Query 023003
Match_columns 289
No_of_seqs 206 out of 1542
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 07:44:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023003.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023003hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00101 rhomboid-1 protease; 99.9 8.2E-25 1.8E-29 202.3 14.3 172 114-286 43-240 (278)
2 PRK10907 intramembrane serine 99.9 2.7E-24 5.9E-29 198.9 12.0 157 123-283 93-267 (276)
3 COG0705 Membrane associated se 99.9 3.4E-21 7.3E-26 172.9 12.0 164 123-286 16-211 (228)
4 KOG2980 Integral membrane prot 99.8 3E-19 6.4E-24 164.4 7.4 224 62-289 48-308 (310)
5 PF01694 Rhomboid: Rhomboid fa 99.7 3.7E-19 8E-24 147.7 1.5 126 161-288 2-144 (145)
6 KOG2289 Rhomboid family protei 99.7 1E-17 2.2E-22 156.9 -0.5 120 160-282 114-250 (316)
7 KOG2632 Rhomboid family protei 99.5 2.6E-14 5.5E-19 129.8 8.8 157 121-282 12-194 (258)
8 KOG2290 Rhomboid family protei 99.1 6.9E-11 1.5E-15 114.2 3.1 118 162-281 448-580 (652)
9 PF04511 DER1: Der1-like famil 98.3 8.2E-06 1.8E-10 72.2 10.8 152 124-282 2-178 (197)
10 PF08551 DUF1751: Eukaryotic i 98.0 5.4E-06 1.2E-10 65.8 3.8 60 164-223 7-66 (99)
11 KOG0858 Predicted membrane pro 97.7 8.5E-05 1.8E-09 67.3 7.1 103 114-220 5-112 (239)
12 KOG2890 Predicted membrane pro 95.9 0.014 3E-07 54.8 5.6 53 164-216 66-118 (326)
13 COG5291 Predicted membrane pro 92.7 0.45 9.8E-06 43.8 7.3 47 156-202 51-99 (313)
14 KOG4463 Uncharacterized conser 91.9 0.17 3.6E-06 46.9 3.5 60 162-222 48-107 (323)
15 PF09527 ATPase_gene1: Putativ 35.1 1.5E+02 0.0032 20.3 6.3 43 179-221 8-51 (55)
16 PF10542 Vitelline_membr: Vite 30.6 24 0.00052 22.9 0.7 19 19-41 7-25 (38)
17 PF04246 RseC_MucC: Positive r 26.2 1.1E+02 0.0024 24.9 4.2 25 263-287 96-120 (135)
18 PF08031 BBE: Berberine and be 25.2 35 0.00075 23.0 0.8 21 2-22 25-45 (47)
19 PTZ00382 Variant-specific surf 21.1 41 0.00088 26.4 0.6 17 272-288 79-95 (96)
No 1
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.92 E-value=8.2e-25 Score=202.33 Aligned_cols=172 Identities=15% Similarity=0.181 Sum_probs=130.7
Q ss_pred HHHHHhhcCChHHHHHHHHHHHHHHHHHHhcC--------hhHHHhcccccccccccCCcceeeecccccCChHHHHHHH
Q 023003 114 WRSWLRQYGSSEVVYGLIIANTAVFMLWRIAD--------PKFMANNFTISLDNFLSGRLHTLITSAFSHIDVEHIVSNM 185 (289)
Q Consensus 114 ~~~~~~~l~~~~vt~~iI~inv~Vfll~~~~~--------~~~~~~~f~l~p~~i~~g~~wrllTs~F~H~~~~HLl~Nm 185 (289)
.+.-+++...++++..|+++|+++|++....+ .+.+.+.++..+..+.++|+||++|++|+|.++.|+++||
T Consensus 43 ler~Fp~f~i~~l~~~Iiii~iivfil~l~~~~~~~l~p~~~~L~~~Ga~~~~~i~~gq~WRLiT~~FlH~~~~HLl~Nm 122 (278)
T PTZ00101 43 LNLIFPHFTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVTLGANVASRIKQGEIHRLILPIFLHANIFHTFFNV 122 (278)
T ss_pred HHHHcCCccHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHhCcchhhhhcCCCHHHHHHHHHccCHHHHHHHH
Confidence 34556778889999999999999999876532 1244555677888888999999999999999999999999
Q ss_pred HHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHhcccceeeeeeeEee--ec-------------ccchhHH--HH
Q 023003 186 IGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWV--VD-------------PSRTPAL--GV 248 (289)
Q Consensus 186 ~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~~~~~~~~GaSGai~--l~-------------p~~~p~l--~~ 248 (289)
+.++.+|..+|+.+|++|++.+|+++|++|++++....+. ..++||||+++ ++ +.+...+ .+
T Consensus 123 ~~l~~~G~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~~-~~svGASgAifGLiGa~~~~lil~w~~~~~~~~~~~~~i 201 (278)
T PTZ00101 123 FFQLRMGFTLEKNYGIVKIIILYFLTGIYGNILSSSVTYC-PIKVGASTSGMGLLGIVTSELILLWHVIRHRERVVFNII 201 (278)
