Query 021779
Match_columns 307
No_of_seqs 254 out of 1362
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 05:36:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021779.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021779hhsearch_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 2E-64 4.4E-69 452.9 14.6 293 10-302 20-322 (326)
2 PF08551 DUF1751: Eukaryotic i 99.9 1.3E-24 2.8E-29 170.4 5.2 99 46-144 1-99 (99)
3 PTZ00101 rhomboid-1 protease; 99.9 4.3E-21 9.4E-26 176.0 14.8 178 12-203 50-241 (278)
4 COG0705 Membrane associated se 99.8 3.5E-20 7.6E-25 166.3 16.0 189 4-203 4-212 (228)
5 PRK10907 intramembrane serine 99.8 2.8E-19 6.2E-24 164.2 16.7 170 14-202 93-270 (276)
6 PF01694 Rhomboid: Rhomboid fa 99.7 2E-17 4.3E-22 137.4 6.8 140 51-204 4-144 (145)
7 KOG2632 Rhomboid family protei 99.6 8.5E-15 1.8E-19 131.0 15.1 182 8-198 8-194 (258)
8 KOG2289 Rhomboid family protei 99.4 9.8E-14 2.1E-18 128.8 1.7 81 51-143 117-197 (316)
9 PF04511 DER1: Der1-like famil 99.2 2.9E-10 6.2E-15 100.1 15.0 175 14-204 1-184 (197)
10 KOG0858 Predicted membrane pro 99.0 1.5E-08 3.3E-13 89.9 13.9 172 10-204 8-189 (239)
11 KOG2290 Rhomboid family protei 98.8 3.6E-09 7.7E-14 100.9 3.8 129 51-196 449-579 (652)
12 KOG2980 Integral membrane prot 98.7 3.1E-08 6.7E-13 90.7 5.5 142 9-159 109-257 (310)
13 COG5291 Predicted membrane pro 97.9 9.7E-05 2.1E-09 66.0 10.9 145 8-171 13-171 (313)
14 KOG4463 Uncharacterized conser 97.6 4.1E-05 8.8E-10 69.0 3.6 129 15-150 11-142 (323)
15 PF09527 ATPase_gene1: Putativ 59.0 52 0.0011 22.3 6.2 40 67-106 8-48 (55)
16 PF14851 FAM176: FAM176 family 54.4 38 0.00083 28.6 5.8 21 86-106 15-35 (153)
17 PF06946 Phage_holin_5: Phage 48.3 1.2E+02 0.0027 23.4 7.1 21 155-175 30-50 (93)
18 PRK10862 SoxR reducing system 47.8 45 0.00097 28.1 5.3 19 185-203 109-127 (154)
19 PF03082 MAGSP: Male accessory 46.7 17 0.00037 32.3 2.5 27 263-289 107-137 (264)
20 COG3931 Predicted N-formylglut 45.5 32 0.00069 31.2 4.1 36 242-278 86-122 (263)
21 PF04528 Adeno_E4_34: Adenovir 43.5 16 0.00034 30.7 1.8 17 267-283 125-141 (148)
22 TIGR03759 conj_TIGR03759 integ 41.3 24 0.00051 31.1 2.6 23 266-288 47-71 (200)
23 TIGR02230 ATPase_gene1 F0F1-AT 40.3 81 0.0018 24.7 5.2 40 67-106 50-90 (100)
24 PF04246 RseC_MucC: Positive r 33.5 77 0.0017 25.6 4.5 19 185-203 102-120 (135)
25 PF12344 UvrB: Ultra-violet re 29.0 32 0.00069 22.8 1.1 12 267-278 14-25 (44)
26 KOG4709 Uncharacterized conser 28.6 61 0.0013 28.4 3.1 19 268-286 59-86 (217)
27 PF12023 DUF3511: Domain of un 27.8 43 0.00094 22.4 1.6 13 266-278 4-16 (47)
28 COG1377 FlhB Flagellar biosynt 27.3 56 0.0012 31.6 2.9 23 266-288 237-259 (363)
29 KOG4544 Uncharacterized conser 25.6 54 0.0012 27.1 2.1 15 271-285 37-51 (144)
30 PF11471 Sugarporin_N: Maltopo 24.5 49 0.0011 23.3 1.5 13 278-290 34-46 (60)
31 PF00690 Cation_ATPase_N: Cati 24.0 38 0.00083 23.9 0.9 13 263-275 19-31 (69)
32 PF04795 PAPA-1: PAPA-1-like c 23.4 65 0.0014 24.5 2.1 15 269-283 9-23 (89)
33 cd03211 GST_C_Metaxin2 GST_C f 23.0 75 0.0016 25.4 2.5 24 266-289 54-77 (126)
34 PF12794 MscS_TM: Mechanosensi 22.6 76 0.0017 30.2 2.9 19 186-204 164-182 (340)
35 PRK10907 intramembrane serine 21.8 1.1E+02 0.0024 28.3 3.7 26 177-202 249-274 (276)
36 KOG3599 Ca2+-modulated nonsele 21.5 1E+03 0.023 25.6 12.3 60 77-148 579-638 (798)
37 PF11712 Vma12: Endoplasmic re 21.1 4.5E+02 0.0098 21.4 6.9 48 66-115 82-131 (142)
38 PF02654 CobS: Cobalamin-5-pho 20.2 5.1E+02 0.011 23.1 7.6 25 186-211 194-218 (235)
No 1
>KOG2890 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=2e-64 Score=452.89 Aligned_cols=293 Identities=40% Similarity=0.629 Sum_probs=257.8
Q ss_pred CcCCchHHHHHHHHHHHHHHHHHhhh----hhhhcceeeecCccccccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhh
Q 021779 10 LFTGFTKLCKGLAVVLVGGHILVQLL----PASVSVLALIPARTIPFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEP 85 (307)
Q Consensus 10 ~~~~~~~~t~~li~~~~~v~~l~~~~----~~~~~~l~l~P~~~~~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~ 85 (307)
+..+...+++.||++...+|+++..- ....+.+++.|++.+.+|||++|++|+|.|.|.+++|.++|.+.|+.+|+
T Consensus 20 ~l~n~~vvvs~ic~~tlf~yi~sf~~~t~~l~~~p~y~lvp~~~~~~~WtliTs~fie~~vw~V~~sv~~L~v~G~~lEp 99 (326)
T KOG2890|consen 20 LLLNLEVVVSAICVLTLFGYILSFGNFTILLATLPGYQLVPNALFFFPWTLITSGFIELNVWDVLVSVLTLSVGGKFLEP 99 (326)
T ss_pred HhhhchhHHHHHHHHHHHHHHHHHHHhHHHHHhccccccCCcchhhhhHHHHhcchhhhhHHHHHHHHHheeecceeecc
Confidence 34456678889999999999998652 23568899999999999999999999999999999999999999999999
Q ss_pred hhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEE---eccccchHH
Q 021779 86 VWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAKWLP 162 (307)
Q Consensus 86 ~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l---~~ir~k~lp 162 (307)
.||+.|+++||.+++...+++..+.+++.|+++.|..+++.+++|+.|+++|++||++|++||+.+.. .++..|++|
T Consensus 100 ~Wg~~e~lkff~ivn~~~~l~v~v~~~l~Y~it~n~v~L~~~i~G~~gilaGilVa~kQllpd~~il~~~~~r~~~~~lP 179 (326)
T KOG2890|consen 100 NWGSLELLKFFAIVNGSTTLVVLVPALLLYMITDNHVYLYIPIHGTTGILAGILVAWKQLLPDTIILELKSGRFLYAHLP 179 (326)
T ss_pred CCCCHHHHHHHHHhhchhHHHHHHHHHHHHHHhcCceEEEEEeccchHHHHHHHHHHHHHcCceeEEeccchhhhhhhCC
Confidence 99999999999999999999999999999999999889988999999999999999999999998875 566677899
Q ss_pred HHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHHHhhcCCCCCccCCCCCCcccccccccccccccccccccceeeee
Q 021779 163 SLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKPETKLSGDPSDDFAFSSFFPEFIRPVIDPIASIFHRMLC 242 (307)
Q Consensus 163 ~~~l~~~~~~~~~~~~~~~~~~~~l~G~~~gw~Ylrf~q~~~~~~~~GD~s~~F~f~~fFP~~~~~~~~~i~~~~~~~~c 242 (307)
++.+.++++.++......+.++....|.++||.|+||||+||++..|||+||+|+|++|||+.+||.+++++|.+|+++|
T Consensus 180 ~~~l~~~~il~i~~f~~f~~l~s~~~g~~~sWtYLRfyq~h~~~~~rGD~Sd~F~fvsFFP~v~qp~~~li~n~~~~~l~ 259 (326)
