Query psy10964
Match_columns 103
No_of_seqs 184 out of 1277
Neff 8.5
Searched_HMMs 46136
Date Fri Aug 16 22:58:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4219|consensus 99.2 8.5E-12 1.8E-16 91.0 1.9 60 43-102 29-88 (423)
2 PHA03234 DNA packaging protein 99.1 4.1E-10 8.8E-15 81.3 7.1 53 49-101 32-86 (338)
3 PHA02834 chemokine receptor-li 98.7 8.4E-08 1.8E-12 68.6 7.4 49 50-99 29-77 (323)
4 PHA02638 CC chemokine receptor 98.7 1.1E-07 2.4E-12 70.5 7.6 50 49-99 98-147 (417)
5 PHA03235 DNA packaging protein 98.6 2.2E-07 4.7E-12 68.9 8.5 51 49-99 32-84 (409)
6 PHA03087 G protein-coupled che 98.4 4.2E-07 9.2E-12 64.9 4.2 51 49-100 40-90 (335)
7 KOG4220|consensus 98.4 1.1E-08 2.4E-13 75.4 -4.2 54 49-102 30-83 (503)
8 PF00001 7tm_1: 7 transmembran 98.1 3.8E-06 8.3E-11 56.1 4.2 36 66-101 1-36 (257)
9 PF10320 7TM_GPCR_Srsx: Serpen 98.0 2.2E-06 4.7E-11 59.8 0.8 40 61-100 2-41 (257)
10 KOG2087|consensus 95.8 0.0024 5.3E-08 46.7 -0.0 45 56-100 31-75 (363)
11 PF10328 7TM_GPCR_Srx: Serpent 95.3 0.038 8.3E-07 38.6 4.7 43 59-101 3-45 (274)
12 PF05296 TAS2R: Mammalian tast 95.3 0.17 3.7E-06 36.3 8.0 52 49-100 6-60 (303)
13 PF10324 7TM_GPCR_Srw: Serpent 94.8 0.043 9.4E-07 38.9 3.9 41 59-100 6-47 (318)
14 PF05462 Dicty_CAR: Slime mold 91.9 0.83 1.8E-05 33.0 6.4 49 51-99 8-56 (303)
15 PF10321 7TM_GPCR_Srt: Serpent 90.9 1.3 2.9E-05 32.0 6.6 52 50-101 33-84 (313)
16 PF10317 7TM_GPCR_Srd: Serpent 88.8 0.86 1.9E-05 32.2 4.2 47 55-101 4-51 (292)
17 PF11710 Git3: G protein-coupl 84.2 4.7 0.0001 27.2 5.7 23 78-100 30-52 (201)
18 PF10323 7TM_GPCR_Srv: Serpent 51.8 15 0.00033 25.9 2.6 22 80-101 29-50 (283)
19 PF00002 7tm_2: 7 transmembran 47.1 15 0.00033 24.8 1.9 37 63-99 14-50 (242)
20 PF11446 DUF2897: Protein of u 31.5 73 0.0016 17.1 2.6 14 62-75 14-27 (55)
21 PHA03164 hypothetical protein; 31.1 66 0.0014 18.6 2.5 18 82-99 57-74 (88)
22 PF02532 PsbI: Photosystem II 30.4 65 0.0014 15.8 2.1 16 52-67 11-26 (36)
23 TIGR01477 RIFIN variant surfac 29.5 1.1E+02 0.0023 23.0 3.9 29 53-81 311-339 (353)
24 PF08048 RepA1_leader: Tap Rep 28.5 51 0.0011 14.6 1.4 14 80-93 2-15 (25)
25 PF05393 Hum_adeno_E3A: Human 27.6 84 0.0018 18.7 2.6 17 69-85 48-66 (94)
26 PTZ00046 rifin; Provisional 27.5 1.2E+02 0.0026 22.7 4.0 28 54-81 317-344 (358)
27 PF10326 7TM_GPCR_Str: Serpent 27.0 52 0.0011 23.1 2.0 44 57-100 6-50 (307)
28 PF01102 Glycophorin_A: Glycop 27.0 1.2E+02 0.0025 19.1 3.4 12 63-74 76-87 (122)
29 KOG3850|consensus 26.9 2.4E+02 0.0053 21.6 5.4 41 50-93 395-435 (455)
30 PF10873 DUF2668: Protein of u 26.1 90 0.0019 20.4 2.7 29 51-79 63-91 (155)
31 PF15330 SIT: SHP2-interacting 25.6 1.7E+02 0.0036 17.9 3.9 25 53-77 4-28 (107)
32 TIGR03475 tap_IncFII_lead RepA 24.8 64 0.0014 14.5 1.3 13 80-92 2-14 (26)
33 PF10316 7TM_GPCR_Srbc: Serpen 24.1 2.2E+02 0.0048 20.2 4.7 47 54-100 10-56 (273)
34 PF02009 Rifin_STEVOR: Rifin/s 23.8 99 0.0021 22.5 2.9 26 54-79 258-283 (299)
35 PF10327 7TM_GPCR_Sri: Serpent 23.5 1.8E+02 0.004 20.7 4.3 50 52-101 11-64 (303)
36 PF08114 PMP1_2: ATPase proteo 23.3 76 0.0016 16.1 1.6 18 59-76 14-31 (43)
No 1
>KOG4219|consensus
