Query 040060
Match_columns 241
No_of_seqs 106 out of 326
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 04:43:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040060.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040060hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01015 Ribosomal_S3Ae: Ribos 100.0 4.9E-79 1.1E-83 529.5 20.5 186 1-202 9-194 (194)
2 PRK04057 30S ribosomal protein 100.0 7.4E-79 1.6E-83 531.3 20.9 188 1-204 3-190 (203)
3 KOG1628 40S ribosomal protein 100.0 3.8E-77 8.2E-82 525.7 13.3 214 1-216 20-233 (249)
4 COG1890 RPS1A Ribosomal protei 100.0 9.3E-76 2E-80 510.4 18.0 199 1-215 11-209 (214)
5 cd03407 Band_7_4 A subgroup of 87.1 3.9 8.4E-05 36.7 8.5 91 105-197 46-136 (262)
6 cd03400 Band_7_1 A subgroup of 80.9 11 0.00023 29.6 7.7 91 102-197 11-107 (124)
7 cd02106 Band_7 The band 7 doma 78.5 18 0.00039 26.8 7.9 97 95-197 4-104 (121)
8 PF04083 Abhydro_lipase: Parti 76.0 2.7 5.9E-05 30.5 2.6 17 105-121 15-31 (63)
9 smart00244 PHB prohibitin homo 75.9 28 0.00061 27.6 8.9 88 105-197 53-143 (160)
10 cd03399 Band_7_flotillin Band_ 70.4 35 0.00075 26.9 8.1 78 105-183 14-101 (128)
11 cd03401 Band_7_prohibitin Band 68.9 36 0.00078 28.6 8.3 90 105-197 53-145 (196)
12 cd03405 Band_7_HflC Band_7_Hfl 68.8 52 0.0011 28.6 9.5 87 104-197 51-145 (242)
13 PF01145 Band_7: SPFH domain / 67.5 64 0.0014 26.0 12.1 88 104-196 51-143 (179)
14 cd03404 Band_7_HflK Band_7_Hfl 66.8 33 0.00071 30.5 8.0 90 104-197 77-169 (266)
15 cd03403 Band_7_stomatin_like B 65.4 48 0.001 28.2 8.5 77 105-183 49-127 (215)
16 PF03645 Tctex-1: Tctex-1 fami 61.6 30 0.00065 26.3 5.9 58 143-201 2-61 (101)
17 cd03402 Band_7_2 A subgroup of 59.9 74 0.0016 28.1 8.8 92 105-202 52-154 (219)
18 KOG2620 Prohibitins and stomat 54.5 82 0.0018 29.7 8.4 95 101-195 56-153 (301)
19 PRK10930 FtsH protease regulat 53.7 59 0.0013 31.9 7.8 79 103-183 145-226 (419)
20 TIGR01933 hflK HflK protein. H 50.8 1E+02 0.0022 27.3 8.3 76 105-182 51-129 (261)
21 PF03748 FliL: Flagellar basal 49.0 1.1E+02 0.0024 22.8 8.9 83 104-195 8-96 (99)
22 PF12638 Staygreen: Staygreen 40.8 1.1E+02 0.0024 26.2 6.5 58 39-120 20-78 (151)
23 COG0330 HflC Membrane protease 33.9 2.6E+02 0.0057 25.0 8.3 91 104-196 76-170 (291)
24 PF08388 GIIM: Group II intron 32.4 43 0.00094 24.1 2.5 29 141-169 1-29 (80)
25 PRK06654 fliL flagellar basal 27.2 4.3E+02 0.0094 23.2 8.8 51 145-198 126-179 (181)
26 KOG4108 Dynein light chain [Ce 25.1 2.4E+02 0.0052 24.8 6.1 61 138-198 70-130 (174)
27 PF02847 MA3: MA3 domain; Int 23.4 1.3E+02 0.0027 22.9 3.8 26 144-169 1-26 (113)
28 PF08348 PAS_6: YheO-like PAS 22.3 1.6E+02 0.0035 23.6 4.3 71 40-120 14-87 (118)
29 cd03406 Band_7_3 A subgroup of 20.7 4.2E+02 0.0091 24.5 7.2 89 105-196 56-151 (280)
30 PF14598 PAS_11: PAS domain; P 20.4 1.4E+02 0.0031 23.2 3.6 60 65-125 27-89 (111)
No 1
>PF01015 Ribosomal_S3Ae: Ribosomal S3Ae family; InterPro: IPR001593 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of proteins that have from 220 to 250 amino acids and represents Rps1 (eukaryotic) and Rps3Ae (archaeal and eukaryotic).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_4 2XZM_4 3U5C_B 3U5G_B.
Probab=100.00 E-value=4.9e-79 Score=529.48 Aligned_cols=186 Identities=61% Similarity=0.956 Sum_probs=165.1
Q ss_pred CCCCCCcceEEEeCCCCCCcceeeeeeeecccccccCccCCCCcEEEEeccccCCchhhceeEEEEEEeeecCCeeeEee
Q 040060 1 ADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAYRKIRLRAEDVQGKNVLTNF 80 (241)
Q Consensus 1 ~D~~~~KeWY~V~AP~~F~~~~iG~T~v~kt~g~~~a~~~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~V~G~~a~T~F 80 (241)
+|+|++|+||+|+||++|+.+++|+||+++ ||.|+||+||+||+||+||++++|+||+|+|++|+|++|+|+|
T Consensus 9 ~d~~~~K~WY~V~AP~~F~~~~iG~T~~~~-------~~~l~gRv~Evsl~DL~~d~~~~~~K~~f~i~~V~g~~a~T~F 81 (194)
T PF01015_consen 9 VDPWKKKEWYDVKAPSMFGNRNIGKTPANK-------PEKLKGRVFEVSLADLTNDFSKAYRKFKFKIEDVQGNNALTNF 81 (194)
T ss_dssp S-TTTTEEEEEEE--TTSSSSEECEEEEE--------CCCCCC-EEEEECHCCCSTTTTSS-EEEEEEEEEETTEEEEEE
T ss_pred cCCCccceeEEEECCHHhCcceeeEEEcCC-------cccccCeEEEEEHHHhcCchhhhcEEEEEEEEeecCCEEEEEE
Confidence 699999999999999999999999999996 9999999999999999999999999999999999999999999
Q ss_pred ecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCC
Q 040060 81 WGMSFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCD 160 (241)
Q Consensus 81 ~GmelTrDklrSlVrk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~ 160 (241)
||||||+||||||||||||+||+++||+|+|||+|||||+|||+++ |++||+++||++|.++|++++++++
T Consensus 82 ~G~elt~D~lrSlvrk~~s~Ie~~~dvkT~DGy~lRvf~i~fT~~r---------a~~sq~~~IRk~m~~ii~~~~~~~~ 152 (194)
T PF01015_consen 82 HGMELTRDKLRSLVRKWQSRIEAIVDVKTKDGYLLRVFCIAFTKKR---------AKSSQIKAIRKKMVEIITEEASELD 152 (194)
T ss_dssp EEEE--HHHHHHC--TTC-EEEEEEEEEETTTEEEEEEEEEEE-------------TCHHHHHHHHHHHHHHHHHCCTSH
T ss_pred cceecchhhhhcceeecceEEEEEEEEEcCCCcEEEEEEEEEEeec---------ccchHHHHHHHHHHHHHHHHhccCc
Confidence 9999999999999999999999999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHhcccccccccEEEEEEEeecCCc
Q 040060 161 LKSLVEKFIAEVIGREIEKATSSIYPLQNVFIRKVKILKAPK 202 (241)
Q Consensus 161 l~e~v~~li~~~i~~eI~k~~k~IyPlr~v~IrKvKvlk~p~ 202 (241)
