Query psy2912
Match_columns 232
No_of_seqs 238 out of 1949
Neff 8.9
Searched_HMMs 46136
Date Fri Aug 16 20:47:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2912.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2912hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4219|consensus 99.9 1.8E-24 3.9E-29 183.8 9.2 135 71-210 28-171 (423)
2 PHA03234 DNA packaging protein 99.9 1.5E-22 3.2E-27 174.9 9.5 129 76-211 30-169 (338)
3 KOG4220|consensus 99.9 7.8E-24 1.7E-28 179.9 -0.8 145 77-224 29-187 (503)
4 PHA02834 chemokine receptor-li 99.8 4.9E-21 1.1E-25 164.6 10.3 130 76-212 26-164 (323)
5 PHA02638 CC chemokine receptor 99.8 1.7E-20 3.6E-25 166.3 12.1 129 77-211 97-234 (417)
6 PHA03087 G protein-coupled che 99.8 7.9E-20 1.7E-24 157.6 11.3 134 75-213 37-179 (335)
7 PHA03235 DNA packaging protein 99.8 1.2E-19 2.5E-24 160.4 10.1 129 75-209 29-168 (409)
8 PF00001 7tm_1: 7 transmembran 99.8 6E-19 1.3E-23 144.1 6.6 130 95-227 1-143 (257)
9 KOG2087|consensus 99.5 1.3E-13 2.9E-18 116.5 7.5 139 79-221 25-180 (363)
10 PF10320 7TM_GPCR_Srsx: Serpen 99.3 3.3E-12 7.2E-17 106.5 4.0 92 90-183 2-102 (257)
11 PF10328 7TM_GPCR_Srx: Serpent 98.8 1.8E-08 4E-13 84.6 8.4 117 88-208 3-130 (274)
12 PF11710 Git3: G protein-coupl 98.4 6.4E-06 1.4E-10 66.1 13.0 101 107-207 30-145 (201)
13 PF10324 7TM_GPCR_Srw: Serpent 98.4 1.8E-06 3.8E-11 74.0 8.8 120 87-211 5-146 (318)
14 PF05462 Dicty_CAR: Slime mold 97.9 5E-05 1.1E-09 64.7 8.0 135 80-225 8-151 (303)
15 PF10321 7TM_GPCR_Srt: Serpent 97.6 0.0016 3.4E-08 55.9 12.2 129 75-209 29-172 (313)
16 PF10316 7TM_GPCR_Srbc: Serpen 97.5 0.00052 1.1E-08 57.7 8.6 102 79-181 6-120 (273)
17 PF10323 7TM_GPCR_Srv: Serpent 97.2 0.00022 4.8E-09 60.3 2.5 117 90-209 6-140 (283)
18 PF05296 TAS2R: Mammalian tast 97.1 0.0028 6.2E-08 54.1 8.3 100 77-176 5-116 (303)
19 PF10292 7TM_GPCR_Srab: Serpen 96.8 0.016 3.4E-07 50.0 10.8 102 79-180 17-134 (324)
20 PF00002 7tm_2: 7 transmembran 95.4 0.0089 1.9E-07 49.0 1.9 92 84-176 6-106 (242)
21 PF10317 7TM_GPCR_Srd: Serpent 95.2 0.064 1.4E-06 45.5 6.7 49 83-131 3-52 (292)
22 PF03402 V1R: Vomeronasal orga 94.9 0.082 1.8E-06 44.2 6.4 94 108-205 6-111 (265)
23 PF02118 Srg: Srg family chemo 92.8 0.39 8.5E-06 40.0 6.7 98 88-185 7-124 (275)
24 PF10326 7TM_GPCR_Str: Serpent 91.6 0.19 4.1E-06 42.7 3.5 48 85-132 5-53 (307)
25 PF02117 7TM_GPCR_Sra: Serpent 91.6 2.6 5.7E-05 36.4 10.5 100 78-177 20-136 (328)
26 PF06681 DUF1182: Protein of u 86.1 3.6 7.8E-05 33.0 6.7 87 82-174 44-149 (226)
27 PF10318 7TM_GPCR_Srh: Serpent 77.9 5.9 0.00013 33.4 5.7 96 80-176 5-119 (302)
28 KOG4564|consensus 77.3 32 0.00069 31.4 10.2 76 83-158 149-236 (473)
29 PF10327 7TM_GPCR_Sri: Serpent 76.5 9.1 0.0002 32.6 6.4 99 79-179 9-127 (303)
30 PF10319 7TM_GPCR_Srj: Serpent 75.7 6.6 0.00014 33.7 5.2 95 84-178 10-124 (310)
31 PF02101 Ocular_alb: Ocular al 74.8 21 0.00046 31.5 8.1 92 80-171 28-145 (405)
32 PF04789 DUF621: Protein of un 72.1 17 0.00036 30.7 6.6 126 77-206 11-151 (305)
33 KOG4193|consensus 63.3 50 0.0011 31.3 8.6 79 90-176 331-420 (610)
34 PF03125 Sre: C. elegans Sre G 59.3 49 0.0011 28.9 7.6 46 78-123 26-71 (365)
35 PF03383 Serpentine_r_xa: Caen 50.0 7.1 0.00015 29.9 0.7 46 162-210 64-109 (153)
36 PF02076 STE3: Pheromone A rec 49.5 52 0.0011 27.9 5.9 80 91-175 3-91 (283)
37 PF09882 DUF2109: Predicted me 48.3 38 0.00082 22.6 3.8 49 89-137 4-52 (78)
38 PF01102 Glycophorin_A: Glycop 40.4 25 0.00055 25.8 2.3 17 92-108 76-93 (122)
39 PF10329 DUF2417: Region of un 39.0 82 0.0018 25.9 5.3 15 156-170 141-155 (232)
40 PF01534 Frizzled: Frizzled/Sm 36.9 2.8E+02 0.0061 24.0 9.8 140 82-226 12-175 (328)
41 PF11446 DUF2897: Protein of u 31.8 48 0.001 20.7 2.2 21 83-103 6-26 (55)
42 TIGR01477 RIFIN variant surfac 27.8 56 0.0012 28.6 2.7 31 81-111 310-340 (353)
43 PF15330 SIT: SHP2-interacting 26.1 79 0.0017 22.6 2.8 29 80-108 2-30 (107)
44 PF14362 DUF4407: Domain of un 25.8 1.7E+02 0.0037 24.7 5.3 26 149-174 46-71 (301)
45 PTZ00046 rifin; Provisional 25.6 65 0.0014 28.3 2.7 32 80-111 314-345 (358)
46 PF02532 PsbI: Photosystem II 25.0 1.1E+02 0.0025 17.1 2.7 17 80-96 10-26 (36)
47 PF02009 Rifin_STEVOR: Rifin/s 21.1 62 0.0014 27.7 1.7 30 81-110 256-285 (299)
No 1
>KOG4219|consensus
Probab=99.91 E-value=1.8e-24 Score=183.75 Aligned_cols=135 Identities=22% Similarity=0.387 Sum_probs=116.3
Q ss_pred hcCCCchhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccc
Q psy2912 71 YVKPTSSEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVL 150 (232)
Q Consensus 71 ~~~~~~~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~ 150 (232)
...+.+.+.+..++|+++.+++++||++|++++..+|++|+.+|+|++|||+||++++++..|+...+.....|.+|.+.
T Consensus 28 f~lp~~~~~~wai~yg~l~~vAv~GN~iVlwIil~hrrMRtvtnyfL~NLAfADl~~s~Fn~~f~f~yal~~~W~~G~f~ 107 (423)
T KOG4219|consen 28 FVLPAWQQALWAIAYGLLVFVAVVGNLIVLWIILAHRRMRTVTNYFLVNLAFADLSMSIFNTVFNFQYALHQEWYFGSFY 107 (423)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHhcCceEEEEEeehhehhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhccccccce
Confidence 34566777899999999999999999999999999999999999999999999999999999999999888999999999
Q ss_pred cchhhHHHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccc
Q psy2912 151 CRVVLYSQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSS 210 (232)
Q Consensus 151 C~~~~~~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~ 210 (232)
|++..|+.. +.+||+|||.||+||++.+..+ ++. .+++..+|+++.++++|..+.
T Consensus 108 C~f~nf~~itav~vSVfTlvAiA~DRy~AIi~Pl~~r~s~--r~s---k~iIllIW~lA~l~a~P~~l~ 171 (423)
T KOG4219|consen 108 CRFVNFFPITAVFVSVFTLVAIAIDRYMAIIHPLQPRPSR--RSS---KIIILLIWALALLLALPQLLY 171 (423)
T ss_pred eeeccccchhhhhHhHHHHHHHHHHHHHHHhhhcccCCCC--cce---eehhHHHHHHHHHHhccceee
Confidence 999998764 4599999999999999866433 222 333447898998999886654
No 2
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.88 E-value=1.5e-22 Score=174.92 Aligned_cols=129 Identities=14% Similarity=0.192 Sum_probs=99.7
Q ss_pred chhHHHHHHHHHHHHHHhhhhhhhhhhh--hccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccch
Q psy2912 76 SSEWVLIALQSIVFVVGLIGNALVCIAV--YRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRV 153 (232)
Q Consensus 76 ~~~~~~~~~~~~i~~~gi~gN~lvi~~~--~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~ 153 (232)
..+.+..++|.+++++|++||++|++++ .+++++|+++|+|+.|||+||+++++ .+|+.+.+. .+.|++|+..||+
T Consensus 30 ~~~~~~~~~y~~vf~~gl~gN~lvl~v~~~~~~~~~rt~tn~fi~NLAvaDLL~~l-~lp~~~~~~-~~~w~fG~~lCk~ 107 (338)
T PHA03234 30 KAQILESAINGIMLTLIIPMIIIVICTLIIYHKVAKHNATSFYLITLFASDFLHML-CVFFLTLNR-EALFNFNQAFCQC 107 (338)
T ss_pred HHHHHhhHHHHHHHHHHhhhHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHH-HHHHHHHHH-hCCccCchhHHHH
Confidence 3467789999999999999999999854 45566789999999999999999976 667666543 4579999999999
Q ss_pred hhHHHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccce
Q psy2912 154 VLYSQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSY 211 (232)
Q Consensus 154 ~~~~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~ 211 (232)
..++.. +++||+|||+||++|.+++.. + ++. ...+.++|+.+.++++|++..+
T Consensus 108 ~~~~~~~~~~~Si~~L~~ISiDRY~aIv~p~~~~~~--~-~~~--~~~i~~~Wi~s~l~~~P~l~~~ 169 (338)
T PHA03234 108 VLFIYHASCSYSICMLAIIATIRYKTLHRRKKNDKK--N-NHI--GRNIGILFLASAMCAIPAALFV 169 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHeeeechhhhhhh--h-hhH--HHHHHHHHHHHHHHHhhHhHee
Confidence 987764 348999999999999875421 1 111 1233345888888888887543
No 3
>KOG4220|consensus
Probab=99.87 E-value=7.8e-24 Score=179.95 Aligned_cols=145 Identities=17% Similarity=0.300 Sum_probs=123.2
Q ss_pred hhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhH
Q psy2912 77 SEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLY 156 (232)
Q Consensus 77 ~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~ 156 (232)
...++.++-..+.++.++||++|++.+..+|++++..|+|+++||+|||+.|.+.+|+...+.+.+.|++|...|.+...
