Query 025947
Match_columns 245
No_of_seqs 109 out of 317
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 11:21:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025947.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025947hhsearch_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 1.3E-87 2.8E-92 593.5 12.9 233 2-236 1-233 (249)
2 PF01015 Ribosomal_S3Ae: Ribos 100.0 3.7E-82 8E-87 550.4 20.6 194 12-222 1-194 (194)
3 PRK04057 30S ribosomal protein 100.0 3.3E-79 7.2E-84 534.8 21.0 192 19-226 1-192 (203)
4 COG1890 RPS1A Ribosomal protei 100.0 4.2E-77 9.2E-82 520.1 18.3 208 11-235 2-209 (214)
5 cd03407 Band_7_4 A subgroup of 84.7 6 0.00013 35.6 8.5 91 125-217 46-136 (262)
6 PF04083 Abhydro_lipase: Parti 75.8 2.9 6.3E-05 30.4 2.8 18 125-142 15-32 (63)
7 cd03400 Band_7_1 A subgroup of 74.7 19 0.00042 28.2 7.5 91 122-217 11-107 (124)
8 cd02106 Band_7 The band 7 doma 72.5 32 0.00068 25.5 7.9 99 115-217 4-104 (121)
9 smart00244 PHB prohibitin homo 71.5 38 0.00082 26.9 8.6 89 125-218 53-144 (160)
10 cd03405 Band_7_HflC Band_7_Hfl 63.0 59 0.0013 28.3 8.8 87 124-217 51-145 (242)
11 cd03404 Band_7_HflK Band_7_Hfl 60.7 55 0.0012 29.1 8.3 92 124-218 77-170 (266)
12 cd03399 Band_7_flotillin Band_ 60.2 71 0.0015 25.2 8.1 75 125-202 14-96 (128)
13 cd03401 Band_7_prohibitin Band 60.1 66 0.0014 27.0 8.3 90 125-217 53-145 (196)
14 PF03645 Tctex-1: Tctex-1 fami 58.1 29 0.00062 26.5 5.3 60 163-222 2-62 (101)
15 PF01145 Band_7: SPFH domain / 57.5 1E+02 0.0022 24.9 11.9 89 124-217 51-144 (179)
16 cd03403 Band_7_stomatin_like B 56.4 94 0.002 26.5 8.8 88 125-216 49-136 (215)
17 cd03402 Band_7_2 A subgroup of 54.7 94 0.002 27.5 8.7 91 125-217 52-147 (219)
18 KOG2620 Prohibitins and stomat 54.4 73 0.0016 30.1 8.0 94 121-214 56-152 (301)
19 PF03748 FliL: Flagellar basal 52.5 96 0.0021 23.1 8.4 83 124-215 8-96 (99)
20 PRK10930 FtsH protease regulat 50.9 75 0.0016 31.3 8.0 79 123-203 145-226 (419)
21 TIGR01933 hflK HflK protein. H 45.9 1.5E+02 0.0033 26.2 8.7 76 125-202 51-129 (261)
22 PF12638 Staygreen: Staygreen 41.0 1.1E+02 0.0024 26.2 6.6 59 58-140 19-78 (151)
23 PF08388 GIIM: Group II intron 33.1 38 0.00083 24.4 2.3 29 161-189 1-29 (80)
24 TIGR02413 Bac_small_yrzI Bacil 32.3 1.7E+02 0.0038 20.3 5.6 39 134-176 2-40 (46)
25 COG0330 HflC Membrane protease 27.1 3.5E+02 0.0076 24.3 8.0 90 124-215 76-169 (291)
26 PRK06654 fliL flagellar basal 24.1 5E+02 0.011 22.9 8.4 50 165-217 126-178 (181)
27 PF10163 EnY2: Transcription f 23.6 1.3E+02 0.0028 22.8 3.8 40 162-201 34-81 (86)
28 PF02847 MA3: MA3 domain; Int 23.0 1.3E+02 0.0028 22.9 3.8 25 164-188 1-25 (113)
29 COG5216 Uncharacterized conser 22.2 38 0.00083 25.0 0.6 17 62-78 27-43 (67)
30 KOG4108 Dynein light chain [Ce 21.4 2.7E+02 0.0059 24.5 5.8 62 157-218 69-130 (174)
31 PF01253 SUI1: Translation ini 21.2 1.7E+02 0.0036 21.9 4.0 50 82-131 5-54 (83)
32 PF08348 PAS_6: YheO-like PAS 20.2 1.9E+02 0.0042 23.3 4.4 71 60-140 14-87 (118)
33 PF09501 Bac_small_YrzI: Proba 20.2 3.1E+02 0.0066 19.0 5.6 38 134-175 2-39 (46)
No 1
>KOG1628 consensus 40S ribosomal protein S3A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-87 Score=593.54 Aligned_cols=233 Identities=68% Similarity=1.019 Sum_probs=229.5
Q ss_pred ccCCCccccCCcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCeEEEEeccCCCCchhhce
Q 025947 2 AVGKNKRISKGKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAY 81 (245)
Q Consensus 2 ~~gk~k~~~kgkkg~kkk~~D~~~kK~WY~V~AP~~F~~~~iG~T~v~rt~g~k~~~~~l~GRv~EvsLaDL~~d~~~~~ 81 (245)
|+|||+++++||+|+++|++|||++|+||+++||.+|+.+++|+|+++||+|+++++++ +||+|||+||||+| ++.++
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-KGRVVEVSLADLQN-EEVAF 78 (249)
T ss_pred CCccccccccCccCCCCCCCCCcccccccccCCcccccCCChhheeccccccccccccC-CCceeeechhhccc-hhhhh
Confidence 79999999988999999999999999999999999999999999999999999999999 99999999999994 48999
Q ss_pred eEEEEEEeeeCCCeeeeeeecccccchhhhhhccceeeeEEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhh
