Query 014378
Match_columns 426
No_of_seqs 250 out of 1635
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:33:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014378.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014378hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02890 geranyl diphosphate s 100.0 5.6E-86 1.2E-90 675.4 40.0 418 1-426 1-422 (422)
2 TIGR02749 prenyl_cyano solanes 100.0 1.4E-69 3E-74 541.9 36.3 317 87-425 5-321 (322)
3 PLN02857 octaprenyl-diphosphat 100.0 8.1E-70 1.8E-74 556.5 34.6 323 85-426 94-416 (416)
4 TIGR02748 GerC3_HepT heptapren 100.0 2.4E-69 5.2E-74 539.8 35.5 315 85-426 2-319 (319)
5 CHL00151 preA prenyl transfera 100.0 1.1E-68 2.3E-73 536.0 35.2 319 85-425 4-322 (323)
6 PRK10888 octaprenyl diphosphat 100.0 2.4E-68 5.3E-73 532.9 36.0 315 87-426 5-323 (323)
7 COG0142 IspA Geranylgeranyl py 100.0 1.3E-67 2.9E-72 527.5 36.0 317 88-426 3-322 (322)
8 KOG0776 Geranylgeranyl pyropho 100.0 3.8E-64 8.3E-69 499.8 32.1 313 85-424 64-384 (384)
9 PRK10581 geranyltranstransfera 100.0 3.1E-61 6.7E-66 476.8 31.7 279 89-426 4-299 (299)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 3.4E-56 7.3E-61 433.0 28.9 254 111-424 3-259 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 3.8E-55 8.2E-60 426.0 16.1 249 116-385 3-259 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 1.5E-42 3.2E-47 331.2 26.9 235 131-424 1-236 (236)
13 KOG0777 Geranylgeranyl pyropho 100.0 1.5E-36 3.3E-41 280.6 20.7 269 112-403 21-293 (322)
14 KOG0711 Polyprenyl synthetase 100.0 4.7E-35 1E-39 282.4 27.2 297 112-426 38-347 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.9 4.8E-23 1.1E-27 192.2 28.3 226 168-421 13-241 (243)
16 PF07307 HEPPP_synt_1: Heptapr 97.8 0.00065 1.4E-08 64.3 14.5 102 166-275 34-136 (212)
17 PLN02632 phytoene synthase 96.8 0.21 4.5E-06 50.8 20.9 139 238-403 140-280 (334)
18 PF00494 SQS_PSY: Squalene/phy 96.7 0.044 9.5E-07 53.3 14.2 141 235-403 88-229 (267)
19 cd00683 Trans_IPPS_HH Trans-Is 96.7 0.34 7.3E-06 47.2 20.2 136 238-403 93-228 (265)
20 TIGR01559 squal_synth farnesyl 96.1 0.092 2E-06 53.4 13.1 151 230-403 100-250 (336)
21 TIGR03465 HpnD squalene syntha 96.0 0.25 5.5E-06 48.3 15.1 135 238-403 85-219 (266)
22 TIGR03464 HpnC squalene syntha 95.6 0.56 1.2E-05 45.9 15.7 135 238-403 86-220 (266)
23 cd00687 Terpene_cyclase_nonpla 90.9 12 0.00027 36.7 16.1 90 229-320 127-221 (303)
24 COG1562 ERG9 Phytoene/squalene 88.5 22 0.00047 35.5 15.6 136 238-403 103-238 (288)
25 PRK12884 ubiA prenyltransferas 88.5 15 0.00033 35.9 14.5 156 168-346 40-198 (279)
26 PRK12882 ubiA prenyltransferas 84.1 20 0.00043 35.1 12.7 57 169-225 42-101 (276)
27 PRK09573 (S)-2,3-di-O-geranylg 71.9 82 0.0018 30.8 12.9 56 169-224 41-99 (279)
28 cd00868 Terpene_cyclase_C1 Ter 67.9 1.2E+02 0.0025 29.1 20.1 88 231-320 122-215 (284)
29 PRK07566 bacteriochlorophyll/c 62.3 1.5E+02 0.0033 29.6 12.8 52 172-223 72-126 (314)
30 TIGR01474 ubiA_proteo 4-hydrox 62.2 1.6E+02 0.0036 28.9 13.1 57 169-225 44-105 (281)
31 PLN00012 chlorophyll synthetas 62.0 90 0.002 32.3 11.3 49 168-216 126-177 (375)
32 PRK12878 ubiA 4-hydroxybenzoat 61.7 1.6E+02 0.0036 29.5 12.9 57 169-225 76-137 (314)
33 COG0382 UbiA 4-hydroxybenzoate 57.6 2E+02 0.0043 28.3 16.1 158 167-348 49-212 (289)
34 PRK10888 octaprenyl diphosphat 57.6 2.2E+02 0.0047 28.8 13.2 49 283-343 55-103 (323)
35 PRK12871 ubiA prenyltransferas 56.0 1.9E+02 0.0041 28.9 12.1 47 177-224 54-114 (297)
36 TIGR02748 GerC3_HepT heptapren 55.9 1.2E+02 0.0026 30.4 10.9 48 284-343 55-102 (319)
37 PRK12883 ubiA prenyltransferas 54.5 2.2E+02 0.0047 27.8 13.7 51 172-222 44-97 (277)
38 TIGR02056 ChlG chlorophyll syn 53.5 2.4E+02 0.0052 28.1 13.5 50 172-221 61-113 (306)
39 PF01040 UbiA: UbiA prenyltran 52.3 2.1E+02 0.0044 26.9 16.0 147 176-345 34-188 (257)
40 TIGR01475 ubiA_other putative 46.6 2.4E+02 0.0053 27.5 11.2 50 169-218 40-94 (282)
41 PRK12872 ubiA prenyltransferas 46.4 2.8E+02 0.0062 26.9 11.6 34 303-347 172-205 (285)
42 PF06783 UPF0239: Uncharacteri 46.3 23 0.0005 28.7 3.0 27 291-317 15-41 (85)
43 cd00684 Terpene_cyclase_plant_ 42.7 4.7E+02 0.01 28.3 15.9 92 227-320 352-449 (542)
44 cd00685 Trans_IPPS_HT Trans-Is 41.5 2.8E+02 0.0062 26.6 10.6 44 288-343 34-78 (259)
45 PRK10581 geranyltranstransfera 40.9 1.3E+02 0.0029 30.0 8.3 60 169-228 207-278 (299)
46 PF00348 polyprenyl_synt: Poly 38.1 3.7E+02 0.0081 25.8 10.8 52 280-343 21-72 (260)
47 PF03936 Terpene_synth_C: Terp 37.6 3.6E+02 0.0077 25.4 11.6 87 232-319 138-229 (270)
48 TIGR01476 chlor_syn_BchG bacte 36.7 1.9E+02 0.0041 28.3 8.6 50 172-221 45-97 (283)
49 PRK13591 ubiA prenyltransferas 35.3 4.8E+02 0.011 26.3 13.2 31 306-347 193-223 (307)
50 PRK12870 ubiA 4-hydroxybenzoat 31.8 5.1E+02 0.011 25.5 14.1 58 170-227 51-113 (290)
51 PRK13105 ubiA prenyltransferas 27.4 1E+02 0.0023 30.5 5.0 60 273-343 140-200 (282)
52 PRK06080 1,4-dihydroxy-2-napht 27.3 3.8E+02 0.0082 26.2 9.0 81 260-342 2-89 (293)
53 KOG3330 Transport protein part 22.6 1.2E+02 0.0025 27.7 3.8 58 267-334 12-75 (183)
54 PRK07566 bacteriochlorophyll/c 22.0 1.4E+02 0.0029 30.0 4.7 54 168-221 192-246 (314)
55 PRK06080 1,4-dihydroxy-2-napht 21.3 4.5E+02 0.0097 25.7 8.2 56 166-221 169-225 (293)
56 TIGR01476 chlor_syn_BchG bacte 20.9 1.7E+02 0.0037 28.6 5.1 52 168-219 164-216 (283)
57 PRK13387 1,4-dihydroxy-2-napht 20.6 2.1E+02 0.0046 28.7 5.8 63 260-322 2-69 (317)
58 PRK13595 ubiA prenyltransferas 20.4 2E+02 0.0043 28.9 5.4 59 276-347 155-213 (292)
59 PRK12848 ubiA 4-hydroxybenzoat 20.1 8.2E+02 0.018 23.9 13.2 53 172-224 49-106 (282)
No 1
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=5.6e-86 Score=675.35 Aligned_cols=418 Identities=77% Similarity=1.080 Sum_probs=381.5
Q ss_pred ChhhhchhhhhcccccCccccccccCCCCccc----cccchhhhccCCccccccccccccchhhhhcccccccccCCccc
Q 014378 1 MLIYRGLSRISRISKKTSFGRRWLPSHPLLSG----ASHSAAAAAADSSVKVLGCREAYSWSLPALHGIRHQIHHQSSSV 76 (426)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~ 76 (426)
|+|+|+++||+ +.+.+++||+.+.+.+.+ ..+.+.++++.+++||.+||.+++|+++.+|.++++++++..+.
T Consensus 1 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (422)
T PLN02890 1 MLLSRRVARIS---ATSGGGRGAYGCSQSLASSRAALLGRHGHPLSQSTSKVVGCRGTYSVSSRWLHGFQYQVRHQSSSL 77 (422)
T ss_pred CCcchHHHHHh---ccccccccchhhhhhhcccccccCCCCcccccCCCccccccccceeechhhhhhhhhhchhcccch
Confidence 89999999888 778889999999664333 33566778889999999999999999999999999999988888
Q ss_pred ccccccccccCchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCch
Q 014378 77 IEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVE 156 (426)
Q Consensus 77 ~~~~~~~~~~~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~ 156 (426)
+++ ..++|+.+.++|+.|+++|++.+.+..|.+.+++.|++..|.+|||+||+|++++++++|.+.++..++...
