Query 001502
Match_columns 1066
No_of_seqs 25 out of 27
Neff 1.7
Searched_HMMs 46136
Date Fri Mar 29 02:25:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001502.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001502hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12657 TFIIIC_delta: Transcr 94.6 0.11 2.4E-06 49.8 7.1 77 157-250 87-167 (173)
2 PF11635 Med16: Mediator compl 92.0 0.83 1.8E-05 53.6 10.2 157 471-677 214-392 (753)
3 smart00320 WD40 WD40 repeats. 67.8 12 0.00026 23.0 3.9 29 155-185 12-40 (40)
4 PF08662 eIF2A: Eukaryotic tra 61.9 19 0.0004 35.5 5.8 79 101-186 11-90 (194)
5 PF00400 WD40: WD domain, G-be 60.7 20 0.00044 25.6 4.4 31 153-185 9-39 (39)
6 PF01361 Tautomerase: Tautomer 35.4 57 0.0012 26.4 3.8 56 717-773 3-58 (60)
7 cd00200 WD40 WD40 domain, foun 33.0 1.2E+02 0.0025 27.0 5.6 29 155-185 261-289 (289)
8 TIGR00013 taut 4-oxalocrotonat 32.6 43 0.00093 27.1 2.7 57 717-774 3-60 (63)
9 cd00200 WD40 WD40 domain, foun 32.2 1.3E+02 0.0029 26.6 5.9 50 133-188 159-208 (289)
10 cd00491 4Oxalocrotonate_Tautom 28.5 74 0.0016 25.2 3.3 56 717-773 3-58 (58)
11 PF15018 InaF-motif: TRP-inter 26.8 48 0.001 27.4 1.9 26 1034-1059 1-26 (38)
12 PF13454 NAD_binding_9: FAD-NA 26.4 19 0.00042 33.9 -0.3 44 296-348 2-45 (156)
13 COG2072 TrkA Predicted flavopr 25.5 1.2E+02 0.0027 33.8 5.5 70 296-379 13-93 (443)
No 1
>PF12657 TFIIIC_delta: Transcription factor IIIC subunit delta N-term; InterPro: IPR024761 This entry represents a domain found towards the N terminus of the 90 kDa subunit of transcription factor IIIC (also known as subunit 9 in yeast []). The whole subunit is involved in RNA polymerase III-mediated transcription. It is possible that this N-terminal domain interacts with TFIIIC subunit 8 [].
Probab=94.55 E-value=0.11 Score=49.83 Aligned_cols=77 Identities=25% Similarity=0.372 Sum_probs=48.6
Q ss_pred ceEEEEecCCCCc----ceeEEEeccceEEEEecCCCCCCcccccccccchhhhccccceeeeecccCCCCccccccCCC
Q 001502 157 SVQFIEWSPTSCP----RALLIANFYGRVTIWTQPSHGPANLVRDASCWQREHEWRQDIAVVTKWLSGVSPYRWLSSKST 232 (1066)
Q Consensus 157 ~vq~ieWSp~~cp----RALLiAnf~GRvtIWtQPsqg~~nlv~da~~w~~ehEWrqd~avvtkwlsg~spyrwlsskss 232 (1066)
.|-.++|||.+|- =.|.+.+-.|||+||..+..- ..||. .+++|+|-|.. |--....+.
T Consensus 87 ~vv~~aWSP~Gl~~~~rClLavLTs~~~l~l~~~~~~~-------------~~~W~-~v~dvs~~l~~---~~~~~~~~~ 149 (173)
T PF12657_consen 87 QVVSAAWSPSGLGPNGRCLLAVLTSNGRLSLYGPPGNP-------------QGEWN-RVADVSEALYS---YFYNWEPSE 149 (173)
T ss_pred cEEEEEECCCCCCCCCceEEEEEcCCCeEEEEecCCCc-------------cccEe-eeeehhHHHHH---hhhccCCCc
Confidence 6889999998882 257788999999999887641 34666 45667776661 111112222
Q ss_pred CCCCcchhhHHhhhccCc
Q 001502 233 SPLNAKSIFEEKFLSQNS 250 (1066)
Q Consensus 233 s~~n~kstFeEKflsqq~ 250 (1066)
........|.+.|..++.