Q 025947 82 RKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQI 161 (245)
Q Consensus 82 ~K~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~ 161 (245)
|||+|++++|+|+||+|+||||+||+|++|||++||||+|||+++|+|.|||+|||||++||++++||.++||||++||+
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 HHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccccccccEEEEEEEeeecCccchhhhhhcCCcce
Q 025947 162 RQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFDLGKLMEVCPVFL 236 (245)
Q Consensus 162 ~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~~~kl~e~~~~~~ 236 (245)
++||++|+|||+++++++||+|+|++||||+|+++||++|++|||||+|+|||||+|+.|+|||||||||||||-
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 999999999999999999999999999999999999999999999999999999999999999999999999873
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=3.7e-82 Score=550.36 Aligned_cols=194 Identities=62% Similarity=0.955 Sum_probs=166.3
Q ss_pred CcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCeEEEEeccCCCCchhhceeEEEEEEeee
Q 025947 12 GKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDV 91 (245)
Q Consensus 12 gkkg~kkk~~D~~~kK~WY~V~AP~~F~~~~iG~T~v~rt~g~k~~~~~l~GRv~EvsLaDL~~d~~~~~~K~kf~i~~V 91 (245)
||||+ +|++|+|++|+||+|+||++|+.++||+|||+ .||+|+|||||+|||||+||++++|+||+|+|++|
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 88999999999999999999999999999999 58999999999999999999999999999999999
Q ss_pred CCCeeeeeeecccccchhhhhhccceeeeEEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHH
Q 025947 92 QGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREI 171 (245)
Q Consensus 92 ~G~~a~T~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~ei 171 (245)
+|++|+|+|||||||+||||||||||||+||+++||+|+|||+|||||+|||.++ |++||+++||++|.++
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 9999999999999999999999999999999999999999999999999999998 9999999999999999
Q ss_pred HHHHHhhCCHHHHHHHHccchHHHHHHHhcccccccccEEEEEEEeeecCc
Q 025947 172 MIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPK 222 (245)
Q Consensus 172 i~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk 222 (245)
|++++++++|+|||+++++|+|++||+++|++|||||+|||||||||+.|+
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=3.3e-79 Score=534.81 Aligned_cols=192 Identities=34% Similarity=0.533 Sum_probs=187.8
Q ss_pred cccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCeEEEEeccCCCCchhhceeEEEEEEeeeCCCeeee
Q 025947 19 KAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDVQGKNVLT 98 (245)
Q Consensus 19 k~~D~~~kK~WY~V~AP~~F~~~~iG~T~v~rt~g~k~~~~~l~GRv~EvsLaDL~~d~~~~~~K~kf~i~~V~G~~a~T 98 (245)
+++|+|++|+||+|+||++|+.+++|+||++ +||+|+|||+|+||+||+||++++|+||+|+|++|+|++|+|
T Consensus 1 ~~~D~w~~K~WY~V~AP~~F~~~~iG~T~a~-------~~~~l~GRv~EvsL~DL~~d~~~~~~K~~f~i~~V~G~~a~T 73 (203)
T PRK04057 1 RVKDKWKEKKWYTVYAPEFFGGVEIGETPAD-------DPEKLIGRVVETTLGDLTGDFSKQNVKLYFKIDNVEGDKAYT 73 (203)
T ss_pred CCCCcccccceEEEECCcccCCceEEEEEcc-------ChhhcCCcEEEEEHHHhcCChhhceEEEEEEEEeeeCCEEEE
Confidence 3689999999999999999999999999997 999999999999999999999999999999999999999999
Q ss_pred eeecccccchhhhhhccceeeeEEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhh
Q 025947 99 NFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAAS 178 (245)
Q Consensus 99 ~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~ 178 (245)
+|||||||+||||||||||||+||+++||+|+|||.|||||+|||.++ |++||+++||++|.|+|.+++++
T Consensus 74 ~F~G~~lTrD~lrSlVrk~~S~Ie~~vdvkTkDGy~lRv~~i~~T~~r---------a~~sq~~~IRk~m~~~i~~~~~~ 144 (203)
T PRK04057 74 RFIGHELTRDYLRSLVRRRTSKIDAIVDVTTKDGYKVRVKPVALTTKR---------ARTSQKHAIRKIMEEIIEEKASE 144 (203)
T ss_pred EEeeeEecHHHHHhHhccCceeEEEEEEEEcCCCCEEEEEEEEEEchh---------hhhhHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999998 99999999999999999999999
Q ss_pred CCHHHHHHHHccchHHHHHHHhcccccccccEEEEEEEeeecCccchh
Q 025947 179 CDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFDLG 226 (245)
Q Consensus 179 ~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~~~ 226 (245)
++|+|||+++++|+|++||+++|++|||||+|+|||+|||+.|+....