T ss_pred HHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHccC-CcEEehhHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 9999999999999999999999999999999998776543 45799999875 11 1111111 11
Q ss_pred HHHHHHHH-HhccCCCchhHHHHHHHHHHHHHHHHHHhc
Q 023003 249 FLIGKDML-RIIEGNSNISGSAHLGGAAVAALAWARIRR 286 (289)
Q Consensus 249 ~~l~~~l~-~~~~~~~~vs~~AHLgGal~G~l~~~~lrk 286 (289)
+++.+.+. ......+++|+.||+||+++|++....+++
T Consensus 202 ~~~li~~~l~~~~~g~~Id~~aHlGG~i~G~llg~~~~~ 240 (278)
T PTZ00101 202 FFSLISFFYYFTFNGSNIDHVGHLGGLLSGISMGILYNS 240 (278)
T ss_pred HHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHh
Confidence 22222221 112235789999999999999997665543
No 2
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.91 E-value=2.7e-24 Score=198.90 Aligned_cols=157 Identities=20% Similarity=0.301 Sum_probs=119.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHhcChhHHHhcccccccccccCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChh
Q 023003 123 SSEVVYGLIIANTAVFMLWRIADPKFMANNFTISLDNFLSGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPE 202 (289)
Q Consensus 123 ~~~vt~~iI~inv~Vfll~~~~~~~~~~~~f~l~p~~i~~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~ 202 (289)
.+++|..++++|++||++..+........++.........+|+||++|++|+|.|+.|+++||+++|.+|..+|+.+|++
T Consensus 93 ~~p~T~~li~i~i~vf~l~~~~~~~~~~~~l~~~~~~~~~~q~WRl~T~~flH~~~~Hl~fNml~l~~lG~~iE~~~G~~ 172 (276)
T PRK10907 93 AGPLTLGVMIACVVVFILMQILGDQTVMLWLAWPFDPSLKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGSG 172 (276)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhccHHHHHHHhccccccccCCcHHHHhHHHHhCCHHHHHHHHHHHHHHHHHHHHHHChH
Confidence 45799999999999999988765444444443333344579999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcccceeeeeeeEee--e---------cccc---hhH----HHHHHHHHHHHHhccCCCc
Q 023003 203 YLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWV--V---------DPSR---TPA----LGVFLIGKDMLRIIEGNSN 264 (289)
Q Consensus 203 ~fl~lyl~~gi~g~l~~~l~~~~~~~~~GaSGai~--l---------~p~~---~p~----l~~~~l~~~l~~~~~~~~~ 264 (289)
+++.+|+++++.|++++++... ....|+||+++ + .|.. .|. +.++++....... . .++
T Consensus 173 ~~l~l~l~s~i~~~~~~~~~~~--~~~gGaSGvVygL~g~~~~~~~~~p~~~~~lp~~~~~f~llwl~~g~~~~-~-g~~ 248 (276)
T PRK10907 173 KLIVITLISALLSGWVQSKFSG--PWFGGLSGVVYALMGYVWLRGERDPQSGIYLPRGLIAFALLWLVAGYFDL-F-GMS 248 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHcc--chhhHHHHHHHHHHHHHHHHhccccccchhhhHHHHHHHHHHHHHHHHHc-c-Ccc
Confidence 9999999999999999877654 34579999886 1 1211 121 1222222222222 2 368
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 023003 265 ISGSAHLGGAAVAALAWAR 283 (289)
Q Consensus 265 vs~~AHLgGal~G~l~~~~ 283 (289)
|++.||++|+++|++.+..
T Consensus 249 Ian~AHlgGli~Gll~g~~ 267 (276)
T PRK10907 249 IANAAHVAGLAVGLAMAFW 267 (276)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 9999999999999997653
No 3
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.85 E-value=3.4e-21 Score=172.86 Aligned_cols=164 Identities=26% Similarity=0.299 Sum_probs=121.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHhcChhHHH------hcccccccccc--cC--CcceeeecccccCChHHHHHHHHHHHHHH
Q 023003 123 SSEVVYGLIIANTAVFMLWRIADPKFMA------NNFTISLDNFL--SG--RLHTLITSAFSHIDVEHIVSNMIGLYFFG 192 (289)
Q Consensus 123 ~~~vt~~iI~inv~Vfll~~~~~~~~~~------~~f~l~p~~i~--~g--~~wrllTs~F~H~~~~HLl~Nm~~L~~~G 192 (289)
.+.++..++++|+++|+........... +.+...|.... .+ |+||++|++|+|.|+.|+++||+.+|.+|
T Consensus 16 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lit~~FlH~~~~Hll~N~~~l~~fg 95 (228)
T COG0705 16 APPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLHAGFLHLLFNMLALWVFG 95 (228)
