Query 029382
Match_columns 194
No_of_seqs 204 out of 1400
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 12:01:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029382.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029382hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2290 Rhomboid family protei 100.0 3.3E-32 7.1E-37 237.0 10.7 173 2-192 472-644 (652)
2 KOG2289 Rhomboid family protei 100.0 1.5E-31 3.2E-36 227.5 7.2 178 1-184 139-316 (316)
3 PTZ00101 rhomboid-1 protease; 99.9 7.1E-24 1.5E-28 178.8 17.7 116 1-116 122-240 (278)
4 PRK10907 intramembrane serine 99.8 7.8E-18 1.7E-22 142.3 12.4 114 1-115 155-269 (276)
5 COG0705 Membrane associated se 99.7 3.3E-17 7.2E-22 134.5 12.4 117 1-117 88-212 (228)
6 PF01694 Rhomboid: Rhomboid fa 99.7 2.2E-17 4.8E-22 125.8 3.3 119 1-119 26-145 (145)
7 KOG2632 Rhomboid family protei 98.2 1E-05 2.2E-10 67.4 8.4 110 1-113 73-195 (258)
8 KOG2980 Integral membrane prot 97.3 4.5E-05 9.8E-10 64.8 -0.4 108 10-118 185-303 (310)
9 PF08551 DUF1751: Eukaryotic i 93.4 0.18 3.8E-06 36.3 4.7 37 2-38 29-65 (99)
10 KOG2890 Predicted membrane pro 69.1 6.6 0.00014 33.9 3.8 112 3-116 89-215 (326)
11 KOG4463 Uncharacterized conser 67.9 4.9 0.00011 34.1 2.7 36 3-38 72-107 (323)
12 PRK13108 prolipoprotein diacyl 57.0 1.6E+02 0.0035 27.1 10.8 53 18-70 24-83 (460)
13 PF06946 Phage_holin_5: Phage 53.8 78 0.0017 22.5 6.9 60 54-113 16-77 (93)
14 COG4769 Predicted membrane pro 49.1 1.3E+02 0.0029 23.9 7.6 103 13-115 50-162 (181)
15 PF10749 DUF2534: Protein of u 44.6 32 0.0007 23.9 3.1 25 140-164 11-35 (85)
16 KOG0255 Synaptic vesicle trans 42.9 2.3E+02 0.0049 25.5 9.4 32 6-38 137-168 (521)
17 COG2056 Predicted permease [Ge 41.5 69 0.0015 28.7 5.5 25 100-124 197-221 (444)
18 TIGR00834 ae anion exchange pr 39.7 4.1E+02 0.0088 26.7 11.1 61 5-67 387-449 (900)
19 PF14898 DUF4491: Domain of un 38.4 50 0.0011 23.6 3.4 43 11-59 26-68 (94)
20 COG0705 Membrane associated se 38.2 63 0.0014 26.0 4.6 48 17-65 163-210 (228)
21 PF06609 TRI12: Fungal trichot 37.0 3.8E+02 0.0081 25.5 14.5 30 9-38 99-128 (599)
22 PRK10263 DNA translocase FtsK; 36.8 2.5E+02 0.0055 29.4 9.2 8 102-109 143-150 (1355)
23 PF12669 P12: Virus attachment 36.8 98 0.0021 19.8 4.4 20 173-193 29-49 (58)
24 PF09527 ATPase_gene1: Putativ 36.6 1E+02 0.0022 19.1 4.5 31 5-35 18-49 (55)
25 PRK03113 putative disulfide ox 34.2 46 0.00099 25.4 2.9 13 169-181 32-44 (139)
26 TIGR02302 aProt_lowcomp conser 33.2 3E+02 0.0066 27.4 9.0 19 142-160 138-156 (851)
27 PF13829 DUF4191: Domain of un 32.8 1.5E+02 0.0033 24.5 6.0 38 79-116 35-72 (224)
28 PRK10255 PTS system N-acetyl g 31.7 3.4E+02 0.0073 26.2 8.8 42 75-117 73-115 (648)
29 PF09819 ABC_cobalt: ABC-type 31.5 2.2E+02 0.0049 21.3 10.2 86 20-114 14-101 (129)
30 PF06123 CreD: Inner membrane 30.6 3.1E+02 0.0068 25.0 8.1 98 2-99 333-430 (430)
31 PF07895 DUF1673: Protein of u 27.7 1.9E+02 0.0041 23.4 5.7 11 102-112 83-93 (205)
32 PF13105 DUF3959: Protein of u 26.8 46 0.00099 26.9 1.9 22 97-118 133-154 (239)
33 COG4068 Uncharacterized protei 26.3 1.3E+02 0.0028 19.7 3.5 11 142-152 43-53 (64)
34 PRK15038 autoinducer 2 import 25.5 1.9E+02 0.0042 25.0 5.8 42 17-58 208-253 (330)
35 PF03239 FTR1: Iron permease F 25.3 2.5E+02 0.0055 24.0 6.4 11 170-180 224-234 (306)
36 PF14241 DUF4341: Domain of un 25.3 1.9E+02 0.0042 18.6 4.4 34 24-57 6-39 (62)
37 PRK11715 inner membrane protei 24.5 4.7E+02 0.01 23.9 8.2 47 21-67 331-384 (436)
38 PRK12437 prolipoprotein diacyl 24.0 4.3E+02 0.0094 22.1 10.9 82 19-115 21-110 (269)
39 COG3105 Uncharacterized protei 23.6 91 0.002 23.7 2.8 21 95-115 6-26 (138)
40 PRK10720 uracil transporter; P 23.6 3.9E+02 0.0085 24.0 7.5 24 40-63 329-352 (428)
41 PF12273 RCR: Chitin synthesis 22.8 59 0.0013 24.1 1.7 6 143-148 2-7 (130)
42 PRK12768 CysZ-like protein; Re 22.3 2.1E+02 0.0046 23.8 5.1 8 89-96 144-151 (240)
43 PF03348 Serinc: Serine incorp 22.2 4.7E+02 0.01 23.7 7.7 29 78-106 115-149 (429)
44 cd02955 SSP411 TRX domain, SSP 21.7 26 0.00056 26.0 -0.4 11 171-181 24-34 (124)
45 KOG4491 Predicted membrane pro 21.6 3E+02 0.0066 23.3 5.8 20 93-112 60-79 (323)
46 PF03264 Cytochrom_NNT: NapC/N 21.5 22 0.00047 27.7 -0.9 13 168-180 32-44 (173)
47 PF04018 DUF368: Domain of unk 21.3 5E+02 0.011 21.9 9.5 20 96-115 81-100 (257)
48 PF06912 DUF1275: Protein of u 21.2 2.7E+02 0.0059 21.9 5.5 18 97-114 52-69 (209)
49 PF12732 YtxH: YtxH-like prote 21.0 1.1E+02 0.0023 20.3 2.6 20 22-41 3-22 (74)
50 TIGR00341 conserved hypothetic 21.0 3E+02 0.0066 24.1 6.0 25 98-122 270-294 (325)
51 PF06570 DUF1129: Protein of u 20.7 3.5E+02 0.0075 21.6 6.0 10 102-111 119-128 (206)
52 PRK11715 inner membrane protei 20.2 6.7E+02 0.014 22.9 9.0 17 17-33 303-319 (436)
53 PF02652 Lactate_perm: L-lacta 20.1 7.2E+02 0.016 23.2 10.6 11 5-15 108-118 (522)
No 1
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.97 E-value=3.3e-32 Score=237.02 Aligned_cols=173 Identities=28% Similarity=0.617 Sum_probs=142.2
Q ss_pred hhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHH
Q 029382 2 LCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSLYTNKAAALITLLV 81 (194)
Q Consensus 2 ~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~~~~~~~~l~~~~~ 81 (194)
.+++++=+.+|+..||.|+.++|++||+.||++|++|.|+.+.||.||+-+|++++++++++++|+..++|+.+...++.
T Consensus 472 ~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIFlpY~~eVgPa~sQ~Gila~l~vEl~qs~~il~~~w~a~~~Lia 551 (652)
T KOG2290|consen 472 CFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIFLPYRAEVGPAGSQFGILACLFVELFQSWQILERPWRAFFHLIA 551 (652)
T ss_pred HHHHHHHHHHHHhhcchhhheeeecccccccchheeeeccccccCCcccccchHHHHHHHHHhhhHhhhhHHHHHHHHHH
Confidence 45677888999999999999999999999999999999999999999999999999999999999999999988777766
Q ss_pred HHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHhcCCCCCccCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 029382 82 IIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLLPRPRYGWLDGRNLPGSAAIKSKYKTHQYVLWLVSLVLLIAGLTVAL 161 (194)
Q Consensus 82 ~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 161 (194)
.+++ +.+|++|.|||+||+.|+++|++.+++++|+.+|+-.+.+ +++...+++.+++..++....
