Query psy15123
Match_columns 278
No_of_seqs 177 out of 300
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 21:12:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15123.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15123hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1924|consensus 100.0 6.5E-41 1.4E-45 334.8 12.0 176 87-263 310-486 (1102)
2 PF06367 Drf_FH3: Diaphanous F 100.0 1.9E-30 4.1E-35 227.0 3.2 194 39-239 2-197 (197)
3 KOG3636|consensus 100.0 1.6E-29 3.5E-34 242.3 1.8 116 1-118 221-345 (669)
4 PF03234 CDC37_N: Cdc37 N term 50.4 1.8E+02 0.0038 25.6 11.2 58 196-266 103-160 (177)
5 PF15188 CCDC-167: Coiled-coil 44.8 12 0.00027 29.1 1.3 28 245-272 37-64 (85)
6 PF04363 DUF496: Protein of un 33.6 1.2E+02 0.0027 23.9 5.2 48 204-263 36-93 (95)
7 PRK14127 cell division protein 31.8 79 0.0017 25.7 4.1 36 233-268 27-68 (109)
8 PF06657 Cep57_MT_bd: Centroso 30.1 71 0.0015 24.3 3.4 25 247-271 53-77 (79)
9 PF08606 Prp19: Prp19/Pso4-lik 27.7 1.2E+02 0.0027 22.8 4.2 36 231-267 3-38 (70)
10 PF03520 KCNQ_channel: KCNQ vo 27.5 20 0.00044 32.2 0.0 17 109-125 103-119 (202)
11 PF02465 FliD_N: Flagellar hoo 26.6 1.6E+02 0.0035 22.6 5.0 31 231-261 3-36 (99)
12 cd03565 VHS_Tom1 VHS domain fa 26.5 3.4E+02 0.0074 22.6 7.3 116 140-267 14-140 (141)
13 KOG2526|consensus 24.9 89 0.0019 31.7 3.8 74 201-274 405-487 (555)
14 PRK13729 conjugal transfer pil 24.8 66 0.0014 32.6 3.0 34 234-267 58-92 (475)
15 KOG1923|consensus 24.5 36 0.00078 36.4 1.1 45 96-141 104-148 (830)
16 COG4463 CtsR Transcriptional r 23.7 1.8E+02 0.0038 25.0 4.9 66 156-224 72-137 (153)
17 PRK05423 hypothetical protein; 22.3 2.3E+02 0.0049 22.8 4.9 50 202-263 41-100 (104)
18 cd03568 VHS_STAM VHS domain fa 21.5 1.4E+02 0.003 25.2 3.9 116 140-268 13-136 (144)
19 cd03569 VHS_Hrs_Vps27p VHS dom 21.4 1.5E+02 0.0033 24.7 4.2 114 141-269 18-141 (142)
No 1
>KOG1924|consensus
Probab=100.00 E-value=6.5e-41 Score=334.77 Aligned_cols=176 Identities=41% Similarity=0.646 Sum_probs=170.5
Q ss_pred ccCCCCCCCCCCCccccccChhHHhhchhhHHHHHhhccCChhHHHHHHHHHhhHHhHHHHHHhhhcCccccCCCHHHHH
Q psy15123 87 EFPGFNVRPPKGTWPLDQTRPADSINRINYDLLDALEKDASEDVSVQLKVFIEHKEEDYYEFIQRFDNVRMEIDDVNDCF 166 (278)
Q Consensus 87 ~~~~~~V~~~~~~~~r~~lR~~ef~~~Gl~~il~kLr~~e~~~L~~QldvFEe~~~eD~eEL~~r~~~i~~D~~d~~~vf 166 (278)
+++|--|.+|.++.||+|+|+ ||+..||+.+|++|+..+|+.+++|+.+|.|++++|.+||.+|+++|+.+|+|..+||
T Consensus 310 q~INal~t~p~dldfRlhlR~-E~mr~gL~~~l~~l~~i~n~~ldvqlkvfdE~~e~Dl~el~~rledir~emDd~~~~f 388 (1102)
T KOG1924|consen 310 QFINALVTSPSDLDFRLHLRS-EFMRDGLHKYLPDLTEINNDILDVQLKVFDEHKEDDLEELSGRLEDIRAEMDDANEVF 388 (1102)
T ss_pred HHHHHhcCCHHHhhHHHHHHH-HHHHHhHHHHHHHhhhhccHHHHHHHHHHhhhhhhhHHHHHhHHHhhhhhhccHHHHH
Confidence 356666788999999999999 9999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCChhhHHHHHHHhcCccCcchhHhHHHHHHHHHHhhhhhccCCCCCCCccccccCCCHHHHHHHHHHhhH
