Query psy8686
Match_columns 176
No_of_seqs 123 out of 945
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 16:39:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8686.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8686hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3646|consensus 100.0 2.8E-35 6E-40 266.8 9.8 141 2-175 173-314 (486)
2 KOG3645|consensus 100.0 5.5E-29 1.2E-33 226.2 14.8 142 2-176 176-320 (449)
3 TIGR00860 LIC Cation transport 100.0 8.9E-28 1.9E-32 218.7 14.8 139 2-175 178-319 (459)
4 KOG3644|consensus 99.7 5.6E-17 1.2E-21 148.9 10.1 138 2-175 192-330 (457)
5 KOG3643|consensus 99.7 2.7E-16 5.8E-21 142.9 13.3 137 3-175 183-321 (459)
6 PF02932 Neur_chan_memb: Neuro 99.7 8.9E-19 1.9E-23 133.8 -3.3 72 73-174 1-73 (237)
7 KOG3642|consensus 99.3 7.1E-13 1.5E-17 121.2 5.1 96 49-175 233-329 (466)
8 PF02931 Neur_chan_LBD: Neurot 98.1 1.3E-05 2.9E-10 64.8 8.7 62 2-66 148-217 (217)
9 TIGR03068 srtB_sig_NPQTN sorta 34.5 72 0.0016 19.6 3.2 8 150-157 2-9 (33)
10 PHA02550 32 single-stranded DN 23.3 52 0.0011 29.6 1.7 47 23-75 68-124 (304)
No 1
>KOG3646|consensus
Probab=100.00 E-value=2.8e-35 Score=266.85 Aligned_cols=141 Identities=54% Similarity=0.920 Sum_probs=134.6
Q ss_pred CccCceEEEEEcCCC-CcCcccceecccEEEEEeeeeeeEeeeeeeccCCCceeeEEEEEEEEeccceeEEEEehhhHHH
Q psy8686 2 LSLSNTLDLILKDEA-GGDLTTFITNGEWYLLVCKQISSKKNEVQYECCPETYVDITFTIQIRRRTLYYFFNLIVPCVLI 80 (176)
Q Consensus 2 ~~~~~~Vdl~~~~~~-~idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~y~~i~~~i~lrR~~~~y~~~livP~~li 80 (176)
.|+|.++||++.+.+ ++|+++|.+||||+++ +..++|++..|+||+|+|++++|.+.+|||..||.+|+|+||+++
T Consensus 173 TY~G~~lDL~~~~~~g~~Dls~yi~NGEW~Ll---~~pakr~~~~y~cC~epY~dv~F~l~irRRTLyYgfNlIiP~lLI 249 (486)
T KOG3646|consen 173 TYAGILLDLRIDDEDGGIDLSTYIPNGEWDLL---GTPAKREEKTYDCCPEPYPDVTFYLHIRRRTLYYGFNLIIPSLLI 249 (486)
T ss_pred EEcceeeeeeeccccCCcchhhcccCCceeec---cccccceeeecccCCCCcceeEEEEEEEehhhHHHHHHHHHHHHH
Confidence 478999999976554 3699999999999999 999999999999999999999999999999999999999999999
Q ss_pred HHHhhheeecCCCCCceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCCCCCCccchH
Q psy8686 81 SSMALLGFTLPPDSGEKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPTTSDAVPLIG 160 (176)
Q Consensus 81 ~~l~l~~f~lp~~sger~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPlIg 160 (176)
++|+++||.+|||+|||+++ ++|++||.++|+.++|+.+|+||+++|+||
T Consensus 250 s~m~lLgFtlppD~gEKitL------------------------------~iTilLsvc~FL~mvse~~PpTSeaVPllg 299 (486)
T KOG3646|consen 250 SLMSLLGFTLPPDAGEKITL------------------------------QITILLSVCFFLTMVSEMTPPTSEAVPLLG 299 (486)
T ss_pred HHHHHhccccCccccceeee------------------------------eeehHHHHHHHHHHHHhhcCCccccccHHH
Confidence 99999999999999999999 999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHh
Q psy8686 161 THHRLIFLIIYYLLL 175 (176)
Q Consensus 161 ~~~~~~~~~v~~~ll 175 (176)
.||..+|++++.|..