|+|||++|++|+|++||+++|++|||||+|+|||||||+.|+
T Consensus 153 ~~e~V~~li~~~i~~eI~k~~k~IyPl~~v~IrKvKvlk~Pk 194 (194)
T PF01015_consen 153 LKELVKKLIPGSIGKEIEKACKKIYPLRNVEIRKVKVLKKPK 194 (194)
T ss_dssp HHHHHHHHCTTHHHHHHHHHHCTT--EEEEEEEEEEEEE---
T ss_pred HHHHHHHHccchHHHHHHHHhccccccceEEEEEEEEeccCC
Confidence 999999999999999999999999999999999999999996
No 2
>PRK04057 30S ribosomal protein S3Ae; Validated
Probab=100.00 E-value=7.4e-79 Score=531.29 Aligned_cols=188 Identities=35% Similarity=0.544 Sum_probs=185.3
Q ss_pred CCCCCCcceEEEeCCCCCCcceeeeeeeecccccccCccCCCCcEEEEeccccCCchhhceeEEEEEEeeecCCeeeEee
Q 040060 1 ADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAYRKIRLRAEDVQGKNVLTNF 80 (241)
Q Consensus 1 ~D~~~~KeWY~V~AP~~F~~~~iG~T~v~kt~g~~~a~~~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~V~G~~a~T~F 80 (241)
+|||++|+||+|+||++|+.+++|+||++ +|+.|+||++|+||+||+||++++|+||+|+|++|+|++|+|+|
T Consensus 3 ~D~w~~K~WY~V~AP~~F~~~~iG~T~a~-------~~~~l~GRv~EvsL~DL~~d~~~~~~K~~f~i~~V~G~~a~T~F 75 (203)
T PRK04057 3 KDKWKEKKWYTVYAPEFFGGVEIGETPAD-------DPEKLIGRVVETTLGDLTGDFSKQNVKLYFKIDNVEGDKAYTRF 75 (203)
T ss_pred CCcccccceEEEECCcccCCceEEEEEcc-------ChhhcCCcEEEEEHHHhcCChhhceEEEEEEEEeeeCCEEEEEE
Confidence 59999999999999999999999999997 79999999999999999999999999999999999999999999
Q ss_pred ecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCC
Q 040060 81 WGMSFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCD 160 (241)
Q Consensus 81 ~GmelTrDklrSlVrk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~ 160 (241)
|||+||+||||||||||+|+||+++||+|+|||+|||||+|||.++ |++||+++||++|.++|.+++++++
T Consensus 76 ~G~~lTrD~lrSlVrk~~S~Ie~~vdvkTkDGy~lRv~~i~~T~~r---------a~~sq~~~IRk~m~~~i~~~~~~~~ 146 (203)
T PRK04057 76 IGHELTRDYLRSLVRRRTSKIDAIVDVTTKDGYKVRVKPVALTTKR---------ARTSQKHAIRKIMEEIIEEKASELT 146 (203)
T ss_pred eeeEecHHHHHhHhccCceeEEEEEEEEcCCCCEEEEEEEEEEchh---------hhhhHHHHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999999999998 9999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHhcccccccccEEEEEEEeecCCccc
Q 040060 161 LKSLVEKFIAEVIGREIEKATSSIYPLQNVFIRKVKILKAPKFD 204 (241)
Q Consensus 161 l~e~v~~li~~~i~~eI~k~~k~IyPlr~v~IrKvKvlk~p~~~ 204 (241)
|+|||+++++|+|+++|+++|++|||||+|+|||+|||+.|+..
T Consensus 147 ~~e~V~~~i~g~i~~eI~~~~k~IyPlr~veIrKvkvl~~p~~~ 190 (203)
T PRK04057 147 FEEFVQEIVFGKLASEIYKEAKKIYPLRRVEIRKSKVLARPEEV 190 (203)
T ss_pred HHHHHHHHccchHHHHHHHhhhhccCcceEEEEEEEEEecCccc
Confidence 99999999999999999999999999999999999999999954
No 3
>KOG1628 consensus 40S ribosomal protein S3A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.8e-77 Score=525.74 Aligned_cols=214 Identities=67% Similarity=1.041 Sum_probs=211.0
Q ss_pred CCCCCCcceEEEeCCCCCCcceeeeeeeecccccccCccCCCCcEEEEeccccCCchhhceeEEEEEEeeecCCeeeEee
Q 040060 1 ADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAYRKIRLRAEDVQGKNVLTNF 80 (241)
Q Consensus 1 ~D~~~~KeWY~V~AP~~F~~~~iG~T~v~kt~g~~~a~~~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~V~G~~a~T~F 80 (241)
+|||++|+||+++||.+|+.+++|+|++++|+|++++++. +||++||+|+||+ |++.++|||+|++++|+|+||+|+|
T Consensus 20 ~~p~s~k~~~d~ka~~~~~~~~~~~~l~~~t~g~k~~~~~-~gr~~~v~~~dl~-n~e~afrK~kli~edvqgkN~lt~f 97 (249)
T KOG1628|consen 20 VDPFSRKDWYDVKAPPMFPARNVGKTLVNRTQGTKGASDG-KGRVVEVSLADLQ-NEEVAFRKFKLIAEDVQGKNCLTNF 97 (249)
T ss_pred CCCcccccccccCCcccccCCChhheeccccccccccccC-CCceeeechhhcc-chhhhhheeeeeeccccCcccceec
Confidence 6999999999999999999999999999999999999999 9999999999999 5589999999999999999999999
Q ss_pred ecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCC
Q 040060 81 WGMSFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCD 160 (241)
Q Consensus 81 ~GmelTrDklrSlVrk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~ 160 (241)
|||+||+|++|||++||+++|||+++|+|.|||+|||||++||+++.||.+|||||++||+++||++|++||+++++++|
T Consensus 98 ~GmdlT~dK~~smvkKwqt~ieA~v~vkT~dgy~Lrlf~i~ftkk~~nqv~ktsyaq~~qv~~irk~m~ei~~~evs~~D 177 (249)
T KOG1628|consen 98 HGMDLTRDKLVSMVKKWQTLIEAVVDVKTTDGYLLRLFCIGFTKKLVNQVKKTSYAQHGQVRQIRKEMMEIMTQEVSTSD 177 (249)
T ss_pred cCcchhhhhhhhhhhhhhheeeeeEEeecccCceEEeeehHHHHHhhcccCCceeeecchHHHHHHHHHHHHHhcccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHhcccccccccEEEEEEEeecCCccchhhhhhhhcCcc
Q 040060 161 LKSLVEKFIAEVIGREIEKATSSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGDYS 216 (241)
Q Consensus 161 l~e~v~~li~~~i~~eI~k~~k~IyPlr~v~IrKvKvlk~p~~~~~kl~e~~~~~~ 216 (241)
|.+++++||+++|+++|+++|+.||||++|+|||||+|+.|+||++||||+||+++
T Consensus 178 lk~vvnKLipd~igKdiEka~~~iyPL~~v~vRKVK~lK~pkfelGkl~eLHGegs 233 (249)
T KOG1628|consen 178 LKEVVNKLIPDSIGKDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLMELHGEGS 233 (249)
T ss_pred HHHHHHHhchhhhhhHHHhhccccccchhheeeeeeccccccchhhHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999999999999863
No 4
>COG1890 RPS1A Ribosomal protein S3AE [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.3e-76 Score=510.40 Aligned_cols=199 Identities=42% Similarity=0.631 Sum_probs=193.9
Q ss_pred CCCCCCcceEEEeCCCCCCcceeeeeeeecccccccCccCCCCcEEEEeccccCCchhhceeEEEEEEeeecCCeeeEee
