Query psy2988
Match_columns 184
No_of_seqs 112 out of 1143
Neff 9.5
Searched_HMMs 46136
Date Fri Aug 16 22:38:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2988.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2988hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4219|consensus 99.9 1.2E-23 2.6E-28 165.1 8.7 130 23-155 207-337 (423)
2 PHA03234 DNA packaging protein 99.9 4.3E-21 9.4E-26 152.8 14.4 113 30-153 202-316 (338)
3 PHA03235 DNA packaging protein 99.9 5.2E-21 1.1E-25 155.7 12.1 121 23-154 202-324 (409)
4 PHA02834 chemokine receptor-li 99.8 1.5E-20 3.3E-25 149.0 12.8 121 24-155 188-311 (323)
5 PHA02638 CC chemokine receptor 99.8 1.7E-18 3.8E-23 141.4 13.1 121 24-155 272-399 (417)
6 PHA03087 G protein-coupled che 99.7 3.7E-17 7.9E-22 130.1 14.0 120 27-156 205-326 (335)
7 PF10324 7TM_GPCR_Srw: Serpent 99.6 1.8E-14 3.8E-19 114.0 12.4 130 21-154 188-318 (318)
8 PF00001 7tm_1: 7 transmembran 99.6 3.4E-14 7.4E-19 107.3 9.8 110 22-136 145-257 (257)
9 KOG4220|consensus 99.5 1.4E-15 3E-20 120.2 1.2 84 69-159 410-493 (503)
10 KOG2087|consensus 98.8 1.3E-10 2.9E-15 91.0 -3.8 115 25-154 192-307 (363)
11 PF10323 7TM_GPCR_Srv: Serpent 98.4 1E-05 2.2E-10 63.3 13.0 112 34-153 172-283 (283)
12 PF05296 TAS2R: Mammalian tast 98.4 7.4E-06 1.6E-10 64.6 11.5 122 24-155 179-303 (303)
13 PF10320 7TM_GPCR_Srsx: Serpen 98.3 6.5E-06 1.4E-10 63.4 9.5 78 69-151 180-257 (257)
14 PF10321 7TM_GPCR_Srt: Serpent 98.2 2.8E-05 6E-10 61.5 10.4 115 25-156 195-310 (313)
15 PF10328 7TM_GPCR_Srx: Serpent 97.4 0.0056 1.2E-07 47.5 12.4 80 60-151 194-273 (274)
16 PF05462 Dicty_CAR: Slime mold 97.1 0.0075 1.6E-07 47.6 10.4 66 78-152 204-269 (303)
17 PF10317 7TM_GPCR_Srd: Serpent 96.9 0.024 5.2E-07 44.5 11.7 73 69-149 220-292 (292)
18 PF10327 7TM_GPCR_Sri: Serpent 96.9 0.025 5.5E-07 44.7 11.4 108 27-146 195-302 (303)
19 PF11970 Git3_C: G protein-cou 96.4 0.005 1.1E-07 38.3 3.4 68 69-142 5-73 (76)
20 PF02101 Ocular_alb: Ocular al 95.6 0.055 1.2E-06 43.6 7.0 27 74-100 242-268 (405)
21 KOG4193|consensus 95.4 0.13 2.9E-06 44.5 9.0 72 73-157 514-585 (610)
22 PF03402 V1R: Vomeronasal orga 95.2 0.05 1.1E-06 42.1 5.4 104 35-147 157-263 (265)
23 PF10318 7TM_GPCR_Srh: Serpent 94.9 0.36 7.7E-06 37.9 9.7 76 69-153 226-302 (302)
24 KOG4564|consensus 94.5 0.11 2.4E-06 43.3 5.9 102 37-155 319-421 (473)
25 PF03125 Sre: C. elegans Sre G 94.2 2.2 4.9E-05 34.6 12.9 42 114-155 282-323 (365)
26 PF10326 7TM_GPCR_Str: Serpent 94.0 0.0091 2E-07 47.0 -1.2 110 26-148 197-307 (307)
27 PF04789 DUF621: Protein of un 93.6 1.9 4.1E-05 33.6 10.5 107 27-151 189-296 (305)
28 PF10322 7TM_GPCR_Sru: Serpent 93.5 0.79 1.7E-05 36.4 8.8 131 3-146 169-305 (307)
29 PF10319 7TM_GPCR_Srj: Serpent 91.8 3.8 8.3E-05 32.5 10.4 72 67-146 237-309 (310)
30 PF02118 Srg: Srg family chemo 85.4 9.6 0.00021 29.2 8.8 18 129-146 257-274 (275)
31 KOG4220|consensus 83.9 2.3 4.9E-05 35.2 4.7 25 25-49 193-217 (503)
32 PF10292 7TM_GPCR_Srab: Serpen 79.1 31 0.00066 27.5 10.3 82 67-152 224-305 (324)
33 PF10669 Phage_Gp23: Protein g 65.3 32 0.0007 22.3 5.4 23 27-49 16-38 (121)
34 PF15086 UPF0542: Uncharacteri 64.8 30 0.00064 21.2 5.3 25 25-49 20-45 (74)
35 PF02076 STE3: Pheromone A rec 64.4 46 0.001 26.1 7.3 22 78-99 200-221 (283)
36 PF04505 Dispanin: Interferon- 62.0 11 0.00023 23.7 2.8 24 25-49 21-44 (82)
37 PF09889 DUF2116: Uncharacteri 59.8 12 0.00025 22.0 2.5 22 69-90 33-54 (59)
38 PF00375 SDF: Sodium:dicarboxy 55.9 1.1E+02 0.0025 25.0 8.8 110 34-152 137-247 (390)
39 KOG2575|consensus 54.7 11 0.00025 31.1 2.5 24 72-95 255-278 (510)
40 PRK04989 psbM photosystem II r 53.9 26 0.00057 18.1 2.9 23 26-48 7-29 (35)
41 TIGR03038 PS_II_psbM photosyst 49.9 35 0.00076 17.4 3.0 22 26-47 7-28 (33)
42 PF05478 Prominin: Prominin; 49.3 86 0.0019 28.6 7.4 33 71-103 456-488 (806)
43 CHL00080 psbM photosystem II p 48.5 35 0.00076 17.5 2.8 23 26-48 7-29 (34)
44 COG1823 Predicted Na+/dicarbox 46.6 1.7E+02 0.0037 24.3 7.8 68 69-136 216-292 (458)
45 PF12273 RCR: Chitin synthesis 45.9 29 0.00062 23.7 3.1 11 39-49 13-23 (130)
46 PF05151 PsbM: Photosystem II 40.6 51 0.0011 16.6 3.8 22 27-48 8-29 (31)
47 PHA01815 hypothetical protein 36.3 77 0.0017 17.4 3.8 23 27-49 8-30 (55)
48 TIGR02736 cbb3_Q_epsi cytochro 35.5 74 0.0016 18.4 3.1 25 34-58 5-29 (56)
49 PRK14094 psbM photosystem II r 34.5 32 0.0007 19.0 1.5 26 25-50 6-31 (50)
50 PF00002 7tm_2: 7 transmembran 34.4 13 0.00029 27.9 0.0 21 73-93 195-215 (242)
51 PLN00090 photosystem II reacti 32.8 1E+02 0.0022 19.9 3.8 26 24-49 75-100 (113)
52 KOG3827|consensus 32.4 21 0.00046 29.2 0.8 34 71-104 59-92 (400)
53 PF12166 DUF3595: Protein of u 32.3 74 0.0016 26.4 4.1 31 71-101 61-91 (422)
54 PF13631 Cytochrom_B_N_2: Cyto 31.0 1.5E+02 0.0032 21.2 5.0 25 30-54 94-118 (168)
55 PF06454 DUF1084: Protein of u 30.3 2.7E+02 0.0059 21.8 6.9 26 76-101 206-231 (281)
56 COG1862 YajC Preprotein transl 28.3 89 0.0019 20.3 3.1 17 34-50 12-28 (97)
57 PF06170 DUF983: Protein of un 27.8 1.2E+02 0.0026 19.2 3.6 38 2-41 8-45 (86)
58 PF06072 Herpes_US9: Alphaherp 27.1 1.4E+02 0.003 17.5 3.6 22 71-92 28-50 (60)
59 PF03155 Alg6_Alg8: ALG6, ALG8 26.4 52 0.0011 27.9 2.2 25 71-95 220-244 (469)
60 TIGR01478 STEVOR variant surfa 25.5 1.2E+02 0.0026 24.0 3.8 26 29-54 263-288 (295)
61 PF15018 InaF-motif: TRP-inter 25.4 65 0.0014 17.1 1.7 27 23-49 6-32 (38)
62 COG4665 FcbT2 TRAP-type mannit 25.4 1.3E+02 0.0029 21.8 3.7 70 22-98 89-161 (182)
63 PTZ00370 STEVOR; Provisional 25.1 1.3E+02 0.0028 23.8 3.9 21 34-54 264-284 (296)
64 PF05393 Hum_adeno_E3A: Human 24.9 75 0.0016 20.3 2.2 7 80-86 39-45 (94)
65 PF05814 DUF843: Baculovirus p 24.7 1.9E+02 0.0041 18.2 4.0 6 69-74 64-69 (83)
66 PF02009 Rifin_STEVOR: Rifin/s 24.6 1.7E+02 0.0038 23.2 4.7 23 27-49 258-280 (299)
67 KOG3500|consensus 24.5 1.9E+02 0.004 18.2 3.8 26 71-98 30-55 (84)
68 PF12725 DUF3810: Protein of u 24.0 2.9E+02 0.0063 22.1 5.9 22 72-93 58-79 (318)
69 PF15102 TMEM154: TMEM154 prot 23.6 13 0.00029 26.0 -1.5 11 33-43 60-70 (146)
70 KOG4433|consensus 22.6 5E+02 0.011 22.3 9.1 69 71-139 236-310 (526)
71 PHA02909 hypothetical protein; 21.1 1.8E+02 0.004 16.7 4.9 25 25-49 36-60 (72)
72 TIGR02976 phageshock_pspB phag 20.1 2.3E+02 0.005 17.5 4.2 17 33-49 5-21 (75)
73 PF11014 DUF2852: Protein of u 20.0 2.1E+02 0.0045 19.3 3.7 23 77-100 11-33 (115)
74 MTH00016 CYTB cytochrome b; Va 20.0 3E+02 0.0064 22.7 5.3 25 30-54 180-204 (378)
No 1
>KOG4219|consensus
Probab=99.90 E-value=1.2e-23 Score=165.06 Aligned_cols=130 Identities=20% Similarity=0.273 Sum_probs=109.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHh
Q psy2988 23 TAYYTFRVLFVHTGPCISLVVRNLLFW-QHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVI 101 (184)
Q Consensus 23 ~~y~~~~~~~~~~iP~~ii~~~y~~i~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~ 101 (184)
+.|...+.++.|++|++++.+.|..|. +++..+..++++.+...+.+.++|+.||+++|++.|.+||+||++..++...