Q psy15123 167 ETVRNMVMDSACEPYLLSILQHLLFIRDDQYVRLAYYKLLEECVSQIVLHRGGCDPDFRSSRRFQLDVQPLVEHLAEKSK 246 (278)
Q Consensus 167 ~~L~~~v~~T~a~~~fLSiLQHLLli~~d~~~~~~yw~LiD~lV~qIVL~~~g~DpDf~~~~~~~i~V~~li~~lv~~~r 246 (278)
+.||+.+++|.|++||||||||||+|++|...+++||+|||+||+|||||++|+||||.++.+|++++..+|+.|+++++
T Consensus 389 ~lL~n~vkdT~aE~yfLSILQhlllirnDy~~rpqYykLIEecISqIvlHr~~~DPdf~yr~~l~id~~~liD~~vdkak 468 (1102)
T KOG1924|consen 389 ELLANTVKDTGAEPYFLSILQHLLLIRNDYYIRPQYYKLIEECISQIVLHRTGMDPDFKYRFRLDIDLTELIDKMVDKAK 468 (1102)
T ss_pred HHHHHhhhhccccchHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHhcCCCCCCcchhhcccCcHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -HHHHHHHHHHHHHhHhh
Q psy15123 247 -TEEDRRVEDLSAFLFKY 263 (278)
Q Consensus 247 -e~~e~~~~eL~kkle~~ 263 (278)
++.+.|+.|++||+++.
T Consensus 469 ~eeseqkA~e~~kk~~ke 486 (1102)
T KOG1924|consen 469 AEESEQKAAELEKKFDKE 486 (1102)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 89999999999999864
No 2
>PF06367 Drf_FH3: Diaphanous FH3 Domain; InterPro: IPR010472 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain (IPR003104 from INTERPRO) is required to inhibit actin polymerisation. The FH3 domain is less well conserved and is required for directing formins to the correct intracellular location, such the mitotic spindle [], or the projection tip during conjugation []. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH3 domain.; GO: 0003779 actin binding, 0016043 cellular component organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=99.96 E-value=1.9e-30 Score=226.99 Aligned_cols=194 Identities=28% Similarity=0.423 Sum_probs=156.3
Q ss_pred ChhhHHHHHHHHhhcCCCceeeeccCC-CCC-cCCccccccccCChHHHhccCCCCCCCCCCCccccccChhHHhhchhh
Q psy15123 39 DVSDFCSLAQYYDYKTPRSFKTVTLAD-PED-EDGEIEVDRCKYDMKKIIEFPGFNVRPPKGTWPLDQTRPADSINRINY 116 (278)
Q Consensus 39 dv~d~~~l~~~y~~~Tp~s~r~~~l~~-~~~-e~~~i~~~lc~~~v~eil~~~~~~V~~~~~~~~r~~lR~~ef~~~Gl~ 116 (278)
++.-..+...+|+....+..|+..+++ ... +...++ .| + ..+.+.|.-|.+++++.+|+++|+ ||.++|+.
T Consensus 2 G~~~vl~a~~~~~~~~~e~~RF~~lv~~l~~~~~~~~e--~~---~-~~l~~IN~li~~~~d~~~R~~lr~-e~~~~GL~ 74 (197)
T PF06367_consen 2 GHEKVLEAFDNFKEVKGERGRFQSLVGALESVDSSDIE--YK---T-ACLQFINSLINSPEDLNFRVHLRN-EFERLGLL 74 (197)
T ss_dssp HHHHHHHHHHHHHHHHT-S-TTHHHHHHCS--TTS-HH--HH---H-HHHHHHHHHHTT-SSHHHHHHHHH-HHHHTTHH
T ss_pred hHHHHHHHHHHHHHHhCCcccHHHHHHHHHccccCcHH--HH---H-HHHHHHHHHHcCCCCHHHHHHHHH-HHHHCCcH
Confidence 344556667777776667777776662 221 121211 11 1 245566666788899999999999 99999999
Q ss_pred HHHHHhhccCChhHHHHHHHHHhhHHhHHHHHHhhhcCccccCCCHHHHHHHHHHhcCCCCChhhHHHHHHHhcCccCcc
Q psy15123 117 DLLDALEKDASEDVSVQLKVFIEHKEEDYYEFIQRFDNVRMEIDDVNDCFETVRNMVMDSACEPYLLSILQHLLFIRDDQ 196 (278)
Q Consensus 117 ~il~kLr~~e~~~L~~QldvFEe~~~eD~eEL~~r~~~i~~D~~d~~~vf~~L~~~v~~T~a~~~fLSiLQHLLli~~d~ 196 (278)
+++++|+..+++.|..|+++|++.+++|.+++.++++...+++++|.+||++|++++++|+++.+|+|+|||||+++.+.