T Consensus 552 ~~L~-L~iGliPWiDN~aHlfG~i~GLl~s~~~~PYi~Fg~~d~y--------------rKr~~ilIs~ivf~~Lla~Lv 616 (652)
T KOG2290|consen 552 TLLV-LCIGLIPWIDNWAHLFGTIFGLLTSIIFLPYIDFGDFDLY--------------RKRFYILISQIVFSGLLAILV 616 (652)
T ss_pred HHHH-HHhccccchhhHHHHHHHHHHHHHHHHhhccccccchhhh--------------hhHHHHHHHHHHHHHHHHHHH
Confidence 5554 4459999999999999999999999999998887642221 122344455555544444444
Q ss_pred HHHhccCCCCCCCCcccccccccCCCCCCCC
Q 029382 162 VMLFRGENGNDRCRWCHYMSCVPTSSWNCEG 192 (194)
Q Consensus 162 ~~~~~~~~~~~~C~~c~y~~C~p~~~~~C~~ 192 (194)
|+|| ++ .-+||||+|+||+|+++.+|+.
T Consensus 617 v~fy-~~--~i~cpWce~ltClP~~~~~~e~ 644 (652)
T KOG2290|consen 617 VVFY-NY--PIDCPWCEHLTCLPFTDCFCEK 644 (652)
T ss_pred Hhee-ec--ccCCchhhhccccchhhhhhhh
Confidence 4555 33 3499999999999999999985
No 2
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.97 E-value=1.5e-31 Score=227.52 Aligned_cols=178 Identities=57% Similarity=0.907 Sum_probs=158.9
Q ss_pred ChhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH
Q 029382 1 MLCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSLYTNKAAALITLL 80 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~~~~~~~~l~~~~ 80 (194)
|+.|.++|..+|+.+|.+|+.++|++||++|++++.++.++.++|||||++|||+||+++++..||+.++++...+..++
T Consensus 139 ~~~ql~iGi~LE~~~G~~RiglIYl~gg~aGSlls~l~d~~~~sVGASggvfaLlgA~Ls~l~~Nw~~m~~~~~~l~~ll 218 (316)
T KOG2289|consen 139 MLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLFDPNSISVGASGGVFALLGAHLSNLLTNWTIMKNKFAALRTLL 218 (316)
T ss_pred HHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHhccCCceecccHHHHHHHHHHHHHHHhhHHHhcchHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999998888888888
Q ss_pred HHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHhcCCCCCccCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 029382 81 VIIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLLPRPRYGWLDGRNLPGSAAIKSKYKTHQYVLWLVSLVLLIAGLTVA 160 (194)
Q Consensus 81 ~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 160 (194)
+++.+++.+|+.|++|+++|+||++.|..++++..++++++|......+. +.+.|++.+|.+.|+...+.++.++.+.
T Consensus 219 ~Ii~i~l~~G~~~~~~~~~h~gg~~~G~~~~fil~~~g~~~~~~~~~~~~--~~~~~~~~~q~~~w~~~~~~~v~~~~~~ 296 (316)
T KOG2289|consen 219 IIIFINLDLGFAPYVDNFAHIGGLLAGFLLGFVLHIGGQLGGITIGLIVL--RVFSKRLPYQLLLWIVLLVYLVAGLFAS 296 (316)
T ss_pred HHHHHHHhhccccceeccccccccCCCcchhHHhhhccceeEEeccceee--eccccccccchHHHHHHHHHHHHHHHHH
Confidence 88899999999999999999999999999999999999999877655431 1334555666778888888888888888
Q ss_pred HHHHhccCCCCCCCCccccccccc
Q 029382 161 LVMLFRGENGNDRCRWCHYMSCVP 184 (194)
Q Consensus 161 ~~~~~~~~~~~~~C~~c~y~~C~p 184 (194)
++..+.+ ++|.||+++.|.|
T Consensus 297 ~~~if~~----~~~~~~~~~~~~~ 316 (316)
T KOG2289|consen 297 LFNIFDG----KYCLWCHPLSCVP 316 (316)
T ss_pred HHHhhcC----CccccccccCCCC
Confidence 8777764 6999999999986
No 3
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.92 E-value=7.1e-24 Score=178.78 Aligned_cols=116 Identities=28% Similarity=0.571 Sum_probs=95.2
Q ss_pred ChhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH
Q 029382 1 MLCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSLYTNKAAALITLL 80 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~~~~~~~~l~~~~ 80 (194)
|++++.+|..+|+.+|++|+.++|++||+.||+++..+.+...++|||||+||++|+++++.+.+|...+.+.+.+..+.
T Consensus 122 m~~l~~~G~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~~~~svGASgAifGLiGa~~~~lil~w~~~~~~~~~~~~~i 201 (278)
T PTZ00101 122 VFFQLRMGFTLEKNYGIVKIIILYFLTGIYGNILSSSVTYCPIKVGASTSGMGLLGIVTSELILLWHVIRHRERVVFNII 201 (278)
T ss_pred HHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHccCCcEEehhHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 67899999999999999999999999999999999998887899999999999999999888888876554444333333
Q ss_pred HHHHHHHHH--hh-CCchhHHHHHHHHHHHHHHHHHHhc
Q 029382 81 VIIAINLAI--GI-LPHVDNFAHIGGFLTGFFLGFVLLP 116 (194)
Q Consensus 81 ~~~~~~~~~--~~-~~~i~~~aHlgG~l~G~l~g~~l~~ 116 (194)
.+.++.+.. .. .|++||+||+||+++|+++|..+.+
T Consensus 202 ~~~li~~~l~~~~~g~~Id~~aHlGG~i~G~llg~~~~~ 240 (278)
T PTZ00101 202 FFSLISFFYYFTFNGSNIDHVGHLGGLLSGISMGILYNS 240 (278)
T ss_pred HHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHh
Confidence 333333322 22 4789999999999999999988764
No 4
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.76 E-value=7.8e-18 Score=142.25 Aligned_cols=114 Identities=18% Similarity=0.191 Sum_probs=83.4
Q ss_pred ChhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhh-hhhHHHHHHHH
Q 029382 1 MLCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSL-YTNKAAALITL 79 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~-~~~~~~~l~~~ 79 (194)
|+++|++|..+|+.+|++|++.+|++||+.||+.++++.+ ...+|+||++||++|+........... ...+...+..+
T Consensus 155 ml~l~~lG~~iE~~~G~~~~l~l~l~s~i~~~~~~~~~~~-~~~gGaSGvVygL~g~~~~~~~~~p~~~~~lp~~~~~f~ 233 (276)
T PRK10907 155 LLWWWYLGGAVEKRLGSGKLIVITLISALLSGWVQSKFSG-PWFGGLSGVVYALMGYVWLRGERDPQSGIYLPRGLIAFA 233 (276)
T ss_pred HHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHcc-chhhHHHHHHHHHHHHHHHHhccccccchhhhHHHHHHH
Confidence 6789999999999999999999999999999999988864 568899999999999876432221111 11122222333
Q ss_pred HHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHh
Q 029382 80 LVIIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLL 115 (194)
Q Consensus 80 ~~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~ 115 (194)
++++++.+.-.+.++|+|.||+||+++|+++++...
T Consensus 234 llwl~~g~~~~~g~~Ian~AHlgGli~Gll~g~~~~ 269 (276)
T PRK10907 234 LLWLVAGYFDLFGMSIANAAHVAGLAVGLAMAFWDT 269 (276)
T ss_pred HHHHHHHHHHccCcccHHHHHHHHHHHHHHHHHHhh
Confidence 333333222112468999999999999999997765
No 5
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.73 E-value=3.3e-17 Score=134.54 Aligned_cols=117 Identities=36% Similarity=0.508 Sum_probs=94.8
Q ss_pred ChhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCC--ceeccchhHHHHHHHHHHHHhhhhhhhh---hHHHH
Q 029382 1 MLCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNS--ISVGASGALFGLLGAMLSELLTNWSLYT---NKAAA 75 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~--~~vGASGai~Gl~ga~l~~~~~~~~~~~---~~~~~ 75 (194)
|+.++.+|..+|+.+|+.|++.+|+++|+.+++.+..+.+.. +++||||+++|++|++............ .+...
