Query psy10985
Match_columns 167
No_of_seqs 78 out of 80
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 15:12:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10985.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10985hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3684|consensus 100.0 4.2E-67 9E-72 472.9 11.4 165 2-167 105-277 (489)
2 PF03530 SK_channel: Calcium-a 100.0 2.4E-29 5.1E-34 194.0 4.6 69 2-70 45-119 (119)
3 KOG3684|consensus 98.8 1.7E-09 3.6E-14 99.4 0.9 147 13-167 135-281 (489)
4 PF10215 Ost4: Oligosaccaryltr 47.6 14 0.00031 23.0 1.7 13 13-25 18-30 (35)
5 PF13677 MotB_plug: Membrane M 12.3 2E+02 0.0043 19.2 2.2 14 145-158 26-39 (58)
6 PF10980 DUF2787: Protein of u 11.3 79 0.0017 24.8 -0.1 19 19-39 39-57 (128)
7 COG3234 Uncharacterized protei 11.0 86 0.0019 26.6 0.1 55 85-147 94-148 (215)
8 smart00110 C1Q Complement comp 11.0 1.3E+02 0.0028 23.2 1.0 15 58-72 46-60 (135)
9 PF10777 YlaC: Inner membrane 10.7 3.8E+02 0.0083 22.0 3.7 20 123-147 21-40 (155)
10 PF14552 Tautomerase_2: Tautom 10.4 88 0.0019 22.4 -0.1 20 20-39 62-81 (82)
No 1
>KOG3684|consensus
Probab=100.00 E-value=4.2e-67 Score=472.90 Aligned_cols=165 Identities=62% Similarity=0.999 Sum_probs=156.2
Q ss_pred cchhhhHHHHH------HHHHHHHhhhhheeeeccccCccchhHHHhHHHHHHHHHHHhheeeccCC--Cccceeeeeec
Q psy10985 2 KLFSFRIEHLC------NLYVCQEFQTRTKLLFMIDNCADDWRIAMTWQRISQISMELAICAIHPVP--GQHFFLWQTKL 73 (167)
Q Consensus 2 ~~~~~~~~~~~------lL~~ii~yH~~eiqLf~~dn~~~DWRia~t~~ri~~i~lEl~VCaIHP~P--g~~~f~w~~~~ 73 (167)
+.|||+++|++ +|++|++||++||||||+|||+||||||||+||++|+.+|++||+|||+| |.+.+.|+.++
T Consensus 105 s~~s~~Lk~~i~~ST~~LL~~ii~yHa~eIqLfmidngaddWrva~t~er~~~i~lE~~vC~i~P~P~~g~~~~~~~~~~ 184 (489)
T KOG3684|consen 105 SLYSFALKCLISISTIALLGLIIAYHAIEIQLFMVDNGADDWRVAMTTERVLQILLELLVCAICPIPETGEYKWTWLAPL 184 (489)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccchhHHHHHHHHHHHHHHHHHHHhccCCCCCCCceeeEeccch
Confidence 57888877665 99999999999999999999999999999999999999999999999999 67777888999
Q ss_pred cccCCCCccccccchhhhhHHHHHHHHHHHHHHhhhhhcccCccccccccccccccchHHHHHHhhhcCCchhHHHHHHH
Q psy10985 74 ANKGGELCSRWVPYDVTLSLPMFLRLYLICRVMLLHSKLFTDASSRSIGALNRINFNTRFVLKTLMTICPGTVLLVFMVS 153 (167)
Q Consensus 74 ~~~~~~~~~~~~~~dvlLSlpMFlRlYLi~R~mllhS~~f~dassRsIgaLN~v~fn~rFv~Ktlm~~~P~~vLl~f~~~ 153 (167)
+++..+...+ +|+||+||+|||||+||+||+|++|||+|+|||+|||||||+|+||+|||+||+|++|||+||++|+++
T Consensus 185 ~~~~~~~~~~-~~vdV~LSipMfLRlyLv~R~MlLhSk~f~DastRSIaaLNrI~fn~rFV~Kt~M~~~Pg~vL~vftl~ 263 (489)
T KOG3684|consen 185 AFSYTPSRVD-VPVDVLLSIPMFLRLYLVCRVMLLHSKQFQDASTRSIAALNRINFNFRFVLKTLMTICPGTVLLVFTLS 263 (489)
T ss_pred hhccCCCccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcchhhhhhhHHHHHHhCchHHHHHHHHH
Confidence 9886665544 899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhcC
Q psy10985 154 LWIIASWTMRQCER 167 (167)
Q Consensus 154 ~Wii~sW~lrvcER 167 (167)
+|+++||++|+|||
T Consensus 264 ~Wii~sW~~~~cER 277 (489)
