Query 026994
Match_columns 229
No_of_seqs 203 out of 1164
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 03:28:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026994.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026994hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2890 Predicted membrane pro 100.0 4E-57 8.7E-62 391.8 10.5 222 1-222 93-320 (326)
2 PF08551 DUF1751: Eukaryotic i 99.6 7.4E-17 1.6E-21 121.7 2.9 66 1-66 34-99 (99)
3 COG0705 Membrane associated se 99.1 5.9E-10 1.3E-14 95.3 11.7 114 1-125 94-212 (228)
4 PTZ00101 rhomboid-1 protease; 98.9 8.3E-09 1.8E-13 91.2 9.7 111 1-125 128-241 (278)
5 PF01694 Rhomboid: Rhomboid fa 98.7 7.7E-09 1.7E-13 81.6 2.0 112 1-126 32-144 (145)
6 PRK10907 intramembrane serine 98.6 4.4E-07 9.6E-12 80.2 11.8 104 1-123 161-269 (276)
7 KOG2632 Rhomboid family protei 97.5 0.00085 1.8E-08 58.5 10.0 111 1-120 79-194 (258)
8 PF04511 DER1: Der1-like famil 97.2 0.0056 1.2E-07 51.4 11.1 105 2-123 70-180 (197)
9 KOG2289 Rhomboid family protei 97.2 0.00012 2.6E-09 65.8 0.8 107 1-121 145-255 (316)
10 KOG2290 Rhomboid family protei 97.0 0.00052 1.1E-08 64.0 2.9 103 3-121 479-586 (652)
11 KOG2980 Integral membrane prot 93.7 0.17 3.6E-06 45.3 5.9 75 48-123 221-305 (310)
12 KOG0858 Predicted membrane pro 93.3 0.79 1.7E-05 39.7 9.3 87 11-119 93-182 (239)
13 KOG4463 Uncharacterized conser 89.3 0.05 1.1E-06 47.7 -2.1 80 3-87 78-160 (323)
14 PRK10862 SoxR reducing system 69.3 14 0.00029 29.9 5.5 19 107-125 109-127 (154)
15 PF06946 Phage_holin_5: Phage 65.1 36 0.00078 25.3 6.5 47 78-124 31-84 (93)
16 COG5291 Predicted membrane pro 64.5 11 0.00025 33.0 4.4 31 63-93 138-171 (313)
17 PF04246 RseC_MucC: Positive r 53.6 29 0.00062 27.0 4.7 21 106-126 101-121 (135)
18 PF03082 MAGSP: Male accessory 45.0 18 0.0004 31.0 2.4 28 185-212 107-138 (264)
19 PRK10907 intramembrane serine 44.5 35 0.00075 30.3 4.3 24 100-123 250-273 (276)
20 PF04528 Adeno_E4_34: Adenovir 44.1 16 0.00034 29.6 1.8 17 189-205 125-141 (148)
21 PF02654 CobS: Cobalamin-5-pho 42.9 1.6E+02 0.0035 25.2 8.1 25 108-133 194-218 (235)
22 PF14851 FAM176: FAM176 family 42.5 39 0.00083 27.5 3.9 19 54-72 28-46 (153)
23 KOG4111 Translocase of outer m 38.8 49 0.0011 26.2 3.8 57 3-64 43-101 (136)
24 PF11085 YqhR: Conserved membr 34.7 1.9E+02 0.0041 24.0 6.8 79 13-91 18-108 (173)
25 COG3931 Predicted N-formylglut 34.4 64 0.0014 28.2 4.1 19 182-200 103-122 (263)
26 KOG3142 Prenylated rab accepto 33.2 54 0.0012 27.5 3.4 19 108-126 94-112 (187)
27 PF06295 DUF1043: Protein of u 31.8 51 0.0011 25.7 2.9 19 107-125 5-23 (128)
28 PF04281 Tom22: Mitochondrial 31.2 1.1E+02 0.0023 24.4 4.7 57 3-65 52-111 (137)
29 COG3086 RseC Positive regulato 30.4 1.5E+02 0.0032 24.0 5.3 19 107-125 109-127 (150)
30 TIGR00986 3a0801s05tom22 mitoc 30.2 1.9E+02 0.0042 23.2 6.0 58 3-66 50-110 (145)
31 PF12344 UvrB: Ultra-violet re 28.1 35 0.00076 21.8 1.2 12 189-200 14-25 (44)
32 KOG3599 Ca2+-modulated nonsele 27.9 6.1E+02 0.013 26.2 10.5 57 2-70 582-638 (798)
33 COG1377 FlhB Flagellar biosynt 26.0 68 0.0015 29.7 3.1 25 188-212 237-261 (363)
34 KOG4544 Uncharacterized conser 25.8 55 0.0012 26.1 2.1 15 193-207 37-51 (144)
35 COG4956 Integral membrane prot 25.1 3E+02 0.0064 25.2 6.8 23 49-71 81-103 (356)
36 PF12023 DUF3511: Domain of un 24.8 55 0.0012 21.2 1.6 13 188-200 4-16 (47)
37 PRK11677 hypothetical protein; 24.5 79 0.0017 25.1 2.8 20 106-125 8-27 (134)
38 COG0053 MMT1 Predicted Co/Zn/C 24.0 3.7E+02 0.0081 24.0 7.5 76 12-87 8-87 (304)
39 PF08802 CytB6-F_Fe-S: Cytochr 23.8 1.9E+02 0.0042 17.9 4.1 27 9-35 6-32 (39)
40 COG0368 CobS Cobalamin-5-phosp 23.7 4.7E+02 0.01 22.8 7.8 25 108-133 198-222 (246)
41 PF04795 PAPA-1: PAPA-1-like c 23.5 67 0.0014 23.5 2.1 15 191-205 9-23 (89)
42 PF11471 Sugarporin_N: Maltopo 23.5 48 0.001 22.5 1.2 13 200-212 34-46 (60)
43 TIGR03759 conj_TIGR03759 integ 23.4 69 0.0015 27.2 2.4 22 188-209 47-70 (200)
44 cd03211 GST_C_Metaxin2 GST_C f 22.5 87 0.0019 23.9 2.7 24 188-211 54-77 (126)
45 KOG4709 Uncharacterized conser 22.4 95 0.0021 26.3 3.0 20 189-208 58-86 (217)
46 PF00690 Cation_ATPase_N: Cati 22.4 45 0.00099 22.5 1.0 12 186-197 20-31 (69)
47 COG2246 Predicted membrane pro 21.9 2.2E+02 0.0048 22.3 5.0 51 10-65 9-59 (139)
48 PTZ00101 rhomboid-1 protease; 21.9 1.8E+02 0.004 25.8 5.0 29 98-126 218-246 (278)
49 TIGR00927 2A1904 K+-dependent 21.8 5.7E+02 0.012 27.2 8.9 24 48-71 528-551 (1096)
50 PF08312 cwf21: cwf21 domain; 20.4 1E+02 0.0022 19.8 2.2 17 192-208 3-19 (46)
No 1
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=4e-57 Score=391.76 Aligned_cols=222 Identities=43% Similarity=0.687 Sum_probs=196.6
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE---ee
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LK 77 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l---~~ 77 (229)
.|+.+||.||+.|+++||.+++.+++++.++.++++|+++.|..+++.+++|+.|+++|++||+||++||+.+.. .+
T Consensus 93 ~G~~lEp~Wg~~e~lkff~ivn~~~~l~v~v~~~l~Y~it~n~v~L~~~i~G~~gilaGilVa~kQllpd~~il~~~~~r 172 (326)
T KOG2890|consen 93 GGKFLEPNWGSLELLKFFAIVNGSTTLVVLVPALLLYMITDNHVYLYIPIHGTTGILAGILVAWKQLLPDTIILELKSGR 172 (326)
T ss_pred cceeeccCCCCHHHHHHHHHhhchhHHHHHHHHHHHHHHhcCceEEEEEeccchHHHHHHHHHHHHHcCceeEEeccchh
Confidence 489999999999999999999999999999999999999999999999999999999999999999999999876 66
Q ss_pred echhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHhhcCCCCCccCCCCCCccccccCccccccccccccc
Q 026994 78 IKAKWLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKPETKLSGDPSDDFAFSSFFPEFIRPVIDPIAS 157 (229)
Q Consensus 78 ir~k~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~l~gw~YlRf~q~~~~~~~rGD~sd~Faf~~fFP~~~~p~v~~i~~ 157 (229)
+..|++|++.+.+++++++......+.++..++|+++||.|+||||+|+++..|||+||+|+|++|||+.+||.+.+++|
T Consensus 173 ~~~~~lP~~~l~~~~il~i~~f~~f~~l~s~~~g~~~sWtYLRfyq~h~~~~~rGD~Sd~F~fvsFFP~v~qp~~~li~n 252 (326)
T KOG2890|consen 173 FLYAHLPLLVLFLSLILSIITFLVFASLPSITFGVLVSWTYLRFYQRHPTDELRGDCSDSFTFVSFFPEVLQPFFHLIAN 252 (326)
T ss_pred hhhhhCCHHHHHHHHHHHHHHHHHhhhhHHHHHhhhhhhhhheecccCCcccccCCchhceehhhhchhhhhHHHHHHHH
Confidence 77778999999999988888766677778899999999999999999998889999999999999999999999999999
Q ss_pred ceeeeeecCccc--ccCC-CCCCcccCCCCCCCCchhhhHHHHHHHHHHHHHHhcchhhhcccccccc