T Consensus 88 ~~~l~~fg~~le~~~G~~~f~~~yl~~gl~~~~~~~~~~~~~~~~~~GASG~i~gllga~~~~~~~~~~~~~~~~~~~~~ 167 (228)
T COG0705 88 MLALWVFGSNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGAPSLGASGAIFGLLGAYFLLFPFARILLLFLSLPRPA 167 (228)
T ss_pred HHHHHHhhHHHHHHhchhHHHHHHHHHHHHHHHHHHHHcccccCcccchhHHHHHHHHHHHHHccccchhhhhccCchhH
Confidence 678999999999999999999999999999999999988766 7999999999999999763322222211 34555
Q ss_pred HHHHHHHHHHHHHHhhCC---chhHHHHHHHHHHHHHHHHHHhcC
Q 029382 76 LITLLVIIAINLAIGILP---HVDNFAHIGGFLTGFFLGFVLLPR 117 (194)
Q Consensus 76 l~~~~~~~~~~~~~~~~~---~i~~~aHlgG~l~G~l~g~~l~~~ 117 (194)
...+.+++..++..+... +++++||++|++.|.+++..+.++
T Consensus 168 ~~~i~~~~~~~~~~~~~~~~~~va~~aHl~G~i~G~l~~~~~~~~ 212 (228)
T COG0705 168 LILILIWLLYSLFSGAGSFGPSVAWSAHLGGLIGGLLLAALLSRK 212 (228)
T ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 556667777777666532 699999999999999999887654
No 6
>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=99.67 E-value=2.2e-17 Score=125.76 Aligned_cols=119 Identities=42% Similarity=0.700 Sum_probs=86.2
Q ss_pred ChhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCC-ceeccchhHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Q 029382 1 MLCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNS-ISVGASGALFGLLGAMLSELLTNWSLYTNKAAALITL 79 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~-~~vGASGai~Gl~ga~l~~~~~~~~~~~~~~~~l~~~ 79 (194)
++.++.+|..+||.+|++|+..+|+.+++.+++.+.++.+.. +.+|+||+++|++++.......+++....+.......
T Consensus 26 ~~~l~~~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~G~Sg~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (145)
T PF01694_consen 26 LLALWFFGSLLERRLGSRRFLALYLLSGLLGSLLSLLFSPPNQPYVGASGAVFGLLGAFLFLYPQNKKRLRFIYLALVVP 105 (145)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S-----SSHHHHHHHHHHHHHHHHCCCCCS---HCCCCCC
T ss_pred HHHHHHhhhhHhhhccchHHHHHHHHHHHhhhhccccccccccccCCCcccchHHHHHHHHHHhhccchhhcchHHHHHH
Confidence 467899999999999999999999999999999999988777 8999999999999999876665543333211111111
Q ss_pred HHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHhcCCC
Q 029382 80 LVIIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLLPRPR 119 (194)
Q Consensus 80 ~~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~~~~~ 119 (194)
...+...+..+..+++|+.+|++|+++|++++..+.+|||
T Consensus 106 ~~~~~~~~~~~~~~~~~~~~hl~G~~~G~~~~~~~~~~~~ 145 (145)
T PF01694_consen 106 IIVLVIILLLGFIPNISFLGHLGGFLAGLLYGFLILRRPQ 145 (145)
T ss_dssp CCCCCHHHCTSSSSTTTHHHHHHHHHHHHHHHHHHCH---
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 2223334444557899999999999999999999987653
No 7
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=98.16 E-value=1e-05 Score=67.43 Aligned_cols=110 Identities=23% Similarity=0.343 Sum_probs=75.0
Q ss_pred ChhHHHHhHHHHHhhc-hHHHHHHHHHHHHHHHHHHHhhcc-----C----CceeccchhHHHHHHHHHHHHhhhhh--h
Q 029382 1 MLCLVFIGIRLEQQFG-FVRIGVIYLLSGFGGSVLSCLFIR-----N----SISVGASGALFGLLGAMLSELLTNWS--L 68 (194)
Q Consensus 1 m~~L~~~G~~lE~~~G-~~r~l~iyl~sGi~G~l~s~~~~~-----~----~~~vGASGai~Gl~ga~l~~~~~~~~--~ 68 (194)
|++++.+|.+.||.+| +.|++....+.++..++...+... + ...+|-||..|+.++..-+. .+.++ .
T Consensus 73 mlaL~~~g~~fE~~~G~t~~~l~~~~llalf~gIl~ll~~~~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~-sp~r~~~~ 151 (258)
T KOG2632|consen 73 MLALWPLGSQFERTHGTTVRILMFTVLLALFSGILYLLAYHVFLLSDLVYVEGAIGFSGVLFAMMAVLEVQ-SPVRSRSV 151 (258)
T ss_pred HHHHHhchhHHHhhccceehHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhcccccccHHHHHHHHHHhhc-Ccccchhh
Confidence 6789999999999999 889999999999988887766531 1 24699999999999886431 11111 1
Q ss_pred hh-hHHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHH
Q 029382 69 YT-NKAAALITLLVIIAINLAIGILPHVDNFAHIGGFLTGFFLGFV 113 (194)
Q Consensus 69 ~~-~~~~~l~~~~~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~ 113 (194)
+. ...+. .+.-++.+-...-+.|+.|..+|++|+++|+.+++.
T Consensus 152 fg~~siP~--~l~Pw~lLi~~~~lvp~aSFlghl~GllvG~ay~~~ 195 (258)
T KOG2632|consen 152 FGLFSIPI--VLAPWALLIATQILVPQASFLGHLCGLLVGYAYAFS 195 (258)
T ss_pred cccccccH--HHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHHH
Confidence 10 00111 111122221222247999999999999999999984
No 8
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=97.31 E-value=4.5e-05 Score=64.82 Aligned_cols=108 Identities=30% Similarity=0.353 Sum_probs=64.2
Q ss_pred HHHHhhchHHHHHHHHHHHHHHHHHHHhh----ccCCceeccchhHHHHHHHHHHHHhhhhhhhh---hHHHHHHHHH--
Q 029382 10 RLEQQFGFVRIGVIYLLSGFGGSVLSCLF----IRNSISVGASGALFGLLGAMLSELLTNWSLYT---NKAAALITLL-- 80 (194)
Q Consensus 10 ~lE~~~G~~r~l~iyl~sGi~G~l~s~~~----~~~~~~vGASGai~Gl~ga~l~~~~~~~~~~~---~~~~~l~~~~-- 80 (194)
.+....|...+..+|+.++..|......- .+..++.||||+++++.+... .++++...+- .+.+.-..+.
T Consensus 185 a~~~~~~~~~~~AlylSa~~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~-~lfP~~~~~i~f~~~v~~ga~~~~~ 263 (310)
T KOG2980|consen 185 ALKGSLGFSSFFALYLSAGVKGLFISVKDKVPTSWAGPSLGASGAVYAILALDC-TLFPKTTLYILFVFPVPAGAGLAFK 263 (310)
T ss_pred cccCCcchhhcccceeccccccceeEeeccccccccccccccchHHHHHHHHHh-hcCcCcceeEEEeecccccchhHHH
Confidence 44445667777788886666665544332 123478999999999999885 3455433211 1222111111
Q ss_pred HHHHHHHHHhhC--CchhHHHHHHHHHHHHHHHHHHhcCC
Q 029382 81 VIIAINLAIGIL--PHVDNFAHIGGFLTGFFLGFVLLPRP 118 (194)
Q Consensus 81 ~~~~~~~~~~~~--~~i~~~aHlgG~l~G~l~g~~l~~~~ 118 (194)
.++..++..-.. -.-|++||++|-+.|...+....++.
T Consensus 264 ~i~~~~~a~~~l~~~~~n~~Ah~~gsl~Gv~va~~~~~ri 303 (310)
T KOG2980|consen 264 AIAAYDFAGLILGWGFFNHAAHLSGSLFGVVVATYLWARI 303 (310)
T ss_pred HHHHhhhcceeeccccchhHhhhcchHHHHHHHHHHHHHH
Confidence 222222222222 35788999999999999998876543
No 9
>PF08551 DUF1751: Eukaryotic integral membrane protein (DUF1751); InterPro: IPR013861 This entry is found in eukaryotic integral membrane proteins. Q12239 from SWISSPROT, a Saccharomyces cerevisiae (Baker's yeast) protein, has been shown to localise COP II vesicles [].
Probab=93.42 E-value=0.18 Score=36.31 Aligned_cols=37 Identities=24% Similarity=0.274 Sum_probs=32.5
Q ss_pred hhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhh
Q 029382 2 LCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLF 38 (194)
Q Consensus 2 ~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~ 38 (194)
+.+++.|+.+|+.+|++.++-...+.++..|+.....
