Query 024879
Match_columns 261
No_of_seqs 114 out of 333
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 08:07:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024879.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024879hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1628 40S ribosomal protein 100.0 1.4E-87 3E-92 598.9 13.5 233 2-236 1-233 (249)
2 PF01015 Ribosomal_S3Ae: Ribos 100.0 1.2E-81 2.5E-86 552.4 20.7 194 12-222 1-194 (194)
3 PRK04057 30S ribosomal protein 100.0 1.1E-78 2.3E-83 536.6 21.1 189 20-224 2-190 (203)
4 COG1890 RPS1A Ribosomal protei 100.0 7.8E-77 1.7E-81 523.3 18.6 208 11-235 2-209 (214)
5 cd03407 Band_7_4 A subgroup of 85.6 5.4 0.00012 36.3 8.7 91 125-217 46-136 (262)
6 cd03400 Band_7_1 A subgroup of 76.1 18 0.00039 28.7 7.7 91 122-217 11-107 (124)
7 cd02106 Band_7 The band 7 doma 74.2 32 0.0007 25.8 8.4 97 115-217 4-104 (121)
8 PF04083 Abhydro_lipase: Parti 73.5 3.6 7.7E-05 30.3 2.7 18 125-142 15-32 (63)
9 smart00244 PHB prohibitin homo 72.2 45 0.00098 26.7 9.3 88 125-217 53-143 (160)
10 cd03405 Band_7_HflC Band_7_Hfl 67.3 48 0.001 29.2 9.2 87 124-217 51-145 (242)
11 cd03401 Band_7_prohibitin Band 64.1 47 0.001 28.2 8.2 90 125-217 53-145 (196)
12 cd03399 Band_7_flotillin Band_ 64.0 63 0.0014 25.7 8.5 78 125-202 14-100 (128)
13 PF01145 Band_7: SPFH domain / 62.4 84 0.0018 25.6 12.3 88 124-216 51-143 (179)
14 cd03404 Band_7_HflK Band_7_Hfl 60.8 51 0.0011 29.6 8.2 91 124-218 77-170 (266)
15 cd03403 Band_7_stomatin_like B 60.2 88 0.0019 26.9 9.3 76 125-202 49-126 (215)
16 KOG2620 Prohibitins and stomat 57.2 67 0.0014 30.6 8.3 95 121-215 56-153 (301)
17 cd03402 Band_7_2 A subgroup of 52.7 1.1E+02 0.0025 27.3 9.0 87 125-217 52-147 (219)
18 PF03748 FliL: Flagellar basal 52.4 1E+02 0.0022 23.3 9.0 83 124-215 8-96 (99)
19 PRK10930 FtsH protease regulat 49.4 78 0.0017 31.5 8.0 79 123-203 145-226 (419)
20 PF03645 Tctex-1: Tctex-1 fami 47.7 1.3E+02 0.0027 23.1 7.7 60 163-222 2-62 (101)
21 PF12638 Staygreen: Staygreen 42.7 99 0.0021 26.8 6.6 59 58-140 19-78 (151)
22 TIGR01933 hflK HflK protein. H 41.4 1.7E+02 0.0036 26.3 8.3 76 125-202 51-129 (261)
23 COG0330 HflC Membrane protease 34.1 2.5E+02 0.0055 25.5 8.4 90 124-215 76-169 (291)
24 PF08388 GIIM: Group II intron 31.2 45 0.00098 24.3 2.4 29 161-189 1-29 (80)
25 PRK06654 fliL flagellar basal 28.6 4.3E+02 0.0093 23.6 8.9 53 163-218 124-179 (181)
26 TIGR02413 Bac_small_yrzI Bacil 26.8 2.3E+02 0.005 19.9 5.6 39 134-176 2-40 (46)
27 PF01253 SUI1: Translation ini 24.3 1.4E+02 0.0031 22.5 4.2 50 82-131 5-54 (83)
28 cd03406 Band_7_3 A subgroup of 23.6 3.1E+02 0.0067 25.8 7.1 89 125-216 56-151 (280)
29 KOG4108 Dynein light chain [Ce 22.1 3.2E+02 0.0069 24.4 6.4 61 158-218 70-130 (174)
30 PF10163 EnY2: Transcription f 21.9 1.6E+02 0.0035 22.6 4.1 40 162-201 34-81 (86)
31 PF02847 MA3: MA3 domain; Int 20.4 1.5E+02 0.0033 22.7 3.8 26 164-189 1-26 (113)
No 1
>KOG1628 consensus 40S ribosomal protein S3A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-87 Score=598.95 Aligned_cols=233 Identities=69% Similarity=1.052 Sum_probs=229.6
Q ss_pred CcCCCcccccCcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCcEEEEeccCCCCchhhce
Q 024879 2 AVGKNKRISKGKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAY 81 (261)
Q Consensus 2 a~gknk~~~kgkKg~kkk~~D~f~kK~WY~V~AP~~F~~~~iG~T~v~kt~g~k~~~d~l~GRv~EvsLaDL~~d~~~~~ 81 (261)
|+|||+++++||||+++|++|||++|+||+++||.+|+.+++|+|+++||+|+++++++ +||+|||+|+||+ |++.+|
T Consensus 1 avgkn~~~~~~K~g~kkk~~~p~s~k~~~d~ka~~~~~~~~~~~~l~~~t~g~k~~~~~-~gr~~~v~~~dl~-n~e~af 78 (249)
T KOG1628|consen 1 AVGKNKRLSGGKKGAKKKAVDPFSRKDWYDVKAPPMFPARNVGKTLVNRTQGTKGASDG-KGRVVEVSLADLQ-NEEVAF 78 (249)
T ss_pred CCccccccccCccCCCCCCCCCcccccccccCCcccccCCChhheeccccccccccccC-CCceeeechhhcc-chhhhh
Confidence 79999999988999999999999999999999999999999999999999999999999 9999999999999 558999
Q ss_pred eEEEEEEeeecCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhh
Q 024879 82 RKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQI 161 (261)
Q Consensus 82 rK~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~t~Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi 161 (261)
