Query 039391
Match_columns 151
No_of_seqs 191 out of 1127
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 09:12:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039391.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039391hhsearch_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 1.6E-24 3.4E-29 170.1 14.1 130 12-149 98-246 (278)
2 PRK10907 intramembrane serine 99.9 1.3E-22 2.8E-27 159.4 12.2 127 12-149 131-276 (276)
3 COG0705 Membrane associated se 99.8 4.1E-20 8.9E-25 141.5 11.5 125 15-146 67-214 (228)
4 PF01694 Rhomboid: Rhomboid fa 99.8 3.7E-19 7.9E-24 126.7 8.9 125 12-146 2-145 (145)
5 KOG2289 Rhomboid family protei 99.8 5.4E-20 1.2E-24 146.0 3.4 123 11-144 114-255 (316)
6 KOG2290 Rhomboid family protei 99.5 5.5E-15 1.2E-19 121.1 5.3 133 1-144 436-586 (652)
7 KOG2632 Rhomboid family protei 98.7 2.8E-08 6E-13 76.9 6.2 120 10-139 47-194 (258)
8 PF08551 DUF1751: Eukaryotic i 97.5 0.00019 4.1E-09 48.3 4.5 59 15-73 7-94 (99)
9 PF04511 DER1: Der1-like famil 97.1 0.00027 5.9E-09 53.2 2.0 45 11-55 37-103 (197)
10 KOG2980 Integral membrane prot 97.1 0.00017 3.7E-09 57.2 0.7 110 33-149 191-308 (310)
11 KOG4463 Uncharacterized conser 93.4 0.028 6E-07 44.2 0.5 43 13-55 48-107 (323)
12 KOG0858 Predicted membrane pro 93.1 0.09 1.9E-06 40.7 2.9 45 9-53 46-112 (239)
13 KOG2890 Predicted membrane pro 91.4 0.2 4.4E-06 40.1 3.1 64 14-77 65-157 (326)
14 COG5291 Predicted membrane pro 70.3 4.2 9.2E-05 31.9 2.6 14 11-24 55-68 (313)
15 COG0705 Membrane associated se 63.4 15 0.00033 27.6 4.5 64 13-78 137-205 (228)
16 PF13105 DUF3959: Protein of u 57.1 83 0.0018 23.8 7.3 27 122-148 131-157 (239)
17 COG5070 VRG4 Nucleotide-sugar 50.5 21 0.00045 28.0 3.2 29 121-149 278-306 (309)
18 PF12732 YtxH: YtxH-like prote 46.1 14 0.0003 23.0 1.5 22 126-147 4-25 (74)
19 PF14898 DUF4491: Domain of un 44.3 59 0.0013 21.6 4.2 43 28-77 26-68 (94)
20 TIGR02230 ATPase_gene1 F0F1-AT 35.3 98 0.0021 20.8 4.3 27 25-51 63-90 (100)
21 PF04971 Lysis_S: Lysis protei 30.5 65 0.0014 20.1 2.6 30 120-149 31-63 (68)
22 TIGR02595 PEP_exosort PEP-CTER 30.0 72 0.0016 15.7 2.3 10 126-135 5-14 (26)
23 COG0163 UbiX 3-polyprenyl-4-hy 29.3 24 0.00053 26.5 0.7 16 62-77 9-24 (191)
24 PRK10884 SH3 domain-containing 26.8 52 0.0011 25.0 2.1 13 131-143 181-193 (206)
25 cd03869 M14_CPX_like Peptidase 25.8 22 0.00048 29.9 -0.1 22 1-22 350-371 (405)
26 KOG0682 Ammonia permease [Inor 25.6 31 0.00068 29.7 0.8 23 125-147 192-214 (500)
27 COG4769 Predicted membrane pro 24.1 2.1E+02 0.0046 21.2 4.7 47 30-77 50-96 (181)
28 PF10911 DUF2717: Protein of u 24.0 84 0.0018 20.1 2.3 19 121-139 47-65 (77)
29 KOG2649 Zinc carboxypeptidase 23.6 27 0.00059 30.0 0.1 23 1-23 399-421 (500)
30 PF01034 Syndecan: Syndecan do 23.6 27 0.00059 21.5 0.0 16 125-140 12-27 (64)
31 PF04892 VanZ: VanZ like famil 21.6 2.6E+02 0.0057 18.7 8.4 29 120-148 105-133 (133)
32 PF09527 ATPase_gene1: Putativ 20.8 1.8E+02 0.004 16.6 4.0 26 25-50 21-47 (55)
33 PF00909 Ammonium_transp: Ammo 20.0 1E+02 0.0022 25.6 2.7 25 124-148 154-178 (399)
34 PLN00056 photosystem Q(B) prot 20.0 1.8E+02 0.0039 23.9 4.0 46 12-57 107-162 (353)
No 1
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.92 E-value=1.6e-24 Score=170.08 Aligned_cols=130 Identities=16% Similarity=0.227 Sum_probs=91.8
Q ss_pred cCCCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHH
Q 039391 12 NFPPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLF 73 (151)
Q Consensus 12 ~~~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~ 73 (151)
+++||||++|++| |..+|+.+|++|+..+|++||+.|++++..+.+ ...++||||++||++
T Consensus 98 ~~gq~WRLiT~~FlH~~~~HLl~Nm~~l~~~G~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~-~~~svGASgAifGLi 176 (278)
T PTZ00101 98 KQGEIHRLILPIFLHANIFHTFFNVFFQLRMGFTLEKNYGIVKIIILYFLTGIYGNILSSSVTY-CPIKVGASTSGMGLL 176 (278)
T ss_pred hcCCCHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHcc-CCcEEehhHHHHHHH
Confidence 3599999999999 999999999999999999999999999987765 567999999999999
Q ss_pred HHHHHH-HhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccccCCchhHHHHHHHHHHHHHHHHHhhccccccc
Q 039391 74 AISVLV-KMSWDRRKVLEVLILDELVVEKAAQAPAGTSGTFIGGYSVQSINHIAILSGALFGVFLNKALNLREKRDK 149 (151)
Q Consensus 74 g~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l~~~~~~~~ 149 (151)
|+.... ...+...+..... ....+..... .+ ........+++|+.||+||+++|++++..+.++.+++.