Probab=99.17 E-value=8.5e-12 Score=91.02 Aligned_cols=60 Identities=28% Similarity=0.431 Sum_probs=55.1
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy10964 43 RLHMSVLLPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLLLG 102 (103)
Q Consensus 43 ~~~~~~~~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~~~ 102 (103)
..|.+++.++.++|..+..++++||++|+|++..+|++|+.+|+||+|||+||++.++|+
T Consensus 29 ~lp~~~~~~wai~yg~l~~vAv~GN~iVlwIil~hrrMRtvtnyfL~NLAfADl~~s~Fn 88 (423)
T KOG4219|consen 29 VLPAWQQALWAIAYGLLVFVAVVGNLIVLWIILAHRRMRTVTNYFLVNLAFADLSMSIFN 88 (423)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhcCceEEEEEeehhehhhhHHHHHHHHHHHHHHHHHHh
Confidence 345567788999999999999999999999999999999999999999999999999886
No 2
>PHA03234 DNA packaging protein UL33; Provisional
Probab=99.08 E-value=4.1e-10 Score=81.34 Aligned_cols=53 Identities=21% Similarity=0.221 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HhcCCCCCHHHHHHHHHHHHHHHHHhh
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVI--INNTSLHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~--~~~~~l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
+....++|.+++++|++||.+|+++. .+++++|+++|+|+.|||++|+++++.
T Consensus 32 ~~~~~~~y~~vf~~gl~gN~lvl~v~~~~~~~~~rt~tn~fi~NLAvaDLL~~l~ 86 (338)
T PHA03234 32 QILESAINGIMLTLIIPMIIIVICTLIIYHKVAKHNATSFYLITLFASDFLHMLC 86 (338)
T ss_pred HHHhhHHHHHHHHHHhhhHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHH
Confidence 46677899999999999999999854 455667999999999999999998653
No 3
>PHA02834 chemokine receptor-like protein; Provisional
Probab=98.69 E-value=8.4e-08 Score=68.65 Aligned_cols=49 Identities=35% Similarity=0.614 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy10964 50 LPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 50 ~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~ 99 (103)
.+..+++.+++++|++||+++++++.++++ ++++|+|+.|||++|++..
T Consensus 29 ~~~~~~~~li~v~~~~gN~lVi~vi~~~~~-~~~~n~~i~nLAiaDll~~ 77 (323)
T PHA02834 29 YFVIVFYILLFIFGLIGNVLVIAVLIVKRF-MFVVDVYLFNIAMSDLMLV 77 (323)
T ss_pred hhHHHHHHHHHHHHHhhHHHHHHHHHhccc-cchhhhhhHHHHHHHHHHH
Confidence 556788999999999999999998877555 5678999999999998763
No 4
>PHA02638 CC chemokine receptor-like protein; Provisional
Probab=98.66 E-value=1.1e-07 Score=70.53 Aligned_cols=50 Identities=36% Similarity=0.659 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~ 99 (103)
.....++|.+++++|++||.++++++. +|++|+++++++.|||++|+++.
T Consensus 98 ~~~l~~~y~lvfvlgliGN~LVl~il~-~k~lrt~t~i~llnLAisDLl~~ 147 (417)
T PHA02638 98 SEYIKIFYIIIFILGLFGNAAIIMILF-CKKIKTITDIYIFNLAISDLIFV 147 (417)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH-hccCCCHhHHHHHHHHHHHHHHH
Confidence 355678899999999999999998765 47889999999999999999874
No 5
>PHA03235 DNA packaging protein UL33; Provisional
Probab=98.63 E-value=2.2e-07 Score=68.86 Aligned_cols=51 Identities=18% Similarity=0.197 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHHH
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVIINNTSL--HTATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l--~~~~~~fl~nLa~~Dll~~ 99 (103)
.....+++.+++++|++||+++++++.++++. ++..++|+.|||++|++..