|||+|++++|+|+||+|+||||+||+|++|||++||||+|||+|+|+|.|||+|||||++||++++||.++|||||+||+
T Consensus 79 rK~kli~edvqgkN~lt~f~GmdlT~dK~~smvkKwqt~ieA~v~vkT~dgy~Lrlf~i~ftkk~~nqv~ktsyaq~~qv 158 (249)
T KOG1628|consen 79 RKFKLIAEDVQGKNCLTNFHGMDLTRDKLVSMVKKWQTLIEAVVDVKTTDGYLLRLFCIGFTKKLVNQVKKTSYAQHGQV 158 (249)
T ss_pred heeeeeeccccCcccceeccCcchhhhhhhhhhhhhhheeeeeEEeecccCceEEeeehHHHHHhhcccCCceeeecchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhccccccccceeEEEEEeeeCCccccchhhhhcCCcc
Q 024879 162 RQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGDYS 236 (261)
Q Consensus 162 ~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~~~kl~e~~~~~~ 236 (261)
++||++|+|||+++++++||++++++|||++|+++||++|+.|||||+|+|||||+|+.|+||++|||||||+++
T Consensus 159 ~~irk~m~ei~~~evs~~Dlk~vvnKLipd~igKdiEka~~~iyPL~~v~vRKVK~lK~pkfelGkl~eLHGegs 233 (249)
T KOG1628|consen 159 RQIRKEMMEIMTQEVSTSDLKEVVNKLIPDSIGKDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLMELHGEGS 233 (249)
T ss_pred HHHHHHHHHHHHhccccccHHHHHHHhchhhhhhHHHhhccccccchhheeeeeeccccccchhhHHHHHhcccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999973
No 2
>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=1.2e-81 Score=552.41 Aligned_cols=194 Identities=62% Similarity=0.955 Sum_probs=166.3
Q ss_pred CcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCcEEEEeccCCCCchhhceeEEEEEEeee
Q 024879 12 GKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDV 91 (261)
Q Consensus 12 gkKg~kkk~~D~f~kK~WY~V~AP~~F~~~~iG~T~v~kt~g~k~~~d~l~GRv~EvsLaDL~~d~~~~~rK~kf~i~~V 91 (261)
||||+ +|++|+|++|+||+|+||++|+.++||+||++ .||+|+|||||+||+||+||++++|+||+|+|++|
T Consensus 1 ~kK~~-kk~~d~~~~K~WY~V~AP~~F~~~~iG~T~~~-------~~~~l~gRv~Evsl~DL~~d~~~~~~K~~f~i~~V 72 (194)
T PF01015_consen 1 GKKGK-KKVVDPWKKKEWYDVKAPSMFGNRNIGKTPAN-------KPEKLKGRVFEVSLADLTNDFSKAYRKFKFKIEDV 72 (194)
T ss_dssp ----S----S-TTTTEEEEEEE--TTSSSSEECEEEEE--------CCCCCC-EEEEECHCCCSTTTTSS-EEEEEEEEE
T ss_pred CCCCc-ccccCCCccceeEEEECCHHhCcceeeEEEcC-------CcccccCeEEEEEHHHhcCchhhhcEEEEEEEEee
Confidence 57788 88899999999999999999999999999999 59999999999999999999999999999999999
Q ss_pred cCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHH
Q 024879 92 QGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREI 171 (261)
Q Consensus 92 ~G~~a~T~F~GmelT~DklrSlVrK~~t~Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~ei 171 (261)
+|++|+|+|||||||+||||||||||||+||+++||+|+|||+|||||+|||+++ |++||+++||++|+++
T Consensus 73 ~g~~a~T~F~G~elt~D~lrSlvrk~~s~Ie~~~dvkT~DGy~lRvf~i~fT~~r---------a~~sq~~~IRk~m~~i 143 (194)
T PF01015_consen 73 QGNNALTNFHGMELTRDKLRSLVRKWQSRIEAIVDVKTKDGYLLRVFCIAFTKKR---------AKSSQIKAIRKKMVEI 143 (194)
T ss_dssp ETTEEEEEEEEEE--HHHHHHC--TTC-EEEEEEEEEETTTEEEEEEEEEEE-------------TCHHHHHHHHHHHHH
T ss_pred cCCEEEEEEcceecchhhhhcceeecceEEEEEEEEEcCCCcEEEEEEEEEEeec---------ccchHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999 9999999999999999
Q ss_pred HHHHHhhCCHHHHHHHHhhhhHHHHHHHhccccccccceeEEEEEeeeCCc
Q 024879 172 MIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPK 222 (261)
Q Consensus 172 i~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk 222 (261)
|++++++++|+|||++|++|+|++||+++|++|||||+|+|||||||+.|+
T Consensus 144 i~~~~~~~~~~e~V~~li~~~i~~eI~k~~k~IyPl~~v~IrKvKvlk~Pk 194 (194)
T PF01015_consen 144 ITEEASELDLKELVKKLIPGSIGKEIEKACKKIYPLRNVEIRKVKVLKKPK 194 (194)
T ss_dssp HHHHCCTSHHHHHHHHHCTTHHHHHHHHHHCTT--EEEEEEEEEEEEE---
T ss_pred HHHHhccCcHHHHHHHHccchHHHHHHHHhccccccceEEEEEEEEeccCC
Confidence 999999999999999999999999999999999999999999999999996
No 3
>PRK04057 30S ribosomal protein S3Ae; Validated
Probab=100.00 E-value=1.1e-78 Score=536.64 Aligned_cols=189 Identities=35% Similarity=0.541 Sum_probs=186.7
Q ss_pred ccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCcEEEEeccCCCCchhhceeEEEEEEeeecCCeeeEe
Q 024879 20 AADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDVQGKNVLTN 99 (261)
Q Consensus 20 ~~D~f~kK~WY~V~AP~~F~~~~iG~T~v~kt~g~k~~~d~l~GRv~EvsLaDL~~d~~~~~rK~kf~i~~V~G~~a~T~ 99 (261)
++|||++|+||+|+||++|+.++||+||++ +|+.|+|||||+||+||+||++++|+||+|+|++|+|++|+|+
T Consensus 2 ~~D~w~~K~WY~V~AP~~F~~~~iG~T~a~-------~~~~l~GRv~EvsL~DL~~d~~~~~~K~~f~i~~V~G~~a~T~ 74 (203)