T Consensus 29 q~v~i~~v~~~lsLVTv~GNlLVmiSfKvnrqLqTVnNYfLfSLAcADliIG~~SMnl~t~Y~lmg~W~LG~~~CdlWLa 108 (503)
T KOG4220|consen 29 QVVFIVVVTGSLSLVTVVGNLLVMISFKVNRQLQTVNNYFLFSLACADLIIGAFSMNLYTTYTLMGYWPLGPLVCDLWLA 108 (503)
T ss_pred EEEeeehhhhHHHHHhhhccEEEEEEEEecceeeeecceeehHHHHhhhhhheeechHHHHHHHHcccccchHHHHHHHH
Confidence 34566778889999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred HHHH---------HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccceee-----cCCCCceee
Q psy2912 157 SQVI---------FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYYM-----SKKQGRKSA 222 (232)
Q Consensus 157 ~~~~---------~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~~-----~~~~~~c~~ 222 (232)
+.++ +.|++|||+.|.+|+.|+.+|+++|. .+.+.+.|++++++-.|.++.|.. ...++.|++
T Consensus 109 lDYvaSNASVmNLLiISFDRYFsVTrPLtYrakRTtkrA---~~MI~~AW~iSfiLWaPaIl~WqyivGkrTv~~~eC~i 185 (503)
T KOG4220|consen 109 LDYVASNASVMNLLIISFDRYFSVTRPLTYRAKRTTKRA---GLMIGAAWVLSFVLWAPAILFWQYIVGKRTVPDGECYI 185 (503)
T ss_pred HHHHhhhhhhhhhheeeeecceeecccccccccccchHH---HHHHHHHHHHHHHHHHHHHHhhHhheeeeecCCCceEE
Confidence 7764 37999999999999999988866554 555567788888887776666633 455666755
Q ss_pred cC
Q psy2912 223 SI 224 (232)
Q Consensus 223 ~~ 224 (232)
++
T Consensus 186 QF 187 (503)
T KOG4220|consen 186 QF 187 (503)
T ss_pred Ee
Confidence 44
No 4
>PHA02834 chemokine receptor-like protein; Provisional
Probab=99.85 E-value=4.9e-21 Score=164.59 Aligned_cols=130 Identities=22% Similarity=0.455 Sum_probs=103.2
Q ss_pred chhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhh
Q psy2912 76 SSEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVL 155 (232)
Q Consensus 76 ~~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~ 155 (232)
....+..+++.+++++|++||+++++++.++|+ +++.|+++.|||++|++. ++.+|+.+... .++|.+|+..|++..
T Consensus 26 ~~~~~~~~~~~li~v~~~~gN~lVi~vi~~~~~-~~~~n~~i~nLAiaDll~-~~~lP~~i~~~-~~~w~~g~~~C~~~~ 102 (323)
T PHA02834 26 DVNYFVIVFYILLFIFGLIGNVLVIAVLIVKRF-MFVVDVYLFNIAMSDLML-VFSFPFIIHND-LNEWIFGEFMCKLVL 102 (323)
T ss_pred chhhhHHHHHHHHHHHHHhhHHHHHHHHHhccc-cchhhhhhHHHHHHHHHH-HHHHHHHHHHH-cCCcCCcchHHHhHH
Confidence 345678899999999999999999998877665 467899999999999987 55899877654 357999999999877
Q ss_pred HHHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhcccccee
Q psy2912 156 YSQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYY 212 (232)
Q Consensus 156 ~~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~ 212 (232)
++.. +++||+|||.+|++|++++.. +.+.+..++..+|+++.++++|++++++
T Consensus 103 ~~~~~~~~~Si~tL~~IsidRY~aI~~P~~~~~~----~~~~~~~~i~~iWi~s~l~~~P~~~~~~ 164 (323)
T PHA02834 103 GVYFVGFFSNMFFVTLISIDRYILVVNATKIKNK----SISLSVLLSVAAWVCSVILSMPAMVLYY 164 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhheeCchhccCC----ccchHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 5442 458999999999999875432 2234455667889999999998877654
No 5
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=99.84 E-value=1.7e-20 Score=166.30 Aligned_cols=129 Identities=26% Similarity=0.468 Sum_probs=105.7
Q ss_pred hhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhH
Q psy2912 77 SEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLY 156 (232)
Q Consensus 77 ~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~ 156 (232)
......++|.+++++|++||+++++++. +|++|+++++++.|||++|++.+ +.+|+.+... .++|.+|+..|++..+
T Consensus 97 ~~~~l~~~y~lvfvlgliGN~LVl~il~-~k~lrt~t~i~llnLAisDLl~~-l~lPf~i~~~-~~~W~fg~~~Ck~~~~ 173 (417)
T PHA02638 97 ISEYIKIFYIIIFILGLFGNAAIIMILF-CKKIKTITDIYIFNLAISDLIFV-IDFPFIIYNE-FDQWIFGDFMCKVISA 173 (417)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH-hccCCCHhHHHHHHHHHHHHHHH-HHHHHHHHHH-hccccccccchhhHHH
Confidence 4567788999999999999999998765 47789999999999999999985 4889887654 4689999999999865
Q ss_pred HHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccce
Q psy2912 157 SQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSY 211 (232)
Q Consensus 157 ~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~ 211 (232)
+.. +++|++|||+||+||.++++.+ +++.+.+++..+|++++++++|+++.+
T Consensus 174 l~~~~~~~Si~~L~~isiDRYlaIv~p~~~~~~~---~~~~~~i~~~~iW~~s~l~slP~~~~~ 234 (417)
T PHA02638 174 SYYIGFFSNMFLITLMSIDRYFAILYPISFQKYR---TFNIGIILCIISWILSLIITSPAYFIF 234 (417)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccccccee---cHhhhHhhHhHHHHHHHHHHHHHHHHh
Confidence 432 3489999999999999865443 334445677788999999999998753
No 6
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=99.82 E-value=7.9e-20 Score=157.61 Aligned_cols=134 Identities=22% Similarity=0.376 Sum_probs=108.9
Q ss_pred CchhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchh
Q psy2912 75 TSSEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVV 154 (232)
Q Consensus 75 ~~~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~ 154 (232)
.....+..+++.+++++|++||+++++++.++ ++|++.++++.|||++|++.++ ..|..+.....+.|.+|+..|++.
T Consensus 37 ~~~~~~~~~~~~~i~~~gl~gN~lvl~~~~~~-~~~~~~~~ll~~laisDll~~~-~~~~~~~~~~~~~~~~~~~~C~~~ 114 (335)
T PHA03087 37 DTNSTILIVVYSTIFFFGLVGNIIVIYVLTKT-KIKTPMDIYLLNLAVSDLLFVM-TLPFQIYYYILFQWSFGEFACKIV 114 (335)
T ss_pred cchhhHHHHHHHHHHHHHHHhhHhEEeeehhc-cccCchHHHHHHHHHHHHHHHH-hHHHHHHHHhCCCCCCCcHHHHHH
Confidence 34456788899999999999999999998888 8899999999999999998866 677777666667899999999999
Q ss_pred hHHHHH---------HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccceee
Q psy2912 155 LYSQVI---------FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYYM 213 (232)
Q Consensus 155 ~~~~~~---------~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~~ 213 (232)
.++... ++||+|||++|++|++++...+. +.+.+++.++|+++++.++|++..+..
T Consensus 115 ~~~~~~~~~~S~~~l~~iaidRy~aI~~p~~~~~~~~~---~~~~~~~~~iWl~~~~~~~p~~~~~~~ 179 (335)
T PHA03087 115 SGLYYIGFYNSMNFITVMSVDRYIAIVHPVKSNKINTV---KYGYIVSLVIWIISIIETTPILFVYTT 179 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccch---hhhHHHHHHHHHHHHHHhccHhheeee
Confidence 887543 47999999999999987665433 334555667898888888887776543
No 7
>PHA03235 DNA packaging protein UL33; Provisional
Probab=99.81 E-value=1.2e-19 Score=160.44 Aligned_cols=129 Identities=14% Similarity=0.114 Sum_probs=96.2
Q ss_pred CchhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCC--CcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccc
Q psy2912 75 TSSEWVLIALQSIVFVVGLIGNALVCIAVYRNKSM--RTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCR 152 (232)
Q Consensus 75 ~~~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l--~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~ 152 (232)
...+.+..+++.+++++|++||++|++++.++++. ++..++|+.|||++|++. ++.+|+.+... ...|..|+..|+
T Consensus 29 ~~~~~~~~~~~~li~vvGiigN~lVL~~~~~~~r~~~~~~~~~~I~NLAvsDLl~-l~~lP~~i~~~-~~~~~~g~~~Ck 106 (409)
T PHA03235 29 SAARTTETFINLLIISVGGPLNLIVLVTQLLANRVHGFSTPTLYMTNLYLANLLT-VFVLPFIMLSN-QGLLSGSVAGCK 106 (409)
T ss_pred hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCccHHHHHHHHHHHHHH-HHHHHHHHHhc-CccccCCCCeeh
Confidence 33567889999999999999999999875443332 356789999999999987 55888876532 223444578999
Q ss_pred hhhHHHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhcccc
Q psy2912 153 VVLYSQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKS 209 (232)
Q Consensus 153 ~~~~~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~ 209 (232)
+..++.. +++||+|||++|++|.+++.. +++.+..++.++|++++++++|+.+
T Consensus 107 ~~~~l~~~~~~~Si~tL~~ISiDRY~aI~~p~~~~~~----~~~~a~~ii~~iWi~sll~s~P~~~ 168 (409)
T PHA03235 107 FASLLYYASCTVGFATVALIAADRYRVIHQRTRARSS----AYRSTYKILGLTWFASLICSGPAPV 168 (409)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHeechhhccCc----ccchhhhhHHHHHHHHHHHHHHHHH
Confidence 9987653 348999999999999764332 2333455567889999999998654
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=99.77 E-value=6e-19 Score=144.06 Aligned_cols=130 Identities=24% Similarity=0.326 Sum_probs=104.7
Q ss_pred hhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHHH---------HHHHH
Q psy2912 95 GNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQVI---------FIMYL 165 (232)
Q Consensus 95 gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~~---------~~iai 165 (232)
||+++++++.++|++|++.++++.|||++|++.++...|..+.....+.|..+...|++..++... +++++
T Consensus 1 GN~lvi~~~~~~~~~~~~~~~~l~~Lav~Dll~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~s~~~~~~is~ 80 (257)
T PF00001_consen 1 GNILVILVILRSKRLRTPSNILLLNLAVADLLVGLFCIPFYIYSLLFDDWIFSSFLCRIFGFLFYFSSFSSIFSLVAISI 80 (257)
T ss_dssp HHHHHHHHHHHSGGG-SHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHSSCTSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchhehhhhhhhccCCChhHHHHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 899999999999999999999999999999999998888888777768899999999999877642 48999
Q ss_pred HHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccceee-cCC---CCceeecCCCc
Q psy2912 166 DYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYYM-SKK---QGRKSASIPTQ 227 (232)
Q Consensus 166 dRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~~-~~~---~~~c~~~~~~~ 227 (232)
|||++|++|+++++..++ +.+..++..+|+.+.++++|+.+++.. ... ...|..+.+..