T Consensus 177 Ga~~~~lil~w~~~~~~~~~-~~~~i~~~li----~~--~l~~~~~g~~Id~~aHlGG~i~G~llg~~~~~~l~~~~ 246 (278)
T PTZ00101 177 GIVTSELILLWHVIRHRERV-VFNIIFFSLI----SF--FYYFTFNGSNIDHVGHLGGLLSGISMGILYNSQMENKP 246 (278)
T ss_pred HHHHHHHHHHHHhhccHHHH-HHHHHHHHHH----HH--HHHHhcCCCCccHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 997521 1122111100111 0101111000 00 11223345899999999999999999999877655443
No 2
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.89 E-value=1.3e-22 Score=159.44 Aligned_cols=127 Identities=17% Similarity=0.091 Sum_probs=91.6
Q ss_pred cCCCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHH
Q 039391 12 NFPPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLF 73 (151)
Q Consensus 12 ~~~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~ 73 (151)
+++||||++|++| |+.+|+.+|+++++.+|++|++.||+.++.+.+ ...+|+||++||++
T Consensus 131 ~~~q~WRl~T~~flH~~~~Hl~fNml~l~~lG~~iE~~~G~~~~l~l~l~s~i~~~~~~~~~~~--~~~gGaSGvVygL~ 208 (276)
T PRK10907 131 LKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSGWVQSKFSG--PWFGGLSGVVYALM 208 (276)
T ss_pred ccCCcHHHHhHHHHhCCHHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHcc--chhhHHHHHHHHHH
Confidence 4689999999999 999999999999999999999999999987764 45789999999999
Q ss_pred HHHHHHHhhhhHHHH-HHHHHHHHHHHHHHhhhhhhhhhhhcccccCCchhHHHHHHHHHHHHHHHHHhhccccccc
Q 039391 74 AISVLVKMSWDRRKV-LEVLILDELVVEKAAQAPAGTSGTFIGGYSVQSINHIAILSGALFGVFLNKALNLREKRDK 149 (151)
Q Consensus 74 g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l~~~~~~~~ 149 (151)
|+..+...+.+.+.. .+. . ++...+++ ..++ ..+...++||++||++|+++|+++++...+++||++
T Consensus 209 g~~~~~~~~~p~~~~~lp~---~-~~~f~llw---l~~g--~~~~~g~~Ian~AHlgGli~Gll~g~~~~~~~~~~~ 276 (276)
T PRK10907 209 GYVWLRGERDPQSGIYLPR---G-LIAFALLW---LVAG--YFDLFGMSIANAAHVAGLAVGLAMAFWDTRNARKRK 276 (276)
T ss_pred HHHHHHhccccccchhhhH---H-HHHHHHHH---HHHH--HHHccCcccHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence 986532222111111 111 1 11111111 1111 123345789999999999999999998877766553
No 3
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.83 E-value=4.1e-20 Score=141.51 Aligned_cols=125 Identities=27% Similarity=0.334 Sum_probs=89.5
Q ss_pred CcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCC-cceechhHHHHHHHHH
Q 039391 15 PWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKN-AVSVGAAGAVFGLFAI 75 (151)
Q Consensus 15 e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~-~~~vGaSGai~Gl~g~ 75 (151)
||||++|++| |..+|+..|+.+|+.+|+.+|+.+++.++.+.|.. .+++||||+++|++|+
T Consensus 67 ~~w~lit~~FlH~~~~Hll~N~~~l~~fg~~le~~~G~~~f~~~yl~~gl~~~~~~~~~~~~~~~~~~GASG~i~gllga 146 (228)
T COG0705 67 QLWRLITAIFLHAGFLHLLFNMLALWVFGSNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGAPSLGASGAIFGLLGA 146 (228)
T ss_pred chHHHHHHHHHHhhHHHHHHHHHHHHHhhHHHHHHhchhHHHHHHHHHHHHHHHHHHHHcccccCcccchhHHHHHHHHH
Confidence 8999999999 99999999999999999999999999998888754 5899999999999999
Q ss_pred HHHHHhhhhHHHHHHH--HHHHHHHHHHHhhhhhhhhhhhcccccC--CchhHHHHHHHHHHHHHHHHHhhcccc
Q 039391 76 SVLVKMSWDRRKVLEV--LILDELVVEKAAQAPAGTSGTFIGGYSV--QSINHIAILSGALFGVFLNKALNLREK 146 (151)
Q Consensus 76 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~v~~~aHlgG~l~G~l~~~~l~~~~~ 146 (151)
++.. .+..+..... .... ..+...... .. .+.....+ ++|+++||++|+++|.+++....++++
T Consensus 147 ~~~~--~~~~~~~~~~~~~~~~-~~~~i~~~~---~~-~~~~~~~~~~~~va~~aHl~G~i~G~l~~~~~~~~~~ 214 (228)
T COG0705 147 YFLL--FPFARILLLFLSLPRP-ALILILIWL---LY-SLFSGAGSFGPSVAWSAHLGGLIGGLLLAALLSRKLR 214 (228)
T ss_pred HHHH--ccccchhhhhccCchh-HHHHHHHHH---HH-HHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 8732 2332222111 1001 111101111 11 11222222 479999999999999999998877655
No 4
>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=99.79 E-value=3.7e-19 Score=126.70 Aligned_cols=125 Identities=25% Similarity=0.385 Sum_probs=83.9
Q ss_pred cCCCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHH
Q 039391 12 NFPPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLF 73 (151)
Q Consensus 12 ~~~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~ 73 (151)
+++||||++|+.| |..+|+.+|++++..+|+.+++.+++...+..++..+.+|+||+++|++
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 4699999999999 9999999999999999999999999999888765458999999999999
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhh-hhcccccCCchhHHHHHHHHHHHHHHHHHhhcccc
Q 039391 74 AISVLVKMSWDRRKVLEVLILDELVVEKAAQAPAGTSG-TFIGGYSVQSINHIAILSGALFGVFLNKALNLREK 146 (151)
Q Consensus 74 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l~~~~~ 146 (151)