T ss_pred cchHHHHHHHHHHHHHHHHHHccchHHHHHHHhhhHHhhcchhhhccccccchHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence 4568899999999999988776532111 12334443331 12 89999999999999999999999999999
Q ss_pred HHHhhhcChhHHHHHHHHHHHHHHHHHHHHhccc-ceeeeeeeEee--------eccc------c--hh----HHHHHHH
Q 023003 193 MSIGRTLGPEYLLKLYMAGAIGGSVFYLVYHAFL-AMSSKRQGMWV--------VDPS------R--TP----ALGVFLI 251 (289)
Q Consensus 193 ~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~~~~-~~~~GaSGai~--------l~p~------~--~p----~l~~~~l 251 (289)
..+|+.+|+.+|+.+|+.+++.+++.+..+.+.. .+++||||+++ ..+. . .+ .+..+++
T Consensus 96 ~~le~~~G~~~f~~~yl~~gl~~~~~~~~~~~~~~~~~~GASG~i~gllga~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 175 (228)
T COG0705 96 SNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGAPSLGASGAIFGLLGAYFLLFPFARILLLFLSLPRPALILILIWL 175 (228)
T ss_pred HHHHHHhchhHHHHHHHHHHHHHHHHHHHHcccccCcccchhHHHHHHHHHHHHHccccchhhhhccCchhHHHHHHHHH
Confidence 9999999999999999999999999988877654 46799999885 1111 0 22 1233444
Q ss_pred HHHHHHhccC-CCchhHHHHHHHHHHHHHHHHHHhc
Q 023003 252 GKDMLRIIEG-NSNISGSAHLGGAAVAALAWARIRR 286 (289)
Q Consensus 252 ~~~l~~~~~~-~~~vs~~AHLgGal~G~l~~~~lrk 286 (289)
..+++....+ .++|++.||++|+++|.+++....+
T Consensus 176 ~~~~~~~~~~~~~~va~~aHl~G~i~G~l~~~~~~~ 211 (228)
T COG0705 176 LYSLFSGAGSFGPSVAWSAHLGGLIGGLLLAALLSR 211 (228)
T ss_pred HHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444433222 2379999999999999998765544
No 4
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=99.78 E-value=3e-19 Score=164.37 Aligned_cols=224 Identities=22% Similarity=0.312 Sum_probs=164.0
Q ss_pred ccccccccccccchhhhhhhhhhh-hhhcccccchhhhhhcCCCC------CCccchhhHHHHHhhcCChHHHHHHHHHH
Q 023003 62 LKTHAFLFNPLLARRFFTSLLSSQ-LRKSFFDGKVLFFRAQFPER------SFASFRYRWRSWLRQYGSSEVVYGLIIAN 134 (289)
Q Consensus 62 ~~~~~~~~~~~~s~~~f~~~~~~~-~~~~~~~~~~~~~~~~~P~~------~~~~~~r~~~~~~~~l~~~~vt~~iI~in 134 (289)
..++...+.+...-..+.+.++++ .+.+.++.+..|+-+..|.+ ..+++++.++.|.+..+. ++++++++|
T Consensus 48 p~~~~r~~~~~g~fa~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~g~~~~~f~~F~~~~~k~w~~~~~g--~v~~ll~~n 125 (310)
T KOG2980|consen 48 PSVVSRSAKTHGFFASALGNTNLKLKFGNLVESRVGFFGSLLPSHGFEFGGFTGFQKRGWKHWISGANG--VVFGLLIAN 125 (310)
T ss_pred cccccccccCcceeeccchhhHHHHHhccccceeeEeecccCchhccccCCcccceecchHHHhhcCCc--chhHHHHHH
Confidence 345555555555556666777776 45577888888888876633 235667777777777554 999999999
Q ss_pred HHHHHHHHhcChhH-HHhcccccccccccCCcceeeecccccCChHHHHHHHHHHHHHHH-HHhhhcChhHHHHHHHHHH
Q 023003 135 TAVFMLWRIADPKF-MANNFTISLDNFLSGRLHTLITSAFSHIDVEHIVSNMIGLYFFGM-SIGRTLGPEYLLKLYMAGA 212 (289)
Q Consensus 135 v~Vfll~~~~~~~~-~~~~f~l~p~~i~~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~-~le~~~G~~~fl~lyl~~g 212 (289)
+++|.+|++...+. +..++...+.. ..-+|.+++|.|.|.+.+|+-.||+.++.+.. .+....|...+.++|+.++
T Consensus 126 ~~vf~lWrv~~~~~~~~~~mls~~~~--~t~~w~i~~s~Fsh~~a~h~g~~~~~~~~y~~~a~~~~~~~~~~~AlylSa~ 203 (310)
T KOG2980|consen 126 AFVFTLWRVPQKQFTMIPWMLSRNAY--KTGCWKIILSTFSHYSALHLGPNMLVLKSYLAGALKGSLGFSSFFALYLSAG 203 (310)
T ss_pred HHHHHHHHhcchhhhhhhHHhhcccc--cccceeEEeehhcchhHhhhcHHHHHHHHHhcccccCCcchhhcccceeccc
Confidence 99999999986543 44444444332 45678899999999999999999999999998 8888999999999999666
Q ss_pred HHHHHHHHHHh---cccceeeeeeeEee--------ecc-----------cch--hHHHHHHHHHHHHHhccCCCchhHH
Q 023003 213 IGGSVFYLVYH---AFLAMSSKRQGMWV--------VDP-----------SRT--PALGVFLIGKDMLRIIEGNSNISGS 268 (289)
Q Consensus 213 i~g~l~~~l~~---~~~~~~~GaSGai~--------l~p-----------~~~--p~l~~~~l~~~l~~~~~~~~~vs~~ 268 (289)
..|........ ...++++||||+++ +.| .+. -.....++.+++.++..++.+.|+.