T Consensus 29 ~~l~~~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~ 65 (99)
T PF08551_consen 29 LTLFYGGRYLEPIWGSREFLKFILVVNVITNLLTFLL 65 (99)
T ss_pred HHHHHhhHHHHHhcChHHHHHHHHHHHHHhHHHHHHH
Confidence 3577899999999999999999999999999887554
No 10
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=69.13 E-value=6.6 Score=33.92 Aligned_cols=112 Identities=20% Similarity=0.277 Sum_probs=63.8
Q ss_pred hHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhh-------ccC-----CceeccchhHHHHHHHHHHHHhhhhhhhh
Q 029382 3 CLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLF-------IRN-----SISVGASGALFGLLGAMLSELLTNWSLYT 70 (194)
Q Consensus 3 ~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~-------~~~-----~~~vGASGai~Gl~ga~l~~~~~~~~~~~ 70 (194)
.|.+-|..+|+.+|+..++..|.+.-..-+++..+. ..+ .+-.|..|-.-|++-+. -.+++......
T Consensus 89 ~L~v~G~~lEp~Wg~~e~lkff~ivn~~~~l~v~v~~~l~Y~it~n~v~L~~~i~G~~gilaGilVa~-kQllpd~~il~ 167 (326)
T KOG2890|consen 89 TLSVGGKFLEPNWGSLELLKFFAIVNGSTTLVVLVPALLLYMITDNHVYLYIPIHGTTGILAGILVAW-KQLLPDTIILE 167 (326)
T ss_pred heeecceeeccCCCCHHHHHHHHHhhchhHHHHHHHHHHHHHHhcCceEEEEEeccchHHHHHHHHHH-HHHcCceeEEe
Confidence 455678999999999999998877655444433221 111 25778888888877766 22333332222
Q ss_pred hHHHHHH-HH--HHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHhc
Q 029382 71 NKAAALI-TL--LVIIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLLP 116 (194)
Q Consensus 71 ~~~~~l~-~~--~~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~~ 116 (194)
-+..+.. .. +..+.+.++..+ -..+.++.+.-+.+|.+.++..++
T Consensus 168 ~~~~r~~~~~lP~~~l~~~~il~i-~~f~~f~~l~s~~~g~~~sWtYLR 215 (326)
T KOG2890|consen 168 LKSGRFLYAHLPLLVLFLSLILSI-ITFLVFASLPSITFGVLVSWTYLR 215 (326)
T ss_pred ccchhhhhhhCCHHHHHHHHHHHH-HHHHHhhhhHHHHHhhhhhhhhhe
Confidence 1211111 00 111111111222 245667888888899999988764
No 11
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.87 E-value=4.9 Score=34.14 Aligned_cols=36 Identities=17% Similarity=0.284 Sum_probs=31.3
Q ss_pred hHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhh
Q 029382 3 CLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLF 38 (194)
Q Consensus 3 ~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~ 38 (194)
.+++.-+.+||.+|+.||..+-+.+++.+.+....+
T Consensus 72 ~I~Y~fR~~ERlLGShky~~fiv~s~~~~~l~~~il 107 (323)
T KOG4463|consen 72 YILYYFRVFERLLGSHKYSVFIVFSGTVSLLLEVIL 107 (323)
T ss_pred HHHHHHHHHHHHhccccceeehhHHHHHHHHHHHHH
Confidence 467778899999999999999999999998877654
No 12
>PRK13108 prolipoprotein diacylglyceryl transferase; Reviewed
Probab=56.99 E-value=1.6e+02 Score=27.05 Aligned_cols=53 Identities=19% Similarity=0.237 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-cc-----CC-ceeccchhHHHHHHHHHHHHhhhhhhhh
Q 029382 18 VRIGVIYLLSGFGGSVLSCLF-IR-----NS-ISVGASGALFGLLGAMLSELLTNWSLYT 70 (194)
Q Consensus 18 ~r~l~iyl~sGi~G~l~s~~~-~~-----~~-~~vGASGai~Gl~ga~l~~~~~~~~~~~ 70 (194)
+.|-++|.++-+.+..+.... .. +. ..+.--..+.|++|+-+.+++.+|+.+.
T Consensus 24 ~~YGl~ialGil~a~~l~~r~~kr~g~~~~~i~dl~i~~vi~giIGARL~yVl~~~~~y~ 83 (460)
T PRK13108 24 RAYAVCVITGIIVALLIGDRRLTARGGERGMTYDIALWAVPFGLIGGRLYHLATDWRTYF 83 (460)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhHHHHhcCHHHHh
Confidence 345555655555555444222 11 11 2344557788889988888777777653
No 13
>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=53.82 E-value=78 Score=22.53 Aligned_cols=60 Identities=18% Similarity=0.128 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHhhCCc-hhHHH-HHHHHHHHHHHHHH
Q 029382 54 LLGAMLSELLTNWSLYTNKAAALITLLVIIAINLAIGILPH-VDNFA-HIGGFLTGFFLGFV 113 (194)
Q Consensus 54 l~ga~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-i~~~a-HlgG~l~G~l~g~~ 113 (194)
++...++..+...+..++++.-+..+.+=+++.++....++ .+... -..|.++|+...-+
T Consensus 16 ii~~~lVq~IkkT~~v~~K~iPlIs~viGilLG~~~~~~~~~~~l~~~~~aG~laGlAaTGL 77 (93)
T PF06946_consen 16 IITPALVQAIKKTKVVPNKWIPLISVVIGILLGAAAYPLTGDGNLALMAWAGGLAGLAATGL 77 (93)
T ss_pred HHHHHHHHHHHHhccCCcchhhHHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHhhhhhhhH
Confidence 44444555555555455555444555554555555444443 22221 24477777765544
No 14
>COG4769 Predicted membrane protein [Function unknown]
Probab=49.10 E-value=1.3e+02 Score=23.86 Aligned_cols=103 Identities=15% Similarity=0.114 Sum_probs=57.9
Q ss_pred HhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhh--hh-hHHH----HHHHHHHHHHH
Q 029382 13 QQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSL--YT-NKAA----ALITLLVIIAI 85 (194)
Q Consensus 13 ~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~--~~-~~~~----~l~~~~~~~~~ 85 (194)
..++++..+.+-++=-+.+++++.-+..+.-..+.+|++...++..+...+..+.. .. .... .+.++++.-.+
T Consensus 50 ~~l~~~~~~~~i~lr~il~AL~sGtlfs~~Fl~sfaG~i~S~L~m~~l~~f~~k~~S~lgiS~mGaF~hNl~QLivas~L 129 (181)
T COG4769 50 ETLNFKDALQTILLRVILQALFSGTLFSPVFLYSFAGAILSTLFMYFLYQFGPKYLSLLGISVMGAFTHNLGQLIVASFL 129 (181)
T ss_pred HhccHHHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHHHHHHHHHcCCceEeeeehhhHHHHHHhHHHHHHHHHH
Confidence 34677777777777777777766543334456788888888777776543331111 00 0111 12233222111
Q ss_pred ---HHHHhhCCchhHHHHHHHHHHHHHHHHHHh
Q 029382 86 ---NLAIGILPHVDNFAHIGGFLTGFFLGFVLL 115 (194)
Q Consensus 86 ---~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~ 115 (194)
+-.+-..|-....+-+.|...|++....+.
T Consensus 130 v~~~~v~l~lPll~flGivsG~~vg~~~~~~i~ 162 (181)
T COG4769 130 VFTTSVMLYLPLLIFLGIVSGTAVGILANTLII 162 (181)
T ss_pred HhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 111222467777888889988888877664
No 15
>PF10749 DUF2534: Protein of unknown function (DUF2534); InterPro: IPR019685 This entry represents proteins with unknown function, and appear to be restricted to Enterobacteriaceae.
Probab=44.55 E-value=32 Score=23.88 Aligned_cols=25 Identities=20% Similarity=0.316 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 029382 140 THQYVLWLVSLVLLIAGLTVALVML 164 (194)
Q Consensus 140 ~~~~~~~~~~~~l~~~~~~~~~~~~ 164 (194)
..++.+..++.+.++++-+++-..+
T Consensus 11 ~~kkFl~~l~~vfiia~~Vv~rAt~ 35 (85)
T PF10749_consen 11 EGKKFLLALAIVFIIAATVVGRATI 35 (85)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555444
No 16
>KOG0255 consensus Synaptic vesicle transporter SVOP and related transporters (major facilitator superfamily) [General function prediction only]
Probab=42.86 E-value=2.3e+02 Score=25.50 Aligned_cols=32 Identities=19% Similarity=0.175 Sum_probs=23.3
Q ss_pred HHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhh
Q 029382 6 FIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLF 38 (194)
Q Consensus 6 ~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~ 38 (194)
.+|..-|+ +|+++.+.+=++..+.+++.+...