T KOG2890|consen 180 LLVLFLSLILSIITFLVFASLPSITFGVLVSWTYLRFYQRHPTDELRGDCSDSFTFVSFFPEVLQPFFHLIANTIYRILV 259 (326)
T ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHHhhhhhhhhheecccCCcccccCCchhceehhhhchhhhhHHHHHHHHHHHHHHH
Confidence 99998888888776555666777899999999999999999988899999999999999999999999999999999995
Q ss_pred cCcC--CccCC-CCCCccCCCCCCCCCchhhhHHHHHHHHHHHHHHhhchhhhhccccccccc
Q 021779 243 GRRT--ETSGD-DHGYTLGGASLPGSDPIEASRRRERGARALEERLATEKLAAAQSVEESKKD 302 (307)
Q Consensus 243 ~~~~--~~~~~-~~~~~~~~~~lpg~~~~eaeRRR~~AlkaL~eRl~~~~~~~~~~~~~~~~~ 302 (307)
++.. ++..| +.+.+..++++||.|++|||||||+|||||||||++..++++++.++.+++
T Consensus 260 ~~~~~~~~~~d~~~~~~s~~~~lpg~d~~d~eRRRQ~alkaL~eRl~~~~~~p~~~~~~~~~~ 322 (326)
T KOG2890|consen 260 RMGVVKKPHVDIDLDSGSVGANLPGLDPKDAERRRQLALKALEERLKKTRTAPVASYDEWDDG 322 (326)
T ss_pred HhccccccceecccCcccccccCCCCChhHHHHHHHHHHHHHHHHhcCcccCccccccchhhc
Confidence 5432 11112 234455568999999999999999999999999999999988777766643
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=99.90 E-value=1.3e-24 Score=170.38 Aligned_cols=99 Identities=53% Similarity=1.045 Sum_probs=95.9
Q ss_pred cCccccccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccc
Q 021779 46 PARTIPFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLY 125 (307)
Q Consensus 46 P~~~~~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~ 125 (307)
|++.+++|||++|+.|+|.|++.+++|.+.+++.||++||.||++|+++|++++++++|++.++.+++.|.+++++.+++
T Consensus 1 P~~~~~~pWtl~T~~fve~~i~~~l~~~~~l~~~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~~~~~y~i~~~~~~l~ 80 (99)
T PF08551_consen 1 PGRSFPYPWTLFTAGFVETNIIGLLFSLLTLFYGGRYLEPIWGSREFLKFILVVNVITNLLTFLLYLLLYAITGNESYLF 80 (99)
T ss_pred CCceeeehHHHHHHHHHHhHHHHHHHHHHHHHHhhHHHHHhcChHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCceeE
Confidence 78888999999999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred ccccchHHHHHHHHHHHHH
Q 021779 126 MPLSGFQGVLAGFLVGIKQ 144 (307)
Q Consensus 126 ~~~~G~sg~i~gllva~~q 144 (307)
.+++|.+|+++|++||+||
T Consensus 81 ~~i~G~~~~~~g~lVa~kQ 99 (99)
T PF08551_consen 81 VPISGFMGVLAGFLVAFKQ 99 (99)
T ss_pred EEecCcHHhHhheEEEEeC
Confidence 8999999999999999997
No 3
>PTZ00101 rhomboid-1 protease; Provisional
Probab=99.86 E-value=4.3e-21 Score=176.00 Aligned_cols=178 Identities=12% Similarity=0.082 Sum_probs=124.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHhhhh-------h--hhcce-eeecCccc-cccchhhhhhhccCCHHHHHHHHHHHHHHh
Q 021779 12 TGFTKLCKGLAVVLVGGHILVQLLP-------A--SVSVL-ALIPARTI-PFAWNLLTAGYIEQTVHGVVVSTLGLLFMG 80 (307)
Q Consensus 12 ~~~~~~t~~li~~~~~v~~l~~~~~-------~--~~~~l-~l~P~~~~-~~~W~l~T~~F~h~~~~hll~n~l~L~~~G 80 (307)
..++++++.|+++++++|+++.... + ....+ ++.|.... +|+||++|++|+|.+++|+++||++++.+|
T Consensus 50 f~i~~l~~~Iiii~iivfil~l~~~~~~~l~p~~~~L~~~Ga~~~~~i~~gq~WRLiT~~FlH~~~~HLl~Nm~~l~~~G 129 (278)
T PTZ00101 50 FTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVTLGANVASRIKQGEIHRLILPIFLHANIFHTFFNVFFQLRMG 129 (278)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHhCcchhhhhcCCCHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 4678899999999999999986532 1 22223 44554443 799999999999999999999999999999
Q ss_pred HhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEEeccccch
Q 021779 81 KLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYLLKIKAKW 160 (307)
Q Consensus 81 ~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l~~ir~k~ 160 (307)
..+|+.||+++|+..|+++|+++|+++.+. ... ....|+||+++|++.++....-..... .+.|.+.
T Consensus 130 ~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~-------~~~-----~~svGASgAifGLiGa~~~~lil~w~~-~~~~~~~ 196 (278)
T PTZ00101 130 FTLEKNYGIVKIIILYFLTGIYGNILSSSV-------TYC-----PIKVGASTSGMGLLGIVTSELILLWHV-IRHRERV 196 (278)
T ss_pred HHHHHHHChHHHHHHHHHHHHHHHHHHHHH-------ccC-----CcEEehhHHHHHHHHHHHHHHHHHHHh-hccHHHH
Confidence 999999999999999999999999986431 111 246899999999998875321000000 1222233
Q ss_pred HHHH--HHHHHHHHHhh-cCCchhHHHHHHHHHHHHHHHHHHhhcC
Q 021779 161 LPSL--MLLLSIAISFF-TAESAAYLPTLIFGTYMGWIYLRYLQKK 203 (307)
Q Consensus 161 lp~~--~l~~~~~~~~~-~~~~~~~~~~~l~G~~~gw~Ylrf~q~~ 203 (307)
+..+ +.++.+.+.+. ..+++++.+ |++|++.|++....+.++
T Consensus 197 ~~~~i~~~li~~~l~~~~~g~~Id~~a-HlGG~i~G~llg~~~~~~ 241 (278)
T PTZ00101 197 VFNIIFFSLISFFYYFTFNGSNIDHVG-HLGGLLSGISMGILYNSQ 241 (278)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCccHHH-HHHHHHHHHHHHHHHHhh
Confidence 2211 11122221111 234566665 999999999887777764
No 4
>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]
Probab=99.84 E-value=3.5e-20 Score=166.28 Aligned_cols=189 Identities=21% Similarity=0.244 Sum_probs=137.3
Q ss_pred CCCCCCCcCCc--hHHHHHHHHHHHHHHHHHhhhhhh--------hcceeeecCccc---c--ccchhhhhhhccCCHHH
Q 021779 4 PAGGSLLFTGF--TKLCKGLAVVLVGGHILVQLLPAS--------VSVLALIPARTI---P--FAWNLLTAGYIEQTVHG 68 (307)
Q Consensus 4 ~~~~~~~~~~~--~~~t~~li~~~~~v~~l~~~~~~~--------~~~l~l~P~~~~---~--~~W~l~T~~F~h~~~~h 68 (307)
|...+++.... ++.+..++.+++++|+...+.+.. .....+.|.... . ++||++|++|+|.|++|
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lit~~FlH~~~~H 83 (228)
T COG0705 4 PRRDRNPWRLIRAPPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLHAGFLH 83 (228)
T ss_pred CccccchHHhcccchHHHHHHHHHHHHHHHHHHccchHHHHHHHhhhHHhhcchhhhccccccchHHHHHHHHHHhhHHH
Confidence 33334444444 889999999999999998765321 122556664443 1 89999999999999999
Q ss_pred HHHHHHHHHHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccC
Q 021779 69 VVVSTLGLLFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPD 148 (307)
Q Consensus 69 ll~n~l~L~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~ 148 (307)
+++||+.++.+|+.+|+.+|+++|+.+|+++|+++++.+..+ .+.. ..+..|+||+++|++.++..+.|.