Q 026994 158 IFHRMLCGRRTE--TSGD-DHGYTLGGASLPGSDPIEASRRRERGARALEERLATEKLAAAQSVEESK 222 (229)
Q Consensus 158 ~~~~~~c~~~~~--~~~~-~~~~~~~~~~lpg~~~~eaeRRR~~AlkaL~eRl~~~~~~~~~~~~~~~ 222 (229)
.+|+++|++... +..| +.+.+...+++||.|++|||||||+|||||||||++..++++++.++.+
T Consensus 253 ~~~~~l~~~~~~~~~~~d~~~~~~s~~~~lpg~d~~d~eRRRQ~alkaL~eRl~~~~~~p~~~~~~~~ 320 (326)
T KOG2890|consen 253 TIYRILVRMGVVKKPHVDIDLDSGSVGANLPGLDPKDAERRRQLALKALEERLKKTRTAPVASYDEWD 320 (326)
T ss_pred HHHHHHHHhccccccceecccCcccccccCCCCChhHHHHHHHHHHHHHHHHhcCcccCccccccchh
Confidence 999998554321 1112 2455666689999999999999999999999999988877665554444
No 2
>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=99.64 E-value=7.4e-17 Score=121.69 Aligned_cols=66 Identities=59% Similarity=1.068 Sum_probs=63.8
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHH
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQ 66 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~q 66 (229)
.||++||.||++||++|++++++++|+++++.+++.|.+++++.+++.+++|.+|+++|++||+||
T Consensus 34 ~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~~~~~y~i~~~~~~l~~~i~G~~~~~~g~lVa~kQ 99 (99)
T PF08551_consen 34 GGRYLEPIWGSREFLKFILVVNVITNLLTFLLYLLLYAITGNESYLFVPISGFMGVLAGFLVAFKQ 99 (99)
T ss_pred hhHHHHHhcChHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCceeEEEecCcHHhHhheEEEEeC
Confidence 489999999999999999999999999999999999999999988889999999999999999998
No 3
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.13 E-value=5.9e-10 Score=95.26 Aligned_cols=114 Identities=24% Similarity=0.265 Sum_probs=81.7
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE-e---
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL-L--- 76 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l-~--- 76 (229)
+|+.+|+.+|+.+|+.+|+++|+++++.+.. +... + ..+..|+||+++|++.++.++.|...+.. .
T Consensus 94 fg~~le~~~G~~~f~~~yl~~gl~~~~~~~~-------~~~~-~--~~~~~GASG~i~gllga~~~~~~~~~~~~~~~~~ 163 (228)
T COG0705 94 FGSNLERRLGTLRFLLFYLLSGLLAGLAQVL-------FGPK-G--GAPSLGASGAIFGLLGAYFLLFPFARILLLFLSL 163 (228)
T ss_pred hhHHHHHHhchhHHHHHHHHHHHHHHHHHHH-------Hccc-c--cCcccchhHHHHHHHHHHHHHccccchhhhhccC
Confidence 5899999999999999999999999998633 2322 1 15788999999999999999999987655 2
Q ss_pred eechhHHHHHHHHHHHHHHHhcCC-chhHHHHHHHHHHHHHHHHHHhhcC
Q 026994 77 KIKAKWLPSLMLLLSIAISFFTAE-SAAYLPTLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 77 ~ir~k~lp~~~l~~~~~~~~~~~~-~~~~~~~~l~G~l~gw~YlRf~q~~ 125 (229)
+..+..+..++++.+++....+.. ++++.+ |++|++.|++|...+.+.
T Consensus 164 ~~~~~~~i~~~~~~~~~~~~~~~~~~va~~a-Hl~G~i~G~l~~~~~~~~ 212 (228)
T COG0705 164 PRPALILILIWLLYSLFSGAGSFGPSVAWSA-HLGGLIGGLLLAALLSRK 212 (228)
T ss_pred chhHHHHHHHHHHHHHHHHhcCCchHHHHHH-HHHHHHHHHHHHHHHhhh
Confidence 222333333333344333222222 355665 999999999999877764
No 4
>PTZ00101 rhomboid-1 protease; Provisional
Probab=98.90 E-value=8.3e-09 Score=91.19 Aligned_cols=111 Identities=14% Similarity=0.088 Sum_probs=67.7
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEEeeech
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYLLKIKA 80 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l~~ir~ 80 (229)
+|..+|+.||+++|+..|+++|+++|+++.+ +... ...+|+||+++|+++++...+=..-. ..+.|.
T Consensus 128 ~G~~lE~~~G~~r~~ilYl~sGi~G~l~s~~-------~~~~-----~~svGASgAifGLiGa~~~~lil~w~-~~~~~~ 194 (278)
T PTZ00101 128 MGFTLEKNYGIVKIIILYFLTGIYGNILSSS-------VTYC-----PIKVGASTSGMGLLGIVTSELILLWH-VIRHRE 194 (278)
T ss_pred HHHHHHHHHChHHHHHHHHHHHHHHHHHHHH-------HccC-----CcEEehhHHHHHHHHHHHHHHHHHHH-hhccHH
Confidence 4889999999999999999999999998743 1111 24689999999999988643100000 012233
Q ss_pred hHHHHH--HHHHHHHHHHh-cCCchhHHHHHHHHHHHHHHHHHHhhcC
Q 026994 81 KWLPSL--MLLLSIAISFF-TAESAAYLPTLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 81 k~lp~~--~l~~~~~~~~~-~~~~~~~~~~~l~G~l~gw~YlRf~q~~ 125 (229)
+.+..+ ++++.+.+.+. .+.++.+.+ |++|++.|+++.-.+.++
T Consensus 195 ~~~~~~i~~~li~~~l~~~~~g~~Id~~a-HlGG~i~G~llg~~~~~~ 241 (278)
T PTZ00101 195 RVVFNIIFFSLISFFYYFTFNGSNIDHVG-HLGGLLSGISMGILYNSQ 241 (278)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCccHHH-HHHHHHHHHHHHHHHHhh
Confidence 333221 12222222122 123444554 888887777776666654
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=98.68 E-value=7.7e-09 Score=81.58 Aligned_cols=112 Identities=23% Similarity=0.395 Sum_probs=72.1
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE-eeec
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL-LKIK 79 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l-~~ir 79 (229)
+|..+|+.+|++++...|+++++++++...+ ..... .+..|+||+++|++.++....|+..... .+.+
T Consensus 32 ~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~-------~~~~~----~~~~G~Sg~~~~l~~~~~~~~~~~~~~~~~~~~ 100 (145)
T PF01694_consen 32 FGSLLERRLGSRRFLALYLLSGLLGSLLSLL-------FSPPN----QPYVGASGAVFGLLGAFLFLYPQNKKRLRFIYL 100 (145)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH-S---------SSHHHHHHHHHHHHHHHHCCCCCS---HC
T ss_pred hhhhHhhhccchHHHHHHHHHHHhhhhcccc-------ccccc----cccCCCcccchHHHHHHHHHHhhccchhhcchH
Confidence 4789999999999999999999999888643 22221 1678999999999999999999875433 1222
Q ss_pred hhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHhhcCC
Q 026994 80 AKWLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKP 126 (229)
Q Consensus 80 ~k~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~l~gw~YlRf~q~~~ 126 (229)
...++..++.+.... .......+.+ |+.|+++|++|...+.+++
T Consensus 101 ~~~~~~~~~~~~~~~--~~~~~~~~~~-hl~G~~~G~~~~~~~~~~~ 144 (145)
T PF01694_consen 101 ALVVPIIVLVIILLL--GFIPNISFLG-HLGGFLAGLLYGFLILRRP 144 (145)
T ss_dssp CCCCCCCCCCHHHCT--SSSSTTTHHH-HHHHHHHHHHHHHHHCH--
T ss_pred HHHHHHHHHHHHHHH--HHHHhHHHHH-HHHHHHHHHHHHHHHHHcc
Confidence 222222222222211 1133445554 8999999998888777664
No 6
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=98.62 E-value=4.4e-07 Score=80.23 Aligned_cols=104 Identities=17% Similarity=0.231 Sum_probs=63.1
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHH---HhcCCeeEEee
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQ---IVPDQELYLLK 77 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~q---l~Pe~~v~l~~ 77 (229)
+|+.+|+.+|+++|+.+|+++++++|+.+++ +.+ ..+.|+||+++|+++.... ..|+..+.