++........+.+..... . ........+. ...... .+++++.+|++|+++|++++..+.|+++
T Consensus 82 ~~~~~~~~~~~~~~~~~~---~------~~~~~~~~~~~~~~~~~-~~~~~~~~hl~G~~~G~~~~~~~~~~~~ 145 (145)
T PF01694_consen 82 GAFLFLYPQNKKRLRFIY---L------ALVVPIIVLVIILLLGF-IPNISFLGHLGGFLAGLLYGFLILRRPQ 145 (145)
T ss_dssp HHHHHHHHCCCCCS---H---C------CCCCCCCCCCHHHCTSS-SSTTTHHHHHHHHHHHHHHHHHHCH---
T ss_pred HHHHHHHhhccchhhcch---H------HHHHHHHHHHHHHHHHH-HHhHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 997643322211111000 0 0000000010 122222 6899999999999999999999887753
No 5
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.78 E-value=5.4e-20 Score=146.03 Aligned_cols=123 Identities=22% Similarity=0.321 Sum_probs=90.4
Q ss_pred ccCCCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHH
Q 039391 11 HNFPPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGL 72 (151)
Q Consensus 11 ~~~~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl 72 (151)
.+.+|+||++|+|| |..+|+.+|.+|+-++|++++++|++++.++.+ +..+|||||++||+
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 VHRGELWRLLTYMWLHAGIFHLLLNMLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLFDP-NSISVGASGGVFAL 192 (316)
T ss_pred hhhchhHHHHHHHHHhcCHHHHHHHHHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHhcc-CCceecccHHHHHH
Confidence 34599999999999 999999999999999999999999999998875 78899999999999
Q ss_pred HHHHHHHHhhhhHHHHHH-HHHHHHHHHHHHhhhhhhhhhhhcccccCCchhHHHHHHHHHHHHHHHHHhhcc
Q 039391 73 FAISVLVKMSWDRRKVLE-VLILDELVVEKAAQAPAGTSGTFIGGYSVQSINHIAILSGALFGVFLNKALNLR 144 (151)
Q Consensus 73 ~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l~~~ 144 (151)
+|+.+. .+..|+..+-. ...+..++++.. + .+-.+. .+.+|+++|+||+++|...++++..+
T Consensus 193 lgA~Ls-~l~~Nw~~m~~~~~~l~~ll~Ii~-------i-~l~~G~-~~~~~~~~h~gg~~~G~~~~fil~~~ 255 (316)
T KOG2289|consen 193 LGAHLS-NLLTNWTIMKNKFAALRTLLIIIF-------I-NLDLGF-APYVDNFAHIGGLLAGFLLGFVLHIG 255 (316)
T ss_pred HHHHHH-HHHhhHHHhcchHHHHHHHHHHHH-------H-HHhhcc-ccceeccccccccCCCcchhHHhhhc
Confidence 999862 33333332210 100111111100 1 122343 37789999999999999999877543
No 6
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.54 E-value=5.5e-15 Score=121.06 Aligned_cols=133 Identities=21% Similarity=0.306 Sum_probs=98.0
Q ss_pred CCccccccccccCCCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcce
Q 039391 1 VRSIKSLYLHHNFPPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVS 62 (151)
Q Consensus 1 ~~~~~~~~~~~~~~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~ 62 (151)
|=||-+++-..++.|+||+.|+.| -+.+|+..|+.|..++|++||+.||+++..+.| ..+.
T Consensus 436 VCGllPFln~e~PdQfYRL~~SLFlHagviH~~vSi~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIFlp-Y~~e 514 (652)
T KOG2290|consen 436 VCGLLPFLNPEVPDQFYRLWLSLFLHAGVIHLLVSICFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIFLP-YRAE 514 (652)
T ss_pred ccccccccCCCChhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcchhhheeeecccccccchheeeec-cccc
Confidence 347777888889999999999999 567899999999999999999999999998886 8899
Q ss_pred echhHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccccCCchhHHHHHHHHHHHHHHHHHhh
Q 039391 63 VGAAGAVFGLFAISVLVKMSWDRRKVLEVLILDELVVEKAAQAPAGTSGTFIGGYSVQSINHIAILSGALFGVFLNKALN 142 (151)
Q Consensus 63 vGaSGai~Gl~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l~ 142 (151)
||.||+-+|++++.++ .+. +.+.+++.- -..+. .+ +..++ ++..++ -|-||++||+.|++.|++.+.++.
T Consensus 515 VgPa~sQ~Gila~l~v-El~-qs~~il~~~-w~a~~--~L---ia~~L-~L~iGl-iPWiDN~aHlfG~i~GLl~s~~~~ 584 (652)
T KOG2290|consen 515 VGPAGSQFGILACLFV-ELF-QSWQILERP-WRAFF--HL---IATLL-VLCIGL-IPWIDNWAHLFGTIFGLLTSIIFL 584 (652)
T ss_pred cCCcccccchHHHHHH-HHH-hhhHhhhhH-HHHHH--HH---HHHHH-HHHhcc-ccchhhHHHHHHHHHHHHHHHHhh
Confidence 9999999999998763 222 222222211 01000 00 00111 122354 489999999999999999998876
Q ss_pred cc
Q 039391 143 LR 144 (151)
Q Consensus 143 ~~ 144 (151)
+-
T Consensus 585 PY 586 (652)
T KOG2290|consen 585 PY 586 (652)
T ss_pred cc
Confidence 53
No 7
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=98.72 E-value=2.8e-08 Score=76.94 Aligned_cols=120 Identities=16% Similarity=0.175 Sum_probs=80.5
Q ss_pred cccCCCcchhhhhHh------------------HHHHHHhhc-hHHHHHHHHHHHHHHHHHHHhhc-----CC---Ccce
Q 039391 10 HHNFPPWYQFVTAAF------------------WKLVEEEEG-NCGLWLSYIFSGAAANFVPWLIL-----PK---NAVS 62 (151)
Q Consensus 10 ~~~~~e~wrl~T~~f------------------G~~le~~~G-~~~~~~lyl~sgi~g~l~~~~~~-----~~---~~~~ 62 (151)
..++.|.||++||.+ |...|+.+| +.++.....+.++..+++..... .+ +...