T Consensus 84 ll~N~~~l~~fg~~le~~~G~~~f~~~yl~~gl~~~~~~~~~-------~~~~---~~~~~GASG~i~gllga~~~~~~~ 153 (228)
T COG0705 84 LLFNMLALWVFGSNLERRLGTLRFLLFYLLSGLLAGLAQVLF-------GPKG---GAPSLGASGAIFGLLGAYFLLFPF 153 (228)
T ss_pred HHHHHHHHHHhhHHHHHHhchhHHHHHHHHHHHHHHHHHHHH-------cccc---cCcccchhHHHHHHHHHHHHHccc
Confidence 999999999999999999999999999999999999985432 2221 147899999999999999999999
Q ss_pred CeEEEec--cccch--HHHHHHHHHHHHHhhcCC-chhHHHHHHHHHHHHHHHHHHhhcC
Q 021779 149 QELYLLK--IKAKW--LPSLMLLLSIAISFFTAE-SAAYLPTLIFGTYMGWIYLRYLQKK 203 (307)
Q Consensus 149 ~~v~l~~--ir~k~--lp~~~l~~~~~~~~~~~~-~~~~~~~~l~G~~~gw~Ylrf~q~~ 203 (307)
....... +.... +..+.++.+++....... ++++.+ |++|++.|++|...+.+.
T Consensus 154 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~va~~a-Hl~G~i~G~l~~~~~~~~ 212 (228)
T COG0705 154 ARILLLFLSLPRPALILILIWLLYSLFSGAGSFGPSVAWSA-HLGGLIGGLLLAALLSRK 212 (228)
T ss_pred cchhhhhccCchhHHHHHHHHHHHHHHHHhcCCchHHHHHH-HHHHHHHHHHHHHHHhhh
Confidence 7765422 22222 222233333333222211 455665 999999999998877764
No 5
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=99.82 E-value=2.8e-19 Score=164.21 Aligned_cols=170 Identities=18% Similarity=0.202 Sum_probs=116.6
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhh--hhcceeeecCc-cccccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChH
Q 021779 14 FTKLCKGLAVVLVGGHILVQLLPA--SVSVLALIPAR-TIPFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSK 90 (307)
Q Consensus 14 ~~~~t~~li~~~~~v~~l~~~~~~--~~~~l~l~P~~-~~~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~ 90 (307)
..|+|..++++++++|++..+... ...++...... ..+|+||++|++|+|.++.|+++||+++|++|+.+|+.+|++
T Consensus 93 ~~p~T~~li~i~i~vf~l~~~~~~~~~~~~l~~~~~~~~~~q~WRl~T~~flH~~~~Hl~fNml~l~~lG~~iE~~~G~~ 172 (276)
T PRK10907 93 AGPLTLGVMIACVVVFILMQILGDQTVMLWLAWPFDPSLKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGSG 172 (276)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhccHHHHHHHhccccccccCCcHHHHhHHHHhCCHHHHHHHHHHHHHHHHHHHHHHChH
Confidence 557899999999999999865422 33344332111 236999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHH---HccCCeEEEeccccchHHHHHHH
Q 021779 91 EFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQ---IVPDQELYLLKIKAKWLPSLMLL 167 (307)
Q Consensus 91 efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~q---l~P~~~v~l~~ir~k~lp~~~l~ 167 (307)
+++.+|+++++++|+.+.. +.+ ....|+||+++|+++.... ..|+..+. ++... +.+++
T Consensus 173 ~~l~l~l~s~i~~~~~~~~-------~~~------~~~gGaSGvVygL~g~~~~~~~~~p~~~~~---lp~~~--~~f~l 234 (276)
T PRK10907 173 KLIVITLISALLSGWVQSK-------FSG------PWFGGLSGVVYALMGYVWLRGERDPQSGIY---LPRGL--IAFAL 234 (276)
T ss_pred HHHHHHHHHHHHHHHHHHH-------Hcc------chhhHHHHHHHHHHHHHHHHhccccccchh---hhHHH--HHHHH
Confidence 9999999999999998643 122 1357999999999875432 22332211 11111 12222
Q ss_pred HHHHHHhh--cCCchhHHHHHHHHHHHHHHHHHHhhc
Q 021779 168 LSIAISFF--TAESAAYLPTLIFGTYMGWIYLRYLQK 202 (307)
Q Consensus 168 ~~~~~~~~--~~~~~~~~~~~l~G~~~gw~Ylrf~q~ 202 (307)
+.++.++. ...++++.+ |++|+++|.+..-...+
T Consensus 235 lwl~~g~~~~~g~~Ian~A-HlgGli~Gll~g~~~~~ 270 (276)
T PRK10907 235 LWLVAGYFDLFGMSIANAA-HVAGLAVGLAMAFWDTR 270 (276)
T ss_pred HHHHHHHHHccCcccHHHH-HHHHHHHHHHHHHHhhh
Confidence 22222222 124566665 99999888886555444
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=99.70 E-value=2e-17 Score=137.45 Aligned_cols=140 Identities=23% Similarity=0.413 Sum_probs=98.6
Q ss_pred cccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccc
Q 021779 51 PFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSG 130 (307)
Q Consensus 51 ~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G 130 (307)
+|+||++|+.|+|.|+.|+++|++.++.+|..+|+.+|++++...|+.+++.+++...+. .... .+..|
T Consensus 4 ~~~wrl~T~~f~h~~~~hl~~n~~~l~~~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~~-------~~~~----~~~~G 72 (145)
T PF01694_consen 4 GQWWRLFTSPFVHANFLHLLFNLLALWFFGSLLERRLGSRRFLALYLLSGLLGSLLSLLF-------SPPN----QPYVG 72 (145)
T ss_dssp C-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------H-S---------S
T ss_pred CcchhhhHHHHHccCHHHHHHHHHHHHHhhhhHhhhccchHHHHHHHHHHHhhhhccccc-------cccc----cccCC
Confidence 589999999999999999999999999999999999999999999999999998875432 1111 15789
Q ss_pred hHHHHHHHHHHHHHHccCCeEEE-eccccchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHHHhhcCC
Q 021779 131 FQGVLAGFLVGIKQIVPDQELYL-LKIKAKWLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKP 204 (307)
Q Consensus 131 ~sg~i~gllva~~ql~P~~~v~l-~~ir~k~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~~~gw~Ylrf~q~~~ 204 (307)
+||+++|++.++....|+.+... .+.+....+...+.+..... ...+.++.+ |++|+++|+.|...+.|+|
T Consensus 73 ~Sg~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~-hl~G~~~G~~~~~~~~~~~ 144 (145)
T PF01694_consen 73 ASGAVFGLLGAFLFLYPQNKKRLRFIYLALVVPIIVLVIILLLG--FIPNISFLG-HLGGFLAGLLYGFLILRRP 144 (145)
T ss_dssp SHHHHHHHHHHHHHHHHCCCCCS---HCCCCCCCCCCCHHHCTS--SSSTTTHHH-HHHHHHHHHHHHHHHCH--
T ss_pred CcccchHHHHHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHH--HHHhHHHHH-HHHHHHHHHHHHHHHHHcc
Confidence 99999999999999888875332 11222222222222222211 134555665 9999999999988888764
No 7
>KOG2632 consensus Rhomboid family proteins [Function unknown]
Probab=99.63 E-value=8.5e-15 Score=131.01 Aligned_cols=182 Identities=17% Similarity=0.257 Sum_probs=139.7
Q ss_pred CCCcCCchHHHHHHHHHHHHHHHHHhhhhhhhcceeeecCccc-cccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhh
Q 021779 8 SLLFTGFTKLCKGLAVVLVGGHILVQLLPASVSVLALIPARTI-PFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPV 86 (307)
Q Consensus 8 ~~~~~~~~~~t~~li~~~~~v~~l~~~~~~~~~~l~l~P~~~~-~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~ 86 (307)
..+....|.+|..+..+...+|+++.. +.+.+.+.+-++... .|.||++||.++|.|..|+++||+.||..|...|+.