T Consensus 78 ~~~-----~~~~~~~i~~~L~~v~~~L~~~v~~~~~~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~ 152 (422)
T PLN02890 78 VEE-----QLDPFSLVADELSLLANKLRSMVVAEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVL 152 (422)
T ss_pred hhh-----HHHHHHHHHHHHHHHHHHHHHHHccCChHHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccc
Confidence 888 999999999999999999999999999999999999998777799999999999999998643211000000
Q ss_pred hhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Q 014378 157 DALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLL 236 (426)
Q Consensus 157 ~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~l 236 (426)
+..+.++.++++.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++..++.+++..+
T Consensus 153 ~~~~~~~~~~~~~~AaavEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~ 232 (422)
T PLN02890 153 DIVASELRTRQQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLL 232 (422)
T ss_pred hhhccchhhhHHHHHHHHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence 11123455678999999999999999999999999999999999999999999999999999999999999899999999
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhccc
Q 014378 237 ATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 316 (426)
Q Consensus 237 s~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD 316 (426)
++++..+++||++|+.+..+...++++|++++++|||+||+++|++||+++|++++..+.+++||+++|+||||+||++|
T Consensus 233 s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD 312 (422)
T PLN02890 233 ATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLD 312 (422)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999998877788999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHh
Q 014378 317 FTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 396 (426)
Q Consensus 317 ~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L 396 (426)
|+++++.+|||.|+||++||+|+|+|+|++..+++.+++.+.+.++++++.++++|.++|++++|+.++++|.++|.+.|
T Consensus 313 ~~g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L 392 (422)
T PLN02890 313 FTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAI 392 (422)
T ss_pred hcCChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999888888899988888889999999999999999999999999999999999
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHHHHhccC
Q 014378 397 DSLPENNDEDVTKSRRALLDLTHRVITRNK 426 (426)
Q Consensus 397 ~~lp~~~~~~~~~~~~~L~~l~~~v~~R~k 426 (426)
+.||+++.+++..+++.|..|++++++|+|
T Consensus 393 ~~lp~s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 393 ESLPETDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred HhCCCCccccchHHHHHHHHHHHHHHhccC
Confidence 999999866666789999999999999987
No 2
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase. Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.
Probab=100.00 E-value=1.4e-69 Score=541.87 Aligned_cols=317 Identities=45% Similarity=0.710 Sum_probs=299.6
Q ss_pred CchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHH
Q 014378 87 DPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 166 (426)
Q Consensus 87 ~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~ 166 (426)
+.+..+.+++..|++++.+.+.+.+|.+.++.+|++..| |||+||.|++++++++|.... ..+.
T Consensus 5 ~~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKrlRp~l~ll~~~~~~~~~~--------------~~~~ 68 (322)
T TIGR02749 5 SLFAPVEDDLYLLTDNLKSLVGARHPILYAAAEHLFSAG--GKRLRPAIVLLVSRATAEQQE--------------LTPR 68 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHCC--CchHHHHHHHHHHHHcCCCcc--------------ccHH
Confidence 356788999999999999999999999999999999988 999999999999999875321 1136
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Q 014378 167 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTG 246 (426)
Q Consensus 167 ~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~~G 246 (426)
.+.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++..++.++++.+++++..+++|
T Consensus 69 ~~~~A~avEliH~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~G 148 (322)
T TIGR02749 69 HRRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLENLEVVKLISKVITDFAEG 148 (322)
T ss_pred HHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Confidence 78899999999999999999999999999999999999999999999999999999999988899999999999999999
Q ss_pred HHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCC
Q 014378 247 ETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK 326 (426)
Q Consensus 247 q~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK 326 (426)
|++|+.+..+...++++|++++.+|||+||+++|++|++++|.+++..+.+++||+++|+||||+||++||+++++.+||
T Consensus 149 q~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK 228 (322)
T TIGR02749 149 EIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGK 228 (322)
T ss_pred HHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCC
Confidence 99999887677789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcc
Q 014378 327 GSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDED 406 (426)
Q Consensus 327 ~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~ 406 (426)
|.++||++||+|+|++++++..|.+.+++.+.+.+++++++++++|.++|++++|+.++++|.++|++.|+.||+++
T Consensus 229 ~~g~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~--- 305 (322)
T TIGR02749 229 PAGSDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSP--- 305 (322)
T ss_pred ChhHHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCH---
Confidence 99999999999999999999888888898888888899999999999999999999999999999999999999998
Q ss_pred hHHHHHHHHHHHHHHHhcc
Q 014378 407 VTKSRRALLDLTHRVITRN 425 (426)
Q Consensus 407 ~~~~~~~L~~l~~~v~~R~ 425 (426)
.++.|..|++++++|+
T Consensus 306 ---~~~~L~~l~~~~~~R~ 321 (322)
T TIGR02749 306 ---PREALKELVHFVLSRL 321 (322)
T ss_pred ---HHHHHHHHHHHHHhcC
Confidence 8999999999999996
No 3
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=8.1e-70 Score=556.51 Aligned_cols=323 Identities=41% Similarity=0.664 Sum_probs=302.1
Q ss_pred ccCchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhH
Q 014378 85 QLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELR 164 (426)
Q Consensus 85 ~~~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~ 164 (426)
..+.+..+.++++.+++.|++.+....|.+.+++.|++..| |||+||+|+++++++++..... .+..
T Consensus 94 ~~~~~~~v~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKriRP~Lvll~a~a~g~~~g~-----------~~~~ 160 (416)
T PLN02857 94 LSELFEPVADDLQQLNDNLQSIVGAENPVLMSAAEQIFGAG--GKRMRPALVFLVSRATAELAGL-----------KELT 160 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhCC--CccHhHHHHHHHHHHhccccCC-----------Ccch
Confidence 44567788999999999999999999999999999999988 9999999999999998632110 0112
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014378 165 TRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (426)
Q Consensus 165 ~~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~ 244 (426)
++.+.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++.++++++++.+++++..++
T Consensus 161 ~~~~~lAaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~ 240 (416)
T PLN02857 161 TEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFA 240 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHCccccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999999999999999999999999988999999999999999
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
+||++|+.+..+...++++|++++++|||+||+++|++||+++|++++..+.+++||++||+||||+||++||+++++.+
T Consensus 241 ~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~ 320 (416)
T PLN02857 241 SGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQL 320 (416)
T ss_pred hhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHh
Confidence 99999998877777899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014378 325 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 404 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 404 (426)
|||.|+||++||+|+|+++|++..|.+.+++...+.+++++++++++|.++|++++|++++++|.++|++.|+.||+++
T Consensus 321 GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~- 399 (416)
T PLN02857 321 GKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPRGA- 399 (416)
T ss_pred CCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCH-
Confidence 9999999999999999999999988999999888888899999999999999999999999999999999999999988
Q ss_pred cchHHHHHHHHHHHHHHHhccC
Q 014378 405 EDVTKSRRALLDLTHRVITRNK 426 (426)
Q Consensus 405 ~~~~~~~~~L~~l~~~v~~R~k 426 (426)
.++.|..|++++++|++
T Consensus 400 -----~~~~L~~L~~~~~~R~~ 416 (416)
T PLN02857 400 -----FRSSLEDMVDYNLERIY 416 (416)
T ss_pred -----HHHHHHHHHHHHHhccC
Confidence 88999999999999975
No 4
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II. Members of this family are component II of the heterodimeric heptaprenyl diphosphate synthase. The trusted cutoff was set such that all members identified are encoded near to a recognizable gene for component I (in Pfam family pfam07307). This enzyme acts in menaquinone-7 isoprenoid side chain biosynthesis.
Probab=100.00 E-value=2.4e-69 Score=539.84 Aligned_cols=315 Identities=29% Similarity=0.496 Sum_probs=291.7
Q ss_pred ccCchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhH
Q 014378 85 QLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELR 164 (426)
Q Consensus 85 ~~~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~ 164 (426)
+.+.++.+.++++.|++.|++.+.+..|.+.+++.|++..| |||+||.|++++++++|.+.
T Consensus 2 ~~~~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKriRp~L~ll~~~~~~~~~----------------- 62 (319)
T TIGR02748 2 LADIYSFLQKDIDSIEKELEKAVQAEHPVLSEASLHLLEAG--GKRIRPVFVLLAGKFGDYDL----------------- 62 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCCH-----------------
Confidence 34567889999999999999999888899999999999988 99999999999999876532
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014378 165 TRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (426)
Q Consensus 165 ~~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~ 244 (426)
+.++.+|+++||||+||||||||+|++++|||+||+|.+||++.|||+||||+++|+..+++.++++++..+++++..++
T Consensus 63 ~~~~~~A~aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~ 142 (319)
T TIGR02748 63 DAIKHVAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVC 142 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence 26789999999999999999999999999999999999999999999999999999999999988999999999999999
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
+||++|+.+..+...++++|++++++|||+||++||.+|++++|.+++.++.+++||+++|+||||+||++||+++++.+
T Consensus 143 ~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~ 222 (319)
T TIGR02748 143 RGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEEL 222 (319)
T ss_pred HHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhh
Confidence 99999998877777899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccchhccCcccHHHHHHhhhCc---hHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCC
Q 014378 325 GKGSLSDIRHGIITAPILFAMEEFP---QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPE 401 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~~~~---~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~ 401 (426)
|||.++||++||+|+|++++++..+ .+..++... ++++++.++++|.++|++++|+.++++|.++|.+.|+.||+
T Consensus 223 GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~~--~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~ 300 (319)
T TIGR02748 223 GKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEET--TAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPD 300 (319)
T ss_pred CCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcCC--CHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 9999999999999999999998543 233333322 57889999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHHHHHHHhccC
Q 014378 402 NNDEDVTKSRRALLDLTHRVITRNK 426 (426)
Q Consensus 402 ~~~~~~~~~~~~L~~l~~~v~~R~k 426 (426)
++ .++.|..+++++++|++
T Consensus 301 ~~------~~~~L~~l~~~~~~R~~ 319 (319)
T TIGR02748 301 GR------AKKPLQEIAKYIGKRKY 319 (319)
T ss_pred CH------HHHHHHHHHHHHHhccC
Confidence 88 89999999999999975
No 5
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=1.1e-68 Score=535.96 Aligned_cols=319 Identities=40% Similarity=0.645 Sum_probs=299.4
Q ss_pred ccCchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhH
Q 014378 85 QLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELR 164 (426)
Q Consensus 85 ~~~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~ 164 (426)
..+.++.+.+++..|++.|++.+....|.+.++++|++..| |||+||.|++++++++|++.+. .