T PRK04057 2 VKDKWKEKKWYTVYAPEFFGGVEIGETPAD-------DPEKLIGRVVETTLGDLTGDFSKQNVKLYFKIDNVEGDKAYTR 74 (203)
T ss_pred CCCcccccceEEEECCcccCCceEEEEEcc-------ChhhcCCcEEEEEHHHhcCChhhceEEEEEEEEeeeCCEEEEE
Confidence 589999999999999999999999999998 9999999999999999999999999999999999999999999
Q ss_pred eecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhC
Q 024879 100 FWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASC 179 (261)
Q Consensus 100 F~GmelT~DklrSlVrK~~t~Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~ 179 (261)
||||+||+||||||||||+|+||+++||+|+|||.|||||+|||.++ |++||+++||++|.++|.++++++
T Consensus 75 F~G~~lTrD~lrSlVrk~~S~Ie~~vdvkTkDGy~lRv~~i~~T~~r---------a~~sq~~~IRk~m~~~i~~~~~~~ 145 (203)
T PRK04057 75 FIGHELTRDYLRSLVRRRTSKIDAIVDVTTKDGYKVRVKPVALTTKR---------ARTSQKHAIRKIMEEIIEEKASEL 145 (203)
T ss_pred EeeeEecHHHHHhHhccCceeEEEEEEEEcCCCCEEEEEEEEEEchh---------hhhhHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999998 999999999999999999999999
Q ss_pred CHHHHHHHHhhhhHHHHHHHhccccccccceeEEEEEeeeCCccc
Q 024879 180 DLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFD 224 (261)
Q Consensus 180 ~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~ 224 (261)
+|+|||+++++|+|++||+++|++|||||+|+|||+|||+.|+..
T Consensus 146 ~~~e~V~~~i~g~i~~eI~~~~k~IyPlr~veIrKvkvl~~p~~~ 190 (203)
T PRK04057 146 TFEEFVQEIVFGKLASEIYKEAKKIYPLRRVEIRKSKVLARPEEV 190 (203)
T ss_pred CHHHHHHHHccchHHHHHHHhhhhccCcceEEEEEEEEEecCccc
Confidence 999999999999999999999999999999999999999999965
No 4
>COG1890 RPS1A Ribosomal protein S3AE [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.8e-77 Score=523.33 Aligned_cols=208 Identities=43% Similarity=0.643 Sum_probs=201.4
Q ss_pred cCcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCcEEEEeccCCCCchhhceeEEEEEEee
Q 024879 11 KGKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAED 90 (261)
Q Consensus 11 kgkKg~kkk~~D~f~kK~WY~V~AP~~F~~~~iG~T~v~kt~g~k~~~d~l~GRv~EvsLaDL~~d~~~~~rK~kf~i~~ 90 (261)
+|+||.+| ++|+|+.|.||+|+||++|+..++|+||++ +||.|+||++|+||+|||||++++|+|++|+|++
T Consensus 2 ~~~k~~~k-v~Dkwk~K~Wy~i~AP~~fg~~~vG~t~a~-------dp~~ligR~vEvtl~DLtgd~~~~~~K~~FrI~~ 73 (214)
T COG1890 2 AGKKGQKK-VRDKWKEKKWYTIKAPPYFGGVEVGKTPAN-------DPDKLIGRVVEVTLADLTGDFSKSHRKLKFRIDD 73 (214)
T ss_pred Cccccccc-ccCchhhceeEEEeCchhhCcccccccccc-------ChHHhhCceEEEEHHHhcCCcccceEEEEEEEee
Confidence 35666665 899999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred ecCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHH
Q 024879 91 VQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMRE 170 (261)
Q Consensus 91 V~G~~a~T~F~GmelT~DklrSlVrK~~t~Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~e 170 (261)
|+|++|+|+|+|||||+||+|||||||+|+||+++||+|+|||.||||+++||.+| |++||+++||++|+|
T Consensus 74 v~G~~a~T~F~GheltrDyiRslVRR~~SrIdai~dVkTkDGy~~RV~~~~~T~~r---------a~tSqk~aIRk~M~e 144 (214)
T COG1890 74 VEGDKALTRFKGHELTRDYIRSLVRRRTSRIDAIVDVKTKDGYVLRVKAMAFTRRR---------AKTSQKRAIRKIMFE 144 (214)
T ss_pred ccCcEeeEEEeccchhHHHHHHHHhcccceeeeEEEEEecCCcEEEEEEEEEEehh---------cccchHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999 999999999999999
Q ss_pred HHHHHHhhCCHHHHHHHHhhhhHHHHHHHhccccccccceeEEEEEeeeCCccccchhhhhcCCc
Q 024879 171 IMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFDLGKLMEVHGDY 235 (261)
Q Consensus 171 ii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~~~kl~e~~~~~ 235 (261)
+|.+.+++++|++||++|++|.|+++|+++|++|||||+|||||+|||+.|+.+.....++|+++
T Consensus 145 ii~~~a~e~~f~~fv~~li~g~i~~~I~~~akkIyPLr~veIrK~kvl~~p~~~~~~~~~~~~~~ 209 (214)
T COG1890 145 IIEEKASELTFEEFVQELIPGRIAAEIEEAAKKIYPLRKVEIRKSKVLKEPKEAEPEQAVLHGES 209 (214)
T ss_pred HHHHHhccCCHHHHHHHHhhhhHHHHHHHHhhhcccchheEEEeeeeeccCcccccchhcccccc
Confidence 99999999999999999999999999999999999999999999999999999988888888864
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=85.58 E-value=5.4 Score=36.26 Aligned_cols=91 Identities=18% Similarity=0.163 Sum_probs=63.5
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccc
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSI 204 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~I 204 (261)
.++.|+||..+.|-++++-+=......+-.|--......|+..+...|.+.+...++++++.. -+.|..+|....+..