T Consensus 8 ~~~~~~~p~~ts~~~~~~~~i~lv~~~-~~i~~~~~l~~~~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~ 86 (258)
T KOG2632|consen 8 GQFWMKIPLLTSIVVVLAILIYLVSFF-PGIVEVLGLPSELLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERT 86 (258)
T ss_pred ccccccchHHHHHHHHHHHHHHHHhcc-chhhhHhcCCHHHhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhh
Confidence 345567788899888888899988864 555555555555444 599999999999999999999999999999999999
Q ss_pred hC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEE---eccccchHH
Q 021779 87 WG-SKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAKWLP 162 (307)
Q Consensus 87 wG-s~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l---~~ir~k~lp 162 (307)
.| +-+++.|..+.++.++++..+.+- .....+.......+|.||.++++++.-.-..|+....+ ..++.+..|
T Consensus 87 ~G~t~~~l~~~~llalf~gIl~ll~~~---~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~sp~r~~~~fg~~siP~~l~P 163 (258)
T KOG2632|consen 87 HGTTVRILMFTVLLALFSGILYLLAYH---VFLLSDLVYVEGAIGFSGVLFAMMAVLEVQSPVRSRSVFGLFSIPIVLAP 163 (258)
T ss_pred ccceehHHHHHHHHHHHHHHHHHHHHH---HHhhcchhhhcccccccHHHHHHHHHHhhcCcccchhhcccccccHHHHH
Confidence 99 788888888888888887554331 12223233334689999999999999887788877432 678999999
Q ss_pred HHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHH
Q 021779 163 SLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLR 198 (307)
Q Consensus 163 ~~~l~~~~~~~~~~~~~~~~~~~~l~G~~~gw~Ylr 198 (307)
++++....+ . .++.+.+ +|++|+++|+.|..
T Consensus 164 w~lLi~~~~---l-vp~aSFl-ghl~GllvG~ay~~ 194 (258)
T KOG2632|consen 164 WALLIATQI---L-VPQASFL-GHLCGLLVGYAYAF 194 (258)
T ss_pred HHHHHHHHH---H-ccCchHH-HHHHHHHHHHHHHH
Confidence 988754322 2 2555566 49999999999876
No 8
>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=99.38 E-value=9.8e-14 Score=128.78 Aligned_cols=81 Identities=21% Similarity=0.182 Sum_probs=72.7
Q ss_pred cccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccc
Q 021779 51 PFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSG 130 (307)
Q Consensus 51 ~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G 130 (307)
.|.||++|++|+|.+++|+.+||+.+.++|-.+|...|..|+...|+++++.+++++.++ ..+ .+.+|
T Consensus 117 ~E~WRllTym~LHaGi~HL~~N~~~ql~iGi~LE~~~G~~RiglIYl~gg~aGSlls~l~-------d~~-----~~sVG 184 (316)
T KOG2289|consen 117 GELWRLLTYMWLHAGIFHLLLNMLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLF-------DPN-----SISVG 184 (316)
T ss_pred chhHHHHHHHHHhcCHHHHHHHHHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHh-------ccC-----Cceec
Confidence 589999999999999999999999999999999999999999999999999999987542 212 35799
Q ss_pred hHHHHHHHHHHHH
Q 021779 131 FQGVLAGFLVGIK 143 (307)
Q Consensus 131 ~sg~i~gllva~~ 143 (307)
+||+++|++.|.-
T Consensus 185 ASggvfaLlgA~L 197 (316)
T KOG2289|consen 185 ASGGVFALLGAHL 197 (316)
T ss_pred ccHHHHHHHHHHH
Confidence 9999999998874
No 9
>PF04511 DER1: Der1-like family; InterPro: IPR007599 The endoplasmic reticulum (ER) of the yeast Saccharomyces cerevisiae (Baker's yeast) contains a proteolytic system able to selectively degrade misfolded lumenal secretory proteins. For examination of the components involved in this degradation process, mutants were isolated. They could be divided into four complementation groups. The mutations led to stabilisation of two different substrates for this process, and the classes were called der for degradation in the ER. DER1 was cloned by complementation of the der1-2 mutation. The DER1 gene codes for a novel, hydrophobic protein that is localized to the ER. Deletion of DER1 abolished degradation of the substrate proteins, suggesting that the function of the Der1 protein may be specifically required for the degradation process associated with the ER []. Interestingly this family seems distantly related to the Rhomboid family of membrane peptidases. This family may also mediate degradation of misfolded proteins.
Probab=99.23 E-value=2.9e-10 Score=100.10 Aligned_cols=175 Identities=17% Similarity=0.184 Sum_probs=122.1
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhhhcceeeecCccc--cccchhhhhhhccC-CHHHHHHHHHHHHHHhHhHhhh-hCh
Q 021779 14 FTKLCKGLAVVLVGGHILVQLLPASVSVLALIPARTI--PFAWNLLTAGYIEQ-TVHGVVVSTLGLLFMGKLLEPV-WGS 89 (307)
Q Consensus 14 ~~~~t~~li~~~~~v~~l~~~~~~~~~~l~l~P~~~~--~~~W~l~T~~F~h~-~~~hll~n~l~L~~~G~~lE~~-wGs 89 (307)
+||+|+.+++..++..++..+----...+.++|.... .|+||++|+.|.-. .-++.++|+..++..++.+|+. ++.