T Consensus 161 lG~~iE~~~G~~~~l~l~l~s~i~~~~~~~~-------~~~------~~~gGaSGvVygL~g~~~~~~~~~p~~~~~--- 224 (276)
T PRK10907 161 LGGAVEKRLGSGKLIVITLISALLSGWVQSK-------FSG------PWFGGLSGVVYALMGYVWLRGERDPQSGIY--- 224 (276)
T ss_pred HHHHHHHHHChHHHHHHHHHHHHHHHHHHHH-------Hcc------chhhHHHHHHHHHHHHHHHHhccccccchh---
Confidence 5889999999999999999999999998632 222 2367999999999975432 22333221
Q ss_pred echhHHHHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHHHHHHhh
Q 026994 78 IKAKWLPSLMLLLSIAISFFT--AESAAYLPTLIFGTYMGWIYLRYLQ 123 (229)
Q Consensus 78 ir~k~lp~~~l~~~~~~~~~~--~~~~~~~~~~l~G~l~gw~YlRf~q 123 (229)
++... ++++++.++.++.. +.++++.+ |++|+++|.+..-+..
T Consensus 225 lp~~~--~~f~llwl~~g~~~~~g~~Ian~A-HlgGli~Gll~g~~~~ 269 (276)
T PRK10907 225 LPRGL--IAFALLWLVAGYFDLFGMSIANAA-HVAGLAVGLAMAFWDT 269 (276)
T ss_pred hhHHH--HHHHHHHHHHHHHHccCcccHHHH-HHHHHHHHHHHHHHhh
Confidence 11111 12222222222221 23455554 7777777766554433
No 7
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=97.52 E-value=0.00085 Score=58.47 Aligned_cols=111 Identities=18% Similarity=0.339 Sum_probs=79.1
Q ss_pred ChhhhhhhhC-hHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE---
Q 026994 1 MGKLLEPVWG-SKEFLKFIFIVNFLTSLCIFITAVALYY-ITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL--- 75 (229)
Q Consensus 1 ~G~~lE~~wG-s~efl~f~lv~gi~~~l~~~~~~~~~y~-i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l--- 75 (229)
.|...|+-.| +-+++.|..+.++.++++.++ .|. ....+.......+|.++...++++.-...-|.....+
T Consensus 79 ~g~~fE~~~G~t~~~l~~~~llalf~gIl~ll----~~~~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~sp~r~~~~fg~ 154 (258)
T KOG2632|consen 79 LGSQFERTHGTTVRILMFTVLLALFSGILYLL----AYHVFLLSDLVYVEGAIGFSGVLFAMMAVLEVQSPVRSRSVFGL 154 (258)
T ss_pred chhHHHhhccceehHHHHHHHHHHHHHHHHHH----HHHHHhhcchhhhcccccccHHHHHHHHHHhhcCcccchhhccc
Confidence 3678899999 888888888888888887544 333 2222222234689999999999988788888887333
Q ss_pred eeechhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHH
Q 026994 76 LKIKAKWLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLR 120 (229)
Q Consensus 76 ~~ir~k~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~l~gw~YlR 120 (229)
..++.++.|.++++...+ .. .....+ +|++|+++|+.|..
T Consensus 155 ~siP~~l~Pw~lLi~~~~---lv-p~aSFl-ghl~GllvG~ay~~ 194 (258)
T KOG2632|consen 155 FSIPIVLAPWALLIATQI---LV-PQASFL-GHLCGLLVGYAYAF 194 (258)
T ss_pred ccccHHHHHHHHHHHHHH---Hc-cCchHH-HHHHHHHHHHHHHH
Confidence 778889999887654432 21 233444 49999999999876
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=97.20 E-value=0.0056 Score=51.43 Aligned_cols=105 Identities=21% Similarity=0.341 Sum_probs=70.1
Q ss_pred hhhhhhh-hC--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE---
Q 026994 2 GKLLEPV-WG--SKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL--- 75 (229)
Q Consensus 2 G~~lE~~-wG--s~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l--- 75 (229)
++.+|+. +. +.+|+.+.+++++...+++.+. +...-+ .++.| .+....++=.+.+..|+.++.+
T Consensus 70 s~~LE~~~f~~~~ady~~~ll~~~~~i~~~~~~~----~~~~~~-----~~~l~-~~l~~~l~Y~wsr~np~~~v~~~g~ 139 (197)
T PF04511_consen 70 SSSLEEGHFQGRSADYLWFLLFGASLILILSLLI----GPYFFN-----IPFLG-SSLSFALTYIWSRKNPNAQVSFFGL 139 (197)
T ss_pred hhHhccCCCCCCHHHHHHHHHHHHHHHHHHHHhh----ccchhH-----HHHHH-HHHHHHHHHHHHHhCcccceeeEEE
Confidence 5678887 44 3689999887766666555321 110001 12223 4577788888999999999976
Q ss_pred eeechhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHhh
Q 026994 76 LKIKAKWLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQ 123 (229)
Q Consensus 76 ~~ir~k~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~l~gw~YlRf~q 123 (229)
+++|++|+|.+.++++.+. + +. ... ..+.|+++|.+|. |++
T Consensus 140 ~~i~a~ylP~~~~~~~~l~---~-~~-~~~-~~l~Gi~~Ghly~-fl~ 180 (197)
T PF04511_consen 140 FTIKAKYLPWVLLAFSLLF---G-GS-SPI-PDLLGILVGHLYY-FLK 180 (197)
T ss_pred EEEChhhHHHHHHHHHHHh---C-CC-cHH-HHHHHHHHHHHHH-HHH
Confidence 7999999999887766543 2 21 222 3789999999988 443
No 9
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=97.17 E-value=0.00012 Score=65.76 Aligned_cols=107 Identities=18% Similarity=0.182 Sum_probs=67.7
Q ss_pred ChhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHH-hcCCeeEEeeec
Q 026994 1 MGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQI-VPDQELYLLKIK 79 (229)
Q Consensus 1 ~G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql-~Pe~~v~l~~ir 79 (229)
+|-.+|...|..++...|+++++.+++++.+ +..+ .+.+|+||+++|++.|...- .-+-+. .+=|
T Consensus 145 iGi~LE~~~G~~RiglIYl~gg~aGSlls~l-------~d~~-----~~sVGASggvfaLlgA~Ls~l~~Nw~~--m~~~ 210 (316)
T KOG2289|consen 145 IGIPLEQVHGFLRIGLIYLAGGVAGSLLSSL-------FDPN-----SISVGASGGVFALLGAHLSNLLTNWTI--MKNK 210 (316)
T ss_pred ccccHHhhcCceEEeeehhhhhhhhHHHHHH-------hccC-----CceecccHHHHHHHHHHHHHHHhhHHH--hcch
Confidence 5778999999999999999999999999854 2322 35899999999999987532 112111 1111