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 456899999999888876665432222445554555679999999999999999999999954 355666666555554
Q ss_pred ccccceeEEEEEe
Q 024879 205 YPLQNVFIRKVKI 217 (261)
Q Consensus 205 yPl~~V~IrKvKv 217 (261)
.--.-|.|..|.+
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=76.10 E-value=18 Score=28.70 Aligned_cols=91 Identities=12% Similarity=0.191 Sum_probs=56.9
Q ss_pred EEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhh---hhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHH
Q 024879 122 EAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ---ASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGR 195 (261)
Q Consensus 122 ea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~---~SQi~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~k 195 (261)
+..+.+.|+||..+.+-+.+.-+=.+.. .-..|.+ ...-..|+..+...|.+.++..++++++. .-+.+.+..
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 4468899999999998776544332111 1111211 12234689999999999999999999984 344555555
Q ss_pred HHHHhccccccccceeEEEEEe
Q 024879 196 EIEKATLSIYPLQNVFIRKVKI 217 (261)
Q Consensus 196 eI~k~~k~IyPl~~V~IrKvKv 217 (261)
.+...+.. .-+.|.-+.+
T Consensus 90 ~l~~~~~~----~Gi~v~~v~i 107 (124)
T cd03400 90 ELIEEFVG----DGLILEEVLL 107 (124)
T ss_pred HHHHHhcc----CCeEEEEEEE
Confidence 55554443 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=74.18 E-value=32 Score=25.76 Aligned_cols=97 Identities=19% Similarity=0.230 Sum_probs=59.9
Q ss_pred ccceeeEEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhh--hhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--Hhh
Q 024879 115 RKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYA--QASQIRQIRRKMREIMIAQAASCDLKGLVEK--FIA 190 (261)
Q Consensus 115 rK~~t~Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya--~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~--li~ 190 (261)
.+|.+--...+.+.|.||..+++.+...-+=. ... ...|. .......|+..+...+.+.++..++.++... -+.
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 35556666678899999999997665333322 221 11121 1222468999999999999999999999644 233
Q ss_pred hhHHHHHHHhccccccccceeEEEEEe
Q 024879 191 EIIGREIEKATLSIYPLQNVFIRKVKI 217 (261)
Q Consensus 191 ~~i~keI~k~~k~IyPl~~V~IrKvKv 217 (261)
..+..++...+.. |+ ++|..+-+
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 4444444333433 33 66666654
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=73.48 E-value=3.6 Score=30.27 Aligned_cols=18 Identities=33% Similarity=0.405 Sum_probs=13.6
Q ss_pred EEEEeCCCcEEEEEEEEE
Q 024879 125 VDVKTTDNYTLRMFCIGF 142 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~f 142 (261)
..|.|.|||.|-++=|--
T Consensus 15 h~V~T~DGYiL~l~RIp~ 32 (63)
T PF04083_consen 15 HEVTTEDGYILTLHRIPP 32 (63)
T ss_dssp EEEE-TTSEEEEEEEE-S
T ss_pred EEEEeCCCcEEEEEEccC
Confidence 579999999999988643
No 9
>smart00244 PHB prohibitin homologues. prohibitin homologues
Probab=72.16 E-value=45 Score=26.75 Aligned_cols=88 Identities=15% Similarity=0.229 Sum_probs=56.2
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHHHHhc
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREIEKAT 201 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI~k~~ 201 (261)
..+.|+||..+.+-+.+.-+ -.+..+--.......-..|+..+...+.+.++..++.+++.. -+...+..++...+
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 122211111111112257899999999999999999999872 35666666666666
Q ss_pred cccccccceeEEEEEe
Q 024879 202 LSIYPLQNVFIRKVKI 217 (261)
Q Consensus 202 k~IyPl~~V~IrKvKv 217 (261)
+. | -++|..+.|
T Consensus 132 ~~-~---Gi~i~~v~i 143 (160)
T smart00244 132 EA-W---GIEVEDVEI 143 (160)
T ss_pred Hh-C---CCEEEEEEE
Confidence 54 2 456666654
No 10
>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=67.35 E-value=48 Score=29.19 Aligned_cols=87 Identities=16% Similarity=0.115 Sum_probs=56.6
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhh----h-hHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHH
Q 024879 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQAS----Q-IRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGR 195 (261)
Q Consensus 124 ~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~S----Q-i~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~k 195 (261)
...+.|.||..|.+-+...-+=. +. . ..|.+.. . ...|+..+...+.+.++..++++++.. -+...|..