T Consensus 300 ~fFsc~m~iv~~Svv 314 (486)
T KOG3646|consen 300 AFFSCCMFIVAASVV 314 (486)
T ss_pred HHHHHHHHHHHhhhe
Confidence 999999999998864
No 2
>KOG3645|consensus
Probab=99.96 E-value=5.5e-29 Score=226.21 Aligned_cols=142 Identities=49% Similarity=0.865 Sum_probs=130.2
Q ss_pred CccCceEE-EEEcCCCC-cCcccceecccEEEEEeeeeeeEeeeeeeccCCCceeeEEEEEEEEeccceeEEEEehhhHH
Q psy8686 2 LSLSNTLD-LILKDEAG-GDLTTFITNGEWYLLVCKQISSKKNEVQYECCPETYVDITFTIQIRRRTLYYFFNLIVPCVL 79 (176)
Q Consensus 2 ~~~~~~Vd-l~~~~~~~-idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~y~~i~~~i~lrR~~~~y~~~livP~~l 79 (176)
.|++++++ +....... .++++|.+|+||++. +.+.++++..|.||++.|++++|.+.+||||.||.+++++||++
T Consensus 176 ~~~~~~i~~~~~~~~~~~~~~~~~~~n~eW~l~---~~~~~~~~~~~~~~~~~~~~i~f~l~irRkplyY~v~liiP~~l 252 (449)
T KOG3645|consen 176 TYDGSEVDGLDLNAQTIEVDLSDFIENSEWELL---SVTVVREEKKYDCCPGPYSDITFTITIRRKPLYYTVNLIIPCFL 252 (449)
T ss_pred ccCccccceeeeccccccCCHHHcCCCCcEEEE---eeeeEEeecccCCCCCceeEEEEEEEEEeccceEEEehhhhHHH
Confidence 46788777 65543321 789999999999999 99999988889999999999999999999999999999999999
Q ss_pred HHHHhhheeecCCCCC-ceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCCCCCCccc
Q psy8686 80 ISSMALLGFTLPPDSG-EKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPTTSDAVPL 158 (176)
Q Consensus 80 i~~l~l~~f~lp~~sg-er~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPl 158 (176)
+++++++|||+|+++| ||+++ |+|+||++++|+.++++.+|+||..+|+
T Consensus 253 is~l~il~fflp~~~~~eki~L------------------------------~it~Ll~~tv~ll~vs~~~P~ts~~iPL 302 (449)
T KOG3645|consen 253 ISFLSILGFFLPSDSGTEKVTL------------------------------GITVLLAMTVFLLLVSDKMPPTSSVIPL 302 (449)
T ss_pred HHHHHhheEEccCCCCCceEEE------------------------------EHHHHHHHHHHHHHHHhhcCCccCcchH
Confidence 9999999999998886 99999 9999999999999999999999988999
Q ss_pred hHHHHHHHHHHHHHHHhC
Q psy8686 159 IGTHHRLIFLIIYYLLLV 176 (176)
Q Consensus 159 Ig~~~~~~~~~v~~~ll~ 176 (176)
||+|+..+|+++++++++
T Consensus 303 ig~y~~~~m~~~~~sv~~ 320 (449)
T KOG3645|consen 303 IGKYLLFTMVLVTISVVV 320 (449)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999999998763
No 3
>TIGR00860 LIC Cation transporter family protein. selective while glycine receptors are anion selective).