T Consensus 150 ~~~~~~~~~~~~~~~~~i 167 (173)
T PF12657_consen 150 SSPLDFEEFQRRFRKQRI 167 (173)
T ss_pred ccccccchhhhhhhccce
Confidence 333334456677777664
No 2
>PF11635 Med16: Mediator complex subunit 16; InterPro: IPR021665 Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med16 is one of the subunits of the Tail portion of the Mediator complex and is required for lipopolysaccharide gene-expression []. Several members including the human protein, Q9Y2X0 from SWISSPROT, have one or more WD40 domains on them, PF00400 from PFAM.
Probab=92.03 E-value=0.83 Score=53.57 Aligned_cols=157 Identities=19% Similarity=0.203 Sum_probs=99.3
Q ss_pred eEEeeccCCCceeeeeccCCCCC--CCCCCCCceeEEEeeeecccCCCCccccccccCCCcccccccccccccccceecc
Q 001502 471 RVQRWESSVQPVVLHQIFGNPTS--SFGGQAPMQTVWVSKVDTSIPTSNFKIHQLAAAGPTCDVWKTTDSGLEKSKIVSF 548 (1066)
Q Consensus 471 RVqrWESs~qpVvlhpifgnpts--s~gGqpPmqTvW~skvd~sIp~tdfkn~q~~~~~~~~d~~k~s~~~~dksk~v~f 548 (1066)
-|.|||=..++..|||+|..-.| +.++++++.+.|+..-|+.++.. -+.+
T Consensus 214 iI~RweL~~~~~~lh~~F~ql~s~~~~~~~~~~~~~l~~~~~i~~~~~----------------------------V~si 265 (753)
T PF11635_consen 214 IIERWELREEQQPLHPAFQQLGSKKNSSSEPPPTYRLRRLDDITLNKR----------------------------VVSI 265 (753)
T ss_pred EEEEEEEEccCcccchhhhhcCCCCcCCCCCCCceeEEEecccccCCe----------------------------EEEE
Confidence 38999988888999999998763 35578999999998877765432 1112
Q ss_pred CCCCCccchhhhheeeeccCCceEEeeeeeCceeeeeCCCCCcccce-----eE-------eccccccc------CccCc
Q 001502 549 DPFDLPSDIRSLARIVYSAHGGEIAIALLRGGVHIFSGPNFAPVDNY-----QI-------SVGSAIAA------PAFSS 610 (1066)
Q Consensus 549 dpfdlP~d~rtLARiVySAhgGEiavAfl~GgVhiFSG~nftpVdny-----qI-------nVgsaIa~------PaFSs 610 (1066)
+ +.--|+=++++|--|-||++.=.+|.++... .. .+|=..+. -|||+
T Consensus 266 ~---------------~~~~~~~v~~~~~DGsI~~~dr~t~~~~~~~~~~~~~~~~v~s~~~~Gf~fp~~~~~~~vafSP 330 (753)
T PF11635_consen 266 T---------------SPELDIVVAFAFSDGSIEFRDRNTMKELNETRTNGEPPNTVTSLFQAGFHFPCIQPPLHVAFSP 330 (753)
T ss_pred E---------------ecccCcEEEEEEcCCeEEEEecCcchhhcccccccCCccccccccccccccccCCCCceEEECc
Confidence 2 2223447899999999999999999766544 11 13333432 26999
Q ss_pred cccccceeeecCCCCceEEEEEeecCCCccccccccchhhHHHHHHHHH--hhhhhccccccccccccc
Q 001502 611 TSCCSASVWHDTNKDRTILKIIRVLPPAVPSSQVKANSSTWERAIAERF--WWSLLVNVDWWDAVGCTQ 677 (1066)
Q Consensus 611 TSCCsASVWHDt~kd~~iLkIirVLPPa~p~~q~ka~ss~weraiaeRf--wwSLlvgVdWWDaVgcTQ 677 (1066)
|+|..+-. |...+.. |...++....-..|.-...++ ++|=+| =.-...+-|||+++-+++
T Consensus 331 t~c~~v~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~a~---~~al~~~~a~~~~~~~DDl~~l~~~~ 392 (753)
T PF11635_consen 331 TMCSLVQI--DEDGKTK--KLLYMMRDSGSSPQDLYITAA---ALALRFSLACCSQTSSDDLLILIKTE 392 (753)
T ss_pred ccceEEEE--ecCCCce--eeEEeecCCCCCccccchhHH---HHHHHHHHHHHHhcCcchHHHhhhhh
Confidence 99987665 2222222 555555544433333332111 122233 223457999999998776
No 3
>smart00320 WD40 WD40 repeats. Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.