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 35789999999998777543332 21 1 2222211 1 267899999999999999999999843 45555555
Q ss_pred HHHHhccccccccceeEEEEEe
Q 024879 196 EIEKATLSIYPLQNVFIRKVKI 217 (261)
Q Consensus 196 eI~k~~k~IyPl~~V~IrKvKv 217 (261)
++...+.. .-+.|..+.+
T Consensus 128 ~l~~~l~~----~Gi~i~~v~i 145 (242)
T cd03405 128 AVAEEAKE----LGIEVVDVRI 145 (242)
T ss_pred HHHHHHHc----cCcEEEEEEE
Confidence 55555443 2467777665
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=64.07 E-value=47 Score=28.20 Aligned_cols=90 Identities=16% Similarity=0.141 Sum_probs=55.8
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhh---hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhc
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ---ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKAT 201 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~---~SQi~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~ 201 (261)
..+.|+||-.+.+.+...-.-.+..... .|.. .-....|+....+.|.+.++..+++|++.. -+.|..+|.+.+
T Consensus 53 ~~~~t~d~~~V~v~~~v~y~v~~~~~~~-~~~~~~~~~~~~~i~~~v~~~lR~vi~~~~~~ei~~~--R~~i~~~i~~~l 129 (196)
T cd03401 53 STTGSKDLQMVNITLRVLFRPDASQLPR-IYQNLGEDYDERVLPSIINEVLKAVVAQFTAEELITQ--REEVSALIREAL 129 (196)
T ss_pred ecccCCCCeEEEEEEEEEEEeCHHHHHH-HHHHhCcchHhhhhcHHHHHHHHHHHccCCHHHHHhh--HHHHHHHHHHHH
Confidence 4567899999988876443321111111 1221 112345788888899999999999999854 556666666655
Q ss_pred cccccccceeEEEEEe
Q 024879 202 LSIYPLQNVFIRKVKI 217 (261)
Q Consensus 202 k~IyPl~~V~IrKvKv 217 (261)
+.-.--..+.|..+.+
T Consensus 130 ~~~l~~~Gi~i~~v~i 145 (196)
T cd03401 130 TERAKDFGIILDDVSI 145 (196)
T ss_pred HHHHHhCCeEEEEEEE
Confidence 5544334466766654
No 12
>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=63.96 E-value=63 Score=25.74 Aligned_cols=78 Identities=12% Similarity=0.021 Sum_probs=47.2
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcC-ccchhh---h---hhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HhhhhHHH
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQV-KRTCYA---Q---ASQIRQIRRKMREIMIAQAASCDLKGLVEK--FIAEIIGR 195 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~-kkt~Ya---~---~SQi~~IRk~m~eii~~~~~~~~l~e~V~~--li~~~i~k 195 (261)
..+.|+|+-.+.|-+.++-+=..... -...|. . ..=...|+..+...+...+++++++|++.. -+...|..
T Consensus 14 q~v~TkD~~~v~vd~~~~~rV~d~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lR~~ig~~tl~el~~~R~~i~~~i~~ 93 (128)
T cd03399 14 EAVITRDGVRVDVTAVFQVKVGGTEEAIATAAERFLGKSEEEIEELVKEVLEGHLRAVVGTMTVEEIYEDRDKFAEQVQE 93 (128)
T ss_pred cceecCCCcEEEEEEEEEEEeCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHhHHHHHHHHHH
Confidence 45889999999987775554422110 001111 1 112455667778899999999999999965 34444444
Q ss_pred HHHHhcc
Q 024879 196 EIEKATL 202 (261)
Q Consensus 196 eI~k~~k 202 (261)
.+.....
T Consensus 94 ~v~~~~~ 100 (128)
T cd03399 94 VVAPDLN 100 (128)
T ss_pred HHHHHHH
Confidence 4444443
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=62.38 E-value=84 Score=25.57 Aligned_cols=88 Identities=15% Similarity=0.173 Sum_probs=51.6
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCccchhhh-----hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHH
Q 024879 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ-----ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIE 198 (261)
Q Consensus 124 ~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~-----~SQi~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~ 198 (261)
.+.+.|.||..+.+-+. ++-+- ....+ .|.+ .--...||......+.+.++..++.++.+. ...+..++.
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 1111 235578899999999999999999999866 244444444
Q ss_pred HhccccccccceeEEEEE
Q 024879 199 KATLSIYPLQNVFIRKVK 216 (261)
Q Consensus 199 k~~k~IyPl~~V~IrKvK 216 (261)
+..+.-+-=..++|.-+-
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 444443333345666555
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=60.85 E-value=51 Score=29.64 Aligned_cols=91 Identities=10% Similarity=-0.005 Sum_probs=56.5
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHHHHh
Q 024879 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREIEKA 200 (261)
Q Consensus 124 ~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI~k~ 200 (261)
...+-|+||..|.+-+...-+=. ...+-.|.-..--..|+..+...+.+.++..++++++.. -+.+.|...+...
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 44689999999987776544432 222333332333457999999999999999999999854 3444444444444
Q ss_pred ccccccccceeEEEEEee
Q 024879 201 TLSIYPLQNVFIRKVKIL 218 (261)
Q Consensus 201 ~k~IyPl~~V~IrKvKvl 218 (261)
+..- .+ -|.|..|.+.
T Consensus 155 ~~~~-~~-Gi~v~~v~i~ 170 (266)
T cd03404 155 LDAY-KA-GIEIVGVNLQ 170 (266)
T ss_pred hhcc-CC-CeEEEEEEEE
Confidence 3321 11 3566666543
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=60.17 E-value=88 Score=26.93 Aligned_cols=76 Identities=18% Similarity=0.210 Sum_probs=47.9
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HhhhhHHHHHHHhcc
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK--FIAEIIGREIEKATL 202 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~--li~~~i~keI~k~~k 202 (261)
.++.|+||..|.+.+...-+= .+.. +-.|.-..--..|+......|.+.++..++++++.. -+...|...+...+.