Q ss_pred hhHHHHHH--HHHHHHHHHhc-CCchhHHHHHHHHHHHHHHHHHH
Q 026994 80 AKWLPSLM--LLLSIAISFFT-AESAAYLPTLIFGTYMGWIYLRY 121 (229)
Q Consensus 80 ~k~lp~~~--l~~~~~~~~~~-~~~~~~~~~~l~G~l~gw~YlRf 121 (229)
.+.+-.+. +++.+-+++.. .++.+|+.++..|+..||+...-
T Consensus 211 ~~~l~~ll~Ii~i~l~~G~~~~~~~~~h~gg~~~G~~~~fil~~~ 255 (316)
T KOG2289|consen 211 FAALRTLLIIIFINLDLGFAPYVDNFAHIGGLLAGFLLGFVLHIG 255 (316)
T ss_pred HHHHHHHHHHHHHHHhhccccceeccccccccCCCcchhHHhhhc
Confidence 22222222 22333232222 23446666677788888887653
No 10
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=96.97 E-value=0.00052 Score=64.00 Aligned_cols=103 Identities=20% Similarity=0.266 Sum_probs=60.5
Q ss_pred hhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHH-HHhcCCeeEEeeechh
Q 026994 3 KLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIK-QIVPDQELYLLKIKAK 81 (229)
Q Consensus 3 ~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~-ql~Pe~~v~l~~ir~k 81 (229)
+.+|++-|++++.+.|+.+|+.+|+.+.+ + ..|.+-+|.+|..+|++..+. -++-..++ +.-|
T Consensus 479 rdlEkL~g~~riAIiy~~SGitGNLASAI--------F----lpY~~eVgPa~sQ~Gila~l~vEl~qs~~i----l~~~ 542 (652)
T KOG2290|consen 479 RDLEKLAGWHRIAIIYFLSGITGNLASAI--------F----LPYRAEVGPAGSQFGILACLFVELFQSWQI----LERP 542 (652)
T ss_pred HHHHHhhcchhhheeeecccccccchhee--------e----eccccccCCcccccchHHHHHHHHHhhhHh----hhhH
Confidence 67999999999999999999999999732 1 123467788888888885543 33333333 1224
Q ss_pred HHHHHHH-HHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHH
Q 026994 82 WLPSLML-LLSIAISFFTA---ESAAYLPTLIFGTYMGWIYLRY 121 (229)
Q Consensus 82 ~lp~~~l-~~~~~~~~~~~---~~~~~~~~~l~G~l~gw~YlRf 121 (229)
|-.++-+ +..++++.... ++.+|+.+.++|.+.+.+.+.+
T Consensus 543 w~a~~~Lia~~L~L~iGliPWiDN~aHlfG~i~GLl~s~~~~PY 586 (652)
T KOG2290|consen 543 WRAFFHLIATLLVLCIGLIPWIDNWAHLFGTIFGLLTSIIFLPY 586 (652)
T ss_pred HHHHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHhhcc
Confidence 4333322 22223332222 4445554555555555554443
No 11
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=93.67 E-value=0.17 Score=45.30 Aligned_cols=75 Identities=20% Similarity=0.216 Sum_probs=47.8
Q ss_pred ccccchHHHHHHHHHHHHHHhcCCeeEE---eeechh-HHHHHHHHHHHHHHHhc-----CCchhHHHHHHHHHHHHHHH
Q 026994 48 MPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAK-WLPSLMLLLSIAISFFT-----AESAAYLPTLIFGTYMGWIY 118 (229)
Q Consensus 48 ~~~~G~sg~i~g~lvA~~ql~Pe~~v~l---~~ir~k-~lp~~~l~~~~~~~~~~-----~~~~~~~~~~l~G~l~gw~Y 118 (229)
+|..|+||++++++.....++|+++..+ .+++.- ++++-.+ +..-++... .+..+|..++++|..++|+.
T Consensus 221 gp~LGAsGav~ai~a~~~~lfP~~~~~i~f~~~v~~ga~~~~~~i-~~~~~a~~~l~~~~~n~~Ah~~gsl~Gv~va~~~ 299 (310)
T KOG2980|consen 221 GPSLGASGAVYAILALDCTLFPKTTLYILFVFPVPAGAGLAFKAI-AAYDFAGLILGWGFFNHAAHLSGSLFGVVVATYL 299 (310)
T ss_pred ccccccchHHHHHHHHHhhcCcCcceeEEEeecccccchhHHHHH-HHhhhcceeeccccchhHhhhcchHHHHHHHHHH
Confidence 4778999999999999999999999776 565553 3443322 222111111 23346666677777777765
Q ss_pred -HHHhh
Q 026994 119 -LRYLQ 123 (229)
Q Consensus 119 -lRf~q 123 (229)
-|..+
T Consensus 300 ~~ri~k 305 (310)
T KOG2980|consen 300 WARIRK 305 (310)
T ss_pred HHHHHc
Confidence 34433
No 12
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=93.35 E-value=0.79 Score=39.72 Aligned_cols=87 Identities=24% Similarity=0.388 Sum_probs=61.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE---eeechhHHHHHH
Q 026994 11 SKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAKWLPSLM 87 (229)
Q Consensus 11 s~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l---~~ir~k~lp~~~ 87 (229)
+..|+.++++++++-.+.+.. .+. .+.| .+.++.++=.+.+..|+.++.+ ++++++|+|.+.
T Consensus 93 tadf~~mllf~~~l~~~~~~~----~~~----------~fLg-~~l~~~l~YvWs~~Np~~~v~F~g~~~f~a~YlPwvl 157 (239)
T KOG0858|consen 93 TADFLYMLLFGAVLLTLTGLF----VYI----------VFLG-QSLVFMLVYVWSKRNPDVIVSFFGLITFKAPYLPWVL 157 (239)
T ss_pred hhHHHHHHHHHHHHHHHHHHH----HHH----------HHHH-HHHHHHHHHHHHhhCCCceEEEEEEecCccccchHHH
Confidence 577888888777776655432 111 1123 4577778888999999999986 899999999998
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHHHHHHH
Q 026994 88 LLLSIAISFFTAESAAYLPTLIFGTYMGWIYL 119 (229)
Q Consensus 88 l~~~~~~~~~~~~~~~~~~~~l~G~l~gw~Yl 119 (229)
++++.+. +++. +. .+.|+++|-+|.
T Consensus 158 l~fs~l~----g~~~--~~-dllGi~~GHiy~ 182 (239)
T KOG0858|consen 158 LGFSFLF----GGSI--LV-DLLGIIVGHIYY 182 (239)
T ss_pred HHHHHHh----CCch--HH-HHHhhhhheeEE
Confidence 8776543 2332 33 688999998875
No 13
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.27 E-value=0.05 Score=47.74 Aligned_cols=80 Identities=15% Similarity=0.157 Sum_probs=54.2
Q ss_pred hhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcCCeeEE---eeec
Q 026994 3 KLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIK 79 (229)
Q Consensus 3 ~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe~~v~l---~~ir 79 (229)
|.+||..||-+|..|++.+++.+-++.+++..++-..++|..++ +-.|.+++.+.-+-...|-....- +++.