Probab=67.77 E-value=12 Score=22.97 Aligned_cols=29 Identities=24% Similarity=0.483 Sum_probs=24.9
Q ss_pred CCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001502 155 RDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1066)
Q Consensus 155 ~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1066)
.+.|..+.|.|.. +-++.+..+|.+.+|.
T Consensus 12 ~~~i~~~~~~~~~--~~~~~~~~d~~~~~~~ 40 (40)
T smart00320 12 TGPVTSVAFSPDG--KYLASASDDGTIKLWD 40 (40)
T ss_pred CCceeEEEECCCC--CEEEEecCCCeEEEcC
Confidence 4579999999987 7788889999999984
No 4
>PF08662 eIF2A: Eukaryotic translation initiation factor eIF2A; InterPro: IPR013979 This entry contains beta propellor domains found in eukaryotic translation initiation factors and TolB domain-containing proteins.
Probab=61.93 E-value=19 Score=35.51 Aligned_cols=79 Identities=15% Similarity=0.279 Sum_probs=51.9
Q ss_pred hhhhhcccceeccccccccCCCCCCCCCceeeEEEe-cCCCCcceeEEEeecCCCCCceEEEEecCCCCcceeEEEeccc
Q 001502 101 VAWCGKLNAIACASETCARIPSSNANTPFWIPIHIV-IPERPTECAVFNVIADCPRDSVQFIEWSPTSCPRALLIANFYG 179 (1066)
Q Consensus 101 vaWC~klN~iaca~eTCarip~S~~np~fwiPihIv-iPerPtE~avfnv~adsp~d~vq~ieWSp~~cpRALLiAnf~G 179 (1066)
+.|..+-+.+++-+.| +...+....--=.=|+.+ +.+.| +..+++..++| |..++|||.+=.-|++..+..+
T Consensus 11 ~~W~~~G~~l~~~~~~--~~~~~~ks~~~~~~l~~~~~~~~~--~~~i~l~~~~~---I~~~~WsP~g~~favi~g~~~~ 83 (194)
T PF08662_consen 11 LHWQPSGDYLLVKVQT--RVDKSGKSYYGEFELFYLNEKNIP--VESIELKKEGP---IHDVAWSPNGNEFAVIYGSMPA 83 (194)
T ss_pred EEecccCCEEEEEEEE--eeccCcceEEeeEEEEEEecCCCc--cceeeccCCCc---eEEEEECcCCCEEEEEEccCCc
Confidence 4588899999998885 444443321111234444 44444 45555555544 9999999998777777667778
Q ss_pred eEEEEec
Q 001502 180 RVTIWTQ 186 (1066)
Q Consensus 180 RvtIWtQ 186 (1066)
+|+||.-
T Consensus 84 ~v~lyd~ 90 (194)
T PF08662_consen 84 KVTLYDV 90 (194)
T ss_pred ccEEEcC
Confidence 9999975
No 5
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=60.66 E-value=20 Score=25.60 Aligned_cols=31 Identities=26% Similarity=0.519 Sum_probs=27.5
Q ss_pred CCCCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001502 153 CPRDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1066)
Q Consensus 153 sp~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1066)
...+.|..|.|+|. .+-|+.+-.+|.|.||.
T Consensus 9 ~h~~~i~~i~~~~~--~~~~~s~~~D~~i~vwd 39 (39)
T PF00400_consen 9 GHSSSINSIAWSPD--GNFLASGSSDGTIRVWD 39 (39)
T ss_dssp SSSSSEEEEEEETT--SSEEEEEETTSEEEEEE
T ss_pred CCCCcEEEEEEecc--cccceeeCCCCEEEEEC
Confidence 45678999999999 88899999999999994
No 6
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=35.35 E-value=57 Score=26.43 Aligned_cols=56 Identities=23% Similarity=0.452 Sum_probs=40.8
Q ss_pred eeeeeccCCchHHHHHHHHhhhHHHHHHHhhchhhhhccCCCCcCcCcccccccccc
Q 001502 717 IKCRLLEGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLS 773 (1066)
Q Consensus 717 IKCRlLeG~nAqeVRamVLDMQaRllLDMLGkGIEsALinpsalvpepWqas~etls 773 (1066)
|.|.+.+|.+++.-++++-++ ..++.+-||+.-|..-+.=.-.-++-|...|+.++
T Consensus 3 I~i~~~~g~~~e~K~~l~~~i-t~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG~~~~ 58 (60)
T PF01361_consen 3 ITIKIPEGRTAEQKRELAEAI-TDAVVEVLGIPPERISVVIEEVPPENWGIGGKSLS 58 (60)
T ss_dssp EEEEEESTS-HHHHHHHHHHH-HHHHHHHHTS-GGGEEEEEEEE-CCCEEETTEETT
T ss_pred EEEEECCCCCHHHHHHHHHHH-HHHHHHHhCcCCCeEEEEEEEEChhheEECCEEcC
Confidence 678888999888877777666 45788999998888776666666777877777654
No 7
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=32.99 E-value=1.2e+02 Score=26.98 Aligned_cols=29 Identities=31% Similarity=0.654 Sum_probs=24.5
Q ss_pred CCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001502 155 RDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1066)
Q Consensus 155 ~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1066)
.+.|..+.|+|. .+.|+.+..+|.|.||.