T Consensus 75 ~il~~l~~~~~~~L~~Qi~~f~~~~~~D~~el~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~siLq~ll~i~~~~ 154 (197)
T PF06367_consen 75 DILEKLRNLEDDDLQEQIDIFEENEEEDEEELLERFDSKTVDLSDPQELFEALLEKLKDTEAEDYFLSILQHLLLIRQDE 154 (197)
T ss_dssp HHHHHHTTS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHTTSTTHHHHHHHHHHHTTS-TTT
T ss_pred HHHHHHHhcchHHHHHHHHHHHHHHHhhHHHHHHhhcccccccccHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcccch
Confidence 99999999999999999999999999999999999997778999999999999999999999999999999999998888
Q ss_pred hhHhHHHHHHHHHHhhhhhccCCCCCCCccccccCCCHHHHHH
Q psy15123 197 YVRLAYYKLLEECVSQIVLHRGGCDPDFRSSRRFQLDVQPLVE 239 (278)
Q Consensus 197 ~~~~~yw~LiD~lV~qIVL~~~g~DpDf~~~~~~~i~V~~li~ 239 (278)
..+.+||++||++|+|||+++++.||++..++.++++|++|++
T Consensus 155 ~~~~~~~~lie~~v~~i~~~~~~~~~~~~~~~~l~~~i~~L~d 197 (197)
T PF06367_consen 155 EERSKYWQLIESLVSQIVLDRKGIDPDDDEQSSLEIDINRLLD 197 (197)
T ss_dssp TTHHHHHHHHHHHHHHHHSSGGGS-S-TTSS-EEEEEHSCSHH
T ss_pred hHHHHHHHHHHHHHHHHHHhccccCchHHHhhhHHHHHHHhcC
Confidence 8999999999999999999999999988777789999988875
No 3
>KOG3636|consensus
Probab=99.95 E-value=1.6e-29 Score=242.32 Aligned_cols=116 Identities=27% Similarity=0.466 Sum_probs=102.7
Q ss_pred CEEEEEEcchhhhhccCCCcHHHHHHHHhcCCCCCCcCChhhHHHHHHHHhhcCCCceeeec----cC----CCCCcCCc
Q psy15123 1 MSIVYIFGCRDQILALKDEPKEKIIEALSLLPCGLERDDVSDFCSLAQYYDYKTPRSFKTVT----LA----DPEDEDGE 72 (278)
Q Consensus 1 ~~lv~~in~k~~il~~~~~~k~~~~~~l~~~p~~l~~~dv~d~~~l~~~y~~~Tp~s~r~~~----l~----~~~~e~~~ 72 (278)
++|||||||||+||++++||||++|++|++|||+|+.+||+||||||||||.|||+|||+|| |+ +.++++.+
T Consensus 221 LaliiLiNake~ILq~~sdsKEe~ikfLenmp~~L~~eDvpDffsLAqyY~~KTP~sfrkD~~~~lfGn~~~~~~~~~~~ 300 (669)
T KOG3636|consen 221 LALIILINAKEEILQVKSDSKEEAIKFLENMPAQLSVEDVPDFFSLAQYYSDKTPESFRKDFHYILFGNANFDEEVKEIQ 300 (669)
T ss_pred HHHHHhcccHHHHhhhccccHHHHHHHHHcCchhcccccchhHHHHHHHHhhcChHHhhhhhhHhhhcCCCccchhhhhH
Confidence 57999999999999999999999999999999999999999999999999999999999995 33 34456667
Q ss_pred cccccc-cCChHHHhccCCCCCCCCCCCccccccChhHHhhchhhHH
Q psy15123 73 IEVDRC-KYDMKKIIEFPGFNVRPPKGTWPLDQTRPADSINRINYDL 118 (278)
Q Consensus 73 i~~~lc-~~~v~eil~~~~~~V~~~~~~~~r~~lR~~ef~~~Gl~~i 118 (278)
++||+| |++|.||.++.. +.+....+|.++||+||.|++|+.-.
