Query psy10144
Match_columns 88
No_of_seqs 103 out of 440
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 18:56:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10144.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10144hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3643|consensus 99.9 8.7E-28 1.9E-32 188.0 1.1 71 3-76 239-309 (459)
2 KOG3644|consensus 99.9 2.5E-27 5.4E-32 186.8 3.4 71 3-76 248-318 (457)
3 KOG3642|consensus 99.9 4.5E-25 9.7E-30 173.3 -2.4 71 3-76 247-317 (466)
4 PF02932 Neur_chan_memb: Neuro 99.8 1.7E-22 3.6E-27 134.4 -3.9 61 13-76 1-61 (237)
5 TIGR00860 LIC Cation transport 99.7 7.8E-19 1.7E-23 137.8 3.5 71 3-76 237-307 (459)
6 KOG3645|consensus 99.1 8.5E-11 1.9E-15 92.4 2.8 71 3-76 236-307 (449)
7 KOG3646|consensus 98.9 2.9E-09 6.2E-14 84.7 4.7 70 3-76 232-302 (486)
8 PF10685 KGG: Stress-induced b 42.4 12 0.00026 18.2 0.6 12 76-87 2-13 (23)
9 PF09964 DUF2198: Uncharacteri 37.8 31 0.00068 21.4 2.1 55 8-76 2-56 (74)
10 PHA02291 hypothetical protein 34.3 50 0.0011 22.3 2.7 35 1-35 1-35 (132)
11 PRK14746 RepA leader peptide T 34.3 11 0.00025 18.8 -0.2 15 4-18 3-17 (26)
12 PRK09510 tolA cell envelope in 32.7 56 0.0012 26.1 3.2 28 8-35 14-41 (387)
13 PF11169 DUF2956: Protein of u 30.8 29 0.00063 22.9 1.2 15 14-29 84-98 (103)
14 COG4897 CsbA Uncharacterized p 25.1 88 0.0019 19.5 2.5 19 10-28 5-23 (78)
15 PF15086 UPF0542: Uncharacteri 21.8 1E+02 0.0022 19.2 2.3 19 7-25 23-42 (74)
No 1
>KOG3643|consensus
Probab=99.93 E-value=8.7e-28 Score=188.00 Aligned_cols=71 Identities=30% Similarity=0.562 Sum_probs=70.0
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
+|++|||++|+|+|++++|++||+||||+.|+.|||++||+||+|||+++.++ .+++||++||+||||+++
T Consensus 239 ~Rnigf~ilQ~y~PS~LiVilSWVSFWin~~a~pARv~lGITTVLTMTTl~t~---~n~slPrvSYVKAiDiYL 309 (459)
T KOG3643|consen 239 RRNIGFYILQTYIPSTLIVILSWVSFWINRDASPARVALGITTVLTMTTLMTS---TNESLPRVSYVKAIDVYL 309 (459)
T ss_pred EeeccEEEEeeecchhhhhHHhHhHhhhccccchhheeeceehHHhHHHHHhh---hhccCCCccceeeehhhh
Confidence 69999999999999999999999999999999999999999999999999999 999999999999999998
No 2
>KOG3644|consensus
Probab=99.93 E-value=2.5e-27 Score=186.84 Aligned_cols=71 Identities=42% Similarity=0.711 Sum_probs=69.9
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
+|+.|||++|.|+|+.++|++||+|||++++++|||++||+|++|+++++..+ ++.+||+|||+||||+|+
T Consensus 248 ~R~~g~yllQ~YiPT~l~ViiSWvSFWLd~~A~PARv~LgvtsLLtLttq~~~---i~~~LP~VSYvKAIDVWm 318 (457)
T KOG3644|consen 248 KRRYGYYLLQTYIPTLLIVIISWVSFWLDPKAVPARVTLGVTSLLTLTTQSGG---IRRNLPKVSYVKAIDVWM 318 (457)
T ss_pred EEeehhhhhHHHhhhHhhhhhhhhheecCCCcccceEEehHHHHHHHHHHhcc---hhhcCCchhhHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999888 999999999999999999
No 3
>KOG3642|consensus
Probab=99.89 E-value=4.5e-25 Score=173.33 Aligned_cols=71 Identities=31% Similarity=0.556 Sum_probs=69.7
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
+|++|||++|+|+||+|+|++||++||+++|++|||+++|+|++|+|+++... +++++|||||.||+|.+.