Probab=99.95 E-value=8.9e-28 Score=218.71 Aligned_cols=139 Identities=32% Similarity=0.518 Sum_probs=127.1
Q ss_pred CccCceEEEEEcCCC--CcCcccceecccEEEEEeeeeeeEeeeeeeccCCCceeeEEEEEEEEeccceeEEEEehhhHH
Q psy8686 2 LSLSNTLDLILKDEA--GGDLTTFITNGEWYLLVCKQISSKKNEVQYECCPETYVDITFTIQIRRRTLYYFFNLIVPCVL 79 (176)
Q Consensus 2 ~~~~~~Vdl~~~~~~--~idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~y~~i~~~i~lrR~~~~y~~~livP~~l 79 (176)
.|+++++++...+++ ..+.+.|.+++||++. +...+++. .|.||++.|++++|++.+||+++||.+++++||++
T Consensus 178 ~y~~~~i~l~~~~~~~v~~~~~~~~~~~eW~l~---~~~~~~~~-~~~~~~~~y~~l~~~~~l~R~~~~y~~~l~iP~~l 253 (459)
T TIGR00860 178 GYTTNDIKLEWKEQGAVQVDDSLFISLPEFELL---GVYGTRYC-TSETNTGEYPCLTFSFVLRRRPLYYLLQLYIPSIL 253 (459)
T ss_pred ccccceEEEEECCCCceEechhhccccCceEEE---eeeeeeeE-ecccCCCCcCeEEEEEEEEEcccceeeeehHHHHH
Confidence 478999999875432 3566779999999999 76666665 68999999999999999999999999999999999
Q ss_pred HHHHhhheeecCCC-CCceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCCCCCCccc
Q psy8686 80 ISSMALLGFTLPPD-SGEKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPTTSDAVPL 158 (176)
Q Consensus 80 i~~l~l~~f~lp~~-sger~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPl 158 (176)
++++++++||+|++ +|||+++ |+|+||++++|+..+++.+|++| ++|+
T Consensus 254 i~~ls~~sF~Lp~~a~~eRi~L------------------------------~it~lLs~~vf~~~v~~~lP~~S-~vpl 302 (459)
T TIGR00860 254 IVILSWVSFWLPADASGARVSL------------------------------GITTLLTMTTFSSGVRESLPAVS-YVKA 302 (459)
T ss_pred HHHHhheeEecCCCCCCCcEEE------------------------------EEEHHHHHHHHHHHHHhhCCCcc-hHHH
Confidence 99999999999999 7999999 99999999999999999999999 8999
Q ss_pred hHHHHHHHHHHHHHHHh
Q psy8686 159 IGTHHRLIFLIIYYLLL 175 (176)
Q Consensus 159 Ig~~~~~~~~~v~~~ll 175 (176)
||.|+..+|++++++++
T Consensus 303 i~~y~~~~~~~v~~sli 319 (459)
T TIGR00860 303 IDVYFAVCMAFVFLALL 319 (459)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999999886
No 4
>KOG3644|consensus
Probab=99.70 E-value=5.6e-17 Score=148.85 Aligned_cols=138 Identities=25% Similarity=0.344 Sum_probs=114.8
Q ss_pred CccCceEEEEEcCCCCcCcccceecccEEEEEeeeeeeEeeeeeeccCCCceeeEEEEEEEEeccceeEEEEehhhHHHH
Q psy8686 2 LSLSNTLDLILKDEAGGDLTTFITNGEWYLLVCKQISSKKNEVQYECCPETYVDITFTIQIRRRTLYYFFNLIVPCVLIS 81 (176)
Q Consensus 2 ~~~~~~Vdl~~~~~~~idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~y~~i~~~i~lrR~~~~y~~~livP~~li~ 81 (176)
.|+.++|.+.+.+++.+..+.=..-+|-.+. +++..+....|. .+.|++++.+++++|+.+||..+.++|+.+++
T Consensus 192 ~Yn~~~v~~~W~~~~pv~~~~~i~LPdf~l~---~~~~~~~~~~y~--~G~~scL~v~~~f~R~~g~yllQ~YiPT~l~V 266 (457)
T KOG3644|consen 192 AYNTDDVRLEWKEWNPVQVKKDIKLPDFSLP---SFSTEKCTGSYT--TGVYSCLRVTFTFKRRYGYYLLQTYIPTLLIV 266 (457)
T ss_pred ccccceEEEEecCCCCcccccCccCCceecc---ceeecccccccc--CcceEEEEEEEEEEEeehhhhhHHHhhhHhhh
Confidence 4778889998876543332222223444555 554444444555 67899999999999999999999999999999
Q ss_pred HHhhheeecCCCC-CceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCCCCCCccchH
Q psy8686 82 SMALLGFTLPPDS-GEKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPTTSDAVPLIG 160 (176)