Q 040060 1 ADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLLNEEEHAYRKIRLRAEDVQGKNVLTNF 80 (241)
Q Consensus 1 ~D~~~~KeWY~V~AP~~F~~~~iG~T~v~kt~g~~~a~~~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~V~G~~a~T~F 80 (241)
.|+|+.|.||+|+||++|+..++|+||++ +|+.|+||++|+||+|||||++++|+|++|+|++|+|++|+|.|
T Consensus 11 ~Dkwk~K~Wy~i~AP~~fg~~~vG~t~a~-------dp~~ligR~vEvtl~DLtgd~~~~~~K~~FrI~~v~G~~a~T~F 83 (214)
T COG1890 11 RDKWKEKKWYTIKAPPYFGGVEVGKTPAN-------DPDKLIGRVVEVTLADLTGDFSKSHRKLKFRIDDVEGDKALTRF 83 (214)
T ss_pred cCchhhceeEEEeCchhhCcccccccccc-------ChHHhhCceEEEEHHHhcCCcccceEEEEEEEeeccCcEeeEEE
Confidence 49999999999999999999999999999 69999999999999999999999999999999999999999999
Q ss_pred ecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCC
Q 040060 81 WGMSFTTDKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCD 160 (241)
Q Consensus 81 ~GmelTrDklrSlVrk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~ 160 (241)
+||+|||||+|||||||+|+||+++||+|+|||.||||++|||.+| |++||+++||++|+++|.+.|++++
T Consensus 84 ~GheltrDyiRslVRR~~SrIdai~dVkTkDGy~~RV~~~~~T~~r---------a~tSqk~aIRk~M~eii~~~a~e~~ 154 (214)
T COG1890 84 KGHELTRDYIRSLVRRRTSRIDAIVDVKTKDGYVLRVKAMAFTRRR---------AKTSQKRAIRKIMFEIIEEKASELT 154 (214)
T ss_pred eccchhHHHHHHHHhcccceeeeEEEEEecCCcEEEEEEEEEEehh---------cccchHHHHHHHHHHHHHHHhccCC
Confidence 9999999999999999999999999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHhcccccccccEEEEEEEeecCCccchhhhhhhhcCc
Q 040060 161 LKSLVEKFIAEVIGREIEKATSSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGDY 215 (241)
Q Consensus 161 l~e~v~~li~~~i~~eI~k~~k~IyPlr~v~IrKvKvlk~p~~~~~kl~e~~~~~ 215 (241)
|++||++|++|.|+++|+++|++|||||+|||||+|||+.|+.+.....++|+++
T Consensus 155 f~~fv~~li~g~i~~~I~~~akkIyPLr~veIrK~kvl~~p~~~~~~~~~~~~~~ 209 (214)
T COG1890 155 FEEFVQELIPGRIAAEIEEAAKKIYPLRKVEIRKSKVLKEPKEAEPEQAVLHGES 209 (214)
T ss_pred HHHHHHHHhhhhHHHHHHHHhhhcccchheEEEeeeeeccCcccccchhcccccc
Confidence 9999999999999999999999999999999999999999998887777777763
No 5
>cd03407 Band_7_4 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=87.07 E-value=3.9 Score=36.74 Aligned_cols=91 Identities=18% Similarity=0.178 Sum_probs=62.5
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccc
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKATSSI 184 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~~k~I 184 (241)
.++.|+||..+.|-+.++-+=......+-.|--......|+..+...|.+.+.++++++++.. -+.|..+|....++.
T Consensus 46 ~~~lTkD~~~V~vd~~v~yrI~d~~~~~~~~~~~~~~~~l~~~~~s~lR~vig~~~l~eil~~--R~~I~~~i~~~l~~~ 123 (262)
T cd03407 46 VETKTKDNVFVTVVGQIQYRVSEENATDAFYKLGNPEEQIQSYVFDVLRARIPKLTLDELFEQ--KDEIAKAVEEELREA 123 (262)
T ss_pred CceEcCCCCEEEEEEEEEEEECCcHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccHHHHHhh--HHHHHHHHHHHHHHH
Confidence 456899999999888766655322222444554555679999999999999999999999854 245555555555554
Q ss_pred cccccEEEEEEEe
Q 040060 185 YPLQNVFIRKVKI 197 (241)
Q Consensus 185 yPlr~v~IrKvKv 197 (241)
.--.-|.|..+.+
T Consensus 124 l~~~GI~V~~v~I 136 (262)
T cd03407 124 MSRYGFEIVATLI 136 (262)
T ss_pred HHhcCcEEEEEEE
Confidence 4334566666654
No 6
>cd03400 Band_7_1 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=80.91 E-value=11 Score=29.63 Aligned_cols=91 Identities=12% Similarity=0.196 Sum_probs=57.9
Q ss_pred EEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhh---hhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHH
Q 040060 102 EAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQ---TSQIRQIRRKMREIMVAQAASCDLKSLVE---KFIAEVIGR 175 (241)
Q Consensus 102 e~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~---sSq~~~IRk~m~eii~~~~~~~~l~e~v~---~li~~~i~~ 175 (241)
+..+.+.|+||..+.+-+.+.-+=.+.. .-..|.+ ...-+.|+..+...|.+.+++.++++++. .-+...+..
T Consensus 11 ~~~~~v~T~D~~~v~vd~~v~y~V~~~~-~~~~~~~~~~~~~~~~i~~~~~~~lR~~~~~~~~~e~i~~~R~~i~~~i~~ 89 (124)
T cd03400 11 DEKIDVLSKEGLSINADVSVQYRINPNK-AAAVHSKLGTDYARKIVRPTFRSLVREVTGRYTAEQIYSTKRKEIESAIKK 89 (124)
T ss_pred ccceEEECCCCCEEEEEEEEEEEEChhh-HHHHHHHhCcchhheeechhHHHHHHHHhcCCCHHHHhhhhHHHHHHHHHH
Confidence 4458899999999987776543332111 1111211 12345689999999999999999999983 455555555
Q ss_pred HHHHhcccccccccEEEEEEEe
Q 040060 176 EIEKATSSIYPLQNVFIRKVKI 197 (241)
Q Consensus 176 eI~k~~k~IyPlr~v~IrKvKv 197 (241)
.+...+.. .-+.|.-+.+
T Consensus 90 ~l~~~~~~----~Gi~v~~v~i 107 (124)
T cd03400 90 ELIEEFVG----DGLILEEVLL 107 (124)
T ss_pred HHHHHhcc----CCeEEEEEEE
Confidence 55555544 3456666644
No 7
>cd02106 Band_7 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic HflK/C plays a role i
Probab=78.54 E-value=18 Score=26.85 Aligned_cols=97 Identities=19% Similarity=0.256 Sum_probs=60.2
Q ss_pred ccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccch--hhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--Hhh
Q 040060 95 RKWHTLIEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCY--AQTSQIRQIRRKMREIMVAQAASCDLKSLVEK--FIA 170 (241)
Q Consensus 95 rk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Y--a~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~--li~ 170 (241)
.+|.+--.....+.|+||..+++.+...-+=. ... ...| ........|+..+...+.+.++..++.++... .+.