T Consensus 4 ~~~~~~~~~~~l~~i~~~l~~~~~~~~~~l~~~~~~~~~~g--GKr~Rp~L~ll~~~~~~~~~~~--------------~ 67 (323)
T CHL00151 4 NSNLLTPIEEELLILEDNLKKLIGSGHPILYAAAKHLFSAG--GKRIRPAIVLLVAKATGGNMEI--------------K 67 (323)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHhcC--CccHHHHHHHHHHHHcCCCccc--------------c
Confidence 34567889999999999999999888899999999999988 9999999999999999874321 1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014378 165 TRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (426)
Q Consensus 165 ~~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~ 244 (426)
..++.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++...++.+++.+++++..++
T Consensus 68 ~~~~~~A~aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~ 147 (323)
T CHL00151 68 TSQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFA 147 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHH
Confidence 35678999999999999999999999999999999999999999999999999999999999888899999999999999
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
+||++|.....+...+.++|++++.+|||+||++||.+||+++|.+++..+.+++||+++|+||||+||++||+++++.+
T Consensus 148 ~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~ 227 (323)
T CHL00151 148 EGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESL 227 (323)
T ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhh
Confidence 99999988766667899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014378 325 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 404 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 404 (426)
|||.|+||++||+|+|++++++..+.+.+++.+...++++++++++++.++|++++|+.++++|.++|.+.|+.||+++
T Consensus 228 GK~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~- 306 (323)
T CHL00151 228 GKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSS- 306 (323)
T ss_pred CCCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCH-
Confidence 9999999999999999999999888888888877778899999999999999999999999999999999999999988
Q ss_pred cchHHHHHHHHHHHHHHHhcc
Q 014378 405 EDVTKSRRALLDLTHRVITRN 425 (426)
Q Consensus 405 ~~~~~~~~~L~~l~~~v~~R~ 425 (426)
.++.|..+++++++|+
T Consensus 307 -----~~~~L~~l~~~~~~R~ 322 (323)
T CHL00151 307 -----AKDSLIEIANFIINRL 322 (323)
T ss_pred -----HHHHHHHHHHHHHhcc
Confidence 8999999999999996
No 6
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=2.4e-68 Score=532.88 Aligned_cols=315 Identities=32% Similarity=0.509 Sum_probs=290.6
Q ss_pred CchhhHHHHHHHHHHHHHHHhhhCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHH
Q 014378 87 DPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 166 (426)
Q Consensus 87 ~~~~~i~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~ 166 (426)
+.+..+..+++.|++.|.+.+.+..|.+.++..|++..| |||+||.|++++++++|++. +.
T Consensus 5 ~~~~~i~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~~--GKrlRp~l~ll~~~~~g~~~-----------------~~ 65 (323)
T PRK10888 5 KINELTAQDMAGVNAAILEQLNSDVQLINQLGYYIISGG--GKRIRPMIAVLAARAVGYQG-----------------NA 65 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhCC--CchHHHHHHHHHHHHcCCCh-----------------HH
Confidence 346788999999999999999998899999999999988 99999999999999987642 25
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Q 014378 167 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTG 246 (426)
Q Consensus 167 ~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~~G 246 (426)
.+.+|+++||||+||||||||+|++++|||+||+|.+||++.|||+||||++.|+..+++.++.+++..+++++..+++|
T Consensus 66 ~~~~A~avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~G 145 (323)
T PRK10888 66 HVTIAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEG 145 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999998899999999999999999
Q ss_pred HHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCC
Q 014378 247 ETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK 326 (426)
Q Consensus 247 q~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK 326 (426)
|++|+.+..+...++++|++++.+|||+||++||.+|++++|.+++..+.++.||+++|+||||+||++||+++++.+||
T Consensus 146 q~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK 225 (323)
T PRK10888 146 EVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGK 225 (323)
T ss_pred HHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCC
Confidence 99999877666789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhccCcccHHHHHHhhhC-chHHHHHHccc---CChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCC
Q 014378 327 GSLSDIRHGIITAPILFAMEEF-PQLRTVVEQGF---EDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPEN 402 (426)
Q Consensus 327 ~~g~Dl~~Gk~TlPvl~Al~~~-~~l~~~l~~~~---~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~ 402 (426)
|.|+||++||+|+|++++++.. +..++.+.... ..+++++.+++++.++|++++++.++++|.++|.+.|+.||++
T Consensus 226 ~~g~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~ 305 (323)
T PRK10888 226 NVGDDLNEGKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDT 305 (323)
T ss_pred CchhhhhcCCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 9999999999999999999864 33444333222 2346789999999999999999999999999999999999999
Q ss_pred CCcchHHHHHHHHHHHHHHHhccC
Q 014378 403 NDEDVTKSRRALLDLTHRVITRNK 426 (426)
Q Consensus 403 ~~~~~~~~~~~L~~l~~~v~~R~k 426 (426)
+ .++.|..+++++++|++
T Consensus 306 ~------~~~~L~~l~~~~~~R~~ 323 (323)
T PRK10888 306 P------WREALIGLAHIAVQRDR 323 (323)
T ss_pred H------HHHHHHHHHHHHHhCcC
Confidence 8 89999999999999974
No 7
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=1.3e-67 Score=527.54 Aligned_cols=317 Identities=33% Similarity=0.516 Sum_probs=290.6
Q ss_pred chhhHHHHHHHHHHHHHHHhh-hCchHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHH
Q 014378 88 PFSLVADELSILAKRLRSMVV-AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 166 (426)
Q Consensus 88 ~~~~i~~eL~~v~~~l~~~~~-~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~ 166 (426)
++..+.++++.|++.|.+.+. +.++.+.++..|++.+| |||+||++++++++++|.+... + .+.
T Consensus 3 ~~~~~~~~~~~i~~~l~~~l~~~~~~~l~~a~~~~~~aG--GKrlRP~l~l~~~~~~~~~~~~------------~-~~~ 67 (322)
T COG0142 3 LLALLLKRLARIEELLSELLSGSDPELLLEAMRYLLLAG--GKRLRPLLVLLAAEALGIDLET------------G-GND 67 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHhcC--CccHhHHHHHHHHHHcCCCccc------------c-hhh
Confidence 456788999999999999999 78889999999999999 9999999999999999832210 0 347
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHH
Q 014378 167 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN--TEVVTLLATVVEHLV 244 (426)
Q Consensus 167 ~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~--~~v~~~ls~~~~~l~ 244 (426)
+..+|+++||||++|||||||||+|++|||+||+|.+||+..|||+||||+++||.++++.++ +.++..+++++..+|
T Consensus 68 ~~~~aaavEliH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~ 147 (322)
T COG0142 68 ALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLC 147 (322)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999999999999999999999999988 899999999999999
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
+||.+|+.+..+. .++++|++++++|||+||+++|++||+++|++++..+.++.||+++|+||||+||+|||+++++++
T Consensus 148 ~GQ~lDl~~~~~~-~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~l 226 (322)
T COG0142 148 GGQALDLAFENKP-VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEEL 226 (322)
T ss_pred HhHHHHHHccCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHh
Confidence 9999999998766 899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014378 325 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 404 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 404 (426)
|||+|+|+++||+|+|++++++..++-...+........+++++.+++.++|+++++..++..|.++|++.|+.+|+++
T Consensus 227 GK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~- 305 (322)
T COG0142 227 GKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSE- 305 (322)
T ss_pred CCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCch-
Confidence 9999999999999999999999764322133333333339999999999999999999999999999999999999777
Q ss_pred cchHHHHHHHHHHHHHHHhccC
Q 014378 405 EDVTKSRRALLDLTHRVITRNK 426 (426)
Q Consensus 405 ~~~~~~~~~L~~l~~~v~~R~k 426 (426)
.++.|.++++++++|++
T Consensus 306 -----~~~~L~~la~~i~~R~~ 322 (322)
T COG0142 306 -----AKEALLELADFIIKRKY 322 (322)
T ss_pred -----HHHHHHHHHHHHHhccC
Confidence 89999999999999974
No 8
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=3.8e-64 Score=499.81 Aligned_cols=313 Identities=42% Similarity=0.595 Sum_probs=294.4
Q ss_pred ccCchhhHHHHHHHHHHHHHHHhhhC--chHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHH
Q 014378 85 QLDPFSLVADELSILAKRLRSMVVAE--VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATE 162 (426)
Q Consensus 85 ~~~~~~~i~~eL~~v~~~l~~~~~~~--~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~ 162 (426)
..|..+.+..+++.+.+.+...+... ++.+....+|.+..+ |||+||.+|++++++++.+..
T Consensus 64 ~~d~~~~~~~~~~~ln~~l~~~~~~~~~~~~i~~a~ry~~la~--gKr~rP~l~~~~~e~~~~g~~-------------- 127 (384)
T KOG0776|consen 64 LFDELSYMARKARSLNGALHYAVPLANEPLLISEAMRYLLLAG--GKRVRPLLCLAACELVGSGDE-------------- 127 (384)
T ss_pred hhhHHHHHHHHHHHHhhhhhhhcccccccchhHHHHHHHHHhc--ccccCchhhhhHHHhcccccc--------------
Confidence 56778889999999999999988765 456888888999989 999999999999999984221
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCC--CCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 014378 163 LRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVV 240 (426)
Q Consensus 163 ~~~~~~~lA~aiEliH~AsLIHDDI--iD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~ 240 (426)
..++.+|+++||||+|||||||| ||++++|||+||.|+.||+++|||+|||||++|+..++.+.|+.++++++.++
T Consensus 128 --~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI 205 (384)
T KOG0776|consen 128 --SSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMASAI 205 (384)
T ss_pred --HHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHHHH
Confidence 37899999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcccC---CC-CCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhccc
Q 014378 241 EHLVTGETMQMTTSS---DQ-RCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 316 (426)
Q Consensus 241 ~~l~~Gq~~dl~~~~---~~-~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD 316 (426)
.++++|++++....+ +. +..+++|..++.+|||+|++.+|++|++++|.++++++.+++||++||++||+.||++|
T Consensus 206 ~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDild 285 (384)
T KOG0776|consen 206 ADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILD 285 (384)
T ss_pred HHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 999999999988874 33 34789999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHh
Q 014378 317 FTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 396 (426)
Q Consensus 317 ~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L 396 (426)
|+...+.+||++|.|+..|+.|+|+||++++.|++.+.+.+.+.++.+.+++.+++. +++.|..++++|.++|++.|
T Consensus 286 ftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~---~v~~a~~la~~~~~~Al~~l 362 (384)
T KOG0776|consen 286 FTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVP---GVALAKYLARRHNNKALEAL 362 (384)
T ss_pred cccchhhcCcchhhhhhhccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999998887 99999999999999999999
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014378 397 DSLPENNDEDVTKSRRALLDLTHRVITR 424 (426)
Q Consensus 397 ~~lp~~~~~~~~~~~~~L~~l~~~v~~R 424 (426)
+.||+++ +|++|..|+..+++|
T Consensus 363 ~~~p~s~------ar~aL~~l~~~~~~r 384 (384)
T KOG0776|consen 363 QSLPRSE------ARSALENLVLAVLTR 384 (384)
T ss_pred hCCCCch------HHHHHHHHHHHHhcC
Confidence 9999999 999999999999987
No 9
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=3.1e-61 Score=476.76 Aligned_cols=279 Identities=27% Similarity=0.399 Sum_probs=249.0
Q ss_pred hhhHHHHHHHHHHHHHHHhhhC---chHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHH
Q 014378 89 FSLVADELSILAKRLRSMVVAE---VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 165 (426)
Q Consensus 89 ~~~i~~eL~~v~~~l~~~~~~~---~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~ 165 (426)
...+...+..|++.|.+.+... ++.+.+++.|++..| |||+||.|++++++++|.+. +
T Consensus 4 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~g--GKrlRp~L~l~~~~~~g~~~-----------------~ 64 (299)
T PRK10581 4 PQQLQACVQQANQALSRFIAPLPFQNTPVVEAMQYGALLG--GKRLRPFLVYATGQMFGVST-----------------N 64 (299)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhcC--cccHHHHHHHHHHHHhCCCH-----------------H
Confidence 3457778888999998888652 567999999999988 99999999999999998642 2
Q ss_pred HHHHHHHHHHHHHHHHHhhcCC--CCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCH--------HHHHH
Q 014378 166 RQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT--------EVVTL 235 (426)
Q Consensus 166 ~~~~lA~aiEliH~AsLIHDDI--iD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~--------~v~~~ 235 (426)
....+|+++||||+|||||||| ||+|++|||+||+|.+||+..|||+||||++.|+..++....+ +++..
