Query 023385
Match_columns 283
No_of_seqs 220 out of 1380
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 03:38:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023385.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023385hhsearch_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 7.3E-23 1.6E-27 189.4 17.0 128 128-255 50-187 (278)
2 PRK10907 intramembrane serine 99.9 2.2E-22 4.7E-27 186.2 15.5 124 130-253 93-217 (276)
3 KOG2289 Rhomboid family protei 99.8 7.9E-22 1.7E-26 184.5 6.6 125 158-282 106-231 (316)
4 COG0705 Membrane associated se 99.8 6.4E-20 1.4E-24 164.2 14.7 152 130-281 16-184 (228)
5 PF01694 Rhomboid: Rhomboid fa 99.7 4.3E-18 9.4E-23 140.8 4.2 91 167-257 2-94 (145)
6 KOG2632 Rhomboid family protei 99.4 1.2E-12 2.6E-17 119.1 11.3 150 127-278 11-174 (258)
7 KOG2290 Rhomboid family protei 99.2 3.9E-12 8.5E-17 122.9 3.6 114 168-282 448-562 (652)
8 PF04511 DER1: Der1-like famil 98.6 2.6E-07 5.6E-12 81.7 9.7 128 131-259 2-138 (197)
9 PF08551 DUF1751: Eukaryotic i 98.3 3E-07 6.6E-12 73.0 3.1 76 170-245 7-95 (99)
10 KOG2980 Integral membrane prot 98.3 1.5E-07 3.3E-12 87.5 1.6 124 133-258 117-248 (310)
11 KOG0858 Predicted membrane pro 98.2 2.7E-06 5.9E-11 76.9 7.0 99 128-226 10-112 (239)
12 KOG2890 Predicted membrane pro 96.8 0.0038 8.2E-08 58.6 7.3 87 169-255 65-164 (326)
13 COG5291 Predicted membrane pro 96.7 0.003 6.4E-08 57.8 5.4 96 130-226 19-119 (313)
14 KOG4463 Uncharacterized conser 96.1 0.0062 1.3E-07 56.2 3.9 95 131-227 11-106 (323)
15 COG0705 Membrane associated se 62.7 8.5 0.00018 34.1 3.5 77 166-255 135-211 (228)
16 PF03419 Peptidase_U4: Sporula 58.2 50 0.0011 30.7 7.9 37 185-225 11-47 (293)
17 TIGR02854 spore_II_GA sigma-E 50.7 1E+02 0.0022 28.8 8.7 37 185-225 11-47 (288)
18 PF09527 ATPase_gene1: Putativ 47.5 91 0.002 21.4 6.4 42 185-226 8-50 (55)
19 PF04892 VanZ: VanZ like famil 40.5 1.8E+02 0.004 23.0 10.2 73 182-254 49-131 (133)
20 TIGR02230 ATPase_gene1 F0F1-AT 23.9 3E+02 0.0064 22.0 6.0 42 185-226 50-92 (100)
21 PF14898 DUF4491: Domain of un 22.6 1E+02 0.0022 24.4 3.1 44 201-249 26-69 (94)
No 1
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.90 E-value=7.3e-23 Score=189.35 Aligned_cols=128 Identities=27% Similarity=0.405 Sum_probs=111.0
Q ss_pred ccChHHHHHHHHHHHHHHHHHHhch---------HHHHHhhhccccccccCCcchheehhcccCcHHHHHHHHHHHHHHH
Q 023385 128 FIGRQWTNILLAVNVLVYIAQFATQ---------DKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIG 198 (283)
Q Consensus 128 ~~~~pvT~~Liai~v~vfll~~~~~---------~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G 198 (283)
.+.+.+|..++++++++|++..... ..+..+|+..+..+.++||||++|++|+|.|+.|+++||+.++.+|
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 3456789999999999999865521 1456778877777788999999999999999999999999999999
Q ss_pred HHHHHHhChHHHHHHHHHHHHHHHHHHhhhcC-CceechHHHHHHHHHHHHHHHHhhh
Q 023385 199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGSFAVFIMRHR 255 (283)
Q Consensus 199 ~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~-~~~vGaSGaIfGLiga~~~~~~~~~ 255 (283)
..+|+.+|++|++.+|+++|+.|++++..+.+ ..++||||++||++|+++......+
T Consensus 130 ~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~~~~svGASgAifGLiGa~~~~lil~w 187 (278)
T PTZ00101 130 FTLEKNYGIVKIIILYFLTGIYGNILSSSVTYCPIKVGASTSGMGLLGIVTSELILLW 187 (278)
T ss_pred HHHHHHHChHHHHHHHHHHHHHHHHHHHHHccCCcEEehhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999987754 5689999999999999987655444
No 2
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.89 E-value=2.2e-22 Score=186.19 Aligned_cols=124 Identities=25% Similarity=0.292 Sum_probs=106.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHhchH-HHHHhhhccccccccCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChH
Q 023385 130 GRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPR 208 (283)
Q Consensus 130 ~~pvT~~Liai~v~vfll~~~~~~-~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~ 208 (283)
..|+|..++++|+++|++...... ....+...+.....++||||++|++|+|.|+.|+++||+++|.+|..+|+.+|++
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 467999999999999998876543 2333433343445679999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCceechHHHHHHHHHHHHHHHHh
Q 023385 209 RYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMR 253 (283)
Q Consensus 209 rfl~lyllsgi~g~l~s~~~~~~~~vGaSGaIfGLiga~~~~~~~ 253 (283)
+++.+|+++++++++.++++....++|+||+|||++|+......+
T Consensus 173 ~~l~l~l~s~i~~~~~~~~~~~~~~gGaSGvVygL~g~~~~~~~~ 217 (276)
T PRK10907 173 KLIVITLISALLSGWVQSKFSGPWFGGLSGVVYALMGYVWLRGER 217 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHHhcc
Confidence 999999999999999999888778999999999999986655433
No 3
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.85 E-value=7.9e-22 Score=184.50 Aligned_cols=125 Identities=32% Similarity=0.465 Sum_probs=115.5
Q ss_pred hhhccccccccCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhhcC-Cceech
Q 023385 158 WGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGA 236 (283)
Q Consensus 158 ~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~-~~~vGa 236 (283)
.+......+..+|+||++|++|+|+|+.||++||+.+.++|..+|+..|.+|+.++|+++++.|++++.++.+ ..++||
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 3455667778899999999999999999999999999999999999999999999999999999999999986 569999
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcCCChhhHHHHHHHHHHHHHHhccc
Q 023385 237 SGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMLHGNVR 282 (283)
Q Consensus 237 SGaIfGLiga~~~~~~~~~~~~~~~~~~l~~i~~~i~inlviG~l~ 282 (283)
||++|||+||.+.....++..+......++.+++++++|+.+|++|
T Consensus 186 SggvfaLlgA~Ls~l~~Nw~~m~~~~~~l~~ll~Ii~i~l~~G~~~ 231 (316)
T KOG2289|consen 186 SGGVFALLGAHLSNLLTNWTIMKNKFAALRTLLIIIFINLDLGFAP 231 (316)
T ss_pred cHHHHHHHHHHHHHHHhhHHHhcchHHHHHHHHHHHHHHHhhcccc
Confidence 9999999999999999999988876667888888999999999875
No 4
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.83 E-value=6.4e-20 Score=164.18 Aligned_cols=152 Identities=29% Similarity=0.477 Sum_probs=118.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHhchHHH-HH-------hhhccccccccC---CcchheehhcccCcHHHHHHHHHHHHHHH
Q 023385 130 GRQWTNILLAVNVLVYIAQFATQDKL-LL-------WGAKINSLIDKG---QFWRLATSAFLHANIAHLMVNCYSLNSIG 198 (283)
Q Consensus 130 ~~pvT~~Liai~v~vfll~~~~~~~l-~~-------~g~~~~~~i~~g---q~WRLlTs~FlH~~~~HLl~Nm~~L~~~G 198 (283)
.++.|..++++|+.+|+......... .. .+..+....... |+||++|++|+|.|+.|+++||+.+|.+|
T Consensus 16 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lit~~FlH~~~~Hll~N~~~l~~fg 95 (228)
T COG0705 16 APPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLHAGFLHLLFNMLALWVFG 95 (228)
T ss_pred cchHHHHHHHHHHHHHHHHHHccchHHHHHHHhhhHHhhcchhhhccccccchHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence 47889999999999999887654321 11 233333222222 89999999999999999999999999999
Q ss_pred HHHHHHhChHHHHHHHHHHHHHHHHHHhhhcC---CceechHHHHHHHHHHHHHHHHhhhhhcCC---ChhhHHHHHHHH
Q 023385 199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN---SPAVGASGAIFGLVGSFAVFIMRHRNILGG---GKEELQHLAKVI 272 (283)
Q Consensus 199 ~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~---~~~vGaSGaIfGLiga~~~~~~~~~~~~~~---~~~~l~~i~~~i 272 (283)
..+|+..|+.+|+.+|+++|+++++.+..+.+ .+++||||++||++++++...+..+..... .+.....+..++
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 99999999999999999999999999888874 369999999999999999999998854443 233344444556
Q ss_pred HHHHHHhcc
Q 023385 273 IFNMLHGNV 281 (283)
Q Consensus 273 ~inlviG~l 281 (283)
..++.++..