T Consensus 32 ~~~~~~~~~li~vvGiigN~lVL~~~~~~~r~~~~~~~~~~I~NLAvsDLl~l 84 (409)
T PHA03235 32 RTTETFINLLIISVGGPLNLIVLVTQLLANRVHGFSTPTLYMTNLYLANLLTV 84 (409)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCccHHHHHHHHHHHHHHH
Confidence 45677889999999999999999986543332 3566789999999999863
No 6
>PHA03087 G protein-coupled chemokine receptor-like protein; Provisional
Probab=98.38 E-value=4.2e-07 Score=64.90 Aligned_cols=51 Identities=37% Similarity=0.632 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
+....+++.+++++|++||+++++++.++ ++|++.|+++.|||++|++.++
T Consensus 40 ~~~~~~~~~~i~~~gl~gN~lvl~~~~~~-~~~~~~~~ll~~laisDll~~~ 90 (335)
T PHA03087 40 STILIVVYSTIFFFGLVGNIIVIYVLTKT-KIKTPMDIYLLNLAVSDLLFVM 90 (335)
T ss_pred hhHHHHHHHHHHHHHHHhhHhEEeeehhc-cccCchHHHHHHHHHHHHHHHH
Confidence 45677889999999999999999988877 8899999999999999987654
No 7
>KOG4220|consensus
Probab=98.36 E-value=1.1e-08 Score=75.38 Aligned_cols=54 Identities=33% Similarity=0.503 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLLLG 102 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~~~ 102 (103)
...+.++...+.+++++||++|++.+..+++|++..|+||++||+||++.+.|+
T Consensus 30 ~v~i~~v~~~lsLVTv~GNlLVmiSfKvnrqLqTVnNYfLfSLAcADliIG~~S 83 (503)
T KOG4220|consen 30 VVFIVVVTGSLSLVTVVGNLLVMISFKVNRQLQTVNNYFLFSLACADLIIGAFS 83 (503)
T ss_pred EEeeehhhhHHHHHhhhccEEEEEEEEecceeeeecceeehHHHHhhhhhheee
Confidence 355667889999999999999999999999999999999999999999988764
No 8
>PF00001 7tm_1: 7 transmembrane receptor (rhodopsin family) Rhodopsin-like GPCR superfamily signature 5-hydroxytryptamine 7 receptor signature bradykinin receptor signature gastrin receptor signature melatonin receptor signature olfactory receptor signature; InterPro: IPR000276 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The rhodopsin-like GPCRs themselves represent a widespread protein family that includes hormone, neurotransmitter and light receptors, all of which transduce extracellular signals through interaction with guanine nucleotide-binding (G) proteins. Although their activating ligands vary widely in structure and character, the amino acid sequences of the receptors are very similar and are believed to adopt a common structural framework comprising 7 transmembrane (TM) helices [, , ].; GO: 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 2KI9_A 3QAK_A 2YDV_A 3VGA_A 3PWH_A 3RFM_A 3EML_A 3VG9_A 3REY_A 3UZA_A ....
Probab=98.12 E-value=3.8e-06 Score=56.12 Aligned_cols=36 Identities=44% Similarity=0.641 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhh
Q psy10964 66 GNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 66 gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
||.++++++.++|++|++.++|+.|||++|++.+++
T Consensus 1 GN~lvi~~~~~~~~~~~~~~~~l~~Lav~Dll~~~~ 36 (257)
T PF00001_consen 1 GNILVILVILRSKRLRTPSNILLLNLAVADLLVGLF 36 (257)
T ss_dssp HHHHHHHHHHHSGGG-SHHHHHHHHHHHHHHHHHHT
T ss_pred CchhehhhhhhhccCCChhHHHHHHHHHHHHhhccc
Confidence 899999999999999999999999999999998765
No 9
>PF10320 7TM_GPCR_Srsx: Serpentine type 7TM GPCR chemoreceptor Srsx; InterPro: IPR019424 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class sx (Srsx), which is a solo family amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=97.97 E-value=2.2e-06 Score=59.82 Aligned_cols=40 Identities=30% Similarity=0.544 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 61 VTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 61 ~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
++|+.||..++.++.++|++|+|+++++..+|++|++...