T Consensus 1 iPpVTR~~~~~~~~~s~l~~~~~~~~~~l~~~~~~v~~~~q~WRl~Tsff~~g~~~~~~l~~~~~l~~~s~~LE~~~f~~ 80 (197)
T PF04511_consen 1 IPPVTRYWLISTVALSLLVSFGIISPYYLYFDWELVFKKFQIWRLFTSFFYFGPFSLNFLFNLYFLYQYSSSLEEGHFQG 80 (197)
T ss_pred CChhHHHHHHHHHHHHHHHHCCCCCHHHeeECcHHHhhhcCceeeEEEEEEEcCCCHHHHHHHHHHHHHhhHhccCCCCC
Confidence 4899999999999888887642111224567777665 59999999999843 3478999999999999999998 333
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEE---eccccchHHHH
Q 021779 90 --KEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAKWLPSL 164 (307)
Q Consensus 90 --~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l---~~ir~k~lp~~ 164 (307)
.+|+.+.+++++...+++.+ .+...-+ .+..| .+....+.-.+++..|+.++.+ +++|++++|++
T Consensus 81 ~~ady~~~ll~~~~~i~~~~~~----~~~~~~~-----~~~l~-~~l~~~l~Y~wsr~np~~~v~~~g~~~i~a~ylP~~ 150 (197)
T PF04511_consen 81 RSADYLWFLLFGASLILILSLL----IGPYFFN-----IPFLG-SSLSFALTYIWSRKNPNAQVSFFGLFTIKAKYLPWV 150 (197)
T ss_pred CHHHHHHHHHHHHHHHHHHHHh----hccchhH-----HHHHH-HHHHHHHHHHHHHhCcccceeeEEEEEEChhhHHHH
Confidence 57888887665554444321 1100001 11223 5577888888999999999875 79999999999
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHHHhhcCC
Q 021779 165 MLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKP 204 (307)
Q Consensus 165 ~l~~~~~~~~~~~~~~~~~~~~l~G~~~gw~Ylrf~q~~~ 204 (307)
.++++.+. + +. +.. .++.|+++|.+|.-+-..-|
T Consensus 151 ~~~~~~l~---~-~~-~~~-~~l~Gi~~Ghly~fl~~~~p 184 (197)
T PF04511_consen 151 LLAFSLLF---G-GS-SPI-PDLLGILVGHLYYFLKDIYP 184 (197)
T ss_pred HHHHHHHh---C-CC-cHH-HHHHHHHHHHHHHHHHHhcc
Confidence 88776653 2 21 233 38999999999875433333
No 10
>KOG0858 consensus Predicted membrane protein [Function unknown]
Probab=98.97 E-value=1.5e-08 Score=89.87 Aligned_cols=172 Identities=20% Similarity=0.225 Sum_probs=126.4
Q ss_pred CcCCchHHHHHHHHHHHHHHHHHhhhhhhh-cceeeecCccc--cccchhhhhhhccCC-HHHHHHHHHHHHHHhHhHhh
Q 021779 10 LFTGFTKLCKGLAVVLVGGHILVQLLPASV-SVLALIPARTI--PFAWNLLTAGYIEQT-VHGVVVSTLGLLFMGKLLEP 85 (307)
Q Consensus 10 ~~~~~~~~t~~li~~~~~v~~l~~~~~~~~-~~l~l~P~~~~--~~~W~l~T~~F~h~~-~~hll~n~l~L~~~G~~lE~ 85 (307)
.+.++|++|.....+.++.-++.++ +-+- .++-++|..++ .|+||++|+.+.-.. =+|.++||++++--++.||+
T Consensus 8 ~~~~iPpVTR~~~~~~v~tt~~~~l-~lIsP~~l~~~p~Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY~~~LE~ 86 (239)
T KOG0858|consen 8 FYLQIPPVTRYYTTACVVTTLLVRL-DLISPFQLYLNPELVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRYSSMLEE 86 (239)
T ss_pred HHhcCChHHHHHHHHHHHHHHHHhh-cccCchheEecHHHHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHHHHHHhc
Confidence 5778999999999888888887764 2222 25677787766 599999999988765 68999999999999999998
Q ss_pred hhCh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEE---eccccc
Q 021779 86 VWGS---KEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAK 159 (307)
Q Consensus 86 ~wGs---~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l---~~ir~k 159 (307)
--=. ..|+..+++++++-.+..... +. ...| .+.++.++-.+++..|+.++.+ ++++++
T Consensus 87 g~f~~rtadf~~mllf~~~l~~~~~~~~----~~----------~fLg-~~l~~~l~YvWs~~Np~~~v~F~g~~~f~a~ 151 (239)
T KOG0858|consen 87 GSFRGRTADFLYMLLFGAVLLTLTGLFV----YI----------VFLG-QSLVFMLVYVWSKRNPDVIVSFFGLITFKAP 151 (239)
T ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHH----HH----------HHHH-HHHHHHHHHHHHhhCCCceEEEEEEecCccc
Confidence 6432 567777777766555433211 11 1122 4567788888999999999986 899999
Q ss_pred hHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHHHhhcCC
Q 021779 160 WLPSLMLLLSIAISFFTAESAAYLPTLIFGTYMGWIYLRYLQKKP 204 (307)
Q Consensus 160 ~lp~~~l~~~~~~~~~~~~~~~~~~~~l~G~~~gw~Ylrf~q~~~ 204 (307)
++|++.++++.+. ..+ . +. .+.|+++|-+|.-+=..+|
T Consensus 152 YlPwvll~fs~l~----g~~-~-~~-dllGi~~GHiy~fl~~~~p 189 (239)
T KOG0858|consen 152 YLPWVLLGFSFLF----GGS-I-LV-DLLGIIVGHIYYFLDDVYP 189 (239)
T ss_pred cchHHHHHHHHHh----CCc-h-HH-HHHhhhhheeEEEEeeecc
Confidence 9999998877643 223 2 33 6899999988765544443
No 11
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=98.79 E-value=3.6e-09 Score=100.95 Aligned_cols=129 Identities=16% Similarity=0.196 Sum_probs=88.6
Q ss_pred cccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccc
Q 021779 51 PFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSG 130 (307)
Q Consensus 51 ~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G 130 (307)
.|.+||+|+.|+|.++.|+++++.+-..+-+.+|+.-|++++...|+.+|+.+|+++.++ ..|.+-+|
T Consensus 449 dQfYRL~~SLFlHagviH~~vSi~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIF------------lpY~~eVg 516 (652)
T KOG2290|consen 449 DQFYRLWLSLFLHAGVIHLLVSICFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIF------------LPYRAEVG 516 (652)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcchhhheeeecccccccchheee------------eccccccC
Confidence 389999999999999999999999999999999999999999999999999999986431 01346789
Q ss_pred hHHHHHHHHHHHHH-HccCCeEEEeccccchHHHHHHHHHH-HHHhhcCCchhHHHHHHHHHHHHHHH
Q 021779 131 FQGVLAGFLVGIKQ-IVPDQELYLLKIKAKWLPSLMLLLSI-AISFFTAESAAYLPTLIFGTYMGWIY 196 (307)
Q Consensus 131 ~sg~i~gllva~~q-l~P~~~v~l~~ir~k~lp~~~l~~~~-~~~~~~~~~~~~~~~~l~G~~~gw~Y 196 (307)
.+|..+|++.+.-. +.-..++ +.-||-.+.-++..+ ++.+-..+.+..++ |++|++.|.+.