T Consensus 65 ~~~~~A~avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~ 144 (299)
T PRK10581 65 TLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISE 144 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHH
Confidence 5678999999999999999999 9999999999999999999999999999999999999875422 34555
Q ss_pred HHHH--HHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHhhhh
Q 014378 236 LATV--VEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT-AEVAILAFDYGKNLGLAYQLID 312 (426)
Q Consensus 236 ls~~--~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~-~~~~~~l~~~G~~lGiafQI~D 312 (426)
++.+ +..++.||.+|+.+... ..+.++|++|+.+|||+||++||.+|++++|.+ ++.++.+++||.++|+||||+|
T Consensus 145 ~~~~~~~~~l~~GQ~ld~~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~D 223 (299)
T PRK10581 145 LASASGIAGMCGGQALDLEAEGK-QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQD 223 (299)
T ss_pred HHHhcccchhhHhhHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 5654 56899999999988654 578999999999999999999999999999986 4578999999999999999999
Q ss_pred hcccccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHH
Q 014378 313 DVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLA 392 (426)
Q Consensus 313 DllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A 392 (426)
|++|++++++.+|||.|+|+++||+|+|+++++ ++++.++++|.++|
T Consensus 224 DilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~---------------------------------e~a~~~a~~~~~~A 270 (299)
T PRK10581 224 DILDVVGDTATLGKRQGADQQLGKSTYPALLGL---------------------------------EQARKKARDLIDDA 270 (299)
T ss_pred HHccccCChHHHCCCcchhhhcCCCCHHHHHHH---------------------------------HHHHHHHHHHHHHH
Confidence 999999999999999999999999999999954 57888999999999
Q ss_pred HHHhccCCCCCCcchHHH-HHHHHHHHHHHHhccC
Q 014378 393 AAAIDSLPENNDEDVTKS-RRALLDLTHRVITRNK 426 (426)
Q Consensus 393 ~~~L~~lp~~~~~~~~~~-~~~L~~l~~~v~~R~k 426 (426)
.+.|+.+|+++ . ++.|..|++++++|+|
T Consensus 271 ~~~l~~l~~~~------~~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 271 RQSLDQLAAQS------LDTSALEALANYIIQRDK 299 (299)
T ss_pred HHHHHhCcCCc------hhHHHHHHHHHHHHhccC
Confidence 99999999877 4 7899999999999986
No 10
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=100.00 E-value=3.4e-56 Score=433.04 Aligned_cols=254 Identities=39% Similarity=0.575 Sum_probs=239.0
Q ss_pred chHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 014378 111 VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDD 190 (426)
Q Consensus 111 ~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~ 190 (426)
.+.+.++..|.+..| ||++||.|++++++++|++. .+.+..+|+++|++|+||||||||+|+
T Consensus 3 ~~~l~~~~~~~~~~~--GK~~Rp~l~~~~~~~~g~~~----------------~~~~~~la~aiEllh~asLIhDDI~D~ 64 (259)
T cd00685 3 VELLREALRYLLLAG--GKRLRPLLVLLAARALGGPE----------------LEAALRLAAAIELLHTASLVHDDVMDN 64 (259)
T ss_pred chHHHHHHHHHHHcC--CccHhHHHHHHHHHHhCCCc----------------hHHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 456888999998878 99999999999999998753 126789999999999999999999999
Q ss_pred CCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHH
Q 014378 191 ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN---TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 267 (426)
Q Consensus 191 s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~---~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~i 267 (426)
|++|||+||+|.+||+..|||+||+|++.+++.++...+ .++++.+++++..+++||++|+.+..+...++++|+++
T Consensus 65 s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~ 144 (259)
T cd00685 65 SDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRI 144 (259)
T ss_pred CcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHH
Confidence 999999999999999999999999999999999998877 78999999999999999999999877667899999999
Q ss_pred HHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhh
Q 014378 268 TYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 347 (426)
Q Consensus 268 i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~ 347 (426)
+.+|||+||+.+|.+|++++|++++..+.+++||+++|++|||.||++|++++++.+||+.++||++||+|||+++++
T Consensus 145 ~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l-- 222 (259)
T cd00685 145 IRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL-- 222 (259)
T ss_pred HHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014378 348 FPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 424 (426)
Q Consensus 348 ~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~~~~L~~l~~~v~~R 424 (426)
+..++.|.++|...|+.+|.+. .++.|..+++++++|
T Consensus 223 ----------------------------------~~~~~~~~~~a~~~l~~~~~~~------~~~~l~~~~~~~~~r 259 (259)
T cd00685 223 ----------------------------------RELAREYEEKALEALKALPESP------AREALRALADFILER 259 (259)
T ss_pred ----------------------------------HHHHHHHHHHHHHHHHcCCCcH------HHHHHHHHHHHHHcC
Confidence 6889999999999999999887 788999999999887
No 11
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=100.00 E-value=3.8e-55 Score=425.97 Aligned_cols=249 Identities=33% Similarity=0.541 Sum_probs=214.9
Q ss_pred HHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCC
Q 014378 116 SAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRR 195 (426)
Q Consensus 116 ~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~s~~RR 195 (426)
+++.|++..| |||+||.|++++++++|.+ .+.+..+|+++||||+||||||||+|+|++||
T Consensus 3 ~~~~~~~~~~--GK~~Rp~l~~~~~~~~~~~-----------------~~~~~~~a~avEliH~asLIhDDI~D~s~~RR 63 (260)
T PF00348_consen 3 EPARYYILRG--GKRIRPLLVLLAAEALGGD-----------------PEKAIPLAAAVELIHAASLIHDDIIDNSDLRR 63 (260)
T ss_dssp HHHHHHHHSS--SCHHHHHHHHHHHHHTTCH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHTTCSEET
T ss_pred HHHHHHhhCC--CccHHHHHHHHHHHHhCCC-----------------HHHHHHHHHHHHHHHHHHHHhhhhhcccccCC
Confidence 3566777778 9999999999999999853 24789999999999999999999999999999
Q ss_pred CCCccccccChhHHHHHHHHHHHHHHHHHHcCC----CHHHH---HHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHH
Q 014378 196 GIGSLNFVMGNKLAVLAGDFLLSRACVALASLK----NTEVV---TLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 268 (426)
Q Consensus 196 G~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~----~~~v~---~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii 268 (426)
|+||+|.+||++.|||+||||++.|+..++... +..+. ..+...+.....||..++.+... ..++++|++++
T Consensus 64 G~pt~~~~~G~~~Ail~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~-~~~~~~y~~i~ 142 (260)
T PF00348_consen 64 GKPTVHKKFGNAIAILAGDYLLALAFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDK-DPTEEEYLEII 142 (260)
T ss_dssp TEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS-STSHHHHHHHH
T ss_pred CCccccccccccchhhhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhccccccc-cccHHHHHHHH
Confidence 999999999999999999999999999999887 23333 34444455555567777766544 78999999999
Q ss_pred HhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhhC
Q 014378 269 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF 348 (426)
Q Consensus 269 ~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~ 348 (426)
.+|||+||++||++|++++|.+++..+.+++||+++|+||||+||++|++++++.+||+.|+||++||+|+|+++++++.
T Consensus 143 ~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~ 222 (260)
T PF00348_consen 143 RLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERA 222 (260)
T ss_dssp HHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHH
T ss_pred hhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred c-hHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHH
Q 014378 349 P-QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELA 385 (426)
Q Consensus 349 ~-~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a 385 (426)
+ ..++++.. .....+.+.+.+.+..++.+++++..+
T Consensus 223 ~~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (260)
T PF00348_consen 223 REELRELLQE-AYGKEDSEEALEIIAQTGALEYTRKFM 259 (260)
T ss_dssp HHHHHHHHHH-HHHHSHHHHHHHHHHHHHHHTHHHHHH
T ss_pred HHHHHHHHHH-HHcccchHHHHHHHHHHHHHHHHHhhc
Confidence 4 45555544 334456778888888888998887765
No 12
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=100.00 E-value=1.5e-42 Score=331.22 Aligned_cols=235 Identities=40% Similarity=0.603 Sum_probs=213.3
Q ss_pred chHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccc-cChhHH
Q 014378 131 FRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV-MGNKLA 209 (426)
Q Consensus 131 ~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~-~G~~~A 209 (426)
+||.+++++++++|++. +.+..+++++|+||++++|||||+|++..|||+||+|.+ ||+..|
T Consensus 1 ~r~~~~~~~~~~~~~~~-----------------~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~a 63 (236)
T cd00867 1 SRPLLVLLLARALGGDL-----------------EAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALA 63 (236)
T ss_pred CcHHHHHHHHHHcCCCH-----------------HHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHH
Confidence 59999999999998653 367899999999999999999999999999999999999 999999
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCC
Q 014378 210 VLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ 289 (426)
Q Consensus 210 VlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~ 289 (426)
|++||++++.++..+++....++.+.+++.+..+++||.+|+.+..+...++++|++++++|||++|+.+|..++++++.