T Consensus 2 ~ig~~gN~~~i~~~~~~~~Lrs~~~~li~~~~~~d~~~~~ 41 (257)
T PF10320_consen 2 IIGLFGNLLLIILIFRNKSLRSPCYILICILCFADLICLL 41 (257)
T ss_pred EEEEEccHHHHHHHHhccccccchHHHHHHHHHHHHHHHh
Confidence 4678999999999999999999999999999999998753
No 10
>KOG2087|consensus
Probab=95.79 E-value=0.0024 Score=46.72 Aligned_cols=45 Identities=18% Similarity=0.318 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 56 YFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 56 ~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
--++..+++.||.+|++.....+...++..+++.|||++|++.++
T Consensus 31 vW~i~~lAi~gN~~Vl~~~~~~~~~~~~~~~li~~la~ad~~mGi 75 (363)
T KOG2087|consen 31 VWVIALLAIVGNLLVLLTRFTSRYELNSHRFLICNLAFADLLMGI 75 (363)
T ss_pred hhhhhhHHhccCeeeeeeeeehhhhccchHHHHHHHHHHHHHcch
Confidence 345667788999999988776666667889999999999998865
No 11
>PF10328 7TM_GPCR_Srx: Serpentine type 7TM GPCR chemoreceptor Srx; InterPro: IPR019430 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class x (Srx) from the Srg superfamily [, ]. Srg receptors contain seven hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures.
Probab=95.34 E-value=0.038 Score=38.62 Aligned_cols=43 Identities=26% Similarity=0.368 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhh
Q psy10964 59 IFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 59 i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
+.+.|++.|.++++.+.+.+++|++.+..-.+.|++|.+.+..
T Consensus 3 ~s~~G~~~N~~v~~~~~~~~~~~~sF~~l~~~~a~~n~i~~~~ 45 (274)
T PF10328_consen 3 ISIIGIILNWLVFIIIFKLKSLRNSFGILCASQAIANIIICLI 45 (274)
T ss_pred eeHHHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHH
Confidence 4567999999999999999999999999999999999988763
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=95.33 E-value=0.17 Score=36.27 Aligned_cols=52 Identities=23% Similarity=0.296 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 49 LLPITIVYFGIFVTGVIGNIAVCVVII---NNTSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 49 ~~~~~~~~~~i~~~~~~gN~~vl~~~~---~~~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
+....++....+++|+.||+.++.+.. .++|.-.|.+..+.+||++.++.-.
T Consensus 6 ~~i~~~i~~~~~~~Gi~~N~FI~~vn~~~w~k~~~l~~~d~IL~~La~sr~~l~~ 60 (303)
T PF05296_consen 6 EIIFLIILVVEFIIGILGNGFIVLVNCSDWVKSRKLSPSDQILTSLAISRILLQW 60 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHcCCCCChHHHHHHHHHHHHHHHHH
Confidence 355677888999999999999886655 3334457999999999999877543
No 13
>PF10324 7TM_GPCR_Srw: Serpentine type 7TM GPCR chemoreceptor Srw; InterPro: IPR019427 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class w (Srw), which is a solo family amongst the superfamilies of chemoreceptors. The genes encoding Srw do not appear to be under as strong an adaptive evolutionary pressure as those of Srz [].
Probab=94.83 E-value=0.043 Score=38.94 Aligned_cols=41 Identities=27% Similarity=0.453 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHHHHHHh
Q psy10964 59 IFVTGVIGNIAVCVVIINNTSLHT-ATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 59 i~~~~~~gN~~vl~~~~~~~~l~~-~~~~fl~nLa~~Dll~~~ 100 (103)
+.++|+++|.+-+.+.. +|.+|+ +.|.++...|++|+...+
T Consensus 6 ~~~~g~~~N~~h~~VLt-rk~mR~~~in~~l~~Iai~Dl~~~~ 47 (318)
T PF10324_consen 6 LSIFGLFINIFHLIVLT-RKSMRSSSINILLIGIAICDLLYML 47 (318)
T ss_pred EeHHHHHHHHHHhhhcC-ChhhhcCCHHHHHHHHHHHHHHHHH
Confidence 35678999999887664 567886 899999999999998765
No 14
>PF05462 Dicty_CAR: Slime mold cyclic AMP receptor
Probab=91.94 E-value=0.83 Score=32.96 Aligned_cols=49 Identities=14% Similarity=0.213 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy10964 51 PITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 51 ~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~ 99 (103)
.+.++......++++|-++++....+.|++|+|.+=.+.-++++|++..