Q Consensus 82 ~l~l~~f~lp~~s-ger~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPlIg 160 (176)
+++|++|||++++ ..|+++ |+|.||+++.-.+-+..++|+.| ++..|+
T Consensus 267 iiSWvSFWLd~~A~PARv~L------------------------------gvtsLLtLttq~~~i~~~LP~VS-YvKAID 315 (457)
T KOG3644|consen 267 IISWVSFWLDPKAVPARVTL------------------------------GVTSLLTLTTQSGGIRRNLPKVS-YVKAID 315 (457)
T ss_pred hhhhhheecCCCcccceEEe------------------------------hHHHHHHHHHHhcchhhcCCchh-hHHHHH
Confidence 9999999999998 789999 99999999999999999999999 699999
Q ss_pred HHHHHHHHHHHHHHh
Q psy8686 161 THHRLIFLIIYYLLL 175 (176)
Q Consensus 161 ~~~~~~~~~v~~~ll 175 (176)
.|+.+|+++|+.+|+
T Consensus 316 VWm~~C~~FIF~sLl 330 (457)
T KOG3644|consen 316 VWMGVCMTFIFGSLL 330 (457)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999999986
No 5
>KOG3643|consensus
Probab=99.69 E-value=2.7e-16 Score=142.93 Aligned_cols=137 Identities=19% Similarity=0.371 Sum_probs=109.9
Q ss_pred ccCceEEEEEcCCC-CcCcccceecccEEEEEeeeeeeEeeeeeeccCCCceeeEEEEEEEEeccceeEEEEehhhHHHH
Q psy8686 3 SLSNTLDLILKDEA-GGDLTTFITNGEWYLLVCKQISSKKNEVQYECCPETYVDITFTIQIRRRTLYYFFNLIVPCVLIS 81 (176)
Q Consensus 3 ~~~~~Vdl~~~~~~-~idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~y~~i~~~i~lrR~~~~y~~~livP~~li~ 81 (176)
|++++|.+.+.+.+ .+...+=.+=.+..+. +.........+. .+.|+.+...|++||+.+||.++.++|+++++
T Consensus 183 Yt~~DI~y~W~~g~~av~~~e~i~LpqFti~---~~~~~s~~~~~s--TG~Y~RL~l~F~l~Rnigf~ilQ~y~PS~LiV 257 (459)
T KOG3643|consen 183 YTTDDIEYYWSKGDNAVKGDEKIELPQFTIT---EYHVTSRLVSFS--TGNYSRLSLSFQLRRNIGFYILQTYIPSTLIV 257 (459)
T ss_pred cccccEEEEEcCCCccccceeeeeccceEEE---EEEEEEEEEEEc--cccceeEEEEEEEEeeccEEEEeeecchhhhh
Confidence 56777777765321 1111111112333344 333333334444 68999999999999999999999999999999
Q ss_pred HHhhheeecCCCC-CceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCCCCCCccchH
Q psy8686 82 SMALLGFTLPPDS-GEKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPTTSDAVPLIG 160 (176)
Q Consensus 82 ~l~l~~f~lp~~s-ger~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPlIg 160 (176)
+++|++||+.-|+ ..|+++ |||+.|++|.......++||+.| ++..|+
T Consensus 258 ilSWVSFWin~~a~pARv~l------------------------------GITTVLTMTTl~t~~n~slPrvS-YVKAiD 306 (459)
T KOG3643|consen 258 ILSWVSFWINRDASPARVAL------------------------------GITTVLTMTTLMTSTNESLPRVS-YVKAID 306 (459)
T ss_pred HHhHhHhhhccccchhheee------------------------------ceehHHhHHHHHhhhhccCCCcc-ceeeeh
Confidence 9999999999997 799999 99999999999999999999999 799999
Q ss_pred HHHHHHHHHHHHHHh
Q psy8686 161 THHRLIFLIIYYLLL 175 (176)
Q Consensus 161 ~~~~~~~~~v~~~ll 175 (176)
.|+..|+++|++|||
T Consensus 307 iYL~vCFvfVF~sLL 321 (459)
T KOG3643|consen 307 VYLGVCFVFVFLSLL 321 (459)
T ss_pred hhhhHHHHHHHHHHH
Confidence 999999999999986
No 6
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=99.68 E-value=8.9e-19 Score=133.81 Aligned_cols=72 Identities=49% Similarity=0.782 Sum_probs=67.8
Q ss_pred EehhhHHHHHHhhheeecCCCCC-ceEEEeeecceeeceeecccccccccCCCCccccccchhhhHHHHHHHHhhhhCCC