T Consensus 176 ~~~~~~~~~ 184 (228)
T COG0705 176 LYSLFSGAG 184 (228)
T ss_pred HHHHHHHhc
Confidence 666555543
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=99.71 E-value=4.3e-18 Score=140.82 Aligned_cols=91 Identities=42% Similarity=0.752 Sum_probs=79.2
Q ss_pred ccCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhhcCC--ceechHHHHHHHH
Q 023385 167 DKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNS--PAVGASGAIFGLV 244 (283)
Q Consensus 167 ~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~~--~~vGaSGaIfGLi 244 (283)
+++|+||++|++|+|.|+.|+++|++.++.+|..+|+.+|+++++.+|+++++.++++..++.+. +.+|+||+++|++
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 57899999999999999999999999999999999999999999999999999999999887653 5999999999999
Q ss_pred HHHHHHHHhhhhh
Q 023385 245 GSFAVFIMRHRNI 257 (283)
Q Consensus 245 ga~~~~~~~~~~~ 257 (283)
++.+...+.+++.
T Consensus 82 ~~~~~~~~~~~~~ 94 (145)
T PF01694_consen 82 GAFLFLYPQNKKR 94 (145)
T ss_dssp HHHHHHHHCCCCC
T ss_pred HHHHHHHhhccch
Confidence 9999999988643
No 6
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=99.42 E-value=1.2e-12 Score=119.11 Aligned_cols=150 Identities=23% Similarity=0.274 Sum_probs=118.9
Q ss_pred cccChHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhC
Q 023385 127 LFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICG 206 (283)
Q Consensus 127 ~~~~~pvT~~Liai~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G 206 (283)
+-+.+.+|..++.++.++|+......-. ..++ .+.....+.|.||++||+++|.+..|+++||+.+|.+|...|+..|
T Consensus 11 ~~~~p~~ts~~~~~~~~i~lv~~~~~i~-~~~~-l~~~~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~~G 88 (258)
T KOG2632|consen 11 WMKIPLLTSIVVVLAILIYLVSFFPGIV-EVLG-LPSELLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERTHG 88 (258)
T ss_pred cccchHHHHHHHHHHHHHHHHhccchhh-hHhc-CCHHHhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhhcc
Confidence 3345778999999999999988765433 3333 4455667889999999999999999999999999999999999999
Q ss_pred -hHHHHHHHHHHHHHHHHHHhhhc----------CCceechHHHHHHHHHHHHHHHHhhhhhcCC---ChhhHHHHHHHH
Q 023385 207 -PRRYLGVYFSSAIASSAMSYRFC----------NSPAVGASGAIFGLVGSFAVFIMRHRNILGG---GKEELQHLAKVI 272 (283)
Q Consensus 207 -~~rfl~lyllsgi~g~l~s~~~~----------~~~~vGaSGaIfGLiga~~~~~~~~~~~~~~---~~~~l~~i~~~i 272 (283)
+.+++.+..+.+++.+++.+... ....+|.||..|++++......+.+++.++. .+.+...++.++
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 88999999999999998876543 2457999999999999999988888744332 356666666666
Q ss_pred HHHHHH
Q 023385 273 IFNMLH 278 (283)
Q Consensus 273 ~inlvi 278 (283)
.+.+++
T Consensus 169 ~~~~lv 174 (258)
T KOG2632|consen 169 ATQILV 174 (258)
T ss_pred HHHHHc
Confidence 665443
No 7
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.24 E-value=3.9e-12 Score=122.88 Aligned_cols=114 Identities=27% Similarity=0.370 Sum_probs=99.7
Q ss_pred cCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhhcC-CceechHHHHHHHHHH
Q 023385 168 KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGS 246 (283)
Q Consensus 168 ~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~-~~~vGaSGaIfGLiga 246 (283)
..|+|||+||.|+|+++.|++..+...+.+.+.+|+..|+.|+.++|++||+.||+.+..|.+ .+.||.||+-||+++.