T Consensus 8 ~~~~i~~~~s~lSllGclfiI~tf~~~k~~r~~~~rli~yl~~~~ll~~ 56 (303)
T PF05462_consen 8 TLYAIELVASVLSLLGCLFIIITFCLFKRLRKPINRLIFYLSIANLLTN 56 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHH
Confidence 3455666777888999999999999999999999999889999988754
No 15
>PF10321 7TM_GPCR_Srt: Serpentine type 7TM GPCR chemoreceptor Srt; InterPro: IPR019425 Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type []. Srt is a member of the Srg superfamily of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [].
Probab=90.90 E-value=1.3 Score=32.04 Aligned_cols=52 Identities=17% Similarity=0.221 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhh
Q psy10964 50 LPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 50 ~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
+.+.+.+....++..+-....+.++.+++..|.|.|-.+.-||+.|++...+
T Consensus 33 p~~G~~~~~~g~~~~~lY~p~~~~i~~~~~~k~~~ykiM~~L~i~Di~~l~~ 84 (313)
T PF10321_consen 33 PILGIYFLIFGIIIIILYIPCLIAIFKKKLFKMSCYKIMFFLAIFDIIQLFI 84 (313)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHHHh
Confidence 4445555555566666777778888877777899999999999999987653
No 16
>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=88.79 E-value=0.86 Score=32.24 Aligned_cols=47 Identities=26% Similarity=0.256 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhh
Q psy10964 55 VYFGIFVTGVIGNIAVCVVIINNT-SLHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 55 ~~~~i~~~~~~gN~~vl~~~~~~~-~l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
.+...+..|+..|.+++..+.++. +.-+..-+++.|-|+.|++.+..
T Consensus 4 ~~~~~~~~~~~~n~~Ll~~i~~~tp~~l~~~~~~l~~~~~~~~~~~~~ 51 (292)
T PF10317_consen 4 YHPIFFILGIILNILLLYLIIFKTPKSLRTYSILLLNTAIFDLISIIS 51 (292)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999988776543 43456788999999999988764
No 17
>PF11710 Git3: G protein-coupled glucose receptor regulating Gpa2; InterPro: IPR023041 This entry contains a functionally uncharacterised region belonging to the Git3 G-protein coupled receptor. Git3 is one of six proteins required for glucose-triggered adenylate cyclase activation, and is a G protein-coupled receptor responsible for the activation of adenylate cyclase through Gpa2 - heterotrimeric G protein alpha subunit, part of the glucose-detection pathway. Git3 contains seven predicted transmembrane domains, a third cytoplasmic loop and a cytoplasmic tail []. This is the conserved N-terminal domain of the member proteins.
Probab=84.19 E-value=4.7 Score=27.25 Aligned_cols=23 Identities=13% Similarity=0.197 Sum_probs=18.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 78 TSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 78 ~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
++.|...+-++.||.++|++.++
T Consensus 30 ~r~~~fR~~LIl~L~~aD~~qal 52 (201)
T PF11710_consen 30 YRRRSFRHQLILNLLLADFIQAL 52 (201)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHH
Confidence 44567777799999999998775
No 18
>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=51.76 E-value=15 Score=25.89 Aligned_cols=22 Identities=14% Similarity=0.306 Sum_probs=18.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHhh
Q psy10964 80 LHTATNYYLFSLAVSDLTLLLL 101 (103)
Q Consensus 80 l~~~~~~fl~nLa~~Dll~~~~ 101 (103)
.+++.|-.+.+-+++|++....
T Consensus 29 ~~~~Fy~l~~~~~iaDi~~~~~ 50 (283)
T PF10323_consen 29 FKSTFYTLLIQHCIADILSMLF 50 (283)
T ss_pred cCCHHHHHHHHHHHHHHHHHHH
Confidence 5689999999999999987653
No 19
>PF00002 7tm_2: 7 transmembrane receptor (Secretin family); InterPro: IPR000832 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The secretin-like GPCRs include secretin [], calcitonin [], parathyroid hormone/parathyroid hormone-related peptides [] and vasoactive intestinal peptide [], all of which activate adenylyl cyclase and the phosphatidyl-inositol-calcium pathway. These receptors contain seven transmembrane regions, in a manner reminiscent of the rhodopsins and other receptors believed to interact with G-proteins (however there is no significant sequence identity between these families, the secretin-like receptors thus bear their own unique '7TM' signature). Their N terminus is probably located on the extracellular side of the membrane and potentially glycosylated. This N-terminal region contains a long conserved region which allow the binding of large peptidic ligand such as glucagon, secretin, VIP and PACAP; this region contains five conserved cysteines residues which could be involved in disulphide bond. The C-terminal region of these receptor is probably cytoplasmic. Every receptor gene in this family is encoded on multiple exons, and several of these genes are alternatively spliced to yield functionally distinct products. ; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 3L2J_A 1BL1_A.