T Consensus 207 ~~y~~vl~~lqYflPliVl~~~Yt~iav~LW~~~~~gd~~d~~~~~~kak~K~vkmliiVV~~FaicWlPyh~y~il~~~ 286 (423)
T KOG4219|consen 207 QGYNYVLLFLQYFLPLIVLGLAYTVIAVTLWGRRIPGDQQDRKHEQLKAKKKVVKMLIIVVVIFAICWLPYHIYFILNAT 286 (423)
T ss_pred cceeeeehhHHHHHHHHHHHHHHHHHHHHHHhccCccchhchhhHHHHHHHHHHHHHHHHHHHHHHhccChhHHHHHHHh
Confidence 458888889999999999999999999 5666666666555444566888999999999999999999999999998765
Q ss_pred hccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 102 SSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 102 ~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
. .+..+............+|++.|+|.||+||+++|++||.++++.|+++.
T Consensus 287 ~---~~i~~~k~i~~vyl~~~WLaMSst~yNPiIY~~lN~Rfr~gf~~~fr~cp 337 (423)
T KOG4219|consen 287 N---PEINRKKFIQQVYLAIYWLAMSSTCYNPIIYCFLNKRFRGGFRRAFRWCP 337 (423)
T ss_pred H---HHHHHHHHHHHHHHHHHHHHHHHhhhccHhhhhhHHHHHHHHhhhhheee
Confidence 5 33344566677777889999999999999999999999999999998763
No 2
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.87 E-value=4.3e-21 Score=152.83 Aligned_cols=113 Identities=13% Similarity=0.207 Sum_probs=83.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchh--
Q psy2988 30 VLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTE-- 107 (184)
Q Consensus 30 ~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~-- 107 (184)
.++.|++|+++|+++|.+|.+..++. +.++++|+++++++++++|++||+||+++.++.........
T Consensus 202 ~~~~f~iPl~im~~cY~~I~~~L~~~-----------~~~~~~k~~k~i~~vv~vF~iCWlPy~iv~l~~~~~~~~~~~~ 270 (338)
T PHA03234 202 CFIWGIFPTMIFSFFYVIFCKALHAL-----------TEKKHKKTLFFIRILILSFLCIQIPNIAILICEIAFLYIANNS 270 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh-----------hhhhhhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHhcccCc
Confidence 34457999999999999998544321 11346789999999999999999999999876544311111
Q ss_pred hchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcc
Q psy2988 108 ILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIR 153 (184)
Q Consensus 108 ~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~ 153 (184)
............++.+++++|||+||+||++++++||+++++++..
T Consensus 271 c~~~~~~~~~~~v~~~La~~nsclNPiIY~f~~~~FR~~~~~~~~~ 316 (338)
T PHA03234 271 CFGLAQREILQIIIRLMPEIHCFSNPLVYAFTGGDFRLRFTACFQD 316 (338)
T ss_pred chHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhHHHHHHHHHHHHH
Confidence 0111223445678889999999999999999999999998876643
No 3
>PHA03235 DNA packaging protein UL33; Provisional
Probab=99.86 E-value=5.2e-21 Score=155.70 Aligned_cols=121 Identities=11% Similarity=0.247 Sum_probs=91.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy2988 23 TAYYTFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVIS 102 (184)
Q Consensus 23 ~~y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~ 102 (184)
..|.++..++.|++|+++|+++|.+|.+..++.. .++++|+.+++++++++|++||+||+++.++..+.
T Consensus 202 ~~y~i~l~i~~f~iPl~im~~~Y~~I~~~l~~~~-----------~~~~~k~~~~v~iivv~F~iCWlPy~v~~l~~~~~ 270 (409)
T PHA03235 202 STFKVLLTLVWGIAPVVMMTWFYTFFYRTLKRAS-----------YKKRSRTLTFVCILLLSFLCLQTPFVAIMIFDSYA 270 (409)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----------hhcchhhhhhHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4577777888899999999999999995433211 12345778899999999999999999998876543
Q ss_pred ccc-hhhc-hhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhccc
Q psy2988 103 SSV-TEIL-DYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRG 154 (184)
Q Consensus 103 ~~~-~~~~-~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~ 154 (184)
... ..+. .......+..++.+++++|||+||+||++++++||+++++.+.+.
T Consensus 271 ~~~~~~~~~~~~~~~~~~~i~~~La~~ns~lNPiIY~~~~~~FRk~~~~~l~~~ 324 (409)
T PHA03235 271 TLIWPSDCEHINLRDAVSTLSRLVPNLHCLLNPILYAFLGNDFLKRFRQCFRGE 324 (409)
T ss_pred HhcCCCCchhhhHHHHHHHHHHHHHHHHHhHhHHHHHHhhHHHHHHHHHHHhhh
Confidence 211 1010 112234566788889999999999999999999999999988653
No 4
>PHA02834 chemokine receptor-like protein; Provisional
Probab=99.85 E-value=1.5e-20 Score=148.98 Aligned_cols=121 Identities=16% Similarity=0.211 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhc
Q psy2988 24 AYYTFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISS 103 (184)
Q Consensus 24 ~y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~ 103 (184)
.|.....++.|++|+++|+++|.+|.+..+++. +++++|.+|++++++++|++||+||++..++..+.+
T Consensus 188 ~~~~~~~i~~f~iPl~ii~~~Y~~I~~~l~~~~-----------~~~~~k~~k~~~~vv~~F~icWlPy~i~~~l~~~~~ 256 (323)
T PHA02834 188 FFNFEINIFGIVIPLIILIYCYSKILYTLKNCK-----------NKNKTRSIKIILTVVTFTVVFWVPFNIVLFINSLQS 256 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----------CcccceEEeehhHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 344455677899999999999999995443321 133568899999999999999999999988765542
Q ss_pred cchhhch---hhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 104 SVTEILD---YDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 104 ~~~~~~~---~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
....... .........++.+++++||++||+||++++++||+++++++++..
T Consensus 257 ~~~~~~~~~~~~~~~~~~~i~~~l~~~ns~iNPiIY~~~~~~fR~~~~~~~~~~~ 311 (323)
T PHA02834 257 VGLIDIGCYHFKKIVYSIDIAELISFVHCCVNPIIYAFVGKNFKKVFKNMFCRTN 311 (323)
T ss_pred hcCCCccchHHHHHHHHHHHHHHHHHhhccccHHHHHHhcHHHHHHHHHHHHhhh
Confidence 1111111 111122345778899999999999999999999999999986544
No 5
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=99.79 E-value=1.7e-18 Score=141.40 Aligned_cols=121 Identities=12% Similarity=0.104 Sum_probs=90.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhc
Q psy2988 24 AYYTFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISS 103 (184)
Q Consensus 24 ~y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~ 103 (184)
.+.+...++.+++|+++|++||.+|.+..++.. .++++|.+|+++.++++|++||+||+++.++..+..
T Consensus 272 ~~~~~~~i~~f~lPl~vmi~cY~~I~~~L~~~~-----------~~~k~k~~rli~~ivi~f~lcW~Py~i~~ll~~~~~ 340 (417)
T PHA02638 272 ILQFEINILGMFIPIIIFAFCYIKIILKLKQLK-----------KSKKTKSIIIVSIIIICSLICWIPLNIVILFATMYS 340 (417)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----------ccccchhhhhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 345555677799999999999999995443211 123567789999999999999999999988866542
Q ss_pred cchh------hc-hhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 104 SVTE------IL-DYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 104 ~~~~------~~-~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
.... .. ..........++..++++|||+||+||++.+++||+++++++++..
T Consensus 341 ~~~~~~~~~~~~c~~~~l~~~~~vt~~la~~~sclNPiIY~f~~~~FR~~l~~~~~~~~ 399 (417)
T PHA02638 341 FKGFNSIISEHICGFIKLGYAMMLAEAISLTHCCINPLIYTLIGENFRMHLLMIFRNIF 399 (417)
T ss_pred hhccccccccccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHhCHHHHHHHHHHHHHhc
Confidence 1110 00 0112334556788999999999999999999999999999885543
No 6
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=99.75 E-value=3.7e-17 Score=130.12 Aligned_cols=120 Identities=12% Similarity=0.043 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccch
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVT 106 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~ 106 (184)
+...++.+++|++++.++|.++.+..++.. +.++++|++|++++++++|++||+|+++..++..+.....
T Consensus 205 ~~~~~~~~~lP~~ii~~~y~~i~~~l~~~~----------~~~~~~k~~k~l~~iv~~f~i~w~P~~i~~~~~~~~~~~~ 274 (335)
T PHA03087 205 FEINIIGMLIPLTILLYCYSKILITLKGIN----------KSKKNKKAIKLVLIIVILFVIFWLPFNVSVFVYSLHILHF 274 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----------cchhcchHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 445667799999999999999984443321 1134678899999999999999999999877654321111
Q ss_pred --hhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhccccc
Q psy2988 107 --EILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGAV 156 (184)
Q Consensus 107 --~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~~ 156 (184)
..........+..+..+++.+|+++||+||++++++||++++++++....
T Consensus 275 ~~~~~~~~~~~~~~~i~~~l~~~ns~~NPiIY~~~~~~fr~~~~~~~~~~~~ 326 (335)
T PHA03087 275 KSGCKAVKYIQYALHVTEIISLSHCCINPLIYAFVSEFFNKHKKKSLKLMFT 326 (335)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHhhhhhHHHHcCHHHHHHHHHHHHHHhh
Confidence 11122334456667888999999999999999999999999999965543
No 7
>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=99.60 E-value=1.8e-14 Score=114.03 Aligned_cols=130 Identities=25% Similarity=0.417 Sum_probs=101.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHH
Q psy2988 21 YFTAYYTFRVLFVHTGPCISLVVRNLLFW-QHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILH 99 (184)
Q Consensus 21 ~~~~y~~~~~~~~~~iP~~ii~~~y~~i~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~ 99 (184)
..+.|.+..+++..++|+++..++.+.++ ++++.++.++...++ +.+++.+++++++.+++.|+++.+|.++..++.