T Consensus 4 ~~~~~~~~~~~~~~t~d~~~i~~~~~~~~~v~-~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~r~~i~ 81 (121)
T cd02106 4 LRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVV-DPV-KALYNVRDPEDEEALRQLAQSALRSVIGKMTLDELLEDRDEIA 81 (121)
T ss_pred ceeEEecCCCceEEecCCCEEEEEEEEEEEEe-CHH-HHHHhcCCccHHHHHHHHHHHHHHHHHccccHHHHHhhHHHHH
Confidence 34555566678899999999997766333222 211 1112 22222478999999999999999999999644 344
Q ss_pred hhHHHHHHHhcccccccccEEEEEEEe
Q 040060 171 EVIGREIEKATSSIYPLQNVFIRKVKI 197 (241)
Q Consensus 171 ~~i~~eI~k~~k~IyPlr~v~IrKvKv 197 (241)
..+..++...+.. |+ ++|..+-+
T Consensus 82 ~~v~~~l~~~~~~-~G---i~i~~v~i 104 (121)
T cd02106 82 AEVREALQEDLDK-YG---IEVVDVRI 104 (121)
T ss_pred HHHHHHHHHHHHh-cC---CEEEEEEE
Confidence 4444444444433 33 66766655
No 8
>PF04083 Abhydro_lipase: Partial alpha/beta-hydrolase lipase region; InterPro: IPR006693 The alpha/beta hydrolase fold is common to several hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is similar: an alpha/beta sheet, not barrel, of eight beta-sheets connected by alpha-helices []. This entry represents the N-terminal part of an alpha/beta hydrolase domain found in a number of lipases.; GO: 0006629 lipid metabolic process; PDB: 1K8Q_B 1HLG_B.
Probab=76.05 E-value=2.7 Score=30.47 Aligned_cols=17 Identities=35% Similarity=0.473 Sum_probs=13.2
Q ss_pred EEEEeCCCcEEEEEEEE
Q 040060 105 VDVKTTDNFTLRLFCIG 121 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~ 121 (241)
..|+|.|||.|-++=|-
T Consensus 15 h~V~T~DGYiL~l~RIp 31 (63)
T PF04083_consen 15 HEVTTEDGYILTLHRIP 31 (63)
T ss_dssp EEEE-TTSEEEEEEEE-
T ss_pred EEEEeCCCcEEEEEEcc
Confidence 57999999999988763
No 9
>smart00244 PHB prohibitin homologues. prohibitin homologues
Probab=75.91 E-value=28 Score=27.60 Aligned_cols=88 Identities=15% Similarity=0.254 Sum_probs=56.7
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHHHHhc
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEK---FIAEVIGREIEKAT 181 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~---li~~~i~~eI~k~~ 181 (241)
..+.|+||..+.+-+.+.-+ -.+..+--.......-..|+..+...+.+.++..++.+++.. -+...+..++...+
T Consensus 53 ~~~~t~d~~~v~v~~~v~~r-v~d~~~~~~~~~~~~~~~l~~~i~~~ir~~i~~~~~~~i~~~~r~~i~~~v~~~l~~~~ 131 (160)
T smart00244 53 QEIITKDNVKVSVDAVVYYR-VLDPLKAVYRVLDADYAVIEQLAQTTLRSVIGKMTLDELLTDEREKISENIREELNERA 131 (160)
T ss_pred eEEEecCCcEEEEeEEEEEE-EccHHHHhhhcCCHHHHHHHHHHHHHHHHHHccccHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 46799999999887775443 122211111111112258999999999999999999999862 35666666666666
Q ss_pred ccccccccEEEEEEEe
Q 040060 182 SSIYPLQNVFIRKVKI 197 (241)
Q Consensus 182 k~IyPlr~v~IrKvKv 197 (241)
++ | -++|..+.+
T Consensus 132 ~~-~---Gi~i~~v~i 143 (160)
T smart00244 132 EA-W---GIEVEDVEI 143 (160)
T ss_pred Hh-C---CCEEEEEEE
Confidence 55 2 456666664
No 10
>cd03399 Band_7_flotillin Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and, interact with a variety of proteins. Flotillins may play a role in the progression of prion disease, in the pathogenesis of neurodegenerative diseases such as Parkinson's and Alzheimer's disease and, in cancer invasion and metastasis.
Probab=70.36 E-value=35 Score=26.91 Aligned_cols=78 Identities=12% Similarity=0.058 Sum_probs=48.3
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCc--ccchh---h---hhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HhhhhHH
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVK--RTCYA---Q---TSQIRQIRRKMREIMVAQAASCDLKSLVEK--FIAEVIG 174 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~k--kt~Ya---~---sSq~~~IRk~m~eii~~~~~~~~l~e~v~~--li~~~i~ 174 (241)
..+.|+|+..+.|-+.+.-+=... .+ ...|. . ..=...|+..+...+...++++++++++.. -+...+.
T Consensus 14 q~v~TkD~~~v~vd~~~~~rV~d~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lR~~ig~~tl~el~~~R~~i~~~i~ 92 (128)
T cd03399 14 EAVITRDGVRVDVTAVFQVKVGGT-EEAIATAAERFLGKSEEEIEELVKEVLEGHLRAVVGTMTVEEIYEDRDKFAEQVQ 92 (128)
T ss_pred cceecCCCcEEEEEEEEEEEeCCC-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHhHHHHHHHHH
Confidence 468999999999877755444211 10 00111 1 112556677778899999999999999864 4444555
Q ss_pred HHHHHhccc
Q 040060 175 REIEKATSS 183 (241)
Q Consensus 175 ~eI~k~~k~ 183 (241)
+.+...+..
T Consensus 93 ~~v~~~~~~ 101 (128)
T cd03399 93 EVVAPDLNK 101 (128)
T ss_pred HHHHHHHHH
Confidence 555544443
No 11
>cd03401 Band_7_prohibitin Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. These microdomains in addition to being stable scaffolds may also be also dynamic units with their own regulatory functions. Prohibitin is a mitochondrial inner-membrane protein which may act as a chaperone for the stabilization of mitochondrial proteins. Human prohibitin forms a heter-oligomeric complex with Bap-37 (prohibitin 2, a band 7 domain carrying homologue). This complex may protect non-assembled membrane proteins against proteolysis by the m-AAA protease. Prohibitin and Bap-37 yeast homologues have been implicated in yeast longevity and, in the maintenance of mitochondrial morphology.
Probab=68.94 E-value=36 Score=28.55 Aligned_cols=90 Identities=14% Similarity=0.144 Sum_probs=56.2
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchh---hhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhc
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYA---QTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKAT 181 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya---~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~~ 181 (241)
..+.|+||..+.+.+...-.-.+.... ..|. ..-....|+....+.|.+.++..++++++.. -+.|+.+|.+.+
T Consensus 53 ~~~~t~d~~~V~v~~~v~y~v~~~~~~-~~~~~~~~~~~~~~i~~~v~~~lR~vi~~~~~~ei~~~--R~~i~~~i~~~l 129 (196)
T cd03401 53 STTGSKDLQMVNITLRVLFRPDASQLP-RIYQNLGEDYDERVLPSIINEVLKAVVAQFTAEELITQ--REEVSALIREAL 129 (196)
T ss_pred ecccCCCCeEEEEEEEEEEEeCHHHHH-HHHHHhCcchHhhhhcHHHHHHHHHHHccCCHHHHHhh--HHHHHHHHHHHH
Confidence 456789999998887644332111111 0121 1122346888889999999999999999854 556666666555
Q ss_pred ccccccccEEEEEEEe
Q 040060 182 SSIYPLQNVFIRKVKI 197 (241)
Q Consensus 182 k~IyPlr~v~IrKvKv 197 (241)
+.-.--..+.|..+.+
T Consensus 130 ~~~l~~~Gi~i~~v~i 145 (196)
T cd03401 130 TERAKDFGIILDDVSI 145 (196)
T ss_pred HHHHHhCCeEEEEEEE
Confidence 5544334467777654
No 12
>cd03405 Band_7_HflC Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflC is an integral membrane protein which may localize to the plasma membrane. HflC associates with another band 7 family member (HflK) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=68.78 E-value=52 Score=28.61 Aligned_cols=87 Identities=16% Similarity=0.133 Sum_probs=57.0
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCcccchhh---hhh--hHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHH
Q 040060 104 YVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQ---TSQ--IRQIRRKMREIMVAQAASCDLKSLVEK---FIAEVIGR 175 (241)
Q Consensus 104 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~---sSq--~~~IRk~m~eii~~~~~~~~l~e~v~~---li~~~i~~ 175 (241)
...+.|+||..|.+-+.+.-+=. +. . ..|-+ ..+ ...|+..+...+.+.++..++++++.. -+...+..