T Consensus 47 ~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~~G~t~~~l~~~~llalf~gIl~ll~~~~~~~~d~~~~~~a 126 (258)
T KOG2632|consen 47 LLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERTHGTTVRILMFTVLLALFSGILYLLAYHVFLLSDLVYVEGA 126 (258)
T ss_pred HhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhhccceehHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhccc
Confidence 345689999999998 899999999 88888888888888888665443 11 2456
Q ss_pred echhHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHHHHHHHhhhhhhhhhhhcccccCCchhHHHHHHHHHHHHHHHH
Q 039391 63 VGAAGAVFGLFAISVLVKMSWDRR-KVLEVLILDELVVEKAAQAPAGTSGTFIGGYSVQSINHIAILSGALFGVFLNK 139 (151)
Q Consensus 63 vGaSGai~Gl~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~ 139 (151)
+|-||..|++++..... .+.++ .......+..... +...+ +...+..|+.|..+|++|+++|..+++
T Consensus 127 ~G~s~v~Fam~~~~~~~--sp~r~~~~fg~~siP~~l~------Pw~lL--i~~~~lvp~aSFlghl~GllvG~ay~~ 194 (258)
T KOG2632|consen 127 IGFSGVLFAMMAVLEVQ--SPVRSRSVFGLFSIPIVLA------PWALL--IATQILVPQASFLGHLCGLLVGYAYAF 194 (258)
T ss_pred ccccHHHHHHHHHHhhc--CcccchhhcccccccHHHH------HHHHH--HHHHHHccCchHHHHHHHHHHHHHHHH
Confidence 99999999999985421 22222 1211110000000 11111 122234689999999999999999998
No 8
>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=97.50 E-value=0.00019 Score=48.35 Aligned_cols=59 Identities=17% Similarity=0.254 Sum_probs=45.1
Q ss_pred CcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhhc--------CCC---cceech
Q 039391 15 PWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLIL--------PKN---AVSVGA 65 (151)
Q Consensus 15 e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~~--------~~~---~~~vGa 65 (151)
.+|+++|+.| |+.+|+.+|+++++....+....+|+...... ++. .+.-|.
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 6899999999 99999999999999999999999998654332 222 334566
Q ss_pred hHHHHHHH
Q 039391 66 AGAVFGLF 73 (151)
Q Consensus 66 SGai~Gl~ 73 (151)
+|.+.|++
T Consensus 87 ~~~~~g~l 94 (99)
T PF08551_consen 87 MGVLAGFL 94 (99)
T ss_pred HHhHhheE
Confidence 66666554
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=97.11 E-value=0.00027 Score=53.16 Aligned_cols=45 Identities=16% Similarity=0.147 Sum_probs=32.0
Q ss_pred ccCCCcchhhhhHh-------------------HHHHHHh-hc-h-HHHHHHHHHHHHHHHHHHHhh
Q 039391 11 HNFPPWYQFVTAAF-------------------WKLVEEE-EG-N-CGLWLSYIFSGAAANFVPWLI 55 (151)
Q Consensus 11 ~~~~e~wrl~T~~f-------------------G~~le~~-~G-~-~~~~~lyl~sgi~g~l~~~~~ 55 (151)
.++.|+||++|+.| ++.+|+. +. + .+|+...+.+++.-.+.+.+.
T Consensus 37 ~~~~q~WRl~Tsff~~g~~~~~~l~~~~~l~~~s~~LE~~~f~~~~ady~~~ll~~~~~i~~~~~~~ 103 (197)
T PF04511_consen 37 FKKFQIWRLFTSFFYFGPFSLNFLFNLYFLYQYSSSLEEGHFQGRSADYLWFLLFGASLILILSLLI 103 (197)
T ss_pred hhhcCceeeEEEEEEEcCCCHHHHHHHHHHHHHhhHhccCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 45699999999998 7899987 33 2 577777666666655555433
No 10
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=97.08 E-value=0.00017 Score=57.18 Aligned_cols=110 Identities=25% Similarity=0.304 Sum_probs=56.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHhh-cC--CCcceechhHHHHHHHHHHHHHHhhhhHHHHHHH---HHHHHH-HHHHHhhh
Q 039391 33 GNCGLWLSYIFSGAAANFVPWLI-LP--KNAVSVGAAGAVFGLFAISVLVKMSWDRRKVLEV---LILDEL-VVEKAAQA 105 (151)
Q Consensus 33 G~~~~~~lyl~sgi~g~l~~~~~-~~--~~~~~vGaSGai~Gl~g~~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~ 105 (151)
|...+..+|+.++..|....+.- .+ +..+..||||+++++.+..++. .++....+.. ...+.. .+..++.