T Consensus 517 Pa~sQ~Gila~l~vEl~qs~~i----l~~~w~a~~~Lia~~L~L~iGliPWiDN~a-HlfG~i~GLl~ 579 (652)
T KOG2290|consen 517 PAGSQFGILACLFVELFQSWQI----LERPWRAFFHLIATLLVLCIGLIPWIDNWA-HLFGTIFGLLT 579 (652)
T ss_pred CcccccchHHHHHHHHHhhhHh----hhhHHHHHHHHHHHHHHHHhccccchhhHH-HHHHHHHHHHH
Confidence 99999998766532 2222222 112443333222221 12111124445555 77777766653
No 12
>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]
Probab=98.65 E-value=3.1e-08 Score=90.65 Aligned_cols=142 Identities=14% Similarity=0.132 Sum_probs=105.2
Q ss_pred CCcCCchHHHHHHHHHHHHHHHHHhhhhh---hhcceeeecCccccccchhhhhhhccCCHHHHHHHHHHHHHHhH-hHh
Q 021779 9 LLFTGFTKLCKGLAVVLVGGHILVQLLPA---SVSVLALIPARTIPFAWNLLTAGYIEQTVHGVVVSTLGLLFMGK-LLE 84 (307)
Q Consensus 9 ~~~~~~~~~t~~li~~~~~v~~l~~~~~~---~~~~l~l~P~~~~~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~-~lE 84 (307)
.+.+..+.++.+|+++|+.+|.++++... ..+|+...+.+..+ .|.++++.|.|.+.+|+-.||+.++.++. .+-
T Consensus 109 ~w~~~~~g~v~~ll~~n~~vf~lWrv~~~~~~~~~~mls~~~~~t~-~w~i~~s~Fsh~~a~h~g~~~~~~~~y~~~a~~ 187 (310)
T KOG2980|consen 109 HWISGANGVVFGLLIANAFVFTLWRVPQKQFTMIPWMLSRNAYKTG-CWKIILSTFSHYSALHLGPNMLVLKSYLAGALK 187 (310)
T ss_pred HHhhcCCcchhHHHHHHHHHHHHHHhcchhhhhhhHHhhccccccc-ceeEEeehhcchhHhhhcHHHHHHHHHhccccc
Confidence 34555566899999999999999986422 45666666654443 57799999999999999999999888876 888
Q ss_pred hhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCeEEE---eccccc
Q 021779 85 PVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQELYL---LKIKAK 159 (307)
Q Consensus 85 ~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~v~l---~~ir~k 159 (307)
...|...+..+|+..+..+..+... ..-..-...+..|+||++++++..++.++|+++..+ .+++.-
T Consensus 188 ~~~~~~~~~AlylSa~~~~~~i~~~--------~~v~~~~~gp~LGAsGav~ai~a~~~~lfP~~~~~i~f~~~v~~g 257 (310)
T KOG2980|consen 188 GSLGFSSFFALYLSAGVKGLFISVK--------DKVPTSWAGPSLGASGAVYAILALDCTLFPKTTLYILFVFPVPAG 257 (310)
T ss_pred CCcchhhcccceeccccccceeEee--------ccccccccccccccchHHHHHHHHHhhcCcCcceeEEEeeccccc
Confidence 8888888888887555554443221 000111235778999999999999999999999876 555553
No 13
>COG5291 Predicted membrane protein [Function unknown]
Probab=97.95 E-value=9.7e-05 Score=65.96 Aligned_cols=145 Identities=14% Similarity=0.208 Sum_probs=91.8
Q ss_pred CCCcCCchHHHHHHHHHHHHHHHHHhhhhhhhcceeee-cCccc--cccchhhhhhhccC-CHHHHHHHHHHHHHHhHhH
Q 021779 8 SLLFTGFTKLCKGLAVVLVGGHILVQLLPASVSVLALI-PARTI--PFAWNLLTAGYIEQ-TVHGVVVSTLGLLFMGKLL 83 (307)
Q Consensus 8 ~~~~~~~~~~t~~li~~~~~v~~l~~~~~~~~~~l~l~-P~~~~--~~~W~l~T~~F~h~-~~~hll~n~l~L~~~G~~l 83 (307)
+++...+||+|..+..+...+-++... +.+.|+..+. ....+ .|+||++|+..+-. .-+..++++..+|--.++|
T Consensus 13 lg~~~~IPPITRy~~ll~~a~til~~~-~lvsPwy~ly~~pL~~k~~qiwRlfTs~~~~~~~~~d~~M~vyf~Y~yS~~L 91 (313)
T COG5291 13 LGQMLRIPPITRYMTLLISAVTILVYV-DLVSPWYSLYYSPLFLKRLQIWRLFTSFLYFGKPTLDMFMHVYFLYRYSRML 91 (313)
T ss_pred hcccccCCcHHHHHHHHHHHHHHHHHH-hhcCccceeeechhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHH
Confidence 345556899988887777777666553 3444544332 22222 48999999765554 4578999999999999999
Q ss_pred hhh-hCh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHH----HHHHHHccCCeEEE---
Q 021779 84 EPV-WGS--KEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFL----VGIKQIVPDQELYL--- 153 (307)
Q Consensus 84 E~~-wGs--~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gll----va~~ql~P~~~v~l--- 153 (307)
|+- .|. +|+..+.+++.++--.++ . + +.|.|..-.|+. --+..-.|+.++.+
T Consensus 92 E~g~f~~~lv~Y~~yl~~~~l~i~a~s---~-----I----------~gg~saL~tsf~a~ItY~WS~~N~~~~Iqf~g~ 153 (313)
T COG5291 92 EEGCFNTSLVEYFWYLLVISLVIFAIS---N-----I----------YGGISALGTSFSATITYIWSKRNPRAIIQFFGF 153 (313)
T ss_pred hccccCccHHHHHHHHHHHHHHHHHHH---H-----H----------hcchhhhcchhhhheeeeeeecCCceEEEEEEe
Confidence 995 343 477666654433211111 0 0 112333333333 33445577777765
Q ss_pred eccccchHHHHHHHHHHH
Q 021779 154 LKIKAKWLPSLMLLLSIA 171 (307)
Q Consensus 154 ~~ir~k~lp~~~l~~~~~ 171 (307)
++++.||+|++.+.++++
T Consensus 154 i~v~gkYlP~Illgfsfl 171 (313)
T COG5291 154 ISVPGKYLPFILLGFSFL 171 (313)
T ss_pred eecchhhhhHHHHHHHHH
Confidence 899999999999887654
No 14
>KOG4463 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.64 E-value=4.1e-05 Score=68.95 Aligned_cols=129 Identities=15% Similarity=0.153 Sum_probs=84.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhcceeeecCccc---cccchhhhhhhccCCHHHHHHHHHHHHHHhHhHhhhhChHH
Q 021779 15 TKLCKGLAVVLVGGHILVQLLPASVSVLALIPARTI---PFAWNLLTAGYIEQTVHGVVVSTLGLLFMGKLLEPVWGSKE 91 (307)
Q Consensus 15 ~~~t~~li~~~~~v~~l~~~~~~~~~~l~l~P~~~~---~~~W~l~T~~F~h~~~~hll~n~l~L~~~G~~lE~~wGs~e 91 (307)
-++||...+-...+-+.... -..-+.+.+.-+..+ .|+||++-+.|+-.|-.++++-.+ +++.-|.+||..|+-+
T Consensus 11 mpVTK~~~iT~~~~~vvagI-~~~k~~f~l~y~~~l~~y~qywrlL~~qF~~~n~~e~~~~l~-I~Y~fR~~ERlLGShk 88 (323)
T KOG4463|consen 11 MPVTKAFVITSALFTVVAGI-QGRKSKFGLSYQDILEKYFQYWRLLMSQFAFSNTPELMFGLY-ILYYFRVFERLLGSHK 88 (323)
T ss_pred cchHHHHHHHHHHHHHHHHh-hhcccccccchhHHHHHHHHHHHHHHHHHHhcCChHHHHHHH-HHHHHHHHHHHhcccc
Confidence 36677655444443333221 122344444433222 589999999999998888877655 4555599999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccCCe
Q 021779 92 FLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPDQE 150 (307)
Q Consensus 92 fl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~~~ 150 (307)
|..|++.++..+-+..+++..+.-..+++-.+ .+-.|.+++.+.-+-..+|-..
T Consensus 89 y~~fiv~s~~~~~l~~~il~~l~~~~~~nl~~-----~qp~~liFa~~~~~y~~ip~~~ 142 (323)
T KOG4463|consen 89 YSVFIVFSGTVSLLLEVILLSLLKDTTANLLT-----SQPYGLIFASFIPFYLDIPVST 142 (323)
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHHHHhhhhh-----cCCCceeeeeccceEEEeccee
Confidence 99999999999999988877665555555222 3445577776655555555443
No 15
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=59.01 E-value=52 Score=22.28 Aligned_cols=40 Identities=15% Similarity=0.268 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhHhHhhhhCh-HHHHHHHHHHHHHHHHH
Q 021779 67 HGVVVSTLGLLFMGKLLEPVWGS-KEFLKFIFIVNFLTSLC 106 (307)
Q Consensus 67 ~hll~n~l~L~~~G~~lE~~wGs-~efl~f~l~~~v~~~l~ 106 (307)
..++.+++.-...|..+++.+|+ .-+....++.|+++++-
T Consensus 8 ~~~~~~i~~g~~~G~~lD~~~~t~p~~~~~g~llG~~~g~~ 48 (55)
T PF09527_consen 8 FTMAAPILVGFFLGYWLDKWFGTSPWFTLIGLLLGIAAGFY 48 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHH
Confidence 45677777779999999999999 44445555556655554
No 16
>PF14851 FAM176: FAM176 family
Probab=54.35 E-value=38 Score=28.58 Aligned_cols=21 Identities=14% Similarity=0.268 Sum_probs=10.2
Q ss_pred hhChHHHHHHHHHHHHHHHHH
Q 021779 86 VWGSKEFLKFIFIVNFLTSLC 106 (307)
Q Consensus 86 ~wGs~efl~f~l~~~v~~~l~ 106 (307)
+++..|-..+|+++||+.|++
T Consensus 15 I~~~PE~~aLYFv~gVC~GLl 35 (153)
T PF14851_consen 15 IRDNPERFALYFVSGVCAGLL 35 (153)
T ss_pred HHhChHHHHHHHHHHHHHHHH
Confidence 344445455555555544444
No 17
>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=48.25 E-value=1.2e+02 Score=23.36 Aligned_cols=21 Identities=19% Similarity=0.569 Sum_probs=15.7
Q ss_pred ccccchHHHHHHHHHHHHHhh
Q 021779 155 KIKAKWLPSLMLLLSIAISFF 175 (307)
Q Consensus 155 ~ir~k~lp~~~l~~~~~~~~~ 175 (307)
.++.||+|.+.+++-.++.+.