T Consensus 137 i~g~lsD~-~GRk~~~~~~~~~~~i~~~~~a~a 168 (521)
T KOG0255|consen 137 IFGPLSDR-FGRKPVLLVSLLLFIIFGILTAFA 168 (521)
T ss_pred hheehHhh-cccHHHHHHHHHHHHHHHHHHHHh
Confidence 45666666 999998888877777777666443
No 17
>COG2056 Predicted permease [General function prediction only]
Probab=41.53 E-value=69 Score=28.73 Aligned_cols=25 Identities=16% Similarity=0.227 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCccC
Q 029382 100 HIGGFLTGFFLGFVLLPRPRYGWLD 124 (194)
Q Consensus 100 HlgG~l~G~l~g~~l~~~~~~~~~~ 124 (194)
---|+++|++++.....|++..|++
T Consensus 197 p~lgMi~GLl~ai~~~YrKpReY~~ 221 (444)
T COG2056 197 PGLGMIVGLLLAIFVSYRKPREYQT 221 (444)
T ss_pred HHHHHHHHHHHHHHHhhcCCccccc
Confidence 3468899999998885444444543
No 18
>TIGR00834 ae anion exchange protein. They preferentially catalyze anion exchange (antiport) reactions, typically acting as HCO3-:Cl- antiporters, but also transporting a range of other inorganic and organic anions. Additionally, renal Na+:HCO3- cotransporters have been found to be members of the AE family. They catalyze the reabsorption of HCO3- in the renal proximal tubule.
Probab=39.72 E-value=4.1e+02 Score=26.72 Aligned_cols=61 Identities=16% Similarity=0.243 Sum_probs=34.8
Q ss_pred HHHhHHHHHhhch-HHHHHHHHHHHHHHHHHHHhhccCC-ceeccchhHHHHHHHHHHHHhhhhh
Q 029382 5 VFIGIRLEQQFGF-VRIGVIYLLSGFGGSVLSCLFIRNS-ISVGASGALFGLLGAMLSELLTNWS 67 (194)
Q Consensus 5 ~~~G~~lE~~~G~-~r~l~iyl~sGi~G~l~s~~~~~~~-~~vGASGai~Gl~ga~l~~~~~~~~ 67 (194)
..||..+++..+. ....=..+.+++.|-+.+ ++..+. .-+|.+|-+.-...++ .+.....+
T Consensus 387 IaFG~ll~~~T~g~~gv~E~Llstai~Giifs-lf~GQPL~IlG~TGPilvF~~~l-y~~c~~~~ 449 (900)
T TIGR00834 387 ITFGGLLGEKTRNMMGVSELLISTAVQGVLFA-LLAAQPLLVVGFSGPLLVFEEAF-FSFCESNG 449 (900)
T ss_pred hhHHHHHHHhhCCcchHHHHHHHHHHHHHHHh-hhcCCceEEecCcccHHHHHHHH-HHHHhhcC
Confidence 3566666666543 344444455555554544 555443 7789999887666655 33444433
No 19
>PF14898 DUF4491: Domain of unknown function (DUF4491)
Probab=38.40 E-value=50 Score=23.57 Aligned_cols=43 Identities=37% Similarity=0.410 Sum_probs=30.1
Q ss_pred HHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHH
Q 029382 11 LEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAML 59 (194)
Q Consensus 11 lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l 59 (194)
.|.++|. |..-+|++.|+...++|.... +. .. .++.|++|+..
T Consensus 26 ~EYyfg~-~~W~~FL~~Gi~~~~~Sl~~~-~~---~~-S~llgv~g~s~ 68 (94)
T PF14898_consen 26 GEYYFGT-RIWPIFLLAGIACIIASLFVS-NV---IW-SALLGVLGFSC 68 (94)
T ss_pred EEEecCC-CcHHHHHHHHHHHHHHHHHHc-ch---HH-HHHHHHHHHHH
Confidence 4777787 578899999999988776553 32 11 25677777765
No 20
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=38.19 E-value=63 Score=26.01 Aligned_cols=48 Identities=29% Similarity=0.187 Sum_probs=37.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhh
Q 029382 17 FVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTN 65 (194)
Q Consensus 17 ~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~ 65 (194)
..+.+.+++..++..+++.....+. ++++.++.+.|+++..+......
T Consensus 163 ~~~~~~~~i~~~~~~~~~~~~~~~~-~~va~~aHl~G~i~G~l~~~~~~ 210 (228)
T COG0705 163 LPRPALILILIWLLYSLFSGAGSFG-PSVAWSAHLGGLIGGLLLAALLS 210 (228)
T ss_pred CchhHHHHHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHHHHHHHHHh
Confidence 5577788888888888888766543 78999999999998887544443
No 21
>PF06609 TRI12: Fungal trichothecene efflux pump (TRI12); InterPro: IPR010573 This family consists of several fungal specific trichothecene efflux pump proteins. Many of the genes involved in trichothecene toxin biosynthesis in Fusarium sporotrichioides are present within a gene cluster. It has been suggested that TRI12 may play a role in F. sporotrichioides self-protection against trichothecenes [].
Probab=37.04 E-value=3.8e+02 Score=25.54 Aligned_cols=30 Identities=30% Similarity=0.258 Sum_probs=24.0
Q ss_pred HHHHHhhchHHHHHHHHHHHHHHHHHHHhh
Q 029382 9 IRLEQQFGFVRIGVIYLLSGFGGSVLSCLF 38 (194)
Q Consensus 9 ~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~ 38 (194)
..+-+.+|++.+++.=.+-++.|.+...--
T Consensus 99 G~LSDlfGRr~~~i~g~~l~vvG~Iv~atA 128 (599)
T PF06609_consen 99 GRLSDLFGRRYFFIIGSLLGVVGSIVCATA 128 (599)
T ss_pred HHHHHHhcchHHHHHHHHHHHhHHHHhhcC
Confidence 356789999999998888888888877543
No 22
>PRK10263 DNA translocase FtsK; Provisional
Probab=36.83 E-value=2.5e+02 Score=29.41 Aligned_cols=8 Identities=25% Similarity=0.808 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 029382 102 GGFLTGFF 109 (194)
Q Consensus 102 gG~l~G~l 109 (194)
||+++.++
T Consensus 143 GGIIG~lL 150 (1355)
T PRK10263 143 GGVIGSLL 150 (1355)
T ss_pred cchHHHHH
Confidence 44444333
No 23
>PF12669 P12: Virus attachment protein p12 family
Probab=36.83 E-value=98 Score=19.84 Aligned_cols=20 Identities=35% Similarity=0.569 Sum_probs=10.7
Q ss_pred CCCcccccc-cccCCCCCCCCC
Q 029382 173 RCRWCHYMS-CVPTSSWNCEGN 193 (194)
Q Consensus 173 ~C~~c~y~~-C~p~~~~~C~~~ 193 (194)
.|..|.-=+ | +.+...|++.
T Consensus 29 ~c~gCs~~sgC-~~~~~~C~~~ 49 (58)
T PF12669_consen 29 CCCGCSGCSGC-CGSSSSCHSK 49 (58)
T ss_pred CCCCCCCCCCc-CCCCCCCCCC
Confidence 455554444 6 5555567653
No 24
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=36.64 E-value=1e+02 Score=19.08 Aligned_cols=31 Identities=29% Similarity=0.488 Sum_probs=21.8
Q ss_pred HHHhHHHHHhhch-HHHHHHHHHHHHHHHHHH
Q 029382 5 VFIGIRLEQQFGF-VRIGVIYLLSGFGGSVLS 35 (194)
Q Consensus 5 ~~~G~~lE~~~G~-~r~l~iyl~sGi~G~l~s 35 (194)
..+|..+++.+|+ +.+.++.++-|+.+++.+
T Consensus 18 ~~~G~~lD~~~~t~p~~~~~g~llG~~~g~~~ 49 (55)
T PF09527_consen 18 FFLGYWLDKWFGTSPWFTLIGLLLGIAAGFYN 49 (55)
T ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHHHH
Confidence 5677888888887 666666677676666554
No 25
>PRK03113 putative disulfide oxidoreductase; Provisional
Probab=34.25 E-value=46 Score=25.38 Aligned_cols=13 Identities=23% Similarity=0.552 Sum_probs=9.5
Q ss_pred CCCCCCCcccccc
Q 029382 169 NGNDRCRWCHYMS 181 (194)
Q Consensus 169 ~~~~~C~~c~y~~ 181 (194)
..-++|+.|-|-+
T Consensus 32 ~gl~PC~LCi~QR 44 (139)
T PRK03113 32 MKFEPCVLCWYQR 44 (139)
T ss_pred cCCCCCHHHHHHH
Confidence 3456999998754
No 26
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=33.22 E-value=3e+02 Score=27.39 Aligned_cols=19 Identities=21% Similarity=0.401 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 029382 142 QYVLWLVSLVLLIAGLTVA 160 (194)
Q Consensus 142 ~~~~~~~~~~l~~~~~~~~ 160 (194)
.+.+++++++++++.++++
T Consensus 138 P~aLR~~~~l~lv~a~~~a 156 (851)
T TIGR02302 138 PWGLRALVVLLLVAAFAYS 156 (851)
T ss_pred cHHHHHHHHHHHHHHHHHh
Confidence 4578888777777666544
No 27
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=32.77 E-value=1.5e+02 Score=24.50 Aligned_cols=38 Identities=29% Similarity=0.350 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHhc
Q 029382 79 LLVIIAINLAIGILPHVDNFAHIGGFLTGFFLGFVLLP 116 (194)
Q Consensus 79 ~~~~~~~~~~~~~~~~i~~~aHlgG~l~G~l~g~~l~~ 116 (194)
++..+++.++++++-+--++--+-|.+.|++.+++++.