T Consensus 188 ~~~~~~~~~gi~~kiiP~il~~ilti~Li~~Lrk~~~~r~~~~~~--~~~~~~~tt~li~~~ti~f~i~e~p~gi~~~~~ 265 (318)
T PF10324_consen 188 FFRIYFFIDGIFFKIIPCILLPILTILLIIELRKAKKRRKKLSSS--KSKKSDRTTKLILFMTISFLISELPQGIIFLLE 265 (318)
T ss_pred HHHHHHHhhhhHhhhhhHHHHHHHHHHHHHHHHhccHhhhccccc--ccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777788889999999999999888 344333332222211 146788999999999999999999999999997
Q ss_pred HhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhccc
Q psy2988 100 VISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRG 154 (184)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~ 154 (184)
.+.+... ........+..+.+.+..+|+++|++||+++|++||++++++++++
T Consensus 266 ~~~~~~~--~~~~~~~~~~~~~~~l~~~ns~~h~~ic~~mSsqYR~t~~~~f~~k 318 (318)
T PF10324_consen 266 SFFEEDS--GLIFIIIQLSIIFNILITINSSIHFFICCFMSSQYRKTVKKLFGCK 318 (318)
T ss_pred HHHhhhc--chhHHHHHHHHHHHHHHHHHhhhHHHhhhhhhHHHHHHHHHHhccC
Confidence 7643222 2245566777788999999999999999999999999999999864
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=99.55 E-value=3.4e-14 Score=107.29 Aligned_cols=110 Identities=21% Similarity=0.360 Sum_probs=85.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh-hcc--hhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHH
Q psy2988 22 FTAYYTFRVLFVHTGPCISLVVRNLLFWQHKRDKLF-KEN--KKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTIL 98 (184)
Q Consensus 22 ~~~y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~ 98 (184)
...+.....++.+++|++++.++|.++.+..+++.. ... .+...++.++++|.+++++.++++|++||+|+.+..++
T Consensus 145 ~~~~~~~~~~~~~~~p~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~P~~i~~~~ 224 (257)
T PF00001_consen 145 SQIYFIYFFIVFFILPLIIILICYIRILRKLRRQRKRIKSQSSSSSRRRSRRERRAARTLLIIVLVFLLCWLPYFILSLL 224 (257)
T ss_dssp HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHCTCCHTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccccccccccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccCCceeHHHHH
Confidence 456888888888999999999999999943333222 211 12334456778899999999999999999999999888
Q ss_pred HHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeeh
Q psy2988 99 HVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIY 136 (184)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY 136 (184)
....+.. +. .......++.+++++|+++||++|
T Consensus 225 ~~~~~~~----~~-~~~~~~~~~~~l~~~~s~~nP~iY 257 (257)
T PF00001_consen 225 SVFSPSS----SL-ISSILFYISYFLAFLNSCLNPIIY 257 (257)
T ss_dssp HHHSSTS----TC-SHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHcCcc----ch-hhHHHHHHHHHHHHHHHhhCcEEC
Confidence 7766432 11 467778888999999999999998
No 9
>KOG4220|consensus
Probab=99.54 E-value=1.4e-15 Score=120.19 Aligned_cols=84 Identities=18% Similarity=0.265 Sum_probs=71.8
Q ss_pred hccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHH
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFK 148 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~ 148 (184)
.+|+|+++++..|.++|+++|.||.|+.++..++.. .....+-.+.-+|.|+||.+||++|.+.|+.||++++
T Consensus 410 ~rErKAAkTLsAILlAFIiTWtPYNImVlv~tFC~~-------CiP~tlW~~gYwLCYINSTiNP~CYALCNatFrkTfk 482 (503)
T KOG4220|consen 410 VRERKAAKTLSAILLAFILTWTPYNIMVLVNTFCKN-------CIPETLWTFGYWLCYINSTINPLCYALCNATFRKTFK 482 (503)
T ss_pred HHHHHHHHHHHHHHHHHHHHcccceeeeehHhhccc-------ccchhHhhhhhheeeecccccHHHHHHHhHHHHHHHH
Confidence 778999999999999999999999999888766632 2245566677789999999999999999999999999
Q ss_pred HHhcccccccC
Q psy2988 149 ELFIRGAVQVG 159 (184)
Q Consensus 149 ~~~~~~~~~~~ 159 (184)
.++.|....+.
T Consensus 483 ~lL~Cr~~~~~ 493 (503)
T KOG4220|consen 483 RLLLCRWKKRR 493 (503)
T ss_pred Hhheeeecccc
Confidence 99988665443
No 10
>KOG2087|consensus
Probab=98.82 E-value=1.3e-10 Score=91.03 Aligned_cols=115 Identities=13% Similarity=0.080 Sum_probs=79.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhcc
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSS 104 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~ 104 (184)
|.+..++....+-+++|.++|+++....++........ ....++-...++..-++||.|.+++.+...+...
T Consensus 192 ~y~~~~l~~N~lafiiia~~Y~~iy~~l~~~~~~~~~~--------~~~~akr~a~LvfTd~icw~Pi~f~~~~al~~~~ 263 (363)
T KOG2087|consen 192 YYLVALLGLNLLAFIIIAFSYGKIYCSLRKGDLSATLI--------STSVAKRMAFLVFTDCICWCPIAFFKFSALIGVE 263 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhheeeecCCCccccc--------hhhhhhCeeEEEEccccccCchheeeeHHhcCCc
Confidence 77777777788999999999999994333322211111 1355666777888999999999999887665533
Q ss_pred chhhchh-hHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhccc
Q psy2988 105 VTEILDY-DAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRG 154 (184)
Q Consensus 105 ~~~~~~~-~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~ 154 (184)
....... .....+. =+|||+||++|.++++.||+.++.+..+.
T Consensus 264 li~~~~sk~llv~fl-------Plns~~NP~LYa~fT~~fk~d~~~l~~k~ 307 (363)
T KOG2087|consen 264 LISVSYSKWLLVFFL-------PLNSCLNPFLYAFFTPVFKEDLFLLLSKV 307 (363)
T ss_pred ccChhhceeEEEEEE-------EcccccCchhHHHcCHHHHHHHHHHHhhc
Confidence 2222111 1111122 24999999999999999999999888654
No 11
>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=98.41 E-value=1e-05 Score=63.25 Aligned_cols=112 Identities=12% Similarity=0.148 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhH
Q psy2988 34 HTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDA 113 (184)
Q Consensus 34 ~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~ 113 (184)
..+-++..+++|+.+....|++.. ...++.+++.++|.+++.+..+.++++++...=+...... ... .+...
T Consensus 172 ~~~~cv~~iv~Y~~i~~~iRk~~k-~~s~~~s~~~~rE~~L~~~~~i~~~a~~~~~~~~~~~~~~-~~~------~~~~~ 243 (283)
T PF10323_consen 172 VSVTCVICIVCYGIIFIFIRKRNK-KKSKSSSRSRRREIRLAIQVFILFCAFFVILVYYIFSNYF-AQN------FNTDP 243 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh-hhhHhhhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhc------ccchH
Confidence 455577888899999943333221 2233333455778888888877777766655544433222 211 11111
Q ss_pred HHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcc
Q psy2988 114 ANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIR 153 (184)
Q Consensus 114 ~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~ 153 (184)
...+..+...+.-+.|.+||+.-.++|++.|+++.+.++|
T Consensus 244 ~~~~r~~y~~~~~~~s~inP~~LLi~n~~lr~~~~~~~~~ 283 (283)
T PF10323_consen 244 IFYLRAFYPILNGLLSFINPWMLLIFNKDLRKQVRRMLKC 283 (283)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHhhhccHHHHHHHHHHcCC
Confidence 2223334555667789999999999999999999998876
No 12
>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=98.37 E-value=7.4e-06 Score=64.62 Aligned_cols=122 Identities=9% Similarity=0.062 Sum_probs=80.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhh--hcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHH
Q psy2988 24 AYYTFRVLFVHTGPCISLVVRNLLFW-QHKRDKLF--KENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHV 100 (184)
Q Consensus 24 ~y~~~~~~~~~~iP~~ii~~~y~~i~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~ 100 (184)
.+......+..++|++++.++...++ .++|+.+. ...++.+..+.+...|++|+++...+.|+++++-..+...-..
T Consensus 179 ~~~~~~~~~~~~lPf~i~l~s~~lli~SL~rH~r~M~~n~~g~~~ps~~aH~~a~k~~~sfl~ly~~~~~~~~~~~~~~~ 258 (303)
T PF05296_consen 179 FYFFILFNLGSFLPFLIFLVSSILLIFSLWRHMRRMQKNATGFRDPSTEAHIRAIKTMISFLILYIIYFLSLILSFLSFF 258 (303)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555889999999999999988 23333221 1122222234577888999988888888776655443211111
Q ss_pred hhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 101 ISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
.. . ......+...+.++.|..+|++-.+-|++.|+++++++++.+
T Consensus 259 ~~---~-------~~~~~~~~~~i~~~yps~hs~iLIlgn~KLr~~~~~il~~~k 303 (303)
T PF05296_consen 259 FP---E-------NSIWFWVCEIIIALYPSGHSIILILGNPKLRQALLKILWCLK 303 (303)
T ss_pred hc---c-------ccHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhhcC
Confidence 11 0 122334556668889999999999999999999999998753
No 13
>PF10320 7TM_GPCR_Srsx: Serpentine type 7TM GPCR chemoreceptor Srsx; InterPro: IPR019424 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class sx (Srsx), which is a solo family amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=98.30 E-value=6.5e-06 Score=63.42 Aligned_cols=78 Identities=24% Similarity=0.462 Sum_probs=60.9
Q ss_pred hccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHH
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFK 148 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~ 148 (184)
++++|+.|.+.+.++.|+.+|.=-.+...+..... .+.+....+.....+++.+|.+.|.++|.+.|++||++++
T Consensus 180 ~~~~kv~ksL~v~v~i~i~~w~~s~~~~~v~~~~~-----~~~~~~~~i~~~~~i~v~~~~s~~ffV~~~~S~EYR~af~ 254 (257)
T PF10320_consen 180 SRSKKVFKSLKVTVIIFIFSWFLSQIINTVSLALG-----LDGETIAIIQMYAGIFVNISYSQNFFVYYWRSSEYRKAFR 254 (257)
T ss_pred hhHHHHHHHhhhheeeeeHHHHHHHHHHHHHHHhC-----CcHHHHHHHHHHHHHHHHHHHHHHheEEEEcCHHHHHHHH
Confidence 33677888899999999999988887776654332 2233345566677788999999999999999999999999
Q ss_pred HHh
Q psy2988 149 ELF 151 (184)
Q Consensus 149 ~~~ 151 (184)
+++
T Consensus 255 ~~~ 257 (257)
T PF10320_consen 255 ELF 257 (257)
T ss_pred HhC
Confidence 874
No 14
>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=98.16 E-value=2.8e-05 Score=61.52 Aligned_cols=115 Identities=8% Similarity=0.107 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhc
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFWQ-HKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISS 103 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~ 103 (184)
|.-..-....++-.+.+.++|..+.. ..++.+...+. +..|.+++......++.+...+.++=|....++
T Consensus 195 Y~N~~~~~nN~~~~~~t~~lY~~l~~~l~~k~~~~~s~----~~~k~~~qI~iQs~iIC~f~~i~a~iyv~m~f~----- 265 (313)
T PF10321_consen 195 YSNIPHTFNNIIVVICTTFLYIYLCYYLIKKSKYSTSS----QLSKAQRQIFIQSVIICFFHAIAAVIYVYMQFF----- 265 (313)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccch----hhhhhhHHHHHHHHHHHHHHHHHHHHHHeeeee-----
Confidence 44344444445556677788888883 33332222221 223556777777777777777776666555332
Q ss_pred cchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhccccc
Q psy2988 104 SVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGAV 156 (184)
Q Consensus 104 ~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~~ 156 (184)
. ....+..+.+..--+++..+|+||..+||..|++++++++.++.