T Consensus 301 ~sqaLCLpisv~el~~~~~--~~~~~VrFFiVDcRpaeqynaGHlst 345 (669)
T KOG3636|consen 301 MSQALCLPISVIELTSHDE--ISSGSVRFFIVDCRPAEQYNAGHLST 345 (669)
T ss_pred HhhhhccchhHHHhhcccc--cccCceEEEEEeccchhhcccccchh
Confidence 899999 899999999853 33455569999999999999999653
No 4
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=50.45 E-value=1.8e+02 Score=25.63 Aligned_cols=58 Identities=17% Similarity=0.261 Sum_probs=37.4
Q ss_pred chhHhHHHHHHHHHHhhhhhccCCCCCCCccccccCCCHHHHHHHHHHhhHHHHHHHHHHHHHHhHhhhcc
Q psy15123 196 QYVRLAYYKLLEECVSQIVLHRGGCDPDFRSSRRFQLDVQPLVEHLAEKSKTEEDRRVEDLSAFLFKYGLE 266 (278)
Q Consensus 196 ~~~~~~yw~LiD~lV~qIVL~~~g~DpDf~~~~~~~i~V~~li~~lv~~~re~~e~~~~eL~kkle~~~~e 266 (278)
....+-|-+.|..++.|| +.+.|++ +-+.++..+... +..+.....++.+||++.+.|
T Consensus 103 ~~~~p~y~~Mi~~L~~qv---k~~~de~---------~~~~~~~~l~~H-~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 103 DPEQPTYDEMIEDLLDQV---KKEPDEK---------SGKAELEELQEH-RAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred CCCCCCHHHHHHHHHHHH---hcccCcc---------cHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 345677999999999999 6666665 235556666554 334445555566666665554
No 5
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=44.80 E-value=12 Score=29.11 Aligned_cols=28 Identities=11% Similarity=0.157 Sum_probs=25.3
Q ss_pred hHHHHHHHHHHHHHHhHhhhccCCcccc
Q psy15123 245 SKTEEDRRVEDLSAFLFKYGLEFPSFHI 272 (278)
Q Consensus 245 ~re~~e~~~~eL~kkle~~~~e~~~~~~ 272 (278)
+|..++++...+.+++++.+.|++++|=
T Consensus 37 ~R~~lE~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 37 ARRSLEKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred HHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 5688999999999999999999998873
No 6
>PF04363 DUF496: Protein of unknown function (DUF496); InterPro: IPR007458 Members of this family are uncharacterised proteins.
Probab=33.57 E-value=1.2e+02 Score=23.92 Aligned_cols=48 Identities=19% Similarity=0.396 Sum_probs=34.0
Q ss_pred HHHHHHHhhhhhccCCCCCCCccccccCCCHHHHHHHHHHh--hH--------HHHHHHHHHHHHHhHhh
Q psy15123 204 KLLEECVSQIVLHRGGCDPDFRSSRRFQLDVQPLVEHLAEK--SK--------TEEDRRVEDLSAFLFKY 263 (278)
Q Consensus 204 ~LiD~lV~qIVL~~~g~DpDf~~~~~~~i~V~~li~~lv~~--~r--------e~~e~~~~eL~kkle~~ 263 (278)
.|+|.+.+.| .|+++.. +|..+|..|-++ +| +++.++.+++.+|+.+.
T Consensus 36 ~LLdNL~~YI-------~~~Ms~e-----di~~II~nMr~DYEdRVDDyiIknAElsKeRReis~k~k~~ 93 (95)
T PF04363_consen 36 LLLDNLSDYI-------KPDMSIE-----DIRAIIENMRSDYEDRVDDYIIKNAELSKERREISKKIKEL 93 (95)
T ss_pred HHHHHHHHHc-------cCCCCHH-----HHHHHHHHHHhHHHHhHHHHHHhhHHHhHHHHHHHHHHHHh
Confidence 4788888777 4566543 778888888776 33 77778888888877654
No 7
>PRK14127 cell division protein GpsB; Provisional
Probab=31.78 E-value=79 Score=25.72 Aligned_cols=36 Identities=14% Similarity=0.184 Sum_probs=23.6
Q ss_pred CHHHHHHHHHHhh----H--HHHHHHHHHHHHHhHhhhccCC
Q psy15123 233 DVQPLVEHLAEKS----K--TEEDRRVEDLSAFLFKYGLEFP 268 (278)
Q Consensus 233 ~V~~li~~lv~~~----r--e~~e~~~~eL~kkle~~~~e~~ 268 (278)
.|...++..+.+- + .+++.+...|++++++.+..+.
