Query 021954
Match_columns 305
No_of_seqs 227 out of 1518
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 06:54:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021954.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021954hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00101 rhomboid-1 protease; 100.0 1.3E-27 2.8E-32 223.1 18.2 171 128-298 50-232 (278)
2 PRK10907 intramembrane serine 99.9 4.1E-27 9E-32 219.8 17.3 170 129-301 92-265 (276)
3 COG0705 Membrane associated se 99.9 2.6E-23 5.6E-28 188.4 16.7 170 130-299 16-204 (228)
4 KOG2289 Rhomboid family protei 99.9 5.1E-23 1.1E-27 194.3 5.7 135 158-293 106-241 (316)
5 PF01694 Rhomboid: Rhomboid fa 99.8 1.6E-21 3.5E-26 163.3 4.9 135 166-301 1-137 (145)
6 KOG2632 Rhomboid family protei 99.7 5.4E-17 1.2E-21 148.6 13.3 172 128-302 12-194 (258)
7 KOG2290 Rhomboid family protei 99.5 1.4E-14 3.1E-19 140.7 5.0 131 168-300 448-579 (652)
8 KOG2980 Integral membrane prot 98.9 7.8E-10 1.7E-14 103.5 3.1 167 133-301 117-296 (310)
9 PF04511 DER1: Der1-like famil 98.8 6E-08 1.3E-12 86.6 10.6 165 131-301 2-175 (197)
10 PF08551 DUF1751: Eukaryotic i 98.3 4.1E-07 8.9E-12 72.9 3.5 76 170-245 7-95 (99)
11 KOG0858 Predicted membrane pro 98.3 3E-06 6.5E-11 77.3 8.1 98 129-226 11-112 (239)
12 COG5291 Predicted membrane pro 96.9 0.0025 5.4E-08 58.7 6.6 89 130-218 19-111 (313)
13 KOG2890 Predicted membrane pro 96.8 0.0043 9.2E-08 58.8 7.9 86 169-254 65-163 (326)
14 KOG4463 Uncharacterized conser 94.8 0.035 7.6E-07 51.8 4.2 95 131-227 11-106 (323)
15 COG0705 Membrane associated se 59.6 29 0.00062 31.1 6.4 78 165-255 134-211 (228)
16 PF09527 ATPase_gene1: Putativ 51.2 81 0.0018 21.9 6.4 43 185-227 8-51 (55)
17 PF04892 VanZ: VanZ like famil 34.5 2.4E+02 0.0052 22.5 10.2 71 182-252 49-129 (133)
18 PF03419 Peptidase_U4: Sporula 33.3 2.4E+02 0.0052 26.4 8.4 38 185-226 11-48 (293)
19 TIGR02854 spore_II_GA sigma-E 29.6 4.4E+02 0.0094 24.9 9.4 38 185-226 11-48 (288)
20 TIGR02230 ATPase_gene1 F0F1-AT 23.7 3.2E+02 0.0068 22.0 6.2 43 185-227 50-93 (100)
21 KOG1734 Predicted RING-contain 23.7 6.6E+02 0.014 24.1 11.4 51 163-221 94-151 (328)
No 1
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.95 E-value=1.3e-27 Score=223.12 Aligned_cols=171 Identities=23% Similarity=0.288 Sum_probs=132.1
Q ss_pred cCChHHHHHHHHHHHHHHHHHHhch---------HHHHHhhhccccccccCCcchhhhhccccCCHHHHHHHHHHHHHHH
Q 021954 128 FIGRQWTNILLAVNVLVYIAQFATQ---------DKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIG 198 (305)
Q Consensus 128 ~~~~pvT~~LI~i~vlvfll~~~~~---------~~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G 198 (305)
.+.+.+|..++++++++|++..... ..+..+|++.+..+.++||||++|++|+|.++.|+++||+.++.+|
T Consensus 50 f~i~~l~~~Iiii~iivfil~l~~~~~~~l~p~~~~L~~~Ga~~~~~i~~gq~WRLiT~~FlH~~~~HLl~Nm~~l~~~G 129 (278)
T PTZ00101 50 FTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVTLGANVASRIKQGEIHRLILPIFLHANIFHTFFNVFFQLRMG 129 (278)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHhCcchhhhhcCCCHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 4567889999999999999876521 2567788888888889999999999999999999999999999999
Q ss_pred HHHHHhcchhHHHHHHHHHHHHHHHHHHHhcC-CceechHHHHHHHHHHHHHHHHhhhhhccCchhHHHHHHHHHHH--H
Q 021954 199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIF--N 275 (305)
Q Consensus 199 ~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vGaSGaVfGLlga~~~l~~~~~~~~~~~~~~l~~i~~~l~l--~ 275 (305)
..+|+.+|++|++.+|++||+.|++++..+.+ ..++||||++||++|++.......+.....+......+....++ .
T Consensus 130 ~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~~~~svGASgAifGLiGa~~~~lil~w~~~~~~~~~~~~~i~~~li~~~ 209 (278)
T PTZ00101 130 FTLEKNYGIVKIIILYFLTGIYGNILSSSVTYCPIKVGASTSGMGLLGIVTSELILLWHVIRHRERVVFNIIFFSLISFF 209 (278)
T ss_pred HHHHHHHChHHHHHHHHHHHHHHHHHHHHHccCCcEEehhHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999987754 56899999999999999865544443222211111111122222 1
Q ss_pred HHHHhccCChhhHhcchhhHHHH
Q 021954 276 MAIGLLIKGIDNWGHDMPGRRVP 298 (305)
Q Consensus 276 lv~gll~~~i~~~aHLGGa~~~~ 298 (305)
+...+..+++|++||+||.+.|.