T Consensus 81 dRy~~i~~p~~~~~~~~~---~~~~~~i~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~ 143 (257)
T PF00001_consen 81 DRYLAICHPLRYRRIRTR---RRARIIIILIWIISFLISLPPLFFSWVYFVSDGSQSFCFIDFSSS 143 (257)
T ss_dssp HHHHHHHSHHTHHHHSCH---HHHHHHHHHHHHHHHHHHHHHHHTCEEEEESTCCCEEEEESCSSS
T ss_pred cccccccccccccccccc---ccccccccccccccccccccccccccccccccccccccccccccc
Confidence 999999999998877643 334556678899999999999776332 222 23477765543
No 9
>KOG2087|consensus
Probab=99.46 E-value=1.3e-13 Score=116.52 Aligned_cols=139 Identities=17% Similarity=0.164 Sum_probs=106.3
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhc--------cceeccccc
Q psy2912 79 WVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVT--------ETWFMGLVL 150 (232)
Q Consensus 79 ~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~--------~~w~~~~~~ 150 (232)
.++.+..+++.+++++||++|+......+...++..+++.|||++|+++++...-+....... -.|. +...
T Consensus 25 ~~lRi~vW~i~~lAi~gN~~Vl~~~~~~~~~~~~~~~li~~la~ad~~mGiYl~~ia~vD~~~~gey~~~ai~W~-tg~g 103 (363)
T KOG2087|consen 25 WILRISVWVIALLAIVGNLLVLLTRFTSRYELNSHRFLICNLAFADLLMGIYLGLIASVDAKTRGEYYKHAIDWQ-TGLG 103 (363)
T ss_pred ceeeehhhhhhhHHhccCeeeeeeeeehhhhccchHHHHHHHHHHHHHcchHHHHHHHhhHHHHHHHHHHHHhhh-hcCC
Confidence 355667889999999999999998877777778999999999999999988544444332211 1354 5689
Q ss_pred cchhhHHHHH---------HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccceeecCCCCcee
Q psy2912 151 CRVVLYSQVI---------FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYYMSKKQGRKS 221 (232)
Q Consensus 151 C~~~~~~~~~---------~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~~~~~~~~c~ 221 (232)
|++.+|+..+ +.+++||++.|++|++-.+.. +.+.+..+....|+.+.+.++.|++|-.......-|.
T Consensus 104 C~~aGflavFASElSv~~LT~itlEr~l~i~~p~~~~~~~---~lr~~~~ill~~wl~~~l~A~~Pl~g~s~Y~~~~vCl 180 (363)
T KOG2087|consen 104 CPVAGFLAVFASELSVFLLTLITLERWLSITYPFRLDRKA---KLRPLVLILLLGWLFAFLMALLPLFGISSYGASSVCL 180 (363)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHhheeccccCCCcc---cccHHHHHHHHHHHHHHHHHhccccCCCCCcccceee
Confidence 9999988764 389999999999999865543 4444667777899999999999999854444444453
No 10
>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=99.26 E-value=3.3e-12 Score=106.47 Aligned_cols=92 Identities=22% Similarity=0.297 Sum_probs=74.2
Q ss_pred HHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHH---------H
Q psy2912 90 VVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQV---------I 160 (232)
Q Consensus 90 ~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~---------~ 160 (232)
++|++||+.++.++.++|++|++.++++..+|++|++..+..+|....... +-......|-...+... +
T Consensus 2 ~ig~~gN~~~i~~~~~~~~Lrs~~~~li~~~~~~d~~~~~~~~~~~~~~~~--~~~i~~~~Cf~~~~~~~f~~~~qs~~~ 79 (257)
T PF10320_consen 2 IIGLFGNLLLIILIFRNKSLRSPCYILICILCFADLICLLGTLPFMLFLFR--DHQITRSECFWQIFFYIFFQCAQSVIM 79 (257)
T ss_pred EEEEEccHHHHHHHHhccccccchHHHHHHHHHHHHHHHhhHHHHHHHHHh--heeccHHHHHHHHHHHHHHHHHHHHHH
Confidence 579999999999999999999999999999999999998888887764432 22345567766555443 2
Q ss_pred HHHHHHHHHHHHhccccccccce
Q psy2912 161 FIMYLDYYNTMIKLTNRKQSKYI 183 (232)
Q Consensus 161 ~~iaidRy~aI~~P~~~~~~~~~ 183 (232)
.+|++||++||+.|.+|+...+.
T Consensus 80 l~i~iDr~iaV~~P~~Y~~~~~~ 102 (257)
T PF10320_consen 80 LAIAIDRLIAVCFPLRYRTISTR 102 (257)
T ss_pred HHHHhhheeeEeehhhhhhcccc
Confidence 38999999999999998877644
No 11
>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=98.81 E-value=1.8e-08 Score=84.63 Aligned_cols=117 Identities=20% Similarity=0.194 Sum_probs=75.1
Q ss_pred HHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhh-ccceeccc----cccchhhHHH----
Q psy2912 88 VFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDV-TETWFMGL----VLCRVVLYSQ---- 158 (232)
Q Consensus 88 i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~-~~~w~~~~----~~C~~~~~~~---- 158 (232)
+.++|++.|.++++.+.+.+++|++.+.+-.+.|++|.+.++..+ ....... .+.-.... ..+.......
T Consensus 3 ~s~~G~~~N~~v~~~~~~~~~~~~sF~~l~~~~a~~n~i~~~~~l-~~~~P~~~~~~~~~~~~~~s~~~g~~~~~~y~~~ 81 (274)
T PF10328_consen 3 ISIIGIILNWLVFIIIFKLKSLRNSFGILCASQAIANIIICLIFL-FWVVPMTLLDISFLPSSLNSIIFGFIGMFCYFIG 81 (274)
T ss_pred eeHHHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHHHH-HHHHHhhhcccccCchHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999999999999999999999877432 2222111 11111112 1111111111
Q ss_pred HH--HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccc
Q psy2912 159 VI--FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPK 208 (232)
Q Consensus 159 ~~--~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~ 208 (232)
.. .+||++|++||..|.+|++..+.+.... ++.+.|+++.....++.
T Consensus 82 ~~~~~liaiNRf~ai~fP~~y~~~fs~~~T~~---~i~~~~~~~~~~~~~~~ 130 (274)
T PF10328_consen 82 PLSHLLIAINRFCAIFFPFKYKKIFSFKNTII---LIAFIWLLSIIISTILY 130 (274)
T ss_pred HHHHHHHHHHHHheeeeHHHHHhHcCccceeh---hhhHHHHHHHHHHHHhh
Confidence 11 3899999999999999887764444433 34455666654544433
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=98.44 E-value=6.4e-06 Score=66.14 Aligned_cols=101 Identities=12% Similarity=0.169 Sum_probs=66.6
Q ss_pred CCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHHH---------HHHHHHHHHHHHhcccc
Q psy2912 107 KSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQVI---------FIMYLDYYNTMIKLTNR 177 (232)
Q Consensus 107 ~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~~---------~~iaidRy~aI~~P~~~ 177 (232)
+++|...+.++.||.++|++.++..+...+.....+.-..+...|..++++... .+||+.-|+.|.+|-..
T Consensus 30 ~r~~~fR~~LIl~L~~aD~~qal~~~i~~~~~l~~~~i~~~s~~C~aqGf~~q~g~~~sd~~ilaIAihT~l~v~~~~~~ 109 (201)
T PF11710_consen 30 YRRRSFRHQLILNLLLADFIQALAFLISPIRWLARGGIIAPSPFCQAQGFFLQVGDEASDLWILAIAIHTFLIVFRPNWK 109 (201)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeeCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 444677788999999999999986665455555555555568999999998753 38999999999999221
Q ss_pred ccccc------eeeeeeeehhHHHHHHHHHHHhhcc
Q psy2912 178 KQSKY------IHKKTIGTFLCKEESFLTTGISLYP 207 (232)
Q Consensus 178 ~~~~~------~~~~~~~~~~~~~iw~~~~~~~~~p 207 (232)
++..+ .+.+.....+++++|++...++..+
T Consensus 110 ~~~~~~~~~gl~~~~~~v~~~~~~~~~~~~~la~i~ 145 (201)
T PF11710_consen 110 RKRSKNVEGGLYPYRYWVWVIWILVPLLLASLAFIG 145 (201)
T ss_pred cccccccccceEEeeeeeehHHHHHHHHHHHHHHhc
Confidence 11100 1122233344446677666555544
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=98.38 E-value=1.8e-06 Score=74.01 Aligned_cols=120 Identities=18% Similarity=0.128 Sum_probs=77.8
Q ss_pred HHHHHHhhhhhhhhhhhhccCCCCc-chhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccc--------hh---
Q psy2912 87 IVFVVGLIGNALVCIAVYRNKSMRT-VTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCR--------VV--- 154 (232)
Q Consensus 87 ~i~~~gi~gN~lvi~~~~~~~~l~~-~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~--------~~--- 154 (232)
++.++|+++|++-+.++ .+|.+|+ +.|.++..+|++|++..+..++..+....... .+..|. ..
T Consensus 5 ~~~~~g~~~N~~h~~VL-trk~mR~~~in~~l~~Iai~Dl~~~~~~~~~~~~~~~~~~---~~~~C~~~~sy~~~~~~~~ 80 (318)
T PF10324_consen 5 ILSIFGLFINIFHLIVL-TRKSMRSSSINILLIGIAICDLLYMLSILIWELFFFIIFY---EDDECIPPYSYFWAYFKLI 80 (318)
T ss_pred EEeHHHHHHHHHHhhhc-CChhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc---cccCCCCcccHHHHHHHHH
Confidence 35678999999988776 5556676 89999999999999998888877765443221 112221 11
Q ss_pred -hHHHH---------HHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccce
Q psy2912 155 -LYSQV---------IFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSY 211 (232)
Q Consensus 155 -~~~~~---------~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~ 211 (232)
..+.. ..+||+.|+++|.+|++.+.. +..+.+.+..++.++.+++..+..+-.+.+
T Consensus 81 ~~~l~~~~~~~S~WL~V~mA~iR~l~i~~p~~~~~~-~l~~~k~~~~~i~~v~~~s~~~~~~~~~~~ 146 (318)
T PF10324_consen 81 MESLSDIFRRISIWLGVLMALIRYLSIKFPMSSRFQ-KLSKPKFAIIVILIVFIISFLFSIPYFFRY 146 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-ccCCCCeeeeehHHHHHHHHHHHHHhhceE
Confidence 11111 127999999999999886532 223344444444555666667777666543
No 14
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=97.90 E-value=5e-05 Score=64.71 Aligned_cols=135 Identities=16% Similarity=0.154 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHH
Q psy2912 80 VLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQV 159 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~ 159 (232)
.+.++..+..+++++|-++++..+++.|++|++.+-++.-++++|++..+..+..... ..-..++..|++++++..