T Consensus 145 ~~~~e~V~~~i~g~i~~eI~~~~k~IyPlr~veIrKvkvl~~p~~~~~ 192 (203)
T PRK04057 145 LTFEEFVQEIVFGKLASEIYKEAKKIYPLRRVEIRKSKVLARPEEVEA 192 (203)
T ss_pred CCHHHHHHHHccchHHHHHHHhhhhccCcceEEEEEEEEEecCccccc
Confidence 999999999999999999999999999999999999999999997543
No 4
>COG1890 RPS1A Ribosomal protein S3AE [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.2e-77 Score=520.05 Aligned_cols=208 Identities=42% Similarity=0.609 Sum_probs=202.5
Q ss_pred CCcCCCcccccCCCCCcceEEEeCCCCCCcceeeeeeeecccCcccCccCCCCeEEEEeccCCCCchhhceeEEEEEEee
Q 025947 11 KGKKGGKKKAADPFAKKDWYDIKAPSCFRVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAED 90 (245)
Q Consensus 11 kgkkg~kkk~~D~~~kK~WY~V~AP~~F~~~~iG~T~v~rt~g~k~~~~~l~GRv~EvsLaDL~~d~~~~~~K~kf~i~~ 90 (245)
+|+||.+| ++|+|+.|.||+|+||++|+..++|+||++ +|+.|+||++|+||+|||||++++|+|++|+|++
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 8999999999999999999999999999999999
Q ss_pred eCCCeeeeeeecccccchhhhhhccceeeeEEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHH
Q 025947 91 VQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMRE 170 (245)
Q Consensus 91 V~G~~a~T~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~e 170 (245)
|+|++|+|.|+|||||+||+|||||||+|+||+++||+|+|||.+|||++|||.+| |++||+++||++|.|
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 HHHHHHhhCCHHHHHHHHccchHHHHHHHhcccccccccEEEEEEEeeecCccchhhhhhcCCcc
Q 025947 171 IMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKILKAPKFDLGKLMEVCPVF 235 (245)
Q Consensus 171 ii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvlk~Pk~~~~kl~e~~~~~ 235 (245)
+|.+.+++++++|||++|++|.|+++|+++|++|||||+|||||+|||+.|+.+-....+.|+++
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 99999999999999999999999999999999999999999999999999999988999999876
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=84.74 E-value=6 Score=35.60 Aligned_cols=91 Identities=18% Similarity=0.163 Sum_probs=64.2
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccc
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSI 204 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~I 204 (245)
.++.|+||..+.|-++++-+=......+-.|--......|+..+...|.+.+.+.+++|++.. -+.|+.+|....++.
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 456899999999888776654322212444554555679999999999999999999999964 356666666666665
Q ss_pred cccccEEEEEEEe
Q 025947 205 YPLQNVFIRKVKI 217 (245)
Q Consensus 205 yPl~~V~IrKvKv 217 (245)
.--.-|.|..|.+
T Consensus 124 l~~~GI~V~~v~I 136 (262)
T cd03407 124 MSRYGFEIVATLI 136 (262)
T ss_pred HHhcCcEEEEEEE
Confidence 4444667776654
No 6
>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=75.78 E-value=2.9 Score=30.39 Aligned_cols=18 Identities=33% Similarity=0.405 Sum_probs=13.4
Q ss_pred EEEEeCCCcEEEEEEEEE
Q 025947 125 VDVKTTDNYTLRMFCIGF 142 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~f 142 (245)
..|.|.|||.|-++=|--
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 579999999999887543
No 7
>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=74.73 E-value=19 Score=28.24 Aligned_cols=91 Identities=12% Similarity=0.191 Sum_probs=56.6
Q ss_pred EEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhh---hhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHccchHHH
Q 025947 122 EAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ---ASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGR 195 (245)
Q Consensus 122 e~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~---~sQ~~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~k 195 (245)
+..+.+.|+||..+.+-+.+.-+=.+.. .-..|.+ ...-..|+..+...|.+.++..+++|++. .-+.+.+..
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 4468899999999998766543322111 1111211 12335688899999999999999999984 344444444
Q ss_pred HHHHhcccccccccEEEEEEEe
Q 025947 196 EIEKATLSIYPLQNVFIRKVKI 217 (245)
Q Consensus 196 eI~k~~k~IyPl~~V~IrKvKv 217 (245)
.+...+.. .-+.|.-+.+
T Consensus 90 ~l~~~~~~----~Gi~v~~v~i 107 (124)
T cd03400 90 ELIEEFVG----DGLILEEVLL 107 (124)
T ss_pred HHHHHhcc----CCeEEEEEEE
Confidence 44444433 4566666644
No 8
>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=72.45 E-value=32 Score=25.54 Aligned_cols=99 Identities=18% Similarity=0.187 Sum_probs=59.6
Q ss_pred cceeeeEEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhh--hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccch
Q 025947 115 RKWHTLIEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ--ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEI 192 (245)
Q Consensus 115 rK~~s~Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~--~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~ 192 (245)
.+|.+--...+.+.|.||..+++.+...-+= .... ...|.. ......|+..+.+.+.+.++..++.++... .+.