T Consensus 30 ~v~~K~iPlIs~viGilLG~~ 50 (93)
T PF06946_consen 30 VVPNKWIPLISVVIGILLGAA 50 (93)
T ss_pred cCCcchhhHHHHHHHHHHHHH
Confidence 378999999987776666544
No 18
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=47.81 E-value=45 Score=28.06 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 021779 185 TLIFGTYMGWIYLRYLQKK 203 (307)
Q Consensus 185 ~~l~G~~~gw~Ylrf~q~~ 203 (307)
+.+.|+..||.+.|++.++
T Consensus 109 ~~~~g~~~g~~~~r~~~~~ 127 (154)
T PRK10862 109 GALLGGVGGFLLARGLSRK 127 (154)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3678999999999999875
No 19
>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=46.70 E-value=17 Score=32.30 Aligned_cols=27 Identities=33% Similarity=0.498 Sum_probs=20.1
Q ss_pred CCCCchhhhHHH----HHHHHHHHHHHhhch
Q 021779 263 PGSDPIEASRRR----ERGARALEERLATEK 289 (307)
Q Consensus 263 pg~~~~eaeRRR----~~AlkaL~eRl~~~~ 289 (307)
||.++-+||.|| |.|+|||.+||.-.+
T Consensus 107 kg~~~~p~~~~~~~~~q~alraLqqrL~~E~ 137 (264)
T PF03082_consen 107 KGLPDFPAKKRNNGSNQNALRALQQRLLLEQ 137 (264)
T ss_pred cCCCCcchhhhccchHHHHHHHHHHHHHHhh
Confidence 466666666555 799999999996544
No 20
>COG3931 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]
Probab=45.53 E-value=32 Score=31.19 Aligned_cols=36 Identities=28% Similarity=0.461 Sum_probs=21.3
Q ss_pred ecCcCCccCCCCCCccCCCCCCCCCc-hhhhHHHHHHH
Q 021779 242 CGRRTETSGDDHGYTLGGASLPGSDP-IEASRRRERGA 278 (307)
Q Consensus 242 c~~~~~~~~~~~~~~~~~~~lpg~~~-~eaeRRR~~Al 278 (307)
|.+....+ +.-.+-..+..+||..+ .|+||++.+..
T Consensus 86 cNRp~d~p-~lip~~Se~~~VPgN~~ls~~ER~~R~~~ 122 (263)
T COG3931 86 CNRPEDAP-DLIPQLSEGTVVPGNHPLSEEERRARIDR 122 (263)
T ss_pred CCCCCCcc-hhhhccccceeccCCCCCCHHHHHHHHHH
Confidence 66654222 32222233457788754 67899988877
No 21
>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=43.53 E-value=16 Score=30.73 Aligned_cols=17 Identities=35% Similarity=0.392 Sum_probs=13.5
Q ss_pred chhhhHHHHHHHHHHHH
Q 021779 267 PIEASRRRERGARALEE 283 (307)
Q Consensus 267 ~~eaeRRR~~AlkaL~e 283 (307)
+..+|||||++|+.|=+
T Consensus 125 ~s~~E~~RQr~Lr~~m~ 141 (148)
T PF04528_consen 125 RSRTERRRQRLLRRLMR 141 (148)
T ss_pred ccchHHHHHHHHHHHHH
Confidence 55679999999997643
No 22
>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=41.32 E-value=24 Score=31.10 Aligned_cols=23 Identities=26% Similarity=0.336 Sum_probs=17.5
Q ss_pred CchhhhHHH--HHHHHHHHHHHhhc
Q 021779 266 DPIEASRRR--ERGARALEERLATE 288 (307)
Q Consensus 266 ~~~eaeRRR--~~AlkaL~eRl~~~ 288 (307)
.+.|+|||| ++..|.=-+|+++.
T Consensus 47 Arsd~ERrryAEl~vk~E~~rveke 71 (200)
T TIGR03759 47 ARSDEERRRYAELWVKQEAQRVEKE 71 (200)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 477889999 77777777777654
No 23
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=40.28 E-value=81 Score=24.66 Aligned_cols=40 Identities=20% Similarity=0.198 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhHhHhhhhCh-HHHHHHHHHHHHHHHHH
Q 021779 67 HGVVVSTLGLLFMGKLLEPVWGS-KEFLKFIFIVNFLTSLC 106 (307)
Q Consensus 67 ~hll~n~l~L~~~G~~lE~~wGs-~efl~f~l~~~v~~~l~ 106 (307)
++++.-++.=.++|+.|.+.||+ .-+...+++.|++.++.
T Consensus 50 ~~~v~pil~G~~lG~WLD~~~~t~~~~tl~~lllGv~~G~~ 90 (100)
T TIGR02230 50 WSVAIPTLLGVAVGIWLDRHYPSPFSWTLTMLIVGVVIGCL 90 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHH
Confidence 56677777778999999999997 34444455566665554
No 24
>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=33.53 E-value=77 Score=25.65 Aligned_cols=19 Identities=21% Similarity=0.606 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 021779 185 TLIFGTYMGWIYLRYLQKK 203 (307)
Q Consensus 185 ~~l~G~~~gw~Ylrf~q~~ 203 (307)
+.+.|+..+|+++|++.++
T Consensus 102 ~~l~~l~~~~~~~~~~~~~ 120 (135)
T PF04246_consen 102 GGLLGLALGFLILRLFDRR 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3678999999999999985
No 25
>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=29.02 E-value=32 Score=22.76 Aligned_cols=12 Identities=42% Similarity=0.340 Sum_probs=8.5
Q ss_pred chhhhHHHHHHH
Q 021779 267 PIEASRRRERGA 278 (307)
Q Consensus 267 ~~eaeRRR~~Al 278 (307)
-.|.+|||++=+
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 357799998744
No 26
>KOG4709 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.60 E-value=61 Score=28.43 Aligned_cols=19 Identities=42% Similarity=0.433 Sum_probs=14.1
Q ss_pred hhhhHHHHHHH---------HHHHHHHh
Q 021779 268 IEASRRRERGA---------RALEERLA 286 (307)
Q Consensus 268 ~eaeRRR~~Al---------kaL~eRl~ 286 (307)
.|++|+++++| +.|+|||.
T Consensus 59 keq~ReerielRk~~rqerkr~LeErl~ 86 (217)
T KOG4709|consen 59 KEQLREERIELRKERRQERKRMLEERLE 86 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777776 56999997
No 27
>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=27.78 E-value=43 Score=22.39 Aligned_cols=13 Identities=15% Similarity=0.309 Sum_probs=10.2
Q ss_pred CchhhhHHHHHHH
Q 021779 266 DPIEASRRRERGA 278 (307)
Q Consensus 266 ~~~eaeRRR~~Al 278 (307)
+..|..|||.+|.