T Consensus 8 ~~~~i~~~~s~lSllGclfiI~tf~~~k~~r~~~~rli~yl~~~~ll~~v~~~~~~~~----~~~~~~s~lC~~Qafliq 83 (303)
T PF05462_consen 8 TLYAIELVASVLSLLGCLFIIITFCLFKRLRKPINRLIFYLSIANLLTNVASMIMTLS----PSAGENSFLCQFQAFLIQ 83 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHHhc----ccCCCCCcchhhHhHHHH
Confidence 4566777788999999999999999999999999999999999999987644332222 222335788999998775
Q ss_pred H---------HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccceeecCCCCceeecCC
Q psy2912 160 I---------FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSSYYMSKKQGRKSASIP 225 (232)
Q Consensus 160 ~---------~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~~~~~~~~~~c~~~~~ 225 (232)
. ++||++=|+.+++..... .+.-+...+++ |.++++.++.|+.+-.......-|.++..
T Consensus 84 ~f~~as~lWt~~iA~nly~~~~~~~~~~----~k~e~~Y~l~~---wGiPli~a~i~l~~~~~g~~G~WCWI~~~ 151 (303)
T PF05462_consen 84 FFMLASFLWTLCIAFNLYLTFVKRYDEL----EKLEKYYHLVC---WGIPLIPAVIPLIGNDYGPAGNWCWIKPE 151 (303)
T ss_pred HhhHHHHHHHHHHHHHhhheeEEcCccH----HHHHHHHHHHH---HHHHHHHHHHHHHccCCCCCCCceeecCC
Confidence 3 289999999887653211 11222334444 44555555556554222222334766543
No 15
>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=97.57 E-value=0.0016 Score=55.91 Aligned_cols=129 Identities=16% Similarity=0.085 Sum_probs=83.1
Q ss_pred CchhHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchh
Q psy2912 75 TSSEWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVV 154 (232)
Q Consensus 75 ~~~~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~ 154 (232)
...+.++.+.+.+.+++-.+..+..+.++.+++..|.+.+..+.-||+.|++......-..-.... .|...|+.-
T Consensus 29 g~~~p~~G~~~~~~g~~~~~lY~p~~~~i~~~~~~k~~~ykiM~~L~i~Di~~l~~~si~tG~l~i-----~G~vfC~~P 103 (313)
T PF10321_consen 29 GVKRPILGIYFLIFGIIIIILYIPCLIAIFKKKLFKMSCYKIMFFLAIFDIIQLFINSIITGILAI-----FGAVFCSYP 103 (313)
T ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHHHhhhhhhhHHHh-----cCccccCCc
Confidence 345567788888888888899999999988888778899999999999999986543222222111 234444433
Q ss_pred hHHH---------------HHHHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhcccc
Q psy2912 155 LYSQ---------------VIFIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKS 209 (232)
Q Consensus 155 ~~~~---------------~~~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~ 209 (232)
.+.. ....++++|..-+.+|......-..++....+.++.+-++...++ .+|..
T Consensus 104 ~~~~i~G~~~~~~W~~~c~~~i~LainR~~~l~~~~~~~~~F~g~~~~~~l~~~~iY~~y~~~f-T~pv~ 172 (313)
T PF10321_consen 104 RFIYIMGCIALGSWCGSCIICILLAINRCCELNFPFKLKFLFEGKRTYIVLFLPIIYGFYFSFF-TPPVL 172 (313)
T ss_pred hHhhhhhccchhhHHHHHHHHHHHHHHHHHHHhcchhhHHhhcCceEEeeehhHHHHHHHHHHH-cCccc
Confidence 3221 123799999999988876554433334444444444445444444 34443
No 16
>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=97.54 E-value=0.00052 Score=57.66 Aligned_cols=102 Identities=8% Similarity=0.011 Sum_probs=64.6
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceecccc---ccchhh
Q psy2912 79 WVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLV---LCRVVL 155 (232)
Q Consensus 79 ~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~---~C~~~~ 155 (232)
.+...+-.+...+....|...++.+...|+.|++.-.++---.+.|.+.+....+..+..... .|..... ...+..
T Consensus 6 ~iv~~i~i~~s~~~~~iN~~lL~~if~~Kk~kk~~l~LfY~Rf~~D~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~if~~ 84 (273)
T PF10316_consen 6 IIVSIIGIIFSIITCLINFYLLYSIFYSKKKKKPDLSLFYFRFAIDVFYGFSVFIYLIYYILF-SLFPEFLDYKNLIFYI 84 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCEEeeHHHHHHHHHHHHHHHHHHHHHHHH-HhChhhhccccEEeeh
Confidence 344556667778888899999888876666455555566667899999998766655443332 1111111 111111
Q ss_pred H--------HH--HHHHHHHHHHHHHHhcccccccc
Q psy2912 156 Y--------SQ--VIFIMYLDYYNTMIKLTNRKQSK 181 (232)
Q Consensus 156 ~--------~~--~~~~iaidRy~aI~~P~~~~~~~ 181 (232)
. +. ....||+||-+|+..|..|++.+
T Consensus 85 ~~p~~~~~~iR~~l~~~Ia~dR~~A~~fPI~y~~~r 120 (273)
T PF10316_consen 85 GWPSSNLGSIRSILALIIALDRVFAVYFPIFYHNYR 120 (273)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHccC
Confidence 0 00 12379999999999999988775
No 17
>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=97.19 E-value=0.00022 Score=60.32 Aligned_cols=117 Identities=13% Similarity=0.037 Sum_probs=66.9
Q ss_pred HHHhhhhhhhhhhhhccCC----CCcchhhHHHHHHHHHHHHHhhhhhHHHHHhh---cc-ceeccccccchhhHHH---
Q psy2912 90 VVGLIGNALVCIAVYRNKS----MRTVTNYYIVNLAVADFLVILICLPPTVVWDV---TE-TWFMGLVLCRVVLYSQ--- 158 (232)
Q Consensus 90 ~~gi~gN~lvi~~~~~~~~----l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~---~~-~w~~~~~~C~~~~~~~--- 158 (232)
++.++--+.+++++.+.|+ .+++.+.++.+-+++|++..+........... .+ ....++..-++.....
T Consensus 6 ~~tlply~~il~~l~~~r~~~~~~~~~Fy~l~~~~~iaDi~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~y~~ 85 (283)
T PF10323_consen 6 IVTLPLYIFILYCLLKLRKRSKTFKSTFYTLLIQHCIADILSMLFYFLLQRFRAYGFFNDFYFSYQTYYAAIYYNIAYYF 85 (283)
T ss_pred eehHHHHHHHHHHHHHcccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHHH
Confidence 4455556666666655443 45788999999999999987754333322211 00 0011111111111111
Q ss_pred ------HHHHHHHHHHHHHHhcc-ccccccceeeeeeeehhHHHHHHHHHHHhhcccc
Q psy2912 159 ------VIFIMYLDYYNTMIKLT-NRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKS 209 (232)
Q Consensus 159 ------~~~~iaidRy~aI~~P~-~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~ 209 (232)
..+.+|+.||.||++|. ++.+.....+.....+ +-|+.+.+++++-+.
T Consensus 86 ~~~~~~gi~lls~nR~~ai~~P~~~~~~~~~~~~~~~i~~---i~wi~p~li~~~~~~ 140 (283)
T PF10323_consen 86 LYIQCIGIVLLSLNRYLAICFPTSRHTKFWQPAKIWIIIL---IQWIPPLLISLPFFF 140 (283)
T ss_pred HHHHHHhHHHHHHhhhheEEeecHHHhhhccccchhheee---eeehhhhhheeeeec
Confidence 13489999999999999 5555544434433333 567777777776444
No 18
>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=97.08 E-value=0.0028 Score=54.11 Aligned_cols=100 Identities=10% Similarity=0.256 Sum_probs=67.3
Q ss_pred hhHHHHHHHHHHHHHHhhhhhhhhhhhh---ccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccch
Q psy2912 77 SEWVLIALQSIVFVVGLIGNALVCIAVY---RNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRV 153 (232)
Q Consensus 77 ~~~~~~~~~~~i~~~gi~gN~lvi~~~~---~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~ 153 (232)
.+.+..++..+.+++|++||++++.+-. +|++.-++.+..+.+||++.++.-.+.................+..++.
T Consensus 5 ~~~i~~~i~~~~~~~Gi~~N~FI~~vn~~~w~k~~~l~~~d~IL~~La~sr~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (303)
T PF05296_consen 5 LEIIFLIILVVEFIIGILGNGFIVLVNCSDWVKSRKLSPSDQILTSLAISRILLQWVILLNSFLSFFFPNIYFSENVYKI 84 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHcchhhhhhhHHHH
Confidence 3567788999999999999999877653 3444456999999999999999866554444444443333344455655
Q ss_pred hhHHHHH---------HHHHHHHHHHHHhccc
Q psy2912 154 VLYSQVI---------FIMYLDYYNTMIKLTN 176 (232)
Q Consensus 154 ~~~~~~~---------~~iaidRy~aI~~P~~ 176 (232)
..++-.+ +++++--+.-|++..+
T Consensus 85 ~~~~~~f~~~~s~W~tt~LsvfYcvKI~~fs~ 116 (303)
T PF05296_consen 85 IDFLWMFSNSSSLWFTTWLSVFYCVKIANFSH 116 (303)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHheeeecCCc
Confidence 5443322 2577777777766654
No 19
>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=96.83 E-value=0.016 Score=50.04 Aligned_cols=102 Identities=4% Similarity=-0.068 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHH---HHhhcc----ceecccccc
Q psy2912 79 WVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTV---VWDVTE----TWFMGLVLC 151 (232)
Q Consensus 79 ~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i---~~~~~~----~w~~~~~~C 151 (232)
.....+..++.++|++.++..++...+++..|....+++....++.++.++..+-... ..+... +.......|
T Consensus 17 ~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~H~N~ril~~~~~~~~l~~~~~r~~~h~~~l~~~~~~~~~Cd~~~~~~~C 96 (324)
T PF10292_consen 17 RLSLIFNLLLSIIAFPVIIYALWKIRNSKLFHFNTRILFIVHCFSFLIHCTGRIILHTYDLYNYFFPDDPCDMIPSTYRC 96 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcchhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcccccchhHH
Confidence 4455678888899999999888888888888988889999888888888654333222 222111 122334456
Q ss_pred chhhHHHH---------HHHHHHHHHHHHHhccccccc
Q psy2912 152 RVVLYSQV---------IFIMYLDYYNTMIKLTNRKQS 180 (232)
Q Consensus 152 ~~~~~~~~---------~~~iaidRy~aI~~P~~~~~~ 180 (232)
-....... ..++++||++|-++..+|.+.