T Consensus 210 l~~~~~g~~Id~~aHlGG~i~G~ 232 (278)
T PTZ00101 210 YYFTFNGSNIDHVGHLGGLLSGI 232 (278)
T ss_pred HHHhcCCCCccHHHHHHHHHHHH
Confidence 22234468899999999954443
No 2
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.95 E-value=4.1e-27 Score=219.82 Aligned_cols=170 Identities=21% Similarity=0.163 Sum_probs=129.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHhchH-HHHHhhhccccccccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcch
Q 021954 129 IGRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP 207 (305)
Q Consensus 129 ~~~pvT~~LI~i~vlvfll~~~~~~-~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~ 207 (305)
+..|+|..++++|+++|++.....+ ....+...+.....++||||++|++|+|.|+.|+++||+++|.+|..+|+.+|+
T Consensus 92 ~~~p~T~~li~i~i~vf~l~~~~~~~~~~~~l~~~~~~~~~~q~WRl~T~~flH~~~~Hl~fNml~l~~lG~~iE~~~G~ 171 (276)
T PRK10907 92 RAGPLTLGVMIACVVVFILMQILGDQTVMLWLAWPFDPSLKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGS 171 (276)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhccHHHHHHHhccccccccCCcHHHHhHHHHhCCHHHHHHHHHHHHHHHHHHHHHHCh
Confidence 3567999999999999999876543 233343333344568999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchhHHHHHHHHHHHHHH---HHhccCC
Q 021954 208 RRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMA---IGLLIKG 284 (305)
Q Consensus 208 ~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaVfGLlga~~~l~~~~~~~~~~~~~~l~~i~~~l~l~lv---~gll~~~ 284 (305)
++++.+|+++++.|+++++++.+...+|+||+|||++|+......+.+......++ .+..++++.++ .+++.++
T Consensus 172 ~~~l~l~l~s~i~~~~~~~~~~~~~~gGaSGvVygL~g~~~~~~~~~p~~~~~lp~---~~~~f~llwl~~g~~~~~g~~ 248 (276)
T PRK10907 172 GKLIVITLISALLSGWVQSKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLPR---GLIAFALLWLVAGYFDLFGMS 248 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHHhccccccchhhhH---HHHHHHHHHHHHHHHHccCcc
Confidence 99999999999999999998887789999999999999866554333321111111 22222222233 3455678
Q ss_pred hhhHhcchhhHHHHHhH
Q 021954 285 IDNWGHDMPGRRVPLQL 301 (305)
Q Consensus 285 i~~~aHLGGa~~~~~~a 301 (305)
|+|+||+||.+.|...+
T Consensus 249 Ian~AHlgGli~Gll~g 265 (276)
T PRK10907 249 IANAAHVAGLAVGLAMA 265 (276)
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 99999999966555543
No 3
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.91 E-value=2.6e-23 Score=188.36 Aligned_cols=170 Identities=27% Similarity=0.378 Sum_probs=131.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHhchHH-HHH-------hhhccccccccC---CcchhhhhccccCCHHHHHHHHHHHHHHH
Q 021954 130 GRQWTNILLAVNVLVYIAQFATQDK-LLL-------WGAKINSLIDKG---QFWRLATSAFLHANIAHLMVNCYSLNSIG 198 (305)
Q Consensus 130 ~~pvT~~LI~i~vlvfll~~~~~~~-l~~-------~g~~~~~~i~~g---q~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G 198 (305)
.++.|..++.+|+++|..+...... ... .+..+....... |+||++|++|+|.|+.|+++||+.+|.+|
T Consensus 16 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lit~~FlH~~~~Hll~N~~~l~~fg 95 (228)
T COG0705 16 APPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLHAGFLHLLFNMLALWVFG 95 (228)
T ss_pred cchHHHHHHHHHHHHHHHHHHccchHHHHHHHhhhHHhhcchhhhccccccchHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence 5788999999999999999765432 111 222222222111 89999999999999999999999999999
Q ss_pred HHHHHhcchhHHHHHHHHHHHHHHHHHHHhcC---CceechHHHHHHHHHHHHHHHHhhhhhccC---chhHHHHHHHHH
Q 021954 199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN---SPAVGASGAIFGLVGSFAVFIMRHRNILGG---GKEELQHLAKVI 272 (305)
Q Consensus 199 ~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~---~~~vGaSGaVfGLlga~~~l~~~~~~~~~~---~~~~l~~i~~~l 272 (305)
..+|+..|+.+|+.+|+++|+++++.+..+.+ .+.+||||+++|++++++...+..+..... ++.....+..++
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 99999999999999999999999999988874 369999999999999999999998754333 233334444455
Q ss_pred HHHHHHHhccC--ChhhHhcchhhHHHHH
Q 021954 273 IFNMAIGLLIK--GIDNWGHDMPGRRVPL 299 (305)
Q Consensus 273 ~l~lv~gll~~--~i~~~aHLGGa~~~~~ 299 (305)
..+++...... +++++||++|.+.+..