T Consensus 35 ~l~~~~v~v~ig~l~~~~~~~~i~gi~~g~l~am~vl~ 72 (224)
T PF13829_consen 35 FLGPIAVFVLIGLLFGSWWYWLIIGILLGLLAAMIVLS 72 (224)
T ss_pred HHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445556664444567788899999988887764
No 28
>PRK10255 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional
Probab=31.72 E-value=3.4e+02 Score=26.18 Aligned_cols=42 Identities=21% Similarity=0.332 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHhhC-CchhHHHHHHHHHHHHHHHHHHhcC
Q 029382 75 ALITLLVIIAINLAIGIL-PHVDNFAHIGGFLTGFFLGFVLLPR 117 (194)
Q Consensus 75 ~l~~~~~~~~~~~~~~~~-~~i~~~aHlgG~l~G~l~g~~l~~~ 117 (194)
++..++.+++++...... +.+ +.+-+||.++|++.+++..+.
T Consensus 73 ala~~v~yl~~~~~~~~~~~~~-~~gvfgGIi~G~i~a~l~nkf 115 (648)
T PRK10255 73 ALAGAVGYFVLTKAMVTINPEI-NMGVLAGIITGLVGGAAYNRW 115 (648)
T ss_pred HHHHHHHHHHHHHHHHHHhhhh-chhhhhhhHHHHHHHHHHHHh
Confidence 344444444444333222 222 456699999999999877643
No 29
>PF09819 ABC_cobalt: ABC-type cobalt transport system, permease component; InterPro: IPR017195 This group represents a predicted ABC-type thiamin-related transport system, permease component 1. It is probably part of the ABC transporter complex ykoCDEF that could transport hydroxymethylpyrimidine (HMP) and/or thiamine. It could also transport other HMP-containing products. The complex is composed of two ATP-binding proteins (ykoD), two transmembrane proteins (ykoC and ykoE) and a solute-binding protein (ykoF).
Probab=31.54 E-value=2.2e+02 Score=21.30 Aligned_cols=86 Identities=24% Similarity=0.367 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHH--HHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHhhCCchhH
Q 029382 20 IGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLL--GAMLSELLTNWSLYTNKAAALITLLVIIAINLAIGILPHVDN 97 (194)
Q Consensus 20 ~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~--ga~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~ 97 (194)
+-.+|...+...+..+..+.| ....+.+.++|+- ++.++.. ..++|..++..-.+-..+...+| ++.+.
T Consensus 14 ~gvi~~~~~~v~~~l~~~~~p--~~p~~~~~~~GlW~~a~~la~~-----iiRKPGaa~~~e~laa~ve~~~G--~~~G~ 84 (129)
T PF09819_consen 14 FGVIYWGWNYVYNPLSALLTP--LGPLAGGILYGLWFMAGPLAAY-----IIRKPGAALLAELLAALVEMLLG--SQWGI 84 (129)
T ss_pred HHHHHHHHHHHHHHHHHHhcc--ccccHHHHHHHHHHHHHHHHHH-----HhCCCcHHHHHHHHHHHHHHHhc--CcchH
Confidence 345666666666766766665 4556666777743 2222221 23445555444444444444443 34555
Q ss_pred HHHHHHHHHHHHHHHHH
Q 029382 98 FAHIGGFLTGFFLGFVL 114 (194)
Q Consensus 98 ~aHlgG~l~G~l~g~~l 114 (194)
..-+.|++-|+..=..+
T Consensus 85 ~~ii~gl~QGlg~El~F 101 (129)
T PF09819_consen 85 MTIISGLVQGLGAELGF 101 (129)
T ss_pred HHHHHHHHhHHHHHHHH
Confidence 67788888887654333
No 30
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=30.64 E-value=3.1e+02 Score=24.95 Aligned_cols=98 Identities=21% Similarity=0.261 Sum_probs=0.0
Q ss_pred hhHHHHhHHHHHhhchHHHHHHHHHHHHHHHHHHHhhccCCceeccchhHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHH
Q 029382 2 LCLVFIGIRLEQQFGFVRIGVIYLLSGFGGSVLSCLFIRNSISVGASGALFGLLGAMLSELLTNWSLYTNKAAALITLLV 81 (194)
Q Consensus 2 ~~L~~~G~~lE~~~G~~r~l~iyl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga~l~~~~~~~~~~~~~~~~l~~~~~ 81 (194)
+++..|=..+-..--+..|..-|++++.+..+.-..+......-.--|.++|.+-+.+.-.+..--..+.-.-....+.+
T Consensus 333 lAl~lFYlLLLSlSEhi~F~~AYliAa~a~i~Li~~Y~~~vl~~~k~~~~~~~~L~~LY~~Ly~lLq~EdyALL~GSl~L 412 (430)
T PF06123_consen 333 LALVLFYLLLLSLSEHIGFNLAYLIAALACIGLISLYLSSVLKSWKRGLIFAGLLAALYGFLYVLLQSEDYALLMGSLLL 412 (430)
T ss_pred HHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q ss_pred HHHHHHHHhhCCchhHHH
Q 029382 82 IIAINLAIGILPHVDNFA 99 (194)
Q Consensus 82 ~~~~~~~~~~~~~i~~~a 99 (194)
++++.+++-++.++||.+
T Consensus 413 F~iLa~vM~~TRkiDWy~ 430 (430)
T PF06123_consen 413 FIILALVMYLTRKIDWYA 430 (430)
T ss_pred HHHHHHHHheeecccccC
No 31
>PF07895 DUF1673: Protein of unknown function (DUF1673); InterPro: IPR012874 This family contains hypothetical proteins of unknown function found in Methanosarcina acetivorans and Methanosarcina mazei.
Probab=27.69 E-value=1.9e+02 Score=23.37 Aligned_cols=11 Identities=27% Similarity=0.395 Sum_probs=5.5
Q ss_pred HHHHHHHHHHH
Q 029382 102 GGFLTGFFLGF 112 (194)
Q Consensus 102 gG~l~G~l~g~ 112 (194)
.+++.|++++.
T Consensus 83 ~~ll~g~~~~L 93 (205)
T PF07895_consen 83 LFLLAGLILSL 93 (205)
T ss_pred HHHHHHHHHHH
Confidence 44555555543
No 32
>PF13105 DUF3959: Protein of unknown function (DUF3959)
Probab=26.84 E-value=46 Score=26.92 Aligned_cols=22 Identities=18% Similarity=0.443 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcCC
Q 029382 97 NFAHIGGFLTGFFLGFVLLPRP 118 (194)
Q Consensus 97 ~~aHlgG~l~G~l~g~~l~~~~ 118 (194)
..--+||++.|-+++..+-++.