T Consensus 4 ~~~~~~~~~~~~~~t~d~~~i~~~~~~~~~v-~~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--r~~ 79 (121)
T cd02106 4 LRRQTLDVPPQEVLTKDNVPVRVDAVVQYRV-VDPV-KALYNVRDPEDEEALRQLAQSALRSVIGKMTLDELLED--RDE 79 (121)
T ss_pred ceeEEecCCCceEEecCCCEEEEEEEEEEEE-eCHH-HHHHhcCCccHHHHHHHHHHHHHHHHHccccHHHHHhh--HHH
Confidence 3555666667889999999999766533322 2221 122221 222468999999999999999999999644 234
Q ss_pred HHHHHHHhcccccccccEEEEEEEe
Q 025947 193 IGREIEKATLSIYPLQNVFIRKVKI 217 (245)
Q Consensus 193 i~keI~k~~k~IyPl~~V~IrKvKv 217 (245)
|.+++..+...-.-=.-++|..+-+
T Consensus 80 i~~~v~~~l~~~~~~~Gi~i~~v~i 104 (121)
T cd02106 80 IAAEVREALQEDLDKYGIEVVDVRI 104 (121)
T ss_pred HHHHHHHHHHHHHHhcCCEEEEEEE
Confidence 4444443322222112367777655
No 9
>smart00244 PHB prohibitin homologues. prohibitin homologues
Probab=71.50 E-value=38 Score=26.90 Aligned_cols=89 Identities=15% Similarity=0.193 Sum_probs=56.0
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HccchHHHHHHHhc
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREIEKAT 201 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI~k~~ 201 (245)
.++.|+||..+.+-+.+.=+ -.+..+--.......-..|+..+.+.+.+.++..++.|++.. -+...+..++.+.+
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 46799999999887765443 122211111111112257899999999999999999999862 35555555665555
Q ss_pred ccccccccEEEEEEEee
Q 025947 202 LSIYPLQNVFIRKVKIL 218 (245)
Q Consensus 202 k~IyPl~~V~IrKvKvl 218 (245)
+. .-++|..+.+-
T Consensus 132 ~~----~Gi~i~~v~i~ 144 (160)
T smart00244 132 EA----WGIEVEDVEIK 144 (160)
T ss_pred Hh----CCCEEEEEEEE
Confidence 54 24666666643
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=63.01 E-value=59 Score=28.34 Aligned_cols=87 Identities=16% Similarity=0.127 Sum_probs=55.9
Q ss_pred EEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhh---h--hHHHHHHHHHHHHHHHhhCCHHHHHHH---HccchHHH
Q 025947 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQAS---Q--IRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGR 195 (245)
Q Consensus 124 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~s---Q--~~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~k 195 (245)
..++.|+||..+.+-+...-+= .+. . ..|.+.. + ...|+..+...+.+.++..+++|++.. -+...+..
T Consensus 51 ~~~v~T~D~~~v~v~~~v~yrI-~d~-~-~~~~~~~~~~~~~~~~i~~~~~~~lr~vi~~~~~~el~~~~R~~i~~~i~~ 127 (242)
T cd03405 51 PQRVLTKDKKRLIVDAYAKWRI-TDP-L-RFYQAVGGEERAAETRLDQIVNSALRAEFGKRTLIELVSGERGELMEEIRR 127 (242)
T ss_pred cceEEccCCcEEEEEEEEEEEE-cCH-H-HHHHHhcChHHHHHHHHHHHHHHHHHHHHccCCHHHHHHhHHHHHHHHHHH
Confidence 3578999999999877754332 221 1 2222211 1 267899999999999999999999844 34455555
Q ss_pred HHHHhcccccccccEEEEEEEe
Q 025947 196 EIEKATLSIYPLQNVFIRKVKI 217 (245)
Q Consensus 196 eI~k~~k~IyPl~~V~IrKvKv 217 (245)
++...+.. .-++|..+.+
T Consensus 128 ~l~~~l~~----~Gi~i~~v~i 145 (242)
T cd03405 128 AVAEEAKE----LGIEVVDVRI 145 (242)
T ss_pred HHHHHHHc----cCcEEEEEEE
Confidence 55444433 3567777765
No 11
>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=60.69 E-value=55 Score=29.14 Aligned_cols=92 Identities=11% Similarity=0.028 Sum_probs=56.5
Q ss_pred EEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhccc
Q 025947 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLS 203 (245)
Q Consensus 124 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~ 203 (245)
...+-|+||..+.+-+...-+=. ...+-.|.-..-...|+..+...+.+.++..+++|++..- -+.|..+|....+.
T Consensus 77 ~~~v~T~D~~~v~vd~~v~yrI~--d~~~~~~~~~~~~~~l~~~~~~~lr~~i~~~~~~eil~~~-R~~i~~~i~~~l~~ 153 (266)
T cd03404 77 ESLMLTGDENIVDVEFAVQYRIS--DPYDYLFNVRDPEGTLRQAAESAMREVVGRSTLDDVLTEG-REEIAQDVRELLQA 153 (266)
T ss_pred ccceEeCCCCEEEEEEEEEEEEC--CHHHHHhhCCCHHHHHHHHHHHHHHHHHhhCcHHHHHHhC-HHHHHHHHHHHHHH
Confidence 45689999999987766544322 2223334333334579999999999999999999998541 13444444444433
Q ss_pred ccccc--cEEEEEEEee
Q 025947 204 IYPLQ--NVFIRKVKIL 218 (245)
Q Consensus 204 IyPl~--~V~IrKvKvl 218 (245)
-.... -|.|..|.+.
