 (423)
T KOG4219|consen 111 V 111 (423)
T ss_pred c
Confidence 5
No 2
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.69 E-value=1.2e-16 Score=103.15 Aligned_cols=77 Identities=13% Similarity=0.049 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHh--hcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIF--LCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~--~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.+.....+|.+++++|++||++++++. .+++++|+++|+|+.|||+||++++++ .|+..... .++|.+|+..||+.
T Consensus 31 ~~~~~~~~y~~vf~~gl~gN~lvl~v~~~~~~~~~rt~tn~fi~NLAvaDLL~~l~-lp~~~~~~-~~~w~fG~~lCk~~ 108 (338)
T PHA03234 31 AQILESAINGIMLTLIIPMIIIVICTLIIYHKVAKHNATSFYLITLFASDFLHMLC-VFFLTLNR-EALFNFNQAFCQCV 108 (338)
T ss_pred HHHHhhHHHHHHHHHHhhhHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHH-HHHHHHHH-hCCccCchhHHHHH
Confidence 456788999999999999999999844 566677899999999999999999887 45544433 45799999999975
Q ss_pred c
Q psy12172 83 V 83 (84)
Q Consensus 83 ~ 83 (84)
+
T Consensus 109 ~ 109 (338)
T PHA03234 109 L 109 (338)
T ss_pred H
Confidence 4
No 3
>PHA02834 chemokine receptor-like protein; Provisional
Probab=99.53 E-value=4.1e-14 Score=90.71 Aligned_cols=75 Identities=19% Similarity=0.375 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.+.+....+.+++++|++||+++++++.+++++ ++.|+++.|||++|++. ....|..+... .++|.+|+..|++.
T Consensus 27 ~~~~~~~~~~li~v~~~~gN~lVi~vi~~~~~~-~~~n~~i~nLAiaDll~-~~~lP~~i~~~-~~~w~~g~~~C~~~ 101 (323)
T PHA02834 27 VNYFVIVFYILLFIFGLIGNVLVIAVLIVKRFM-FVVDVYLFNIAMSDLML-VFSFPFIIHND-LNEWIFGEFMCKLV 101 (323)
T ss_pred hhhhHHHHHHHHHHHHHhhHHHHHHHHHhcccc-chhhhhhHHHHHHHHHH-HHHHHHHHHHH-cCCcCCcchHHHhH
Confidence 456778899999999999999999988776654 57899999999999986 45588876654 45799999999975
No 4
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=99.50 E-value=1.3e-13 Score=91.19 Aligned_cols=75 Identities=24% Similarity=0.579 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.......+|.+++++|++||+++++++.+ |++|+++|+++.|||++|++... ..|+.+... .++|.+|+..||+.
T Consensus 97 ~~~~l~~~y~lvfvlgliGN~LVl~il~~-k~lrt~t~i~llnLAisDLl~~l-~lPf~i~~~-~~~W~fg~~~Ck~~ 171 (417)
T PHA02638 97 ISEYIKIFYIIIFILGLFGNAAIIMILFC-KKIKTITDIYIFNLAISDLIFVI-DFPFIIYNE-FDQWIFGDFMCKVI 171 (417)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCHhHHHHHHHHHHHHHHHH-HHHHHHHHH-hccccccccchhhH
Confidence 45677888999999999999999977654 77899999999999999998865 488877655 46899999999975
No 5
>KOG4220|consensus
Probab=99.41 E-value=9.9e-15 Score=95.54 Aligned_cols=75 Identities=20% Similarity=0.285 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 8 ALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 8 ~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
...++-..+.++.++||++|+..+..+|++|+..|+|+++||+||++.+.+.+|....+...|.|++|...|.++
T Consensus 32 ~i~~v~~~lsLVTv~GNlLVmiSfKvnrqLqTVnNYfLfSLAcADliIG~~SMnl~t~Y~lmg~W~LG~~~CdlW 106 (503)
T KOG4220|consen 32 FIVVVTGSLSLVTVVGNLLVMISFKVNRQLQTVNNYFLFSLACADLIIGAFSMNLYTTYTLMGYWPLGPLVCDLW 106 (503)
T ss_pred eeehhhhHHHHHhhhccEEEEEEEEecceeeeecceeehHHHHhhhhhheeechHHHHHHHHcccccchHHHHHH
Confidence 345566788899999999999999999999999999999999999999999999999999999999999999864
No 6
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=99.32 E-value=3.1e-12 Score=81.99 Aligned_cols=76 Identities=26% Similarity=0.488 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.+.....++.+++++|++||+++++++.++ ++|++.|+++.|||++|++.++. .|........++|.+|+..|++.