T Consensus 78 R~~ERlLGShky~~fiv~s~~~~~l~~~il~~l~~~~~~nl~~~-----qp~~liFa~~~~~y~~ip~~~f~r~f~~~f~ 152 (323)
T KOG4463|consen 78 RVFERLLGSHKYSVFIVFSGTVSLLLEVILLSLLKDTTANLLTS-----QPYGLIFASFIPFYLDIPVSTFFRVFGVNFS 152 (323)
T ss_pred HHHHHHhccccceeehhHHHHHHHHHHHHHHHHHHHHHhhhhhc-----CCCceeeeeccceEEEecceeEEEeeccccc
Confidence 67899999999999999999999999988877777777775543 444456655544444444433221 4454
Q ss_pred hhHHHHHH
Q 026994 80 AKWLPSLM 87 (229)
Q Consensus 80 ~k~lp~~~ 87 (229)
-|..-+++
T Consensus 153 dkni~~i~ 160 (323)
T KOG4463|consen 153 DKNISFIY 160 (323)
T ss_pred ccceeeec
Confidence 45443333
No 14
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=69.31 E-value=14 Score=29.91 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 026994 107 TLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 107 ~~l~G~l~gw~YlRf~q~~ 125 (229)
..+.|+..||++.|++.++
T Consensus 109 ~~~~g~~~g~~~~r~~~~~ 127 (154)
T PRK10862 109 GALLGGVGGFLLARGLSRK 127 (154)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4778999999999999876
No 15
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=65.14 E-value=36 Score=25.32 Aligned_cols=47 Identities=11% Similarity=0.300 Sum_probs=28.1
Q ss_pred echhHHHHHHHHHHHHHHHhc---CCchh----HHHHHHHHHHHHHHHHHHhhc
Q 026994 78 IKAKWLPSLMLLLSIAISFFT---AESAA----YLPTLIFGTYMGWIYLRYLQK 124 (229)
Q Consensus 78 ir~k~lp~~~l~~~~~~~~~~---~~~~~----~~~~~l~G~l~gw~YlRf~q~ 124 (229)
++.||+|.+.+++..++++.. .+... .+++.+.|+-..+++--|-+|
T Consensus 31 v~~K~iPlIs~viGilLG~~~~~~~~~~~l~~~~~aG~laGlAaTGL~e~~t~r 84 (93)
T PF06946_consen 31 VPNKWIPLISVVIGILLGAAAYPLTGDGNLALMAWAGGLAGLAATGLFEQFTNR 84 (93)
T ss_pred CCcchhhHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHhhhhhhhHHHHHHhh
Confidence 788999999887777766553 11111 233455556666665555443
No 16
>COG5291 Predicted membrane protein [Function unknown]
Probab=64.54 E-value=11 Score=33.04 Aligned_cols=31 Identities=19% Similarity=0.317 Sum_probs=24.4
Q ss_pred HHHHHhcCCeeEE---eeechhHHHHHHHHHHHH
Q 026994 63 GIKQIVPDQELYL---LKIKAKWLPSLMLLLSIA 93 (229)
Q Consensus 63 A~~ql~Pe~~v~l---~~ir~k~lp~~~l~~~~~ 93 (229)
-|....|..++.+ +++..||+|++.+.++.+
T Consensus 138 ~WS~~N~~~~Iqf~g~i~v~gkYlP~Illgfsfl 171 (313)
T COG5291 138 IWSKRNPRAIIQFFGFISVPGKYLPFILLGFSFL 171 (313)
T ss_pred eeeecCCceEEEEEEeeecchhhhhHHHHHHHHH
Confidence 3456678888876 899999999998877754
No 17
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=53.58 E-value=29 Score=26.98 Aligned_cols=21 Identities=19% Similarity=0.475 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCC
Q 026994 106 PTLIFGTYMGWIYLRYLQKKP 126 (229)
Q Consensus 106 ~~~l~G~l~gw~YlRf~q~~~ 126 (229)
...+.|+..+|+++|++.++.
T Consensus 101 l~~l~~l~~~~~~~~~~~~~~ 121 (135)
T PF04246_consen 101 LGGLLGLALGFLILRLFDRRL 121 (135)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 347889999999999999763
No 18
>PF03082 MAGSP: Male accessory gland secretory protein; InterPro: IPR004315 The accessory gland of male insects is a genital tissue that secretes many components of the ejaculatory fluid, some of which affect the female's receptivity to courtship and her rate of oviposition. The protein is expressed exclusively in the male accessory glands of adult Drosophila melanogaster. During copulation it is transferred to the female genital tract where it is rapidly altered [].; GO: 0007618 mating, 0005576 extracellular region
Probab=44.96 E-value=18 Score=30.98 Aligned_cols=28 Identities=32% Similarity=0.445 Sum_probs=20.3
Q ss_pred CCCCchhhhHHH----HHHHHHHHHHHhcchh
Q 026994 185 PGSDPIEASRRR----ERGARALEERLATEKL 212 (229)
Q Consensus 185 pg~~~~eaeRRR----~~AlkaL~eRl~~~~~ 212 (229)
||.++-++|.|| |.|||||.+||.-++.
T Consensus 107 kg~~~~p~~~~~~~~~q~alraLqqrL~~E~n 138 (264)
T PF03082_consen 107 KGLPDFPAKKRNNGSNQNALRALQQRLLLEQN 138 (264)
T ss_pred cCCCCcchhhhccchHHHHHHHHHHHHHHhhc
Confidence 466666665554 7899999999965543
No 19
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=44.46 E-value=35 Score=30.29 Aligned_cols=24 Identities=25% Similarity=0.238 Sum_probs=14.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhh
Q 026994 100 ESAAYLPTLIFGTYMGWIYLRYLQ 123 (229)
Q Consensus 100 ~~~~~~~~~l~G~l~gw~YlRf~q 123 (229)
.+.+|+.+.+.|++.+++.-+.-+
T Consensus 250 an~AHlgGli~Gll~g~~~~~~~~ 273 (276)
T PRK10907 250 ANAAHVAGLAVGLAMAFWDTRNAR 273 (276)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhh
Confidence 455666666666666666655444
No 20
>PF04528 Adeno_E4_34: Adenovirus early E4 34 kDa protein conserved region; InterPro: IPR007615 Adenoviruses E4 is essential for DNA replication and late protein synthesis []. The adenovirus, early region 4 open reading frame 3 (E4 ORF3) protein is required for viral DNA replication during the interferon (IFN)-induced antiviral state []. The E4 ORF3 protein reorganises the promyelocytic leukemia (PML) protein nuclear bodies. These normally punctate structures are reorganised by E4 ORF3 into tracks that eventually surround viral replication centres. PML rearrangement is an evolutionarily conserved function of E4 ORF3 []. The product of adenovirus early region 4 (E4), open reading frame 6, is E4 34k. It modulates viral late gene expression, DNA replication, apoptosis, double strand break repair, and transformation through multiple interactions with components in infected and transformed cells [, ]. Conservation of several cysteine and histidine residues among E4 34k sequences suggests the presence of a zinc binding domain, which is important for its function []. This entry is a conserved region found in the Adenovirus E4 34 kDa protein.
Probab=44.09 E-value=16 Score=29.57 Aligned_cols=17 Identities=35% Similarity=0.392 Sum_probs=13.5
Q ss_pred chhhhHHHHHHHHHHHH
Q 026994 189 PIEASRRRERGARALEE 205 (229)
Q Consensus 189 ~~eaeRRR~~AlkaL~e 205 (229)
+..+|||||++|+.|=+
T Consensus 125 ~s~~E~~RQr~Lr~~m~ 141 (148)
T PF04528_consen 125 RSRTERRRQRLLRRLMR 141 (148)
T ss_pred ccchHHHHHHHHHHHHH
Confidence 56679999999997643
No 21
>PF02654 CobS: Cobalamin-5-phosphate synthase; InterPro: IPR003805 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CobS protein, a cobalamin-5-phosphate synthase that catyalzes the reactions: Adenosylcobinamide-GDP + alpha-ribazole-5'-P = adenosylcobalamin-5'-phosphate + GMP Adenosylcobinamide-GDP + alpha-ribazole = adenosylcobalamin + GMP The protein product from these catalyses is associated with a large complex of proteins and is induced by cobinamide. CobS is involved in part III of cobalamin biosynthesis, one of the late steps in adenosylcobalamin synthesis that, together with CobU, CobT, and CobC proteins, defines the nucleotide loop assembly pathway [, ].; GO: 0008818 cobalamin 5'-phosphate synthase activity, 0009236 cobalamin biosynthetic process
Probab=42.85 E-value=1.6e+02 Score=25.17 Aligned_cols=25 Identities=20% Similarity=0.529 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCccCC
Q 026994 108 LIFGTYMGWIYLRYLQKKPETKLSGD 133 (229)
Q Consensus 108 ~l~G~l~gw~YlRf~q~~~~~~~rGD 133 (229)
...+++.++.+.|+.+|+- .+..||
T Consensus 194 ~~~~~~~~~~~~~~~~r~l-GG~tGD 218 (235)
T PF02654_consen 194 LLVALLLALLLARYARRRL-GGITGD 218 (235)
T ss_pred HHHHHHHHHHHHHHHHHHc-CCcChH
Confidence 6778889999999999875 678888
No 22
>PF14851 FAM176: FAM176 family
Probab=42.50 E-value=39 Score=27.46 Aligned_cols=19 Identities=32% Similarity=0.429 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHhcCCe
Q 026994 54 QGVLAGFLVGIKQIVPDQE 72 (229)
Q Consensus 54 sg~i~g~lvA~~ql~Pe~~ 72 (229)
+|+.+|+++.++.+.+...