T Consensus 27 EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 27 EVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5677777776652 2 6677777777777776666444
No 8
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=30.15 E-value=71 Score=24.29 Aligned_cols=25 Identities=8% Similarity=0.058 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHhHhhhccCCccc
Q psy15123 247 TEEDRRVEDLSAFLFKYGLEFPSFH 271 (278)
Q Consensus 247 e~~e~~~~eL~kkle~~~~e~~~~~ 271 (278)
..++.+.++|-+++|.+.-.|-+++
T Consensus 53 ~~L~~~l~~lv~~mE~K~dQI~~L~ 77 (79)
T PF06657_consen 53 RDLEQELEELVKRMEAKADQIYKLY 77 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6777888888888888877665543
No 9
>PF08606 Prp19: Prp19/Pso4-like; InterPro: IPR013915 This region is found specifically in PRP19-like protein. The region represented by this protein covers the sequence implicated in self-interaction and a coiled-coiled motif []. PRP19-like proteins form an oligomer that is necessary for spliceosome assembly [].
Probab=27.69 E-value=1.2e+02 Score=22.80 Aligned_cols=36 Identities=14% Similarity=0.005 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHHHhhHHHHHHHHHHHHHHhHhhhccC
Q psy15123 231 QLDVQPLVEHLAEKSKTEEDRRVEDLSAFLFKYGLEF 267 (278)
Q Consensus 231 ~i~V~~li~~lv~~~re~~e~~~~eL~kkle~~~~e~ 267 (278)
+.+|..++..++++|- ..--+.-+|.|+|+.-+.|+
T Consensus 3 ~~SIP~lL~~lQnEWD-a~mLE~f~LRk~l~~~rqEL 38 (70)
T PF08606_consen 3 ATSIPSLLSTLQNEWD-ALMLENFTLRKQLDQTRQEL 38 (70)
T ss_pred cCcHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999987 33344667777777766665
No 10
>PF03520 KCNQ_channel: KCNQ voltage-gated potassium channel; InterPro: IPR013821 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. KCNQ channels (also known as KQT-like channels) differ from other voltage-gated 6 TM helix channels, chiefly in that they possess no tetramerisation domain. Consequently, they rely on interaction with accessory subunits, or form heterotetramers with other members of the family []. Currently, 5 members of the KCNQ family are known. These have been found to be widely distributed within the body, having been shown to be expressed in the heart, brain, pancreas, lung, placenta and ear. They were initially cloned as a result of a search for proteins involved in cardiac arhythmia. Subsequently, mutations in other KCNQ family members have been shown to be responsible for some forms of hereditary deafness [] and benign familial neonatal epilepsy []. This entry represents a region found at the C terminus of these proteins.; PDB: 3HFE_B 3HFC_C 3BJ4_B 2OVC_A.
Probab=27.48 E-value=20 Score=32.15 Aligned_cols=17 Identities=12% Similarity=0.145 Sum_probs=0.0
Q ss_pred HHhhchhhHHHHHhhcc
Q psy15123 109 DSINRINYDLLDALEKD 125 (278)
Q Consensus 109 ef~~~Gl~~il~kLr~~ 125 (278)
|+|.+|+.+.|.+.+.+
T Consensus 103 EQYSaGHldml~riK~l 119 (202)
T PF03520_consen 103 EQYSAGHLDMLVRIKSL 119 (202)
T ss_dssp -----------------
T ss_pred HHHhhhHHHHHHHHHHH
Confidence 78899999988887664
No 11