T Consensus 39 ~~~~~~~~~~~i~~~gl~gN~lvl~~~~~~-~~~~~~~~ll~~laisDll~~~~-~~~~~~~~~~~~~~~~~~~C~~~ 114 (335)
T PHA03087 39 NSTILIVVYSTIFFFGLVGNIIVIYVLTKT-KIKTPMDIYLLNLAVSDLLFVMT-LPFQIYYYILFQWSFGEFACKIV 114 (335)
T ss_pred hhhHHHHHHHHHHHHHHHhhHhEEeeehhc-cccCchHHHHHHHHHHHHHHHHh-HHHHHHHHhCCCCCCCcHHHHHH
Confidence 456778889999999999999999998887 88999999999999999988776 67666666678899999999864
No 7
>PHA03235 DNA packaging protein UL33; Provisional
Probab=99.31 E-value=1.2e-11 Score=81.84 Aligned_cols=77 Identities=12% Similarity=0.025 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHhhcc-cC-CCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIFLCT-KN-LRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~-~~-l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.+.....++.+++++|++||+++++++.++ |+ .++..++|+.|||++|++. +...|+.+... ...|..|+..|++.
T Consensus 31 ~~~~~~~~~~li~vvGiigN~lVL~~~~~~~r~~~~~~~~~~I~NLAvsDLl~-l~~lP~~i~~~-~~~~~~g~~~Ck~~ 108 (409)
T PHA03235 31 ARTTETFINLLIISVGGPLNLIVLVTQLLANRVHGFSTPTLYMTNLYLANLLT-VFVLPFIMLSN-QGLLSGSVAGCKFA 108 (409)
T ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCccHHHHHHHHHHHHHH-HHHHHHHHHhc-CccccCCCCeehhH
Confidence 456788899999999999999999875433 32 2356689999999999987 45588776431 22233457899976
Q ss_pred c
Q psy12172 83 V 83 (84)
Q Consensus 83 ~ 83 (84)
+
T Consensus 109 ~ 109 (409)
T PHA03235 109 S 109 (409)
T ss_pred H
Confidence 4
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=99.23 E-value=1.2e-11 Score=74.99 Aligned_cols=60 Identities=35% Similarity=0.667 Sum_probs=54.5
Q ss_pred hhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 23 GNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 23 gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
||.+++.++.++|++|++.++++.|||++|++.++...|........++|.+++..|++.
T Consensus 1 GN~lvi~~~~~~~~~~~~~~~~l~~Lav~Dll~~~~~~~~~~~~~~~~~~~~~~~~C~~~ 60 (257)
T PF00001_consen 1 GNILVILVILRSKRLRTPSNILLLNLAVADLLVGLFCIPFYIYSLLFDDWIFSSFLCRIF 60 (257)
T ss_dssp HHHHHHHHHHHSGGG-SHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHSSCTSHHHHHHHH
T ss_pred CchhehhhhhhhccCCChhHHHHHHHHHHHHhhccccccccccccccccccccccccccc
Confidence 899999999999999999999999999999999999888888888778999999999864
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=98.52 E-value=4.4e-08 Score=61.41 Aligned_cols=49 Identities=27% Similarity=0.561 Sum_probs=44.4
Q ss_pred HHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHH
Q psy12172 18 TMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLN 66 (84)
Q Consensus 18 ~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~ 66 (84)
++|+.||..++.++.++|++|+|.++++..+|++|++......|.....
T Consensus 2 ~ig~~gN~~~i~~~~~~~~Lrs~~~~li~~~~~~d~~~~~~~~~~~~~~ 50 (257)
T PF10320_consen 2 IIGLFGNLLLIILIFRNKSLRSPCYILICILCFADLICLLGTLPFMLFL 50 (257)
T ss_pred EEEEEccHHHHHHHHhccccccchHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 4688999999999999999999999999999999999999888877643
No 10
>KOG2087|consensus
Probab=97.88 E-value=8.9e-06 Score=53.15 Aligned_cols=72 Identities=15% Similarity=0.156 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhh-------Cccccccccceeec
Q psy12172 12 TMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFY-------ETWTLGKFCLRFLV 83 (84)
Q Consensus 12 ~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~-------~~~~~~~~~C~~~~ 83 (84)
...++..+++.||.+|+......+...++..+++.|||++|+++++...-....+... ..|......|++.|
T Consensus 30 ~vW~i~~lAi~gN~~Vl~~~~~~~~~~~~~~~li~~la~ad~~mGiYl~~ia~vD~~~~gey~~~ai~W~tg~gC~~aG 108 (363)
T KOG2087|consen 30 SVWVIALLAIVGNLLVLLTRFTSRYELNSHRFLICNLAFADLLMGIYLGLIASVDAKTRGEYYKHAIDWQTGLGCPVAG 108 (363)
T ss_pred hhhhhhhHHhccCeeeeeeeeehhhhccchHHHHHHHHHHHHHcchHHHHHHHhhHHHHHHHHHHHHhhhhcCCCchHH
Confidence 3456778899999999988877777777889999999999999998766555544432 22445667888754
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=97.73 E-value=0.00044 Score=44.52 Aligned_cols=68 Identities=18% Similarity=0.288 Sum_probs=50.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhhHHhhHHh---hcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q psy12172 1 MHPLWYQALGLTMICLGTMSMVGNGIVVYIF---LCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCF 68 (84)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~g~~gN~~vl~~~---~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~ 68 (84)
|.+..+.....+.....++|+.||+.++.+. +++++.-+|.+..+.+||+++++.-............