Q psy8686 73 LIVPCVLISSMALLGFTLPPDSG-EKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPLILSGVTILLSLTVFLNLVAESMPT 151 (176)
Q Consensus 73 livP~~li~~l~l~~f~lp~~sg-er~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~vt~LLs~~~~l~~v~~~lP~ 151 (176)
+++||++++++++++||+|+++| ||+++ |||+|||+++++..+++.||+
T Consensus 1 l~~P~~li~~~s~~~f~~~~~~~~~rv~l------------------------------~it~lL~~~~~~~~~~~~lP~ 50 (237)
T PF02932_consen 1 LIIPCILIVVLSWLSFWLPPESGPERVTL------------------------------GITTLLAMTVFLLMVAENLPP 50 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSTHHHHHH------------------------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred CeehHHHHHHHHHhheEeCcccccccccc------------------------------chhHHHHHHHHHhhhhhhhcc
Confidence 37999999999999999999998 99999 999999999999999999999
Q ss_pred CCCCccchHHHHHHHHHHHHHHH
Q psy8686 152 TSDAVPLIGTHHRLIFLIIYYLL 174 (176)
Q Consensus 152 tS~~iPlIg~~~~~~~~~v~~~l 174 (176)
+|+.+|++|+|+...++++..++
T Consensus 51 ~s~~~pl~~~~~~~~~~v~~~~~ 73 (237)
T PF02932_consen 51 TSYAKPLDGWYFICTMFVFSASL 73 (237)
T ss_dssp HHHHSHHHHHHHHHHHHHHHHHH
T ss_pred cccccchhhhhccccchhhhHHH
Confidence 99999999999988888877665
No 7
>KOG3642|consensus
Probab=99.35 E-value=7.1e-13 Score=121.19 Aligned_cols=96 Identities=20% Similarity=0.472 Sum_probs=91.4
Q ss_pred CCCceeeEEEEEEEEeccceeEEEEehhhHHHHHHhhheeecCCCC-CceEEEeeecceeeceeecccccccccCCCCcc
Q psy8686 49 CPETYVDITFTIQIRRRTLYYFFNLIVPCVLISSMALLGFTLPPDS-GEKLTLVYKGFLRTSAFFNNSVQCTRDFSGLPL 127 (176)
Q Consensus 49 ~~~~y~~i~~~i~lrR~~~~y~~~livP~~li~~l~l~~f~lp~~s-ger~~l~~~~~~~h~~~~~~~~~~~~~~~~~~~ 127 (176)
..+.|.-++..|+++||.+|++++.++||++.+.|+|.+||+..|+ .+|..+
T Consensus 233 ~~gey~vmtv~F~L~R~~GYf~iQ~YlPC~ltViLSwVSFWinrEs~paRt~l--------------------------- 285 (466)
T KOG3642|consen 233 SSGEYSVMTVYFHLSRRQGYFIIQIYLPCILTVVLSWVSFWINREATPARTSL--------------------------- 285 (466)
T ss_pred cCCCEEEEEEEEeccceeeEEEEeeccceeeeeeeeeeehhccccccccceee---------------------------
Confidence 3568999999999999999999999999999999999999999998 899999
Q ss_pred ccccchhhhHHHHHHHHhhhhCCCCCCCccchHHHHHHHHHHHHHHHh
Q psy8686 128 ILSGVTILLSLTVFLNLVAESMPTTSDAVPLIGTHHRLIFLIIYYLLL 175 (176)
Q Consensus 128 ~~~~vt~LLs~~~~l~~v~~~lP~tS~~iPlIg~~~~~~~~~v~~~ll 175 (176)
|||..|+++..-.....++||.| +.+.+++|...|+++++.+++
T Consensus 286 ---GITtVLTMTtLs~~aR~slPKVs-y~TAmD~fIavCf~FvFsali 329 (466)
T KOG3642|consen 286 ---GITTVLTMTTLSTSARKSLPKVS-YATALDVFIAVCFIFVFAALV 329 (466)
T ss_pred ---eeeeeeeeeeeeehhccCCCccc-cchhHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999998 699999999999999998875
No 8
>PF02931 Neur_chan_LBD: Neurotransmitter-gated ion-channel ligand binding domain ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006202 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This entry presents the extracellular ligand binding domain of these ion channels. This domain forms a pentameric arrangement in the known structure. ; GO: 0005230 extracellular ligand-gated ion channel activity, 0006810 transport, 0016020 membrane; PDB: 1LXH_B 1ABT_B 1TOS_A 1LXG_B 1IDG_B 1TOR_A 1IDH_B 3IGQ_B 3TLU_B 3UU5_A ....