T KOG3684|consen 264 LWIIASWMLRQCER 277 (489)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999999998
No 2
>PF03530 SK_channel: Calcium-activated SK potassium channel; InterPro: IPR011996 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Ca2+-activated K+ channels are a diverse group of channels that are activated by an increase in intracellular Ca2+ concentration. They are found in the majority of nerve cells, where they modulate cell excitability and action potential. Three types of Ca2+-activated K+ channel have been characterised, termed small-conductance (SK), intermediate conductance (IK) and large conductance (BK) respectively []. SK channels are thought to play an important role in the functioning of all excitable tissues. To date, 3 subtypes (designated SK1-SK3) have been cloned, each of which possesses a different tissue expression profile: SK1 channels are expressed in the heart; SK2 channels are found in the adrenal gland; and SK3 channels are known to be present in skeletal muscle []. SK channels have a single-channel conductance of 2-20 pS and are activated by rises in cytosolic calcium with half maximal activation in the 400-800 nM range [, ]. Unlike BK channels, they are voltage insensitive and unaffected by low concentrations of TEA, charybdotoxin, or iberiotoxin. However, they are potently blocked by the bee venom apamin [, ], tubocurarine, and quaternary salts of bicuculline [, ]. A new series of compounds that block SK channels include dequalinium Synonym(s): SK Channel This entry represents a conserved region, found in proteins of SK channels family.
Probab=99.95 E-value=2.4e-29 Score=194.00 Aligned_cols=69 Identities=48% Similarity=0.947 Sum_probs=63.8
Q ss_pred cchhhhH------HHHHHHHHHHHhhhhheeeeccccCccchhHHHhHHHHHHHHHHHhheeeccCCCccceeee
Q psy10985 2 KLFSFRI------EHLCNLYVCQEFQTRTKLLFMIDNCADDWRIAMTWQRISQISMELAICAIHPVPGQHFFLWQ 70 (167)
Q Consensus 2 ~~~~~~~------~~~~lL~~ii~yH~~eiqLf~~dn~~~DWRia~t~~ri~~i~lEl~VCaIHP~Pg~~~f~w~ 70 (167)
+.||+++ ||.+||++|++||++|+|+|++|||+||||+|||++|+.++++|++||||||+||.+.|.||
T Consensus 45 s~~sl~Lk~lis~ST~~Ll~lii~yH~~eiqlf~~dn~~~dWria~t~~r~~~i~lEl~vCaihP~Pg~~~~~w~ 119 (119)
T PF03530_consen 45 SMYSLALKCLISLSTIILLGLIIAYHAREIQLFMVDNGADDWRIAMTWERILQIALELLVCAIHPFPGVYHFFWT 119 (119)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHheecCCCceEEeeeC
Confidence 4566665 45669999999999999999999999999999999999999999999999999999999996
No 3
>KOG3684|consensus
Probab=98.77 E-value=1.7e-09 Score=99.40 Aligned_cols=147 Identities=5% Similarity=-0.083 Sum_probs=133.7
Q ss_pred HHHHHHHhhhhheeeeccccCccchhHHHhHHHHHHHHHHHhheeeccCCCccceeeeeeccccCCCCccccccchhhhh
Q psy10985 13 NLYVCQEFQTRTKLLFMIDNCADDWRIAMTWQRISQISMELAICAIHPVPGQHFFLWQTKLANKGGELCSRWVPYDVTLS 92 (167)
Q Consensus 13 lL~~ii~yH~~eiqLf~~dn~~~DWRia~t~~ri~~i~lEl~VCaIHP~Pg~~~f~w~~~~~~~~~~~~~~~~~~dvlLS 92 (167)
.|++|-.+|.-+.+.+..|+.+++|+..+.|.+.=+.-.+...|.++|.|+... .......| .+ +.+++...