>PF02465 FliD_N: Flagellar hook-associated protein 2 N-terminus; InterPro: IPR003481 The flagellar hook-associated protein 2 (HAP2 or FliD) is the capping protein for the flagella and forms the distal end of the flagella. The protein plays a role in mucin specific adhesion of the bacteria [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum
Probab=26.56 E-value=1.6e+02 Score=22.58 Aligned_cols=31 Identities=16% Similarity=0.235 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHHHhhH---HHHHHHHHHHHHHhH
Q psy15123 231 QLDVQPLVEHLAEKSK---TEEDRRVEDLSAFLF 261 (278)
Q Consensus 231 ~i~V~~li~~lv~~~r---e~~e~~~~eL~kkle 261 (278)
|+|++.+|+.++.-.+ ..++.+...++.|.+
T Consensus 3 G~D~~~lv~~l~~~e~~~~~~l~~~~~~~~~k~s 36 (99)
T PF02465_consen 3 GIDTESLVDQLMQAERAPIDRLQQKKTSLEWKQS 36 (99)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5799999999998754 455555555554443
No 12
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=26.54 E-value=3.4e+02 Score=22.56 Aligned_cols=116 Identities=19% Similarity=0.172 Sum_probs=62.3
Q ss_pred hHHhHHHHHHhhhcCccccCCCHHHHHHHHHHhcCCCCChhh-H--HHHHHHhcCccCcch--hHhHHHHHHHH-HHhhh
Q psy15123 140 HKEEDYYEFIQRFDNVRMEIDDVNDCFETVRNMVMDSACEPY-L--LSILQHLLFIRDDQY--VRLAYYKLLEE-CVSQI 213 (278)
Q Consensus 140 ~~~eD~eEL~~r~~~i~~D~~d~~~vf~~L~~~v~~T~a~~~-f--LSiLQHLLli~~d~~--~~~~yw~LiD~-lV~qI 213 (278)
..++|..-..+-.+.|+-+-+.|.++..+|.+++.+++...- + |++|.-|.-- .+.. .-...-..+++ ++.-+
T Consensus 14 l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkN-CG~~fh~eiask~Fl~e~L~~~i 92 (141)
T cd03565 14 LQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKN-CGHRFHVLVAKKDFIKDVLVKLI 92 (141)
T ss_pred CCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHH-ccHHHHHHHHHHHhhhHHHHHHH
Confidence 345677777777777766668899999999999975433222 2 2222222211 1110 01111244555 33332
Q ss_pred hhccCCCCCCCccccccCCCHHHHHHHHHHhhHHHHH-----HHHHHHHHHhHhhhccC
Q psy15123 214 VLHRGGCDPDFRSSRRFQLDVQPLVEHLAEKSKTEED-----RRVEDLSAFLFKYGLEF 267 (278)
Q Consensus 214 VL~~~g~DpDf~~~~~~~i~V~~li~~lv~~~re~~e-----~~~~eL~kkle~~~~e~ 267 (278)
-.+. ++ ...|..-+-.++.+|.+.+. ....++.++|..+..++
T Consensus 93 -~~~~--~~--------~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~F 140 (141)
T cd03565 93 -NPKN--NP--------PTIVQEKVLALIQAWADAFRGSPDLTGVVEVYEELKKKGIEF 140 (141)
T ss_pred -cccC--CC--------cHHHHHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHcCCCC
Confidence 1111 11 13677777777777763322 34667777777665554
No 13
>KOG2526|consensus
Probab=24.88 E-value=89 Score=31.66 Aligned_cols=74 Identities=19% Similarity=0.327 Sum_probs=53.3
Q ss_pred HHHHHHHHHHhhhhhccCCCCCCCccc-cccCC---CHHHHHHHHHHhhH-----HHHHHHHHHHHHHhHhhhccCCccc
Q psy15123 201 AYYKLLEECVSQIVLHRGGCDPDFRSS-RRFQL---DVQPLVEHLAEKSK-----TEEDRRVEDLSAFLFKYGLEFPSFH 271 (278)
Q Consensus 201 ~yw~LiD~lV~qIVL~~~g~DpDf~~~-~~~~i---~V~~li~~lv~~~r-----e~~e~~~~eL~kkle~~~~e~~~~~ 271 (278)
+--+||-+.+.......+|.|||.... .-+-+ -|.++++.+...-| .+-|.-...|++-+|..-.++|+-|
T Consensus 405 ~ntRlIaEAla~~iy~ekG~dp~s~vf~eqlai~~e~vds~ld~f~~~Pr~a~l~~kde~~~s~lk~~le~Yln~vk~~h 484 (555)