T Consensus 51 ~~~v~T~D~~~v~v~~~v~yrI~-d~-~-~~~~~~~~~~~~~~~~i~~~~~~~lr~vi~~~~~~el~~~~R~~i~~~i~~ 127 (242)
T cd03405 51 PQRVLTKDKKRLIVDAYAKWRIT-DP-L-RFYQAVGGEERAAETRLDQIVNSALRAEFGKRTLIELVSGERGELMEEIRR 127 (242)
T ss_pred cceEEccCCcEEEEEEEEEEEEc-CH-H-HHHHHhcChHHHHHHHHHHHHHHHHHHHHccCCHHHHHHhHHHHHHHHHHH
Confidence 35789999999988877543332 21 1 22221 111 268899999999999999999999843 45555555
Q ss_pred HHHHhcccccccccEEEEEEEe
Q 040060 176 EIEKATSSIYPLQNVFIRKVKI 197 (241)
Q Consensus 176 eI~k~~k~IyPlr~v~IrKvKv 197 (241)
++...+.. .-+.|..+.+
T Consensus 128 ~l~~~l~~----~Gi~i~~v~i 145 (242)
T cd03405 128 AVAEEAKE----LGIEVVDVRI 145 (242)
T ss_pred HHHHHHHc----cCcEEEEEEE
Confidence 55555543 2467777665
No 13
>PF01145 Band_7: SPFH domain / Band 7 family; InterPro: IPR001107 Band 7 protein is an integral membrane protein which is thought to regulate cation conductance. A variety of proteins belong to this family. These include the prohibitins, cytoplasmic anti-proliferative proteins and stomatin, an erythrocyte membrane protein. Bacterial HflC protein also belongs to this family. Note: Band 4.1 (IPR021187 from INTERPRO) and Band 7 proteins refer to human erythrocyte membrane proteins separated by SDS polyacrylamide gels and stained with coomassie blue [].; PDB: 2RPB_A 3BK6_B 1WIN_A.
Probab=67.53 E-value=64 Score=25.96 Aligned_cols=88 Identities=15% Similarity=0.193 Sum_probs=50.9
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCcccchhh-----hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHH
Q 040060 104 YVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQ-----TSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIE 178 (241)
Q Consensus 104 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~-----sSq~~~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~ 178 (241)
.+.+.|+||..+.+-+. ++-+- ....+ .|.+ .--...||......+.+.++..++.++... ...+..++.
T Consensus 51 ~~~~~t~D~~~v~v~~~-v~y~i-~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~r~~~~~~~~~~~~~~--r~~~~~~v~ 125 (179)
T PF01145_consen 51 PITVRTKDGVPVDVDVT-VTYRI-EDPPK-FVQNYEGGEEDPENLLRQIVESALREVISSYSLEEIYSN--REEIADEVR 125 (179)
T ss_dssp -EEEE-TTS-EEEEEEE-EEEEE-S-CCC-CCCCCSS-HCHHHHHHHHHHHHHHHHHHHCS-HHHHHHT--HHHHHHHHH
T ss_pred hhhhhhcccceeeeeEE-EEEEe-chHHH-HHHhhhcchhhhhhhhhhhhhhhhheEeeeeehHHhhhh--hhhhhHhHH
Confidence 46999999999987554 33332 11111 1122 235678999999999999999999999865 244444444
Q ss_pred HhcccccccccEEEEEEE
Q 040060 179 KATSSIYPLQNVFIRKVK 196 (241)
Q Consensus 179 k~~k~IyPlr~v~IrKvK 196 (241)
+..+.-+-=..++|.-+.
T Consensus 126 ~~l~~~~~~~Gi~i~~v~ 143 (179)
T PF01145_consen 126 EQLQEALEEYGIEITSVQ 143 (179)
T ss_dssp HHHHHHHGGGTEEEEEEE
T ss_pred HHHhhhccccEEEEEEEE
Confidence 433333333335555555
No 14
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=66.80 E-value=33 Score=30.50 Aligned_cols=90 Identities=10% Similarity=0.020 Sum_probs=56.7
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHHHHh
Q 040060 104 YVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEK---FIAEVIGREIEKA 180 (241)
Q Consensus 104 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~---li~~~i~~eI~k~ 180 (241)
...+-|+||..|.+-+.+.-+=. ...+-.|.-..-...|+..+...+.+.+++.++++++.. -+...+...+...
T Consensus 77 ~~~v~T~D~~~v~vd~~v~yrI~--d~~~~~~~~~~~~~~l~~~~~~~lr~~i~~~~~~eil~~~R~~i~~~i~~~l~~~ 154 (266)
T cd03404 77 ESLMLTGDENIVDVEFAVQYRIS--DPYDYLFNVRDPEGTLRQAAESAMREVVGRSTLDDVLTEGREEIAQDVRELLQAI 154 (266)
T ss_pred ccceEeCCCCEEEEEEEEEEEEC--CHHHHHhhCCCHHHHHHHHHHHHHHHHHhhCcHHHHHHhCHHHHHHHHHHHHHHH
Confidence 45689999999987776544332 223333433333468999999999999999999999743 3444444455444
Q ss_pred cccccccccEEEEEEEe
Q 040060 181 TSSIYPLQNVFIRKVKI 197 (241)
Q Consensus 181 ~k~IyPlr~v~IrKvKv 197 (241)
+..- .+ -+.|..+.+
T Consensus 155 ~~~~-~~-Gi~v~~v~i 169 (266)
T cd03404 155 LDAY-KA-GIEIVGVNL 169 (266)
T ss_pred hhcc-CC-CeEEEEEEE
Confidence 3321 11 356666654
No 15
>cd03403 Band_7_stomatin_like Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Stomatin is widely expressed and, highly expressed in red blood cells. It localizes predominantly to the plasma membrane and to intracellular vesicles of the endocytic pathway, where it is present in higher order homo-oligomeric complexes (of between 9 and 12 monomers). Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and, is implicated in trafficking of Glut1 glucose transporters. Prohibitin is a mitochondrial inner-membrane protein hypothesized to act as a chaperone for the stabilization of mitochondrial proteins. Podicin local
Probab=65.38 E-value=48 Score=28.19 Aligned_cols=77 Identities=17% Similarity=0.222 Sum_probs=49.0
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HhhhhHHHHHHHhcc
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEK--FIAEVIGREIEKATS 182 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~--li~~~i~~eI~k~~k 182 (241)
.++.|+||..|.+.+...-+= .+. .+-.|.-..--..|+......|.+.++..++++++.. .+...+...+...+.
T Consensus 49 ~~v~T~D~~~v~v~~~v~yrI-~d~-~~~~~~~~~~~~~l~~~~~~~lr~~i~~~~~~el~~~R~~i~~~i~~~l~~~l~ 126 (215)
T cd03403 49 QEVITKDNVTVRVDAVLYYRV-VDP-VKAVYGVEDYRYAISQLAQTTLRSVIGKMELDELLSEREEINAELVEILDEATD 126 (215)
T ss_pred ceeEcCCCCEEEEEEEEEEEE-ecH-HHHHhcCCCHHHHHHHHHHHHHHHHHccccHHHHHhhHHHHHHHHHHHHHHHHh
Confidence 467899999999887644332 121 1111111222357888999999999999999999865 344444444444444
Q ss_pred c
Q 040060 183 S 183 (241)
Q Consensus 183 ~ 183 (241)
.