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 469999999999999999999999999999999999999999999999999999999998876 6899999999999999
Q ss_pred HHHHHHhhhhhcCCChhhHHHHHHHHHHHHHHhccc
Q 023385 247 FAVFIMRHRNILGGGKEELQHLAKVIIFNMLHGNVR 282 (283)
Q Consensus 247 ~~~~~~~~~~~~~~~~~~l~~i~~~i~inlviG~l~ 282 (283)
..+..+..++++... .....-.+.+.+.+.+|++|
T Consensus 528 l~vEl~qs~~il~~~-w~a~~~Lia~~L~L~iGliP 562 (652)
T KOG2290|consen 528 LFVELFQSWQILERP-WRAFFHLIATLLVLCIGLIP 562 (652)
T ss_pred HHHHHHhhhHhhhhH-HHHHHHHHHHHHHHHhcccc
Confidence 999999999888873 33333334455556668876
No 8
>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=98.60 E-value=2.6e-07 Score=81.67 Aligned_cols=128 Identities=20% Similarity=0.169 Sum_probs=90.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchheehhcccCcH-HHHHHHHHHHHHHHHHHHHH-h-Ch
Q 023385 131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANI-AHLMVNCYSLNSIGPTMEKI-C-GP 207 (283)
Q Consensus 131 ~pvT~~Liai~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~-~HLl~Nm~~L~~~G~~lE~~-~-G~ 207 (283)
||+|+.+++.++++.++....-.+..+....++.++.++|+||++|+.|.-++. .++++|++.++..++.+|+. + ++
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 789999999999999888776444445555556666789999999999998776 89999999999999999997 2 23
Q ss_pred -HHHHHHHHHHHHHHHHHHhhhcCC----ceechHHHHHHHHHHHHHHHHhhh-hhcC
Q 023385 208 -RRYLGVYFSSAIASSAMSYRFCNS----PAVGASGAIFGLVGSFAVFIMRHR-NILG 259 (283)
Q Consensus 208 -~rfl~lyllsgi~g~l~s~~~~~~----~~vGaSGaIfGLiga~~~~~~~~~-~~~~ 259 (283)
.+|+...+.+++...+++.+.... ...| +.....+.=.++-..|+.+ ..++
T Consensus 82 ~ady~~~ll~~~~~i~~~~~~~~~~~~~~~~l~-~~l~~~l~Y~wsr~np~~~v~~~g 138 (197)
T PF04511_consen 82 SADYLWFLLFGASLILILSLLIGPYFFNIPFLG-SSLSFALTYIWSRKNPNAQVSFFG 138 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccchhHHHHHH-HHHHHHHHHHHHHhCcccceeeEE
Confidence 678888777777777666654321 2222 3344444444555555555 3344
No 9
>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=98.35 E-value=3e-07 Score=72.99 Aligned_cols=76 Identities=25% Similarity=0.447 Sum_probs=64.1
Q ss_pred CcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhhc--------C-----Cceech
Q 023385 170 QFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFC--------N-----SPAVGA 236 (283)
Q Consensus 170 q~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~--------~-----~~~vGa 236 (283)
.+|+++|+.|++.++..++.|.+.++..|+.+|+.||++.++-++.+..+..|+...... + .+.-|.