T Consensus 97 ~~lR~~~~~~~~~~~~t~v~l~IER~iAT~~~~~YE~~ 134 (324)
T PF10292_consen 97 FILRIPYNFGLFLVSFTTVSLVIERTIATFFSKSYEKS 134 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcCC
Confidence 43333222 127999999999998776644
No 20
>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=95.37 E-value=0.0089 Score=48.98 Aligned_cols=92 Identities=17% Similarity=0.197 Sum_probs=3.3
Q ss_pred HHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHHH---
Q psy2912 84 LQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQVI--- 160 (232)
Q Consensus 84 ~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~~--- 160 (232)
+..+-..+++++=++.+..+...|++|+..+....||++++++..+..+.. ......+.-...+..|+..+.+...
T Consensus 6 i~~vg~~~Si~~ll~~i~~~~~~r~lr~~~~~i~~~l~~sll~~~~~~l~~-~~~~~~~~~~~~~~~C~~~a~~~hy~~l 84 (242)
T PF00002_consen 6 ISYVGCSLSIICLLLTIITYLLFRKLRSFRNKIHLNLCLSLLLANLSFLIG-ISQTFSPISTTNHCLCRAIAILLHYFFL 84 (242)
T ss_dssp HHHHHHH-------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhhhhhHHHHHHHHHHHhee-hhhccccccccccccchhhhhHhHHHHH
Confidence 444445555666556565555567778877888899999999876643322 1111111111122359988876542
Q ss_pred ------HHHHHHHHHHHHhccc
Q psy2912 161 ------FIMYLDYYNTMIKLTN 176 (232)
Q Consensus 161 ------~~iaidRy~aI~~P~~ 176 (232)
.+.+++-|..++++..
T Consensus 85 a~f~Wm~~~~~~l~~~~~~~~~ 106 (242)
T PF00002_consen 85 ASFFWMLVEAFYLYRLLVKVFN 106 (242)
T ss_dssp ----------------------
T ss_pred HHHHHHHHHHHHhheeEEEeec
Confidence 2788899999987743
No 21
>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=95.23 E-value=0.064 Score=45.47 Aligned_cols=49 Identities=20% Similarity=0.343 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhhhhhhhhhhhhccC-CCCcchhhHHHHHHHHHHHHHhhh
Q psy2912 83 ALQSIVFVVGLIGNALVCIAVYRNK-SMRTVTNYYIVNLAVADFLVILIC 131 (232)
Q Consensus 83 ~~~~~i~~~gi~gN~lvi~~~~~~~-~l~~~~~~~i~nLa~aDll~~l~~ 131 (232)
+++.+.+.+|++.|++.++.+.++. +.-+...+++.|-|+.|++.++..
T Consensus 3 i~~~~~~~~~~~~n~~Ll~~i~~~tp~~l~~~~~~l~~~~~~~~~~~~~~ 52 (292)
T PF10317_consen 3 IYHPIFFILGIILNILLLYLIIFKTPKSLRTYSILLLNTAIFDLISIISA 52 (292)
T ss_pred EeHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577889999999999998876554 334577889999999999987643
No 22
>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=94.95 E-value=0.082 Score=44.25 Aligned_cols=94 Identities=17% Similarity=0.267 Sum_probs=56.7
Q ss_pred CCCcchhhHHHHHHHHHHHHHhh-hhhHHHHHhhccceeccccccchhhHHHHHH---------HHHHHHHHHHH-hccc
Q psy2912 108 SMRTVTNYYIVNLAVADFLVILI-CLPPTVVWDVTETWFMGLVLCRVVLYSQVIF---------IMYLDYYNTMI-KLTN 176 (232)
Q Consensus 108 ~l~~~~~~~i~nLa~aDll~~l~-~~p~~i~~~~~~~w~~~~~~C~~~~~~~~~~---------~iaidRy~aI~-~P~~ 176 (232)
+..+|.+..+.+||+++.++.+. ++|........ + .+++..||+..|+.-++ .+++ |.||. .|..
T Consensus 6 ~r~kp~dlIl~hLa~aN~lvLl~rGip~~~~~~~~-~-~~~d~gCK~v~Y~~RV~RglSictTCLLSv--fQAItISP~~ 81 (265)
T PF03402_consen 6 HRLKPIDLILIHLALANILVLLSRGIPQTMAFFGW-K-FFDDIGCKIVFYIYRVARGLSICTTCLLSV--FQAITISPSN 81 (265)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHhhHHHHHHHhhc-c-cCCCceeeeeeeehHHhchhhHHhhhHHHH--HhhEEEecCC
Confidence 34689999999999999998765 55543332222 2 35899999998877432 3444 44443 3332
Q ss_pred cc-cccceeeeeeeehhHHHHHHHHHHHhh
Q psy2912 177 RK-QSKYIHKKTIGTFLCKEESFLTTGISL 205 (232)
Q Consensus 177 ~~-~~~~~~~~~~~~~~~~~iw~~~~~~~~ 205 (232)
.+ ...+.+..+.....+...|++..++..
T Consensus 82 s~w~~lK~k~pk~i~~~~~~~Wilnlli~~ 111 (265)
T PF03402_consen 82 SRWAELKVKAPKYIGPSCLFCWILNLLINI 111 (265)
T ss_pred chhhhhhhhcCCccccHHHHHHHHHHhhhc
Confidence 22 222222333445556677887766654
No 23
>PF02118 Srg: Srg family chemoreceptor; InterPro: IPR000609 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 g (Srg) 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. ; GO: 0004888 transmembrane signaling receptor activity, 0007606 sensory perception of chemical stimulus, 0016020 membrane
Probab=92.81 E-value=0.39 Score=39.95 Aligned_cols=98 Identities=7% Similarity=0.034 Sum_probs=52.3
Q ss_pred HHHHHhhhhhhhhhhhhccCC--C-CcchhhHHHHHHHHHHHHHhhhhhH-HHHHhhccc------e-eccccccchhhH
Q psy2912 88 VFVVGLIGNALVCIAVYRNKS--M-RTVTNYYIVNLAVADFLVILICLPP-TVVWDVTET------W-FMGLVLCRVVLY 156 (232)
Q Consensus 88 i~~~gi~gN~lvi~~~~~~~~--l-~~~~~~~i~nLa~aDll~~l~~~p~-~i~~~~~~~------w-~~~~~~C~~~~~ 156 (232)
=++.+++.+..+++++.++|+ . +++.+.+..-=++.+++.-+...+. .+.....+. + .......++..+
T Consensus 7 Ygi~s~~l~~~~~~~i~~~~~~~~~~~sFy~l~~~d~~~ni~~~ln~~~~~Rl~~~~~~~~~~~~~~~~~~~~~l~~~~~ 86 (275)
T PF02118_consen 7 YGIPSLILYIFILYVIWKSKKKSYFKSSFYRLYIMDLIMNILTYLNTWITLRLPSYTPPFCPFFLPFFENPPFFLNIFYF 86 (275)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccCCccHHHHHHHhHHHHHHHHHHHHHHHhccccCccchhHHHHHcCCcHHHHHHHH
Confidence 345566777777877777666 3 5566666555555666653322221 121110000 0 011122222222
Q ss_pred HH-------HH--HHHHHHHHHHHHhccccccccceee
Q psy2912 157 SQ-------VI--FIMYLDYYNTMIKLTNRKQSKYIHK 185 (232)
Q Consensus 157 ~~-------~~--~~iaidRy~aI~~P~~~~~~~~~~~ 185 (232)
+. .+ ..||++|+-+|..|.++.+..++..
T Consensus 87 l~~~~~~~Q~~~~~~is~nR~t~v~~p~~~~~~W~~~~ 124 (275)
T PF02118_consen 87 LQYYFAYVQYLSTILISLNRFTSVLFPIRYEKFWKRYY 124 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHhhhHHHHhhh
Confidence 21 11 3799999999999998877665433
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=91.62 E-value=0.19 Score=42.69 Aligned_cols=48 Identities=17% Similarity=0.327 Sum_probs=34.7
Q ss_pred HHHHHHHHhhhhhhhhhhhhccCCCC-cchhhHHHHHHHHHHHHHhhhh
Q psy2912 85 QSIVFVVGLIGNALVCIAVYRNKSMR-TVTNYYIVNLAVADFLVILICL 132 (232)
Q Consensus 85 ~~~i~~~gi~gN~lvi~~~~~~~~l~-~~~~~~i~nLa~aDll~~l~~~ 132 (232)
--+.++++++.|++.++.+.++.+.+ -.-.+++...|+.|++.+++-.
T Consensus 5 ~~~~~~~s~~~N~~Li~Li~~~s~k~~G~Yk~Lm~~fs~~~i~fs~~~~ 53 (307)
T PF10326_consen 5 QYIGFVLSLFLNSLLIYLILTKSPKSLGSYKYLMIYFSIFEIIFSILDF 53 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCCCEEEEEehhHHHHHHHHHHHH
Confidence 34567889999999998876554333 3456677789999999877543
No 25
>PF02117 7TM_GPCR_Sra: Serpentine type 7TM GPCR chemoreceptor Sra; InterPro: IPR000344 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 a (Sra) from the Sra superfamily []. Sra receptors contain 6-7 hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures.; GO: 0004888 transmembrane signaling receptor activity, 0007606 sensory perception of chemical stimulus, 0016021 integral to membrane
Probab=91.56 E-value=2.6 Score=36.40 Aligned_cols=100 Identities=12% Similarity=0.096 Sum_probs=57.9
Q ss_pred hHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchh-hHHHHHHHHHHHHHhhh-hhHH-HHH-h--hcc--ceecccc
Q psy2912 78 EWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTN-YYIVNLAVADFLVILIC-LPPT-VVW-D--VTE--TWFMGLV 149 (232)
Q Consensus 78 ~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~-~~i~nLa~aDll~~l~~-~p~~-i~~-~--~~~--~w~~~~~ 149 (232)
..+-..+..++.+++.++-...+-.++++.-.++.+. .++.+|..+++=-.... .-.. ++. . ..+ ...+...
T Consensus 20 ~~~~~~~~~~~~~~t~~~s~~Ai~~l~~ksif~~sTr~LL~~~l~~a~~Hq~~y~~~~~~~lyrsf~~~~dpC~i~f~~~ 99 (328)
T PF02117_consen 20 FRINQIFILIIIIITFIFSVFAIKKLWKKSIFSNSTRILLISNLLFANIHQISYAIIQIWSLYRSFFYSDDPCSILFTSS 99 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeeeEeecC
Confidence 3445566777788888888777777766666666554 44556665544322211 1111 111 1 111 2445666
Q ss_pred ccchhhHHHHH---------HHHHHHHHHHHHhcccc
Q psy2912 150 LCRVVLYSQVI---------FIMYLDYYNTMIKLTNR 177 (232)
Q Consensus 150 ~C~~~~~~~~~---------~~iaidRy~aI~~P~~~ 177 (232)
.|......... +++.+||-+|-..|-.+
T Consensus 100 eC~~~~~~~~~~~~~~~~~q~aL~idRl~at~~~~~~ 136 (328)
T PF02117_consen 100 ECFPYYYFYYFTNSGMIFIQFALTIDRLLATFFPKYY 136 (328)
T ss_pred ceeeeehHHHHHHHHHHHHHHHHHHHHHHHHhchhhh
Confidence 77765543322 38999999999888554
No 26
>PF06681 DUF1182: Protein of unknown function (DUF1182); InterPro: IPR010601 This family consists of several hypothetical proteins of around 360 residues in length and seems to be specific to Caenorhabditis elegans. The function of this family is unknown.