T Consensus 1 M~s~~~~i~~~i~~~~~~~Gi~~N~FI~~vn~~~w~k~~~l~~~d~IL~~La~sr~~l~~~~~~~~~~~~~ 71 (303)
T PF05296_consen 1 MLSSLEIIFLIILVVEFIIGILGNGFIVLVNCSDWVKSRKLSPSDQILTSLAISRILLQWVILLNSFLSFF 71 (303)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677788889999999999999877554 3444445699999999999998877765544444443
No 12
>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=97.37 E-value=0.0014 Score=39.96 Aligned_cols=49 Identities=12% Similarity=-0.012 Sum_probs=34.8
Q ss_pred cCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceeec
Q psy12172 35 KNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFLV 83 (84)
Q Consensus 35 ~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~~ 83 (84)
++.|...+-++.||.++|++.++............++-.-++..|..+|
T Consensus 30 ~r~~~fR~~LIl~L~~aD~~qal~~~i~~~~~l~~~~i~~~s~~C~aqG 78 (201)
T PF11710_consen 30 YRRRSFRHQLILNLLLADFIQALAFLISPIRWLARGGIIAPSPFCQAQG 78 (201)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeeCCCCchhhhH
Confidence 4456677889999999999999986654444444444444678888764
No 13
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=97.36 E-value=0.0019 Score=41.83 Aligned_cols=77 Identities=17% Similarity=0.197 Sum_probs=56.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 3 PLWYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 3 ~~~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
++....+..+..+...++++|-.+++..+++.|++|++.+-++.-++++|++.......... .++-.-++..|+++
T Consensus 3 ~~~~~~~~~i~~~~s~lSllGclfiI~tf~~~k~~r~~~~rli~yl~~~~ll~~v~~~~~~~----~~~~~~~s~lC~~Q 78 (303)
T PF05462_consen 3 KQQIRTLYAIELVASVLSLLGCLFIIITFCLFKRLRKPINRLIFYLSIANLLTNVASMIMTL----SPSAGENSFLCQFQ 78 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHHh----cccCCCCCcchhhH
Confidence 34455667777788889999999999999999999999999999999999987765332211 12223346778766
Q ss_pred c
Q psy12172 83 V 83 (84)
Q Consensus 83 ~ 83 (84)
+
T Consensus 79 a 79 (303)
T PF05462_consen 79 A 79 (303)
T ss_pred h
Confidence 4
No 14
>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=96.74 E-value=0.0077 Score=38.01 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=40.2
Q ss_pred HHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhh
Q psy12172 16 LGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMA 60 (84)
Q Consensus 16 ~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~ 60 (84)
+...|++.|..++..+.+.+++|++-+.+-.+.|++|.+.++...
T Consensus 3 ~s~~G~~~N~~v~~~~~~~~~~~~sF~~l~~~~a~~n~i~~~~~l 47 (274)
T PF10328_consen 3 ISIIGIILNWLVFIIIFKLKSLRNSFGILCASQAIANIIICLIFL 47 (274)
T ss_pred eeHHHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999999999999888533
No 15
>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=96.67 E-value=0.0088 Score=38.33 Aligned_cols=53 Identities=21% Similarity=0.311 Sum_probs=42.5
Q ss_pred HHHHHHHhhHHhhHHhhcccCCCC-hhHHHHHHHHHHHHHHHHHhhHHHHHHHhh
Q psy12172 16 LGTMSMVGNGIVVYIFLCTKNLRT-PSNILVVNLAFSDFCMMFSMAPTMVLNCFY 69 (84)
Q Consensus 16 ~~~~g~~gN~~vl~~~~~~~~l~~-~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~ 69 (84)
+..+|+++|.+-+.+.. +|++|+ +.|.++.-+|++|+...+...+........