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 799999999999999999999999999999999999999999999999998888765431 1 235567
Q ss_pred HHHHHHHHH
Q 023385 237 SGAIFGLVG 245 (283)
Q Consensus 237 SGaIfGLig 245 (283)
.|.+.|++.
T Consensus 87 ~~~~~g~lV 95 (99)
T PF08551_consen 87 MGVLAGFLV 95 (99)
T ss_pred HHhHhheEE
Confidence 777666543
No 10
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=98.35 E-value=1.5e-07 Score=87.52 Aligned_cols=124 Identities=21% Similarity=0.310 Sum_probs=95.6
Q ss_pred HHHHHHHHHHHHHHHHHhchHHH--HHhhhccccccccCCcchheehhcccCcHHHHHHHHHHHHHHHH-HHHHHhChHH
Q 023385 133 WTNILLAVNVLVYIAQFATQDKL--LLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGP-TMEKICGPRR 209 (283)
Q Consensus 133 vT~~Liai~v~vfll~~~~~~~l--~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~-~lE~~~G~~r 209 (283)
+...++++|+.+|.+|.....+. ..|-.. ......--|-+++|.|.|.+.+|+..||+.++.+.. .+....|...
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 VVFGLLIANAFVFTLWRVPQKQFTMIPWMLS--RNAYKTGCWKIILSTFSHYSALHLGPNMLVLKSYLAGALKGSLGFSS 194 (310)
T ss_pred chhHHHHHHHHHHHHHHhcchhhhhhhHHhh--cccccccceeEEeehhcchhHhhhcHHHHHHHHHhcccccCCcchhh
Confidence 57889999999999998875422 222221 222344567799999999999999999999999988 7777889999
Q ss_pred HHHHHHHHHHHHHHHHhhhc-----CCceechHHHHHHHHHHHHHHHHhhhhhc
Q 023385 210 YLGVYFSSAIASSAMSYRFC-----NSPAVGASGAIFGLVGSFAVFIMRHRNIL 258 (283)
Q Consensus 210 fl~lyllsgi~g~l~s~~~~-----~~~~vGaSGaIfGLiga~~~~~~~~~~~~ 258 (283)
+.++|+.++..+......-. ..+.+||||+++++++..+.++|+.+..+
T Consensus 195 ~~AlylSa~~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~~lfP~~~~~i 248 (310)
T KOG2980|consen 195 FFALYLSAGVKGLFISVKDKVPTSWAGPSLGASGAVYAILALDCTLFPKTTLYI 248 (310)
T ss_pred cccceeccccccceeEeeccccccccccccccchHHHHHHHHHhhcCcCcceeE
Confidence 99999955555555443321 25789999999999999999999888543
No 11
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=98.23 E-value=2.7e-06 Score=76.95 Aligned_cols=99 Identities=15% Similarity=0.085 Sum_probs=82.1
Q ss_pred ccChHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccccCCcchheehhcccCc-HHHHHHHHHHHHHHHHHHHHHh-
Q 023385 128 FIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHAN-IAHLMVNCYSLNSIGPTMEKIC- 205 (283)
Q Consensus 128 ~~~~pvT~~Liai~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~-~~HLl~Nm~~L~~~G~~lE~~~- 205 (283)
.+.||+|+....+|++..++....-.+....-..++-++.+.|+||++|+.+.-+. -.|.++||+.++-..+.+|+-.