T Consensus 204 ~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~~lfP~~~~~i~f~~~v~~ga~~~~~~i~~~~~a~~~l~~~~~n~~ 283 (310)
T KOG2980|consen 204 VKGLFISVKDKVPTSWAGPSLGASGAVYAILALDCTLFPKTTLYILFVFPVPAGAGLAFKAIAAYDFAGLILGWGFFNHA 283 (310)
T ss_pred cccceeEeeccccccccccccccchHHHHHHHHHhhcCcCcceeEEEeecccccchhHHHHHHHhhhcceeeccccchhH
Confidence 66655443332 12456799999886 122 111 1122355677787788888899999
Q ss_pred HHHHHHHHHHHH----HHHHhcCCC
Q 023003 269 AHLGGAAVAALA----WARIRRRGF 289 (289)
Q Consensus 269 AHLgGal~G~l~----~~~lrkgr~ 289 (289)
||++|.+.|.++ +..+||||+
T Consensus 284 Ah~~gsl~Gv~va~~~~~ri~kgR~ 308 (310)
T KOG2980|consen 284 AHLSGSLFGVVVATYLWARIRKGRF 308 (310)
T ss_pred hhhcchHHHHHHHHHHHHHHHcCcc
Confidence 999999999985 457899985
No 5
>PF01694 Rhomboid: Rhomboid family; InterPro: IPR022764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of proteins contain serine peptidases belonging to the MEROPS peptidase family S54 (Rhomboid, clan ST). They are integral membrane proteins related to the Drosophila melanogaster (Fruit fly) rhomboid protein P20350 from SWISSPROT. Members of this family are found in archaea, bacteria and eukaryotes. The D. melanogaster rhomboid protease cleaves type-1 transmembrane domains using a catalytic triad composed of serine, histidine and asparagine contributed by different transmembrane domains. It cleaves the transmembrane proteins Spitz, Gurken and Keren within their transmembrane domains to release a soluble TGFalpha-like growth factor. Cleavage occurs in the Golgi, following translocation of the substrates from the endoplasmic reticulum membrane by Star, another transmembrane protein. The growth factors are then able to activate the epidermal growth factor receptor [, ]. Few substrates of mammalian rhomboid homologues have been determined, but rhomboid-like protein 2 (MEROPS S54.002) has been shown to cleave ephrin B3 []. Parasite-encoded rhomboid enzymes are also important for invasion of host cells by Toxoplasma and the malaria parasite. In Saccharomyces cerevisiae (Baker's yeast) the Pcp1 (MDM37) protein (MEROPS S54.007) is a mitochondrial endopeptidase required for the activation of cytochrome c peroxidase and for the processing of the mitochondrial dynamin-like protein Mgm1 [, ]. Mutations in Pcp1 result in cells have fragmented mitochondria, which have very few short tubulues []. This entry represents the 6 transmembrane helix rhomboid domain.; GO: 0004252 serine-type endopeptidase activity, 0016021 integral to membrane; PDB: 3UBB_A 3B45_A 3B44_A 2NRF_A 3TXT_A 2O7L_A 2XTU_A 2IRV_A 2XOW_A 2XTV_A ....
Probab=99.74 E-value=3.7e-19 Score=147.67 Aligned_cols=126 Identities=29% Similarity=0.373 Sum_probs=90.6
Q ss_pred ccCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHhcccceeeeeeeEeee--
Q 023003 161 LSGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWVV-- 238 (289)
Q Consensus 161 ~~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~~~~~~~~GaSGai~l-- 238 (289)
+++|+||++|++|+|.|+.|++.|++.++.+|..+|+.+|++++..+|+.+++++++...+........+|+||+++-
T Consensus 2 ~~~~~wrl~T~~f~h~~~~hl~~n~~~l~~~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~G~Sg~~~~l~ 81 (145)
T PF01694_consen 2 QNGQWWRLFTSPFVHANFLHLLFNLLALWFFGSLLERRLGSRRFLALYLLSGLLGSLLSLLFSPPNQPYVGASGAVFGLL 81 (145)
T ss_dssp GCC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S-----SSHHHHHHHH
T ss_pred CCCcchhhhHHHHHccCHHHHHHHHHHHHHhhhhHhhhccchHHHHHHHHHHHhhhhccccccccccccCCCcccchHHH
Confidence 578999999999999999999999999999999999999999999999999999999998887764356899987751
Q ss_pred ------cc---cchhH------HHHHHHHHHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhcCC
Q 023003 239 ------DP---SRTPA------LGVFLIGKDMLRIIEGNSNISGSAHLGGAAVAALAWARIRRRG 288 (289)
Q Consensus 239 ------~p---~~~p~------l~~~~l~~~l~~~~~~~~~vs~~AHLgGal~G~l~~~~lrkgr 288 (289)
.+ .+... ....++...+.... .+++++.+|++|+++|++++..++|.|
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~hl~G~~~G~~~~~~~~~~~ 144 (145)
T PF01694_consen 82 GAFLFLYPQNKKRLRFIYLALVVPIIVLVIILLLGF--IPNISFLGHLGGFLAGLLYGFLILRRP 144 (145)
T ss_dssp HHHHHHHHCCCCCS---HCCCCCCCCCCCHHHCTSS--SSTTTHHHHHHHHHHHHHHHHHHCH--
T ss_pred HHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHH--HHhHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 01 11110 00011112221111 688999999999999999999887764
No 6
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.66 E-value=1e-17 Score=156.92 Aligned_cols=120 Identities=22% Similarity=0.338 Sum_probs=92.6
Q ss_pred cccCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHhcccceeeeeeeEee--
Q 023003 160 FLSGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWV-- 237 (289)
Q Consensus 160 i~~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~~~~~~~~GaSGai~-- 237 (289)
+..+|+||++||+|+|.|+.||++||+.+.++|..+|+..|.+|+..+|++|++.|++++.+..+. ..++||||+++
T Consensus 114 ~~r~E~WRllTym~LHaGi~HL~~N~~~ql~iGi~LE~~~G~~RiglIYl~gg~aGSlls~l~d~~-~~sVGASggvfaL 192 (316)
T KOG2289|consen 114 VHRGELWRLLTYMWLHAGIFHLLLNMLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLFDPN-SISVGASGGVFAL 192 (316)
T ss_pred hhhchhHHHHHHHHHhcCHHHHHHHHHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHhccC-CceecccHHHHHH
Confidence 367899999999999999999999999999999999999999999999999999999999998775 45799999986
Q ss_pred ec-------------ccchhHHH--HHHHHHHHHHhccCCCchhHHHHHHHHHHHHHHHH
Q 023003 238 VD-------------PSRTPALG--VFLIGKDMLRIIEGNSNISGSAHLGGAAVAALAWA 282 (289)
Q Consensus 238 l~-------------p~~~p~l~--~~~l~~~l~~~~~~~~~vs~~AHLgGal~G~l~~~ 282 (289)
++ ..+...+. ++++.+.+- +...+.+++.||+||.+.|..+..