T Consensus 191 ~~~~~~AlylSa~~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~~l--fP~~~~~i~f~~~v~~ga~~~~~~i~~- 267 (310)
T KOG2980|consen 191 GFSSFFALYLSAGVKGLFISVKDKVPTSWAGPSLGASGAVYAILALDCTL--FPKTTLYILFVFPVPAGAGLAFKAIAA- 267 (310)
T ss_pred chhhcccceeccccccceeEeeccccccccccccccchHHHHHHHHHhhc--CcCcceeEEEeecccccchhHHHHHHH-
Confidence 44555566664444443333211 01 2467899999999999998743 3333221100 000001 1110100
Q ss_pred hhhhhhhhcccccCCchhHHHHHHHHHHHHHHHHHh-hccccccc
Q 039391 106 PAGTSGTFIGGYSVQSINHIAILSGALFGVFLNKAL-NLREKRDK 149 (151)
Q Consensus 106 ~~~~~~~~~~~~~~~~v~~~aHlgG~l~G~l~~~~l-~~~~~~~~ 149 (151)
+.+.+ +. +....-|+.||++|-+.|...+..+ .+-+|+|+
T Consensus 268 -~~~a~-~~--l~~~~~n~~Ah~~gsl~Gv~va~~~~~ri~kgR~ 308 (310)
T KOG2980|consen 268 -YDFAG-LI--LGWGFFNHAAHLSGSLFGVVVATYLWARIRKGRF 308 (310)
T ss_pred -hhhcc-ee--eccccchhHhhhcchHHHHHHHHHHHHHHHcCcc
Confidence 00111 11 1245677889999999999999776 44444443
No 11
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.39 E-value=0.028 Score=44.16 Aligned_cols=43 Identities=14% Similarity=0.409 Sum_probs=37.0
Q ss_pred CCCcchhhhhHh-----------------HHHHHHhhchHHHHHHHHHHHHHHHHHHHhh
Q 039391 13 FPPWYQFVTAAF-----------------WKLVEEEEGNCGLWLSYIFSGAAANFVPWLI 55 (151)
Q Consensus 13 ~~e~wrl~T~~f-----------------G~~le~~~G~~~~~~lyl~sgi~g~l~~~~~ 55 (151)
..||||++-..| -+.+||.+|+-||..+.+.+++.+-+..+.+
T Consensus 48 y~qywrlL~~qF~~~n~~e~~~~l~I~Y~fR~~ERlLGShky~~fiv~s~~~~~l~~~il 107 (323)
T KOG4463|consen 48 YFQYWRLLMSQFAFSNTPELMFGLYILYYFRVFERLLGSHKYSVFIVFSGTVSLLLEVIL 107 (323)
T ss_pred HHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHhccccceeehhHHHHHHHHHHHHH
Confidence 379999999998 5789999999999999999999988866533
No 12
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=93.12 E-value=0.09 Score=40.66 Aligned_cols=45 Identities=11% Similarity=0.181 Sum_probs=33.2
Q ss_pred ccccCCCcchhhhhHh-------------------HHHHHHhh---chHHHHHHHHHHHHHHHHHHH
Q 039391 9 LHHNFPPWYQFVTAAF-------------------WKLVEEEE---GNCGLWLSYIFSGAAANFVPW 53 (151)
Q Consensus 9 ~~~~~~e~wrl~T~~f-------------------G~~le~~~---G~~~~~~lyl~sgi~g~l~~~ 53 (151)
++.++.|+||++|+.+ .+.+|+-. -+.+|+...+++++.-.+.+.
T Consensus 46 Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY~~~LE~g~f~~rtadf~~mllf~~~l~~~~~~ 112 (239)
T KOG0858|consen 46 LVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRYSSMLEEGSFRGRTADFLYMLLFGAVLLTLTGL 112 (239)
T ss_pred HHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHHHHHH
Confidence 3456799999999997 67888643 247888888888877665443
No 13
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=91.41 E-value=0.2 Score=40.11 Aligned_cols=64 Identities=17% Similarity=0.235 Sum_probs=47.0
Q ss_pred CCcchhhhhHh------------------HHHHHHhhchHHHHHHHHHHHHHHHHH-------HHhhc-CC---Ccceec
Q 039391 14 PPWYQFVTAAF------------------WKLVEEEEGNCGLWLSYIFSGAAANFV-------PWLIL-PK---NAVSVG 64 (151)
Q Consensus 14 ~e~wrl~T~~f------------------G~~le~~~G~~~~~~lyl~sgi~g~l~-------~~~~~-~~---~~~~vG 64 (151)
.+.|+++|+.| |+.+|+.+|+..++..|.+.-..-++. .|.+. ++ ..+-.|
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 47899999999 999999999999988887655444432 22222 21 245789
Q ss_pred hhHHHHHHHHHHH
Q 039391 65 AAGAVFGLFAISV 77 (151)
Q Consensus 65 aSGai~Gl~g~~~ 77 (151)
.-|..-|++-++-
T Consensus 145 ~~gilaGilVa~k 157 (326)
T KOG2890|consen 145 TTGILAGILVAWK 157 (326)
T ss_pred chHHHHHHHHHHH
Confidence 9999999998853
No 14
>COG5291 Predicted membrane protein [Function unknown]
Probab=70.28 E-value=4.2 Score=31.94 Aligned_cols=14 Identities=7% Similarity=0.059 Sum_probs=11.4
Q ss_pred ccCCCcchhhhhHh
Q 039391 11 HNFPPWYQFVTAAF 24 (151)
Q Consensus 11 ~~~~e~wrl~T~~f 24 (151)
.++-||||++|+..