T Consensus 10 ~~iPpVTR~~~~~~v~tt~~~~l~lIsP~~l~~~p~Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY~~~LE~g~f 89 (239)
T KOG0858|consen 10 LQIPPVTRYYTTACVVTTLLVRLDLISPFQLYLNPELVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRYSSMLEEGSF 89 (239)
T ss_pred hcCChHHHHHHHHHHHHHHHHhhcccCchheEecHHHHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHHHHHHhcCCC
Confidence 35689999999999999998877655555555566677788999999999999987 4999999999999999999942
Q ss_pred --ChHHHHHHHHHHHHHHHHHHh
Q 023385 206 --GPRRYLGVYFSSAIASSAMSY 226 (283)
Q Consensus 206 --G~~rfl~lyllsgi~g~l~s~ 226 (283)
.+.+|+.+++.+++.-.+.++
T Consensus 90 ~~rtadf~~mllf~~~l~~~~~~ 112 (239)
T KOG0858|consen 90 RGRTADFLYMLLFGAVLLTLTGL 112 (239)
T ss_pred CCchhHHHHHHHHHHHHHHHHHH
Confidence 347898888888888876655
No 12
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=96.81 E-value=0.0038 Score=58.62 Aligned_cols=87 Identities=20% Similarity=0.272 Sum_probs=72.2
Q ss_pred CCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhh--------hcC-----Cceec
Q 023385 169 GQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYR--------FCN-----SPAVG 235 (283)
Q Consensus 169 gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~--------~~~-----~~~vG 235 (283)
..+|+++|+.|+-.+++-.+.|.+.+.+-|..+|+.||+..++.+|.+.-...+++..+ +.+ .+..|
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 47999999999999999999999999999999999999999998887665444443221 222 35789
Q ss_pred hHHHHHHHHHHHHHHHHhhh
Q 023385 236 ASGAIFGLVGSFAVFIMRHR 255 (283)
Q Consensus 236 aSGaIfGLiga~~~~~~~~~ 255 (283)
..|.+.|++.++=-.+|...
T Consensus 145 ~~gilaGilVa~kQllpd~~ 164 (326)
T KOG2890|consen 145 TTGILAGILVAWKQLLPDTI 164 (326)
T ss_pred chHHHHHHHHHHHHHcCcee
Confidence 99999999999988888774
No 13
>COG5291 Predicted membrane protein [Function unknown]
Probab=96.69 E-value=0.003 Score=57.84 Aligned_cols=96 Identities=16% Similarity=0.165 Sum_probs=59.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHhchHHHHHhhh-ccccccccCCcchheehhcccCcH-HHHHHHHHHHHHHHHHHHH-HhC
Q 023385 130 GRQWTNILLAVNVLVYIAQFATQDKLLLWGA-KINSLIDKGQFWRLATSAFLHANI-AHLMVNCYSLNSIGPTMEK-ICG 206 (283)
Q Consensus 130 ~~pvT~~Liai~v~vfll~~~~~~~l~~~g~-~~~~~i~~gq~WRLlTs~FlH~~~-~HLl~Nm~~L~~~G~~lE~-~~G 206 (283)
.||+|+.+..+..++-++....-...- +.. ..+-.+.+-|+||++|+..+-++- +-.++|.+.++-..+.+|+ .++
T Consensus 19 IPPITRy~~ll~~a~til~~~~lvsPw-y~ly~~pL~~k~~qiwRlfTs~~~~~~~~~d~~M~vyf~Y~yS~~LE~g~f~ 97 (313)
T COG5291 19 IPPITRYMTLLISAVTILVYVDLVSPW-YSLYYSPLFLKRLQIWRLFTSFLYFGKPTLDMFMHVYFLYRYSRMLEEGCFN 97 (313)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhhcCcc-ceeeechhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHHhccccC
Confidence 577876665555555444332211100 111 123344567999999988888765 8999999999999999998 455
Q ss_pred hH--HHHHHHHHHHHHHHHHHh
Q 023385 207 PR--RYLGVYFSSAIASSAMSY 226 (283)
Q Consensus 207 ~~--rfl~lyllsgi~g~l~s~ 226 (283)
+. .|....+.+.++-..++.