T Consensus 247 ~R~~GYf~iQ~YlPC~ltViLSwVSFWinrEs~paRt~lGITtVLTMTtLs~~---aR~slPKVsy~TAmD~fI 317 (466)
T KOG3642|consen 247 SRRQGYFIIQIYLPCILTVVLSWVSFWINREATPARTSLGITTVLTMTTLSTS---ARKSLPKVSYATALDVFI 317 (466)
T ss_pred cceeeEEEEeeccceeeeeeeeeeehhccccccccceeeeeeeeeeeeeeeeh---hccCCCccccchhHHHHH
Confidence 69999999999999999999999999999999999999999999999999999 999999999999999887
No 4
>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=99.82 E-value=1.7e-22 Score=134.36 Aligned_cols=61 Identities=39% Similarity=0.622 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 13 SYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 13 ~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
+|+||++++++||++||+|+++.|+|++||+|++|+++++... +++.||++||.+++|.|+
T Consensus 1 l~~P~~li~~~s~~~f~~~~~~~~~rv~l~it~lL~~~~~~~~---~~~~lP~~s~~~pl~~~~ 61 (237)
T PF02932_consen 1 LIIPCILIVVLSWLSFWLPPESGPERVTLGITTLLAMTVFLLM---VAENLPPTSYAKPLDGWY 61 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSTHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHSHHHHHH
T ss_pred CeehHHHHHHHHHhheEeCccccccccccchhHHHHHHHHHhh---hhhhhcccccccchhhhh
Confidence 5899999999999999999999889999999999999999999 999999999999999998
No 5
>TIGR00860 LIC Cation transporter family protein. selective while glycine receptors are anion selective).
Probab=99.74 E-value=7.8e-19 Score=137.81 Aligned_cols=71 Identities=34% Similarity=0.552 Sum_probs=69.3
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
+|+++||++++++||++++++||++||+|+++.++|+++|+|++|+++++... +++.+|++||+++||+|+
T Consensus 237 ~R~~~~y~~~l~iP~~li~~ls~~sF~Lp~~a~~eRi~L~it~lLs~~vf~~~---v~~~lP~~S~vpli~~y~ 307 (459)
T TIGR00860 237 RRRPLYYLLQLYIPSILIVILSWVSFWLPADASGARVSLGITTLLTMTTFSSG---VRESLPAVSYVKAIDVYF 307 (459)
T ss_pred EEcccceeeeehHHHHHHHHHhheeEecCCCCCCCcEEEEEEHHHHHHHHHHH---HHhhCCCcchHHHHHHHH
Confidence 79999999999999999999999999999997789999999999999999999 999999999999999998
No 6
>KOG3645|consensus
Probab=99.05 E-value=8.5e-11 Score=92.41 Aligned_cols=71 Identities=27% Similarity=0.318 Sum_probs=67.5
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCc-hhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQ-IERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSY-ikaid~~~ 76 (88)
+|++.||++++++||+++.+++-++||+|++...+|+++|++++|+++.+... +++.+|++|- ++.+..++
T Consensus 236 rRkplyY~v~liiP~~lis~l~il~fflp~~~~~eki~L~it~Ll~~tv~ll~---vs~~~P~ts~~iPLig~y~ 307 (449)
T KOG3645|consen 236 RRKPLYYTVNLIIPCFLISFLSILGFFLPSDSGTEKVTLGITVLLAMTVFLLL---VSDKMPPTSSVIPLIGKYL 307 (449)
T ss_pred EeccceEEEehhhhHHHHHHHHhheEEccCCCCCceEEEEHHHHHHHHHHHHH---HHhhcCCccCcchHHHHHH
Confidence 79999999999999999999999999999888779999999999999999999 9999999996 89998876
No 7
>KOG3646|consensus
Probab=98.85 E-value=2.9e-09 Score=84.74 Aligned_cols=70 Identities=24% Similarity=0.286 Sum_probs=66.3
Q ss_pred CccchhhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCC-chhhhhhhh
Q psy10144 3 PNKRGLTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTT-QIERKGERE 76 (88)
Q Consensus 3 ~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vS-Yikaid~~~ 76 (88)