T KOG2526|consen 405 DNTRLIAEALAGYIYDEKGPDPDSRVFSEQLAISKEAVDSFLDQFASRPRPAGLQRKDESITSNLKSVLEGYLNVVKSAH 484 (555)
T ss_pred hhhhHHHHHHHHHHhccCCCCCCcccchhhhhcCHHHHHHHHHHhccCCcccccccCcchHHHHHHHHHHHHHhhhhhee
Confidence 445788888888888899999997541 12223 34478888876645 3334446789999999999999999
Q ss_pred ccc
Q psy15123 272 IFP 274 (278)
Q Consensus 272 ~~~ 274 (278)
--|
T Consensus 485 ~k~ 487 (555)
T KOG2526|consen 485 TKT 487 (555)
T ss_pred ecc
Confidence 654
No 14
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=24.76 E-value=66 Score=32.59 Aligned_cols=34 Identities=12% Similarity=0.085 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhhH-HHHHHHHHHHHHHhHhhhccC
Q psy15123 234 VQPLVEHLAEKSK-TEEDRRVEDLSAFLFKYGLEF 267 (278)
Q Consensus 234 V~~li~~lv~~~r-e~~e~~~~eL~kkle~~~~e~ 267 (278)
|...++..+++.+ ++.+.++.+|+|||++.+.|+
T Consensus 58 V~~~FddkVnqSALteqQ~kasELEKqLaaLrqEl 92 (475)
T PRK13729 58 VDTTFDDKVRQHATTEMQVTAAQMQKQYEEIRREL 92 (475)
T ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666 677777777777777766554
No 15
>KOG1923|consensus
Probab=24.48 E-value=36 Score=36.37 Aligned_cols=45 Identities=11% Similarity=0.049 Sum_probs=41.7
Q ss_pred CCCCccccccChhHHhhchhhHHHHHhhccCChhHHHHHHHHHhhH
Q psy15123 96 PKGTWPLDQTRPADSINRINYDLLDALEKDASEDVSVQLKVFIEHK 141 (278)
Q Consensus 96 ~~~~~~r~~lR~~ef~~~Gl~~il~kLr~~e~~~L~~QldvFEe~~ 141 (278)
.++..+|+|+-. +|...|++..+++++..+.+.+..|+..|-+.-
T Consensus 104 v~d~n~rvhlQy-e~t~lgld~yi~~~~e~ese~l~~Q~~sy~dn~ 148 (830)
T KOG1923|consen 104 VPDENFRVHLQY-EATHLGLDKYIDAPPENESEELQRQFQSYTDNL 148 (830)
T ss_pred chhhhhHHHhhh-HHHHHhhhhhhhcchhhhhHHHHHHHHHHhhhH
Confidence 678899999999 999999999999999999999999999887664
No 16
>COG4463 CtsR Transcriptional repressor of class III stress genes [Transcription]
Probab=23.72 E-value=1.8e+02 Score=24.98 Aligned_cols=66 Identities=18% Similarity=0.245 Sum_probs=54.9
Q ss_pred cccCCCHHHHHHHHHHhcCCCCChhhHHHHHHHhcCccCcchhHhHHHHHHHHHHhhhhhccCCCCCCC
Q psy15123 156 RMEIDDVNDCFETVRNMVMDSACEPYLLSILQHLLFIRDDQYVRLAYYKLLEECVSQIVLHRGGCDPDF 224 (278)
Q Consensus 156 ~~D~~d~~~vf~~L~~~v~~T~a~~~fLSiLQHLLli~~d~~~~~~yw~LiD~lV~qIVL~~~g~DpDf 224 (278)
++.+++..++++.|..++..+-++...-.|.|-|+- +.-..-+--.++..|+..-||+-.|.+-|+
T Consensus 72 Kv~~~~~~~~i~~l~~~I~~~iSq~~~~dII~~Lfd---e~literE~~li~av~~d~vl~~~~~~r~~ 137 (153)
T COG4463 72 KVEYSDNHELINALLQLIGKSISQQAAEDIIQLLFD---EKLITEREANLILAVIDDRVLHYDGPERDE 137 (153)
T ss_pred EecccchHHHHHHHHHHHhhhhhHHHHHHHHHHHHH---hhhhhHHHHHHHHHHHhhHHhhcCCCcchH
Confidence 589999999999999999998888899999998863 222344666789999999999988887775
No 17
>PRK05423 hypothetical protein; Provisional
Probab=22.27 E-value=2.3e+02 Score=22.77 Aligned_cols=50 Identities=16% Similarity=0.286 Sum_probs=35.2
Q ss_pred HHHHHHHHHhhhhhccCCCCCCCccccccCCCHHHHHHHHHHh--hH--------HHHHHHHHHHHHHhHhh
Q psy15123 202 YYKLLEECVSQIVLHRGGCDPDFRSSRRFQLDVQPLVEHLAEK--SK--------TEEDRRVEDLSAFLFKY 263 (278)
Q Consensus 202 yw~LiD~lV~qIVL~~~g~DpDf~~~~~~~i~V~~li~~lv~~--~r--------e~~e~~~~eL~kkle~~ 263 (278)
--.|+|.+.+.| -|+.+.. +|..+|..|-++ +| +++.++.+|+.+|+.+.