T Consensus 98 ~~lv~Y~~yl~~~~l~i~a~s~ 119 (313)
T COG5291 98 TSLVEYFWYLLVISLVIFAISN 119 (313)
T ss_pred ccHHHHHHHHHHHHHHHHHHHH
Confidence 44 665554444444333333
No 14
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.08 E-value=0.0062 Score=56.25 Aligned_cols=95 Identities=20% Similarity=0.293 Sum_probs=66.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhchHHHHHhhhccccccc-cCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHH
Q 023385 131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLID-KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRR 209 (283)
Q Consensus 131 ~pvT~~Liai~v~vfll~~~~~~~l~~~g~~~~~~i~-~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~r 209 (283)
-|+|..+++....+-+..... +.-..++.++...+. ..|+||++-+.|+-.+-..+.+-.+.+|.+ +.+||.+|+.+
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 MPVTKAFVITSALFTVVAGIQ-GRKSKFGLSYQDILEKYFQYWRLLMSQFAFSNTPELMFGLYILYYF-RVFERLLGSHK 88 (323)
T ss_pred cchHHHHHHHHHHHHHHHHhh-hcccccccchhHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHH-HHHHHHhcccc
Confidence 466766665554443332221 111123444333333 379999999999999998888888777776 89999999999
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 023385 210 YLGVYFSSAIASSAMSYR 227 (283)
Q Consensus 210 fl~lyllsgi~g~l~s~~ 227 (283)
|..+.+.+++.+-++.+.
T Consensus 89 y~~fiv~s~~~~~l~~~i 106 (323)
T KOG4463|consen 89 YSVFIVFSGTVSLLLEVI 106 (323)
T ss_pred ceeehhHHHHHHHHHHHH
Confidence 999999999888877654
No 15
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=62.74 E-value=8.5 Score=34.13 Aligned_cols=77 Identities=21% Similarity=0.162 Sum_probs=57.5
Q ss_pred cccCCcchheehhcccCcHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhhcCCceechHHHHHHHHH
Q 023385 166 IDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245 (283)
Q Consensus 166 i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s~~~~~~~~vGaSGaIfGLig 245 (283)
-..|++++++++.++|....+...+... ..+...+++...+..+++.......+.++.++-+.|+++
T Consensus 135 GASG~i~gllga~~~~~~~~~~~~~~~~-------------~~~~~~~~i~~~~~~~~~~~~~~~~~~va~~aHl~G~i~ 201 (228)
T COG0705 135 GASGAIFGLLGAYFLLFPFARILLLFLS-------------LPRPALILILIWLLYSLFSGAGSFGPSVAWSAHLGGLIG 201 (228)
T ss_pred chhHHHHHHHHHHHHHccccchhhhhcc-------------CchhHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence 3567899999999999888877777654 445567777778888877776665578889999999997
Q ss_pred HHHHHHHhhh
Q 023385 246 SFAVFIMRHR 255 (283)
Q Consensus 246 a~~~~~~~~~ 255 (283)
.........+
T Consensus 202 G~l~~~~~~~ 211 (228)
T COG0705 202 GLLLAALLSR 211 (228)
T ss_pred HHHHHHHHhh
Confidence 7766544444
No 16
>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=58.15 E-value=50 Score=30.73 Aligned_cols=37 Identities=14% Similarity=0.193 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHH
Q 023385 185 AHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMS 225 (283)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s 225 (283)
..+++|.+.|+..+..+.+....+|.+ +++.+|++.+
T Consensus 11 ~N~~md~~lL~~t~~~~~~~~~~~Rll----~~A~~Gal~~ 47 (293)
T PF03419_consen 11 VNFLMDYFLLWLTARLLKRRASRWRLL----LGAAIGALYS 47 (293)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcHHHHH----HHHHHHHHHH
Confidence 567889999999999998888888864 4444444444
No 17
>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=50.72 E-value=1e+02 Score=28.80 Aligned_cols=37 Identities=16% Similarity=0.240 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHH
Q 023385 185 AHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMS 225 (283)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~~rfl~lyllsgi~g~l~s 225 (283)
..+++|.+.|+..+..+.+....+|.++ ++++|++.+
T Consensus 11 ~Nf~~d~~LL~~t~~~lk~~~~~~Rll~----ga~iGa~~~ 47 (288)
T TIGR02854 11 ENFIIDYFLLYLTARTLKDKVSQWRLLL----AALIGSLYV 47 (288)
T ss_pred HHHHHHHHHHHHHHHHhhccchHHHHHH----HHHHHHHHH
Confidence 5678999999999999988888888644 444444433
No 18
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=47.49 E-value=91 Score=21.42 Aligned_cols=42 Identities=12% Similarity=0.014 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCh-HHHHHHHHHHHHHHHHHHh
Q 023385 185 AHLMVNCYSLNSIGPTMEKICGP-RRYLGVYFSSAIASSAMSY 226 (283)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~-~rfl~lyllsgi~g~l~s~ 226 (283)
..++.++..-..+|..+++.+++ ..+..+.++-|+.+++.+.