+||..||.+++++||+++.+++-.+|-+|||+. +++++++|.+|+.++|... +++..|++| -++.+.+++
T Consensus 232 rRRTLyYgfNlIiP~lLIs~m~lLgFtlppD~g-EKitL~iTilLsvc~FL~m---vse~~PpTSeaVPllg~fF 302 (486)
T KOG3646|consen 232 RRRTLYYGFNLIIPSLLISLMSLLGFTLPPDAG-EKITLQITILLSVCFFLTM---VSEMTPPTSEAVPLLGAFF 302 (486)
T ss_pred EehhhHHHHHHHHHHHHHHHHHHhccccCcccc-ceeeeeeehHHHHHHHHHH---HHhhcCCccccccHHHHHH
Confidence 689999999999999999999999999999986 9999999999999999999 999999999 588888876
No 8
>PF10685 KGG: Stress-induced bacterial acidophilic repeat motif; InterPro: IPR019626 This repeat contains a highly conserved, characteristic sequence motif, KGG, that is recognised by plants and lower eukaryotes. Further downstream from this motif is a Walker A, nucleotide binding motif. YciG is expressed as part of a three-gene operon, yciGFE and this operon is induced by stress and is regulated by RpoS, which controls the general stress-response in E coli. YciG was shown to be important for stationary-phase resistance to thermal stress and in particular to acid stress [].
Probab=42.44 E-value=12 Score=18.24 Aligned_cols=12 Identities=33% Similarity=0.412 Sum_probs=9.0
Q ss_pred hhccchhHhhhc
Q psy10144 76 ERTRDKEKQKEM 87 (88)
Q Consensus 76 ~~~~~~~~~~~~ 87 (88)
+.++|+|++.|.
T Consensus 2 Fa~~d~e~~~ei 13 (23)
T PF10685_consen 2 FASMDPEKAREI 13 (23)
T ss_pred ccccCHHHHHHH
Confidence 456799998874
No 9
>PF09964 DUF2198: Uncharacterized protein conserved in bacteria (DUF2198); InterPro: IPR019242 This family of various hypothetical archaeal proteins has no known function.
Probab=37.85 E-value=31 Score=21.45 Aligned_cols=55 Identities=18% Similarity=0.142 Sum_probs=32.5
Q ss_pred hhhHHHHHHHHHHHHHHhhhccccCCCCCCceeeeeehhhhhhhhccchhhhhhcCCCCCchhhhhhhh
Q psy10144 8 LTGRLSYLPTILIVIISWVSFWMDVDSVPGRTTLGVTTLLAVSSQSSGYANIASQTEPTTQIERKGERE 76 (88)
Q Consensus 8 yyl~~~yiP~~livilSwvsFWi~~~~~~aRv~LgittlLt~~~~~~~~~~~~~~lP~vSYikaid~~~ 76 (88)
.|+.-.++||+++++++=++|= + =+.++|+......+ +-..--+.-++=.+|.-+
T Consensus 2 ~~~~Al~~P~lLVvlFtrVT~n--------~---~vg~~lt~~Li~AS---vykGyt~~~~ii~iD~~S 56 (74)
T PF09964_consen 2 KYLLALFFPCLLVVLFTRVTYN--------H---YVGTILTVALIAAS---VYKGYTHTWWIIFIDAVS 56 (74)
T ss_pred HHHHHHHHHHHHHHHhhhhhHH--------H---HHHHHHHHHHHHHH---HHhccccchHHHHHHHHH
Confidence 3567788999999999887771 1 12444544444222 444444445666666544
No 10
>PHA02291 hypothetical protein
Probab=34.33 E-value=50 Score=22.31 Aligned_cols=35 Identities=11% Similarity=-0.062 Sum_probs=28.1
Q ss_pred CCCccchhhhHHHHHHHHHHHHHHhhhccccCCCC
Q psy10144 1 MGPNKRGLTGRLSYLPTILIVIISWVSFWMDVDSV 35 (88)
Q Consensus 1 ~~~R~~~yyl~~~yiP~~livilSwvsFWi~~~~~ 35 (88)
|.+.+..||++....-.+.+..-+|.||.-+..+-
T Consensus 1 MS~K~~iFYiL~~~VL~~si~sY~~sS~~Y~~~A~ 35 (132)
T PHA02291 1 MSRKASIFYILVVIVLAFSISSYYISSFMYHDKAK 35 (132)
T ss_pred CCcchhhHHHHHHHHHHHHHHHHhhheeeeecccc
Confidence 55667788988888888888889999998877554
No 11
>PRK14746 RepA leader peptide Tap; Provisional
Probab=34.31 E-value=11 Score=18.80 Aligned_cols=15 Identities=33% Similarity=0.217 Sum_probs=11.8
Q ss_pred ccchhhhHHHHHHHH
Q psy10144 4 NKRGLTGRLSYLPTI 18 (88)
Q Consensus 4 R~~~yyl~~~yiP~~ 18 (88)
|+..|++....+||.