T Consensus 176 ~~~~~~~~~~~~~~va~~aHl~G~i~G~l 204 (228)
T COG0705 176 LYSLFSGAGSFGPSVAWSAHLGGLIGGLL 204 (228)
T ss_pred HHHHHHHhcCCchHHHHHHHHHHHHHHHH
Confidence 55555554443 6999999999655544
No 4
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.87 E-value=5.1e-23 Score=194.33 Aligned_cols=135 Identities=32% Similarity=0.483 Sum_probs=121.1
Q ss_pred hhhccccccccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhcC-Cceech
Q 021954 158 WGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGA 236 (305)
Q Consensus 158 ~g~~~~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vGa 236 (305)
++......++++|+||++|++|+|+|+.||++||+.+.++|..+|+..|.+|+..+|++++++|++++.++.+ ..+|||
T Consensus 106 ~~~~i~~~~~r~E~WRllTym~LHaGi~HL~~N~~~ql~iGi~LE~~~G~~RiglIYl~gg~aGSlls~l~d~~~~sVGA 185 (316)
T KOG2289|consen 106 GGLLIYKPVHRGELWRLLTYMWLHAGIFHLLLNMLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLFDPNSISVGA 185 (316)
T ss_pred CCceecChhhhchhHHHHHHHHHhcCHHHHHHHHHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHhccCCceecc
Confidence 3445566778999999999999999999999999999999999999999999999999999999999999986 569999
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccCchhHHHHHHHHHHHHHHHHhccCChhhHhcchh
Q 021954 237 SGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMAIGLLIKGIDNWGHDMP 293 (305)
Q Consensus 237 SGaVfGLlga~~~l~~~~~~~~~~~~~~l~~i~~~l~l~lv~gll~~~i~~~aHLGG 293 (305)
||++|||+|+...-...++..+......+..++.++.+++-+|+. +.+|+++|+||
T Consensus 186 SggvfaLlgA~Ls~l~~Nw~~m~~~~~~l~~ll~Ii~i~l~~G~~-~~~~~~~h~gg 241 (316)
T KOG2289|consen 186 SGGVFALLGAHLSNLLTNWTIMKNKFAALRTLLIIIFINLDLGFA-PYVDNFAHIGG 241 (316)
T ss_pred cHHHHHHHHHHHHHHHhhHHHhcchHHHHHHHHHHHHHHHhhccc-cceeccccccc
Confidence 999999999999999999988877655677777777888888886 46899999998
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=99.84 E-value=1.6e-21 Score=163.34 Aligned_cols=135 Identities=35% Similarity=0.506 Sum_probs=99.4
Q ss_pred cccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhcCC--ceechHHHHHHH
Q 021954 166 IDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNS--PAVGASGAIFGL 243 (305)
Q Consensus 166 i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~~--~~vGaSGaVfGL 243 (305)
++++|+||++|++|+|.|+.|+++|++.++.+|..+|+.+|+++++.+|+.+++.+++...+..+. +.+|+||+++|+
T Consensus 1 ~~~~~~wrl~T~~f~h~~~~hl~~n~~~l~~~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~G~Sg~~~~l 80 (145)
T PF01694_consen 1 VQNGQWWRLFTSPFVHANFLHLLFNLLALWFFGSLLERRLGSRRFLALYLLSGLLGSLLSLLFSPPNQPYVGASGAVFGL 80 (145)
T ss_dssp -GCC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S-----SSHHHHHHH
T ss_pred CCCCcchhhhHHHHHccCHHHHHHHHHHHHHhhhhHhhhccchHHHHHHHHHHHhhhhccccccccccccCCCcccchHH
Confidence 368999999999999999999999999999999999999999999999999999999999887653 599999999999
Q ss_pred HHHHHHHHHhhhhhccCchhHHHHHHHHHHHHHHHHhccCChhhHhcchhhHHHHHhH
Q 021954 244 VGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMAIGLLIKGIDNWGHDMPGRRVPLQL 301 (305)
Q Consensus 244 lga~~~l~~~~~~~~~~~~~~l~~i~~~l~l~lv~gll~~~i~~~aHLGGa~~~~~~a 301 (305)
+++.+...+++++...............+.+.+..+. .+++++.+|++|+..|....
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~hl~G~~~G~~~~ 137 (145)
T PF01694_consen 81 LGAFLFLYPQNKKRLRFIYLALVVPIIVLVIILLLGF-IPNISFLGHLGGFLAGLLYG 137 (145)
T ss_dssp HHHHHHHHHCCCCCS---HCCCCCCCCCCCHHHCTSS-SSTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHH-HHhHHHHHHHHHHHHHHHHH
Confidence 9999999998864333211111111111222222223 68999999999966665443
No 6
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=99.72 E-value=5.4e-17 Score=148.56 Aligned_cols=172 Identities=20% Similarity=0.209 Sum_probs=133.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcc-
Q 021954 128 FIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICG- 206 (305)
Q Consensus 128 ~~~~pvT~~LI~i~vlvfll~~~~~~~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G- 206 (305)
-+.+.+|..+..++.++|+......-. ..++ .......+.|.||++||+++|.+..|+++||+++|..|..+|+..|
T Consensus 12 ~~~p~~ts~~~~~~~~i~lv~~~~~i~-~~~~-l~~~~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~~G~ 89 (258)
T KOG2632|consen 12 MKIPLLTSIVVVLAILIYLVSFFPGIV-EVLG-LPSELLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERTHGT 89 (258)
T ss_pred ccchHHHHHHHHHHHHHHHHhccchhh-hHhc-CCHHHhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhhccc
Confidence 445788999999999999988776433 3333 3445667899999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhc----------CCceechHHHHHHHHHHHHHHHHhhhhhccCchhHHHHHHHHHHHHH
Q 021954 207 PRRYLGVYFSSAIASSAMSYRFC----------NSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNM 276 (305)
Q Consensus 207 ~~~fl~lyl~sgi~g~l~s~l~~----------~~~~vGaSGaVfGLlga~~~l~~~~~~~~~~~~~~l~~i~~~l~l~l 276 (305)
+.+++....+.+++.+++.++.. ....+|.||+.|++++......+.++..++..- .........+...