T Consensus 4 ~dpE~kRkkRVA~ 16 (47)
T PF12023_consen 4 NDPEMKRKKRVAS 16 (47)
T ss_pred CCHHHHHHHHHHh
Confidence 4567899998886
No 28
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.30 E-value=56 Score=31.55 Aligned_cols=23 Identities=26% Similarity=0.365 Sum_probs=20.5
Q ss_pred CchhhhHHHHHHHHHHHHHHhhc
Q 021779 266 DPIEASRRRERGARALEERLATE 288 (307)
Q Consensus 266 ~~~eaeRRR~~AlkaL~eRl~~~ 288 (307)
||+--.||||++.+.+.+||.++
T Consensus 237 dPeVKsr~Rq~~re~a~~rm~~~ 259 (363)
T COG1377 237 DPEVKSRIRQMQREIARRRMMSD 259 (363)
T ss_pred ChhhhHHHHHHHHHHHHHHHHhh
Confidence 78889999999999999998543
No 29
>KOG4544 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.57 E-value=54 Score=27.06 Aligned_cols=15 Identities=33% Similarity=0.386 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHHHHH
Q 021779 271 SRRRERGARALEERL 285 (307)
Q Consensus 271 eRRR~~AlkaL~eRl 285 (307)
-||||+|+|-+++|=
T Consensus 37 ~~~rq~A~~Ia~~RE 51 (144)
T KOG4544|consen 37 QERRQIAFKIAEERE 51 (144)
T ss_pred HHHHHHHHHHHHHHH
Confidence 568999999999985
No 30
>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=24.46 E-value=49 Score=23.33 Aligned_cols=13 Identities=38% Similarity=0.478 Sum_probs=10.0
Q ss_pred HHHHHHHHhhchh
Q 021779 278 ARALEERLATEKL 290 (307)
Q Consensus 278 lkaL~eRl~~~~~ 290 (307)
|.+||+||+++..
T Consensus 34 La~LE~rL~~ae~ 46 (60)
T PF11471_consen 34 LAALEQRLQAAEQ 46 (60)
T ss_pred HHHHHHHHHHHHH
Confidence 7789999986653
No 31
>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=23.99 E-value=38 Score=23.91 Aligned_cols=13 Identities=31% Similarity=0.447 Sum_probs=9.8
Q ss_pred CCCCchhhhHHHH
Q 021779 263 PGSDPIEASRRRE 275 (307)
Q Consensus 263 pg~~~~eaeRRR~ 275 (307)
-|.+.+|+++||+
T Consensus 19 ~GLs~~ev~~r~~ 31 (69)
T PF00690_consen 19 QGLSSEEVEERRK 31 (69)
T ss_dssp SBBTHHHHHHHHH
T ss_pred CCCCHHHHHHHHH
Confidence 3557889988885
No 32
>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=23.36 E-value=65 Score=24.51 Aligned_cols=15 Identities=33% Similarity=0.656 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHHHH
Q 021779 269 EASRRRERGARALEE 283 (307)
Q Consensus 269 eaeRRR~~AlkaL~e 283 (307)
-|.|||..+-|.+||
T Consensus 9 ~ArkRk~~~eKk~EE 23 (89)
T PF04795_consen 9 NARKRKNQSEKKLEE 23 (89)
T ss_pred HHHHHHHHHHHHHHH
Confidence 357888999999987
No 33
>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=23.00 E-value=75 Score=25.40 Aligned_cols=24 Identities=21% Similarity=0.252 Sum_probs=18.6
Q ss_pred CchhhhHHHHHHHHHHHHHHhhch
Q 021779 266 DPIEASRRRERGARALEERLATEK 289 (307)
Q Consensus 266 ~~~eaeRRR~~AlkaL~eRl~~~~ 289 (307)
+++|..++-+..|+||+++|++.+
T Consensus 54 ~~ee~~~~~~~~l~aLs~~Lg~~~ 77 (126)
T cd03211 54 TLDQVIEEVDQCCQALSQRLGTQP 77 (126)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCC
Confidence 355566667889999999998755
No 34
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=22.59 E-value=76 Score=30.20 Aligned_cols=19 Identities=16% Similarity=0.135 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHhhcCC
Q 021779 186 LIFGTYMGWIYLRYLQKKP 204 (307)
Q Consensus 186 ~l~G~~~gw~Ylrf~q~~~ 204 (307)
.+.-+..+|++.|.++++.
T Consensus 164 ii~~~~l~~~~~~l~~~~~ 182 (340)
T PF12794_consen 164 IILLLLLAVFLWRLLRPGW 182 (340)
T ss_pred HHHHHHHHHHHHHHHcccc
Confidence 4455567777888887753
No 35
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=21.75 E-value=1.1e+02 Score=28.30 Aligned_cols=26 Identities=27% Similarity=0.250 Sum_probs=21.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHhhc
Q 021779 177 AESAAYLPTLIFGTYMGWIYLRYLQK 202 (307)
Q Consensus 177 ~~~~~~~~~~l~G~~~gw~Ylrf~q~ 202 (307)
..+.+|+.+.++|++.|+...+.-++
T Consensus 249 Ian~AHlgGli~Gll~g~~~~~~~~~ 274 (276)
T PRK10907 249 IANAAHVAGLAVGLAMAFWDTRNARK 274 (276)
T ss_pred cHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 35778999999999999998877665
No 36
>KOG3599 consensus Ca2+-modulated nonselective cation channel polycystin [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=21.48 E-value=1e+03 Score=25.62 Aligned_cols=60 Identities=17% Similarity=0.224 Sum_probs=36.0
Q ss_pred HHHhHhHhhhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHccC
Q 021779 77 LFMGKLLEPVWGSKEFLKFIFIVNFLTSLCIFITAVALYYITRLETYLYMPLSGFQGVLAGFLVGIKQIVPD 148 (307)
Q Consensus 77 ~~~G~~lE~~wGs~efl~f~l~~~v~~~l~~~~~~~~~y~i~~~~~~l~~~~~G~sg~i~gllva~~ql~P~ 148 (307)
-.+++.|++.|... +..+++..++.+..+.+.|.+.|+ .....+..+.++...++....+
T Consensus 579 ~~~s~TL~ra~~~I------~gf~l~~~I~~~aya~l~~llfG~------~v~~f~~f~~s~~t~~~~~~G~ 638 (798)
T KOG3599|consen 579 SQFSSTLSRAWKEI------VGFALMFLILFFAYAQLGYLLFGN------QVSDFRTFVASIVTLLRYILGD 638 (798)
T ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHcCC------ccCChHHHHHHHHHHHHHHhcc
Confidence 34577788888763 223333334444444455666665 3457778888888777776663
No 37
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=21.09 E-value=4.5e+02 Score=21.43 Aligned_cols=48 Identities=21% Similarity=0.423 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhH-hHhhhh-ChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021779 66 VHGVVVSTLGLLFMGK-LLEPVW-GSKEFLKFIFIVNFLTSLCIFITAVALY 115 (307)
Q Consensus 66 ~~hll~n~l~L~~~G~-~lE~~w-Gs~efl~f~l~~~v~~~l~~~~~~~~~y 115 (307)
.+++++.+++.+++|- ..+..| +...-.+.. +|++++++..+.-+.+|
T Consensus 82 v~Nilvsv~~~~~~~~~~~~~~~~~~~~~~Rvl--lgl~~al~vlvAEv~l~ 131 (142)
T PF11712_consen 82 VFNILVSVFAVFFAGWYWAGYSFGGWSFPYRVL--LGLFGALLVLVAEVVLY 131 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccchHHHHH--HHHHHHHHHHHHHHHHH
Confidence 4567777777777766 445455 222222222 34455554444333333
No 38
>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=20.16 E-value=5.1e+02 Score=23.07 Aligned_cols=25 Identities=20% Similarity=0.529 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCccCC
Q 021779 186 LIFGTYMGWIYLRYLQKKPETKLSGD 211 (307)
Q Consensus 186 ~l~G~~~gw~Ylrf~q~~~~~~~~GD 211 (307)
.+.+++.++.+.|+.+|+= .|..||
T Consensus 194 ~~~~~~~~~~~~~~~~r~l-GG~tGD 218 (235)
T PF02654_consen 194 LLVALLLALLLARYARRRL-GGITGD 218 (235)
T ss_pred HHHHHHHHHHHHHHHHHHc-CCcChH
Confidence 5678888999999999873 788898
Done!