T Consensus 55 ~k~~qiwRlfTs~~ 68 (313)
T COG5291 55 LKRLQIWRLFTSFL 68 (313)
T ss_pred HHHHHHHHHHHHHH
Confidence 45689999999765
No 15
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=63.36 E-value=15 Score=27.64 Aligned_cols=64 Identities=14% Similarity=-0.191 Sum_probs=44.6
Q ss_pred CCCcchhhhhHh---HHHHHHhhc--hHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHHHHHHH
Q 039391 13 FPPWYQFVTAAF---WKLVEEEEG--NCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLFAISVL 78 (151)
Q Consensus 13 ~~e~wrl~T~~f---G~~le~~~G--~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~g~~~~ 78 (151)
.+++|+++++.+ ...-+.... ..+...+++...+..++......+ .+.|+.++-+.|+++..++
T Consensus 137 SG~i~gllga~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~--~~~va~~aHl~G~i~G~l~ 205 (228)
T COG0705 137 SGAIFGLLGAYFLLFPFARILLLFLSLPRPALILILIWLLYSLFSGAGSF--GPSVAWSAHLGGLIGGLLL 205 (228)
T ss_pred hHHHHHHHHHHHHHccccchhhhhccCchhHHHHHHHHHHHHHHHHhcCC--chHHHHHHHHHHHHHHHHH
Confidence 488899999888 222223333 456677778888888777765543 2689999999999987663
No 16
>PF13105 DUF3959: Protein of unknown function (DUF3959)
Probab=57.07 E-value=83 Score=23.78 Aligned_cols=27 Identities=19% Similarity=0.444 Sum_probs=20.3
Q ss_pred hhHHHHHHHHHHHHHHHHHhhcccccc
Q 039391 122 INHIAILSGALFGVFLNKALNLREKRD 148 (151)
Q Consensus 122 v~~~aHlgG~l~G~l~~~~l~~~~~~~ 148 (151)
+-..--++|++.|-+++..+.|+.+++
T Consensus 131 ~YlllLvgGli~GGLlA~~~hRke~d~ 157 (239)
T PF13105_consen 131 LYLLLLVGGLILGGLLAMLIHRKEKDN 157 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 344456789999999999988776543
No 17
>COG5070 VRG4 Nucleotide-sugar transporter [Carbohydrate transport and metabolism / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=50.55 E-value=21 Score=27.99 Aligned_cols=29 Identities=24% Similarity=0.315 Sum_probs=23.5
Q ss_pred chhHHHHHHHHHHHHHHHHHhhccccccc
Q 039391 121 SINHIAILSGALFGVFLNKALNLREKRDK 149 (151)
Q Consensus 121 ~v~~~aHlgG~l~G~l~~~~l~~~~~~~~ 149 (151)
..+..+-+-|+++|.++++...++++|.|
T Consensus 278 f~si~sillGflsg~iYavaks~k~q~q~ 306 (309)
T COG5070 278 FLSIFSILLGFLSGAIYAVAKSKKQQNQK 306 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 35678889999999999999877666655
No 18
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=46.12 E-value=14 Score=23.00 Aligned_cols=22 Identities=18% Similarity=0.249 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhhccccc
Q 039391 126 AILSGALFGVFLNKALNLREKR 147 (151)
Q Consensus 126 aHlgG~l~G~l~~~~l~~~~~~ 147 (151)
+=+.|.++|...++++.|++.+
T Consensus 4 g~l~Ga~~Ga~~glL~aP~sG~ 25 (74)
T PF12732_consen 4 GFLAGAAAGAAAGLLFAPKSGK 25 (74)
T ss_pred HHHHHHHHHHHHHHHhCCCCcH
Confidence 3456788888888888776543
No 19
>PF14898 DUF4491: Domain of unknown function (DUF4491)
Probab=44.31 E-value=59 Score=21.60 Aligned_cols=43 Identities=21% Similarity=0.362 Sum_probs=29.9
Q ss_pred HHHhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHHHHHH
Q 039391 28 VEEEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLFAISV 77 (151)
Q Consensus 28 le~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~g~~~ 77 (151)
.|..+|+ |..-+|++.|+.....+....+ +..| ++.|++|+.+
T Consensus 26 ~EYyfg~-~~W~~FL~~Gi~~~~~Sl~~~~-----~~~S-~llgv~g~s~ 68 (94)
T PF14898_consen 26 GEYYFGT-RIWPIFLLAGIACIIASLFVSN-----VIWS-ALLGVLGFSC 68 (94)
T ss_pred EEEecCC-CcHHHHHHHHHHHHHHHHHHcc-----hHHH-HHHHHHHHHH
Confidence 3667787 5677889999998888865443 2222 5778888866
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=35.28 E-value=98 Score=20.77 Aligned_cols=27 Identities=7% Similarity=0.076 Sum_probs=14.5
Q ss_pred HHHHHHhhch-HHHHHHHHHHHHHHHHH
Q 039391 25 WKLVEEEEGN-CGLWLSYIFSGAAANFV 51 (151)
Q Consensus 25 G~~le~~~G~-~~~~~lyl~sgi~g~l~ 51 (151)
|..+.+.+++ ..+.+.+++.|++.++.
T Consensus 63 G~WLD~~~~t~~~~tl~~lllGv~~G~~ 90 (100)
T TIGR02230 63 GIWLDRHYPSPFSWTLTMLIVGVVIGCL 90 (100)
T ss_pred HHHHHhhcCCCcHHHHHHHHHHHHHHHH
Confidence 5666666653 24444555555555553
No 21
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=30.46 E-value=65 Score=20.12 Aligned_cols=30 Identities=23% Similarity=0.517 Sum_probs=15.9
Q ss_pred CchhHHHHHHHHHHHHHHH---HHhhccccccc
Q 039391 120 QSINHIAILSGALFGVFLN---KALNLREKRDK 149 (151)
Q Consensus 120 ~~v~~~aHlgG~l~G~l~~---~~l~~~~~~~~ 149 (151)
.+-+..+-++|.+.|++.. +.++++++|||
T Consensus 31 ~qW~aIGvi~gi~~~~lt~ltN~YFK~k~drr~ 63 (68)
T PF04971_consen 31 SQWAAIGVIGGIFFGLLTYLTNLYFKIKEDRRK 63 (68)
T ss_pred ccchhHHHHHHHHHHHHHHHhHhhhhhhHhhhH
Confidence 3444456666666555444 34555555554
No 22
>TIGR02595 PEP_exosort PEP-CTERM putative exosortase interaction domain. This model describes a 25-residue domain that includes a near-invariant Pro-Glu-Pro (PEP) motif, a thirteen residue strongly hydrophobic sequence likely to span the membrane, and a five-residue strongly basic motif that often contains four Arg residues. In nearly every case, this motif is found within nine residues, and usually within five residues, of the extreme C-terminus of the protein. Proteins with this motif typically have signal sequences at the N-terminus. This region appears many times per genome or not at all, and co-occurs in genomes with a proposed protein-sorting integral membrane protein we designate exosortase (see TIGR02602). PEP-CTERM proteins frequently are poorly conserved, Ser/Thr-rich proteins and may become extensively modified proteinaceous constituents of extracellular material in bacterial biofilms.