T Consensus 266 --~------~p~~~i~~~~~~Wql~~g~~~iIYl~lNrtIR~~~~k~~~~k~~ 310 (313)
T PF10321_consen 266 --P------PPPWLIIIGQISWQLSHGCPPIIYLTLNRTIRNSVLKMLGPKKI 310 (313)
T ss_pred --c------ccHHHHHHHHHHHhccCCccceEEEEECHHHHHHHHHHHccccc
Confidence 1 13345666677788899999999999999999999999986543
No 15
>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=97.41 E-value=0.0056 Score=47.48 Aligned_cols=80 Identities=14% Similarity=0.061 Sum_probs=56.1
Q ss_pred chhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhcc
Q psy2988 60 NKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGM 139 (184)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~ 139 (184)
..+++++++++|.+..+..+.--..|++.++=|.+..-+ . . . .......+.....+..++|++++..+
T Consensus 194 ~~~~s~~r~rke~~f~~Qs~~Q~~~~~i~~~~~~~~~~~---~------~-~--~~~~F~~~t~~w~~~h~~DG~i~l~f 261 (274)
T PF10328_consen 194 SSSESKKRRRKEIRFFIQSFIQDLLYLIDLIFYFFIPPL---S------S-N--RWWQFFCTTFSWVLVHALDGLIMLIF 261 (274)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---c------c-c--cHHHHHHHHHHHHHHHHhcceeEeEE
Confidence 334455567889999999999999999999888887443 1 1 1 11112222233455677899999999
Q ss_pred CHHHHHHHHHHh
Q psy2988 140 SRQFRETFKELF 151 (184)
Q Consensus 140 ~~~fr~~~~~~~ 151 (184)
|+++|+..++..
T Consensus 262 N~~~r~~~~~~~ 273 (274)
T PF10328_consen 262 NSEIRRKIRKKK 273 (274)
T ss_pred cHHHHHHHHhcc
Confidence 999999987653
No 16
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=97.14 E-value=0.0075 Score=47.63 Aligned_cols=66 Identities=14% Similarity=0.080 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhc
Q psy2988 78 LIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFI 152 (184)
Q Consensus 78 l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~ 152 (184)
+..=.++|++||+|-.|-.+...++. . + ..+..+-..++-+-..+|.++|.+.++-.++.+...++
T Consensus 204 L~~Yp~ifiicw~fa~INRI~~~~~~---~-~-----~~l~~Lh~~~s~lqGf~nsivy~~n~~~~~~~~~~~~~ 269 (303)
T PF05462_consen 204 LVNYPLIFIICWIFATINRIYNFIGK---N-P-----FWLSVLHVGFSPLQGFFNSIVYGYNNSLMWRYLGSKIL 269 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC---C-c-----hHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 44578889999999999988765431 1 1 12222223445557789999999999998888877664
No 17
>PF10317 7TM_GPCR_Srd: Serpentine type 7TM GPCR chemoreceptor Srd; InterPro: IPR019421 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents the chemoreceptor Srd [].
Probab=96.94 E-value=0.024 Score=44.49 Aligned_cols=73 Identities=14% Similarity=0.089 Sum_probs=53.2
Q ss_pred hccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHH
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFK 148 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~ 148 (184)
+..++.++.+..=+..=+++..|-....++...... ......+....++.+-+.+||++...+-+.||++++
T Consensus 220 ~~h~~lv~~Lt~Q~~lP~~~~~p~~~~~~~~~~~~~--------~~~~~e~~~~~~~~~~~~~~P~itl~fv~PYR~~i~ 291 (292)
T PF10317_consen 220 SMHRQLVKGLTIQALLPLFFYIPGVIIYFLSQFTGY--------EHPFLEYLIFMLASLPPLIDPLITLYFVRPYRKAIL 291 (292)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcc--------ccHHHHHHHHHHHHHHHHhchHhheeeeHhHHHHhc
Confidence 456778888887777778888877777666443321 133445555556777899999999999999999886
Q ss_pred H
Q psy2988 149 E 149 (184)
Q Consensus 149 ~ 149 (184)
+
T Consensus 292 r 292 (292)
T PF10317_consen 292 R 292 (292)
T ss_pred C
Confidence 3
No 18
>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=96.89 E-value=0.025 Score=44.69 Aligned_cols=108 Identities=9% Similarity=0.082 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccch
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVT 106 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~ 106 (184)
.....+..+.-.++..+++..+.+..++.+.+-++ +.-++.+++.+-+++=.++-.+|-+|-.+..++.....
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~m~~~L~~~k~~iS~----~ty~kHk~av~SLi~Q~~~~~i~~~P~~~~~~~~~~~~--- 267 (303)
T PF10327_consen 195 FILAFFGGFLCFVIFIFLTIDMFRMLKKLKKKISK----QTYQKHKEAVRSLIAQFATSSICILPPFIFVVVVIFEF--- 267 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheecC---
Confidence 33333444445666667777777544333222222 23355677777777777777888899998876544321
Q ss_pred hhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHH
Q psy2988 107 EILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRET 146 (184)
Q Consensus 107 ~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~ 146 (184)
.....+.........+.|.+|-++-.++++.||+-
T Consensus 268 -----~~~q~i~~~~~~~f~~HS~~n~ivli~t~ppYR~f 302 (303)
T PF10327_consen 268 -----EDAQVISEICLAIFSSHSSVNMIVLIITTPPYRKF 302 (303)
T ss_pred -----CCcHHHHHHHHHHHHHhhHhhheeeeEcCcchhhc
Confidence 11234445556667889999999999999999984
No 19
>PF11970 Git3_C: G protein-coupled glucose receptor regulating Gpa2 C-term; InterPro: IPR022596 This entry contains a functionally uncharacterised region belonging to the Git3 G-protein coupled receptor. Git3 is one of six proteins required for glucose-triggered adenylate cyclase activation, and is a G protein-coupled receptor responsible for the activation of adenylate cyclase through Gpa2 - heterotrimeric G protein alpha subunit, part of the glucose-detection pathway. Git3 contains seven predicted transmembrane domains, a third cytoplasmic loop and a cytoplasmic tail []. This family is the conserved C-terminal domain of the member proteins.
Probab=96.36 E-value=0.005 Score=38.26 Aligned_cols=68 Identities=9% Similarity=0.129 Sum_probs=48.9
Q ss_pred hccccchhhHHHHHHHHHHHhH-HHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHH
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEI-PLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQ 142 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~-P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~ 142 (184)
++-+|.++.+++=-++|+++|+ |+.+-.+-.... ........+..++..+..+|..+|-++|++.-+.
T Consensus 5 ~~i~r~lr~mfiYP~~Yi~lwlfP~~~~~~~~~~~------~~~~p~~~l~~i~~~~~~~~G~VD~lvf~~~erp 73 (76)
T PF11970_consen 5 KRIRRQLRSMFIYPLVYIVLWLFPFAAHRMQYMYE------IGHGPSFWLFCIAGFMQPSQGFVDCLVFTLRERP 73 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc------cCCCCchHHHHHHHHHHHccCHHHhhheeeeccc
Confidence 4456778889999999999999 988765543211 1122244566677778888999999999987654
No 20
>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=95.65 E-value=0.055 Score=43.65 Aligned_cols=27 Identities=15% Similarity=0.265 Sum_probs=20.6
Q ss_pred chhhHHHHHHHHHHHhHHHHHHHHHHH
Q psy2988 74 TTLMLIVVVTVFLLVEIPLAVVTILHV 100 (184)
Q Consensus 74 ~~~~l~~i~~~F~icw~P~~i~~~~~~ 100 (184)
.-+-.+.|.++|.+||+|..|--++..
T Consensus 242 IK~kFf~I~lVF~iCWlpNIINg~LL~ 268 (405)
T PF02101_consen 242 IKIKFFKIMLVFYICWLPNIINGSLLF 268 (405)
T ss_pred HHHHHHHHHHHHHHHhhhhhHhHHHHH
Confidence 334467788999999999998776543
No 21
>KOG4193|consensus
Probab=95.41 E-value=0.13 Score=44.46 Aligned_cols=72 Identities=13% Similarity=0.229 Sum_probs=41.7
Q ss_pred cchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhc
Q psy2988 73 CTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFI 152 (184)
Q Consensus 73 ~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~ 152 (184)
+..+..+.++.++=+.|+ +.+..+. .+ ....+.++..++-.+-..+=.+.|+.++++.|++.++.++
T Consensus 514 ~~~~~~l~L~~lLGlTW~-fgi~s~~-------~~-----~~~v~~YlFti~NalQG~fIFi~~cll~~kvr~~~~k~~~ 580 (610)
T KOG4193|consen 514 SLIRSALALLFLLGLTWI-FGIFSWL-------PG-----TSVVFAYLFTIFNALQGVFIFIFHCLLRKKVRKEYRKWLC 580 (610)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHh-------cc-----cchHHHHHHHHHHHhhhhHhhHhhhhhhHHHHHHHHHHhc
Confidence 556666666666666665 2222221 10 1223333333333333455578899999999999999998
Q ss_pred ccccc
Q psy2988 153 RGAVQ 157 (184)
Q Consensus 153 ~~~~~ 157 (184)
|.+..
T Consensus 581 ~~~~~ 585 (610)
T KOG4193|consen 581 CGRGD 585 (610)
T ss_pred ccCCC
Confidence 65543
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=95.22 E-value=0.05 Score=42.14 Aligned_cols=104 Identities=9% Similarity=-0.007 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHHH---HHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchh
Q psy2988 35 TGPCISLVVRNLLFW---QHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDY 111 (184)
Q Consensus 35 ~iP~~ii~~~y~~i~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~ 111 (184)
++.+.+|+...+.|. ++.+++-..-+......+...|.|+++.+++.+..|+..+..-.+........ .+.
T Consensus 157 ~~fvgLM~~aSgyMV~~L~RH~q~VqhIhs~~~s~r~SpE~RAtktILlLVs~FV~fY~l~si~~~~~~~~---~~~--- 230 (265)
T PF03402_consen 157 VLFVGLMIWASGYMVFLLYRHHQQVQHIHSSSLSPRSSPETRATKTILLLVSTFVSFYGLSSILFIYLTSF---KNS--- 230 (265)
T ss_pred HHHHHHHHhhhhhheeeeeecccccccCcCCCCCCCCChhHHHhCeEeeHHHHHHHHHhHHHHHHHHHHHh---cCC---
Confidence 445667777777776 22222211111111122346789999999999999999999988875543322 111
Q ss_pred hHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHH
Q psy2988 112 DAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETF 147 (184)
Q Consensus 112 ~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~ 147 (184)
.....+...++.+-+++.|++-.-.+++..+-.
T Consensus 231 ---~~~~~~~~~ls~cfptisPfvLI~~d~~i~~~~ 263 (265)
T PF03402_consen 231 ---PWLLNISVFLSSCFPTISPFVLISSDKRIIKFL 263 (265)
T ss_pred ---cceeEHHHHHhHHhHhhChHHhhccCchHHHHh
Confidence 111234456677889999999999988877654
No 23
>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=94.94 E-value=0.36 Score=37.89 Aligned_cols=76 Identities=17% Similarity=0.204 Sum_probs=49.2
Q ss_pred hccccchhhHHH-HHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHH
Q psy2988 69 RDSNCTTLMLIV-VVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETF 147 (184)
Q Consensus 69 ~~~~~~~~~l~~-i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~ 147 (184)
+..+|..+.+.+ +.+-+++.-.|.....+...... . ...+..+...+.......+-+...+.++.||+.+
T Consensus 226 k~Qkkfl~~l~iQ~~ip~~~l~~P~~~~~~~~~~~~-~--------~q~~~n~~~~~~~~HG~~sti~mi~~~~pYR~~~ 296 (302)
T PF10318_consen 226 KMQKKFLIALIIQVLIPFIFLFIPLIYFIISIIFGY-Y--------NQALNNISFIIISLHGIASTIVMILVHKPYRKFL 296 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-c--------ccccchHHHHHHHhccHHHHHHHhhccHHHHHHH
Confidence 334555554433 34444555668877765433221 1 1223344455667788999999999999999999
Q ss_pred HHHhcc
Q psy2988 148 KELFIR 153 (184)
Q Consensus 148 ~~~~~~ 153 (184)
.++++|
T Consensus 297 ~~~~~~ 302 (302)
T PF10318_consen 297 LSLFRC 302 (302)
T ss_pred HHHhcC
Confidence 999976
No 24
>KOG4564|consensus
Probab=94.48 E-value=0.11 Score=43.33 Aligned_cols=102 Identities=14% Similarity=0.112 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchh-hHHH
Q psy2988 37 PCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDY-DAAN 115 (184)
Q Consensus 37 P~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~-~~~~ 115 (184)
++++-.++.+.|+++.-++.+.++...+ ...+|++|-.++.+=+|=|-.+.+.. . ++. ....