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-VDPV-KAVYGVEDYRYAISQLAQTTLRSVIGKMELDELLSEREEINAELVEILDEATD 126 (215)
T ss_pred ceeEcCCCCEEEEEEEEEEEE-ecHH-HHHhcCCCHHHHHHHHHHHHHHHHHccccHHHHHhhHHHHHHHHHHHHHHHHh
Confidence 467899999999887654332 1211 111111222347888899999999999999999865 244444444444444
No 16
>KOG2620 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=57.18 E-value=67 Score=30.63 Aligned_cols=95 Identities=16% Similarity=0.185 Sum_probs=71.0
Q ss_pred EEEEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HhhhhHHHHHH
Q 024879 121 IEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK--FIAEIIGREIE 198 (261)
Q Consensus 121 Iea~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~--li~~~i~keI~ 198 (261)
.+.....+|+|+..|+|-++..-+--.....--+|-=..=.-+|-.-..++|..++..++|+.+.+. -+..+|-.+|.
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 4455678999999999998877665443323377888888899999999999999999999998744 67888888888
Q ss_pred Hhcccc-ccccceeEEEE
Q 024879 199 KATLSI-YPLQNVFIRKV 215 (261)
Q Consensus 199 k~~k~I-yPl~~V~IrKv 215 (261)
++.... |-+-+.+||-+
T Consensus 136 kA~~~wG~~clr~eIrDI 153 (301)
T KOG2620|consen 136 KAMEAWGYECLRYEIRDI 153 (301)
T ss_pred HHHHHhHHHHHHHhhhhc
Confidence 866542 33344455543
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=52.65 E-value=1.1e+02 Score=27.27 Aligned_cols=87 Identities=8% Similarity=0.158 Sum_probs=60.1
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---------HHhhhhHHH
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVE---------KFIAEIIGR 195 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~---------~li~~~i~k 195 (261)
..+.|+||..+.|-++++-+=. ...+-.|.-..-...|+......|.+.+...++++++. .-|...|..
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 LKVNDANGNPIEIAAVIVWRVV--DTAKAVFNVDDYEEFVHIQSESALRHVASQYPYDDPVNKETSLRGNSDEVSDELAR 129 (219)
T ss_pred ceeEcCCCCEEEEEEEEEEEEc--CHHHHHHHcCCHHHHHHHHHHHHHHHHHccCcHHHHhccccccccCHHHHHHHHHH
Confidence 4589999999998887655432 22344554444567899999999999999999999985 344455555
Q ss_pred HHHHhccccccccceeEEEEEe
Q 024879 196 EIEKATLSIYPLQNVFIRKVKI 217 (261)
Q Consensus 196 eI~k~~k~IyPl~~V~IrKvKv 217 (261)
++...+. ..-|+|..+.+
T Consensus 130 ~l~~~l~----~~GI~V~~v~I 147 (219)
T cd03402 130 ELQERLA----VAGVEVVEARI 147 (219)
T ss_pred HHHHHHH----hhCcEEEEEEE
Confidence 5555443 34466666654
No 18
>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=52.35 E-value=1e+02 Score=23.30 Aligned_cols=83 Identities=14% Similarity=0.104 Sum_probs=48.7
Q ss_pred EEEEEeCCC---cEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHh
Q 024879 124 YVDVKTTDN---YTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKA 200 (261)
Q Consensus 124 ~vdVkT~DG---y~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~ 200 (261)
.+.|...|| ..|++-...-+... .....+..-.-.+.+.+...+++.+.+++-..--...|..+|..+
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 455666676 44554433333222 113344444456667777777788888887655556666677776
Q ss_pred cccccc---ccceeEEEE
Q 024879 201 TLSIYP---LQNVFIRKV 215 (261)
Q Consensus 201 ~k~IyP---l~~V~IrKv 215 (261)
.+++++ +.+|++.+.
T Consensus 79 in~~l~~~~V~~V~ft~f 96 (99)
T PF03748_consen 79 INKILGKGKVKDVYFTDF 96 (99)
T ss_pred HHHhhccCcEEEEEEEEE
Confidence 666653 566666653
No 19
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=49.41 E-value=78 Score=31.46 Aligned_cols=79 Identities=13% Similarity=0.096 Sum_probs=57.7
Q ss_pred EEEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHHHHHH
Q 024879 123 AYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGREIEK 199 (261)
Q Consensus 123 a~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~keI~k 199 (261)
....+.|.|+..|.|-..++-+=. ...+-.|.-..-...|+..+...|.+.+...+|++++. ..|...+..+|.+
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 345689999999998887765542 12233344344567899999999999999999999984 3667777777776
Q ss_pred hccc
Q 024879 200 ATLS 203 (261)
Q Consensus 200 ~~k~ 203 (261)
....
T Consensus 223 ~l~~ 226 (419)
T PRK10930 223 TIRP 226 (419)
T ss_pred HHhh
Confidence 6654
No 20
>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=47.73 E-value=1.3e+02 Score=23.15 Aligned_cols=60 Identities=15% Similarity=0.178 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccc-ccccceeEEEEEeeeCCc
Q 024879 163 QIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSI-YPLQNVFIRKVKILKAPK 222 (261)
Q Consensus 163 ~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~I-yPl~~V~IrKvKvlk~Pk 222 (261)
+++.+|.++|.+.+....++.---.-....|..+|..+.+.. ||-+-=+|--+-++.+..
T Consensus 2 ~v~~ii~~~l~~~l~~~~Y~~~~~~~~~~~I~~~i~~~lk~~~~~~ryK~iv~~~I~q~~~ 62 (101)
T PF03645_consen 2 EVKEIIEEVLEEKLEDQKYDPEKAQQWSKEISDEILERLKKLGYSKRYKFIVQVTIGQKNG 62 (101)
T ss_dssp HHHHHHHHHHHHHHCTS---HHHHHHHHHHHHHHHHHHHHCC--T-SCEEEEEEEEEETTT
T ss_pred HHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEecCC
Confidence 689999999999999999988777778889999999999999 534444555666666544
No 21
>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=42.72 E-value=99 Score=26.84 Aligned_cols=59 Identities=22% Similarity=0.383 Sum_probs=40.3
Q ss_pred ccCCCCcEEEEeccCCCCchhhceeEEEEEEeeecCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCCC-cEEE
Q 024879 58 SEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDN-YTLR 136 (261)
Q Consensus 58 ~d~l~GRv~EvsLaDL~~d~~~~~rK~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~t~Iea~vdVkT~DG-y~lR 136 (261)
...+++|.+-+|..|.|+| ++==.|.+...|+| .-+-.+=|..-.=+..+| |.|.