Probab=86.10 E-value=3.6 Score=33.04 Aligned_cols=87 Identities=16% Similarity=0.208 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhhccCCC---CcchhhHHHHHHHHHHHHHhhhhhHHHHHhh-----c--cceecccccc
Q psy2912 82 IALQSIVFVVGLIGNALVCIAVYRNKSM---RTVTNYYIVNLAVADFLVILICLPPTVVWDV-----T--ETWFMGLVLC 151 (232)
Q Consensus 82 ~~~~~~i~~~gi~gN~lvi~~~~~~~~l---~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~-----~--~~w~~~~~~C 151 (232)
+..-.++-..+.+.+.+.+..++++|++ .+++=.|. -+..=++.+|..+.+.+ . .+-...-+.|
T Consensus 44 i~~e~~v~~~s~~~s~~L~ifi~~rk~l~~~~ksTIvFa------T~g~fvLtlP~~lf~~wl~~~l~~~~ep~ytI~vC 117 (226)
T PF06681_consen 44 ITVEFIVNTVSWLFSYFLCIFIWRRKNLIRSYKSTIVFA------TFGQFVLTLPLYLFQTWLVFFLWFGHEPQYTIFVC 117 (226)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHhhhHHHHHhhcCeEEEe------eHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEee
Confidence 3445555566666666655555555542 12222221 11111235665554321 1 1223356788
Q ss_pred chhhHHHHH---------HHHHHHHHHHHHhc
Q psy2912 152 RVVLYSQVI---------FIMYLDYYNTMIKL 174 (232)
Q Consensus 152 ~~~~~~~~~---------~~iaidRy~aI~~P 174 (232)
.+..-+... .++|++||+-|+.-
T Consensus 118 Sflk~f~S~t~s~~~vip~aVAIyRy~~VV~k 149 (226)
T PF06681_consen 118 SFLKNFTSSTTSCAQVIPVAVAIYRYLIVVLK 149 (226)
T ss_pred hHHHhHHHHHhhhhccchhhhhhhhhheeeec
Confidence 877655432 27999999988644
No 27
>PF10318 7TM_GPCR_Srh: Serpentine type 7TM GPCR chemoreceptor Srh; InterPro: IPR019422 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. Srh is part of the Str superfamily of chemoreceptors [].
Probab=77.86 E-value=5.9 Score=33.43 Aligned_cols=96 Identities=13% Similarity=0.208 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhccC-CCCcchhhHHHHH----HHHHHHHHhhhhhHHHHHhhccceecc-----cc
Q psy2912 80 VLIALQSIVFVVGLIGNALVCIAVYRNK-SMRTVTNYYIVNL----AVADFLVILICLPPTVVWDVTETWFMG-----LV 149 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN~lvi~~~~~~~-~l~~~~~~~i~nL----a~aDll~~l~~~p~~i~~~~~~~w~~~-----~~ 149 (232)
......=++.+++++-|++..+++.+|. +.-+.....+.++ .+.|+..+.+..|........+. +.| +.
T Consensus 5 ~~~~~~h~~~~i~~Pi~~~~~y~Il~ktp~~m~~~k~~ll~~~~~~~~~d~~~~~l~~P~~~~P~~~~~-~~G~l~~~gv 83 (302)
T PF10318_consen 5 FYSIVLHIITIISIPIYIFGFYCILFKTPKSMKSVKWYLLNHHFWNFLLDLYLSFLIIPYFFFPSPAGY-PLGILSYFGV 83 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHheeEeChhhhHHHHHHHHHHHHHHHHHHHHhhhEEeeeeccchHHhh-CCcchhhccc
Confidence 3455667788889999999998876653 2223344444443 45688888887776555443221 111 12
Q ss_pred ccchhhHHHH---------HHHHHHHHHHHHHhccc
Q psy2912 150 LCRVVLYSQV---------IFIMYLDYYNTMIKLTN 176 (232)
Q Consensus 150 ~C~~~~~~~~---------~~~iaidRy~aI~~P~~ 176 (232)
-..++.++.. ...+--.||.++....+
T Consensus 84 ~~~~q~~i~~~~~~~~~~S~~~lFe~R~~~i~~~~~ 119 (302)
T PF10318_consen 84 PTPIQFYIGVTLLAFVGVSILSLFENRYQIIIRNRS 119 (302)
T ss_pred ChHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccc
Confidence 2232322221 12566789999986654
No 28
>KOG4564|consensus
Probab=77.33 E-value=32 Score=31.39 Aligned_cols=76 Identities=18% Similarity=0.183 Sum_probs=50.5
Q ss_pred HHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccc--------e----eccccc
Q psy2912 83 ALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTET--------W----FMGLVL 150 (232)
Q Consensus 83 ~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~--------w----~~~~~~ 150 (232)
++|.+=..++++.=++.+.++..-|++|-..|+.-.||-++=++-++..+.........+. + ..+...
T Consensus 149 ~lytvGyslSl~sL~vAl~If~~FR~L~CtRn~IH~nLF~SfiLra~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 228 (473)
T KOG4564|consen 149 ILYTVGYSLSLVSLLVALIIFLYFRSLHCTRNYIHMNLFASFILRAASVLIKDLVLVVNGEQDASSDTSLHCLISSNPVG 228 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccccchh
Confidence 4555555555555455556667778999999999999999999988866665554332211 1 134678
Q ss_pred cchhhHHH
Q psy2912 151 CRVVLYSQ 158 (232)
Q Consensus 151 C~~~~~~~ 158 (232)
|+....+.
T Consensus 229 Ck~~~~~~ 236 (473)
T KOG4564|consen 229 CKLLFVFF 236 (473)
T ss_pred HHHHHHHH
Confidence 99776544
No 29
>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=76.45 E-value=9.1 Score=32.65 Aligned_cols=99 Identities=15% Similarity=0.212 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhcc-CCCCcchhhHH---HHHHHHHHHHHhhhhhHHHHHhhccceeccccccchh
Q psy2912 79 WVLIALQSIVFVVGLIGNALVCIAVYRN-KSMRTVTNYYI---VNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVV 154 (232)
Q Consensus 79 ~~~~~~~~~i~~~gi~gN~lvi~~~~~~-~~l~~~~~~~i---~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~ 154 (232)
..+...|-+++.++++.|.+.++.+..+ +++.+-.++++ +...++|+-.+++.-|..+.....| +..| ..|+..
T Consensus 9 ~~li~~~~~ig~iS~~~n~~~iyLi~fks~k~~~fry~ll~~Qi~~~l~di~~t~L~qpipLfP~~ag-y~~G-~l~~~f 86 (303)
T PF10327_consen 9 QWLINYYHIIGVISFILNSLGIYLIIFKSPKLDNFRYYLLYFQISCTLTDIHLTFLMQPIPLFPIPAG-YCVG-FLARYF 86 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHheeEEEecCCccchhhHHHHHHHHHHHhhhhhhhhccchhhcceeEE-EEEe-ehhhcC
Confidence 4567788899999999999999877554 45555444443 2567889999888888777765433 2333 344431
Q ss_pred h-------HHH---------HHHHHHHHHHHHHHhcccccc
Q psy2912 155 L-------YSQ---------VIFIMYLDYYNTMIKLTNRKQ 179 (232)
Q Consensus 155 ~-------~~~---------~~~~iaidRy~aI~~P~~~~~ 179 (232)
+ .+. .+..--+-|+.+|.+..+.++
T Consensus 87 ~i~~h~~~~i~~~l~~~q~~~L~~CF~~KHQaIa~i~~~~~ 127 (303)
T PF10327_consen 87 GISSHYLMTIWIFLFIFQIESLVICFLRKHQAIARILSKHV 127 (303)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCc
Confidence 1 100 011334789999998876444
No 30
>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=75.67 E-value=6.6 Score=33.66 Aligned_cols=95 Identities=14% Similarity=0.247 Sum_probs=59.4
Q ss_pred HHHHHHHHHhhhhhhhhhhhhccCCCCc-chhhHHHHHHHHHHHHHhh--hhhHHHHHh-------hccceeccc-----
Q psy2912 84 LQSIVFVVGLIGNALVCIAVYRNKSMRT-VTNYYIVNLAVADFLVILI--CLPPTVVWD-------VTETWFMGL----- 148 (232)
Q Consensus 84 ~~~~i~~~gi~gN~lvi~~~~~~~~l~~-~~~~~i~nLa~aDll~~l~--~~p~~i~~~-------~~~~w~~~~----- 148 (232)
+--+.++++.+-|-+.++.+..+|+.+- .-.++++--|+-|++.++. .+|..+..+ +.++|..+.
T Consensus 10 ~Pk~~~~lsf~~Np~fiyli~~~~~~~~G~Yr~LL~~Fa~fn~~~S~~~~~vp~~vh~yry~F~~fi~dG~F~~~s~l~~ 89 (310)
T PF10319_consen 10 IPKIFGILSFIVNPIFIYLIFTEKKSQFGNYRYLLLFFAIFNLIYSVVDLLVPICVHGYRYAFVVFISDGPFFEKSELGQ 89 (310)
T ss_pred HHHHHHHHHHHHhhhhheeEEcccccccccHHHHHHHHHHHHHHHHHHHHHhhheeeccceEEEEEEcCCcCcCcchHHH
Confidence 3345677788899999998887777554 4567888999999998775 455554432 122232221
Q ss_pred ----cccchhhHHHH-HHHHHHHHHHHHHhccccc
Q psy2912 149 ----VLCRVVLYSQV-IFIMYLDYYNTMIKLTNRK 178 (232)
Q Consensus 149 ----~~C~~~~~~~~-~~~iaidRy~aI~~P~~~~ 178 (232)
.-|.+...... +-+--+.||+++.+|...+
T Consensus 90 ~~ls~RCsfIs~sYaIL~~HFvYRYl~l~~~~~~~ 124 (310)
T PF10319_consen 90 HLLSIRCSFISGSYAILHIHFVYRYLVLFNSKFIN 124 (310)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHhCcHHHH
Confidence 12333332222 2245589999999996533
No 31
>PF02101 Ocular_alb: Ocular albinism type 1 protein; InterPro: IPR001414 Ocular albinism type 1 (OA1) is an X-linked disorder characterised by severe impairment of visual acuity, retinal hypopigmentation and the presence of macromelanosomes. A novel transcript from the OA1 critical region is expressed in high levels in RNA samples from retina and from melanoma and encodes a potential integral membrane protein []. This protein is of unknown function but is known to bind heterotrimeric G proteins.; GO: 0016020 membrane
Probab=74.78 E-value=21 Score=31.48 Aligned_cols=92 Identities=22% Similarity=0.231 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhccC----CCCc--chhhHHHHHHHHHHHHHhhhhhHHHHHhhcccee--------
Q psy2912 80 VLIALQSIVFVVGLIGNALVCIAVYRNK----SMRT--VTNYYIVNLAVADFLVILICLPPTVVWDVTETWF-------- 145 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN~lvi~~~~~~~----~l~~--~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~-------- 145 (232)
.+-.+...-.++|+.|-++-++--.|.. +.++ ...-.+..||++|++.++-.+--...+....+..