T Consensus 90 t~~~l~~~~llalf~gIl~ll~~~~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~sp~r~~~~fg~~-siP~~l~Pw~lLi 168 (258)
T KOG2632|consen 90 TVRILMFTVLLALFSGILYLLAYHVFLLSDLVYVEGAIGFSGVLFAMMAVLEVQSPVRSRSVFGLF-SIPIVLAPWALLI 168 (258)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhcccccccHHHHHHHHHHhhcCcccchhhcccc-cccHHHHHHHHHH
Confidence 88999888899999988876643 245799999999999998888877774433321 1122222233334
Q ss_pred HHHhccCChhhHhcchhhHHHHHhHh
Q 021954 277 AIGLLIKGIDNWGHDMPGRRVPLQLL 302 (305)
Q Consensus 277 v~gll~~~i~~~aHLGGa~~~~~~a~ 302 (305)
...++.|+.|++||++|..++..-++
T Consensus 169 ~~~~lvp~aSFlghl~GllvG~ay~~ 194 (258)
T KOG2632|consen 169 ATQILVPQASFLGHLCGLLVGYAYAF 194 (258)
T ss_pred HHHHHccCchHHHHHHHHHHHHHHHH
Confidence 45577899999999999777766555
No 7
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.50 E-value=1.4e-14 Score=140.66 Aligned_cols=131 Identities=31% Similarity=0.451 Sum_probs=110.4
Q ss_pred cCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhcC-CceechHHHHHHHHHH
Q 021954 168 KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGS 246 (305)
Q Consensus 168 ~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vGaSGaVfGLlga 246 (305)
..|+||++|+.|+|+++.|++..+...+.+..-+|+..|+.|..++|++||+.||+++.++.+ .+.||.||+-+|+++.
T Consensus 448 PdQfYRL~~SLFlHagviH~~vSi~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIFlpY~~eVgPa~sQ~Gila~ 527 (652)
T KOG2290|consen 448 PDQFYRLWLSLFLHAGVIHLLVSICFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIFLPYRAEVGPAGSQFGILAC 527 (652)
T ss_pred hhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcchhhheeeecccccccchheeeeccccccCCcccccchHHH
Confidence 569999999999999999999999999999999999999999999999999999999999876 5799999999999999
Q ss_pred HHHHHHhhhhhccCchhHHHHHHHHHHHHHHHHhccCChhhHhcchhhHHHHHh
Q 021954 247 FAVFIMRHRNILGGGKEELQHLAKVIIFNMAIGLLIKGIDNWGHDMPGRRVPLQ 300 (305)
Q Consensus 247 ~~~l~~~~~~~~~~~~~~l~~i~~~l~l~lv~gll~~~i~~~aHLGGa~~~~~~ 300 (305)
..+-.++.|.++..+......+++. .+.+.+|++ |.||||+|+.|.+.|...
T Consensus 528 l~vEl~qs~~il~~~w~a~~~Lia~-~L~L~iGli-PWiDN~aHlfG~i~GLl~ 579 (652)
T KOG2290|consen 528 LFVELFQSWQILERPWRAFFHLIAT-LLVLCIGLI-PWIDNWAHLFGTIFGLLT 579 (652)
T ss_pred HHHHHHhhhHhhhhHHHHHHHHHHH-HHHHHhccc-cchhhHHHHHHHHHHHHH
Confidence 9999999998777643333333333 333445664 789999999996665543
No 8
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=98.89 E-value=7.8e-10 Score=103.50 Aligned_cols=167 Identities=18% Similarity=0.178 Sum_probs=116.4
Q ss_pred HHHHHHHHHHHHHHHHHhchHH--HHHhhhccccccccCCcchhhhhccccCCHHHHHHHHHHHHHHHH-HHHHhcchhH
Q 021954 133 WTNILLAVNVLVYIAQFATQDK--LLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGP-TMEKICGPRR 209 (305)
Q Consensus 133 vT~~LI~i~vlvfll~~~~~~~--l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~-~lE~~~G~~~ 209 (305)
+...++++|+.+|.+|.+.... ...|..+.+ ....-.|.++++.|.|.+.+|+..||+.++.+.. .+....|...