Probab=98.15 E-value=1.3e-05 Score=64.79 Aligned_cols=62 Identities=27% Similarity=0.594 Sum_probs=53.0
Q ss_pred CccCceEEEEEcCC-------CCcCcccceecccEEEEEeeeeeeEeeeeeeccCCCc-eeeEEEEEEEEecc
Q psy8686 2 LSLSNTLDLILKDE-------AGGDLTTFITNGEWYLLVCKQISSKKNEVQYECCPET-YVDITFTIQIRRRT 66 (176)
Q Consensus 2 ~~~~~~Vdl~~~~~-------~~idls~f~~n~eW~l~~~~~~~~~~~~~~~~~~~~~-y~~i~~~i~lrR~~ 66 (176)
.|+++++.+..... ...+++.|..++||++. +....+++..++||++. |+.+.+++++||||
T Consensus 148 ~~~~~~v~l~~~~~~~~~~~~~~~~~~~~~~~~ew~~~---~~~~~~~~~~~~~~~~~~ys~l~~~~~l~R~~ 217 (217)
T PF02931_consen 148 SYNSEEVQLKWENKNPPIDENDEVSLSDFVSNSEWKIV---SVTSTRRETTYGCYNEPTYSMLSFTFTLKRRP 217 (217)
T ss_dssp SSSTTTEEEEESCSSS-TTSSTTTSCTTCETTSSEEEE---EEEEEEEEEEESTSSSCSEEEEEEEEEEEEST
T ss_pred cccccceeeeecccCceeeeeccccHHHccccceEEEE---eeEEEEEEEccCCcCCCCEeeEEEEEEEEECc
Confidence 46788999987653 24778889999999999 88888888889999886 99999999999997
No 9
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=34.50 E-value=72 Score=19.60 Aligned_cols=8 Identities=38% Similarity=0.783 Sum_probs=7.0
Q ss_pred CCCCCCcc
Q psy8686 150 PTTSDAVP 157 (176)
Q Consensus 150 P~tS~~iP 157 (176)
|+||+.+|
T Consensus 2 PQTs~gtp 9 (33)
T TIGR03068 2 PQTNAGTP 9 (33)
T ss_pred CCCCCCCc
Confidence 88888888
No 10
>PHA02550 32 single-stranded DNA binding protein; Provisional
Probab=23.28 E-value=52 Score=29.56 Aligned_cols=47 Identities=34% Similarity=0.777 Sum_probs=26.5
Q ss_pred ceecccEEEEEeeeeeeEeeeeeeccCCC-ce---eeE------EEEEEEEeccceeEEEEeh
Q psy8686 23 FITNGEWYLLVCKQISSKKNEVQYECCPE-TY---VDI------TFTIQIRRRTLYYFFNLIV 75 (176)
Q Consensus 23 f~~n~eW~l~~~~~~~~~~~~~~~~~~~~-~y---~~i------~~~i~lrR~~~~y~~~liv 75 (176)
|..||.|++. +.+++... |+.||- .| .++ .+. ..+|+..||.=.+++
T Consensus 68 Fk~~ggWYIE---Nc~sT~Gd--~D~CPVc~~~~~~~l~n~~~~~~k-~~krktsY~ANIlVI 124 (304)
T PHA02550 68 FKGNGGWYIE---NCSSTHGD--YDSCPVCQYISNNDLYNTGKEEYK-LRKRKTSYWANILVI 124 (304)
T ss_pred cCcCCceEee---cCccccCC--CCCCchhhccccchhhhccchHHh-hhccccceeeeeEEe
Confidence 7889999999 65555442 333331 11 000 011 178888888755544
Done!