T Consensus 19 ~~P~~pR~YTLTHsD~T~~--------------------L~L~Ig~~~~~d~l----~~~~~RDEVlaEW~~~~~~~~L~ 74 (151)
T PF12638_consen 19 THPIIPRRYTLTHSDFTGE--------------------LFLTIGNEFNYDQL----YNRLMRDEVLAEWKKVNGQYSLH 74 (151)
T ss_pred CCCCCCceEEeecCCccCc--------------------eEEEeeHHhhHHHh----hccchhceEEEEEEEcCCEEEEE
Confidence 3456999999999999999 55556788888888 222223444444455555 7788
Q ss_pred EEEE
Q 024879 137 MFCI 140 (261)
Q Consensus 137 vf~i 140 (261)
|+|-
T Consensus 75 v~~~ 78 (151)
T PF12638_consen 75 VYCY 78 (151)
T ss_pred EEEE
Confidence 8774
No 22
>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=41.37 E-value=1.7e+02 Score=26.28 Aligned_cols=76 Identities=7% Similarity=0.004 Sum_probs=49.7
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHhhhhHHHHHHHhc
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGREIEKAT 201 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~keI~k~~ 201 (261)
..+.|+||..|.|-+...-+=. +. .+-.|.-..-...|+..+...|.+.+...++++++. .-+...|..++....
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-DP-YKYLFSVENPEDSLRQATDSALRGVIGDSTMDDILTEGRSQIREDTKERLNEII 128 (261)
T ss_pred CeEEeCCCCEEEEEEEEEEEEC-CH-HHHHHhCCCHHHHHHHHHHHHHHHHHhhCcHHHHHHhCHHHHHHHHHHHHHHHH
Confidence 4577999999888765444332 11 222233233346799999999999999999999986 245555555555544
Q ss_pred c
Q 024879 202 L 202 (261)
Q Consensus 202 k 202 (261)
.
T Consensus 129 ~ 129 (261)
T TIGR01933 129 D 129 (261)
T ss_pred h
Confidence 4
No 23
>COG0330 HflC Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]
Probab=34.07 E-value=2.5e+02 Score=25.45 Aligned_cols=90 Identities=14% Similarity=0.155 Sum_probs=63.7
Q ss_pred EEEEEeCCCcEEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHHHHh
Q 024879 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREIEKA 200 (261)
Q Consensus 124 ~vdVkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI~k~ 200 (261)
...+-|.|+-.+.|-++.+-+=... .+..|.-..-...|+......+...+...++++++.. -+...+.+.+...
T Consensus 76 ~q~viT~D~~~V~vd~~v~~rv~d~--~~~~~~v~~~~~~l~~~~~~~lR~vig~~~~~e~~~~~~~~i~~~i~~~l~~~ 153 (291)
T COG0330 76 PQEVITKDNVIVSVDAVVQYRVTDP--QKAVYNVENAEAALRQLVQSALRSVIGRMTLDELLTERRAEINAKIREILDEA 153 (291)
T ss_pred cceEEecCCCEEEEEEEEEEEEcCH--HHHHHhcCCHHHHHHHHHHHHHHHHHccccHHHHhhCchHHHHHHHHHHHHHh
Confidence 3567789999888777655444322 2555555557788999999999999999999999843 6777777777777
Q ss_pred cccc-ccccceeEEEE
Q 024879 201 TLSI-YPLQNVFIRKV 215 (261)
Q Consensus 201 ~k~I-yPl~~V~IrKv 215 (261)
.... +=+-+|+|+.+
T Consensus 154 ~~~~Gi~V~~V~i~~i 169 (291)
T COG0330 154 ADPWGIKVVDVEIKDI 169 (291)
T ss_pred hhhcCcEEEEEEEeec
Confidence 7762 33445555553
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=31.25 E-value=45 Score=24.32 Aligned_cols=29 Identities=31% Similarity=0.516 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHhhCCHHHHHHHHh
Q 024879 161 IRQIRRKMREIMIAQAASCDLKGLVEKFI 189 (261)
Q Consensus 161 i~~IRk~m~eii~~~~~~~~l~e~V~~li 189 (261)
++.+++++.+++.......++++++.+|-
T Consensus 1 ik~~~~kik~~~~~~~~~~~~~~~i~~LN 29 (80)
T PF08388_consen 1 IKRFRRKIKEITRRRNRGKSLEELIKKLN 29 (80)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence 46788899998877778899999998773
No 25
>PRK06654 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=28.60 E-value=4.3e+02 Score=23.60 Aligned_cols=53 Identities=15% Similarity=0.218 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhcccccc---ccceeEEEEEee
Q 024879 163 QIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYP---LQNVFIRKVKIL 218 (261)
Q Consensus 163 ~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyP---l~~V~IrKvKvl 218 (261)
+=.-.+.++|...+++.+.+||- -...|..||..+.+.|-. +++|++...-++
T Consensus 124 ~r~pqIRD~Ii~~LssKt~~eL~---Gk~~LKeEI~~rIN~iL~~GkV~~VYFTeFv~~ 179 (181)
T PRK06654 124 RRKVRLKDIIREYFSQKTGQELK---NESQIKAEIKARINSILRNGEIKDIAFTQIDIF 179 (181)
T ss_pred hccHHHHHHHHHHHHhCCHHHHc---CHHHHHHHHHHHHHHhcCCCceEEEEEEEEEee
Confidence 33445667777788899999996 446777777777776654 566666554443
No 26
>TIGR02413 Bac_small_yrzI Bacillus tandem small hypothetical proetin. Members of this family are very small proteins, about 47 residues each, in the genus Bacillus. Single members are found in Bacillus subtilis and Bacillus halodurans, but arrays of six in tandem in Bacillus cereus and Bacillus anthracis. An EIxxE motif present in most members of this family resembles cleavage sites by the germination protease GPR in a number small, acid-soluble spore proteins (SASP). A role in sporulation is possible.