T Consensus 154 ~~~~~~~Gi~v~~v~i~ 170 (266)
T cd03404 154 ILDAYKAGIEIVGVNLQ 170 (266)
T ss_pred HhhccCCCeEEEEEEEE
Confidence 22222 3666666543
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=60.20 E-value=71 Score=25.18 Aligned_cols=75 Identities=9% Similarity=0.072 Sum_probs=45.7
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCccc--ccchh---h---hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHH
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVK--RTCYA---Q---ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGRE 196 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~k--kt~Ya---~---~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~ke 196 (245)
..+-|+|+..+.+-+.+.-+=. +..+ ...|. . ..=...++..+...+...+++++++|++.. -+.|..+
T Consensus 14 q~v~TkD~~~v~vd~~~~~rV~-d~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lR~~ig~~tl~el~~~--R~~i~~~ 90 (128)
T cd03399 14 EAVITRDGVRVDVTAVFQVKVG-GTEEAIATAAERFLGKSEEEIEELVKEVLEGHLRAVVGTMTVEEIYED--RDKFAEQ 90 (128)
T ss_pred cceecCCCcEEEEEEEEEEEeC-CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHh--HHHHHHH
Confidence 4588999999998776555432 1110 00111 1 112455666778899999999999999965 3444444
Q ss_pred HHHhcc
Q 025947 197 IEKATL 202 (245)
Q Consensus 197 I~k~~k 202 (245)
|.+...
T Consensus 91 i~~~v~ 96 (128)
T cd03399 91 VQEVVA 96 (128)
T ss_pred HHHHHH
Confidence 444433
No 13
>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=60.10 E-value=66 Score=27.01 Aligned_cols=90 Identities=14% Similarity=0.126 Sum_probs=56.1
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchh---hhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhc
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYA---QASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKAT 201 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya---~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~ 201 (245)
..+.|+||-.+.+.+...-.-.+.... ..|. ..-....|+....+.|.+.++..+++|++.+ .+.|+.+|.+.+
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 456789999998887643321111111 1122 1112345778888999999999999999864 556666666666
Q ss_pred ccccccccEEEEEEEe
Q 025947 202 LSIYPLQNVFIRKVKI 217 (245)
Q Consensus 202 k~IyPl~~V~IrKvKv 217 (245)
+.-.--..+.|..+.+
T Consensus 130 ~~~l~~~Gi~i~~v~i 145 (196)
T cd03401 130 TERAKDFGIILDDVSI 145 (196)
T ss_pred HHHHHhCCeEEEEEEE
Confidence 5544444467776654
No 14
>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=58.13 E-value=29 Score=26.51 Aligned_cols=60 Identities=15% Similarity=0.178 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccc-cccccEEEEEEEeeecCc
Q 025947 163 QIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSI-YPLQNVFIRKVKILKAPK 222 (245)
Q Consensus 163 ~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~I-yPl~~V~IrKvKvlk~Pk 222 (245)
+++.+|.++|.+.+.+..+++---.-....|..+|..+.+.. +|-+-=+|--+-+.....
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 678999999999999999988777777889999999999999 534444455555665544
No 15
>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=57.50 E-value=1e+02 Score=24.86 Aligned_cols=89 Identities=16% Similarity=0.186 Sum_probs=53.0
Q ss_pred EEEEEeCCCcEEEEEEEEEeeecCCcccccchhh-----hhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHH
Q 025947 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQ-----ASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIE 198 (245)
Q Consensus 124 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~-----~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~ 198 (245)
.+++.|.||..+.+-+. ++-+- ..... .|.+ .--...||......+.+.++..++.++.+. .+.+..++.
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 46999999999987443 33332 11111 1122 245577899999999999999999999866 245555555
Q ss_pred HhcccccccccEEEEEEEe
Q 025947 199 KATLSIYPLQNVFIRKVKI 217 (245)
Q Consensus 199 k~~k~IyPl~~V~IrKvKv 217 (245)
++.+.-..=.-++|.-+.+
T Consensus 126 ~~l~~~~~~~Gi~i~~v~i 144 (179)
T PF01145_consen 126 EQLQEALEEYGIEITSVQI 144 (179)
T ss_dssp HHHHHHHGGGTEEEEEEEE
T ss_pred HHHhhhccccEEEEEEEEE
Confidence 4444444444466666553
No 16
>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=56.45 E-value=94 Score=26.48 Aligned_cols=88 Identities=18% Similarity=0.200 Sum_probs=51.6
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccc
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSI 204 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~I 204 (245)
.++.|+||..+.+.+...-+= .+.. +-.|.-..--..|+......|.+.++..+++|++.. .+.|+.+|...++.-
T Consensus 49 ~~v~T~D~~~v~v~~~v~yrI-~d~~-~~~~~~~~~~~~l~~~~~~~lr~~i~~~~~~el~~~--R~~i~~~i~~~l~~~ 124 (215)
T cd03403 49 QEVITKDNVTVRVDAVLYYRV-VDPV-KAVYGVEDYRYAISQLAQTTLRSVIGKMELDELLSE--REEINAELVEILDEA 124 (215)
T ss_pred ceeEcCCCCEEEEEEEEEEEE-ecHH-HHHhcCCCHHHHHHHHHHHHHHHHHccccHHHHHhh--HHHHHHHHHHHHHHH
Confidence 467899999999877653332 1211 111111222347888889999999999999999865 234444444443332
Q ss_pred cccccEEEEEEE
Q 025947 205 YPLQNVFIRKVK 216 (245)
Q Consensus 205 yPl~~V~IrKvK 216 (245)
.-=.-++|.-+.
T Consensus 125 l~~~Gi~v~~v~ 136 (215)
T cd03403 125 TDPWGVKVERVE 136 (215)
T ss_pred HhccCeEEEEEE
Confidence 211234444444
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=54.66 E-value=94 Score=27.51 Aligned_cols=91 Identities=8% Similarity=0.100 Sum_probs=60.3
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHH-----ccchHHHHHHH
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKF-----IAEIIGREIEK 199 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~l-----i~~~i~keI~k 199 (245)
..+.|+||..+.|-++++-+= ....+-.|.-..-...|+......|.+.+...++++++..= -.+.|+.+|..