T Consensus 41 RVlLLdNL~~YI-------k~~Ms~e-----~i~~II~nMr~DYEdRVDDyiIknAElSKeRReiskklk~~ 100 (104)
T PRK05423 41 RVLLLDNLSDYI-------KPGMSIE-----EIQGIIANMKSDYEDRVDDYIIKNAELSKERREISKKLKAM 100 (104)
T ss_pred HHHHHHHHHHHc-------CCCCCHH-----HHHHHHHHHHhhHHHhhHHHHHhhHHhhHHHHHHHHHHHHh
Confidence 345888888887 3555432 677788887776 22 78888888888888765
No 18
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=21.55 E-value=1.4e+02 Score=25.15 Aligned_cols=116 Identities=15% Similarity=0.148 Sum_probs=64.8
Q ss_pred hHHhHHHHHHhhhcCccccCCCHHHHHHHHHHhcCCCCChhhHH--HHHHHhcCccCcc-hhHhHHHHHHHHHHhhhhhc
Q psy15123 140 HKEEDYYEFIQRFDNVRMEIDDVNDCFETVRNMVMDSACEPYLL--SILQHLLFIRDDQ-YVRLAYYKLLEECVSQIVLH 216 (278)
Q Consensus 140 ~~~eD~eEL~~r~~~i~~D~~d~~~vf~~L~~~v~~T~a~~~fL--SiLQHLLli~~d~-~~~~~yw~LiD~lV~qIVL~ 216 (278)
..++|..-..+-.+.|..+-+.|.++..+|.+++.+..+...++ ++|.-|.--=... ..-..--..+++++.=+ -.
T Consensus 13 l~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl~eL~kl~-~~ 91 (144)
T cd03568 13 LTSENWGLILDVCDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRDFTQELKKLI-ND 91 (144)
T ss_pred CCCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHh-cc
Confidence 34567777777777777677899999999999998755443332 2222221110110 00111223444433222 11
Q ss_pred cCCCCCCCccccccCCCHHHHHHHHHHhhHHHHH-----HHHHHHHHHhHhhhccCC
Q psy15123 217 RGGCDPDFRSSRRFQLDVQPLVEHLAEKSKTEED-----RRVEDLSAFLFKYGLEFP 268 (278)
Q Consensus 217 ~~g~DpDf~~~~~~~i~V~~li~~lv~~~re~~e-----~~~~eL~kkle~~~~e~~ 268 (278)
+ .+..|+.-+-.++.+|.+... ....++.++|..+..+++
T Consensus 92 ~------------~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~f~ 136 (144)
T cd03568 92 R------------VHPTVKEKLREVVKQWADEFKNDPSLSLMSDLYKKLKNEGPDLV 136 (144)
T ss_pred c------------CCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCC
Confidence 1 124777777777777762222 345777888887776665
No 19
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=21.43 E-value=1.5e+02 Score=24.75 Aligned_cols=114 Identities=15% Similarity=0.183 Sum_probs=65.0
Q ss_pred HHhHHHHHHhhhcCccccCCCHHHHHHHHHHhcCCCCChhhHHH--HHHHhcCccC-cch--hHhHHHHHHHHHHhhhhh
Q psy15123 141 KEEDYYEFIQRFDNVRMEIDDVNDCFETVRNMVMDSACEPYLLS--ILQHLLFIRD-DQY--VRLAYYKLLEECVSQIVL 215 (278)
Q Consensus 141 ~~eD~eEL~~r~~~i~~D~~d~~~vf~~L~~~v~~T~a~~~fLS--iLQHLLli~~-d~~--~~~~yw~LiD~lV~qIVL 215 (278)
.++|..-..+-.+-|+.+-..|.+...+|.+++++....-.+++ +|.-| +.+ +.. .-..--+++++++.=+ -
T Consensus 18 ~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~--vkNCG~~fh~evas~~fl~~l~~l~-~ 94 (142)
T cd03569 18 GEPDLASILEICDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESC--VKNCGTHFHDEVASREFMDELKDLI-K 94 (142)
T ss_pred CccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHH--HHHCCHHHHHHHhhHHHHHHHHHHH-c
Confidence 45677776666676666678899999999999988554444433 12211 111 111 1112234556655422 1
Q ss_pred ccCCCCCCCccccccCCCHHHHHHHHHHhhHHHHH-----HHHHHHHHHhHhhhccCCc
Q psy15123 216 HRGGCDPDFRSSRRFQLDVQPLVEHLAEKSKTEED-----RRVEDLSAFLFKYGLEFPS 269 (278)
Q Consensus 216 ~~~g~DpDf~~~~~~~i~V~~li~~lv~~~re~~e-----~~~~eL~kkle~~~~e~~~ 269 (278)
. .++ ..|..-+-.++..|..... ....++.++|..+..++|+
T Consensus 95 ~----~~~--------~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 95 T----TKN--------EEVRQKILELIQAWALAFRNKPQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred c----cCC--------HHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCCC
Confidence 1 122 3566666666666663322 2366777888877777664
Done!