T Consensus 28 ~gVC~GLlLtLcllV~ris 46 (153)
T PF14851_consen 28 SGVCAGLLLTLCLLVIRIS 46 (153)
T ss_pred HHHHHHHHHHHHHHHhhhe
Confidence 5566666666666655443
No 23
>KOG4111 consensus Translocase of outer mitochondrial membrane complex, subunit TOM22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.76 E-value=49 Score=26.24 Aligned_cols=57 Identities=16% Similarity=0.150 Sum_probs=30.0
Q ss_pred hhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhcccccccccccchHHHHHHHHHHH
Q 026994 3 KLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVA--LYYITRLETYLYMPLSGFQGVLAGFLVGI 64 (229)
Q Consensus 3 ~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~--~y~i~~~~~~l~~~~~G~sg~i~g~lvA~ 64 (229)
..+||+||.+|+.-==.=+. +++.....++.+ +|-++++..| +.+.+..|.++.+.+
T Consensus 43 Ti~eRi~gLkEivp~g~R~~-i~~~~~~av~~~kk~~~fsg~a~W----i~tTt~lIL~vP~i~ 101 (136)
T KOG4111|consen 43 TILERIWGLKEIVPQGRRSA-IGATAGDAVFVVKKLYSFSGKAAW----IATTTFLILVVPLIF 101 (136)
T ss_pred hHHHHHHhhHhhcchhhhhh-hhhcchhHHHHHHHHHHhccchhH----HHHHHHHHHHHHHHH
Confidence 46899999988764333211 122222211111 3445665433 556666777766655
No 24
>PF11085 YqhR: Conserved membrane protein YqhR; InterPro: IPR024563 This family of proteins is conserved in the Bacillaceae family of the Firmicutes. Their function is not known.
Probab=34.71 E-value=1.9e+02 Score=23.98 Aligned_cols=79 Identities=20% Similarity=0.262 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---cccccccc------cchHHHHHHHHHHHHHHhcCC---eeEEeeech
Q 026994 13 EFLKFIFIVNFLTSLCIFITAVALYYITRL---ETYLYMPL------SGFQGVLAGFLVGIKQIVPDQ---ELYLLKIKA 80 (229)
Q Consensus 13 efl~f~lv~gi~~~l~~~~~~~~~y~i~~~---~~~l~~~~------~G~sg~i~g~lvA~~ql~Pe~---~v~l~~ir~ 80 (229)
.++...+..|..++++.-++..+.|.+.-. +.++..|. .|..|-+.|+++....-+--. .+.+.|+|-
T Consensus 18 s~~~~~~~iGf~gGliWs~v~yl~y~f~FT~v~P~~ll~Pf~~g~wk~t~~G~~igi~~~gv~Si~aAllY~~~l~k~~g 97 (173)
T PF11085_consen 18 SFLAKVLEIGFFGGLIWSLVRYLAYFFHFTEVGPNFLLEPFALGDWKNTWLGNLIGIVFIGVFSIVAALLYYALLKKFKG 97 (173)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccChhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 356677788999999988777777765322 12222222 344454444432111110000 122367888
Q ss_pred hHHHHHHHHHH
Q 026994 81 KWLPSLMLLLS 91 (229)
Q Consensus 81 k~lp~~~l~~~ 91 (229)
.|..++|-++.
T Consensus 98 ~W~Gi~YG~~~ 108 (173)
T PF11085_consen 98 PWPGILYGLAW 108 (173)
T ss_pred cchHHHHHHHH
Confidence 88877765443
No 25
>COG3931 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]
Probab=34.37 E-value=64 Score=28.22 Aligned_cols=19 Identities=32% Similarity=0.576 Sum_probs=14.5
Q ss_pred CCCCCCCc-hhhhHHHHHHH
Q 026994 182 ASLPGSDP-IEASRRRERGA 200 (229)
Q Consensus 182 ~~lpg~~~-~eaeRRR~~Al 200 (229)
..+||..+ +|+||++.+..
T Consensus 103 ~~VPgN~~ls~~ER~~R~~~ 122 (263)
T COG3931 103 TVVPGNHPLSEEERRARIDR 122 (263)
T ss_pred eeccCCCCCCHHHHHHHHHH
Confidence 56788654 77899988887
No 26
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.24 E-value=54 Score=27.53 Aligned_cols=19 Identities=21% Similarity=0.854 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHhhcCC
Q 026994 108 LIFGTYMGWIYLRYLQKKP 126 (229)
Q Consensus 108 ~l~G~l~gw~YlRf~q~~~ 126 (229)
.+.+++.+|++++|++..|
T Consensus 94 vl~~lv~~w~~LY~~rd~p 112 (187)
T KOG3142|consen 94 VLLALVAAWLFLYFLRDEP 112 (187)
T ss_pred HHHHHHHHHHheeeecCCC
Confidence 6789999999999998443
No 27
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=31.78 E-value=51 Score=25.66 Aligned_cols=19 Identities=21% Similarity=0.450 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 026994 107 TLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 107 ~~l~G~l~gw~YlRf~q~~ 125 (229)
+.+.|+++||+..|+.++.
T Consensus 5 ~lvvG~iiG~~~~r~~~~~ 23 (128)
T PF06295_consen 5 GLVVGLIIGFLIGRLTSSN 23 (128)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 3778999999999998865
No 28
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=31.22 E-value=1.1e+02 Score=24.42 Aligned_cols=57 Identities=16% Similarity=0.304 Sum_probs=31.4
Q ss_pred hhhhhhhChHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHH
Q 026994 3 KLLEPVWGSKEFLKFI---FIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIK 65 (229)
Q Consensus 3 ~~lE~~wGs~efl~f~---lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ 65 (229)
.+.||+||-++++-=- .+++........+- -+|.++|+.. -+.+.|..+.|+.+++.
T Consensus 52 Tl~ERl~aLkdi~P~~~R~~i~~~~~~~~~~~k--~~~~~~g~a~----Wi~tTSallLgvPl~l~ 111 (137)
T PF04281_consen 52 TLLERLWALKDIFPPSVRNWISSTVSTTSSAVK--SLFSFSGKAL----WIVTTSALLLGVPLALE 111 (137)
T ss_pred cHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHH--HHHHhcchhH----HHHHHHHHHHHHHHHHH
Confidence 3679999965553111 11222222222111 1345566643 36788999999999885
No 29
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=30.45 E-value=1.5e+02 Score=23.98 Aligned_cols=19 Identities=21% Similarity=0.481 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 026994 107 TLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 107 ~~l~G~l~gw~YlRf~q~~ 125 (229)
+.+.|...||+.+|-|.|+
T Consensus 109 ~~~lg~~l~fl~~r~ysRk 127 (150)
T COG3086 109 GAFLGLALGFLLARRYSRK 127 (150)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4678888888888877765
No 30
>TIGR00986 3a0801s05tom22 mitochondrial import receptor subunit Tom22. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom22 proteins.
Probab=30.19 E-value=1.9e+02 Score=23.22 Aligned_cols=58 Identities=10% Similarity=0.110 Sum_probs=32.8
Q ss_pred hhhhhhhChHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHH
Q 026994 3 KLLEPVWGSKEFLKFIF---IVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQ 66 (229)
Q Consensus 3 ~~lE~~wGs~efl~f~l---v~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~q 66 (229)
.+.||+||-++++-=-. ++........++-. .|.++++.. -+.+.|..+.|+.+++..
T Consensus 50 Tl~ERi~ALkDm~Pp~~R~~i~~~~s~t~s~~ks--~~sfsGkal----WivsTSaLLLgVPlala~ 110 (145)
T TIGR00986 50 TFTDRIYALKDIVPPTTRGWIYHKYSTTTNFVKS--TLSFAGRAA----WAVSTSALLLGVPFAISF 110 (145)
T ss_pred cHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHH--HHHhcCcch----hhhHHHHHHHHHHHHHHH
Confidence 36799999666541111 11222222221111 345667643 467899999999988864
No 31
>PF12344 UvrB: Ultra-violet resistance protein B; InterPro: IPR024759 This entry represents a domain found towards the C terminus of the ultraviolet resistance protein B (UvrB). UvrB conveys mutational resistance against UV light to various different species []. This domain is approximately 40 amino acids in length and contains two conserved sequence motifs: YAD and RRR.; PDB: 2D7D_A 2NMV_A 3UWX_B 1D2M_A 1C4O_A 2FDC_A 1D9Z_A 1T5L_B 1D9X_A.