T Consensus 193 lgA~Ls~l~~Nw~~m~~~~~~l~~ll~Ii~i~l~--~G~~~~~~~~~h~gg~~~G~~~~f 250 (316)
T KOG2289|consen 193 LGAHLSNLLTNWTIMKNKFAALRTLLIIIFINLD--LGFAPYVDNFAHIGGLLAGFLLGF 250 (316)
T ss_pred HHHHHHHHHhhHHHhcchHHHHHHHHHHHHHHHh--hccccceeccccccccCCCcchhH
Confidence 11 11222111 122222221 122466778888888888877654
No 7
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=99.53 E-value=2.6e-14 Score=129.75 Aligned_cols=157 Identities=18% Similarity=0.183 Sum_probs=113.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHhcChhHHHhcccccccccccCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcC
Q 023003 121 YGSSEVVYGLIIANTAVFMLWRIADPKFMANNFTISLDNFLSGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLG 200 (289)
Q Consensus 121 l~~~~vt~~iI~inv~Vfll~~~~~~~~~~~~f~l~p~~i~~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G 200 (289)
.+.+.+|..+..++.++|++-....- .+.+.+.++.+.+.|.||++||.++|.+..|+++||+++|.+|..+|+.+|
T Consensus 12 ~~~p~~ts~~~~~~~~i~lv~~~~~i---~~~~~l~~~~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~~G 88 (258)
T KOG2632|consen 12 MKIPLLTSIVVVLAILIYLVSFFPGI---VEVLGLPSELLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERTHG 88 (258)
T ss_pred ccchHHHHHHHHHHHHHHHHhccchh---hhHhcCCHHHhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhhcc
Confidence 44667888888888888877655432 244556667778899999999999999999999999999999999999999
Q ss_pred -hhHHHHHHHHHHHHHHHHHHHHhc----c----cceeeeeeeEeee--------cccc---------hhHHHHHHHHHH
Q 023003 201 -PEYLLKLYMAGAIGGSVFYLVYHA----F----LAMSSKRQGMWVV--------DPSR---------TPALGVFLIGKD 254 (289)
Q Consensus 201 -~~~fl~lyl~~gi~g~l~~~l~~~----~----~~~~~GaSGai~l--------~p~~---------~p~l~~~~l~~~ 254 (289)
+.+++.+..+-++..++++++... . .+...|.||+.+. .|.+ +|....-++.+.
T Consensus 89 ~t~~~l~~~~llalf~gIl~ll~~~~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~sp~r~~~~fg~~siP~~l~Pw~lLi 168 (258)
T KOG2632|consen 89 TTVRILMFTVLLALFSGILYLLAYHVFLLSDLVYVEGAIGFSGVLFAMMAVLEVQSPVRSRSVFGLFSIPIVLAPWALLI 168 (258)
T ss_pred ceehHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhcccccccHHHHHHHHHHhhcCcccchhhcccccccHHHHHHHHHH
Confidence 889998888999999998887653 1 1223566665541 1111 232111111111
Q ss_pred HHHhccCCCchhHHHHHHHHHHHHHHHH
Q 023003 255 MLRIIEGNSNISGSAHLGGAAVAALAWA 282 (289)
Q Consensus 255 l~~~~~~~~~vs~~AHLgGal~G~l~~~ 282 (289)
...++ .|+.|+.+|++|+++|+.|.+
T Consensus 169 ~~~~l--vp~aSFlghl~GllvG~ay~~ 194 (258)
T KOG2632|consen 169 ATQIL--VPQASFLGHLCGLLVGYAYAF 194 (258)
T ss_pred HHHHH--ccCchHHHHHHHHHHHHHHHH
Confidence 11111 588999999999999999876
No 8
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.06 E-value=6.9e-11 Score=114.16 Aligned_cols=118 Identities=18% Similarity=0.140 Sum_probs=88.7
Q ss_pred cCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHhcccceeeeeeeEee----
Q 023003 162 SGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWV---- 237 (289)
Q Consensus 162 ~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~~~~~~~~GaSGai~---- 237 (289)
+.|.+|++||.|+|.+..|++..|...+.+-.-+|+..|..+..++|+++|+.|++++.++-++. +.+|-+|+=+
T Consensus 448 PdQfYRL~~SLFlHagviH~~vSi~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIFlpY~-~eVgPa~sQ~Gila 526 (652)
T KOG2290|consen 448 PDQFYRLWLSLFLHAGVIHLLVSICFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIFLPYR-AEVGPAGSQFGILA 526 (652)
T ss_pred hhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcchhhheeeecccccccchheeeeccc-cccCCcccccchHH
Confidence 57899999999999999999999999999999999999999999999999999999998887763 3466665432
Q ss_pred ---e--c-cc---chhHHHH--HHHHHHHHHhccCCCchhHHHHHHHHHHHHHHH
Q 023003 238 ---V--D-PS---RTPALGV--FLIGKDMLRIIEGNSNISGSAHLGGAAVAALAW 281 (289)
Q Consensus 238 ---l--~-p~---~~p~l~~--~~l~~~l~~~~~~~~~vs~~AHLgGal~G~l~~ 281 (289)
+ . .. .-|+-+. ++....++.+ .-.|.||++|||+|.+.|++..