T Consensus 135 qLfmidngaddWrva~t~er~~~i~lE~~vC~i~P~P~~g~~~~~~~~~~~~~~-----~~~~~~~~--vd-V~LSipMf 206 (489)
T KOG3684|consen 135 QLFMVDNGADDWRVAMTTERVLQILLELLVCAICPIPETGEYKWTWLAPLAFSY-----TPSRVDVP--VD-VLLSIPMF 206 (489)
T ss_pred hhhhhhccchhHHHHHHHHHHHHHHHHHHHhccCCCCCCCceeeEeccchhhcc-----CCCcccch--hH-HHHHHHHH
Confidence 566889999999999999999999999999999988888999999999999761 22222333 33 88999999
Q ss_pred HHHHHHHHHHHHHHhhhhhcccCccccccccccccccchHHHHHHhhhcCCchhHHHHHHHHHHHHHHhhhhhcC
Q psy10985 93 LPMFLRLYLICRVMLLHSKLFTDASSRSIGALNRINFNTRFVLKTLMTICPGTVLLVFMVSLWIIASWTMRQCER 167 (167)
Q Consensus 93 lpMFlRlYLi~R~mllhS~~f~dassRsIgaLN~v~fn~rFv~Ktlm~~~P~~vLl~f~~~~Wii~sW~lrvcER 167 (167)
++|+++.+..++.+.+|++-++++.++.++..++.+|..++.|++-+.++|+.+.++|-++.|.++.|.-|+|++
T Consensus 207 LRlyLv~R~MlLhSk~f~DastRSIaaLNrI~fn~rFV~Kt~M~~~Pg~vL~vftl~~Wii~sW~~~~cER~~~~ 281 (489)
T KOG3684|consen 207 LRLYLVCRVMLLHSKQFQDASTRSIAALNRINFNFRFVLKTLMTICPGTVLLVFTLSLWIIASWMLRQCERYHDS 281 (489)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHhcchhhhhhhHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999985
No 4
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=47.58 E-value=14 Score=23.05 Aligned_cols=13 Identities=0% Similarity=-0.046 Sum_probs=10.6
Q ss_pred HHHHHHHhhhhhe
Q psy10985 13 NLYVCQEFQTRTK 25 (167)
Q Consensus 13 lL~~ii~yH~~ei 25 (167)
+..+|+.||+.|+
T Consensus 18 ~~~LIVlYH~v~~ 30 (35)
T PF10215_consen 18 AMVLIVLYHFVEV 30 (35)
T ss_dssp HHHHHHHHHHHCC
T ss_pred HHHHHHHHHHhhc
Confidence 4558999999885
No 5
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=12.27 E-value=2e+02 Score=19.19 Aligned_cols=14 Identities=43% Similarity=0.755 Sum_probs=11.1
Q ss_pred hhHHHHHHHHHHHH
Q psy10985 145 TVLLVFMVSLWIIA 158 (167)
Q Consensus 145 ~vLl~f~~~~Wii~ 158 (167)
++|++|++.+|.+.
T Consensus 26 TLLl~fFVlL~s~s 39 (58)
T PF13677_consen 26 TLLLAFFVLLFSMS 39 (58)
T ss_pred HHHHHHHHHHHHHH
Confidence 57888888888765
No 6
>PF10980 DUF2787: Protein of unknown function (DUF2787); InterPro: IPR021248 This bacterial family of proteins has no known function. ; PDB: 2W56_A 2V1L_A.