T Consensus 117 ~v~~ll~~n~~vf~lWrv~~~~~~~~~~mls~~--~~~t~~w~i~~s~Fsh~~a~h~g~~~~~~~~y~~~a~~~~~~~~~ 194 (310)
T KOG2980|consen 117 VVFGLLIANAFVFTLWRVPQKQFTMIPWMLSRN--AYKTGCWKIILSTFSHYSALHLGPNMLVLKSYLAGALKGSLGFSS 194 (310)
T ss_pred chhHHHHHHHHHHHHHHhcchhhhhhhHHhhcc--cccccceeEEeehhcchhHhhhcHHHHHHHHHhcccccCCcchhh
Confidence 7888999999999999987542 344443322 2344567799999999999999999999999988 7888899999
Q ss_pred HHHHHHHHHHHHHHHHHHhc-----CCceechHHHHHHHHHHHHHHHHhhhhhccCc-hhHH--HHHH-HHHHHHHHHHh
Q 021954 210 YLGVYFSSAIASSAMSYRFC-----NSPAVGASGAIFGLVGSFAVFIMRHRNILGGG-KEEL--QHLA-KVIIFNMAIGL 280 (305)
Q Consensus 210 fl~lyl~sgi~g~l~s~l~~-----~~~~vGaSGaVfGLlga~~~l~~~~~~~~~~~-~~~l--~~i~-~~l~l~lv~gl 280 (305)
+.++|+.++..+........ ..+..||||+++++++..+.++|+.+..+... +... ...+ .++...+..-.
T Consensus 195 ~~AlylSa~~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~~lfP~~~~~i~f~~~v~~ga~~~~~~i~~~~~a~~~ 274 (310)
T KOG2980|consen 195 FFALYLSAGVKGLFISVKDKVPTSWAGPSLGASGAVYAILALDCTLFPKTTLYILFVFPVPAGAGLAFKAIAAYDFAGLI 274 (310)
T ss_pred cccceeccccccceeEeeccccccccccccccchHHHHHHHHHhhcCcCcceeEEEeecccccchhHHHHHHHhhhccee
Confidence 99999955566555544321 25689999999999999999999888544432 1111 1111 11111111111
Q ss_pred c-cCChhhHhcchhhHHHHHhH
Q 021954 281 L-IKGIDNWGHDMPGRRVPLQL 301 (305)
Q Consensus 281 l-~~~i~~~aHLGGa~~~~~~a 301 (305)
+ ...-|+.+|++|.+.++-.+
T Consensus 275 l~~~~~n~~Ah~~gsl~Gv~va 296 (310)
T KOG2980|consen 275 LGWGFFNHAAHLSGSLFGVVVA 296 (310)
T ss_pred eccccchhHhhhcchHHHHHHH
Confidence 1 24567889999987776544
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=98.76 E-value=6e-08 Score=86.64 Aligned_cols=165 Identities=19% Similarity=0.121 Sum_probs=105.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchhhhhccccCCH-HHHHHHHHHHHHHHHHHHHh-cc-h
Q 021954 131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANI-AHLMVNCYSLNSIGPTMEKI-CG-P 207 (305)
Q Consensus 131 ~pvT~~LI~i~vlvfll~~~~~~~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~-~HLl~Nm~~L~~~G~~lE~~-~G-~ 207 (305)
||+|+.+++.++++.++.........+....++..+++.|+||++|+.|.-++. .++++|++.++..++.+|+. +. +
T Consensus 2 PpVTR~~~~~~~~~s~l~~~~~~~~~~l~~~~~~v~~~~q~WRl~Tsff~~g~~~~~~l~~~~~l~~~s~~LE~~~f~~~ 81 (197)
T PF04511_consen 2 PPVTRYWLISTVALSLLVSFGIISPYYLYFDWELVFKKFQIWRLFTSFFYFGPFSLNFLFNLYFLYQYSSSLEEGHFQGR 81 (197)
T ss_pred ChhHHHHHHHHHHHHHHHHCCCCCHHHeeECcHHHhhhcCceeeEEEEEEEcCCCHHHHHHHHHHHHHhhHhccCCCCCC
Confidence 689999999999999888776444444445556666789999999999987766 79999999999999999998 32 3
Q ss_pred -hHHHHHHHHHHHHHHHHHHHhcCC----ceechHHHHHHHHHHHHHHHHhhhh-hccCchhHHHHHHHHHHHHHHHHhc
Q 021954 208 -RRYLGVYFSSAIASSAMSYRFCNS----PAVGASGAIFGLVGSFAVFIMRHRN-ILGGGKEELQHLAKVIIFNMAIGLL 281 (305)
Q Consensus 208 -~~fl~lyl~sgi~g~l~s~l~~~~----~~vGaSGaVfGLlga~~~l~~~~~~-~~~~~~~~l~~i~~~l~l~lv~gll 281 (305)
.+|+...+.+++.-.+++.+.... ...| +.-.+.+.=.++-..|+.+. .++..+.+...+..+. +++.++
T Consensus 82 ~ady~~~ll~~~~~i~~~~~~~~~~~~~~~~l~-~~l~~~l~Y~wsr~np~~~v~~~g~~~i~a~ylP~~~---~~~~~l 157 (197)
T PF04511_consen 82 SADYLWFLLFGASLILILSLLIGPYFFNIPFLG-SSLSFALTYIWSRKNPNAQVSFFGLFTIKAKYLPWVL---LAFSLL 157 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccchhHHHHHH-HHHHHHHHHHHHHhCcccceeeEEEEEEChhhHHHHH---HHHHHH
Confidence 578887777777666666554321 1222 33444444444444555553 3333333333333222 223333
Q ss_pred cCChhhHhcchhhHHHHHhH
Q 021954 282 IKGIDNWGHDMPGRRVPLQL 301 (305)
Q Consensus 282 ~~~i~~~aHLGGa~~~~~~a 301 (305)
..+.+...++-| +.++++
T Consensus 158 ~~~~~~~~~l~G--i~~Ghl 175 (197)
T PF04511_consen 158 FGGSSPIPDLLG--ILVGHL 175 (197)
T ss_pred hCCCcHHHHHHH--HHHHHH
Confidence 333455677777 444443
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=98.33 E-value=4.1e-07 Score=72.93 Aligned_cols=76 Identities=25% Similarity=0.447 Sum_probs=64.3
Q ss_pred CcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhc--------C-----Cceech
Q 021954 170 QFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFC--------N-----SPAVGA 236 (305)
Q Consensus 170 q~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~--------~-----~~~vGa 236 (305)
.+|+++|+.|++.++..+++|.+.++..|+.+|+.+|+++++..++...+.+|+...... + .+.-|.