T Consensus 527 ~l~vEl~qs~~il~~~w~a~~~Lia~~L~L~i-GliPWiDN~aHlfG~i~GLl~s 580 (652)
T KOG2290|consen 527 CLFVELFQSWQILERPWRAFFHLIATLLVLCI-GLIPWIDNWAHLFGTIFGLLTS 580 (652)
T ss_pred HHHHHHHhhhHhhhhHHHHHHHHHHHHHHHHh-ccccchhhHHHHHHHHHHHHHH
Confidence 1 1 11 1133111 1111111111 2258999999999999999853
No 9
>PF04511 DER1: Der1-like family; InterPro: IPR007599 The endoplasmic reticulum (ER) of the yeast Saccharomyces cerevisiae (Baker's yeast) contains a proteolytic system able to selectively degrade misfolded lumenal secretory proteins. For examination of the components involved in this degradation process, mutants were isolated. They could be divided into four complementation groups. The mutations led to stabilisation of two different substrates for this process, and the classes were called der for degradation in the ER. DER1 was cloned by complementation of the der1-2 mutation. The DER1 gene codes for a novel, hydrophobic protein that is localized to the ER. Deletion of DER1 abolished degradation of the substrate proteins, suggesting that the function of the Der1 protein may be specifically required for the degradation process associated with the ER []. Interestingly this family seems distantly related to the Rhomboid family of membrane peptidases. This family may also mediate degradation of misfolded proteins.
Probab=98.27 E-value=8.2e-06 Score=72.19 Aligned_cols=152 Identities=17% Similarity=0.114 Sum_probs=95.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhcChhHHHhccccccccc-ccCCcceeeecccccCCh-HHHHHHHHHHHHHHHHHhhh-c-
Q 023003 124 SEVVYGLIIANTAVFMLWRIADPKFMANNFTISLDNF-LSGRLHTLITSAFSHIDV-EHIVSNMIGLYFFGMSIGRT-L- 199 (289)
Q Consensus 124 ~~vt~~iI~inv~Vfll~~~~~~~~~~~~f~l~p~~i-~~g~~wrllTs~F~H~~~-~HLl~Nm~~L~~~G~~le~~-~- 199 (289)
|++|...++..+++.++....--+. .++.++++.+ .+.|+||++|+.|.-++. .+.++|++.++..++.+|+. .
T Consensus 2 PpVTR~~~~~~~~~s~l~~~~~~~~--~~l~~~~~~v~~~~q~WRl~Tsff~~g~~~~~~l~~~~~l~~~s~~LE~~~f~ 79 (197)
T PF04511_consen 2 PPVTRYWLISTVALSLLVSFGIISP--YYLYFDWELVFKKFQIWRLFTSFFYFGPFSLNFLFNLYFLYQYSSSLEEGHFQ 79 (197)
T ss_pred ChhHHHHHHHHHHHHHHHHCCCCCH--HHeeECcHHHhhhcCceeeEEEEEEEcCCCHHHHHHHHHHHHHhhHhccCCCC
Confidence 5688888888888877766532111 2344667665 578999999999986554 69999999999999999998 2
Q ss_pred Ch-hHHHHHHHHHHHHHHHHHHHHhcc-cc-eeeeee------------------eEeeecccchhHHHHHHHHHHHHHh
Q 023003 200 GP-EYLLKLYMAGAIGGSVFYLVYHAF-LA-MSSKRQ------------------GMWVVDPSRTPALGVFLIGKDMLRI 258 (289)
Q Consensus 200 G~-~~fl~lyl~~gi~g~l~~~l~~~~-~~-~~~GaS------------------Gai~l~p~~~p~l~~~~l~~~l~~~ 258 (289)
++ .+++...+.+++.-.+...+.... .. ..+|.+ ....+.+.+.+.+-.+.++.+++.
T Consensus 80 ~~~ady~~~ll~~~~~i~~~~~~~~~~~~~~~~l~~~l~~~l~Y~wsr~np~~~v~~~g~~~i~a~ylP~~~~~~~~l~- 158 (197)
T PF04511_consen 80 GRSADYLWFLLFGASLILILSLLIGPYFFNIPFLGSSLSFALTYIWSRKNPNAQVSFFGLFTIKAKYLPWVLLAFSLLF- 158 (197)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHhCcccceeeEEEEEEChhhHHHHHHHHHHHh-
Confidence 33 467766665555554444432211 00 001110 001112345555556666666652
Q ss_pred ccCCCchhHHHHHHHHHHHHHHHH
Q 023003 259 IEGNSNISGSAHLGGAAVAALAWA 282 (289)
Q Consensus 259 ~~~~~~vs~~AHLgGal~G~l~~~ 282 (289)
+. -+...++-|+++|.+|..
T Consensus 159 --~~--~~~~~~l~Gi~~Ghly~f 178 (197)
T PF04511_consen 159 --GG--SSPIPDLLGILVGHLYYF 178 (197)
T ss_pred --CC--CcHHHHHHHHHHHHHHHH
Confidence 12 245699999999999764
No 10
>PF08551 DUF1751: Eukaryotic integral membrane protein (DUF1751); InterPro: IPR013861 This entry is found in eukaryotic integral membrane proteins. Q12239 from SWISSPROT, a Saccharomyces cerevisiae (Baker's yeast) protein, has been shown to localise COP II vesicles [].