Probab=47.13 E-value=15 Score=24.77 Aligned_cols=37 Identities=16% Similarity=0.098 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy10964 63 GVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 63 ~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~ 99 (103)
++++-++.+......|++|+..+....||++++++..
T Consensus 14 Si~~ll~~i~~~~~~r~lr~~~~~i~~~l~~sll~~~ 50 (242)
T PF00002_consen 14 SIICLLLTIITYLLFRKLRSFRNKIHLNLCLSLLLAN 50 (242)
T ss_dssp -------------------------------------
T ss_pred HHHHHHHHHHHHHHHHhhcccchhhhhhhHHHHHHHH
Confidence 3334344444444456777777788889998877653
No 20
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=31.49 E-value=73 Score=17.10 Aligned_cols=14 Identities=36% Similarity=0.304 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHH
Q psy10964 62 TGVIGNIAVCVVII 75 (103)
Q Consensus 62 ~~~~gN~~vl~~~~ 75 (103)
--++||+.++--..
T Consensus 14 gvIigNia~LK~sA 27 (55)
T PF11446_consen 14 GVIIGNIAALKYSA 27 (55)
T ss_pred HHHHhHHHHHHHhc
Confidence 34579988775443
No 21
>PHA03164 hypothetical protein; Provisional
Probab=31.10 E-value=66 Score=18.63 Aligned_cols=18 Identities=28% Similarity=0.272 Sum_probs=8.1
Q ss_pred CHHHHHHHHHHHHHHHHH
Q psy10964 82 TATNYYLFSLAVSDLTLL 99 (103)
Q Consensus 82 ~~~~~fl~nLa~~Dll~~ 99 (103)
+...+-+..||++-+++.
T Consensus 57 tftFlvLtgLaIamILfi 74 (88)
T PHA03164 57 TFTFLVLTGLAIAMILFI 74 (88)
T ss_pred eeehHHHHHHHHHHHHHH
Confidence 334444444554444443
No 22
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=30.40 E-value=65 Score=15.78 Aligned_cols=16 Identities=25% Similarity=0.775 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHH
Q psy10964 52 ITIVYFGIFVTGVIGN 67 (103)
Q Consensus 52 ~~~~~~~i~~~~~~gN 67 (103)
+...+..+|+.|.+.|
T Consensus 11 vV~ffv~LFifGflsn 26 (36)
T PF02532_consen 11 VVIFFVSLFIFGFLSN 26 (36)
T ss_dssp HHHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHhccccCC
Confidence 3345556666665544
No 23
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=29.52 E-value=1.1e+02 Score=22.97 Aligned_cols=29 Identities=10% Similarity=0.057 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy10964 53 TIVYFGIFVTGVIGNIAVCVVIINNTSLH 81 (103)
Q Consensus 53 ~~~~~~i~~~~~~gN~~vl~~~~~~~~l~ 81 (103)
.++++++.++.++--.++++.+.|+||.+
T Consensus 311 ~IiaSiIAIvvIVLIMvIIYLILRYRRKK 339 (353)
T TIGR01477 311 PIIASIIAILIIVLIMVIIYLILRYRRKK 339 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 34566666666677778888888777643
No 24
>PF08048 RepA1_leader: Tap RepA1 leader peptide; InterPro: IPR012605 This entry represents of the RepA1 leader peptide known as Tap found in IncFII plasmids. The frequency of replication of IncFII plasmid NR1 during the cell division cycle is regulated by the control of the synthesis of the plasmid-specific replication initiation protein (RepA1). When RepA1 is synthesised, it binds to the plasmid replication origin (ori) and effects the assembly of a replication complex composed of host proteins that mediate the replication of the plasmid [, ]. The tap gene encodes a 24-amino acid peptide whose translation is required for the translation of repA.