T Consensus 7 ~pWtl~T~~fve~~i~~~l~~~~~l~~~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~~~~~y~i~~~~~~l~~~i~G~ 86 (99)
T PF08551_consen 7 YPWTLFTAGFVETNIIGLLFSLLTLFYGGRYLEPIWGSREFLKFILVVNVITNLLTFLLYLLLYAITGNESYLFVPISGF 86 (99)
T ss_pred ehHHHHHHHHHHhHHHHHHHHHHHHHHhhHHHHHhcChHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCceeEEEecCc
Confidence 799999999999999999999999999999999999999999999988888888766531 1 235567
Q ss_pred HHHHHHHHH
Q 021954 237 SGAIFGLVG 245 (305)
Q Consensus 237 SGaVfGLlg 245 (305)
.|.+.|++.
T Consensus 87 ~~~~~g~lV 95 (99)
T PF08551_consen 87 MGVLAGFLV 95 (99)
T ss_pred HHhHhheEE
Confidence 777766654
No 11
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=98.27 E-value=3e-06 Score=77.34 Aligned_cols=98 Identities=15% Similarity=0.079 Sum_probs=80.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchhhhhccccCC-HHHHHHHHHHHHHHHHHHHHhc--
Q 021954 129 IGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHAN-IAHLMVNCYSLNSIGPTMEKIC-- 205 (305)
Q Consensus 129 ~~~pvT~~LI~i~vlvfll~~~~~~~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~-~~HLl~Nm~~L~~~G~~lE~~~-- 205 (305)
+.||+|+....+|++.-++....-.+..+.-.+++.++++.|+||++|+.+.-+. -.|.++||+.++-..+.+|+-.
T Consensus 11 ~iPpVTR~~~~~~v~tt~~~~l~lIsP~~l~~~p~Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY~~~LE~g~f~ 90 (239)
T KOG0858|consen 11 QIPPVTRYYTTACVVTTLLVRLDLISPFQLYLNPELVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRYSSMLEEGSFR 90 (239)
T ss_pred cCChHHHHHHHHHHHHHHHHhhcccCchheEecHHHHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHHHHHHhcCCCC
Confidence 4579999999999999998877655555555556667789999999999999877 5999999999999999999943
Q ss_pred -chhHHHHHHHHHHHHHHHHHH
Q 021954 206 -GPRRYLGVYFSSAIASSAMSY 226 (305)
Q Consensus 206 -G~~~fl~lyl~sgi~g~l~s~ 226 (305)
.+.+|+.+++.+++.-.+.++
T Consensus 91 ~rtadf~~mllf~~~l~~~~~~ 112 (239)
T KOG0858|consen 91 GRTADFLYMLLFGAVLLTLTGL 112 (239)
T ss_pred CchhHHHHHHHHHHHHHHHHHH
Confidence 347899888888888776554
No 12
>COG5291 Predicted membrane protein [Function unknown]
Probab=96.88 E-value=0.0025 Score=58.74 Aligned_cols=89 Identities=15% Similarity=0.114 Sum_probs=58.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchhhhhccccCCH-HHHHHHHHHHHHHHHHHHH-hcch
Q 021954 130 GRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANI-AHLMVNCYSLNSIGPTMEK-ICGP 207 (305)
Q Consensus 130 ~~pvT~~LI~i~vlvfll~~~~~~~l~~~g~~~~~~i~~gq~wRL~Ts~FlH~~~-~HLl~Nm~~L~~~G~~lE~-~~G~ 207 (305)
.||+|+.+..+..++.++........-..-...+-.+.+-|+||++|+..+-++. +-.++|.+.++-..+.+|+ .+++
T Consensus 19 IPPITRy~~ll~~a~til~~~~lvsPwy~ly~~pL~~k~~qiwRlfTs~~~~~~~~~d~~M~vyf~Y~yS~~LE~g~f~~ 98 (313)
T COG5291 19 IPPITRYMTLLISAVTILVYVDLVSPWYSLYYSPLFLKRLQIWRLFTSFLYFGKPTLDMFMHVYFLYRYSRMLEEGCFNT 98 (313)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhhcCccceeeechhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHHhccccCc
Confidence 5788888777666666655443211100001123345678999999988877764 8999999999999999999 4555
Q ss_pred h--HHHHHHHHHH
Q 021954 208 R--RYLGVYFSSA 218 (305)
Q Consensus 208 ~--~fl~lyl~sg 218 (305)
. +|....+.+.