T Consensus 8 ~~~~~~i~~g~~~G~~lD~~~~t~p~~~~~g~llG~~~g~~~~ 50 (55)
T PF09527_consen 8 FTMAAPILVGFFLGYWLDKWFGTSPWFTLIGLLLGIAAGFYNV 50 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHH
Confidence 34667788888999999999998 5566666677777776554
No 19
>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=40.48 E-value=1.8e+02 Score=22.97 Aligned_cols=73 Identities=10% Similarity=0.037 Sum_probs=44.8
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhCh-HHHHHHHHHHHHHHHHHH---hhhc------CCceechHHHHHHHHHHHHHHH
Q 023385 182 ANIAHLMVNCYSLNSIGPTMEKICGP-RRYLGVYFSSAIASSAMS---YRFC------NSPAVGASGAIFGLVGSFAVFI 251 (283)
Q Consensus 182 ~~~~HLl~Nm~~L~~~G~~lE~~~G~-~rfl~lyllsgi~g~l~s---~~~~------~~~~vGaSGaIfGLiga~~~~~ 251 (283)
....+.+.|.+.+..+|..+...+.+ .+.......+.+.+.... .... .+.....-|++.|...+.....
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 45789999999999999998887775 244444444444444333 3222 1345666677777765555544
Q ss_pred Hhh
Q 023385 252 MRH 254 (283)
Q Consensus 252 ~~~ 254 (283)
..+
T Consensus 129 ~~~ 131 (133)
T PF04892_consen 129 RWQ 131 (133)
T ss_pred Hhc
Confidence 333
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=23.87 E-value=3e+02 Score=21.95 Aligned_cols=42 Identities=2% Similarity=-0.016 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCh-HHHHHHHHHHHHHHHHHHh
Q 023385 185 AHLMVNCYSLNSIGPTMEKICGP-RRYLGVYFSSAIASSAMSY 226 (283)
Q Consensus 185 ~HLl~Nm~~L~~~G~~lE~~~G~-~rfl~lyllsgi~g~l~s~ 226 (283)
++++.-.+.-.++|.-+.+.+++ ..+.+++++.|++.++...
T Consensus 50 ~~~v~pil~G~~lG~WLD~~~~t~~~~tl~~lllGv~~G~~n~ 92 (100)
T TIGR02230 50 WSVAIPTLLGVAVGIWLDRHYPSPFSWTLTMLIVGVVIGCLNA 92 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 34555567778889999999886 3556666777777776554
No 21
>PF14898 DUF4491: Domain of unknown function (DUF4491)
Probab=22.64 E-value=1e+02 Score=24.36 Aligned_cols=44 Identities=23% Similarity=0.264 Sum_probs=30.1
Q ss_pred HHHHhChHHHHHHHHHHHHHHHHHHhhhcCCceechHHHHHHHHHHHHH
Q 023385 201 MEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAV 249 (283)
Q Consensus 201 lE~~~G~~rfl~lyllsgi~g~l~s~~~~~~~~vGaSGaIfGLiga~~~ 249 (283)
.|+++|+ +...+|++.|+.....+....+.. . .++.|++|+.+.
T Consensus 26 ~EYyfg~-~~W~~FL~~Gi~~~~~Sl~~~~~~---~-S~llgv~g~s~l 69 (94)
T PF14898_consen 26 GEYYFGT-RIWPIFLLAGIACIIASLFVSNVI---W-SALLGVLGFSCL 69 (94)
T ss_pred EEEecCC-CcHHHHHHHHHHHHHHHHHHcchH---H-HHHHHHHHHHHH
Confidence 3788888 577889999999988888775421 1 234555555543
Done!