Probab=28.05 E-value=35 Score=21.81 Aligned_cols=12 Identities=42% Similarity=0.340 Sum_probs=8.7
Q ss_pred chhhhHHHHHHH
Q 026994 189 PIEASRRRERGA 200 (229)
Q Consensus 189 ~~eaeRRR~~Al 200 (229)
-.|.+|||++=+
T Consensus 14 i~eT~rRR~~Q~ 25 (44)
T PF12344_consen 14 IDETNRRREIQI 25 (44)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 356799998754
No 32
>KOG3599 consensus Ca2+-modulated nonselective cation channel polycystin [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=27.94 E-value=6.1e+02 Score=26.16 Aligned_cols=57 Identities=18% Similarity=0.254 Sum_probs=34.8
Q ss_pred hhhhhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHhcC
Q 026994 2 GKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPD 70 (229)
Q Consensus 2 G~~lE~~wGs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql~Pe 70 (229)
++.|++.|... +..+++..|+.++.+.+.|.+.|+ .+...+..+.+++..+...+-+
T Consensus 582 s~TL~ra~~~I------~gf~l~~~I~~~aya~l~~llfG~------~v~~f~~f~~s~~t~~~~~~G~ 638 (798)
T KOG3599|consen 582 SSTLSRAWKEI------VGFALMFLILFFAYAQLGYLLFGN------QVSDFRTFVASIVTLLRYILGD 638 (798)
T ss_pred HHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHcCC------ccCChHHHHHHHHHHHHHHhcc
Confidence 45566666542 223444445555555666777776 3457788888888888777663
No 33
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.97 E-value=68 Score=29.70 Aligned_cols=25 Identities=24% Similarity=0.283 Sum_probs=21.7
Q ss_pred CchhhhHHHHHHHHHHHHHHhcchh
Q 026994 188 DPIEASRRRERGARALEERLATEKL 212 (229)
Q Consensus 188 ~~~eaeRRR~~AlkaL~eRl~~~~~ 212 (229)
||+--.||||++.+.+.+||.++-+
T Consensus 237 dPeVKsr~Rq~~re~a~~rm~~~Vp 261 (363)
T COG1377 237 DPEVKSRIRQMQREIARRRMMSDVP 261 (363)
T ss_pred ChhhhHHHHHHHHHHHHHHHHhhCC
Confidence 7888999999999999999865543
No 34
>KOG4544 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.80 E-value=55 Score=26.09 Aligned_cols=15 Identities=33% Similarity=0.386 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHHHHH
Q 026994 193 SRRRERGARALEERL 207 (229)
Q Consensus 193 eRRR~~AlkaL~eRl 207 (229)
-+|||+|+|-+++|=
T Consensus 37 ~~~rq~A~~Ia~~RE 51 (144)
T KOG4544|consen 37 QERRQIAFKIAEERE 51 (144)
T ss_pred HHHHHHHHHHHHHHH
Confidence 568999999999984
No 35
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=25.09 E-value=3e+02 Score=25.24 Aligned_cols=23 Identities=26% Similarity=0.368 Sum_probs=18.5
Q ss_pred cccchHHHHHHHHHHHHHHhcCC
Q 026994 49 PLSGFQGVLAGFLVGIKQIVPDQ 71 (229)
Q Consensus 49 ~~~G~sg~i~g~lvA~~ql~Pe~ 71 (229)
.+.|..|.+.|+++|+....|-.
T Consensus 81 ilf~tiGLiiGLlia~l~~~pL~ 103 (356)
T COG4956 81 ILFGTIGLIIGLLIAVLLSSPLF 103 (356)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHh
Confidence 45689999999999998887533
No 36
>PF12023 DUF3511: Domain of unknown function (DUF3511); InterPro: IPR021899 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 50 amino acids in length. This domain has two completely conserved residues (Y and K) that may be functionally important.
Probab=24.78 E-value=55 Score=21.21 Aligned_cols=13 Identities=15% Similarity=0.309 Sum_probs=10.0
Q ss_pred CchhhhHHHHHHH
Q 026994 188 DPIEASRRRERGA 200 (229)
Q Consensus 188 ~~~eaeRRR~~Al 200 (229)
+..|..|||.+|.
T Consensus 4 ~dpE~kRkkRVA~ 16 (47)
T PF12023_consen 4 NDPEMKRKKRVAS 16 (47)
T ss_pred CCHHHHHHHHHHh
Confidence 4567899998886
No 37
>PRK11677 hypothetical protein; Provisional
Probab=24.49 E-value=79 Score=25.05 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHhhcC
Q 026994 106 PTLIFGTYMGWIYLRYLQKK 125 (229)
Q Consensus 106 ~~~l~G~l~gw~YlRf~q~~ 125 (229)
.+.+.|+++||+..|+..+.
T Consensus 8 i~livG~iiG~~~~R~~~~~ 27 (134)
T PRK11677 8 IGLVVGIIIGAVAMRFGNRK 27 (134)
T ss_pred HHHHHHHHHHHHHHhhccch
Confidence 34778999999999986643
No 38
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=24.04 E-value=3.7e+02 Score=23.96 Aligned_cols=76 Identities=17% Similarity=0.188 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHH----hcCCeeEEeeechhHHHHHH
Q 026994 12 KEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQI----VPDQELYLLKIKAKWLPSLM 87 (229)
Q Consensus 12 ~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ql----~Pe~~v~l~~ir~k~lp~~~ 87 (229)
.+........++.+|++..+.=++.+.++++...+...++..+-+++++.+-+... =||..-++..=|+.++..+.
T Consensus 8 ~~~~~~~~~~sl~~nl~l~~~K~~~g~~~gS~ALlADaihs~~D~~~si~~l~~l~~s~kp~d~~HpyGh~k~E~l~sl~ 87 (304)
T COG0053 8 LKLVRRAALISLAVNLALALLKLIAGILTGSVALLADAIHSLSDIVASLIVLIGLRISSKPPDRDHPYGHGKAETLASLI 87 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCchhHHHHHHHH
Confidence 44555666678888888877777777888876555557777777777776554433 26666666555666665543
No 39
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=23.76 E-value=1.9e+02 Score=17.95 Aligned_cols=27 Identities=0% Similarity=0.019 Sum_probs=17.8
Q ss_pred hChHHHHHHHHHHHHHHHHHHHHHHHH
Q 026994 9 WGSKEFLKFIFIVNFLTSLCIFITAVA 35 (229)
Q Consensus 9 wGs~efl~f~lv~gi~~~l~~~~~~~~ 35 (229)
.|.|+++-+++...+.....+.+.-++
T Consensus 6 m~RR~lmN~ll~Gava~~a~~~lyP~~ 32 (39)
T PF08802_consen 6 MSRRQLMNLLLGGAVAVPAGGMLYPYV 32 (39)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHhhHHHHHHHHhhhhe
Confidence 678899999886666665555443333
No 40
>COG0368 CobS Cobalamin-5-phosphate synthase [Coenzyme metabolism]
Probab=23.68 E-value=4.7e+02 Score=22.75 Aligned_cols=25 Identities=12% Similarity=0.187 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCccCC
Q 026994 108 LIFGTYMGWIYLRYLQKKPETKLSGD 133 (229)
Q Consensus 108 ~l~G~l~gw~YlRf~q~~~~~~~rGD 133 (229)
...+++++|++.|...|+- .|..||
T Consensus 198 ~~~~~l~~~~~~~~~~r~~-GG~tGD 222 (246)
T COG0368 198 VAVALLAAALLGRLAKRRF-GGVTGD 222 (246)
T ss_pred HHHHHHHHHHHHHHHHHHh-CCCchh
Confidence 5678889999999888875 567788
No 41
>PF04795 PAPA-1: PAPA-1-like conserved region; InterPro: IPR006880 This is a group of proteins with a conserved C-terminal region which is found in PAPA-1, a PAP-1 binding protein, Q9C086 from SWISSPROT.
Probab=23.54 E-value=67 Score=23.47 Aligned_cols=15 Identities=33% Similarity=0.656 Sum_probs=12.7
Q ss_pred hhhHHHHHHHHHHHH
Q 026994 191 EASRRRERGARALEE 205 (229)
Q Consensus 191 eaeRRR~~AlkaL~e 205 (229)
-|.|||..+-|.+||
T Consensus 9 ~ArkRk~~~eKk~EE 23 (89)
T PF04795_consen 9 NARKRKNQSEKKLEE 23 (89)
T ss_pred HHHHHHHHHHHHHHH
Confidence 368899999999987
No 42
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=23.45 E-value=48 Score=22.52 Aligned_cols=13 Identities=38% Similarity=0.478 Sum_probs=10.1
Q ss_pred HHHHHHHHhcchh
Q 026994 200 ARALEERLATEKL 212 (229)
Q Consensus 200 lkaL~eRl~~~~~ 212 (229)
|.+||+||+++..