T Consensus 261 ~~~i~~~~~~~~--~~~l~~~~~d~~i~iw~ 289 (289)
T cd00200 261 TNSVTSLAWSPD--GKRLASGSADGTIRIWD 289 (289)
T ss_pred CCcEEEEEECCC--CCEEEEecCCCeEEecC
Confidence 456999999987 47888999999999994
No 8
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=32.60 E-value=43 Score=27.11 Aligned_cols=57 Identities=19% Similarity=0.397 Sum_probs=47.1
Q ss_pred eeeeec-cCCchHHHHHHHHhhhHHHHHHHhhchhhhhccCCCCcCcCccccccccccC
Q 001502 717 IKCRLL-EGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLSG 774 (1066)
Q Consensus 717 IKCRlL-eG~nAqeVRamVLDMQaRllLDMLGkGIEsALinpsalvpepWqas~etls~ 774 (1066)
|...++ +|.++++-+++.-.+. +.|-+.||..-|+..|.=.-.-++-|-..|.+++.
T Consensus 3 i~i~i~~~grt~eqK~~l~~~it-~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~~~~ 60 (63)
T TIGR00013 3 VNIYILKEGRTDEQKRQLIEGVT-EAMAETLGANLESIVVIIDEMPKNNYGIGGELVSD 60 (63)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH-HHHHHHhCCCcccEEEEEEEcCHHHeeECCEEhhH
Confidence 567788 8999999888887775 56789999999988887777788888888888764
No 9
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=32.15 E-value=1.3e+02 Score=26.61 Aligned_cols=50 Identities=18% Similarity=0.295 Sum_probs=34.0
Q ss_pred EEEecCCCCcceeEEEeecCCCCCceEEEEecCCCCcceeEEEeccceEEEEecCC
Q 001502 133 IHIVIPERPTECAVFNVIADCPRDSVQFIEWSPTSCPRALLIANFYGRVTIWTQPS 188 (1066)
Q Consensus 133 ihIviPerPtE~avfnv~adsp~d~vq~ieWSp~~cpRALLiAnf~GRvtIWtQPs 188 (1066)
|+++..+.......|. ...+.|..+.|+|.. +-|+++..+|.|.||.-.+
T Consensus 159 i~i~d~~~~~~~~~~~----~~~~~i~~~~~~~~~--~~l~~~~~~~~i~i~d~~~ 208 (289)
T cd00200 159 IKLWDLRTGKCVATLT----GHTGEVNSVAFSPDG--EKLLSSSSDGTIKLWDLST 208 (289)
T ss_pred EEEEEccccccceeEe----cCccccceEEECCCc--CEEEEecCCCcEEEEECCC
Confidence 4444444444444444 334579999999987 6677787899999997654
No 10
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=28.53 E-value=74 Score=25.16 Aligned_cols=56 Identities=18% Similarity=0.409 Sum_probs=42.3
Q ss_pred eeeeeccCCchHHHHHHHHhhhHHHHHHHhhchhhhhccCCCCcCcCcccccccccc
Q 001502 717 IKCRLLEGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLS 773 (1066)
Q Consensus 717 IKCRlLeG~nAqeVRamVLDMQaRllLDMLGkGIEsALinpsalvpepWqas~etls 773 (1066)
|.+.+++|.+.++-|+++=++ .+.|-+.+|+--|...|+=...-++-|-..|.+|+
T Consensus 3 i~i~~~~grt~eqk~~l~~~i-~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~~~~ 58 (58)
T cd00491 3 VQIYILEGRTDEQKRELIERV-TEAVSEILGAPEATIVVIIDEMPKENWGIGGESAS 58 (58)
T ss_pred EEEEEcCCCCHHHHHHHHHHH-HHHHHHHhCcCcccEEEEEEEeCchhceECCEECc