T Consensus 64 i~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~ 143 (236)
T cd00867 64 ILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGA 143 (236)
T ss_pred HHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCc
Confidence 99999999999999998888889999999999999999999998765568999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHH
Q 014378 290 TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIAL 369 (426)
Q Consensus 290 ~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~ 369 (426)
+++..+.+++||+++|+||||.||++|++++.+.+|| .++||++||+|+|++++
T Consensus 144 ~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~------------------------- 197 (236)
T cd00867 144 DDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILA------------------------- 197 (236)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHH-------------------------
Confidence 9889999999999999999999999999999999999 99999999999999996
Q ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014378 370 EYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 424 (426)
Q Consensus 370 ~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~~~~L~~l~~~v~~R 424 (426)
++.+.++.+++.+.+..+++..+ ..+..+..++..+.+|
T Consensus 198 ------------~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~r 236 (236)
T cd00867 198 ------------RERAAEYAEEAYAALEALPPSLP----RARRALIALADFLYRR 236 (236)
T ss_pred ------------HHHHHHHHHHHHHHHHhCCCCch----HHHHHHHHHHHHHHhC
Confidence 46666777777777777766542 1467788888888765
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.5e-36 Score=280.61 Aligned_cols=269 Identities=21% Similarity=0.292 Sum_probs=241.3
Q ss_pred hHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 014378 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDA 191 (426)
Q Consensus 112 ~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~s 191 (426)
..+.++-.|++..+ ||.+|--|.+.+.+.+..+. ++...+..++||+|++||+.|||.|++
T Consensus 21 ~ill~Py~yilq~P--GKqfR~~L~~afNhwl~~P~-----------------dkLaii~~ivemLHNsSLLIDDIEDNs 81 (322)
T KOG0777|consen 21 SILLKPYNYILQKP--GKQFRLNLIVAFNHWLNLPK-----------------DKLAIISQIVEMLHNSSLLIDDIEDNS 81 (322)
T ss_pred HHHhchHHHHHhCc--hHHHHHHHHHHHHHHHhCCH-----------------HHHHHHHHHHHHHhccceeeccccccc
Confidence 35677788999977 99999999999999997653 256678899999999999999999999
Q ss_pred CCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCC-CCHHHHHHHHHh
Q 014378 192 DTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQR-CSMDYYMQKTYY 270 (426)
Q Consensus 192 ~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~-~s~~~Yl~ii~~ 270 (426)
..|||.|++|..||....|++++|++.+|.+.+..+..|+.+.++.+-+..+..||.+|+.|+.... +++++|..|+-.
T Consensus 82 ~LRRG~pvaHsIyGvpStINtANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~tcPtee~Yk~Mv~~ 161 (322)
T KOG0777|consen 82 PLRRGQPVAHSIYGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLTCPTEEMYKNMVMN 161 (322)
T ss_pred hhhcCCcchhhhccCcchhhhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCcCCCHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999987654 488999999999
Q ss_pred hhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhhCc-
Q 014378 271 KTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFP- 349 (426)
Q Consensus 271 KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~- 349 (426)
|||-||.++.++.-.++....+ +..+-.-+|+.|||+|||+++..-+..-.|..+.||.|||.+.|+++|+...+
T Consensus 162 KTGGLF~La~rLMqlfS~~ked----l~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~t~~q 237 (322)
T KOG0777|consen 162 KTGGLFRLALRLMQLFSHHKED----LVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALKTKGQ 237 (322)
T ss_pred hcccHHHHHHHHHHHHHhcchh----HHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhhcCCc
Confidence 9999999999999888855444 55666789999999999999987777778999999999999999999997654
Q ss_pred --hHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCC
Q 014378 350 --QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENN 403 (426)
Q Consensus 350 --~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~ 403 (426)
++..++.++..+-+-...++.++++.|+++|++....+...+|...++....++
T Consensus 238 ~~Qvl~ILrqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g~Np 293 (322)
T KOG0777|consen 238 TEQVLRILRQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDGENP 293 (322)
T ss_pred hHHHHHHHHHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 456677777666666678999999999999999999999999999999998888
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=4.7e-35 Score=282.36 Aligned_cols=297 Identities=19% Similarity=0.138 Sum_probs=249.7
Q ss_pred hHHHHHHHHHHhcCCCCCCchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 014378 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDA 191 (426)
Q Consensus 112 ~~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~AsLIHDDIiD~s 191 (426)
+++.....|... | ||..|+..++...+++..+... .++....+..++|++|++++..||.|||||+|
T Consensus 38 ~~~~~~L~yN~~-G--GK~nRgl~vv~s~~~L~~~~~l----------~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS 104 (347)
T KOG0711|consen 38 EWLKEVLDYNVI-G--GKLNRGLSVVDSFKALVEPRKL----------DEEELQLALILGWCVELLQAFFLVADDIMDNS 104 (347)
T ss_pred HHHHHHHhccCc-c--cccccchhHHHHHHHhcCccCC----------CHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 467777788754 7 9999999999999999875331 23455678899999999999999999999999
Q ss_pred CCCCCCCccccccCh-hHHHHHHHHHHHHHHHHHHc-----CCCHHHHHHHHHHHHHHHHHHHHhhcccC--CCCCCHHH
Q 014378 192 DTRRGIGSLNFVMGN-KLAVLAGDFLLSRACVALAS-----LKNTEVVTLLATVVEHLVTGETMQMTTSS--DQRCSMDY 263 (426)
Q Consensus 192 ~~RRG~pt~h~~~G~-~~AVlaGD~Lla~a~~~la~-----l~~~~v~~~ls~~~~~l~~Gq~~dl~~~~--~~~~s~~~ 263 (426)
.+|||+|||+.+-|. -.|||-+-+|-+.-..+|.+ ....++++++.++....+.|++++-.... ...+|++.
T Consensus 105 ~tRRGqpCWy~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~ 184 (347)
T KOG0711|consen 105 KTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVTFQTELGDLLTTPEGNKDLSKFSLEK 184 (347)
T ss_pred cccCCCcceeecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHHHHHhhhccccCcccchhHhhhhHHH
Confidence 999999999999999 47899887777766666652 12367899999999999999665543322 23468899
Q ss_pred HHHHHHhhhhhH-HHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHH
Q 014378 264 YMQKTYYKTASL-ISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 341 (426)
Q Consensus 264 Yl~ii~~KTasL-~~~a~~~ga~lag~-~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPv 341 (426)
|..|+.+|||.+ |-+|.++|.+++|. ..+.......+-..+|..||++||+||++||++.+|| .|+||.++|+||.+
T Consensus 185 y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgk-iGtDIqDnKCsWlv 263 (347)
T KOG0711|consen 185 YVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCSWLV 263 (347)
T ss_pred HHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCC-CCCccccCceeeeh
Confidence 999999999999 99999999999995 5667788899999999999999999999999999999 59999999999999
Q ss_pred HHHhhh-CchHHHHHHcccC--ChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHH
Q 014378 342 LFAMEE-FPQLRTVVEQGFE--DSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLT 418 (426)
Q Consensus 342 l~Al~~-~~~l~~~l~~~~~--~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~~~~L~~l~ 418 (426)
.+|++. .+++.+++...+. +++.++.+..+..+.+.-+.-.+.-.....+..+.|+.++++... .+..+..++
T Consensus 264 ~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~~f~~yE~~~~~~Ik~~I~~~~~~~~~----~~~v~t~fl 339 (347)
T KOG0711|consen 264 VKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPALFIEYEEGSYKKIKKLISQVDEDTGV----KVKVGTSFL 339 (347)
T ss_pred HHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHhhhhHHHHHHHHHHHccCCCcc----hhhhHHHHH
Confidence 999998 5788888877776 567899999999998888888888888888888888888777632 566777899
Q ss_pred HHHHhccC
Q 014378 419 HRVITRNK 426 (426)
Q Consensus 419 ~~v~~R~k 426 (426)
..+.+|+|
T Consensus 340 ~kiykr~k 347 (347)
T KOG0711|consen 340 NKIYKRSK 347 (347)
T ss_pred HHHHhhcC
Confidence 99999875
No 15
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=99.93 E-value=4.8e-23 Score=192.20 Aligned_cols=226 Identities=31% Similarity=0.437 Sum_probs=192.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccc---cChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014378 168 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV---MGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (426)
Q Consensus 168 ~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~---~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~ 244 (426)
..++.++|.+|+++++||||+|++..|+|.++++.. +|...+++.|++++..++..+.....+.+...+.+.+.+++
T Consensus 13 ~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (243)
T cd00385 13 SRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLL 92 (243)
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 478899999999999999999999999999999988 99999999999999999999988777889999999999999
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
.||..|+.+..+...+.++|+.+.+.|||.++...|..++...+.+....+.+..+|.++|++||+.||+.||..+.+..
T Consensus 93 ~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~ 172 (243)
T cd00385 93 EGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG 172 (243)
T ss_pred HHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh
Confidence 99999999876556799999999999999999999999998888777778899999999999999999999998876432
Q ss_pred CCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014378 325 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 404 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 404 (426)
+|+.|+|.+++.+....-.+. ..+..++.++.+...+..+.+++++.+..+.....
T Consensus 173 ---------~~~~~l~~~~~~~~~~~~~~~---------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 173 ---------EGKCTLPVLYALEYGVPAEDL---------------LLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred ---------CCchHHHHHHHHHhCChhhHH---------------HHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 578999999988764321111 16778889999999999999999999988876541
Q ss_pred cchHHHHHHHHHHHHHH
Q 014378 405 EDVTKSRRALLDLTHRV 421 (426)
Q Consensus 405 ~~~~~~~~~L~~l~~~v 421 (426)
.....+...+..+
T Consensus 229 ----~~~~~~~~~~~~~ 241 (243)
T cd00385 229 ----DVPRALLALALNL 241 (243)
T ss_pred ----HHHHHHHHHHHHH
Confidence 1344454444443
No 16
>PF07307 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; InterPro: IPR009920 This family contains subunit 1 of bacterial heptaprenyl diphosphate synthase (HEPPP synthase) (2.5.1.30 from EC) (approximately 230 residues long). The enzyme consists of two subunits, both of which are required for catalysis of heptaprenyl diphosphate synthesis, the precursor for the side chain of the isoprenoid quinone menaquinone-7 (MQ-7) [, ].