T Consensus 127 ~ 127 (215)
T cd03403 127 P 127 (215)
T ss_pred c
Confidence 3
No 16
>PF03645 Tctex-1: Tctex-1 family; InterPro: IPR005334 Tctex-1 is a dynein light chain. Dynein translocates rhodopsin-bearing vesicles along microtubules and it has been shown that Tctex-1 can bind to the cytoplasmic tail of rhodopsin. An efficient vectorial transport system must be required to deliver large numbers of newly synthesized rhodopsin molecules (~107 molecules per day per photoreceptor) to the base of the outer segment of the photoreceptor, Tctex-1 may well play a role in this process. C-terminal rhodopsin mutations responsible for retinitis pigmentosa inhibit the interaction between Tctex-1 and rhodopsin, which may be the molecular basis of retinitis pigmentosa. In the mouse, the chromosomal location and pattern of expression of Tctex-1 make it a candidate for involvement in male sterility [].; PDB: 1YGT_A 3FM7_A 2PG1_E 1XDX_B.
Probab=61.59 E-value=30 Score=26.33 Aligned_cols=58 Identities=16% Similarity=0.221 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccc-c-ccccEEEEEEEeecCC
Q 040060 143 QIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKATSSI-Y-PLQNVFIRKVKILKAP 201 (241)
Q Consensus 143 ~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~~k~I-y-Plr~v~IrKvKvlk~p 201 (241)
+++..|.++|.+......++.---.-....|.++|..+.+.. + |-.+ +|--+-++...
T Consensus 2 ~v~~ii~~~l~~~l~~~~Y~~~~~~~~~~~I~~~i~~~lk~~~~~~ryK-~iv~~~I~q~~ 61 (101)
T PF03645_consen 2 EVKEIIEEVLEEKLEDQKYDPEKAQQWSKEISDEILERLKKLGYSKRYK-FIVQVTIGQKN 61 (101)
T ss_dssp HHHHHHHHHHHHHHCTS---HHHHHHHHHHHHHHHHHHHHCC--T-SCE-EEEEEEEEETT
T ss_pred HHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHHHHHHHHhccCCCce-EEEEEEEEecC
Confidence 689999999999999999988877778889999999999999 5 4444 55555555543
No 17
>cd03402 Band_7_2 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=59.86 E-value=74 Score=28.12 Aligned_cols=92 Identities=9% Similarity=0.139 Sum_probs=63.0
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---------HHhhhhHHH
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE---------KFIAEVIGR 175 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~---------~li~~~i~~ 175 (241)
..+.|+||..+.|-++++-+= ....|-.|.-..-...|+......|.+.++..++++++. .-+...+..
T Consensus 52 ~~v~T~D~~~v~V~~~V~~rV--~Dp~ka~~~v~~~~~~l~~~~~salR~vig~~~~d~il~~~~~l~~~r~~I~~~l~~ 129 (219)
T cd03402 52 LKVNDANGNPIEIAAVIVWRV--VDTAKAVFNVDDYEEFVHIQSESALRHVASQYPYDDPVNKETSLRGNSDEVSDELAR 129 (219)
T ss_pred ceeEcCCCCEEEEEEEEEEEE--cCHHHHHHHcCCHHHHHHHHHHHHHHHHHccCcHHHHhccccccccCHHHHHHHHHH
Confidence 458999999999888755433 223344454445577999999999999999999999985 345555555
Q ss_pred HHHHhcccccccccEEEEEEEe--ecCCc
Q 040060 176 EIEKATSSIYPLQNVFIRKVKI--LKAPK 202 (241)
Q Consensus 176 eI~k~~k~IyPlr~v~IrKvKv--lk~p~ 202 (241)
++...+.. .-|+|..+.+ +..|.
T Consensus 130 ~l~~~l~~----~GI~V~~v~I~~l~~p~ 154 (219)
T cd03402 130 ELQERLAV----AGVEVVEARITHLAYAP 154 (219)
T ss_pred HHHHHHHh----hCcEEEEEEEEeecCCH
Confidence 55554433 4466666654 44454
No 18
>KOG2620 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=54.52 E-value=82 Score=29.66 Aligned_cols=95 Identities=16% Similarity=0.208 Sum_probs=70.6
Q ss_pred EEEEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH--HHhhhhHHHHHH
Q 040060 101 IEAYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE--KFIAEVIGREIE 178 (241)
Q Consensus 101 Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~--~li~~~i~~eI~ 178 (241)
.+.....+|+|+..|+|-++..-+--.....--+|-=..=.-+|-.-..++|..++.+++|+.+.+ .-+..++-.+|.
T Consensus 56 ~~~~q~aiTkDNV~v~idgvly~rv~dp~~~dAsYgvenp~~aI~qlaqttmRsevgkltLD~vFeer~~ln~sI~eain 135 (301)
T KOG2620|consen 56 LDPKQEAITKDNVFVQIDGVLYYRVVDPYADDASYGVENPEYAIQQLAQTTMRSEVGKLTLDKVFEERNSLNKSIVEAIN 135 (301)
T ss_pred cccccceeecccEEEEEEEEEEEEEecccccccccccCCHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHH
Confidence 345567799999999998876655443333337788888889999999999999999999999874 367888888888
Q ss_pred Hhcccc-cccccEEEEEE
Q 040060 179 KATSSI-YPLQNVFIRKV 195 (241)
Q Consensus 179 k~~k~I-yPlr~v~IrKv 195 (241)
++.... |-+-+.+||-+
T Consensus 136 kA~~~wG~~clr~eIrDI 153 (301)
T KOG2620|consen 136 KAMEAWGYECLRYEIRDI 153 (301)
T ss_pred HHHHHhHHHHHHHhhhhc
Confidence 876543 34444555554
No 19
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=53.67 E-value=59 Score=31.87 Aligned_cols=79 Identities=14% Similarity=0.115 Sum_probs=57.9
Q ss_pred EEEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHHHHHH
Q 040060 103 AYVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE---KFIAEVIGREIEK 179 (241)
Q Consensus 103 ~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~---~li~~~i~~eI~k 179 (241)
....+.|+|+..|.|-..++-+=. ...+-.|.-..-...|+..+...|.+.+...++++++. ..|...+..+|.+
T Consensus 145 ~~~~mLT~D~n~V~Vd~~VqYrI~--Dp~~~lf~v~~~~~~L~~~~~SAlR~vIG~~tldevLt~~R~~I~~~i~~~l~e 222 (419)
T PRK10930 145 ASGVMLTSDENVVRVEMNVQYRVT--DPEKYLFSVTSPDDSLRQATDSALRGVIGKYTMDRILTEGRTVIRSDTQRELEE 222 (419)
T ss_pred CcceeECCCCCEEEEEEEEEEEEC--CHHHHHHhccCHHHHHHHHHHHHHHHHHccCCHHHHhhccHHHHHHHHHHHHHH
Confidence 345678999999998887765542 22233344344567899999999999999999999984 3667777777777
Q ss_pred hccc
Q 040060 180 ATSS 183 (241)
Q Consensus 180 ~~k~ 183 (241)
....
T Consensus 223 ~l~~ 226 (419)
T PRK10930 223 TIRP 226 (419)
T ss_pred HHhh
Confidence 6654
No 20
>TIGR01933 hflK HflK protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH by HflKC appears to be negative (PubMed:8947034,PubMed:96367)
Probab=50.82 E-value=1e+02 Score=27.28 Aligned_cols=76 Identities=7% Similarity=0.017 Sum_probs=50.4
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHHHHHHhc
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE---KFIAEVIGREIEKAT 181 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~---~li~~~i~~eI~k~~ 181 (241)
..+.|+||..+.|-+.+.-+=. + ..+-.|.-..-...|+..+...|.+.+...++++++. .-+...+..++....