T Consensus 6 ~~~~g~~~N~~h~~VLt-rk~mR~~~in~~l~~Iai~Dl~~~~~~~~~~~~~~~~ 59 (318)
T PF10324_consen 6 LSIFGLFINIFHLIVLT-RKSMRSSSINILLIGIAICDLLYMLSILIWELFFFII 59 (318)
T ss_pred EeHHHHHHHHHHhhhcC-ChhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35679999998887654 567776 899999999999999999888877755443
No 16
>PF03402 V1R: Vomeronasal organ pheromone receptor family, V1R; InterPro: IPR004072 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 [, , ]. Pheromones have evolved in all animal phyla, to signal sex and dominance status, and are responsible for stereotypical social and sexual behaviour among members of the same species. In mammals, these chemical signals are believed to be detected primarily by the vomeronasal organ (VNO), a chemosensory organ located at the base of the nasal septum []. The VNO is present in most amphibia, reptiles and non-primate mammals but is absent in birds, adult catarrhine monkeys and apes []. An active role for the human VNO in the detection of pheromones is disputed; the VNO is clearly present in the foetus but appears to be atrophied or absent in adults. Three distinct families of putative pheromone receptors have been identified in the vomeronasal organ (V1Rs, V2Rs and V3Rs). All are G protein-coupled receptors but are only distantly related to the receptors of the main olfactory system, highlighting their different role []. The V1 receptors share between 50 and 90% sequence identity but have little similarity to other families of G protein-coupled receptors. They appear to be distantly related to the mammalian T2R bitter taste receptors and the rhodopsin-like GPCRs []. In rat, the family comprises 30-40 genes. These are expressed in the apical regions of the VNO, in neurons expressing Gi2. Coupling of the receptors to this protein mediates inositol trisphosphate signalling []. A number of human V1 receptor homologues have also been found. The majority of these human sequences are pseudogenes [] but an apparently functional receptor has been identified that is expressed in the human olfactory system [].; GO: 0016503 pheromone receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane
Probab=96.63 E-value=0.008 Score=38.31 Aligned_cols=44 Identities=11% Similarity=0.282 Sum_probs=32.2
Q ss_pred CChhHHHHHHHHHHHHHHHHHhhHHHHHHHhhCccccccccceee
Q psy12172 38 RTPSNILVVNLAFSDFCMMFSMAPTMVLNCFYETWTLGKFCLRFL 82 (84)
Q Consensus 38 ~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~~~~~~~~~~~C~~~ 82 (84)
.+|++..+.|||+++.++.++.......... +...+++.+||+.
T Consensus 8 ~kp~dlIl~hLa~aN~lvLl~rGip~~~~~~-~~~~~~d~gCK~v 51 (265)
T PF03402_consen 8 LKPIDLILIHLALANILVLLSRGIPQTMAFF-GWKFFDDIGCKIV 51 (265)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhhHHHHHHHh-hcccCCCceeeee
Confidence 4599999999999999998865544433333 3334799999964
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=95.36 E-value=0.13 Score=33.57 Aligned_cols=55 Identities=15% Similarity=0.167 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHh
Q psy12172 5 WYQALGLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSM 59 (84)
Q Consensus 5 ~~~~~~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~ 59 (84)
.+..++..+.+.+++-.+-....+.++.+++..|.|.|-.+.-||+.|+......
T Consensus 31 ~~p~~G~~~~~~g~~~~~lY~p~~~~i~~~~~~k~~~ykiM~~L~i~Di~~l~~~ 85 (313)
T PF10321_consen 31 KRPILGIYFLIFGIIIIILYIPCLIAIFKKKLFKMSCYKIMFFLAIFDIIQLFIN 85 (313)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHHHhh
Confidence 3456777788888888888888888888877778899999999999999987653
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=95.19 E-value=0.086 Score=33.70 Aligned_cols=52 Identities=17% Similarity=0.186 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhhHHhhHHhhcc-cCCCChhHHHHHHHHHHHHHHHHHhhHHH
Q psy12172 12 TMICLGTMSMVGNGIVVYIFLCT-KNLRTPSNILVVNLAFSDFCMMFSMAPTM 63 (84)
Q Consensus 12 ~~~~~~~~g~~gN~~vl~~~~~~-~~l~~~~~~~l~nLa~~D~l~~~~~~p~~ 63 (84)
++.+.+..|+..|.++++.+.++ ++.-+...+++.|-|+.|++.+....-.+
T Consensus 4 ~~~~~~~~~~~~n~~Ll~~i~~~tp~~l~~~~~~l~~~~~~~~~~~~~~~~~q 56 (292)
T PF10317_consen 4 YHPIFFILGIILNILLLYLIIFKTPKSLRTYSILLLNTAIFDLISIISAFLTQ 56 (292)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46678889999999999877654 44345678999999999999987654433
No 19
>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=88.31 E-value=0.38 Score=29.59 Aligned_cols=42 Identities=21% Similarity=0.279 Sum_probs=0.7
Q ss_pred HHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHH
Q psy12172 17 GTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFS 58 (84)
Q Consensus 17 ~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~ 58 (84)
..+++.+-.+.+......|++|+..+....||++++++..+.
T Consensus 11 ~~~Si~~ll~~i~~~~~~r~lr~~~~~i~~~l~~sll~~~~~ 52 (242)
T PF00002_consen 11 CSLSIICLLLTIITYLLFRKLRSFRNKIHLNLCLSLLLANLS 52 (242)
T ss_dssp HH----------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccchhhhhhhHHHHHHHHHH
Confidence 334444444444444445677777788889999999887765
No 20
>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=73.79 E-value=21 Score=23.02 Aligned_cols=58 Identities=16% Similarity=0.142 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q psy12172 11 LTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLNCF 68 (84)
Q Consensus 11 ~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~~~ 68 (84)
.+-.+........|...++.+..+|+.|++-..+.--....|...+....+.......