T Consensus 28 ~f~avCLgSs~l~l~gallQLlp~rr~~~~~~~~~sp~~~~rIl~~la~aDlLaclGVivRS~vWl~~p~~~~s~s~~~~ 107 (405)
T PF02101_consen 28 AFNAVCLGSSVLSLLGALLQLLPRRRSAGPRAPARSPSSSRRILFWLAVADLLACLGVIVRSSVWLGFPNFIDSISDVNG 107 (405)
T ss_pred hhhhhHHHHHHHHHHHHHHhhccccccccccccccCCcCCchhHHHHHHHHHHhhhhHHHHhhhhhcCCcccccccCCCC
Confidence 3344555666666666655554221110 0112 2346788999999998775444444433222110
Q ss_pred ---ccccccchhhH----HHH-----HHHHHHHHHHHH
Q psy2912 146 ---MGLVLCRVVLY----SQV-----IFIMYLDYYNTM 171 (232)
Q Consensus 146 ---~~~~~C~~~~~----~~~-----~~~iaidRy~aI 171 (232)
....+|..... +.. .++-|+|-|+.+
T Consensus 108 ~d~wp~afCv~ss~WIq~fYsAtfwWtfcYAVDv~Lv~ 145 (405)
T PF02101_consen 108 TDIWPAAFCVGSSMWIQLFYSATFWWTFCYAVDVYLVI 145 (405)
T ss_pred CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhee
Confidence 12356765432 111 237899999966
No 32
>PF04789 DUF621: Protein of unknown function (DUF621); InterPro: IPR006874 This is a conserved region found in uncharacterised proteins from Caenorhabditis elegans, and is noted to have possible G-protein-coupled receptor-like activity.
Probab=72.10 E-value=17 Score=30.73 Aligned_cols=126 Identities=11% Similarity=0.172 Sum_probs=62.9
Q ss_pred hhHHHHHHHHHHHHHHhhhhh--hhhhhhhccCCCCcchhhHHHHHHHHHHHHHhh----hhhHHHHHhhccceeccccc
Q psy2912 77 SEWVLIALQSIVFVVGLIGNA--LVCIAVYRNKSMRTVTNYYIVNLAVADFLVILI----CLPPTVVWDVTETWFMGLVL 150 (232)
Q Consensus 77 ~~~~~~~~~~~i~~~gi~gN~--lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~----~~p~~i~~~~~~~w~~~~~~ 150 (232)
..+.....+++..+++.+.++ +|+.++....-.+-....|+..|.++-.+.... .+|-.+.....++...++..
T Consensus 11 ~yy~vi~~Fv~st~~stlLt~~Flv~~i~lW~~Fk~m~ffwFl~qlt~s~fi~S~lNl~inVPatlfsl~t~~~~~s~~f 90 (305)
T PF04789_consen 11 LYYFVISLFVLSTIASTLLTGAFLVLSIILWSHFKPMKFFWFLTQLTISVFIISSLNLLINVPATLFSLITKEFVQSELF 90 (305)
T ss_pred EEEehHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHhhhheEeCcHHHHHhhhHHHhccchh
Confidence 334455555555555555554 333333333222446788999999988876553 46666544444433322221
Q ss_pred cchhhHHHH-------H--HHHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhc
Q psy2912 151 CRVVLYSQV-------I--FIMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLY 206 (232)
Q Consensus 151 C~~~~~~~~-------~--~~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~ 206 (232)
.+..+..- + .+||+.|.... ...+ ...+ .-......+....+|+++..+-..
T Consensus 91 -~~~Sy~idf~h~siLfsNlviaIqR~fVF-Ffr~-~t~~-~F~s~~iyiWL~~vWils~~v~~~ 151 (305)
T PF04789_consen 91 -IFMSYLIDFCHYSILFSNLVIAIQRFFVF-FFRN-LTDK-VFESPVIYIWLLLVWILSIGVVYS 151 (305)
T ss_pred -hHHHHHHHHHHHHHHHHHHHHHHhhheee-eehh-hhhh-hccchHHHHHHHHHHHHHHHHHHH
Confidence 11111111 1 27999998744 3222 1111 112223344455678777666554
No 33
>KOG4193|consensus
Probab=63.35 E-value=50 Score=31.26 Aligned_cols=79 Identities=14% Similarity=0.162 Sum_probs=40.6
Q ss_pred HHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccc-c-ccchhhHHHHHH------
Q psy2912 90 VVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGL-V-LCRVVLYSQVIF------ 161 (232)
Q Consensus 90 ~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~-~-~C~~~~~~~~~~------ 161 (232)
.+++++=++.++++..-|++++-.+....||+++=++. -+ . ...+.|.-+. . .|+..+.+...+
T Consensus 331 ~iSlvcL~lti~ty~~~~~l~~~~~~i~~~l~~~L~l~-~l------~-fL~~~~~~~~~~~~C~~~a~llhff~LaaF~ 402 (610)
T KOG4193|consen 331 IISLVCLLLTIATYLLFRKLQNDRTKIHINLCLCLFLA-EL------L-FLLGIDRTSTSVVLCIAAAILLHFFFLAAFF 402 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-HH------H-HhcccccccCcccccHHHHHHHHHHHHHHHH
Confidence 33444444444444444555554477788888872222 11 1 1223333322 2 698887655422
Q ss_pred ---HHHHHHHHHHHhccc
Q psy2912 162 ---IMYLDYYNTMIKLTN 176 (232)
Q Consensus 162 ---~iaidRy~aI~~P~~ 176 (232)
.+++.=|+.++.-++
T Consensus 403 Wm~leg~hl~~~~v~vf~ 420 (610)
T KOG4193|consen 403 WMLLEGFHLYLLLVEVFR 420 (610)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 566777775555543
No 34
>PF03125 Sre: C. elegans Sre G protein-coupled chemoreceptor; InterPro: IPR004151 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 e (Sre) from the Sra superfamily []. ; GO: 0004888 transmembrane signaling receptor activity, 0007606 sensory perception of chemical stimulus, 0016021 integral to membrane
Probab=59.33 E-value=49 Score=28.92 Aligned_cols=46 Identities=9% Similarity=0.249 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHH
Q psy2912 78 EWVLIALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVA 123 (232)
Q Consensus 78 ~~~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~a 123 (232)
.....++..++.+++..-....++++.+.|..|.-.+.+....-..
T Consensus 26 ~~~~~i~e~~l~~~~~~~~~~~~~i~~~~r~FH~N~~~l~~~~~~~ 71 (365)
T PF03125_consen 26 YIILLIFELILYIICFYFTFKSCYIILKIRQFHRNLNILFIFILLQ 71 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3455556666666665555555677778888887666655544433
No 35
>PF03383 Serpentine_r_xa: Caenorhabditis serpentine receptor-like protein, class xa; InterPro: IPR005047 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 xa (Srxa), from the Str superfamily [].
Probab=50.04 E-value=7.1 Score=29.87 Aligned_cols=46 Identities=15% Similarity=-0.006 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccc
Q psy2912 162 IMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSS 210 (232)
Q Consensus 162 ~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~ 210 (232)
.|+++|-..|.+|++....-+.+|. .+-|..++++.+..-+.|.+.
T Consensus 64 LMti~Ri~iV~~P~~~~~~Fs~~kl---~~YC~~i~i~~~i~LlIPy~S 109 (153)
T PF03383_consen 64 LMTINRIYIVLFPFGSEIWFSDKKL---WIYCGIIAILSFISLLIPYFS 109 (153)
T ss_pred HHHHhheEEEEecCCCccccccchh---HHHHHHHHHHHHHHHHhhcCC
Confidence 7999999999999986444433333 333445555555666667665
No 36
>PF02076 STE3: Pheromone A receptor; InterPro: IPR001499 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/). Little is known about the structure and function of the mating factor receptors, STE2 and STE3. It is believed, however, that they are integral membrane proteins that may be involved in the response to mating factors on the cell membrane [, , ]. The amino acid sequences of both receptors contain high proportions of hydrophobic residues grouped into 7 domains, in a manner reminiscent of the rhodopsins and other receptors believed to interact with G-proteins. However, while a similar 3D framework has been proposed to account for this, there is no significant sequence similarity either between STE2 and STE3, or between these and the rhodopsin-type family: the receptors thus bear their own unique '7TM' signatures. The STE3 gene of Saccharomyces cerevisiae (Baker's yeast) is the cell-surface receptor that binds the 13-residue lipopeptide a-factor. Several related fungal pheromone receptor sequences are known: these include pheromone B alpha 1 and B alpha 3, and pheromone B beta 1 receptors from Schizophyllum commune; pheromone receptor 1 from Ustilago hordei; and pheromone receptors 1 and 2 from Ustilago maydis. Members of the family share about 20% sequence identity.; GO: 0004932 mating-type factor pheromone receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane
Probab=49.55 E-value=52 Score=27.87 Aligned_cols=80 Identities=11% Similarity=0.069 Sum_probs=43.0
Q ss_pred HHhhhhhhhhhhh-hccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHHHhhccceeccccccchhhHHHHH-------HH
Q psy2912 91 VGLIGNALVCIAV-YRNKSMRTVTNYYIVNLAVADFLVILICLPPTVVWDVTETWFMGLVLCRVVLYSQVI-------FI 162 (232)
Q Consensus 91 ~gi~gN~lvi~~~-~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~~~~~~~w~~~~~~C~~~~~~~~~-------~~ 162 (232)
++++|.++.+.-+ +.-|..+.++-.++.-+.++++...+ ..-..-... ...|+ .+|.+...+... +.
T Consensus 3 ~s~i~~~l~i~Pl~wH~ra~N~~~~~li~Wl~l~nl~~~I-NaiIW~~n~-~~~~~---~wCDI~~kl~~~~~~g~~~a~ 77 (283)
T PF02076_consen 3 FSFIAFVLLIVPLPWHWRARNIGTCSLIFWLFLSNLIYFI-NAIIWRDND-INWWP---VWCDISTKLIIGSSVGIPAAS 77 (283)
T ss_pred HHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHH-hhhhcCCCC-CccCc---eeeeehHHHHHHHHHHHHHHH
Confidence 3445555544433 23344356788888899998888754 211111111 12343 889888765532 35
Q ss_pred HHHHHHHH-HHhcc
Q psy2912 163 MYLDYYNT-MIKLT 175 (232)
Q Consensus 163 iaidRy~a-I~~P~ 175 (232)
.++-|.++ |..+.