T Consensus 99 ~lv~Y~~yl~~~~ 111 (313)
T COG5291 99 SLVEYFWYLLVIS 111 (313)
T ss_pred cHHHHHHHHHHHH
Confidence 4 6654444333
No 13
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=96.84 E-value=0.0043 Score=58.77 Aligned_cols=86 Identities=20% Similarity=0.284 Sum_probs=71.2
Q ss_pred CCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHH--------hcC-----Cceec
Q 021954 169 GQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYR--------FCN-----SPAVG 235 (305)
Q Consensus 169 gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l--------~~~-----~~~vG 235 (305)
...|+++|+.|+-.+++-.++|.+.+.+.|..+|+.+|...++..|.+.-...++.... +.+ .+..|
T Consensus 65 ~~~WtliTs~fie~~vw~V~~sv~~L~v~G~~lEp~Wg~~e~lkff~ivn~~~~l~v~v~~~l~Y~it~n~v~L~~~i~G 144 (326)
T KOG2890|consen 65 FFPWTLITSGFIELNVWDVLVSVLTLSVGGKFLEPNWGSLELLKFFAIVNGSTTLVVLVPALLLYMITDNHVYLYIPIHG 144 (326)
T ss_pred hhhHHHHhcchhhhhHHHHHHHHHheeecceeeccCCCCHHHHHHHHHhhchhHHHHHHHHHHHHHHhcCceEEEEEecc
Confidence 48999999999999999999999999999999999999999998887665444433221 122 35789
Q ss_pred hHHHHHHHHHHHHHHHHhh
Q 021954 236 ASGAIFGLVGSFAVFIMRH 254 (305)
Q Consensus 236 aSGaVfGLlga~~~l~~~~ 254 (305)
..|...|++.++=-..|+.
T Consensus 145 ~~gilaGilVa~kQllpd~ 163 (326)
T KOG2890|consen 145 TTGILAGILVAWKQLLPDT 163 (326)
T ss_pred chHHHHHHHHHHHHHcCce
Confidence 9999999999988887776
No 14
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.82 E-value=0.035 Score=51.82 Aligned_cols=95 Identities=20% Similarity=0.290 Sum_probs=65.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccc-cCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhH
Q 021954 131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLID-KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRR 209 (305)
Q Consensus 131 ~pvT~~LI~i~vlvfll~~~~~~~l~~~g~~~~~~i~-~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~ 209 (305)
.|+|..+++-..++-+..-+.. .--.++.++.+.++ ..|+||++-+-|.-.|---+++-.+.+|.+ +-+||.+|+-|
T Consensus 11 mpVTK~~~iT~~~~~vvagI~~-~k~~f~l~y~~~l~~y~qywrlL~~qF~~~n~~e~~~~l~I~Y~f-R~~ERlLGShk 88 (323)
T KOG4463|consen 11 MPVTKAFVITSALFTVVAGIQG-RKSKFGLSYQDILEKYFQYWRLLMSQFAFSNTPELMFGLYILYYF-RVFERLLGSHK 88 (323)
T ss_pred cchHHHHHHHHHHHHHHHHhhh-cccccccchhHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHH-HHHHHHhcccc
Confidence 4667665544443333222211 11123444444443 479999999999999988888877777766 68999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 021954 210 YLGVYFSSAIASSAMSYR 227 (305)
Q Consensus 210 fl~lyl~sgi~g~l~s~l 227 (305)
|..+.+.+++.+-+....
T Consensus 89 y~~fiv~s~~~~~l~~~i 106 (323)
T KOG4463|consen 89 YSVFIVFSGTVSLLLEVI 106 (323)
T ss_pred ceeehhHHHHHHHHHHHH
Confidence 999999998888877654
No 15
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=59.65 E-value=29 Score=31.09 Aligned_cols=78 Identities=22% Similarity=0.177 Sum_probs=58.1
Q ss_pred ccccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHH
Q 021954 165 LIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLV 244 (305)
Q Consensus 165 ~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaVfGLl 244 (305)
.-..+++|+++++.++|....+...+... ..+...+++...+..+++.......+.++.++-+.|++
T Consensus 134 ~GASG~i~gllga~~~~~~~~~~~~~~~~-------------~~~~~~~~i~~~~~~~~~~~~~~~~~~va~~aHl~G~i 200 (228)
T COG0705 134 LGASGAIFGLLGAYFLLFPFARILLLFLS-------------LPRPALILILIWLLYSLFSGAGSFGPSVAWSAHLGGLI 200 (228)
T ss_pred cchhHHHHHHHHHHHHHccccchhhhhcc-------------CchhHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence 34678999999999999988887777654 34556677777777777777665556888999999999
Q ss_pred HHHHHHHHhhh
Q 021954 245 GSFAVFIMRHR 255 (305)
Q Consensus 245 ga~~~l~~~~~ 255 (305)
+.........+
T Consensus 201 ~G~l~~~~~~~ 211 (228)
T COG0705 201 GGLLLAALLSR 211 (228)
T ss_pred HHHHHHHHHhh
Confidence 87776544433
No 16
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=51.17 E-value=81 Score=21.90 Aligned_cols=43 Identities=12% Similarity=-0.001 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcch-hHHHHHHHHHHHHHHHHHHH
Q 021954 185 AHLMVNCYSLNSIGPTMEKICGP-RRYLGVYFSSAIASSAMSYR 227 (305)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~-~~fl~lyl~sgi~g~l~s~l 227 (305)
..++.++..-..+|..+++.+++ ..+..+.++-|+.+++.+..
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 34677788889999999999999 55566666777777765543
No 17
>PF04892 VanZ: VanZ like family ; InterPro: IPR006976 This entry represents a conserved sequence region found in the VanZ protein and also several phosphotransbutyrylases. VanZ confers low-level resistance to the glycopeptide antibiotic teicoplanin (Te). Analysis of cytoplasmic peptidoglycan precursors, accumulated in the presence of ramoplanin, showed that VanZ-mediated Te resistance does not involve incorporation of a substituent of D-alanine into the peptidoglycan precursors [].