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 458999999999888765543 22234455544556789999999999999999999998520 11344444444
Q ss_pred hcccccccccEEEEEEEe
Q 025947 200 ATLSIYPLQNVFIRKVKI 217 (245)
Q Consensus 200 ~~k~IyPl~~V~IrKvKv 217 (245)
..+...--.-|+|..+.+
T Consensus 130 ~l~~~l~~~GI~V~~v~I 147 (219)
T cd03402 130 ELQERLAVAGVEVVEARI 147 (219)
T ss_pred HHHHHHHhhCcEEEEEEE
Confidence 444433334566666654
No 18
>KOG2620 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=54.37 E-value=73 Score=30.07 Aligned_cols=94 Identities=16% Similarity=0.176 Sum_probs=69.3
Q ss_pred EEEEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH--HccchHHHHHH
Q 025947 121 IEAYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK--FIAEIIGREIE 198 (245)
Q Consensus 121 Ie~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~--li~~~i~keI~ 198 (245)
.+.....+|+|+..|++-++..-+--.....-.+|-=..=.-+|-.-..++|..++..++|+.+.++ -+..+|-.+|.
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 3455678999999999988876655433323377888888889999999999999999999998744 67778888888
Q ss_pred Hhcccc-cccccEEEEE
Q 025947 199 KATLSI-YPLQNVFIRK 214 (245)
Q Consensus 199 k~~k~I-yPl~~V~IrK 214 (245)
++.... |-+-+.+||-
T Consensus 136 kA~~~wG~~clr~eIrD 152 (301)
T KOG2620|consen 136 KAMEAWGYECLRYEIRD 152 (301)
T ss_pred HHHHHhHHHHHHHhhhh
Confidence 876543 3333444444
No 19
>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=52.55 E-value=96 Score=23.14 Aligned_cols=83 Identities=14% Similarity=0.104 Sum_probs=48.9
Q ss_pred EEEEEeCCC---cEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHh
Q 025947 124 YVDVKTTDN---YTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKA 200 (245)
Q Consensus 124 ~vdvkT~DG---y~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~ 200 (245)
.+-|...|| ..+++-...-+... .....+.+-...+.+.+...+++.+.+++-..--...+.++|..+
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 445666676 44554333333221 123444444456777777888888888887555556666777777
Q ss_pred cccccc---cccEEEEEE
Q 025947 201 TLSIYP---LQNVFIRKV 215 (245)
Q Consensus 201 ~k~IyP---l~~V~IrKv 215 (245)
.+++++ +.+|++.+.
T Consensus 79 in~~l~~~~V~~V~ft~f 96 (99)
T PF03748_consen 79 INKILGKGKVKDVYFTDF 96 (99)
T ss_pred HHHhhccCcEEEEEEEEE
Confidence 666663 566666553
No 20
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=50.88 E-value=75 Score=31.25 Aligned_cols=79 Identities=13% Similarity=0.096 Sum_probs=57.3
Q ss_pred EEEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHccchHHHHHHH
Q 025947 123 AYVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGREIEK 199 (245)
Q Consensus 123 ~~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~keI~k 199 (245)
....+-|.|+..|.|-..++-+=. ...+-.|.-..-...|+..+...|.+.+...++++++. ..|...+..++.+
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 445789999999998887765542 22333444444567899999999999999999999984 3566667777766
Q ss_pred hccc
Q 025947 200 ATLS 203 (245)
Q Consensus 200 ~~k~ 203 (245)
....
T Consensus 223 ~l~~ 226 (419)
T PRK10930 223 TIRP 226 (419)
T ss_pred HHhh
Confidence 6554
No 21
>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=45.90 E-value=1.5e+02 Score=26.24 Aligned_cols=76 Identities=7% Similarity=0.004 Sum_probs=49.1
Q ss_pred EEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHH---HHccchHHHHHHHhc
Q 025947 125 VDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVE---KFIAEIIGREIEKAT 201 (245)
Q Consensus 125 vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~---~li~~~i~keI~k~~ 201 (245)
..+.|+||..+.|-+...-+=. +. .+-.|.-..-...|+......|.+.+...++++++. .-+...+..++....
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 4577999999888765443321 11 222233333346799999999999999999999985 234455555555544
Q ss_pred c
Q 025947 202 L 202 (245)
Q Consensus 202 k 202 (245)
.
T Consensus 129 ~ 129 (261)
T TIGR01933 129 D 129 (261)
T ss_pred h
Confidence 3
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=40.97 E-value=1.1e+02 Score=26.23 Aligned_cols=59 Identities=22% Similarity=0.383 Sum_probs=38.5
Q ss_pred ccCCCCeEEEEeccCCCCchhhceeEEEEEEeeeCCCeeeeeeecccccchhhhhhccceeeeEEEEEEEEeCCC-cEEE
Q 025947 58 SEGLKHRVFEVSLGDLHNEEEHAYRKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTDN-YTLR 136 (245)
Q Consensus 58 ~~~l~GRv~EvsLaDL~~d~~~~~~K~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~DG-y~lR 136 (245)
...+++|.+-+|..|.|+| ++==.|.+...|++ .-+-.+=|..-.=+..+| |.|.