Probab=28.52 E-value=51 Score=14.64 Aligned_cols=14 Identities=21% Similarity=0.384 Sum_probs=10.2
Q ss_pred CCCHHHHHHHHHHH
Q psy10964 80 LHTATNYYLFSLAV 93 (103)
Q Consensus 80 l~~~~~~fl~nLa~ 93 (103)
+|...++|++++-+
T Consensus 2 lrK~Q~~FLc~lLL 15 (25)
T PF08048_consen 2 LRKVQYLFLCHLLL 15 (25)
T ss_pred chhHHHHHHHHHHh
Confidence 36677889988754
No 25
>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=27.64 E-value=84 Score=18.72 Aligned_cols=17 Identities=0% Similarity=-0.062 Sum_probs=8.6
Q ss_pred HHHHHHHhc--CCCCCHHH
Q psy10964 69 AVCVVIINN--TSLHTATN 85 (103)
Q Consensus 69 ~vl~~~~~~--~~l~~~~~ 85 (103)
+++|.+++. +|-|.|.|
T Consensus 48 VilwfvCC~kRkrsRrPIY 66 (94)
T PF05393_consen 48 VILWFVCCKKRKRSRRPIY 66 (94)
T ss_pred HHHHHHHHHHhhhccCCcc
Confidence 445666543 33455654
No 26
>PTZ00046 rifin; Provisional
Probab=27.54 E-value=1.2e+02 Score=22.71 Aligned_cols=28 Identities=7% Similarity=0.077 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy10964 54 IVYFGIFVTGVIGNIAVCVVIINNTSLH 81 (103)
Q Consensus 54 ~~~~~i~~~~~~gN~~vl~~~~~~~~l~ 81 (103)
++++++.++.++--.++++.+.|+||.+
T Consensus 317 IiaSiiAIvVIVLIMvIIYLILRYRRKK 344 (358)
T PTZ00046 317 IIASIVAIVVIVLIMVIIYLILRYRRKK 344 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 4556666666667777888888777643
No 27
>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=27.00 E-value=52 Score=23.13 Aligned_cols=44 Identities=9% Similarity=0.184 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHH-HHHHHHHHHHHHHh
Q psy10964 57 FGIFVTGVIGNIAVCVVIINNTSLHTATNY-YLFSLAVSDLTLLL 100 (103)
Q Consensus 57 ~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~-fl~nLa~~Dll~~~ 100 (103)
-+.++.++..|.+.+..+.++.+.+...|= ++...|+.|+.++.
T Consensus 6 ~~~~~~s~~~N~~Li~Li~~~s~k~~G~Yk~Lm~~fs~~~i~fs~ 50 (307)
T PF10326_consen 6 YIGFVLSLFLNSLLIYLILTKSPKSLGSYKYLMIYFSIFEIIFSI 50 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCCEEEEEehhHHHHHHHHH
Confidence 345667888999999887755443333332 22334555655544
No 28
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=26.96 E-value=1.2e+02 Score=19.09 Aligned_cols=12 Identities=42% Similarity=0.504 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q psy10964 63 GVIGNIAVCVVI 74 (103)
Q Consensus 63 ~~~gN~~vl~~~ 74 (103)
|++|=+++++.+
T Consensus 76 GvIg~Illi~y~ 87 (122)
T PF01102_consen 76 GVIGIILLISYC 87 (122)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 444444444333
No 29
>KOG3850|consensus
Probab=26.85 E-value=2.4e+02 Score=21.55 Aligned_cols=41 Identities=15% Similarity=0.237 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q psy10964 50 LPITIVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAV 93 (103)
Q Consensus 50 ~~~~~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~ 93 (103)
+++.+.-+++++++.+.|++.-+ .+.|.|+.+-+|++-|++
T Consensus 395 iiLalm~VlLvfVSTIa~~v~PL---mkSR~rt~~t~~LV~l~~ 435 (455)
T KOG3850|consen 395 IILALMTVLLVFVSTIANCVSPL---MKSRNRTASTFFLVFLLA 435 (455)
T ss_pred HHHHHHHHHHHHHHHHHhhccHH---hhhhhHHHHHHHHHHHHH
Confidence 33444555666667777765443 345668888888876664
No 30
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=26.13 E-value=90 Score=20.39 Aligned_cols=29 Identities=34% Similarity=0.598 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q psy10964 51 PITIVYFGIFVTGVIGNIAVCVVIINNTS 79 (103)
Q Consensus 51 ~~~~~~~~i~~~~~~gN~~vl~~~~~~~~ 79 (103)
+..++|.++|+.|+++.+.+....+.++.