Probab=11.31 E-value=79 Score=24.84 Aligned_cols=19 Identities=26% Similarity=0.473 Sum_probs=12.3
Q ss_pred HhhhhheeeeccccCccchhH
Q psy10985 19 EFQTRTKLLFMIDNCADDWRI 39 (167)
Q Consensus 19 ~yH~~eiqLf~~dn~~~DWRi 39 (167)
-||-.||||-. +.-++|++
T Consensus 39 GfHPVEIrl~r--~~~~~W~i 57 (128)
T PF10980_consen 39 GFHPVEIRLER--SSSDQWQI 57 (128)
T ss_dssp -S--EEEEEEE---TTS-EEE
T ss_pred CcCCEEEEEEE--cCCCCEEE
Confidence 48999999988 77889987
No 7
>COG3234 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=11.02 E-value=86 Score=26.64 Aligned_cols=55 Identities=27% Similarity=0.436 Sum_probs=35.9
Q ss_pred ccchhhhhHHHHHHHHHHHHHHhhhhhcccCccccccccccccccchHHHHHHhhhcCCchhH
Q psy10985 85 VPYDVTLSLPMFLRLYLICRVMLLHSKLFTDASSRSIGALNRINFNTRFVLKTLMTICPGTVL 147 (167)
Q Consensus 85 ~~~dvlLSlpMFlRlYLi~R~mllhS~~f~dassRsIgaLN~v~fn~rFv~Ktlm~~~P~~vL 147 (167)
-|+|+-|+ |=.-|+.-= -..- ....+--.-|+|-|++|.|||-|..-+.-||-++
T Consensus 94 lpPel~Lt-p~qrrlaq~------w~~g-~g~~g~yv~A~~Liq~ns~fi~kdvnqAlPGDl~ 148 (215)
T COG3234 94 LPPELTLT-PEQRRLAQN------WNQG-NGKTGPYVTAINLIQYNSRFIGKDVNQALPGDLI 148 (215)
T ss_pred CCCCCcCC-HHHHHHHHH------Hhhc-cCccchHHHHHHHHHHhHHHHHhhhhhhCCCcEE
Confidence 36677777 665565321 1111 1122223558999999999999999999998754
No 8
>smart00110 C1Q Complement component C1q domain. Globular domain found in many collagens and eponymously in complement C1q. When part of full length proteins these domains form a 'bouquet' due to the multimerization of heterotrimers. The C1q fold is similar to that of tumour necrosis factor.
Probab=11.00 E-value=1.3e+02 Score=23.23 Aligned_cols=15 Identities=33% Similarity=0.802 Sum_probs=12.1
Q ss_pred eccCCCccceeeeee
Q psy10985 58 IHPVPGQHFFLWQTK 72 (167)
Q Consensus 58 IHP~Pg~~~f~w~~~ 72 (167)
.||+||.|.|.++..
T Consensus 46 tcpv~GvY~F~f~~~ 60 (135)
T smart00110 46 TCPVPGVYYFSYHVE 60 (135)
T ss_pred ECeeceEEEEEEEEE
Confidence 579999999988643
No 9
>PF10777 YlaC: Inner membrane protein YlaC; InterPro: IPR019713 The extracytoplasmic function (ECF) sigma factors are small regulatory proteins that are quite divergent in sequence relative to most other sigma factors. YlaC, regulated by YlaA, is important in oxidative stress resistance. It contributes to hydrogen peroxide resistance in Bacillus subtilis [].
Probab=10.67 E-value=3.8e+02 Score=21.99 Aligned_cols=20 Identities=25% Similarity=0.350 Sum_probs=15.1
Q ss_pred cccccccchHHHHHHhhhcCCchhH
Q psy10985 123 ALNRINFNTRFVLKTLMTICPGTVL 147 (167)
Q Consensus 123 aLN~v~fn~rFv~Ktlm~~~P~~vL 147 (167)
.=||..||..|+ .+||+-++
T Consensus 21 RDnkprFs~~Fi-----~~HP~L~~ 40 (155)
T PF10777_consen 21 RDNKPRFSSSFI-----RNHPYLCL 40 (155)
T ss_pred cCCCccccHHHH-----HhCcHHHH
Confidence 458899999886 45898663
No 10
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=10.36 E-value=88 Score=22.42 Aligned_cols=20 Identities=15% Similarity=0.635 Sum_probs=15.0
Q ss_pred hhhhheeeeccccCccchhH
Q psy10985 20 FQTRTKLLFMIDNCADDWRI 39 (167)
Q Consensus 20 yH~~eiqLf~~dn~~~DWRi 39 (167)
-...||-+.+.+|+.+||..
T Consensus 62 i~p~Dv~I~l~e~~~edWSF 81 (82)
T PF14552_consen 62 IRPEDVMIVLVENPREDWSF 81 (82)
T ss_dssp --GGGEEEEEEEE-GGGEEE
T ss_pred CCHHHEEEEEEECCcccCCC
Confidence 34578999999999999965
Done!