Probab=98.01 E-value=5.4e-06 Score=65.79 Aligned_cols=60 Identities=15% Similarity=0.274 Sum_probs=55.0
Q ss_pred CcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHh
Q 023003 164 RLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVYH 223 (289)
Q Consensus 164 ~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~~ 223 (289)
++|+++|+.|++.++..++.|.+.++..|+.+|+.+|++.++.++++..+.+++...+..
T Consensus 7 ~pWtl~T~~fve~~i~~~l~~~~~l~~~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~~ 66 (99)
T PF08551_consen 7 YPWTLFTAGFVETNIIGLLFSLLTLFYGGRYLEPIWGSREFLKFILVVNVITNLLTFLLY 66 (99)
T ss_pred ehHHHHHHHHHHhHHHHHHHHHHHHHHhhHHHHHhcChHHHHHHHHHHHHHhHHHHHHHH
Confidence 789999999999999999999999999999999999999999999988888887765543
No 11
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=97.73 E-value=8.5e-05 Score=67.26 Aligned_cols=103 Identities=16% Similarity=0.035 Sum_probs=75.1
Q ss_pred HHHHHhhcCChHHHHHHHHHHHHHHHHHHhcChhHHHhccccccccc-ccCCcceeeecccccCC-hHHHHHHHHHHHHH
Q 023003 114 WRSWLRQYGSSEVVYGLIIANTAVFMLWRIADPKFMANNFTISLDNF-LSGRLHTLITSAFSHID-VEHIVSNMIGLYFF 191 (289)
Q Consensus 114 ~~~~~~~l~~~~vt~~iI~inv~Vfll~~~~~~~~~~~~f~l~p~~i-~~g~~wrllTs~F~H~~-~~HLl~Nm~~L~~~ 191 (289)
...|+.+ .|++|.....+|+++=++.++.--+- .++.++|+.+ .+.|+||++|+.+.-+. -+|.++||+.++--
T Consensus 5 l~~~~~~--iPpVTR~~~~~~v~tt~~~~l~lIsP--~~l~~~p~Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY 80 (239)
T KOG0858|consen 5 LLNFYLQ--IPPVTRYYTTACVVTTLLVRLDLISP--FQLYLNPELVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRY 80 (239)
T ss_pred HHHHHhc--CChHHHHHHHHHHHHHHHHhhcccCc--hheEecHHHHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHH
Confidence 3456777 45688888888888777766531110 1345677655 67899999999999876 79999999999999
Q ss_pred HHHHhhhc-C--hhHHHHHHHHHHHHHHHHHH
Q 023003 192 GMSIGRTL-G--PEYLLKLYMAGAIGGSVFYL 220 (289)
Q Consensus 192 G~~le~~~-G--~~~fl~lyl~~gi~g~l~~~ 220 (289)
++.+|+-. . +.+|+...+.+++.-.+..+
T Consensus 81 ~~~LE~g~f~~rtadf~~mllf~~~l~~~~~~ 112 (239)
T KOG0858|consen 81 SSMLEEGSFRGRTADFLYMLLFGAVLLTLTGL 112 (239)
T ss_pred HHHHhcCCCCCchhHHHHHHHHHHHHHHHHHH
Confidence 99999943 2 36788777777766655443
No 12
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=95.94 E-value=0.014 Score=54.84 Aligned_cols=53 Identities=25% Similarity=0.246 Sum_probs=47.3
Q ss_pred CcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHH
Q 023003 164 RLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGS 216 (289)
Q Consensus 164 ~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~ 216 (289)
.+|+++|+.|+-.+++-.+.|.+.|.+-|..+|..+|...++.+|.+.-.+.+
T Consensus 66 ~~WtliTs~fie~~vw~V~~sv~~L~v~G~~lEp~Wg~~e~lkff~ivn~~~~ 118 (326)
T KOG2890|consen 66 FPWTLITSGFIELNVWDVLVSVLTLSVGGKFLEPNWGSLELLKFFAIVNGSTT 118 (326)
T ss_pred hhHHHHhcchhhhhHHHHHHHHHheeecceeeccCCCCHHHHHHHHHhhchhH
Confidence 68999999999999999999999999999999999999999988875433333
No 13
>COG5291 Predicted membrane protein [Function unknown]
Probab=92.69 E-value=0.45 Score=43.76 Aligned_cols=47 Identities=13% Similarity=0.046 Sum_probs=37.8
Q ss_pred cccccccCCcceeeecccccCC-hHHHHHHHHHHHHHHHHHhh-hcChh
Q 023003 156 SLDNFLSGRLHTLITSAFSHID-VEHIVSNMIGLYFFGMSIGR-TLGPE 202 (289)
Q Consensus 156 ~p~~i~~g~~wrllTs~F~H~~-~~HLl~Nm~~L~~~G~~le~-~~G~~ 202 (289)
+|-.+.+-|+||++|+...-.+ -+..++|.+.+|--.+.+|+ .+++.