T Consensus 319 ai~vNf~flinIvrILv~KLr~~~~~~~----~~y~K~vKaTLvLIPLfGI~~ilf~~-------~------P~~~~~~~ 381 (473)
T KOG4564|consen 319 AILVNFIFLINIVRILVTKLRASNASET----DQYRKLVKATLVLIPLFGIHYILFAF-------R------PDEDTLRE 381 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCccccch----HHHHHHHHHHHHHHHHcCCeeEEEEe-------c------CchHHHHH
Confidence 3444444455555433332222222222 22677888777766555433222111 1 111 1122
Q ss_pred HHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 116 VLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 116 ~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
...++...|..+...+=-+||||.|++.|.++++...+.+
T Consensus 382 v~~~~~~~L~SfQGf~VAvlYCFlN~EVq~elrr~W~r~~ 421 (473)
T KOG4564|consen 382 VYLYFELFLGSFQGFFVAVLYCFLNGEVQAELRRKWSRWR 421 (473)
T ss_pred HHHHHHHHHHhccchheehheeecCHHHHHHHHHHHHhcC
Confidence 3333444455555567778999999999999999887655
No 25
>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=94.18 E-value=2.2 Score=34.60 Aligned_cols=42 Identities=14% Similarity=0.092 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHhcccc
Q psy2988 114 ANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELFIRGA 155 (184)
Q Consensus 114 ~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~~~~~ 155 (184)
...+..+.+....+++.+=|.+-....++.|+++++.+...+
T Consensus 282 ~~~~~~~~e~~i~l~~~~i~~~~i~s~~~wrk~f~~~~~~~~ 323 (365)
T PF03125_consen 282 RTILNHIFENCIFLNPIFICPVIIFSVPSWRKEFKRSFPKIR 323 (365)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHcCHHHHHHHHHhhhhhh
Confidence 345556667778888888888888999999999998886533
No 26
>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=94.03 E-value=0.0091 Score=47.03 Aligned_cols=110 Identities=12% Similarity=0.148 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHH-HHHHHHHHhHHHHHHHHHHHhhcc
Q psy2988 26 YTFRVLFVHTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIV-VVTVFLLVEIPLAVVTILHVISSS 104 (184)
Q Consensus 26 ~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-i~~~F~icw~P~~i~~~~~~~~~~ 104 (184)
..........+.+.++++|-.++.+..++..... +.+.++-.+++.+.+++ .++-.+...+|..+..+.-.++-+
T Consensus 197 ~~~~~~~im~~s~~iii~cg~~~~~~i~~~~~~~----S~~~~~lq~QLf~aLv~Qt~iP~i~~~~P~~~~~~~p~~~i~ 272 (307)
T PF10326_consen 197 GMLIMCIIMSISFFIIIYCGIKIYKKIKKLSSIM----SSKTRKLQKQLFKALVIQTIIPFIFMYIPVFIVFILPFFGID 272 (307)
T ss_pred eeeecchhHHhHHHHHHHHHhhhHHHHhcccccc----ChhhHHHHHHHHHHHHHHhhhhheeeecchhheeeeeccCCC
Confidence 3444445566778888888888884443322221 11122334555555543 345567888999988655332211
Q ss_pred chhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHH
Q psy2988 105 VTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFK 148 (184)
Q Consensus 105 ~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~ 148 (184)
. .....+...+..+-|++||++-.+.-|+||++++
T Consensus 273 ----~-----~~~~~~~~~~~~~yP~iDpl~~i~~ik~yR~~i~ 307 (307)
T PF10326_consen 273 ----L-----GFFSNIISILISLYPAIDPLPVIFIIKDYRKAIK 307 (307)
T ss_pred ----C-----CccccHhhhhEEEEeehhhheeeEeeHHHHHhhC
Confidence 1 1112233344666899999999999999999874
No 27
>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=93.57 E-value=1.9 Score=33.59 Aligned_cols=107 Identities=11% Similarity=0.119 Sum_probs=63.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccc
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFW-QHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSV 105 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~ 105 (184)
++-.++.+.+|+.+.++ |+.++ ++...++... .|.|.+..|.-+.+.++|-+.- .+. .+++..
T Consensus 189 iiE~ilQ~~IPi~Il~i-YiAIIiKI~~MKkssL--------nK~Ei~ILKQAifIFvlFQ~ss---~VF----l~~qt~ 252 (305)
T PF04789_consen 189 IIEIILQFGIPIFILVI-YIAIIIKIIKMKKSSL--------NKNEITILKQAIFIFVLFQASS---CVF----LLCQTF 252 (305)
T ss_pred HHHHHHHHhHHHHHHHH-HHHHHHHHHHHhhccC--------CchhHHHHHHHHHHHHHHHHHH---HHH----Hhheee
Confidence 36777788999977766 66665 4442221111 1336667777666655554443 222 222211
Q ss_pred hhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHHHHHHh
Q psy2988 106 TEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRETFKELF 151 (184)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~~~~~~ 151 (184)
. ......-.+..+.+.+-....+.-|-...++|++.|+-+..-.
T Consensus 253 ~--~~~~tAFlIKR~iNT~ei~agaatP~ffffTs~eirk~~s~kv 296 (305)
T PF04789_consen 253 K--FNVATAFLIKRIINTMEIFAGAATPCFFFFTSKEIRKLVSSKV 296 (305)
T ss_pred e--ecchHHHHHHHHHHHHHHHhhccCCeEEEEehHHHHHHHHhhc
Confidence 1 2222234455566777777889999999999999998775433
No 28
>PF10322 7TM_GPCR_Sru: Serpentine type 7TM GPCR chemoreceptor Sru; InterPro: IPR003839 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 u (Sru) from the Srg superfamily [].
Probab=93.48 E-value=0.79 Score=36.37 Aligned_cols=131 Identities=12% Similarity=0.111 Sum_probs=62.3
Q ss_pred cccccCCCceee-----eeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhcchhhHhhhhhccccchh
Q psy2988 3 QLQRPEHAAWVT-----WLSVDFYFTAYYTFRVLFVHTGPCISLVVRNLLFWQHKRDKL-FKENKKSECKRLRDSNCTTL 76 (184)
Q Consensus 3 ~~c~~~~~~~~~-----~~~~~~~~~~y~~~~~~~~~~iP~~ii~~~y~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 76 (184)
.+|.+-+.++.. ...++............... .-++.++++++.+..+.|+.+ ...+.+++.+++|.|+-++.
T Consensus 169 G~C~Ql~~Pf~fGAI~I~~~~~~~~~~~~~~~l~~s~-~~~~~iii~N~lm~~Klr~~k~~l~~~~~s~~~~KAE~SLT~ 247 (307)
T PF10322_consen 169 GYCRQLDPPFPFGAIIITSTGSWFNIRNSIFHLFFSI-FWMISIIILNILMFFKLRKLKSSLSSQRRSKQSRKAERSLTL 247 (307)
T ss_pred EEEEeCCCCCCCCEEEEEEEcccccchhhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhcccchhhcccchhhheeHHH
Confidence 467776666622 22222222223333333323 334455566777774444333 23333444445677877777
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHH
Q psy2988 77 MLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRET 146 (184)
Q Consensus 77 ~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~ 146 (184)
+.++|++-++. ..++.+..... .....++..+-....=+-.++=|+++.++++-||++
T Consensus 248 Tmi~mliP~i~----n~i~~i~~~~~--------~~~~~y~~~iRp~~~D~~~~iv~w~FY~THP~Fkkk 305 (307)
T PF10322_consen 248 TMISMLIPYIT----NGIISISFLFF--------PSYSSYILLIRPFGNDCRTCIVPWYFYLTHPIFKKK 305 (307)
T ss_pred HHHHHHHHHHH----HHHHHHHHhcC--------chHHHHHHHHhhhhhccceeEEEEEeeecChhhcCC
Confidence 77777664432 11222211111 111222222222222334577788888888888763
No 29
>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=91.79 E-value=3.8 Score=32.52 Aligned_cols=72 Identities=13% Similarity=-0.052 Sum_probs=43.2
Q ss_pred hhhccccchhhHHHHHH-HHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHH
Q psy2988 67 RLRDSNCTTLMLIVVVT-VFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRE 145 (184)
Q Consensus 67 ~~~~~~~~~~~l~~i~~-~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~ 145 (184)
..+-.+++.|.+++=++ --++|+.|-.+....-.++ .+.............-+=|.+||+.-.+.-+.||+
T Consensus 237 T~~lq~qL~~AL~vQT~IPi~vsf~Pc~~~wy~pif~--------i~~~~~~n~~~~iAls~FPf~DPlAii~~lP~~R~ 308 (310)
T PF10319_consen 237 TKRLQRQLFKALIVQTVIPICVSFSPCVLSWYGPIFG--------IDLGRWNNYFSVIALSAFPFLDPLAIILCLPAFRN 308 (310)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHhhccHHHHHhHHHHc--------CChhHHHHHHHHHHHHHccccCchHhheecHHhhc
Confidence 33445666666655433 3567888887774332222 11123333333333445689999999999999997
Q ss_pred H
Q psy2988 146 T 146 (184)
Q Consensus 146 ~ 146 (184)
.
T Consensus 309 r 309 (310)
T PF10319_consen 309 R 309 (310)
T ss_pred c
Confidence 5
No 30
>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=85.37 E-value=9.6 Score=29.21 Aligned_cols=18 Identities=17% Similarity=-0.014 Sum_probs=15.5
Q ss_pred cccceeehhccCHHHHHH
Q psy2988 129 YPINFAIYCGMSRQFRET 146 (184)
Q Consensus 129 s~~NPiiY~~~~~~fr~~ 146 (184)
+...|++-..+|++.|++
T Consensus 257 tl~~P~iLl~fs~~vR~~ 274 (275)
T PF02118_consen 257 TLSQPYILLIFSKNVRRQ 274 (275)
T ss_pred HHHHHHHHheECHhhhcc
Confidence 566699999999999986
No 31
>KOG4220|consensus
Probab=83.93 E-value=2.3 Score=35.21 Aligned_cols=25 Identities=4% Similarity=-0.080 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
.+.-..+..|.+|..||.++|.+|.