T Consensus 133 lllLvgGli~GGLlA~~~hRke 154 (239)
T PF13105_consen 133 LLLLVGGLILGGLLAMLIHRKE 154 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 3456899999999998876543
No 33
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=26.28 E-value=1.3e+02 Score=19.67 Aligned_cols=11 Identities=27% Similarity=0.407 Sum_probs=4.9
Q ss_pred HHHHHHHHHHH
Q 029382 142 QYVLWLVSLVL 152 (194)
Q Consensus 142 ~~~~~~~~~~l 152 (194)
-.++++..+.+
T Consensus 43 ~~~~~~li~aL 53 (64)
T COG4068 43 FMILMFLILAL 53 (64)
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 34
>PRK15038 autoinducer 2 import system permease LsrD; Provisional
Probab=25.52 E-value=1.9e+02 Score=24.95 Aligned_cols=42 Identities=14% Similarity=0.317 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcc----CCceeccchhHHHHHHHH
Q 029382 17 FVRIGVIYLLSGFGGSVLSCLFIR----NSISVGASGALFGLLGAM 58 (194)
Q Consensus 17 ~~r~l~iyl~sGi~G~l~s~~~~~----~~~~vGASGai~Gl~ga~ 58 (194)
.+.....|.+||..+++...+... .++..|.+-...++.++.
T Consensus 208 ~r~~~~afvisg~laglAG~l~~~~~~~~~p~~g~~~~l~aiaavv 253 (330)
T PRK15038 208 NRTLCALYAMTGLASAIAAVLLVSYFGSARSDLGASFLMPAITAVV 253 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCcCcCcCccchHHHHHHHh
Confidence 345577899999988887765432 224555544444444433
No 35
>PF03239 FTR1: Iron permease FTR1 family; InterPro: IPR004923 The Saccharomyces cerevisiae (Baker's yeast) iron permease FTR1 is a plasma membrane permease for high-affinity iron uptake. Also included in this family are bacterial hypothetical integral membrane proteins.; GO: 0055085 transmembrane transport, 0016020 membrane
Probab=25.32 E-value=2.5e+02 Score=23.97 Aligned_cols=11 Identities=18% Similarity=0.610 Sum_probs=7.9
Q ss_pred CCCCCCccccc
Q 029382 170 GNDRCRWCHYM 180 (194)
Q Consensus 170 ~~~~C~~c~y~ 180 (194)
..+.++|-+|.
T Consensus 224 ~~~~~~~~~~~ 234 (306)
T PF03239_consen 224 KSEAKPWQSYI 234 (306)
T ss_pred Hhhhcchhccc
Confidence 34577888887
No 36
>PF14241 DUF4341: Domain of unknown function (DUF4341)
Probab=25.31 E-value=1.9e+02 Score=18.64 Aligned_cols=34 Identities=32% Similarity=0.325 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhhccCCceeccchhHHHHHHH
Q 029382 24 YLLSGFGGSVLSCLFIRNSISVGASGALFGLLGA 57 (194)
Q Consensus 24 yl~sGi~G~l~s~~~~~~~~~vGASGai~Gl~ga 57 (194)
|+.+.+.|-....++..+.-..|+||.+.+++..
T Consensus 6 l~GG~lIGla~~~ll~~~Gri~GiSGil~~~~~~ 39 (62)
T PF14241_consen 6 LIGGLLIGLAASLLLLLNGRIAGISGILSGLLSP 39 (62)
T ss_pred HHHHHHHHHHHHHHHHHcCcceehHHHHHHHhCC
Confidence 4445555555555555567788999887776654
No 37
>PRK11715 inner membrane protein; Provisional
Probab=24.53 E-value=4.7e+02 Score=23.85 Aligned_cols=47 Identities=32% Similarity=0.388 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHhhccCCce-------eccchhHHHHHHHHHHHHhhhhh
Q 029382 21 GVIYLLSGFGGSVLSCLFIRNSIS-------VGASGALFGLLGAMLSELLTNWS 67 (194)
Q Consensus 21 l~iyl~sGi~G~l~s~~~~~~~~~-------vGASGai~Gl~ga~l~~~~~~~~ 67 (194)
-+=|++-|+.=.++..+...-+-+ +=||.+..++++.++...+.+|+
T Consensus 331 piQYlLVGlAl~lFYLLLLSlSEHigF~~AYliAa~a~v~li~~Y~~~vl~~~k 384 (436)
T PRK11715 331 PVQYLLVGLALVLFYLLLLSLSEHIGFTLAYLIAALACVLLIGFYLSAVLRSWK 384 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence 445888888877777665432222 33678888888888876666554
No 38
>PRK12437 prolipoprotein diacylglyceryl transferase; Reviewed
Probab=24.02 E-value=4.3e+02 Score=22.12 Aligned_cols=82 Identities=21% Similarity=0.304 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhccC------C-ceeccchhHHHHHHHHHHHHhhhhhhhh-hHHHHHHHHHHHHHHHHHHh
Q 029382 19 RIGVIYLLSGFGGSVLSCLFIRN------S-ISVGASGALFGLLGAMLSELLTNWSLYT-NKAAALITLLVIIAINLAIG 90 (194)
Q Consensus 19 r~l~iyl~sGi~G~l~s~~~~~~------~-~~vGASGai~Gl~ga~l~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~~ 90 (194)
.+-+++.++-+.|.......... . ..+.....+.|++||-+.+.+.+|+.+. ++...+ .+
T Consensus 21 ~Ygl~~~lg~l~a~~~~~~~~~r~~~~~~~~~~l~~~~~l~gilGARl~~Vl~~~~~y~~~p~~i~---------~i--- 88 (269)
T PRK12437 21 WYGIIIGLGVLLGLWLATREGKRRGITKDTFSDLVLIAVPIAILGARIYYVLFEWDYYAQNPSQIF---------NI--- 88 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHhCHHHHH---------HH---
Confidence 34456666666665555433211 1 3556677788888998888888877653 333210 11
Q ss_pred hCCchhHHHHHHHHHHHHHHHHHHh
Q 029382 91 ILPHVDNFAHIGGFLTGFFLGFVLL 115 (194)
Q Consensus 91 ~~~~i~~~aHlgG~l~G~l~g~~l~ 115 (194)
...+ .+--||++.|++.+....
T Consensus 89 ~~GG---ls~~GGligg~l~~~~~~ 110 (269)
T PRK12437 89 WQGG---LAIHGGLIGAVLTGIIFA 110 (269)
T ss_pred hcCC---chHHHHHHHHHHHHHHHH
Confidence 1122 223488888887776665
No 39
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.62 E-value=91 Score=23.67 Aligned_cols=21 Identities=14% Similarity=0.301 Sum_probs=16.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHh
Q 029382 95 VDNFAHIGGFLTGFFLGFVLL 115 (194)
Q Consensus 95 i~~~aHlgG~l~G~l~g~~l~ 115 (194)
..|.+-+-|+++|+++|+++.
T Consensus 6 ~~W~~a~igLvvGi~IG~li~ 26 (138)
T COG3105 6 MTWEYALIGLVVGIIIGALIA 26 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456677778888888888775
No 40
>PRK10720 uracil transporter; Provisional
Probab=23.55 E-value=3.9e+02 Score=24.01 Aligned_cols=24 Identities=29% Similarity=0.364 Sum_probs=14.4
Q ss_pred cCCceeccchhHHHHHHHHHHHHh
Q 029382 40 RNSISVGASGALFGLLGAMLSELL 63 (194)
Q Consensus 40 ~~~~~vGASGai~Gl~ga~l~~~~ 63 (194)
|..+.-|+.=.+||++...-...+
T Consensus 329 P~pVlgg~~i~~fg~i~~~Gi~~l 352 (428)
T PRK10720 329 PLPVMGGVSLLLYGVIGASGIRVL 352 (428)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666677777776654444
No 41
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=22.77 E-value=59 Score=24.11 Aligned_cols=6 Identities=33% Similarity=0.944 Sum_probs=2.4
Q ss_pred HHHHHH
Q 029382 143 YVLWLV 148 (194)
Q Consensus 143 ~~~~~~ 148 (194)
|+++++
T Consensus 2 W~l~~i 7 (130)
T PF12273_consen 2 WVLFAI 7 (130)
T ss_pred eeeHHH
Confidence 344443
No 42
>PRK12768 CysZ-like protein; Reviewed
Probab=22.25 E-value=2.1e+02 Score=23.78 Aligned_cols=8 Identities=13% Similarity=0.530 Sum_probs=4.5
Q ss_pred HhhCCchh
Q 029382 89 IGILPHVD 96 (194)
Q Consensus 89 ~~~~~~i~ 96 (194)
+.+.|.++
T Consensus 144 L~fIP~v~ 151 (240)
T PRK12768 144 LLFVPGIN 151 (240)
T ss_pred HHHHHHHH
Confidence 34567763
No 43
>PF03348 Serinc: Serine incorporator (Serinc); InterPro: IPR005016 This is a family of proteins which display differential expression in various tumour and cell lines. The function of these proteins is unknown. ; GO: 0016020 membrane
Probab=22.24 E-value=4.7e+02 Score=23.71 Aligned_cols=29 Identities=21% Similarity=0.503 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHhhCCc---h---hHHHHHHHHHH
Q 029382 78 TLLVIIAINLAIGILPH---V---DNFAHIGGFLT 106 (194)
Q Consensus 78 ~~~~~~~~~~~~~~~~~---i---~~~aHlgG~l~ 106 (194)
++++++++....-+.|+ + .+.|++||+++
T Consensus 115 K~l~l~~l~v~~FfiP~~~f~~~~~~v~~~ga~~F 149 (429)
T PF03348_consen 115 KFLLLIGLIVGAFFIPNGSFINVYMYVARVGAFIF 149 (429)
T ss_pred HHHHHHHHHheeEEeCchHHHHHHHHHHHHHHHHH
Confidence 44454444433334665 2 34666666665
No 44
>cd02955 SSP411 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein, called SSP411, is specifically expressed in the testis in an age-dependent manner. The SSP411 mRNA is increased during spermiogenesis and is localized in round and elongated spermatids, suggesting a function in fertility regulation.