T Consensus 51 ~~v~T~D~~~v~vd~~v~yrI~-d-~~~~~~~~~~~~~~l~~~~~s~lR~vig~~~l~eil~~~R~~i~~~i~~~l~~~~ 128 (261)
T TIGR01933 51 GLMLTGDENIVNVEMNVQYRIT-D-PYKYLFSVENPEDSLRQATDSALRGVIGDSTMDDILTEGRSQIREDTKERLNEII 128 (261)
T ss_pred CeEEeCCCCEEEEEEEEEEEEC-C-HHHHHHhCCCHHHHHHHHHHHHHHHHHhhCcHHHHHHhCHHHHHHHHHHHHHHHH
Confidence 4577999999888775443332 1 1222233233346799999999999999999999985 245555555555555
Q ss_pred c
Q 040060 182 S 182 (241)
Q Consensus 182 k 182 (241)
.
T Consensus 129 ~ 129 (261)
T TIGR01933 129 D 129 (261)
T ss_pred h
Confidence 4
No 21
>PF03748 FliL: Flagellar basal body-associated protein FliL; InterPro: IPR005503 This FliL protein controls the rotational direction of the flagella during chemotaxis []. FliL is a cytoplasmic membrane protein associated with the basal body [].; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009425 bacterial-type flagellum basal body
Probab=48.98 E-value=1.1e+02 Score=22.76 Aligned_cols=83 Identities=12% Similarity=0.107 Sum_probs=48.1
Q ss_pred EEEEEeCCC---cEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHh
Q 040060 104 YVDVKTTDN---FTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKA 180 (241)
Q Consensus 104 ~vdvkT~DG---y~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~ 180 (241)
.+-|...|| ..||+....-+... .-...+..-...+.+.+....++.+.+++-..--...+.++|..+
T Consensus 8 ~~~vnl~~~~~~~~l~~~i~l~~~~~---------~~~~~~~~~~~~ird~ii~~l~~~~~~~l~~~~g~~~Lk~~l~~~ 78 (99)
T PF03748_consen 8 PFVVNLADGGRQRYLKVSISLELSDE---------EAAEELESNMPRIRDAIISYLSSKTAEDLSGPEGKERLKDELKDR 78 (99)
T ss_pred CEEEECCCCCCcEEEEEEEEEEECCH---------HHHHHHHhccHHHHHHHHHHHHcCCHHHhcChhhHHHHHHHHHHH
Confidence 345666676 44554333333222 113344444456777777777788998887555555666666666
Q ss_pred cccccc---cccEEEEEE
Q 040060 181 TSSIYP---LQNVFIRKV 195 (241)
Q Consensus 181 ~k~IyP---lr~v~IrKv 195 (241)
.+++++ +.+|++.+.
T Consensus 79 in~~l~~~~V~~V~ft~f 96 (99)
T PF03748_consen 79 INKILGKGKVKDVYFTDF 96 (99)
T ss_pred HHHhhccCcEEEEEEEEE
Confidence 666653 566666553
No 22
>PF12638 Staygreen: Staygreen protein; InterPro: IPR024438 This domain is found in a family of proteins have been implicated in chlorophyll degradation [, ]. Intriguingly members of this family are also found in non-photosynthetic bacteria.
Probab=40.83 E-value=1.1e+02 Score=26.20 Aligned_cols=58 Identities=21% Similarity=0.347 Sum_probs=40.0
Q ss_pred cCCCCcEEEEeccccCCchhhceeEEEEEEeeecCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCCC-cEEEE
Q 040060 39 EGLKHRVFEVSLGDLLNEEEHAYRKIRLRAEDVQGKNVLTNFWGMSFTTDKLRSLVRKWHTLIEAYVDVKTTDN-FTLRL 117 (241)
Q Consensus 39 ~~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~V~G~~a~T~F~GmelTrDklrSlVrk~~s~Ie~~vdvkT~DG-y~lRv 117 (241)
..+++|.+-+|..|.|++ ++-=.|.+...|+| ..+-.+=|..-.=+..+| |.|.|
T Consensus 20 ~P~~pR~YTLTHsD~T~~--------------------L~L~Ig~~~~~d~l----~~~~~RDEVlaEW~~~~~~~~L~v 75 (151)
T PF12638_consen 20 HPIIPRRYTLTHSDFTGE--------------------LFLTIGNEFNYDQL----YNRLMRDEVLAEWKKVNGQYSLHV 75 (151)
T ss_pred CCCCCceEEeecCCccCc--------------------eEEEeeHHhhHHHh----hccchhceEEEEEEEcCCEEEEEE
Confidence 457999999999999999 55556788888888 222233344444455455 67777
Q ss_pred EEE
Q 040060 118 FCI 120 (241)
Q Consensus 118 f~i 120 (241)
+|-
T Consensus 76 ~~~ 78 (151)
T PF12638_consen 76 YCY 78 (151)
T ss_pred EEE
Confidence 774
No 23
>COG0330 HflC Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]
Probab=33.85 E-value=2.6e+02 Score=24.99 Aligned_cols=91 Identities=14% Similarity=0.191 Sum_probs=63.9
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCcccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH--H-HhhhhHHHHHHHh
Q 040060 104 YVDVKTTDNFTLRLFCIGFTKRLPNQVKRTCYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE--K-FIAEVIGREIEKA 180 (241)
Q Consensus 104 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~--~-li~~~i~~eI~k~ 180 (241)
...+-|+|+-.+.|-+.++-+=. -..+..|.-..-...|+......+...+..+++++++. . -+...+.+.+...
T Consensus 76 ~q~viT~D~~~V~vd~~v~~rv~--d~~~~~~~v~~~~~~l~~~~~~~lR~vig~~~~~e~~~~~~~~i~~~i~~~l~~~ 153 (291)
T COG0330 76 PQEVITKDNVIVSVDAVVQYRVT--DPQKAVYNVENAEAALRQLVQSALRSVIGRMTLDELLTERRAEINAKIREILDEA 153 (291)
T ss_pred cceEEecCCCEEEEEEEEEEEEc--CHHHHHHhcCCHHHHHHHHHHHHHHHHHccccHHHHhhCchHHHHHHHHHHHHHh
Confidence 46678999998877776544432 22355555555788999999999999999999999983 3 6777777888777
Q ss_pred cccc-cccccEEEEEEE
Q 040060 181 TSSI-YPLQNVFIRKVK 196 (241)
Q Consensus 181 ~k~I-yPlr~v~IrKvK 196 (241)
.... +=+-+|+|+.+.
T Consensus 154 ~~~~Gi~V~~V~i~~i~ 170 (291)
T COG0330 154 ADPWGIKVVDVEIKDID 170 (291)
T ss_pred hhhcCcEEEEEEEeecC
Confidence 7762 333444444443
No 24
>PF08388 GIIM: Group II intron, maturase-specific domain; InterPro: IPR013597 This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing [].