T Consensus 193 iTfGTAiAAFYlPVtiM~~LY~rIy 217 (503)
T KOG4220|consen 193 ITFGTAIAAFYLPVTIMTILYWRIY 217 (503)
T ss_pred eehhHHHHHHHhhHHHHHHHHHHHH
Confidence 3445556679999999999999999
No 32
>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=79.07 E-value=31 Score=27.49 Aligned_cols=82 Identities=10% Similarity=0.018 Sum_probs=50.7
Q ss_pred hhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHHHHHHHHHHHhcccceeehhccCHHHHHH
Q psy2988 67 RLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGMSRQFRET 146 (184)
Q Consensus 67 ~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ns~~NPiiY~~~~~~fr~~ 146 (184)
+..++.|+.+++..++.+..+.-+-+.+..+.........+ ......+..+. ...=..+.+-|++.....++.|++
T Consensus 224 Ql~ENl~slr~L~p~~~~~~i~~~~~~~~~~~~~~~~~~~~---~~~y~al~e~~-~~~P~Y~ii~~~~~~~~~k~~r~~ 299 (324)
T PF10292_consen 224 QLEENLRSLRLLKPFIILSSIFIFFYIFASIFLRLFNPSMS---KPNYFALAELN-HIFPLYSIISPLILYRKIKKIRKK 299 (324)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCC---hhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34667888888888888877777777776655443322111 11111122221 223346688888888888999888
Q ss_pred HHHHhc
Q psy2988 147 FKELFI 152 (184)
Q Consensus 147 ~~~~~~ 152 (184)
.++-+.
T Consensus 300 ~~~~l~ 305 (324)
T PF10292_consen 300 RKKRLE 305 (324)
T ss_pred HHHHHH
Confidence 877664
No 33
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=65.31 E-value=32 Score=22.28 Aligned_cols=23 Identities=17% Similarity=0.278 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
.+++.+.++.-++|+.+.-.+|+
T Consensus 16 ~~~FA~L~i~~FiILLIi~~~IW 38 (121)
T PF10669_consen 16 IMFFAFLFIVVFIILLIITKSIW 38 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555556666666677777777
No 34
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=64.78 E-value=30 Score=21.16 Aligned_cols=25 Identities=12% Similarity=0.157 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHH
Q psy2988 25 YYTFRVLFVHTGPCISL-VVRNLLFW 49 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii-~~~y~~i~ 49 (184)
|..+..++..+.|+.++ .++..++.
T Consensus 20 ~~Fl~~vll~LtPlfiisa~lSwkLa 45 (74)
T PF15086_consen 20 YEFLTTVLLILTPLFIISAVLSWKLA 45 (74)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 44555566677786666 45555666
No 35
>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=64.41 E-value=46 Score=26.15 Aligned_cols=22 Identities=23% Similarity=0.593 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhHHHHHHHHHH
Q psy2988 78 LIVVVTVFLLVEIPLAVVTILH 99 (184)
Q Consensus 78 l~~i~~~F~icw~P~~i~~~~~ 99 (184)
++.+.++.+++.+|..++.++.
T Consensus 200 L~~la~~~i~~~~P~~i~~~v~ 221 (283)
T PF02076_consen 200 LLALALVIILIYLPLSIYYLVS 221 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 7888899999999999999883
No 36
>PF04505 Dispanin: Interferon-induced transmembrane protein; InterPro: IPR007593 This family includes the human leukocyte antigen CD225, which is an interferon inducible transmembrane protein, and is associated with interferon induced cell growth suppression [].; GO: 0009607 response to biotic stimulus, 0016021 integral to membrane
Probab=62.04 E-value=11 Score=23.72 Aligned_cols=24 Identities=13% Similarity=-0.083 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
+.++..+ +.+.|+.++.+.|..=.
T Consensus 21 ~sI~s~l-~Cc~PlGi~Ai~~s~kv 44 (82)
T PF04505_consen 21 LSIFSTL-CCCWPLGIVAIVYSSKV 44 (82)
T ss_pred HHHHHHH-HHHhhHHHHHheechhh
Confidence 4444333 34458888777766544
No 37
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=59.81 E-value=12 Score=22.03 Aligned_cols=22 Identities=23% Similarity=0.312 Sum_probs=12.5
Q ss_pred hccccchhhHHHHHHHHHHHhH
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEI 90 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~ 90 (184)
++.++.-.+++.++++|++-|+
T Consensus 33 k~~~~~~~i~~~~~i~~l~v~~ 54 (59)
T PF09889_consen 33 KRMRKTQYIFFGIFILFLAVWI 54 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555666666666665554
No 38
>PF00375 SDF: Sodium:dicarboxylate symporter family; InterPro: IPR001991 It has been shown [] that integral membrane proteins that mediate the uptake of a wide variety of molecules with the concomitant uptake of sodium ions (sodium symporters) can be grouped, on the basis of sequence and functional similarities into a number of distinct families. One of these families [] is known as the sodium:dicarboxylate symporter family (SDF). Such re-uptake of neurotransmitters from the synapses, is thought to be an important mechanism for terminating their action, by removing these chemicals from the synaptic cleft, and transporting them into presynaptic nerve terminals, and surrounding neuroglia. this removal is also believed to prevent them accumulating to the point of reaching neurotoxic [, ]. The structure of these transporter proteins has been variously reported to contain from 8 to 10 transmembrane (TM) regions, although 10 now seems to be the accepted value. Members of the family include: several mammalian excitatory amino acid transporters, and a number of bacterial transporters. They vary with regars to their dependence on transport of sodium, and other ions.; GO: 0017153 sodium:dicarboxylate symporter activity, 0006835 dicarboxylic acid transport, 0016020 membrane; PDB: 3V8G_B 1XFH_A 3KBC_B 2NWX_B 3V8F_B 2NWL_B 2NWW_A.
Probab=55.86 E-value=1.1e+02 Score=25.00 Aligned_cols=110 Identities=8% Similarity=-0.032 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhH
Q psy2988 34 HTGPCISLVVRNLLFWQHKRDKLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDA 113 (184)
Q Consensus 34 ~~iP~~ii~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~ 113 (184)
.++++++..+..+.......++.. ...+--+...-++.-++-++++..|+.+..++...........-...
T Consensus 137 ~~L~ivvfai~~G~al~~~~~~~~---------~~~~~~~~~~~~~~~ii~~i~~~~Pigv~~l~a~~~~~~~~~~l~~l 207 (390)
T PF00375_consen 137 NILGIVVFAILFGVALGRLGEKGK---------PLIDFFESLNEVIMKIINWIMKLAPIGVFGLIANSIATQGLSILGAL 207 (390)
T ss_dssp -HHHHHHHHHHHHHHHHHHHTSSH---------HHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHSSCCGHHHHH
T ss_pred ccchhhhHHHHHHHHHHHHhhhhh---------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHH
Confidence 556666666666666533322210 11112223445566677888999999999888554432221111222
Q ss_pred HHHHHHHHHHHHHHhcccceeehh-ccCHHHHHHHHHHhc
Q psy2988 114 ANVLVLFTNFFIIVSYPINFAIYC-GMSRQFRETFKELFI 152 (184)
Q Consensus 114 ~~~~~~~~~~l~~~ns~~NPiiY~-~~~~~fr~~~~~~~~ 152 (184)
..++..+.......--.+.|+++. +..++..+-+++++.
T Consensus 208 ~~~v~~~~~~~~i~~~v~~pl~~~~~~~~np~~~~~~~~~ 247 (390)
T PF00375_consen 208 GKFVLTVYVALLIHLFVVLPLILFVLTRKNPFKFLKAMLP 247 (390)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHH-TTT--HHHHHHHTHH
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHhhhcCCCHHHHHHHHHH
Confidence 222222222222333578899988 566677777777664
No 39
>KOG2575|consensus
Probab=54.74 E-value=11 Score=31.12 Aligned_cols=24 Identities=17% Similarity=0.369 Sum_probs=20.6
Q ss_pred ccchhhHHHHHHHHHHHhHHHHHH
Q psy2988 72 NCTTLMLIVVVTVFLLVEIPLAVV 95 (184)
Q Consensus 72 ~~~~~~l~~i~~~F~icw~P~~i~ 95 (184)
.+.++.-+.+++.|.++|+|+...
T Consensus 255 ~ri~~ia~~Vv~TF~iiw~P~~~~ 278 (510)
T KOG2575|consen 255 ARIIKIALAVVGTFVIIWLPFLLS 278 (510)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 467788899999999999999754
No 40
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=53.93 E-value=26 Score=18.10 Aligned_cols=23 Identities=13% Similarity=0.072 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 26 YTFRVLFVHTGPCISLVVRNLLF 48 (184)
Q Consensus 26 ~~~~~~~~~~iP~~ii~~~y~~i 48 (184)
..+...++.++|.+.++++|++-
T Consensus 7 gfiAt~Lfi~iPt~FLlilYvqT 29 (35)
T PRK04989 7 GFVASLLFVLVPTVFLIILYIQT 29 (35)
T ss_pred HHHHHHHHHHHHHHHHHHHheec
Confidence 44556667889999999988764
No 41
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=49.95 E-value=35 Score=17.39 Aligned_cols=22 Identities=14% Similarity=0.114 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy2988 26 YTFRVLFVHTGPCISLVVRNLL 47 (184)
Q Consensus 26 ~~~~~~~~~~iP~~ii~~~y~~ 47 (184)
..+...++.++|.+.+++.|++
T Consensus 7 ~fiAt~Lfi~iPt~FLiilYvq 28 (33)
T TIGR03038 7 GFIATLLFILVPTVFLLILYIQ 28 (33)
T ss_pred HHHHHHHHHHHHHHHHHHHhee
Confidence 3455566678899999998875
No 42
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=49.27 E-value=86 Score=28.59 Aligned_cols=33 Identities=12% Similarity=0.190 Sum_probs=23.8
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHHHHHHHhhc
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVVTILHVISS 103 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~ 103 (184)
+.-..-+++.+...|+++|+-..+..+...++.
T Consensus 456 ~tGg~~Lm~gv~~~Flf~~~l~l~~~~~Fl~G~ 488 (806)
T PF05478_consen 456 NTGGNFLMAGVGLSFLFSWFLMLLVLFYFLVGG 488 (806)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444566778888889999988887776655543
No 43
>CHL00080 psbM photosystem II protein M
Probab=48.46 E-value=35 Score=17.49 Aligned_cols=23 Identities=9% Similarity=-0.052 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 26 YTFRVLFVHTGPCISLVVRNLLF 48 (184)
Q Consensus 26 ~~~~~~~~~~iP~~ii~~~y~~i 48 (184)
..+...++..+|.+.+++.|++-
T Consensus 7 gfiAt~LFi~iPt~FLlilyvkT 29 (34)
T CHL00080 7 AFIATALFILVPTAFLLIIYVKT 29 (34)
T ss_pred HHHHHHHHHHHHHHHHHHhheee
Confidence 34556666788999998888753
No 44
>COG1823 Predicted Na+/dicarboxylate symporter [General function prediction only]
Probab=46.60 E-value=1.7e+02 Score=24.30 Aligned_cols=68 Identities=10% Similarity=0.200 Sum_probs=40.9
Q ss_pred hccccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccch--hhch-------hhHHHHHHHHHHHHHHHhcccceeeh
Q psy2988 69 RDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVT--EILD-------YDAANVLVLFTNFFIIVSYPINFAIY 136 (184)
Q Consensus 69 ~~~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~--~~~~-------~~~~~~~~~~~~~l~~~ns~~NPiiY 136 (184)
++--.+..-++.=.+.+++-..||.+..++.......+ +... .+.......+.+.+...-.-+||+-|
T Consensus 216 ~~~I~t~~~ivM~lV~~VirLTPYgV~AlMtkv~ats~~~~I~~Lg~FivAsY~Ai~~MFvvH~iLL~~~g~NPi~Y 292 (458)
T COG1823 216 KAAIDTLQSIVMKLVRLVIRLTPYGVLALMTKVVATSNLEDIIKLGSFIVASYIAIFIMFVVHGILLALNGVNPIKY 292 (458)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHhhccHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 33444566667777888999999999998854432211 1111 12223333445556667778899876
No 45
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=45.91 E-value=29 Score=23.69 Aligned_cols=11 Identities=0% Similarity=-0.176 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q psy2988 39 ISLVVRNLLFW 49 (184)
Q Consensus 39 ~ii~~~y~~i~ 49 (184)
++++++...+.