Probab=30.03 E-value=72 Score=15.74 Aligned_cols=10 Identities=30% Similarity=0.374 Sum_probs=5.7
Q ss_pred HHHHHHHHHH
Q 039391 126 AILSGALFGV 135 (151)
Q Consensus 126 aHlgG~l~G~ 135 (151)
+.+.++..|.
T Consensus 5 stl~ll~~g~ 14 (26)
T TIGR02595 5 STLLLLLLGL 14 (26)
T ss_pred hHHHHHHHHH
Confidence 3455666666
No 23
>COG0163 UbiX 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]
Probab=29.30 E-value=24 Score=26.46 Aligned_cols=16 Identities=38% Similarity=0.727 Sum_probs=12.2
Q ss_pred eechhHHHHHHHHHHH
Q 039391 62 SVGAAGAVFGLFAISV 77 (151)
Q Consensus 62 ~vGaSGai~Gl~g~~~ 77 (151)
.-||||++||+=-.-.
T Consensus 9 isGASG~iygvrlLe~ 24 (191)
T COG0163 9 ISGASGAIYGVRLLEV 24 (191)
T ss_pred EeccccHHHHHHHHHH
Confidence 3599999999865544
No 24
>PRK10884 SH3 domain-containing protein; Provisional
Probab=26.80 E-value=52 Score=24.99 Aligned_cols=13 Identities=31% Similarity=0.301 Sum_probs=7.6
Q ss_pred HHHHHHHHHHhhc
Q 039391 131 ALFGVFLNKALNL 143 (151)
Q Consensus 131 ~l~G~l~~~~l~~ 143 (151)
+.+|+++|+++++
T Consensus 181 ~~~GlllGlilp~ 193 (206)
T PRK10884 181 AGIGLLLGLLLPH 193 (206)
T ss_pred HHHHHHHHHHhcc
Confidence 3456666666654
No 25
>cd03869 M14_CPX_like Peptidase M14-like domain of carboxypeptidase (CP)-like protein X (CPX), CPX forms a distinct subgroup of the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Proteins belonging to this subgroup include CP-like protein X1 (CPX1), CP-like protein X2 (CPX2), and aortic CP-like protein (ACLP) and its isoform adipocyte enhancer binding protein-1 (AEBP1). AEBP1 is a truncated form of ACLP, which may arise from alternative splicing of the gene. These proteins are inactive towards standard CP substrates because they lack one or more critical active site and substrate-binding residues that are necessary for activity. They may function as binding proteins rather than as active CPs or display catalytic activity toward other substrates. Pro
Probab=25.78 E-value=22 Score=29.89 Aligned_cols=22 Identities=9% Similarity=0.141 Sum_probs=15.1
Q ss_pred CCccccccccccCCCcchhhhh
Q 039391 1 VRSIKSLYLHHNFPPWYQFVTA 22 (151)
Q Consensus 1 ~~~~~~~~~~~~~~e~wrl~T~ 22 (151)
|.|++...-..+.|+||||+.+
T Consensus 350 v~g~~~~v~t~~~GdywRll~p 371 (405)
T cd03869 350 VEGINHDIRTASDGDYWRLLNP 371 (405)
T ss_pred EecCccceeeCCCCceEEecCC
Confidence 3455555445677999999875
No 26
>KOG0682 consensus Ammonia permease [Inorganic ion transport and metabolism]
Probab=25.57 E-value=31 Score=29.72 Aligned_cols=23 Identities=26% Similarity=0.326 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHhhccccc
Q 039391 125 IAILSGALFGVFLNKALNLREKR 147 (151)
Q Consensus 125 ~aHlgG~l~G~l~~~~l~~~~~~ 147 (151)
.-|+.|-++|++.++.+.||.+|
T Consensus 192 ~VHl~gG~agl~~a~~lGpR~~r 214 (500)
T KOG0682|consen 192 VVHLVGGVAGLVAALILGPRIGR 214 (500)
T ss_pred eeEecccHHHHHHHHHhCCccCc
Confidence 34999999999999999988875
No 27
>COG4769 Predicted membrane protein [Function unknown]
Probab=24.13 E-value=2.1e+02 Score=21.20 Aligned_cols=47 Identities=9% Similarity=0.031 Sum_probs=24.2
Q ss_pred HhhchHHHHHHHHHHHHHHHHHHHhhcCCCcceechhHHHHHHHHHHH
Q 039391 30 EEEGNCGLWLSYIFSGAAANFVPWLILPKNAVSVGAAGAVFGLFAISV 77 (151)
Q Consensus 30 ~~~G~~~~~~lyl~sgi~g~l~~~~~~~~~~~~vGaSGai~Gl~g~~~ 77 (151)
+.++.+..+.+-++=.+.+++++--+.. +....+++|++....+.+.
T Consensus 50 ~~l~~~~~~~~i~lr~il~AL~sGtlfs-~~Fl~sfaG~i~S~L~m~~ 96 (181)
T COG4769 50 ETLNFKDALQTILLRVILQALFSGTLFS-PVFLYSFAGAILSTLFMYF 96 (181)
T ss_pred HhccHHHHHHHHHHHHHHHHHHcCccch-HHHHHHHHHHHHHHHHHHH
Confidence 3345555555555555555444321111 2445677777776666655
No 28
>PF10911 DUF2717: Protein of unknown function (DUF2717); InterPro: IPR020121 The proteins in this entry are uncharacterised.