T Consensus 78 lcI~r~L~~I~s~r 91 (283)
T PF02076_consen 78 LCIMRRLYRIASAR 91 (283)
T ss_pred HHHHHHHHHHhccc
Confidence 66666654 33443
No 37
>PF09882 DUF2109: Predicted membrane protein (DUF2109); InterPro: IPR019214 This entry is found in various hypothetical archaeal proteins and has no known function.
Probab=48.29 E-value=38 Score=22.63 Aligned_cols=49 Identities=16% Similarity=0.354 Sum_probs=35.9
Q ss_pred HHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHH
Q psy2912 89 FVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVV 137 (232)
Q Consensus 89 ~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~ 137 (232)
.++|+++=..++-++..+.+.++-.+.-.+|-+++-++....--|+-..
T Consensus 4 ~i~g~Iai~~~iR~~~~~~r~~KL~yLnv~~F~iaalIaL~i~~P~g~i 52 (78)
T PF09882_consen 4 IIIGIIAILMAIRIFLTKSRARKLLYLNVINFAIAALIALYIKSPMGAI 52 (78)
T ss_pred HHHHHHHHHHHHHHHHhHhHHHhhhHHHHHHHHHHHHHHHHhCCcHHHH
Confidence 3455555556677777777788888999999999999887666665443
No 38
>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=40.36 E-value=25 Score=25.79 Aligned_cols=17 Identities=29% Similarity=0.505 Sum_probs=6.4
Q ss_pred Hhhhhhhhh-hhhhccCC
Q psy2912 92 GLIGNALVC-IAVYRNKS 108 (232)
Q Consensus 92 gi~gN~lvi-~~~~~~~~ 108 (232)
|++|=++.| |.+.|+||
T Consensus 76 GvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 76 GVIGIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 444433434 44433333
No 39
>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=39.04 E-value=82 Score=25.89 Aligned_cols=15 Identities=13% Similarity=0.308 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHH
Q psy2912 156 YSQVIFIMYLDYYNT 170 (232)
Q Consensus 156 ~~~~~~~iaidRy~a 170 (232)
++..+..+..|||..
T Consensus 141 ~l~~l~~~~~D~~v~ 155 (232)
T PF10329_consen 141 FLSSLWGILADRYVE 155 (232)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333445788999995
No 40
>PF01534 Frizzled: Frizzled/Smoothened family membrane region; InterPro: IPR000539 The frizzled (fz) locus of Drosophila coordinates the cytoskeletons of epidermal cells, producing a parallel array of cuticular hairs and bristles [, ]. In fz mutants, the orientation of individual hairs with respect both to their neighbours and to the organism as a whole is altered. In the wild-type wing, all hairs point towards the distal tip []. In the developing wing, fz has 2 functions: it is required for the proximal-distal transmission of an intracellular polarity signal; and it is required for cells to respond to the polarity signal. Fz produces an mRNA that encodes an integral membrane protein with 7 putative transmembrane (TM) domains. This protein should contain both extracellular and cytoplasmic domains, which could function in the transmission and interpretation of polarity information []. This signature is usually found downstream of the Fz domain (IPR000024 from INTERPRO); GO: 0007166 cell surface receptor linked signaling pathway, 0016020 membrane
Probab=36.87 E-value=2.8e+02 Score=24.04 Aligned_cols=140 Identities=12% Similarity=0.027 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhhccCCCCcchhhHHHHHHHHHHHHHhhhhhHHHH--Hhh---c--c------ceeccc
Q psy2912 82 IALQSIVFVVGLIGNALVCIAVYRNKSMRTVTNYYIVNLAVADFLVILICLPPTVV--WDV---T--E------TWFMGL 148 (232)
Q Consensus 82 ~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~~~~~~i~nLa~aDll~~l~~~p~~i~--~~~---~--~------~w~~~~ 148 (232)
-....+...+..+.+++.+..+..+++..+-...-+.-++++-++.++..+--.+. ..+ . + ....+.
T Consensus 12 ~~wi~~~s~ic~~~t~ftv~Tf~id~~rf~yPerpi~fl~~Cy~~~s~~~l~~~~~g~~~i~C~~~~~~~~~~~~~~~~~ 91 (328)
T PF01534_consen 12 RIWIGVWSVICFISTLFTVLTFLIDRSRFRYPERPIIFLSFCYFIVSLGYLIRFILGRESIACRSQDGTERILVQDGLEN 91 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccccCCccchhhHHHHHHHHHHHHHHHHHhccCCCcCCCcCCCCceeEeecCCCC
Confidence 33444555555566666666655554433334555556666666665533222221 000 0 0 011235
Q ss_pred cccchhhHHHHHH---------HHHHHHHHHHHhccccccccceeeeeeeehhHHHHHHHHHHHhhccccc--eeecCCC
Q psy2912 149 VLCRVVLYSQVIF---------IMYLDYYNTMIKLTNRKQSKYIHKKTIGTFLCKEESFLTTGISLYPKSS--YYMSKKQ 217 (232)
Q Consensus 149 ~~C~~~~~~~~~~---------~iaidRy~aI~~P~~~~~~~~~~~~~~~~~~~~~iw~~~~~~~~~p~~~--~~~~~~~ 217 (232)
..|.+...+.+.+ .+++.=|++...--.+... .++.....+ +.|.+.++..+..+.. -++++-.
T Consensus 92 ~~C~~~F~l~Yyf~mAa~~WWviLt~~W~lsa~~kw~~e~i--~~~s~yfH~---~aW~iP~~~ti~vL~~~~VdgD~lt 166 (328)
T PF01534_consen 92 SSCTVVFLLLYYFGMAASLWWVILTLTWFLSAGLKWGSEAI--EKKSSYFHL---VAWGIPAVLTIAVLALRKVDGDELT 166 (328)
T ss_pred CchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccCcchh--hhhcchhhh---HHhhhhHHHHHHHHHhccccccccc
Confidence 6787776555443 4666666665433221111 122222333 4465555555543332 3446666
Q ss_pred CceeecCCC
Q psy2912 218 GRKSASIPT 226 (232)
Q Consensus 218 ~~c~~~~~~ 226 (232)
+-|++++.+
T Consensus 167 GiC~Vg~~~ 175 (328)
T PF01534_consen 167 GICFVGNQN 175 (328)
T ss_pred ceeEEeCCC
Confidence 779887654
No 41
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=31.78 E-value=48 Score=20.66 Aligned_cols=21 Identities=19% Similarity=0.108 Sum_probs=13.4
Q ss_pred HHHHHHHHHHhhhhhhhhhhh
Q psy2912 83 ALQSIVFVVGLIGNALVCIAV 103 (232)
Q Consensus 83 ~~~~~i~~~gi~gN~lvi~~~ 103 (232)
.+.+++.+.-++||+.++---
T Consensus 6 wlIIviVlgvIigNia~LK~s 26 (55)
T PF11446_consen 6 WLIIVIVLGVIIGNIAALKYS 26 (55)
T ss_pred hHHHHHHHHHHHhHHHHHHHh
Confidence 344555556678998877543
No 42
>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=27.82 E-value=56 Score=28.59 Aligned_cols=31 Identities=10% Similarity=0.169 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhhccCCCCc
Q psy2912 81 LIALQSIVFVVGLIGNALVCIAVYRNKSMRT 111 (232)
Q Consensus 81 ~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~ 111 (232)
-.++..++.++-++.-.++|+.++|.||.++
T Consensus 310 t~IiaSiIAIvvIVLIMvIIYLILRYRRKKK 340 (353)
T TIGR01477 310 TPIIASIIAILIIVLIMVIIYLILRYRRKKK 340 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 4667778888888888888888887766443
No 43
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=26.09 E-value=79 Score=22.61 Aligned_cols=29 Identities=17% Similarity=0.354 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhccCC
Q psy2912 80 VLIALQSIVFVVGLIGNALVCIAVYRNKS 108 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN~lvi~~~~~~~~ 108 (232)
.+..++.++.++.++.|++.-....|+++
T Consensus 2 ~Ll~il~llLll~l~asl~~wr~~~rq~k 30 (107)
T PF15330_consen 2 LLLGILALLLLLSLAASLLAWRMKQRQKK 30 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 45667788888888888776554444433
No 44
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=25.80 E-value=1.7e+02 Score=24.74 Aligned_cols=26 Identities=12% Similarity=-0.125 Sum_probs=19.6
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHhc
Q psy2912 149 VLCRVVLYSQVIFIMYLDYYNTMIKL 174 (232)
Q Consensus 149 ~~C~~~~~~~~~~~iaidRy~aI~~P 174 (232)
+.|-..+.+-.+..+.+|||+.....
T Consensus 46 ~~ai~~glvwgl~I~~lDR~ivss~~ 71 (301)
T PF14362_consen 46 WAAIPFGLVWGLVIFNLDRFIVSSIR 71 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 66777777777789999999965433
No 45
>PTZ00046 rifin; Provisional
Probab=25.63 E-value=65 Score=28.26 Aligned_cols=32 Identities=16% Similarity=0.199 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhccCCCCc
Q psy2912 80 VLIALQSIVFVVGLIGNALVCIAVYRNKSMRT 111 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~~ 111 (232)
--.++..++.++-++.-.++|+.++|.||.++
T Consensus 314 ~taIiaSiiAIvVIVLIMvIIYLILRYRRKKK 345 (358)
T PTZ00046 314 QTAIIASIVAIVVIVLIMVIIYLILRYRRKKK 345 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 34667777888888887888888887766443
No 46
>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=25.03 E-value=1.1e+02 Score=17.10 Aligned_cols=17 Identities=18% Similarity=0.555 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHhhhh
Q psy2912 80 VLIALQSIVFVVGLIGN 96 (232)
Q Consensus 80 ~~~~~~~~i~~~gi~gN 96 (232)
...++++.+++.|.+.|
T Consensus 10 ~vV~ffv~LFifGflsn 26 (36)
T PF02532_consen 10 TVVIFFVSLFIFGFLSN 26 (36)
T ss_dssp HHHHHHHHHHHHHHHTT
T ss_pred hhHHHHHHHHhccccCC
Confidence 34556667777777666
No 47
>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=21.05 E-value=62 Score=27.67 Aligned_cols=30 Identities=10% Similarity=0.193 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhhccCCCC
Q psy2912 81 LIALQSIVFVVGLIGNALVCIAVYRNKSMR 110 (232)
Q Consensus 81 ~~~~~~~i~~~gi~gN~lvi~~~~~~~~l~ 110 (232)
..++..++.++-++.=.++|+.++|.||.+
T Consensus 256 t~I~aSiiaIliIVLIMvIIYLILRYRRKK 285 (299)
T PF02009_consen 256 TAIIASIIAILIIVLIMVIIYLILRYRRKK 285 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445666666666666667777777665533
Done!