T Consensus 10 ~i~i~~s~~~~~iN~~lL~~if~~Kk~kk~~l~LfY~Rf~~D~~~~~~~~~~~~~~~~ 67 (273)
T PF10316_consen 10 IIGIIFSIITCLINFYLLYSIFYSKKKKKPDLSLFYFRFAIDVFYGFSVFIYLIYYIL 67 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccCCCCEEeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344556667778988888877555544444444444578899999987666555443
No 21
>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=72.15 E-value=7.3 Score=25.27 Aligned_cols=64 Identities=19% Similarity=0.230 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHhhHHhhHHhh-cccCCCChhHHHHH---HHHHHHHHHHHHhhHHHHHHHhh
Q psy12172 6 YQALGLTMICLGTMSMVGNGIVVYIFL-CTKNLRTPSNILVV---NLAFSDFCMMFSMAPTMVLNCFY 69 (84)
Q Consensus 6 ~~~~~~~~~~~~~~g~~gN~~vl~~~~-~~~~l~~~~~~~l~---nLa~~D~l~~~~~~p~~~~~~~~ 69 (84)
..++...|-+++.++++-|.+.++.+. +.+++.+-.++++. ...++|+-.+....|..+.....
T Consensus 8 P~~li~~~~~ig~iS~~~n~~~iyLi~fks~k~~~fry~ll~~Qi~~~l~di~~t~L~qpipLfP~~a 75 (303)
T PF10327_consen 8 PQWLINYYHIIGVISFILNSLGIYLIIFKSPKLDNFRYYLLYFQISCTLTDIHLTFLMQPIPLFPIPA 75 (303)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHheeEEEecCCccchhhHHHHHHHHHHHhhhhhhhhccchhhcceeE
Confidence 346677888999999999999987765 45566665554443 34568999998877777765544
No 22
>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=64.24 E-value=12 Score=21.27 Aligned_cols=20 Identities=5% Similarity=0.159 Sum_probs=7.2
Q ss_pred HHHhhHHhhHHhhcccCCCC
Q psy12172 20 SMVGNGIVVYIFLCTKNLRT 39 (84)
Q Consensus 20 g~~gN~~vl~~~~~~~~l~~ 39 (84)
|++|=++.+....+++++|.
T Consensus 76 GvIg~Illi~y~irR~~Kk~ 95 (122)
T PF01102_consen 76 GVIGIILLISYCIRRLRKKS 95 (122)
T ss_dssp HHHHHHHHHHHHHHHHS---
T ss_pred HHHHHHHHHHHHHHHHhccC
Confidence 44554444433333333343
No 23
>PF09882 DUF2109: Predicted membrane protein (DUF2109); InterPro: IPR019214 This entry is found in various hypothetical archaeal proteins and has no known function.
Probab=60.35 E-value=23 Score=18.51 Aligned_cols=48 Identities=17% Similarity=0.274 Sum_probs=34.2
Q ss_pred HHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHH
Q psy12172 17 GTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMV 64 (84)
Q Consensus 17 ~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~ 64 (84)
.+.|+++=...+.++..+.+.++-.|.-..|-+++-++....--|+-.
T Consensus 4 ~i~g~Iai~~~iR~~~~~~r~~KL~yLnv~~F~iaalIaL~i~~P~g~ 51 (78)
T PF09882_consen 4 IIIGIIAILMAIRIFLTKSRARKLLYLNVINFAIAALIALYIKSPMGA 51 (78)
T ss_pred HHHHHHHHHHHHHHHHhHhHHHhhhHHHHHHHHHHHHHHHHhCCcHHH
Confidence 345566555666666666777778888888999988888777666643
No 24
>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=58.73 E-value=9 Score=24.48 Aligned_cols=46 Identities=11% Similarity=0.126 Sum_probs=31.7
Q ss_pred HHHHHHHHhhHHhhHHhhcccCCCCh-hHHHHHHHHHHHHHHHHHhh
Q psy12172 15 CLGTMSMVGNGIVVYIFLCTKNLRTP-SNILVVNLAFSDFCMMFSMA 60 (84)
Q Consensus 15 ~~~~~g~~gN~~vl~~~~~~~~l~~~-~~~~l~nLa~~D~l~~~~~~ 60 (84)
+.+.++++.|.+.++.+.++.+.+.. -.+++...|+.|+..+..-.
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 45678899999999887655443333 34566667888888887543
No 25
>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=54.20 E-value=56 Score=20.93 Aligned_cols=40 Identities=13% Similarity=0.204 Sum_probs=27.1
Q ss_pred HHhhHHhhHHhhcccC----CCChhHHHHHHHHHHHHHHHHHhh
Q psy12172 21 MVGNGIVVYIFLCTKN----LRTPSNILVVNLAFSDFCMMFSMA 60 (84)
Q Consensus 21 ~~gN~~vl~~~~~~~~----l~~~~~~~l~nLa~~D~l~~~~~~ 60 (84)
++-...++..+.+.|+ .+++-+..+.+-+++|++..+...
T Consensus 9 lply~~il~~l~~~r~~~~~~~~~Fy~l~~~~~iaDi~~~~~~~ 52 (283)
T PF10323_consen 9 LPLYIFILYCLLKLRKRSKTFKSTFYTLLIQHCIADILSMLFYF 52 (283)
T ss_pred HHHHHHHHHHHHHcccCccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3334445544444333 568889999999999999887544
No 26
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=52.09 E-value=25 Score=17.10 Aligned_cols=19 Identities=16% Similarity=0.064 Sum_probs=11.7
Q ss_pred HHHHHHHHHhhHHhhHHhh
Q psy12172 14 ICLGTMSMVGNGIVVYIFL 32 (84)
Q Consensus 14 ~~~~~~g~~gN~~vl~~~~ 32 (84)
+++.+--++||+.++-...