Probab=24.02 E-value=84 Score=20.06 Aligned_cols=19 Identities=16% Similarity=0.036 Sum_probs=15.2
Q ss_pred chhHHHHHHHHHHHHHHHH
Q 039391 121 SINHIAILSGALFGVFLNK 139 (151)
Q Consensus 121 ~v~~~aHlgG~l~G~l~~~ 139 (151)
..=.++|+.||+.|+-++-
T Consensus 47 ~G~SE~~I~Gfl~Gl~~As 65 (77)
T PF10911_consen 47 QGWSESYILGFLAGLQYAS 65 (77)
T ss_pred ccccHHHHHHHHHHHHHHH
Confidence 3446899999999998773
No 29
>KOG2649 consensus Zinc carboxypeptidase [General function prediction only]
Probab=23.58 E-value=27 Score=30.01 Aligned_cols=23 Identities=9% Similarity=0.141 Sum_probs=17.4
Q ss_pred CCccccccccccCCCcchhhhhH
Q 039391 1 VRSIKSLYLHHNFPPWYQFVTAA 23 (151)
Q Consensus 1 ~~~~~~~~~~~~~~e~wrl~T~~ 23 (151)
|.|+..-....+.|+||||+.+-
T Consensus 399 V~ginHdv~T~~~GDYWRLL~PG 421 (500)
T KOG2649|consen 399 VDGINHDVTTAKEGDYWRLLPPG 421 (500)
T ss_pred EecCcCceeecCCCceEEeeCCc
Confidence 45677666777889999998763
No 30
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=23.56 E-value=27 Score=21.53 Aligned_cols=16 Identities=19% Similarity=0.551 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 039391 125 IAILSGALFGVFLNKA 140 (151)
Q Consensus 125 ~aHlgG~l~G~l~~~~ 140 (151)
.|=++|.++|++++.+
T Consensus 12 aavIaG~Vvgll~ail 27 (64)
T PF01034_consen 12 AAVIAGGVVGLLFAIL 27 (64)
T ss_dssp ----------------
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5556677777776643
No 31
>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=21.60 E-value=2.6e+02 Score=18.70 Aligned_cols=29 Identities=28% Similarity=0.337 Sum_probs=23.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHhhcccccc
Q 039391 120 QSINHIAILSGALFGVFLNKALNLREKRD 148 (151)
Q Consensus 120 ~~v~~~aHlgG~l~G~l~~~~l~~~~~~~ 148 (151)
+--|..+...|...|.++.....|+.+|+
T Consensus 105 d~~Dv~~n~~G~~lG~~l~~~~~~~~~r~ 133 (133)
T PF04892_consen 105 DIDDVLANTLGALLGYLLYRLIRKRWQRK 133 (133)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 44689999999999999888877766553
No 32
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=20.83 E-value=1.8e+02 Score=16.62 Aligned_cols=26 Identities=23% Similarity=0.106 Sum_probs=13.0
Q ss_pred HHHHHHhhch-HHHHHHHHHHHHHHHH
Q 039391 25 WKLVEEEEGN-CGLWLSYIFSGAAANF 50 (151)
Q Consensus 25 G~~le~~~G~-~~~~~lyl~sgi~g~l 50 (151)
|..+++.+++ ..+.++.++-|+.+++
T Consensus 21 G~~lD~~~~t~p~~~~~g~llG~~~g~ 47 (55)
T PF09527_consen 21 GYWLDKWFGTSPWFTLIGLLLGIAAGF 47 (55)
T ss_pred HHHHHHHcCCChHHHHHHHHHHHHHHH
Confidence 5555555555 3444444444444444
No 33
>PF00909 Ammonium_transp: Ammonium Transporter Family; InterPro: IPR024041 This ammonium transporter domain consists of a duplication of 2 structural repeats of five helices each plus one extra C-terminal helix. It has been described as a channel that spans the membrane 11 times [].; PDB: 3B9Z_A 3B9Y_A 3B9W_A 3BHS_A 2B2H_A 2B2J_A 2B2F_A 2B2I_A 2NPG_A 2NUU_E ....
Probab=20.01 E-value=1e+02 Score=25.62 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccc
Q 039391 124 HIAILSGALFGVFLNKALNLREKRD 148 (151)
Q Consensus 124 ~~aHlgG~l~G~l~~~~l~~~~~~~ 148 (151)
-.-|+.|..+|+..++.+.||++|.
T Consensus 154 ~vVH~~gG~~gL~~a~~lg~R~~~~ 178 (399)
T PF00909_consen 154 GVVHLFGGVFGLAAAIVLGPRRGRF 178 (399)
T ss_dssp TTTHHHHHHHHHHHHHHH--CTTTT
T ss_pred eeeehhhhHHHHhhheeeCCCCCcc
Confidence 3479999999999999998877764
No 34
>PLN00056 photosystem Q(B) protein; Provisional
Probab=20.01 E-value=1.8e+02 Score=23.90 Aligned_cols=46 Identities=20% Similarity=0.054 Sum_probs=33.3
Q ss_pred cCCCcchhhhhHh--------HHHHH--HhhchHHHHHHHHHHHHHHHHHHHhhcC
Q 039391 12 NFPPWYQFVTAAF--------WKLVE--EEEGNCGLWLSYIFSGAAANFVPWLILP 57 (151)
Q Consensus 12 ~~~e~wrl~T~~f--------G~~le--~~~G~~~~~~lyl~sgi~g~l~~~~~~~ 57 (151)
++|-||++++-.+ ++..| +..|.+....+=+.+.+...+...++.|
T Consensus 107 ~~GG~wqii~f~~~~s~~~W~~R~~e~ar~LGMg~hia~AFsaaI~a~~~l~lIrP 162 (353)
T PLN00056 107 YNGGPYELIVLHFLLGVACYMGREWELSFRLGMRPWIAVAYSAPVAAATAVFLIYP 162 (353)
T ss_pred hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhHhHHHHHHHHHHHHhheeee
Confidence 5588999999887 66666 5678777777777777776666555555
Done!