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 34445677777777 222223334444444444 7788
Q ss_pred EEEE
Q 025947 137 MFCI 140 (245)
Q Consensus 137 vf~i 140 (245)
|+|-
T Consensus 75 v~~~ 78 (151)
T PF12638_consen 75 VYCY 78 (151)
T ss_pred EEEE
Confidence 8774
No 23
>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=33.14 E-value=38 Score=24.43 Aligned_cols=29 Identities=31% Similarity=0.516 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHhhCCHHHHHHHHc
Q 025947 161 IRQIRRKMREIMIAQAASCDLKGLVEKFI 189 (245)
Q Consensus 161 ~~~IRk~m~eii~~~~~~~~l~e~V~~li 189 (245)
++.+++++.+++.......+++|++.+|-
T Consensus 1 ik~~~~kik~~~~~~~~~~~~~~~i~~LN 29 (80)
T PF08388_consen 1 IKRFRRKIKEITRRRNRGKSLEELIKKLN 29 (80)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence 46788899998877778899999998873
No 24
>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=32.30 E-value=1.7e+02 Score=20.26 Aligned_cols=39 Identities=23% Similarity=0.305 Sum_probs=24.2
Q ss_pred EEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHH
Q 025947 134 TLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQA 176 (245)
Q Consensus 134 ~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~ 176 (245)
.+++|.+.+|..+. +-+=+.--|..+|.+.|.|+....+
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 47889999988762 2232444555666666666655544
No 25
>COG0330 HflC Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]
Probab=27.11 E-value=3.5e+02 Score=24.27 Aligned_cols=90 Identities=14% Similarity=0.158 Sum_probs=63.7
Q ss_pred EEEEEeCCCcEEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHHHhhCCHHHHHHH---HccchHHHHHHHh
Q 025947 124 YVDVKTTDNYTLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQAASCDLKGLVEK---FIAEIIGREIEKA 200 (245)
Q Consensus 124 ~vdvkT~DGy~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~---li~~~i~keI~k~ 200 (245)
...+-|.|+-.+.+-++..-+=. -..+..|.-..-...|+......+...+...+++|++.. -+...+.+.+...
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 36678999998887776555432 223555555557788999999999999999999999843 5677777777777
Q ss_pred cccc-cccccEEEEEE
Q 025947 201 TLSI-YPLQNVFIRKV 215 (245)
Q Consensus 201 ~k~I-yPl~~V~IrKv 215 (245)
.... +-+-+|+|+.+
T Consensus 154 ~~~~Gi~V~~V~i~~i 169 (291)
T COG0330 154 ADPWGIKVVDVEIKDI 169 (291)
T ss_pred hhhcCcEEEEEEEeec
Confidence 7662 33445555554
No 26
>PRK06654 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=24.06 E-value=5e+02 Score=22.89 Aligned_cols=50 Identities=16% Similarity=0.224 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccccc---cccEEEEEEEe
Q 025947 165 RRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYP---LQNVFIRKVKI 217 (245)
Q Consensus 165 Rk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyP---l~~V~IrKvKv 217 (245)
.-.+.++|...+++.+.+|+- -...+..||..+.+.+-. +++|++...=+
T Consensus 126 ~pqIRD~Ii~~LssKt~~eL~---Gk~~LKeEI~~rIN~iL~~GkV~~VYFTeFv~ 178 (181)
T PRK06654 126 KVRLKDIIREYFSQKTGQELK---NESQIKAEIKARINSILRNGEIKDIAFTQIDI 178 (181)
T ss_pred cHHHHHHHHHHHHhCCHHHHc---CHHHHHHHHHHHHHHhcCCCceEEEEEEEEEe
Confidence 445677888888999999996 446777777777776654 55666655443
No 27
>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=23.55 E-value=1.3e+02 Score=22.81 Aligned_cols=40 Identities=18% Similarity=0.370 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHH-HHhhCCHHHHHHHH-------ccchHHHHHHHhc
Q 025947 162 RQIRRKMREIMIA-QAASCDLKGLVEKF-------IAEIIGREIEKAT 201 (245)
Q Consensus 162 ~~IRk~m~eii~~-~~~~~~l~e~V~~l-------i~~~i~keI~k~~ 201 (245)
..+|....++|.+ ...+.++++++..+ +|+++-+++....
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 3466666666666 45678999998876 5677777766543
No 28
>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=22.99 E-value=1.3e+02 Score=22.87 Aligned_cols=25 Identities=28% Similarity=0.410 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHhhCCHHHHHHHH
Q 025947 164 IRRKMREIMIAQAASCDLKGLVEKF 188 (245)
Q Consensus 164 IRk~m~eii~~~~~~~~l~e~V~~l 188 (245)
+|+++..+|.+..+..|.+|++..+
T Consensus 1 ~rk~i~~~l~ey~~~~d~~ea~~~l 25 (113)
T PF02847_consen 1 LRKKIFSILMEYFSSGDVDEAVECL 25 (113)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCHHHHHHHH
Confidence 5889999999999999999998776
No 29
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=22.15 E-value=38 Score=25.01 Aligned_cols=17 Identities=47% Similarity=0.522 Sum_probs=14.5
Q ss_pred CCeEEEEeccCCCCchh
Q 025947 62 KHRVFEVSLGDLHNEEE 78 (245)
Q Consensus 62 ~GRv~EvsLaDL~~d~~ 78 (245)
-|-.||+||.||.+.+.