T Consensus 9 IviVlgvIigNia~LK~sA 27 (55)
T PF11446_consen 9 IVIVLGVIIGNIAALKYSA 27 (55)
T ss_pred HHHHHHHHHhHHHHHHHhc
Confidence 3334444679999886544
No 27
>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=45.28 E-value=25 Score=23.13 Aligned_cols=27 Identities=11% Similarity=0.237 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHhhHHhhHHhhcccCCC
Q psy12172 12 TMICLGTMSMVGNGIVVYIFLCTKNLR 38 (84)
Q Consensus 12 ~~~~~~~~g~~gN~~vl~~~~~~~~l~ 38 (84)
..+++.++-++-=.++++.++|+||.+
T Consensus 259 ~aSiiaIliIVLIMvIIYLILRYRRKK 285 (299)
T PF02009_consen 259 IASIIAILIIVLIMVIIYLILRYRRKK 285 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444444445566666666533
No 28
>PHA03164 hypothetical protein; Provisional
Probab=45.13 E-value=39 Score=17.70 Aligned_cols=27 Identities=11% Similarity=0.210 Sum_probs=18.1
Q ss_pred hhcccCCCChhHHHHHHHHHHHHHHHHH
Q psy12172 31 FLCTKNLRTPSNILVVNLAFSDFCMMFS 58 (84)
Q Consensus 31 ~~~~~~l~~~~~~~l~nLa~~D~l~~~~ 58 (84)
.+++++ |+.+.+.+..||++-+++..+
T Consensus 50 lwnnrR-ktftFlvLtgLaIamILfiif 76 (88)
T PHA03164 50 LWNNRR-KTFTFLVLTGLAIAMILFIIF 76 (88)
T ss_pred HHHhhh-heeehHHHHHHHHHHHHHHHH
Confidence 344444 456777888888887776655
No 29
>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=44.41 E-value=55 Score=22.17 Aligned_cols=30 Identities=10% Similarity=0.228 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhcccCCCC
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTKNLRT 39 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~ 39 (84)
+..++++.++-++--.++++.+.|+||.++
T Consensus 311 ~IiaSiIAIvvIVLIMvIIYLILRYRRKKK 340 (353)
T TIGR01477 311 PIIASIIAILIIVLIMVIIYLILRYRRKKK 340 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 344555555555555566677777666543
No 30
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=43.83 E-value=30 Score=16.24 Aligned_cols=32 Identities=22% Similarity=0.114 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhcccCCCChh
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTKNLRTPS 41 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~ 41 (84)
..+++...++|+.|-.+-...=--.|++|+|.
T Consensus 10 ~~i~i~~lL~~~TgyaiYtaFGppSk~LrDPF 41 (46)
T PRK13183 10 LAITILAILLALTGFGIYTAFGPPSKELDDPF 41 (46)
T ss_pred HHHHHHHHHHHHhhheeeeccCCcccccCCch
Confidence 34455556666666443221111335566653
No 31
>PTZ00046 rifin; Provisional
Probab=42.27 E-value=65 Score=21.89 Aligned_cols=29 Identities=10% Similarity=0.243 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhcccCCC
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTKNLR 38 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~~l~ 38 (84)
+..++++.++-++--.++++.+.|+||.+
T Consensus 316 aIiaSiiAIvVIVLIMvIIYLILRYRRKK 344 (358)
T PTZ00046 316 AIIASIVAIVVIVLIMVIIYLILRYRRKK 344 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 33455555555555556667777766654
No 32
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=37.50 E-value=48 Score=15.34 Aligned_cols=32 Identities=25% Similarity=0.153 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhcccCCCChh
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTKNLRTPS 41 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~ 41 (84)
..+++...++|+.|-.+-...=--++++|+|.
T Consensus 7 ~~i~i~~~lv~~Tgy~iYtaFGppSk~LrDPf 38 (43)
T PF02468_consen 7 LAIFISCLLVSITGYAIYTAFGPPSKELRDPF 38 (43)
T ss_pred HHHHHHHHHHHHHhhhhhheeCCCccccCCcc
Confidence 34455566666666332221111355666663
No 33
>COG2164 Uncharacterized conserved protein [Function unknown]
Probab=35.73 E-value=21 Score=19.88 Aligned_cols=14 Identities=29% Similarity=0.496 Sum_probs=11.9
Q ss_pred ccccccccceeecC
Q psy12172 71 TWTLGKFCLRFLVR 84 (84)
Q Consensus 71 ~~~~~~~~C~~~~~ 84 (84)
.|+.|.+.|-++|+
T Consensus 72 YWpPGkAlClFFGk 85 (126)
T COG2164 72 YWPPGKALCLFFGK 85 (126)
T ss_pred ccCCCcEEEEEecC
Confidence 59999999998874
No 34
>PF10292 7TM_GPCR_Srab: Serpentine type 7TM GPCR receptor class ab chemoreceptor; InterPro: IPR019408 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. Srab is part of the Sra superfamily of chemoreceptors. The expression pattern of the srab genes is biologically intriguing. Of the six promoters successfully expressed in transgenic organisms, one was exclusively expressed in the tail phasmid neurons, two were exclusively expressed in a head amphid neuron, and two were expressed both in the head and tail neurons as well as a limited number of other cells [].