Probab=21.66 E-value=26 Score=25.99 Aligned_cols=11 Identities=45% Similarity=1.395 Sum_probs=9.0
Q ss_pred CCCCCcccccc
Q 029382 171 NDRCRWCHYMS 181 (194)
Q Consensus 171 ~~~C~~c~y~~ 181 (194)
.++|+||+.+.
T Consensus 24 a~WC~~Ck~me 34 (124)
T cd02955 24 YSTCHWCHVME 34 (124)
T ss_pred cCCCHhHHHHH
Confidence 46999999874
No 45
>KOG4491 consensus Predicted membrane protein [Function unknown]
Probab=21.64 E-value=3e+02 Score=23.27 Aligned_cols=20 Identities=35% Similarity=0.738 Sum_probs=17.0
Q ss_pred CchhHHHHHHHHHHHHHHHH
Q 029382 93 PHVDNFAHIGGFLTGFFLGF 112 (194)
Q Consensus 93 ~~i~~~aHlgG~l~G~l~g~ 112 (194)
..+|+.+-++|++.|+.+..
T Consensus 60 kSld~SGa~~G~lV~filtI 79 (323)
T KOG4491|consen 60 KSLDHSGALGGLLVGFILTI 79 (323)
T ss_pred cccccccchhHHHHHHHHHH
Confidence 46899999999999998655
No 46
>PF03264 Cytochrom_NNT: NapC/NirT cytochrome c family, N-terminal region; InterPro: IPR005126 Within the NapC/NirT family of cytochrome c proteins, some members, such as NapC P33932 from SWISSPROT and NirT P24038 from SWISSPROT, bind four haem groups, while others, such as TorC P33226 from SWISSPROT, bind five haems. This family aligns the common N-terminal region that contains four haem-binding C-X(2)-CH motifs.; PDB: 2VR0_F 2J7A_C.
Probab=21.46 E-value=22 Score=27.72 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=9.6
Q ss_pred CCCCCCCCccccc
Q 029382 168 ENGNDRCRWCHYM 180 (194)
Q Consensus 168 ~~~~~~C~~c~y~ 180 (194)
.+.++.|.-|+-+
T Consensus 32 t~~~~fC~sCH~m 44 (173)
T PF03264_consen 32 TSTPEFCASCHEM 44 (173)
T ss_dssp TTSHHHHTTSGGG
T ss_pred cCCcHHHHhhcCC
Confidence 3456799999865
No 47
>PF04018 DUF368: Domain of unknown function (DUF368); InterPro: IPR007163 This is a predicted transmembrane family of unknown function. Proteins usually have between 6 and 9 predicted transmembrane segments.
Probab=21.32 E-value=5e+02 Score=21.85 Aligned_cols=20 Identities=20% Similarity=0.300 Sum_probs=13.2
Q ss_pred hHHHHHHHHHHHHHHHHHHh
Q 029382 96 DNFAHIGGFLTGFFLGFVLL 115 (194)
Q Consensus 96 ~~~aHlgG~l~G~l~g~~l~ 115 (194)
++....-.+-.|++++-...
T Consensus 81 ~yp~~t~~fF~GLIlgSip~ 100 (257)
T PF04018_consen 81 NYPIPTYSFFFGLILGSIPF 100 (257)
T ss_pred hCHHHHHHHHHHHHHHHHHH
Confidence 33566777777777776544
No 48
>PF06912 DUF1275: Protein of unknown function (DUF1275); InterPro: IPR010699 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown although a few members are thought to be membrane proteins.
Probab=21.22 E-value=2.7e+02 Score=21.93 Aligned_cols=18 Identities=28% Similarity=0.414 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029382 97 NFAHIGGFLTGFFLGFVL 114 (194)
Q Consensus 97 ~~aHlgG~l~G~l~g~~l 114 (194)
...=+.+|+.|...+..+
T Consensus 52 ~~~~i~~F~~G~~~~~~i 69 (209)
T PF06912_consen 52 YLLAILSFILGAFLAGLI 69 (209)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 355567777777777666
No 49
>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=21.03 E-value=1.1e+02 Score=20.32 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHhhccC
Q 029382 22 VIYLLSGFGGSVLSCLFIRN 41 (194)
Q Consensus 22 ~iyl~sGi~G~l~s~~~~~~ 41 (194)
.=++++++.|.++..++.|.
T Consensus 3 ~g~l~Ga~~Ga~~glL~aP~ 22 (74)
T PF12732_consen 3 LGFLAGAAAGAAAGLLFAPK 22 (74)
T ss_pred HHHHHHHHHHHHHHHHhCCC
Confidence 33455556666666665553
No 50
>TIGR00341 conserved hypothetical protein TIGR00341. This conserved hypothetical protein is found so far only in three archaeal genomes and in Streptomyces coelicolor. It shares a hydrophobic uncharacterized domain (see model TIGR00271) of about 180 residues with several eubacterial proteins, including the much longer protein sll1151 of Synechocystis PCC6803.
Probab=21.00 E-value=3e+02 Score=24.06 Aligned_cols=25 Identities=16% Similarity=0.473 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCc
Q 029382 98 FAHIGGFLTGFFLGFVLLPRPRYGW 122 (194)
Q Consensus 98 ~aHlgG~l~G~l~g~~l~~~~~~~~ 122 (194)
..++.|...+-...+.+...++.+|
T Consensus 270 ~~Nl~~I~la~~~vf~~~g~~p~~~ 294 (325)
T TIGR00341 270 LINVAGLMAGSLAGVYVYGIRAYRY 294 (325)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcchh
Confidence 5566777766666665554333334
No 51
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=20.75 E-value=3.5e+02 Score=21.57 Aligned_cols=10 Identities=10% Similarity=0.185 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 029382 102 GGFLTGFFLG 111 (194)
Q Consensus 102 gG~l~G~l~g 111 (194)
.+.+.|+++.
T Consensus 119 ~~i~~G~~~~ 128 (206)
T PF06570_consen 119 VSIVGGLVFY 128 (206)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 52
>PRK11715 inner membrane protein; Provisional
Probab=20.25 E-value=6.7e+02 Score=22.90 Aligned_cols=17 Identities=12% Similarity=0.360 Sum_probs=10.0
Q ss_pred hHHHHHHHHHHHHHHHH
Q 029382 17 FVRIGVIYLLSGFGGSV 33 (194)
Q Consensus 17 ~~r~l~iyl~sGi~G~l 33 (194)
..++.++|+.--..+-.
T Consensus 303 A~KYgiLFI~LTF~~fF 319 (436)
T PRK11715 303 AVKYAILFIALTFAAFF 319 (436)
T ss_pred HHhHHHHHHHHHHHHHH
Confidence 45667777665555443
No 53
>PF02652 Lactate_perm: L-lactate permease; InterPro: IPR003804 L-lactate permease is an integral membrane protein probably involved in L-lactate transport.; GO: 0015129 lactate transmembrane transporter activity, 0015727 lactate transport
Probab=20.11 E-value=7.2e+02 Score=23.20 Aligned_cols=11 Identities=27% Similarity=0.081 Sum_probs=5.9
Q ss_pred HHHhHHHHHhh
Q 029382 5 VFIGIRLEQQF 15 (194)
Q Consensus 5 ~~~G~~lE~~~ 15 (194)
+.||..+|-.-
T Consensus 108 ~~Fg~flEgaa 118 (522)
T PF02652_consen 108 FGFGAFLEGAA 118 (522)
T ss_pred HHHHHHHHhhh
Confidence 44555566553
Done!