T Consensus 3 RK~Q~l~~~lLLpCn 17 (26)
T PRK14746 3 RKVQYLLRLLLLPCN 17 (26)
T ss_pred HHHHHHHHHHHhcce
Confidence 777888888888874
No 12
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=32.70 E-value=56 Score=26.08 Aligned_cols=28 Identities=21% Similarity=0.306 Sum_probs=21.2
Q ss_pred hhhHHHHHHHHHHHHHHhhhccccCCCC
Q psy10144 8 LTGRLSYLPTILIVIISWVSFWMDVDSV 35 (88)
Q Consensus 8 yyl~~~yiP~~livilSwvsFWi~~~~~ 35 (88)
-+++-+.+=.+|+++|-|.+||.+++..
T Consensus 14 aiiiSv~LHvlLi~lLi~gs~~~~~~~~ 41 (387)
T PRK09510 14 AIIISVVLHIILFALLIWSSFDENIEAS 41 (387)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCCCC
Confidence 3456667777888889999999876654
No 13
>PF11169 DUF2956: Protein of unknown function (DUF2956); InterPro: IPR021339 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=30.75 E-value=29 Score=22.89 Aligned_cols=15 Identities=33% Similarity=0.962 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHhhhcc
Q psy10144 14 YLPTILIVIISWVSFW 29 (88)
Q Consensus 14 yiP~~livilSwvsFW 29 (88)
.+|=. +.++||++|-
T Consensus 84 ~LPW~-LL~lSW~gF~ 98 (103)
T PF11169_consen 84 WLPWG-LLVLSWIGFI 98 (103)
T ss_pred chhHH-HHHHHHHHHH
Confidence 56665 5678999983
No 14
>COG4897 CsbA Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.13 E-value=88 Score=19.51 Aligned_cols=19 Identities=16% Similarity=0.571 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHhhhc
Q psy10144 10 GRLSYLPTILIVIISWVSF 28 (88)
Q Consensus 10 l~~~yiP~~livilSwvsF 28 (88)
+.-.+.||.++|.++=++|
T Consensus 5 ~sAlfFPc~LVvLF~riT~ 23 (78)
T COG4897 5 ISALFFPCLLVVLFARITY 23 (78)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4557899999999988776
No 15
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=21.82 E-value=1e+02 Score=19.19 Aligned_cols=19 Identities=32% Similarity=0.417 Sum_probs=13.0
Q ss_pred hhhhHHHHHHHHHHHH-HHh
Q psy10144 7 GLTGRLSYLPTILIVI-ISW 25 (88)
Q Consensus 7 ~yyl~~~yiP~~livi-lSw 25 (88)
.+|++.++.|.+++.. +||
T Consensus 23 l~~vll~LtPlfiisa~lSw 42 (74)
T PF15086_consen 23 LTTVLLILTPLFIISAVLSW 42 (74)
T ss_pred HHHHHHHHhHHHHHHHHHHH
Confidence 3566777788777765 666
Done!