T Consensus 27 CGDRFeIsLeDl~~GE~ 43 (67)
T COG5216 27 CGDRFEISLEDLRNGEV 43 (67)
T ss_pred CCCEeEEEHHHhhCCce
Confidence 48999999999988753
No 30
>KOG4108 consensus Dynein light chain [Cell motility]
Probab=21.40 E-value=2.7e+02 Score=24.48 Aligned_cols=62 Identities=8% Similarity=0.108 Sum_probs=50.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhCCHHHHHHHHccchHHHHHHHhcccccccccEEEEEEEee
Q 025947 157 QASQIRQIRRKMREIMIAQAASCDLKGLVEKFIAEIIGREIEKATLSIYPLQNVFIRKVKIL 218 (245)
Q Consensus 157 ~~sQ~~~IRk~m~eii~~~~~~~~l~e~V~~li~~~i~keI~k~~k~IyPl~~V~IrKvKvl 218 (245)
+.-+...++.+|.++|++.+....++.=.-.-+...|+.+|..+.+..=+-|-=+|-.|-+-
T Consensus 69 ~~F~~~~v~~iI~~vl~e~L~~~~Y~~~~a~~lt~elae~I~~rvK~l~~~RYK~Vv~V~ig 130 (174)
T KOG4108|consen 69 KKFPAERVEKIIEAVLTEKLADAEYDPDEALQLTKELAEEIKDRVKELGYPRYKYVVQVMIG 130 (174)
T ss_pred ccCCHHHHHHHHHHHHHHHhhhhccCHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEh
Confidence 45677899999999999999888888777777888999999998888776666666666553
No 31
>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=21.20 E-value=1.7e+02 Score=21.85 Aligned_cols=50 Identities=20% Similarity=0.298 Sum_probs=39.0
Q ss_pred eEEEEEEeeeCCCeeeeeeecccccchhhhhhccceeeeEEEEEEEEeCC
Q 025947 82 RKIRLRAEDVQGKNVLTNFWGMDFTTDKLRSLVRKWHTLIEAYVDVKTTD 131 (245)
Q Consensus 82 ~K~kf~i~~V~G~~a~T~F~GmelT~DklrSlVrK~~s~Ie~~vdvkT~D 131 (245)
.++.+.++.-.|+...|.-.|+++....+..+.+.++...-|..-|...+
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 35667777788999999999999999999999999998888877776643
No 32
>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=20.22 E-value=1.9e+02 Score=23.29 Aligned_cols=71 Identities=27% Similarity=0.208 Sum_probs=40.9
Q ss_pred CCCCeEEEEeccCCCCchhhceeEEEEEEee-eCCCeeeeeeecccccchhhhhhcccee--eeEEEEEEEEeCCCcEEE
Q 025947 60 GLKHRVFEVSLGDLHNEEEHAYRKIRLRAED-VQGKNVLTNFWGMDFTTDKLRSLVRKWH--TLIEAYVDVKTTDNYTLR 136 (245)
Q Consensus 60 ~l~GRv~EvsLaDL~~d~~~~~~K~kf~i~~-V~G~~a~T~F~GmelT~DklrSlVrK~~--s~Ie~~vdvkT~DGy~lR 136 (245)
.+.|...||-|.||.+- + ..+-...+. |.|+. .|=.+ +|..-.+++... .---..-..+|.||..||
T Consensus 14 ~~lG~~~EVVLHDl~~~-~---~sIv~I~Ng~vsgR~-----vGdp~-t~~~l~~l~~~~~~~~~~~nY~~~~~~Gk~lr 83 (118)
T PF08348_consen 14 ATLGPNCEVVLHDLSDP-E---HSIVAIANGHVSGRK-----VGDPI-TDLALELLKEKQYEEDYIINYKTKTKDGKILR 83 (118)
T ss_pred HHhCCCeEEEEEECCCC-C---CEEEEEECCCccCCc-----cCCch-hHHHHHHHhccccCCCccccccccCCCCCEEE
Confidence 46799999999999653 2 234444555 66665 34333 333444444442 223334455677998888
Q ss_pred EEEE
Q 025947 137 MFCI 140 (245)
Q Consensus 137 vf~i 140 (245)
-..+
T Consensus 84 SsT~ 87 (118)
T PF08348_consen 84 SSTF 87 (118)
T ss_pred EEEE
Confidence 4443
No 33
>PF09501 Bac_small_YrzI: Probable sporulation protein (Bac_small_yrzI); InterPro: IPR012655 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, while arrays of six members in tandem are found 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 of small acid-soluble spore proteins (SASP). A role in sporulation is possible.
Probab=20.19 E-value=3.1e+02 Score=18.96 Aligned_cols=38 Identities=24% Similarity=0.262 Sum_probs=21.0
Q ss_pred EEEEEEEEEeeecCCcccccchhhhhhhHHHHHHHHHHHHHH
Q 025947 134 TLRMFCIGFTKRLPNQVKRTCYAQASQIRQIRRKMREIMIAQ 175 (245)
Q Consensus 134 ~lRvf~i~fT~kr~~q~kkt~Ya~~sQ~~~IRk~m~eii~~~ 175 (245)
.+++|.+.+|..+. +-+=+.--|..++.+.|.|+-...
T Consensus 2 tf~~fFlTITIqKr----~~S~~Ei~~~qq~~~~~deik~rq 39 (46)
T PF09501_consen 2 TFNVFFLTITIQKR----KYSEEEILHEQQIKKIMDEIKDRQ 39 (46)
T ss_pred EEEEEEEEEEEEec----cCCHHHHHHHHHHHHHHHHHHHHH
Confidence 47889988888752 222233334444555555555444
Done!