Probab=97.80 E-value=0.00065 Score=64.29 Aligned_cols=102 Identities=19% Similarity=0.221 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q 014378 166 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 245 (426)
Q Consensus 166 ~~~~lA~aiEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~~ 245 (426)
+....+.++-++|+|...||.|-. +..+.+...-.+ ...||+|||.-+..+.+|+..++..++..+++++..+.+
T Consensus 34 ~~~~~~~a~~LVq~aLDtHd~V~~-~~~~~~~~~k~R----QLtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE 108 (212)
T PF07307_consen 34 EAERYALATMLVQIALDTHDEVDN-AGDESEESSKER----QLTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKEINE 108 (212)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc-ccccccHHHHhh----hhhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 566788999999999999999976 333322222222 469999999999999999999999999999999999999
Q ss_pred HHHHhhcccCCCCCCHHHHHHHHH-hhhhhH
Q 014378 246 GETMQMTTSSDQRCSMDYYMQKTY-YKTASL 275 (426)
Q Consensus 246 Gq~~dl~~~~~~~~s~~~Yl~ii~-~KTasL 275 (426)
..+.=-... ..+.++|++.+. -+|+-+
T Consensus 109 ~K~~ly~~~---~~~~e~~~~~~~~ies~l~ 136 (212)
T PF07307_consen 109 LKMSLYQKK---KETAEEYLESVVTIESALF 136 (212)
T ss_pred HHHHHHHhh---hCCHHHHHHHHHHHHHHHH
Confidence 986543332 347788776443 344433
No 17
>PLN02632 phytoene synthase
Probab=96.85 E-value=0.21 Score=50.78 Aligned_cols=139 Identities=14% Similarity=0.098 Sum_probs=89.3
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHHHHHhhhhhcc
Q 014378 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT--AEVAILAFDYGKNLGLAYQLIDDVL 315 (426)
Q Consensus 238 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~--~~~~~~l~~~G~~lGiafQI~DDll 315 (426)
..+..+++|..+|+... ...|++++..-+++-.|.+..+.+.+ ++..+ ....+.+...+.++|+|+|+.|=+.
T Consensus 140 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILR 214 (334)
T PLN02632 140 QPFRDMIEGMRMDLVKS--RYENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILR 214 (334)
T ss_pred HHHHHHHHHHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 44678899999998753 34578888887777777776665544 33222 2223456788999999999999888
Q ss_pred cccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHH
Q 014378 316 DFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 395 (426)
Q Consensus 316 D~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~ 395 (426)
|+ +.|+..|.+-+|.=..-+.+=...+++... .++ .+.. + +.+-...++.|+++|...
T Consensus 215 Dv-----------~eD~~~GRvYLP~e~L~~~Gv~~edl~~~~-~~~-~~~~---l------~~~~~~~Ar~~~~~a~~~ 272 (334)
T PLN02632 215 DV-----------GEDARRGRVYLPQDELAQFGLTDEDIFAGK-VTD-KWRA---F------MKFQIKRARMYFAEAEEG 272 (334)
T ss_pred HH-----------HHHHhCCceeCCHHHHHHcCCCHHHHhcCC-CCH-HHHH---H------HHHHHHHHHHHHHHHHHh
Confidence 87 567888999988644322211122222221 121 2222 1 233336789999999999
Q ss_pred hccCCCCC
Q 014378 396 IDSLPENN 403 (426)
Q Consensus 396 L~~lp~~~ 403 (426)
+..+|...
T Consensus 273 l~~lp~~~ 280 (334)
T PLN02632 273 VSELDPAS 280 (334)
T ss_pred HhhCCHHh
Confidence 99998654
No 18
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=96.68 E-value=0.044 Score=53.29 Aligned_cols=141 Identities=20% Similarity=0.184 Sum_probs=88.6
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhc
Q 014378 235 LLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDV 314 (426)
Q Consensus 235 ~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDl 314 (426)
+-.+.+..+++|...|+.... ..|.+++..-+++-+|++..+.+.+. +..+++ ..+..++.++|.|+|+.|=+
T Consensus 88 l~~~~l~~li~~~~~dl~~~~--~~t~~~L~~Y~~~vag~vg~l~~~~~---~~~~~~--~~~~~~a~~lG~alql~nil 160 (267)
T PF00494_consen 88 LPREPLLELIDGMEMDLEFTP--YETFADLERYCYYVAGSVGLLLLQLL---GAHDPD--EAARDAARALGRALQLTNIL 160 (267)
T ss_dssp HHHHHHHHHHHHHHHCTT-S----SSHHHHHHHHHHHTHHHHHHHHHHH---HSSTSH--HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHhcccccCCC--CCCHHHHHHHHHHHHHHHHHHHHHHh---ccccch--hhHHHHHHHHHHHHHHHHHH
Confidence 344567889999999988643 45889998888888888877755553 221211 45678889999999999988
Q ss_pred ccccCCccccCCCccch-hccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Q 014378 315 LDFTGTSASLGKGSLSD-IRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAA 393 (426)
Q Consensus 315 lD~~g~~~~~GK~~g~D-l~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~ 393 (426)
.|+ +.| +..|++-+|.=..-+..=...+++... ...+.+..+ +..-...++.|.++|.
T Consensus 161 Rd~-----------~~D~~~~gR~ylP~d~l~~~gv~~~dl~~~~-~~~~~~~~~---------~~~~~~~A~~~l~~a~ 219 (267)
T PF00494_consen 161 RDI-----------PEDALRRGRIYLPLDDLRRFGVTPEDLLAGR-PRSERLRAL---------IRELAARARAHLDEAR 219 (267)
T ss_dssp HTH-----------HHH-HHTT---S-HHHHHHTTSSHHHHHHHG--GGHHHHHH---------HHHHHHHHHHHHHHHH
T ss_pred HHh-----------HHHHHhcccccCCchhHHHcCCCHHHHHhcc-cCCHHHHHH---------HHHHHHHHHHHHHHHH
Confidence 886 567 788999988765433221122222221 111113322 2455688999999999
Q ss_pred HHhccCCCCC
Q 014378 394 AAIDSLPENN 403 (426)
Q Consensus 394 ~~L~~lp~~~ 403 (426)
..+..+|+..
T Consensus 220 ~~~~~l~~~~ 229 (267)
T PF00494_consen 220 AGLSALPPPR 229 (267)
T ss_dssp HGGGGS--TT
T ss_pred HHHHHcCCHh
Confidence 9999996655
No 19
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=96.66 E-value=0.34 Score=47.25 Aligned_cols=136 Identities=20% Similarity=0.208 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014378 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (426)
Q Consensus 238 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~ 317 (426)
+.+..+++|..+|+... ...|++++..-+++-.|+...+.+.+ ++.... +.+..++.++|+|+|+.|=+.|+
T Consensus 93 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv 164 (265)
T cd00683 93 EPFRDLLAGMAMDLDKR--RYETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDV 164 (265)
T ss_pred HHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688899999998853 34577887777777666665554443 332111 23568899999999999988887
Q ss_pred cCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014378 318 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 397 (426)
Q Consensus 318 ~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 397 (426)
+.|+..|++.+|.=..-+.+-...+++.. . ..+.+..+ +.+-...|+.|...|...+.
T Consensus 165 -----------~eD~~~gR~YlP~d~l~~~gv~~~~l~~~-~-~~~~~~~~---------~~~~~~~A~~~~~~a~~~~~ 222 (265)
T cd00683 165 -----------GEDARRGRIYLPREELARFGVTLEDLLAP-E-NSPAFRAL---------LRRLIARARAHYREALAGLA 222 (265)
T ss_pred -----------HHHHccCCCcCCHHHHHHcCCCHHHHcCC-C-CCHHHHHH---------HHHHHHHHHHHHHHHHHhHH
Confidence 46778899998875543322122222221 1 12223222 34445779999999999999
Q ss_pred cCCCCC
Q 014378 398 SLPENN 403 (426)
Q Consensus 398 ~lp~~~ 403 (426)
.+|...
T Consensus 223 ~lp~~~ 228 (265)
T cd00683 223 ALPRRS 228 (265)
T ss_pred hCCHhh
Confidence 999543
No 20
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=96.14 E-value=0.092 Score=53.37 Aligned_cols=151 Identities=15% Similarity=0.148 Sum_probs=94.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHh
Q 014378 230 TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQ 309 (426)
Q Consensus 230 ~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQ 309 (426)
+..-..+.+.+..|..|..+++........|.++|..-+++=.|.-=.+.+.+-+. +|...+......+++..+|+|+|
T Consensus 100 ~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQ 178 (336)
T TIGR01559 100 PKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQ 178 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHH
Confidence 45667777888999999988876542212688888887777655544444444322 23222212234678999999999
Q ss_pred hhhhcccccCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHH
Q 014378 310 LIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHA 389 (426)
Q Consensus 310 I~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~ 389 (426)
+.|=+.|+ +.|+.+|++=||.=..-+......++. .++.-+.+.+ .+..-...|..|+
T Consensus 179 lTNIlRDv-----------~ED~~~GR~YlP~e~l~~~g~~~~dl~-----~~~~~~~~~~------~l~~lv~~A~~~~ 236 (336)
T TIGR01559 179 KTNIIRDY-----------LEDINEGRMFWPREIWSKYAKKLGDFK-----KPENSDKALQ------CLNELVTNALHHA 236 (336)
T ss_pred HHHHHHHH-----------HhHHhCCCCCCCHHHHHHcCCCHHHhc-----CccccHHHHH------HHHHHHHHHHHHH
Confidence 99988887 467788998888542222111222211 1222222222 2344457788999
Q ss_pred HHHHHHhccCCCCC
Q 014378 390 NLAAAAIDSLPENN 403 (426)
Q Consensus 390 ~~A~~~L~~lp~~~ 403 (426)
+.|...+..+++..
T Consensus 237 ~~al~yl~~l~~~~ 250 (336)
T TIGR01559 237 TDCLTYLSRLRDQS 250 (336)
T ss_pred HHHHHHHHhCCCcc
Confidence 99999999997654
No 21
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=95.98 E-value=0.25 Score=48.28 Aligned_cols=135 Identities=16% Similarity=0.090 Sum_probs=89.1
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014378 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (426)
Q Consensus 238 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~ 317 (426)
..+..+++|...|+... ...|.+++..-++.-.|++..+.+.+ ++..++ ....++.++|.|+|+.|=+.|+
T Consensus 85 ~~~~~li~g~~~Dl~~~--~~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv 155 (266)
T TIGR03465 85 EDFLEVIDGMEMDLEQT--RYPDFAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred HHHHHHHHHHHHHcCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh
Confidence 44688899999998754 34688888888887777777766554 333332 3467889999999999988886
Q ss_pred cCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014378 318 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 397 (426)
Q Consensus 318 ~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 397 (426)
+.|+..|++.+|.=..-+.+-...++... ..+ +.+..+ +.+-...++.|.++|...+.