Probab=32.39 E-value=43 Score=24.07 Aligned_cols=29 Identities=31% Similarity=0.532 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHhhCCHHHHHHHHh
Q 040060 141 IRQIRRKMREIMVAQAASCDLKSLVEKFI 169 (241)
Q Consensus 141 ~~~IRk~m~eii~~~~~~~~l~e~v~~li 169 (241)
++.+++++.+++.......++++++.+|-
T Consensus 1 ik~~~~kik~~~~~~~~~~~~~~~i~~LN 29 (80)
T PF08388_consen 1 IKRFRRKIKEITRRRNRGKSLEELIKKLN 29 (80)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence 46788999998877778889999998873
No 25
>PRK06654 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=27.22 E-value=4.3e+02 Score=23.23 Aligned_cols=51 Identities=16% Similarity=0.270 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccccc---cccEEEEEEEee
Q 040060 145 RRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKATSSIYP---LQNVFIRKVKIL 198 (241)
Q Consensus 145 Rk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~~k~IyP---lr~v~IrKvKvl 198 (241)
.-.+.+.|....++++.+||- -...|-.||..+.+.|-. +++|++...-++
T Consensus 126 ~pqIRD~Ii~~LssKt~~eL~---Gk~~LKeEI~~rIN~iL~~GkV~~VYFTeFv~~ 179 (181)
T PRK06654 126 KVRLKDIIREYFSQKTGQELK---NESQIKAEIKARINSILRNGEIKDIAFTQIDIF 179 (181)
T ss_pred cHHHHHHHHHHHHhCCHHHHc---CHHHHHHHHHHHHHHhcCCCceEEEEEEEEEee
Confidence 345667777888899999996 446777788777777654 566666554443
No 26
>KOG4108 consensus Dynein light chain [Cell motility]
Probab=25.06 E-value=2.4e+02 Score=24.76 Aligned_cols=61 Identities=8% Similarity=0.135 Sum_probs=49.9
Q ss_pred hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccccccccEEEEEEEee
Q 040060 138 TSQIRQIRRKMREIMVAQAASCDLKSLVEKFIAEVIGREIEKATSSIYPLQNVFIRKVKIL 198 (241)
Q Consensus 138 sSq~~~IRk~m~eii~~~~~~~~l~e~v~~li~~~i~~eI~k~~k~IyPlr~v~IrKvKvl 198 (241)
.-+...++.+|.++|.+......++.=.-.-+...|+.+|..+.|..=+-|-=+|..|-+-
T Consensus 70 ~F~~~~v~~iI~~vl~e~L~~~~Y~~~~a~~lt~elae~I~~rvK~l~~~RYK~Vv~V~ig 130 (174)
T KOG4108|consen 70 KFPAERVEKIIEAVLTEKLADAEYDPDEALQLTKELAEEIKDRVKELGYPRYKYVVQVMIG 130 (174)
T ss_pred cCCHHHHHHHHHHHHHHHhhhhccCHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEh
Confidence 3467889999999999999888887777777888999999999988877676677666553
No 27
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=23.39 E-value=1.3e+02 Score=22.88 Aligned_cols=26 Identities=27% Similarity=0.369 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHhhCCHHHHHHHHh
Q 040060 144 IRRKMREIMVAQAASCDLKSLVEKFI 169 (241)
Q Consensus 144 IRk~m~eii~~~~~~~~l~e~v~~li 169 (241)
+|+++..+|.+.....|.+|++..+-
T Consensus 1 ~rk~i~~~l~ey~~~~d~~ea~~~l~ 26 (113)
T PF02847_consen 1 LRKKIFSILMEYFSSGDVDEAVECLK 26 (113)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCHHHHHHHHH
Confidence 58899999999999999999987763
No 28
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=22.32 E-value=1.6e+02 Score=23.65 Aligned_cols=71 Identities=27% Similarity=0.194 Sum_probs=42.0
Q ss_pred CCCCcEEEEeccccCCchhhceeEEEEEEee-ecCCeeeEeeecccccchhhhhhhccce--eeEEEEEEEEeCCCcEEE
Q 040060 40 GLKHRVFEVSLGDLLNEEEHAYRKIRLRAED-VQGKNVLTNFWGMSFTTDKLRSLVRKWH--TLIEAYVDVKTTDNFTLR 116 (241)
Q Consensus 40 ~l~GRv~EvsL~DL~~d~~~~~~K~kfki~~-V~G~~a~T~F~GmelTrDklrSlVrk~~--s~Ie~~vdvkT~DGy~lR 116 (241)
.+.|...||-|.||.+. -..+-...+. |.|++. |-.+| |....+++... ..--.+...+|+||..||
T Consensus 14 ~~lG~~~EVVLHDl~~~----~~sIv~I~Ng~vsgR~v-----Gdp~t-~~~l~~l~~~~~~~~~~~nY~~~~~~Gk~lr 83 (118)
T PF08348_consen 14 ATLGPNCEVVLHDLSDP----EHSIVAIANGHVSGRKV-----GDPIT-DLALELLKEKQYEEDYIINYKTKTKDGKILR 83 (118)
T ss_pred HHhCCCeEEEEEECCCC----CCEEEEEECCCccCCcc-----CCchh-HHHHHHHhccccCCCccccccccCCCCCEEE
Confidence 46899999999999643 2344445555 666643 32222 33344444432 333345556788999998
Q ss_pred EEEE
Q 040060 117 LFCI 120 (241)
Q Consensus 117 vf~i 120 (241)
--.+
T Consensus 84 SsT~ 87 (118)
T PF08348_consen 84 SSTF 87 (118)
T ss_pred EEEE
Confidence 5554
No 29
>cd03406 Band_7_3 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=20.67 E-value=4.2e+02 Score=24.51 Aligned_cols=89 Identities=13% Similarity=0.071 Sum_probs=51.4
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCc--cc--chhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHHHH
Q 040060 105 VDVKTTDNFTLRLFCIGFTKRLPNQVK--RT--CYAQTSQIRQIRRKMREIMVAQAASCDLKSLVE---KFIAEVIGREI 177 (241)
Q Consensus 105 vdvkT~DGy~lRvf~i~fT~kr~~q~k--kt--~Ya~sSq~~~IRk~m~eii~~~~~~~~l~e~v~---~li~~~i~~eI 177 (241)
+.+-|+||-.|-+-.+.+... .+..+ .. .|.-..-...|+..+...+.+.++..++++++. .-+...+..++
T Consensus 56 ~~v~TkDg~~ItvD~i~v~~i-vdp~~~~~~~~~y~~~~~~~~I~~~Vrsavr~vig~~tldeVis~~Rd~I~~~I~~~l 134 (280)
T cd03406 56 VPCGTSGGVMIYFDRIEVVNF-LIPDSVYDIVKNYTADYDKTLIFNKIHHELNQFCSVHTLQEVYIDLFDQIDENLKLAL 134 (280)
T ss_pred cccccCCCcEEEEEEEEEEEe-cCHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHhhhCCHHHHHhccHHHHHHHHHHHH
Confidence 456789997764443323221 11111 11 122122345677888888888888899999985 35666677777
Q ss_pred HHhcccccccccEEEEEEE
Q 040060 178 EKATSSIYPLQNVFIRKVK 196 (241)
Q Consensus 178 ~k~~k~IyPlr~v~IrKvK 196 (241)
.+.+.. |++ -++|..|.
T Consensus 135 ~e~l~~-y~~-GI~I~dV~ 151 (280)
T cd03406 135 QKDLTR-MAP-GLEIQAVR 151 (280)
T ss_pred HHHHhc-cCC-CcEEEEEE
Confidence 776664 321 45555554
No 30
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=20.40 E-value=1.4e+02 Score=23.17 Aligned_cols=60 Identities=10% Similarity=0.124 Sum_probs=46.8
Q ss_pred EEEEeeecCCeeeEeeecccccc---hhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeec
Q 040060 65 RLRAEDVQGKNVLTNFWGMSFTT---DKLRSLVRKWHTLIEAYVDVKTTDNFTLRLFCIGFTKR 125 (241)
Q Consensus 65 kfki~~V~G~~a~T~F~GmelTr---DklrSlVrk~~s~Ie~~vdvkT~DGy~lRvf~i~fT~k 125 (241)
.+--.++-|..++--+|..|+.. +..+-+..+++. .....-..+++|-.+-+.+-+....
T Consensus 27 gy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~-~~~~yR~~~k~g~~vwvqt~~~~~~ 89 (111)
T PF14598_consen 27 GYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQS-VSPYYRFRTKNGGYVWVQTKATLFY 89 (111)
T ss_dssp SS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSE-EEEEEEEE-TTSSEEEEEEEEEEEE
T ss_pred CCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCc-CcceEEEEecCCcEEEEEEEEEEEE
Confidence 34445678999999999999886 668889999996 7778999999998888877765554
Done!