T Consensus 13 ~l~~~~~~~~~ 23 (130)
T PF12273_consen 13 LLFLFLFYCHN 23 (130)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 46
>PF05151 PsbM: Photosystem II reaction centre M protein (PsbM); InterPro: IPR007826 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 PsbM found in PSII. PsbM is one of the most hydrophobic proteins in the thylakoid membrane. The function of this protein is unknown.; GO: 0015979 photosynthesis, 0019684 photosynthesis, light reaction, 0009523 photosystem II, 0016021 integral to membrane; PDB: 3A0H_m 3ARC_m 3A0B_M 3PRR_M 3PRQ_M 1S5L_M 4FBY_e 3BZ2_M 3BZ1_M 2AXT_M ....
Probab=40.55 E-value=51 Score=16.57 Aligned_cols=22 Identities=9% Similarity=-0.010 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLF 48 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i 48 (184)
.+...++.++|...+++.|++-
T Consensus 8 fiAtaLfi~iPt~FLiilyvqT 29 (31)
T PF05151_consen 8 FIATALFILIPTAFLIILYVQT 29 (31)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhheEeee
Confidence 3445566778998888888763
No 47
>PHA01815 hypothetical protein
Probab=36.34 E-value=77 Score=17.40 Aligned_cols=23 Identities=13% Similarity=0.041 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
.+.+.+.|++.++++...|.++.
T Consensus 8 ~ivfllaflitliilmt~~irvs 30 (55)
T PHA01815 8 AIVFLLAFLITLIILMTLHIRVS 30 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455567777777777666553
No 48
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=35.47 E-value=74 Score=18.38 Aligned_cols=25 Identities=4% Similarity=-0.034 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhh
Q psy2988 34 HTGPCISLVVRNLLFWQHKRDKLFK 58 (184)
Q Consensus 34 ~~iP~~ii~~~y~~i~~~~~~~~~~ 58 (184)
|++.+++.+++|.-+.++-|+++.+
T Consensus 5 f~~ti~lvv~LYgY~yhLYrsek~G 29 (56)
T TIGR02736 5 FAFTLLLVIFLYAYIYHLYRSQKKG 29 (56)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhccc
Confidence 3344556667888888766665443
No 49
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=34.54 E-value=32 Score=19.04 Aligned_cols=26 Identities=15% Similarity=0.010 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFWQ 50 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~~ 50 (184)
...+...++..+|.+.++++|++-..
T Consensus 6 lgfiAtaLFi~iPT~FLlilYVkT~s 31 (50)
T PRK14094 6 FGFVASLLFVGVPTIFLIGLFISTQD 31 (50)
T ss_pred HHHHHHHHHHHHHHHHhhheeEEecc
Confidence 34455666788899999998887663
No 50
>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=34.39 E-value=13 Score=27.86 Aligned_cols=21 Identities=0% Similarity=-0.130 Sum_probs=0.0
Q ss_pred cchhhHHHHHHHHHHHhHHHH
Q psy2988 73 CTTLMLIVVVTVFLLVEIPLA 93 (184)
Q Consensus 73 ~~~~~l~~i~~~F~icw~P~~ 93 (184)
+..+..+.+...+-+.|+...
T Consensus 195 ~~~~~~~~L~~llg~~w~~~~ 215 (242)
T PF00002_consen 195 KILRASLILLPLLGITWLFGI 215 (242)
T ss_dssp ---------------------
T ss_pred hHHHHHHHHHHHHHHHheeee
Confidence 367777777777888888743
No 51
>PLN00090 photosystem II reaction center M protein; Provisional
Probab=32.79 E-value=1e+02 Score=19.94 Aligned_cols=26 Identities=15% Similarity=-0.018 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 24 AYYTFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 24 ~y~~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
+...+...++.++|...++++|++-.
T Consensus 75 iLafIATaLFIlIPTaFLLILYVQT~ 100 (113)
T PLN00090 75 FGAYLAVALGTFLPCLFLINLFIQTE 100 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 34556667778899999999998765
No 52
>KOG3827|consensus
Probab=32.37 E-value=21 Score=29.22 Aligned_cols=34 Identities=18% Similarity=0.139 Sum_probs=27.7
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHHHHHHHhhcc
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSS 104 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~ 104 (184)
+.|.-.|+++....|+++|+=|+++..+.++..+
T Consensus 59 D~kWR~~lliF~~sf~~SWl~Fg~iwwlIA~~hG 92 (400)
T KOG3827|consen 59 DLKWRWMLLIFSLSFVLSWLFFGVIWWLIAYAHG 92 (400)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3466778999999999999999998887766543
No 53
>PF12166 DUF3595: Protein of unknown function (DUF3595); InterPro: IPR021999 This family of proteins is functionally uncharacterised.This family of proteins is found in eukaryotes. Proteins in this family are typically between 578 and 2525 amino acids in length.
Probab=32.35 E-value=74 Score=26.37 Aligned_cols=31 Identities=6% Similarity=0.115 Sum_probs=23.5
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHHHHHHHh
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVVTILHVI 101 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~ 101 (184)
-.|...=.++++++.++-|+|..++......
T Consensus 61 ~~K~~~G~~~~~~li~iiw~PLllfS~~n~~ 91 (422)
T PF12166_consen 61 MVKYLMGGLLLLLLIIIIWFPLLLFSSGNPV 91 (422)
T ss_pred eEEeeehHHHHHHHHHHHHHHHHHHhhcCcc
Confidence 3455555677888888999999999887544
No 54
>PF13631 Cytochrom_B_N_2: Cytochrome b(N-terminal)/b6/petB; PDB: 1KB9_C 2IBZ_C 1P84_C 3CXH_C 1EZV_C 1KYO_C 3CX5_N 1PPJ_P 2A06_P 1SQX_C ....
Probab=31.01 E-value=1.5e+02 Score=21.23 Aligned_cols=25 Identities=16% Similarity=0.111 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q psy2988 30 VLFVHTGPCISLVVRNLLFWQHKRD 54 (184)
Q Consensus 30 ~~~~~~iP~~ii~~~y~~i~~~~~~ 54 (184)
+.+.+++|++++...-.++...+++
T Consensus 94 f~lHvilP~iil~l~~~H~~~l~~~ 118 (168)
T PF13631_consen 94 FVLHVILPFIILALIILHLLLLHKH 118 (168)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eeeeecchhhhhccccccccceeec
Confidence 3455688999998888888855443
No 55
>PF06454 DUF1084: Protein of unknown function (DUF1084); InterPro: IPR009457 This entry consists of several hypothetical plant specific proteins of unknown function.
Probab=30.30 E-value=2.7e+02 Score=21.85 Aligned_cols=26 Identities=4% Similarity=0.048 Sum_probs=16.3
Q ss_pred hhHHHHHHHHHHHhHHHHHHHHHHHh
Q psy2988 76 LMLIVVVTVFLLVEIPLAVVTILHVI 101 (184)
Q Consensus 76 ~~l~~i~~~F~icw~P~~i~~~~~~~ 101 (184)
+-+..++++-.+|++=-.++.++...
T Consensus 206 ~~V~~vt~ic~~cF~ir~i~~~~~~~ 231 (281)
T PF06454_consen 206 RKVGFVTIICSVCFLIRCIMVLFSAF 231 (281)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHhh
Confidence 34566666666777777777655443
No 56
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=28.28 E-value=89 Score=20.34 Aligned_cols=17 Identities=6% Similarity=0.026 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy2988 34 HTGPCISLVVRNLLFWQ 50 (184)
Q Consensus 34 ~~iP~~ii~~~y~~i~~ 50 (184)
.+++++++.++|..+++
T Consensus 12 ll~~vl~~~ifyFli~R 28 (97)
T COG1862 12 LLPLVLIFAIFYFLIIR 28 (97)
T ss_pred HHHHHHHHHHHHHhhcC
Confidence 34445566677777773
No 57
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=27.78 E-value=1.2e+02 Score=19.18 Aligned_cols=38 Identities=11% Similarity=-0.077 Sum_probs=23.6
Q ss_pred CcccccCCCceeeeeccchhHHHHHHHHHHHHHHHHHHHH
Q psy2988 2 EQLQRPEHAAWVTWLSVDFYFTAYYTFRVLFVHTGPCISL 41 (184)
Q Consensus 2 ~~~c~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~iP~~ii 41 (184)
.+.|...+.++-+...+|. ..|..+..+...++|+.+.
T Consensus 8 ~~~C~~CG~d~~~~~adDg--PA~fvi~ivg~ivv~~~l~ 45 (86)
T PF06170_consen 8 APRCPHCGLDYSHARADDG--PAYFVILIVGHIVVPLALW 45 (86)
T ss_pred CCcccccCCccccCCcCcc--chhHHHHHHHHHHHHHHHH
Confidence 4778888888877444443 3466666666666665543
No 58
>PF06072 Herpes_US9: Alphaherpesvirus tegument protein US9; InterPro: IPR009278 This family consists of several US9 and related proteins from the Alphaherpesviruses. The function of the US9 protein is unknown although in Bovine herpesvirus 5 Us9 is essential for the anterograde spread of the virus from the olfactory mucosa to the bulb [].; GO: 0019033 viral tegument
Probab=27.14 E-value=1.4e+02 Score=17.52 Aligned_cols=22 Identities=9% Similarity=0.063 Sum_probs=10.4
Q ss_pred cccchhhHHHHHHHH-HHHhHHH
Q psy2988 71 SNCTTLMLIVVVTVF-LLVEIPL 92 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F-~icw~P~ 92 (184)
++|-..+.+.++.++ ++|-+-.