Confidence 678899999877666665444 67788999998888777766677777877776654
No 11
>PF15018 InaF-motif: TRP-interacting helix
Probab=26.75 E-value=48 Score=27.40 Aligned_cols=26 Identities=31% Similarity=0.750 Sum_probs=22.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHhhh
Q 001502 1034 NGVWIKILLAIAFLFFINLITFSLIL 1059 (1066)
Q Consensus 1034 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1059 (1066)
|..|++++..++.+|++.+..+.|-+
T Consensus 1 ~~k~~R~~tV~~Yl~~VSl~Ai~Lsi 26 (38)
T PF15018_consen 1 NKKWVRVLTVVAYLFSVSLAAIVLSI 26 (38)
T ss_pred CceEEeeHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999999998877654
No 12
>PF13454 NAD_binding_9: FAD-NAD(P)-binding
Probab=26.42 E-value=19 Score=33.87 Aligned_cols=44 Identities=23% Similarity=0.479 Sum_probs=34.0
Q ss_pred cccCCcccccccceEEecCCceEEeeecccCCceEEEEEecCCCCCCcccccc
Q 001502 296 LLGAGPSGIMAADVIITDSGAMHVAGVPIVNPSTVVVWEVTPGPGNGFQAAPK 348 (1066)
Q Consensus 296 lLg~GpSGIma~DAIItdsGamhVAGVpi~NPSTVVVWEV~pg~gng~q~tpk 348 (1066)
++|+||+|+.+...++... .-..|..|.|+|- ...|-|.-.-++
T Consensus 2 IIG~G~~G~~~l~~L~~~~--------~~~~~~~I~vfd~-~~~G~G~~~~~~ 45 (156)
T PF13454_consen 2 IIGGGPSGLAVLERLLRQA--------DPKPPLEITVFDP-SPFGAGGAYRPD 45 (156)
T ss_pred EECcCHHHHHHHHHHHHhc--------CCCCCCEEEEEcC-CCccccccCCCC
Confidence 5799999999999988765 5567888999998 556767655443
No 13
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=25.46 E-value=1.2e+02 Score=33.75 Aligned_cols=70 Identities=33% Similarity=0.512 Sum_probs=40.8
Q ss_pred cccCCcccccccceEEecCCceEEeeecccCCceEEEEEecCCCCCCcc---------ccccccccCCCCCCC--CCCCc
Q 001502 296 LLGAGPSGIMAADVIITDSGAMHVAGVPIVNPSTVVVWEVTPGPGNGFQ---------AAPKTTTSNGVPPSL--SPPKW 364 (1066)
Q Consensus 296 lLg~GpSGIma~DAIItdsGamhVAGVpi~NPSTVVVWEV~pg~gng~q---------~tpktS~~~~vpp~l--~~p~W 364 (1066)
++|+|+|||.+|-+... +|++= ++|.|-....|..-- .+||--. ++|..- ...+|
T Consensus 13 IIGaG~sGlaaa~~L~~-------~g~~~-----~~i~Ek~~~~Gg~W~~~ry~~l~~~~p~~~~--~~~~~p~~~~~~~ 78 (443)
T COG2072 13 IIGAGQSGLAAAYALKQ-------AGVPD-----FVIFEKRDDVGGTWRYNRYPGLRLDSPKWLL--GFPFLPFRWDEAF 78 (443)
T ss_pred EECCCHHHHHHHHHHHH-------cCCCc-----EEEEEccCCcCCcchhccCCceEECCchhee--ccCCCccCCcccC
Confidence 68999999999854322 33331 566666655553311 1222222 333222 35789
Q ss_pred CCcchhhhhhhHHHH
Q 001502 365 AGFAPLAAYLFSWQE 379 (1066)
Q Consensus 365 ~GFaPLaAYLfswq~ 379 (1066)
++|+++-.|+-.+.+
T Consensus 79 ~~~~~~~~y~~~~~~ 93 (443)
T COG2072 79 APFAEIKDYIKDYLE 93 (443)
T ss_pred CCcccHHHHHHHHHH
Confidence 999988888777664
Done!