Probab=26.78 E-value=2.3e+02 Score=19.90 Aligned_cols=39 Identities=23% Similarity=0.305 Sum_probs=23.4
Q ss_pred EEEEEEEEEeeccCCcCccchhhhhhhhHHHHHHHHHHHHHHH
Q 024879 134 TLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQA 176 (261)
Q Consensus 134 ~lRvf~i~fT~kr~~q~kkt~Ya~~SQi~~IRk~m~eii~~~~ 176 (261)
.++||.+.+|..+. +-|=+.--|..+|.+.|.|+....+
T Consensus 2 tf~~fFlTITIqKr----~~S~~Ei~~eqq~k~~~deik~rq~ 40 (46)
T TIGR02413 2 TFNLFFLTITIQKR----KLSEAEIEREQQIEKIMDEVKERQS 40 (46)
T ss_pred EEEEEEEEEEEEec----cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 47889998888763 2222344455566666666555543
No 27
>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []. SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.
Probab=24.30 E-value=1.4e+02 Score=22.50 Aligned_cols=50 Identities=20% Similarity=0.298 Sum_probs=39.5
Q ss_pred eEEEEEEeeecCCeeeEeeecccccchhhhhhhccceeeEEEEEEEEeCC
Q 024879 82 RKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTD 131 (261)
Q Consensus 82 rK~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~t~Iea~vdVkT~D 131 (261)
.++.++++.-.|+...|.-.|+++....+..+.+.++.+.-|..-|...+
T Consensus 5 ~~I~I~~e~r~~~K~vT~V~gl~~~~~d~~~lak~lkk~~ac~~sv~~~~ 54 (83)
T PF01253_consen 5 PKIHIRVEKRRGRKFVTIVSGLELFGIDLKELAKELKKKFACGGSVTKDP 54 (83)
T ss_dssp TCEEEEEEESSSSEEEEEEES--STTSHHHHHHHHHHHHHTS-EEEEE-T
T ss_pred CEEEEEEEeCcCCeEEEEEECCcccccCHHHHHHHHHHhccCceEEeecC
Confidence 35667777788999999999999999999999999999988887776643
No 28
>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=23.60 E-value=3.1e+02 Score=25.77 Aligned_cols=89 Identities=13% Similarity=0.037 Sum_probs=50.9
Q ss_pred EEEEeCCCcEEEEEEEEEeeccCCcC--ccc--hhhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HhhhhHHHHH
Q 024879 125 VDVKTTDNYTLRMFCIGFTKRLPNQV--KRT--CYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREI 197 (261)
Q Consensus 125 vdVkT~DGy~lRvf~i~fT~kr~~q~--kkt--~Ya~~SQi~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI 197 (261)
+.+-|+||-.|-+-.+.+... .+.. -.+ .|.-..-...|+..+...+.+.++..++++++.. -+...+..++
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 456788996664433323221 1111 111 1321223455777778888888888899999863 5666666667
Q ss_pred HHhccccccccceeEEEEE
Q 024879 198 EKATLSIYPLQNVFIRKVK 216 (261)
Q Consensus 198 ~k~~k~IyPl~~V~IrKvK 216 (261)
.+.+.. |++ -++|..|-
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 29
>KOG4108 consensus Dynein light chain [Cell motility]
Probab=22.09 E-value=3.2e+02 Score=24.36 Aligned_cols=61 Identities=8% Similarity=0.102 Sum_probs=49.6
Q ss_pred hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHhhhhHHHHHHHhccccccccceeEEEEEee
Q 024879 158 ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKIL 218 (261)
Q Consensus 158 ~SQi~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvl 218 (261)
.=+...++.+|.++|++.+....++.=.-.-+...|+.+|..+.+..=+-|-=+|-.|-+.
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 4567889999999999999998888777777888999999998888776666666666543
No 30
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=21.95 E-value=1.6e+02 Score=22.57 Aligned_cols=40 Identities=18% Similarity=0.370 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHH-HHhhCCHHHHHHHH-------hhhhHHHHHHHhc
Q 024879 162 RQIRRKMREIMIA-QAASCDLKGLVEKF-------IAEIIGREIEKAT 201 (261)
Q Consensus 162 ~~IRk~m~eii~~-~~~~~~l~e~V~~l-------i~~~i~keI~k~~ 201 (261)
..||....++|.+ -..+.++++++..+ +|+++-.++....
T Consensus 34 d~vr~~~re~i~~~g~~~~~~~~l~~~i~P~Ar~~VP~~vk~ell~~I 81 (86)
T PF10163_consen 34 DEVRQLCREIIRERGIDNLTFEDLLEEITPKARAMVPDEVKKELLQRI 81 (86)
T ss_dssp HHHHHHHHHHHHHH-TTTSBHHHHHHHHHHHHHHCS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHH
Confidence 3456666666666 45678899998777 4666666666543
No 31
>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=20.39 E-value=1.5e+02 Score=22.70 Aligned_cols=26 Identities=27% Similarity=0.368 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhhCCHHHHHHHHh
Q 024879 164 IRRKMREIMIAQAASCDLKGLVEKFI 189 (261)
Q Consensus 164 IRk~m~eii~~~~~~~~l~e~V~~li 189 (261)
+|+++..+|.+.....|.+|++..+-
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 58889999999999999999987763
Done!