Probab=34.48 E-value=2.4e+02 Score=22.55 Aligned_cols=71 Identities=10% Similarity=0.039 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcch-hHHHHHHHHHHHHHHHHH---HHhc------CCceechHHHHHHHHHHHHHHH
Q 021954 182 ANIAHLMVNCYSLNSIGPTMEKICGP-RRYLGVYFSSAIASSAMS---YRFC------NSPAVGASGAIFGLVGSFAVFI 251 (305)
Q Consensus 182 ~~~~HLl~Nm~~L~~~G~~lE~~~G~-~~fl~lyl~sgi~g~l~s---~l~~------~~~~vGaSGaVfGLlga~~~l~ 251 (305)
....+...|.+.+..+|..+...+.+ ++.......+.+.+.... .... ++...-.-|++.|...+.....
T Consensus 49 ~~~~~~~~hi~~f~plG~l~~~~~~~~~~~~~~~~~~~~~sl~iE~~Q~~~~~r~~d~~Dv~~n~~G~~lG~~l~~~~~~ 128 (133)
T PF04892_consen 49 NAFIDKIGHILLFFPLGFLLPLLFRRLRSWLLAILIGFLFSLFIELIQLFLPGRSFDIDDVLANTLGALLGYLLYRLIRK 128 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999888887775 244444444444443333 3322 1234555677777665554443
Q ss_pred H
Q 021954 252 M 252 (305)
Q Consensus 252 ~ 252 (305)
.
T Consensus 129 ~ 129 (133)
T PF04892_consen 129 R 129 (133)
T ss_pred H
Confidence 3
No 18
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=33.34 E-value=2.4e+02 Score=26.45 Aligned_cols=38 Identities=13% Similarity=0.168 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHH
Q 021954 185 AHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSY 226 (305)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~ 226 (305)
..+++|.+.|+..+..+.+....+|.++ ++.+|++.++
T Consensus 11 ~N~~md~~lL~~t~~~~~~~~~~~Rll~----~A~~Gal~~~ 48 (293)
T PF03419_consen 11 VNFLMDYFLLWLTARLLKRRASRWRLLL----GAAIGALYSL 48 (293)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcHHHHHH----HHHHHHHHHH
Confidence 4688999999999999888888877653 3444444443
No 19
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA. Members of this protein family are the stage II sporulation protein SpoIIGA. This protein acts as an activating protease for Sigma-E, one of several specialized sigma factors of the sporulation process in Bacillus subtilis and related endospore-forming bacteria.
Probab=29.61 E-value=4.4e+02 Score=24.87 Aligned_cols=38 Identities=16% Similarity=0.234 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHH
Q 021954 185 AHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSY 226 (305)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~ 226 (305)
..+++|.+.|+..+..+.+....+|.++ ++++|++.++
T Consensus 11 ~Nf~~d~~LL~~t~~~lk~~~~~~Rll~----ga~iGa~~~~ 48 (288)
T TIGR02854 11 ENFIIDYFLLYLTARTLKDKVSQWRLLL----AALIGSLYVL 48 (288)
T ss_pred HHHHHHHHHHHHHHHHhhccchHHHHHH----HHHHHHHHHH
Confidence 5688999999999999988888877653 4444444443
No 20
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=23.69 E-value=3.2e+02 Score=21.99 Aligned_cols=43 Identities=2% Similarity=-0.011 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcchh-HHHHHHHHHHHHHHHHHHH
Q 021954 185 AHLMVNCYSLNSIGPTMEKICGPR-RYLGVYFSSAIASSAMSYR 227 (305)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~~-~fl~lyl~sgi~g~l~s~l 227 (305)
++++.-.+.-.++|.-+.+.+++. .+..++++.|++.++...+
T Consensus 50 ~~~v~pil~G~~lG~WLD~~~~t~~~~tl~~lllGv~~G~~n~w 93 (100)
T TIGR02230 50 WSVAIPTLLGVAVGIWLDRHYPSPFSWTLTMLIVGVVIGCLNAW 93 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHH
Confidence 455555677788899999999863 4556667777777766543
No 21
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.68 E-value=6.6e+02 Score=24.10 Aligned_cols=51 Identities=16% Similarity=0.096 Sum_probs=25.3
Q ss_pred ccccccCCcchhhhhccccCCHHHHHHHHHHHHHHHHHHHHhcch-------hHHHHHHHHHHHHH
Q 021954 163 NSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP-------RRYLGVYFSSAIAS 221 (305)
Q Consensus 163 ~~~i~~gq~wRL~Ts~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~-------~~fl~lyl~sgi~g 221 (305)
.....+-+|||++.. =+++..+..+..-..+.+-++. +.|+.+|.+|-..|
T Consensus 94 lyf~~~~~w~rfl~~--------WlmF~~~tafi~~ka~rkp~~g~tpRlVYkwFl~lyklSy~~g 151 (328)
T KOG1734|consen 94 LYFFLYMQWYRFLFC--------WLMFCGFTAFITLKALRKPISGDTPRLVYKWFLFLYKLSYLLG 151 (328)
T ss_pred hhhhhhHHHHHHHHH--------HHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHHHHHHHHHHH
Confidence 333355677776532 2344444444444444443322 34566666664444
Done!