Probab=34.81 E-value=1.3e+02 Score=19.62 Aligned_cols=51 Identities=12% Similarity=0.014 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhh
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMA 60 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~ 60 (84)
..+-.+..+.|++.++..++...+++..|.-.-+.+....++.++.+....
T Consensus 20 ~~~~~~~s~~~~~~~~~~~~~~~~~~~~H~N~ril~~~~~~~~l~~~~~r~ 70 (324)
T PF10292_consen 20 LIFNLLLSIIAFPVIIYALWKIRNSKLFHFNTRILFIVHCFSFLIHCTGRI 70 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcchhchhHHHHHHHHHHHHHHHHHHHH
Confidence 344556667777777777777777777777777777777777777766543
No 35
>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=32.66 E-value=62 Score=17.48 Aligned_cols=16 Identities=19% Similarity=0.333 Sum_probs=7.9
Q ss_pred hhHHhh--cccCCCChhH
Q psy12172 27 VVYIFL--CTKNLRTPSN 42 (84)
Q Consensus 27 vl~~~~--~~~~l~~~~~ 42 (84)
++|.++ ++||-|.|.|
T Consensus 49 ilwfvCC~kRkrsRrPIY 66 (94)
T PF05393_consen 49 ILWFVCCKKRKRSRRPIY 66 (94)
T ss_pred HHHHHHHHHhhhccCCcc
Confidence 344443 3344566765
No 36
>CHL00020 psbN photosystem II protein N
Probab=32.59 E-value=42 Score=15.53 Aligned_cols=31 Identities=23% Similarity=0.157 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHhhHHhhHHhhcccCCCChh
Q psy12172 11 LTMICLGTMSMVGNGIVVYIFLCTKNLRTPS 41 (84)
Q Consensus 11 ~~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~ 41 (84)
.+++...++|+.|-.+-...=--.+++|+|.
T Consensus 8 ~i~i~~ll~~~Tgy~iYtaFGppSk~LrDPf 38 (43)
T CHL00020 8 AIFISGLLVSFTGYALYTAFGQPSKQLRDPF 38 (43)
T ss_pred HHHHHHHHHHhhheeeeeccCCchhccCCch
Confidence 3455555666665443221112335566653
No 37
>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=31.63 E-value=1.2e+02 Score=20.19 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=33.2
Q ss_pred HHHHHHHHhhHHhhHHhhcccCCCCh-hHHHHHHHHHHHHHHHHH
Q psy12172 15 CLGTMSMVGNGIVVYIFLCTKNLRTP-SNILVVNLAFSDFCMMFS 58 (84)
Q Consensus 15 ~~~~~g~~gN~~vl~~~~~~~~l~~~-~~~~l~nLa~~D~l~~~~ 58 (84)
+.+.++.+-|-+.++.+..+|+.+-- -.+++.--|+-|++.++.
T Consensus 13 ~~~~lsf~~Np~fiyli~~~~~~~~G~Yr~LL~~Fa~fn~~~S~~ 57 (310)
T PF10319_consen 13 IFGILSFIVNPIFIYLIFTEKKSQFGNYRYLLLFFAIFNLIYSVV 57 (310)
T ss_pred HHHHHHHHHhhhhheeEEcccccccccHHHHHHHHHHHHHHHHHH
Confidence 44667788999999888877776533 346777888889988875
No 38
>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=27.74 E-value=1.7e+02 Score=18.67 Aligned_cols=42 Identities=19% Similarity=0.361 Sum_probs=26.0
Q ss_pred HHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHH
Q psy12172 17 GTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFS 58 (84)
Q Consensus 17 ~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~ 58 (84)
..+++..|.+.++.+....+.-...++.+.-|-..|++..+.