T Consensus 156 -----------~eD~~~gR~ylP~~~l~~~gv~~~~l~~~-~~~-~~~~~~---------~~~l~~~A~~~l~~a~~~~~ 213 (266)
T TIGR03465 156 -----------GEDARRGRIYLPAEELQRFGVPAADILEG-RYS-PALAAL---------CRFQAERARAHYAEADALLP 213 (266)
T ss_pred -----------HHHHhCCCeecCHHHHHHcCCCHHHhcCC-CCC-HHHHHH---------HHHHHHHHHHHHHHHHHhhh
Confidence 46778899999875433322112222221 111 222222 23444678889999999988
Q ss_pred cCCCCC
Q 014378 398 SLPENN 403 (426)
Q Consensus 398 ~lp~~~ 403 (426)
.+|...
T Consensus 214 ~~p~~~ 219 (266)
T TIGR03465 214 ACDRRA 219 (266)
T ss_pred hCCHhh
Confidence 888643
No 22
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=95.59 E-value=0.56 Score=45.92 Aligned_cols=135 Identities=10% Similarity=-0.025 Sum_probs=86.9
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014378 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (426)
Q Consensus 238 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~ 317 (426)
..+..+++|..+|+... ...|.+++..-+++-.|++..+.+.+ ++..+++ ...++.++|.|+|+.|=+-|+
T Consensus 86 ~~~~~li~~~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl 156 (266)
T TIGR03464 86 EPFLDLLDAFRQDVVVT--RYATWAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDV 156 (266)
T ss_pred HHHHHHHHHHHHhccCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhh
Confidence 34678888998888754 24578888777777777776665543 3333333 246789999999999988775
Q ss_pred cCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014378 318 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 397 (426)
Q Consensus 318 ~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 397 (426)
+.|+..|.+.+|.=..-+.+=...+++.. .. ...+..+ +..-...|+.|.++|...+.
T Consensus 157 -----------~eD~~~gR~YLP~~~l~~~Gv~~edl~~~-~~-~~~~~~~---------~~~~~~~A~~~~~~a~~~~~ 214 (266)
T TIGR03464 157 -----------GVDYRKGRVYLPRDDLARFGVSEEDLAAG-RA-TPALREL---------MAFEVSRTRALLDRGAPLAA 214 (266)
T ss_pred -----------HHHHhcCCccCCHHHHHHcCCCHHHHhcC-CC-CHHHHHH---------HHHHHHHHHHHHHHHHHhHH
Confidence 56778899998864432221112223222 11 1222222 34445778999999999999
Q ss_pred cCCCCC
Q 014378 398 SLPENN 403 (426)
Q Consensus 398 ~lp~~~ 403 (426)
.+|...
T Consensus 215 ~lp~~~ 220 (266)
T TIGR03464 215 RVDGRL 220 (266)
T ss_pred hCCHhh
Confidence 998653
No 23
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=90.89 E-value=12 Score=36.69 Aligned_cols=90 Identities=11% Similarity=0.120 Sum_probs=59.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhhcccCC-CCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcC--CCHHHHH--HHHHHHHH
Q 014378 229 NTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLISNSCKAIALLAG--QTAEVAI--LAFDYGKN 303 (426)
Q Consensus 229 ~~~v~~~ls~~~~~l~~Gq~~dl~~~~~-~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag--~~~~~~~--~l~~~G~~ 303 (426)
.+.....+.+.+...+.|...+..+... ..++.++|+++=..-.|..+... ++-...| .++...+ .+..+-..
T Consensus 127 ~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~--l~~~~~g~~lp~~~~~~~~~~~l~~~ 204 (303)
T cd00687 127 SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLG--LSEFIGGPEVPAAVRLDPVMRALEAL 204 (303)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHH--HHHHhcCCCCCHHHHhChHHHHHHHH
Confidence 4677788888999999999888766433 34699999975443334443222 2222223 3444333 36778888
Q ss_pred HHHHHhhhhhcccccCC
Q 014378 304 LGLAYQLIDDVLDFTGT 320 (426)
Q Consensus 304 lGiafQI~DDllD~~g~ 320 (426)
.+...-+.||+..|..+
T Consensus 205 ~~~~~~l~NDl~S~~KE 221 (303)
T cd00687 205 ASDAIALVNDIYSYEKE 221 (303)
T ss_pred HHHHHHHHHHHHhhHHH
Confidence 88889999999998644
No 24
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=88.52 E-value=22 Score=35.46 Aligned_cols=136 Identities=16% Similarity=0.152 Sum_probs=80.6
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014378 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (426)
Q Consensus 238 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~ 317 (426)
..+.++..|..+|+....- .+++++..-+++ ||..... -+..+++-.. ..........+|.|+|+.|=+.|+
T Consensus 103 ~~~~~~~da~~~Dl~~~~y--~~~~eL~~Yc~~-vAg~vG~--l~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRdv 174 (288)
T COG1562 103 EAFPALIDAMRMDLDRTRY--LDFEELEEYCYG-VAGAVGL--LLARILGPDK---DAATRAYARGLGLALQLVNILRDV 174 (288)
T ss_pred HHHHHHHHHHHHHhhhccc--cCHHHHHHHHHH-hHHHHHH--HHHHHhCccc---chhhHHHHHHHHHHHHHHHHHHHh
Confidence 5678889999999877532 345555444444 3333222 1233444322 233444555599999999988886
Q ss_pred cCCccccCCCccchhccCcccHHHHHHhhhCchHHHHHHcccCChhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014378 318 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 397 (426)
Q Consensus 318 ~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~~~l~~~l~~~~~~~~~v~~~~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 397 (426)
+.|.+.|++=+|.=-..+-.....++..... .+.+..+ +++-...++.|...|...+.
T Consensus 175 -----------~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~--~~~~~~~---------~~~~~~~ar~~~~~a~~~~~ 232 (288)
T COG1562 175 -----------GEDRRRGRVYLPAEELARFGVSEADLLAGRV--DDAFREL---------MRFEADRARDHLAEARRGLP 232 (288)
T ss_pred -----------HHHHhCCcccCCHHHHHHhCCCHHHHHcccc--hhHHHHH---------HHHHHHHHHHHHHHHHHhhh
Confidence 5788889988885332222222233332211 1122222 24445788899999999999
Q ss_pred cCCCCC
Q 014378 398 SLPENN 403 (426)
Q Consensus 398 ~lp~~~ 403 (426)
.+|...
T Consensus 233 ~lp~~~ 238 (288)
T COG1562 233 ALPGRA 238 (288)
T ss_pred hCCccc
Confidence 998876
No 25
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=88.46 E-value=15 Score=35.86 Aligned_cols=156 Identities=15% Similarity=0.065 Sum_probs=82.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCC---CCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014378 168 QCIAEITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (426)
Q Consensus 168 ~~lA~aiEliH~AsLIHDDIiD~s~---~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~~l~ 244 (426)
.-...++=++|.+..+.+|+.|-+. .|..+|-+..+...+.|...+=.+..-+.-...-+ ++...-. . +-.+.
T Consensus 40 ~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l-~~~~~~~-~--~~~~~ 115 (279)
T PRK12884 40 LLGFLTAFFASGSANALNDYFDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI-SPLAFLV-V--ILVSV 115 (279)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHH-H--HHHHH
Confidence 3344566799999999999977432 36677777777777778777766665554333322 2222111 0 11111
Q ss_pred HHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCcccc
Q 014378 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (426)
Q Consensus 245 ~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~ 324 (426)
.+=..-...+.. .-..+.. .|..+..+...|+...+......-.+.-+.--..+.+++..|+.|..+
T Consensus 116 ~~~~Ys~~lK~~--~~~~~~~------~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e~----- 182 (279)
T PRK12884 116 LGILYNWKLKEY--GLIGNLY------VAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVEG----- 182 (279)
T ss_pred HHHHHHHhhccc--cchhHHH------HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhh-----
Confidence 122221111111 0011111 122234444445443333322222333445555667888899988764
Q ss_pred CCCccchhccCcccHHHHHHhh
Q 014378 325 GKGSLSDIRHGIITAPILFAME 346 (426)
Q Consensus 325 GK~~g~Dl~~Gk~TlPvl~Al~ 346 (426)
|-+.|+.|+|+.+--+
T Consensus 183 ------D~~~G~~Tl~v~~G~~ 198 (279)
T PRK12884 183 ------DRLRGARTLAILYGEK 198 (279)
T ss_pred ------HHHcCCeeechHhcHH
Confidence 4578999999988554
No 26
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=84.09 E-value=20 Score=35.11 Aligned_cols=57 Identities=11% Similarity=-0.073 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCC---CCCCCCCccccccChhHHHHHHHHHHHHHHHHHH
Q 014378 169 CIAEITEMIHVASLLHDDVLDDA---DTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 225 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~s---~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la 225 (426)
-+..+.=++|.++.+..|+.|-+ ..|+.+|-.......+.|...+=.+...++-...
T Consensus 42 l~~l~~~l~~~~~~~~Nd~~D~~iD~~~~~~Rpl~~G~is~~~a~~~~~~l~~~g~~~~~ 101 (276)
T PRK12882 42 LAFAAVFLATGAGNAINDYFDREIDRINRPDRPIPSGAVSPRGALAFSILLFAAGVALAF 101 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccccccCCCCCcCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34445568899999999997743 4468888888888899999888888777765444
No 27
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=71.89 E-value=82 Score=30.84 Aligned_cols=56 Identities=11% Similarity=-0.061 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCC---CCCCCccccccChhHHHHHHHHHHHHHHHHH
Q 014378 169 CIAEITEMIHVASLLHDDVLDDADT---RRGIGSLNFVMGNKLAVLAGDFLLSRACVAL 224 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~s~~---RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~l 224 (426)
-...++=++|.+..+..|+.|-+.- ++.+|-+..+...+.|...+=.++.-++...