T Consensus 28 RrRrc~~~v~~v~~~~~~c~~S~ 50 (60)
T PF06072_consen 28 RRRRCRLAVAIVFAVVALCVLSG 50 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455444444444 5554443
No 59
>PF03155 Alg6_Alg8: ALG6, ALG8 glycosyltransferase family; InterPro: IPR004856 N-linked (asparagine-linked) glycosylation of proteins is mediated by a highly conserved pathway in eukaryotes, in which a lipid (dolichol phosphate)-linked oligosaccharide is assembled at the endoplasmic reticulum membrane prior to the transfer of the oligosaccharide moiety to the target asparagine residues. This oligosaccharide is composed of Glc(3)Man(9)GlcNAc(2). The addition of the three glucose residues is the final series of steps in the synthesis of the oligosaccharide precursor. Alg6 transfers the first glucose residue, and Alg8 transfers the second one []. In the human alg6 gene, a C-T transition, which causes Ala333 to be replaced with Val, has been identified as the cause of a congenital disorder of glycosylation, designated as type Ic OMIM:603147 []. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0005789 endoplasmic reticulum membrane
Probab=26.43 E-value=52 Score=27.95 Aligned_cols=25 Identities=24% Similarity=0.167 Sum_probs=21.4
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHH
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVV 95 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~ 95 (184)
-+|..++-++++.+|.++|+|+...
T Consensus 220 ~~~~~~lg~~Vi~~f~~~~~PF~~~ 244 (469)
T PF03155_consen 220 IKRLIKLGIVVIATFALSFGPFLYS 244 (469)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678888899999999999999633
No 60
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor 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 stevor 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 8 bits.
Probab=25.49 E-value=1.2e+02 Score=23.98 Aligned_cols=26 Identities=8% Similarity=0.220 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy2988 29 RVLFVHTGPCISLVVRNLLFWQHKRD 54 (184)
Q Consensus 29 ~~~~~~~iP~~ii~~~y~~i~~~~~~ 54 (184)
+..++.++-.++++++|+.+.+++++
T Consensus 263 iaalvllil~vvliiLYiWlyrrRK~ 288 (295)
T TIGR01478 263 IAALVLIILTVVLIILYIWLYRRRKK 288 (295)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34444555566777778777755543
No 61
>PF15018 InaF-motif: TRP-interacting helix
Probab=25.39 E-value=65 Score=17.06 Aligned_cols=27 Identities=22% Similarity=0.423 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 23 TAYYTFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 23 ~~y~~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
+..+++..+++.-+|.+++.+.|..++
T Consensus 6 R~~tV~~Yl~~VSl~Ai~LsiYY~f~W 32 (38)
T PF15018_consen 6 RVLTVVAYLFSVSLAAIVLSIYYIFFW 32 (38)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHheee
Confidence 456667777777788888888887654
No 62
>COG4665 FcbT2 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.39 E-value=1.3e+02 Score=21.80 Aligned_cols=70 Identities=10% Similarity=-0.026 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-H-HHhh-hhhhcchhhHhhhhhccccchhhHHHHHHHHHHHhHHHHHHHHH
Q psy2988 22 FTAYYTFRVLFVHTGPCISLVVRNLLFW-Q-HKRD-KLFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTIL 98 (184)
Q Consensus 22 ~~~y~~~~~~~~~~iP~~ii~~~y~~i~-~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~F~icw~P~~i~~~~ 98 (184)
.+.+.=+++.++|++|+.++++.|..=. . ..+. ...+...+- -+--.|.++.+-.++++.-+=-.+..=+
T Consensus 89 ~qa~vDllGtifFLlPfc~l~iy~~~~~~~~S~~~GE~S~~~GGL-------p~wpiKa~I~igF~Ll~lQGiseiIk~i 161 (182)
T COG4665 89 TQAWVDLLGTIFFLLPFCLLVIYLSWPYVALSWAIGETSNNPGGL-------PRWPIKAMIPIGFVLLALQGISEIIKRI 161 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHhcccCCCCCCC-------chhHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 4456677788889999888877655443 2 2222 111111111 1334566666666666555544444433
No 63
>PTZ00370 STEVOR; Provisional
Probab=25.05 E-value=1.3e+02 Score=23.83 Aligned_cols=21 Identities=5% Similarity=0.273 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q psy2988 34 HTGPCISLVVRNLLFWQHKRD 54 (184)
Q Consensus 34 ~~iP~~ii~~~y~~i~~~~~~ 54 (184)
.++-.++++++|+.+.+++++
T Consensus 264 llil~vvliilYiwlyrrRK~ 284 (296)
T PTZ00370 264 LLILAVVLIILYIWLYRRRKN 284 (296)
T ss_pred HHHHHHHHHHHHHHHHHhhcc
Confidence 344466777788888755543
No 64
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=24.94 E-value=75 Score=20.27 Aligned_cols=7 Identities=29% Similarity=0.871 Sum_probs=2.5
Q ss_pred HHHHHHH
Q psy2988 80 VVVTVFL 86 (184)
Q Consensus 80 ~i~~~F~ 86 (184)
+|.+.|+
T Consensus 39 vI~~iFi 45 (94)
T PF05393_consen 39 VICGIFI 45 (94)
T ss_pred HHHHHHH
Confidence 3333333
No 65
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=24.72 E-value=1.9e+02 Score=18.23 Aligned_cols=6 Identities=0% Similarity=-0.047 Sum_probs=2.2
Q ss_pred hccccc
Q psy2988 69 RDSNCT 74 (184)
Q Consensus 69 ~~~~~~ 74 (184)
++++++
T Consensus 64 KKK~~l 69 (83)
T PF05814_consen 64 KKKRDL 69 (83)
T ss_pred HHHHHH
Confidence 333333
No 66
>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=24.60 E-value=1.7e+02 Score=23.24 Aligned_cols=23 Identities=9% Similarity=0.086 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 27 TFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 27 ~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
+...++..++-++||++.|..+.
T Consensus 258 I~aSiiaIliIVLIMvIIYLILR 280 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILR 280 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444554556666665544
No 67
>KOG3500|consensus
Probab=24.46 E-value=1.9e+02 Score=18.21 Aligned_cols=26 Identities=8% Similarity=0.065 Sum_probs=17.9
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHHHHH
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVVTIL 98 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~~~~ 98 (184)
++.+.+..++++. +.||+=..++++.
T Consensus 30 ~~~li~~~lvlTA--VCCwlfWli~yla 55 (84)
T KOG3500|consen 30 NRGLIRCMLVLTA--VCCWLFWLIVYLA 55 (84)
T ss_pred CcChhHHHHHHHH--HHHHHHHHHHHHH
Confidence 4556666666655 8999977777655
No 68
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=24.01 E-value=2.9e+02 Score=22.12 Aligned_cols=22 Identities=18% Similarity=-0.008 Sum_probs=14.2
Q ss_pred ccchhhHHHHHHHHHHHhHHHH
Q psy2988 72 NCTTLMLIVVVTVFLLVEIPLA 93 (184)
Q Consensus 72 ~~~~~~l~~i~~~F~icw~P~~ 93 (184)
.+++..+.++.++|.+.|+-.+
T Consensus 58 ~~~~~~~~~~y~~F~~~WGlNY 79 (318)
T PF12725_consen 58 LNILFFLSVLYFLFYLLWGLNY 79 (318)
T ss_pred HHHHHHHHHHHHHHHHHhhhhc
Confidence 4456666667777777776554
No 69
>PF15102 TMEM154: TMEM154 protein family
Probab=23.59 E-value=13 Score=26.04 Aligned_cols=11 Identities=27% Similarity=0.301 Sum_probs=5.1
Q ss_pred HHHHHHHHHHH
Q psy2988 33 VHTGPCISLVV 43 (184)
Q Consensus 33 ~~~iP~~ii~~ 43 (184)
.+++|++++++
T Consensus 60 mIlIP~VLLvl 70 (146)
T PF15102_consen 60 MILIPLVLLVL 70 (146)
T ss_pred EEeHHHHHHHH
Confidence 35556444433
No 70
>KOG4433|consensus
Probab=22.55 E-value=5e+02 Score=22.33 Aligned_cols=69 Identities=9% Similarity=-0.055 Sum_probs=38.7
Q ss_pred cccchhhHHHHHHHHHHHhHHHHHHHHHHHhhccchhhchhhHHHHHH------HHHHHHHHHhcccceeehhcc
Q psy2988 71 SNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAANVLV------LFTNFFIIVSYPINFAIYCGM 139 (184)
Q Consensus 71 ~~~~~~~l~~i~~~F~icw~P~~i~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~l~~~ns~~NPiiY~~~ 139 (184)
+.-++.+..+-..++++||+-..+..-..+....+-.+++........ .+...+......-||++--+.
T Consensus 236 kc~li~fsv~Gll~lvisWl~~gl~la~sVa~sDFC~~Pd~y~~~~~~~~l~t~~~~~yl~c~~t~~NpF~qrL~ 310 (526)
T KOG4433|consen 236 KCLLIVFSVCGLLALVISWLSLGLELASSVALSDFCVDPDDYVLNMVEEYLSTDILLYYLACSPTHSNPFQQRLT 310 (526)
T ss_pred chhhhHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhccChHHHHHHhhhcccchhHHhhhcccCCCCCCchhHHHH
Confidence 344667777788899999998887765543332222223322222221 123334456667888876554
No 71
>PHA02909 hypothetical protein; Provisional
Probab=21.09 E-value=1.8e+02 Score=16.74 Aligned_cols=25 Identities=4% Similarity=-0.068 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2988 25 YYTFRVLFVHTGPCISLVVRNLLFW 49 (184)
Q Consensus 25 y~~~~~~~~~~iP~~ii~~~y~~i~ 49 (184)
...+++++.|+.-+.++...|+.|.
T Consensus 36 vsfilfviiflsmftilacsyvyia 60 (72)
T PHA02909 36 VSFILFVIIFLSMFTILACSYVYIA 60 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555556666666666666655
No 72
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=20.13 E-value=2.3e+02 Score=17.46 Aligned_cols=17 Identities=24% Similarity=0.362 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy2988 33 VHTGPCISLVVRNLLFW 49 (184)
Q Consensus 33 ~~~iP~~ii~~~y~~i~ 49 (184)
++++|+++.++.-.-++
T Consensus 5 fl~~Pliif~ifVap~w 21 (75)
T TIGR02976 5 FLAIPLIIFVIFVAPLW 21 (75)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45667666655444444
No 73
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=20.04 E-value=2.1e+02 Score=19.30 Aligned_cols=23 Identities=17% Similarity=0.307 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHH
Q psy2988 77 MLIVVVTVFLLVEIPLAVVTILHV 100 (184)
Q Consensus 77 ~l~~i~~~F~icw~P~~i~~~~~~ 100 (184)
.+.+|++-|++ |-|..+..+...
T Consensus 11 ~Ia~mVlGFi~-fWPlGla~Lay~ 33 (115)
T PF11014_consen 11 WIAAMVLGFIV-FWPLGLALLAYM 33 (115)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHH
Confidence 35556666666 668777655533
No 74
>MTH00016 CYTB cytochrome b; Validated
Probab=20.03 E-value=3e+02 Score=22.74 Aligned_cols=25 Identities=4% Similarity=-0.007 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q psy2988 30 VLFVHTGPCISLVVRNLLFWQHKRD 54 (184)
Q Consensus 30 ~~~~~~iP~~ii~~~y~~i~~~~~~ 54 (184)
+.+.+++|++++...-.++...++.
T Consensus 180 f~lH~llP~vil~l~~~Hl~~lh~~ 204 (378)
T MTH00016 180 FALHFLLPFVIAALSMIHLLFLHQT 204 (378)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3446789999999988888855433
Done!