T Consensus 80 ~~lsl~~~~~~L~Ff~vpS~~~r~l~~vl~~Lllvdlilil~ 121 (232)
T PF10329_consen 80 TLLSLITNLFNLWFFGVPSKLERILNIVLAGLLLVDLILILA 121 (232)
T ss_pred HHHHHHHHHHHHHheecCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344556666666554443333345677777777788877766
No 39
>KOG4564|consensus
Probab=27.44 E-value=2.3e+02 Score=20.15 Aligned_cols=55 Identities=20% Similarity=0.113 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhhHHhhHHhhcccCCCChhHHHHHHHHHHHHHHHHHhhHHHHHH
Q psy12172 12 TMICLGTMSMVGNGIVVYIFLCTKNLRTPSNILVVNLAFSDFCMMFSMAPTMVLN 66 (84)
Q Consensus 12 ~~~~~~~~g~~gN~~vl~~~~~~~~l~~~~~~~l~nLa~~D~l~~~~~~p~~~~~ 66 (84)
+|.+-.-+++..=.+.+.++..-|++|...|+.-.||-.+=++-+.........-
T Consensus 150 lytvGyslSl~sL~vAl~If~~FR~L~CtRn~IH~nLF~SfiLra~~~~i~~~~l 204 (473)
T KOG4564|consen 150 LYTVGYSLSLVSLLVALIIFLYFRSLHCTRNYIHMNLFASFILRAASVLIKDLVL 204 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444444443444555566688999999999999999888888765555433
No 40
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=26.96 E-value=69 Score=18.97 Aligned_cols=26 Identities=12% Similarity=0.101 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHhhHHhhHHhhccc
Q psy12172 10 GLTMICLGTMSMVGNGIVVYIFLCTK 35 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN~~vl~~~~~~~ 35 (84)
.+++.+++++|+++-+.+..-.+.++
T Consensus 65 GIVfgiVfimgvva~i~icvCmc~kn 90 (155)
T PF10873_consen 65 GIVFGIVFIMGVVAGIAICVCMCMKN 90 (155)
T ss_pred eeehhhHHHHHHHHHHHHHHhhhhhc
Confidence 45678888888888776655444433
No 41
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=24.94 E-value=80 Score=13.97 Aligned_cols=15 Identities=13% Similarity=0.222 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHhh
Q psy12172 10 GLTMICLGTMSMVGN 24 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN 24 (84)
..++..+++.|.+.|
T Consensus 12 V~ffv~LFifGflsn 26 (36)
T PF02532_consen 12 VIFFVSLFIFGFLSN 26 (36)
T ss_dssp HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHhccccCC
Confidence 344455555555544
No 42
>PRK13664 hypothetical protein; Provisional
Probab=22.84 E-value=1.2e+02 Score=15.06 Aligned_cols=15 Identities=13% Similarity=0.080 Sum_probs=10.4
Q ss_pred HHHHHHHHHHhhHHh
Q psy12172 13 MICLGTMSMVGNGIV 27 (84)
Q Consensus 13 ~~~~~~~g~~gN~~v 27 (84)
.+++.++|++-|++-
T Consensus 11 lill~lvG~i~N~iK 25 (62)
T PRK13664 11 LVLVFLVGVLLNVIK 25 (62)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456677788888753
No 43
>CHL00024 psbI photosystem II protein I
Probab=22.69 E-value=50 Score=14.60 Aligned_cols=15 Identities=13% Similarity=0.222 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHhh
Q psy12172 10 GLTMICLGTMSMVGN 24 (84)
Q Consensus 10 ~~~~~~~~~~g~~gN 24 (84)
..++..+++.|.+.|
T Consensus 12 V~ffvsLFifGFlsn 26 (36)
T CHL00024 12 VIFFVSLFIFGFLSN 26 (36)
T ss_pred HHHHHHHHHccccCC
Confidence 334445555555443
No 44
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=22.66 E-value=1.5e+02 Score=16.39 Aligned_cols=27 Identities=15% Similarity=-0.054 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHhhHHhhHHhhccc
Q psy12172 9 LGLTMICLGTMSMVGNGIVVYIFLCTK 35 (84)
Q Consensus 9 ~~~~~~~~~~~g~~gN~~vl~~~~~~~ 35 (84)
+..++.+..++.+..|++.-.-..+++
T Consensus 3 Ll~il~llLll~l~asl~~wr~~~rq~ 29 (107)
T PF15330_consen 3 LLGILALLLLLSLAASLLAWRMKQRQK 29 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 345566666777777776554443333
No 45
>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=21.70 E-value=53 Score=15.04 Aligned_cols=21 Identities=24% Similarity=0.438 Sum_probs=11.2
Q ss_pred HHHHHHHHHhhHHhhHHhhcc
Q psy12172 14 ICLGTMSMVGNGIVVYIFLCT 34 (84)
Q Consensus 14 ~~~~~~g~~gN~~vl~~~~~~ 34 (84)
.+..++|+.|-.++-..++|+
T Consensus 12 lVF~lVglv~i~iva~~iYRK 32 (43)
T PF08114_consen 12 LVFCLVGLVGIGIVALFIYRK 32 (43)
T ss_pred eehHHHHHHHHHHHHHHHHHH
Confidence 344555666655555554443
No 46
>PRK02655 psbI photosystem II reaction center I protein I; Provisional
Probab=20.28 E-value=58 Score=14.55 Aligned_cols=14 Identities=7% Similarity=0.192 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHhh
Q psy12172 11 LTMICLGTMSMVGN 24 (84)
Q Consensus 11 ~~~~~~~~~g~~gN 24 (84)
.++..+++.|.+.|
T Consensus 13 ~ffvsLFiFGflsn 26 (38)
T PRK02655 13 FFFVGLFVFGFLSS 26 (38)
T ss_pred HHHHHHHHcccCCC
Confidence 34444555555433
Done!