T Consensus 63 IaGIVfgiVfimgvva~i~icvCmc~kn~ 91 (155)
T PF10873_consen 63 IAGIVFGIVFIMGVVAGIAICVCMCMKNS 91 (155)
T ss_pred eeeeehhhHHHHHHHHHHHHHHhhhhhcC
Confidence 34467899999999888877666554443
No 31
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=25.61 E-value=1.7e+02 Score=17.89 Aligned_cols=25 Identities=0% Similarity=-0.051 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Q psy10964 53 TIVYFGIFVTGVIGNIAVCVVIINN 77 (103)
Q Consensus 53 ~~~~~~i~~~~~~gN~~vl~~~~~~ 77 (103)
..++.+..++.++.|++......++
T Consensus 4 l~il~llLll~l~asl~~wr~~~rq 28 (107)
T PF15330_consen 4 LGILALLLLLSLAASLLAWRMKQRQ 28 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3455666666677777655444333
No 32
>TIGR03475 tap_IncFII_lead RepA leader peptide Tap. This protein is a translated leader peptide that actis in the regulation of the expression of the plasmid replication protein RepA in incF2 group plasmids.
Probab=24.82 E-value=64 Score=14.48 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=9.4
Q ss_pred CCCHHHHHHHHHH
Q psy10964 80 LHTATNYYLFSLA 92 (103)
Q Consensus 80 l~~~~~~fl~nLa 92 (103)
+|...++|++++-
T Consensus 2 ~rKvQ~~FLc~~L 14 (26)
T TIGR03475 2 LRKVQYLFLCHLL 14 (26)
T ss_pred chhHHHHHHHHHH
Confidence 3567789998854
No 33
>PF10316 7TM_GPCR_Srbc: Serpentine type 7TM GPCR chemoreceptor Srbc ; InterPro: IPR019420 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class b (Srb) from the Sra superfamily []. Srb receptors contain 6-8 hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures. Srbc is a solo family amongst the superfamilies of chemoreceptors.
Probab=24.12 E-value=2.2e+02 Score=20.24 Aligned_cols=47 Identities=9% Similarity=-0.019 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHh
Q psy10964 54 IVYFGIFVTGVIGNIAVCVVIINNTSLHTATNYYLFSLAVSDLTLLL 100 (103)
Q Consensus 54 ~~~~~i~~~~~~gN~~vl~~~~~~~~l~~~~~~fl~nLa~~Dll~~~ 100 (103)
.+-.+........|...++.+...|+.+++-..+..-....|.+++.
T Consensus 10 ~i~i~~s~~~~~iN~~lL~~if~~Kk~kk~~l~LfY~Rf~~D~~~~~ 56 (273)
T PF10316_consen 10 IIGIIFSIITCLINFYLLYSIFYSKKKKKPDLSLFYFRFAIDVFYGF 56 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccCCCCEEeeHHHHHHHHHHHH
Confidence 34444555667789988888875555444432222334566776654
No 34
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=23.78 E-value=99 Score=22.48 Aligned_cols=26 Identities=12% Similarity=0.082 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCC
Q psy10964 54 IVYFGIFVTGVIGNIAVCVVIINNTS 79 (103)
Q Consensus 54 ~~~~~i~~~~~~gN~~vl~~~~~~~~ 79 (103)
+..+++.++.++.=+++++.++|+||
T Consensus 258 I~aSiiaIliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555667777776665
No 35
>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=23.51 E-value=1.8e+02 Score=20.75 Aligned_cols=50 Identities=28% Similarity=0.298 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-hcCCCCCHHHHHH---HHHHHHHHHHHhh
Q psy10964 52 ITIVYFGIFVTGVIGNIAVCVVII-NNTSLHTATNYYL---FSLAVSDLTLLLL 101 (103)
Q Consensus 52 ~~~~~~~i~~~~~~gN~~vl~~~~-~~~~l~~~~~~fl---~nLa~~Dll~~~~ 101 (103)
....|-++..+++.-|.+.++.+. +.+|+.+..|+++ ....+.|+-.+.+
T Consensus 11 li~~~~~ig~iS~~~n~~~iyLi~fks~k~~~fry~ll~~Qi~~~l~di~~t~L 64 (303)
T PF10327_consen 11 LINYYHIIGVISFILNSLGIYLIIFKSPKLDNFRYYLLYFQISCTLTDIHLTFL 64 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHheeEEEecCCccchhhHHHHHHHHHHHhhhhhhhh
Confidence 445677888899999999887665 4556666666555 3344567765543
No 36
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=23.31 E-value=76 Score=16.10 Aligned_cols=18 Identities=22% Similarity=0.397 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy10964 59 IFVTGVIGNIAVCVVIIN 76 (103)
Q Consensus 59 i~~~~~~gN~~vl~~~~~ 76 (103)
.+++|+.|-.++...+++
T Consensus 14 F~lVglv~i~iva~~iYR 31 (43)
T PF08114_consen 14 FCLVGLVGIGIVALFIYR 31 (43)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 344455555555544444
Done!