T Consensus 51 ~pL~~k~~qiwRlfTs~~~~~~~~~d~~M~vyf~Y~yS~~LE~g~f~~~ 99 (313)
T COG5291 51 SPLFLKRLQIWRLFTSFLYFGKPTLDMFMHVYFLYRYSRMLEEGCFNTS 99 (313)
T ss_pred chhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHHhccccCcc
Confidence 4545567899999998777764 68899999999999999998 34543
No 14
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.86 E-value=0.17 Score=46.93 Aligned_cols=60 Identities=15% Similarity=0.233 Sum_probs=52.1
Q ss_pred cCCcceeeecccccCChHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHH
Q 023003 162 SGRLHTLITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAGAIGGSVFYLVY 222 (289)
Q Consensus 162 ~g~~wrllTs~F~H~~~~HLl~Nm~~L~~~G~~le~~~G~~~fl~lyl~~gi~g~l~~~l~ 222 (289)
..|+||++.+.|.-.+-..++.-++.+|.+ +.+|+.+|+.+|..+.+.++..+.++.+++
T Consensus 48 y~qywrlL~~qF~~~n~~e~~~~l~I~Y~f-R~~ERlLGShky~~fiv~s~~~~~l~~~il 107 (323)
T KOG4463|consen 48 YFQYWRLLMSQFAFSNTPELMFGLYILYYF-RVFERLLGSHKYSVFIVFSGTVSLLLEVIL 107 (323)
T ss_pred HHHHHHHHHHHHHhcCChHHHHHHHHHHHH-HHHHHHhccccceeehhHHHHHHHHHHHHH
Confidence 369999999999999999988888877766 889999999999999998888888776554
No 15
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=35.06 E-value=1.5e+02 Score=20.29 Aligned_cols=43 Identities=9% Similarity=0.256 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCh-hHHHHHHHHHHHHHHHHHHH
Q 023003 179 EHIVSNMIGLYFFGMSIGRTLGP-EYLLKLYMAGAIGGSVFYLV 221 (289)
Q Consensus 179 ~HLl~Nm~~L~~~G~~le~~~G~-~~fl~lyl~~gi~g~l~~~l 221 (289)
..++.+++.-..+|..+++.+|+ ..+..+.++-|+.+++....
T Consensus 8 ~~~~~~i~~g~~~G~~lD~~~~t~p~~~~~g~llG~~~g~~~~~ 51 (55)
T PF09527_consen 8 FTMAAPILVGFFLGYWLDKWFGTSPWFTLIGLLLGIAAGFYNVY 51 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHH
Confidence 35677888889999999999999 45666666777777766543
No 16
>PF10542 Vitelline_membr: Vitelline membrane cysteine-rich region; InterPro: IPR013135 In Drosophila melanogaster (Fruit fly) the vitelline membrane (VM) is the first layer of the eggshell produced by the follicular epithelium. It is composed of at least four different proteins. VM proteins are similarly organised with a central highly conserved 38-amino acid domain which is flanked by unrelated regions. Since the surrounding regions have diverged significantly, it is possible that the VM domain is of key importance in VM protein structure [, ]. The VM domain contains three highly conserved cysteines.
Probab=30.61 E-value=24 Score=22.89 Aligned_cols=19 Identities=42% Similarity=0.896 Sum_probs=15.9
Q ss_pred CCCcccccCCccccCCCCccCCC
Q 023003 19 NPTNFTFSKPFTCHPNVQKRPLS 41 (289)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~ 41 (289)
-|+|-+|| |+|.....|-.
T Consensus 7 CpknY~FS----Cqp~l~PvPC~ 25 (38)
T PF10542_consen 7 CPKNYVFS----CQPVLKPVPCS 25 (38)
T ss_pred CCcceeEe----cccccccccCC
Confidence 47899998 99998888766
No 17
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=26.18 E-value=1.1e+02 Score=24.92 Aligned_cols=25 Identities=24% Similarity=0.085 Sum_probs=17.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhcC
Q 023003 263 SNISGSAHLGGAAVAALAWARIRRR 287 (289)
Q Consensus 263 ~~vs~~AHLgGal~G~l~~~~lrkg 287 (289)
+..+..+-+.|++.|+++.++++|+
T Consensus 96 e~~~~l~~l~~l~~~~~~~~~~~~~ 120 (135)
T PF04246_consen 96 ELWAILGGLLGLALGFLILRLFDRR 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4556677777777888877776654
No 18
>PF08031 BBE: Berberine and berberine like ; InterPro: IPR012951 This domain is found in the berberine bridge and berberine bridge-like enzymes, which are involved in the biosynthesis of numerous isoquinoline alkaloids. They catalyse the transformation of the N-methyl group of (S)-reticuline into the C-8 berberine bridge carbon of (S)-scoulerine [].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 2IPI_A 2Y3S_A 2Y3R_D 2Y08_B 2Y4G_A 3D2H_A 3FW9_A 3FW8_A 3FWA_A 3D2J_A ....
Probab=25.19 E-value=35 Score=22.97 Aligned_cols=21 Identities=24% Similarity=0.415 Sum_probs=15.4
Q ss_pred cccchhhhhhhccccccCCCc
Q 023003 2 QRLLSLKQLASKSNFLKNPTN 22 (289)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~ 22 (289)
+||..+|+.=|..|+|.++.|
T Consensus 25 ~rL~~iK~~yDP~n~F~~~q~ 45 (47)
T PF08031_consen 25 DRLRAIKRKYDPDNVFRFPQS 45 (47)
T ss_dssp HHHHHHHHHH-TT-TS-STTS
T ss_pred HHHHHHHHHhCccceeCCCCC
Confidence 589999999999998887754
No 19
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=21.08 E-value=41 Score=26.41 Aligned_cols=17 Identities=29% Similarity=0.386 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHhcCC
Q 023003 272 GGAAVAALAWARIRRRG 288 (289)
Q Consensus 272 gGal~G~l~~~~lrkgr 288 (289)
-|+++|++.|++++|+|
T Consensus 79 v~~lv~~l~w~f~~r~k 95 (96)
T PTZ00382 79 VGGLVGFLCWWFVCRGK 95 (96)
T ss_pred HHHHHHHHhheeEEeec
Confidence 34556677677666655
Done!