T Consensus 34 La~LE~rL~~ae~ 46 (60)
T PF11471_consen 34 LAALEQRLQAAEQ 46 (60)
T ss_pred HHHHHHHHHHHHH
Confidence 7789999986653
No 43
>TIGR03759 conj_TIGR03759 integrating conjugative element protein, PFL_4693 family. Members of this protein family, such as model protein PFL_4693 from Pseudomonas fluorescens Pf-5, belong to extended genomic regions that appear to be spread by conjugative transfer. Most members have a predicted N-terminal signal sequence. The function is unknown.
Probab=23.37 E-value=69 Score=27.16 Aligned_cols=22 Identities=23% Similarity=0.297 Sum_probs=13.8
Q ss_pred CchhhhHHH--HHHHHHHHHHHhc
Q 026994 188 DPIEASRRR--ERGARALEERLAT 209 (229)
Q Consensus 188 ~~~eaeRRR--~~AlkaL~eRl~~ 209 (229)
.+.|+|||| ++..|.--+|.++
T Consensus 47 Arsd~ERrryAEl~vk~E~~rvek 70 (200)
T TIGR03759 47 ARSDEERRRYAELWVKQEAQRVEK 70 (200)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHH
Confidence 577889998 4444555555543
No 44
>cd03211 GST_C_Metaxin2 GST_C family, Metaxin subfamily, Metaxin 2; a metaxin 1 binding protein identified through a yeast two-hybrid system using metaxin 1 as the bait. Metaxin 2 shares sequence similarity with metaxin 1 but does not contain a C-terminal mitochondrial outer membrane signal-anchor domain. It associates with mitochondrial membranes through its interaction with metaxin 1, which is a component of the mitochondrial preprotein import complex of the outer membrane. The biological function of metaxin 2 is unknown. It is likely that it also plays a role in protein translocation into the mitochondria. However, this has not been experimentally validated. In a recent proteomics study, it has been shown that metaxin 2 is overexpressed in response to lipopolysaccharide-induced liver injury.
Probab=22.51 E-value=87 Score=23.90 Aligned_cols=24 Identities=21% Similarity=0.252 Sum_probs=18.9
Q ss_pred CchhhhHHHHHHHHHHHHHHhcch
Q 026994 188 DPIEASRRRERGARALEERLATEK 211 (229)
Q Consensus 188 ~~~eaeRRR~~AlkaL~eRl~~~~ 211 (229)
+++|..++-+..|+||+++|...+
T Consensus 54 ~~ee~~~~~~~~l~aLs~~Lg~~~ 77 (126)
T cd03211 54 TLDQVIEEVDQCCQALSQRLGTQP 77 (126)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCC
Confidence 456666777889999999998654
No 45
>KOG4709 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.43 E-value=95 Score=26.31 Aligned_cols=20 Identities=40% Similarity=0.368 Sum_probs=14.6
Q ss_pred chhhhHHHHHHH---------HHHHHHHh
Q 026994 189 PIEASRRRERGA---------RALEERLA 208 (229)
Q Consensus 189 ~~eaeRRR~~Al---------kaL~eRl~ 208 (229)
-.|++|+++++| +.|+|||.
T Consensus 58 ikeq~ReerielRk~~rqerkr~LeErl~ 86 (217)
T KOG4709|consen 58 IKEQLREERIELRKERRQERKRMLEERLE 86 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777776 56999997
No 46
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=22.38 E-value=45 Score=22.52 Aligned_cols=12 Identities=33% Similarity=0.490 Sum_probs=9.4
Q ss_pred CCCchhhhHHHH
Q 026994 186 GSDPIEASRRRE 197 (229)
Q Consensus 186 g~~~~eaeRRR~ 197 (229)
|-+.+|+++||+
T Consensus 20 GLs~~ev~~r~~ 31 (69)
T PF00690_consen 20 GLSSEEVEERRK 31 (69)
T ss_dssp BBTHHHHHHHHH
T ss_pred CCCHHHHHHHHH
Confidence 557888988885
No 47
>COG2246 Predicted membrane protein [Function unknown]
Probab=21.95 E-value=2.2e+02 Score=22.35 Aligned_cols=51 Identities=16% Similarity=0.075 Sum_probs=29.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHH
Q 026994 10 GSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIK 65 (229)
Q Consensus 10 Gs~efl~f~lv~gi~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~g~lvA~~ 65 (229)
-..|+++|.++ |..+.++-+.+..+++... .. .....-..+...|++.+|.
T Consensus 9 ~~~~~lrF~~V-G~~~t~V~~~~~~ll~~~~-~~---~~~~A~~~a~~~~ii~sf~ 59 (139)
T COG2246 9 TLSRLLRFAIV-GGLGTLVDFAVLWLLVKAL-GV---PYALANAIAYEAAIIFSFV 59 (139)
T ss_pred HHHHHHHHHhc-chHHHHHHHHHHHHHHHhc-cc---chHHHHHHHHHHHHHHHHH
Confidence 36789999884 6666666555444433331 11 1234445566677777764
No 48
>PTZ00101 rhomboid-1 protease; Provisional
Probab=21.94 E-value=1.8e+02 Score=25.80 Aligned_cols=29 Identities=28% Similarity=0.471 Sum_probs=17.0
Q ss_pred cCCchhHHHHHHHHHHHHHHHHHHhhcCC
Q 026994 98 TAESAAYLPTLIFGTYMGWIYLRYLQKKP 126 (229)
Q Consensus 98 ~~~~~~~~~~~l~G~l~gw~YlRf~q~~~ 126 (229)
..++.+|+.+.+.|++.|++|.+-.+.+|
T Consensus 218 ~Id~~aHlGG~i~G~llg~~~~~~l~~~~ 246 (278)
T PTZ00101 218 NIDHVGHLGGLLSGISMGILYNSQMENKP 246 (278)
T ss_pred CccHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 34556666666666666666655555443
No 49
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=21.83 E-value=5.7e+02 Score=27.18 Aligned_cols=24 Identities=13% Similarity=0.144 Sum_probs=15.5
Q ss_pred ccccchHHHHHHHHHHHHHHhcCC
Q 026994 48 MPLSGFQGVLAGFLVGIKQIVPDQ 71 (229)
Q Consensus 48 ~~~~G~sg~i~g~lvA~~ql~Pe~ 71 (229)
..+.|..-++..+.++...+++..
T Consensus 528 GNIVGSnIFNILLVLGl~aLis~~ 551 (1096)
T TIGR00927 528 GTIVGSAVFNILFVIGTCALFSRE 551 (1096)
T ss_pred hhhHhHHHHHHHHHHhhheeeccc
Confidence 356777767777776776666543
No 50
>PF08312 cwf21: cwf21 domain; InterPro: IPR013170 The cwf21 domain is found in proteins involved in mRNA splicing. Proteins containing this domain have been isolated as a subcomplex of the splicosome in Schizosaccharomyces pombe (Fission yeast) []. In yeast, this domain binds the protein Prp8p [], a large and highly conserved U5 snRNP protein which has been proposed as a protein cofactor at the spliceosomal catalytic centre []. The cwf21 domain is found in, amongst others, the small Cwc21p protein in yeast as well as in the much larger human ortholog SRm300 (serine/arginine repetitive matrix protein). ; PDB: 2E62_A.
Probab=20.40 E-value=1e+02 Score=19.75 Aligned_cols=17 Identities=35% Similarity=0.382 Sum_probs=13.4
Q ss_pred hhHHHHHHHHHHHHHHh
Q 026994 192 ASRRRERGARALEERLA 208 (229)
Q Consensus 192 aeRRR~~AlkaL~eRl~ 208 (229)
-||||++=+|.++=|-.
T Consensus 3 HerkR~IElk~~elrd~ 19 (46)
T PF08312_consen 3 HERKREIELKCLELRDE 19 (46)
T ss_dssp -HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 48999999999876653
Done!