T Consensus 41 l~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l~ 99 (279)
T PRK09573 41 LAALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLILS 99 (279)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHHHH
Confidence 3444566899999999999885443 3678888888899999999888877776443
No 28
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=67.89 E-value=1.2e+02 Score=29.11 Aligned_cols=88 Identities=11% Similarity=0.038 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccC-CCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcC--CCH---HHHHHHHHHHHHH
Q 014378 231 EVVTLLATVVEHLVTGETMQMTTSS-DQRCSMDYYMQKTYYKTASLISNSCKAIALLAG--QTA---EVAILAFDYGKNL 304 (426)
Q Consensus 231 ~v~~~ls~~~~~l~~Gq~~dl~~~~-~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag--~~~---~~~~~l~~~G~~l 304 (426)
.....+.+.+..++.|...+..+.. ...++.++|+.+-..-.|..+..++.. ...| .++ .....+..+....
T Consensus 122 ~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~--~~~g~~l~~~~~~~~~~~~~l~~~~ 199 (284)
T cd00868 122 ESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSF--LGMGDILPEEAFEWLPSYPKLVRAS 199 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHH--HHcCCCCCHHHHHHhhhhHHHHHHH
Confidence 6777888889999999988877653 345799999986555444433222211 1122 343 3456677788888
Q ss_pred HHHHhhhhhcccccCC
Q 014378 305 GLAYQLIDDVLDFTGT 320 (426)
Q Consensus 305 GiafQI~DDllD~~g~ 320 (426)
+..--+.||+..|..+
T Consensus 200 ~~~~~l~NDl~S~~kE 215 (284)
T cd00868 200 STIGRLLNDIASYEKE 215 (284)
T ss_pred HHHHHHhccchHHHHH
Confidence 8888899999988544
No 29
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=62.26 E-value=1.5e+02 Score=29.62 Aligned_cols=52 Identities=8% Similarity=-0.113 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCC---CCCCccccccChhHHHHHHHHHHHHHHHH
Q 014378 172 EITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRACVA 223 (426)
Q Consensus 172 ~aiEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~Lla~a~~~ 223 (426)
.+.=++|.++.+..|+.|.+.-| +.+|...-+...+.+...+-.++..++-.
T Consensus 72 l~~~l~~~~~~~~Nd~~D~~~D~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l 126 (314)
T PRK07566 72 LAGPLLCGTSQTLNDYFDREVDAINEPYRPIPSGAISLRWVLYLIAVLTVLGLAV 126 (314)
T ss_pred HHHHHHHHHHHHHhhhhccCccccCCCCCCCCCceeCHHHHHHHHHHHHHHHHHH
Confidence 34557999999999999965434 55777777788888888887776666543
No 30
>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase, proteobacterial. A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterized members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterized members.
Probab=62.21 E-value=1.6e+02 Score=28.85 Aligned_cols=57 Identities=16% Similarity=0.005 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCC----CCC-CCCCccccccChhHHHHHHHHHHHHHHHHHH
Q 014378 169 CIAEITEMIHVASLLHDDVLDDA----DTR-RGIGSLNFVMGNKLAVLAGDFLLSRACVALA 225 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~s----~~R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~~la 225 (426)
-+..++=++|.+..+..|+.|.+ ..| +.+|-..-+...+.|...+-.+...++-...
T Consensus 44 ~~~~~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~~~~l~~ 105 (281)
T TIGR01474 44 LFTVGAILMRGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVALGVLL 105 (281)
T ss_pred HHHHHHHHHHHHHHHHHhHhhhcccccCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34445568899999999997742 233 4688888888889998888877777665444
No 31
>PLN00012 chlorophyll synthetase; Provisional
Probab=62.05 E-value=90 Score=32.32 Aligned_cols=49 Identities=8% Similarity=-0.093 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCC---CCCCccccccChhHHHHHHHHH
Q 014378 168 QCIAEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFL 216 (426)
Q Consensus 168 ~~lA~aiEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~L 216 (426)
..+..+.=+++.++-+..|+.|.+.-+ +.+|........+.++..+-.+
T Consensus 126 l~~ll~~~L~~~~an~iNDy~D~~iD~~~~~~Rpi~sG~Is~~~al~~~~~l 177 (375)
T PLN00012 126 VCMLMSGPFLTGYTQTINDWYDREIDAINEPYRPIPSGAISENEVITQIWVL 177 (375)
T ss_pred HHHHHHHHHHHHHHHHHHCeecHhhhccCCCCCCcCCCccCHHHHHHHHHHH
Confidence 334445678889999999998844322 5577777777778887744333
No 32
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=61.74 E-value=1.6e+02 Score=29.51 Aligned_cols=57 Identities=12% Similarity=-0.073 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCC---CCCC--CCCccccccChhHHHHHHHHHHHHHHHHHH
Q 014378 169 CIAEITEMIHVASLLHDDVLDDA---DTRR--GIGSLNFVMGNKLAVLAGDFLLSRACVALA 225 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~s---~~RR--G~pt~h~~~G~~~AVlaGD~Lla~a~~~la 225 (426)
-...+.=++|.++.+..|+.|.+ ..+| .+|....+...+.|+..+-.+...++-.+.
T Consensus 76 l~~l~~~l~~~a~~~~Nd~~Dr~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~g~~l~~ 137 (314)
T PRK12878 76 LFFVGAIAMRGAGCTYNDIVDRDIDAKVARTRSRPLPSGQVSRKQAKVFMVLQALVGLAVLL 137 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34455668999999999997732 3444 589888888899998777777666655444
No 33
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=57.59 E-value=2e+02 Score=28.29 Aligned_cols=158 Identities=18% Similarity=0.088 Sum_probs=91.8
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCC-----CCCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 014378 167 QQCIAEITEMIHVASLLHDDVLDDADTRR-----GIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVE 241 (426)
Q Consensus 167 ~~~lA~aiEliH~AsLIHDDIiD~s~~RR-----G~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v~~~ls~~~~ 241 (426)
..-...+.=+.-.+..+.+|+.|.+.-|. .+|-..-+-..+.|....-.++..++....-+......-.+.-.+.
T Consensus 49 ~~l~~l~~~~~~~ag~~iND~~D~eiD~~n~rt~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l~~~~~~l~~~~~~l 128 (289)
T COG0382 49 LLLAFLAFFLARSAGYVINDLADREIDRINPRTKNRPLPSGRVSVKEALLLAILLLLLGLALALLLNPLAFLLSLAALVL 128 (289)
T ss_pred HHHHHHHHHHHHHHhHHHHHHhhhhccCCCCCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34445555677888999999988554443 5566666667777777776666666544433332112111222222
Q ss_pred HHHHHHHHhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHhhhhhcccccCC
Q 014378 242 HLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTGT 320 (426)
Q Consensus 242 ~l~~Gq~~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~-~~~~~~~l~~~G~~lGiafQI~DDllD~~g~ 320 (426)
.... ...+ ...-..++. -|..+..+.-.|+...+. .....-.+.-+..-..++|.+..|+.|..+|
T Consensus 129 ~~~Y-----~~~K--r~~~~~~~~------lg~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~D 195 (289)
T COG0382 129 ALAY-----PFLK--RFTFLPQLV------LGLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEGD 195 (289)
T ss_pred HHHH-----HHhh--cCCchHHHH------HHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccch
Confidence 2222 1111 111122222 245566666666655553 2334456777778888999999999999766
Q ss_pred ccccCCCccchhccCcccHHHHHHhhhC
Q 014378 321 SASLGKGSLSDIRHGIITAPILFAMEEF 348 (426)
Q Consensus 321 ~~~~GK~~g~Dl~~Gk~TlPvl~Al~~~ 348 (426)
. +.|..|.|+.+-.+..
T Consensus 196 ~-----------~~G~~s~~~~~G~~~a 212 (289)
T COG0382 196 R-----------KAGLKSLPVLFGIKKA 212 (289)
T ss_pred H-----------hcCCcchHHHhCchhH
Confidence 4 6688888888865543
No 34
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=57.57 E-value=2.2e+02 Score=28.75 Aligned_cols=49 Identities=31% Similarity=0.278 Sum_probs=31.4
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHH
Q 014378 283 IALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 343 (426)
Q Consensus 283 ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~ 343 (426)
++.+.|.+.+....+...-+-+=.|..|.||+.| .+++|.|++|+-..|
T Consensus 55 ~~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D------------~s~~RRG~pt~~~~~ 103 (323)
T PRK10888 55 AARAVGYQGNAHVTIAALIEFIHTATLLHDDVVD------------ESDMRRGKATANAAF 103 (323)
T ss_pred HHHHcCCChHHHHHHHHHHHHHHHHHHHHccccc------------CCcccCCCCCHHHHh
Confidence 3344454444444455556777788999999987 245677777765544
No 35
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=55.96 E-value=1.9e+02 Score=28.88 Aligned_cols=47 Identities=13% Similarity=0.072 Sum_probs=30.9
Q ss_pred HHHHHHhhcCCCCCC----C-CC---------CCCCccccccChhHHHHHHHHHHHHHHHHH
Q 014378 177 IHVASLLHDDVLDDA----D-TR---------RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 224 (426)
Q Consensus 177 iH~AsLIHDDIiD~s----~-~R---------RG~pt~h~~~G~~~AVlaGD~Lla~a~~~l 224 (426)
.|.+ .+..|+.|.+ + .| +.+|....+...+.|...+=.+..-++-.+
T Consensus 54 ~~ag-~~iND~~D~~~D~~~v~rtm~r~~~P~~~Rpl~sG~is~~~a~~~~i~l~~i~~~l~ 114 (297)
T PRK12871 54 FEAG-FVLNDYVDRKRDRLDVENTLTRYWRPFKERPIPSGKLSSKNAFALFILLAAVTSALI 114 (297)
T ss_pred HHHH-HHHhhHHHHhcCcchHhhhhhccccCCCCCccCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 3555 4888886531 2 11 467777778888888888877776665443
No 36
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II. Members of this family are component II of the heterodimeric heptaprenyl diphosphate synthase. The trusted cutoff was set such that all members identified are encoded near to a recognizable gene for component I (in Pfam family pfam07307). This enzyme acts in menaquinone-7 isoprenoid side chain biosynthesis.
Probab=55.93 E-value=1.2e+02 Score=30.43 Aligned_cols=48 Identities=19% Similarity=0.123 Sum_probs=30.4
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHH
Q 014378 284 ALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 343 (426)
Q Consensus 284 a~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~ 343 (426)
+.+.|.+.+....+...-+-|=.|.-|.||+.|= +++|.|++|.-..|
T Consensus 55 ~~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~------------s~~RRg~pt~~~~~ 102 (319)
T TIGR02748 55 GKFGDYDLDAIKHVAVALELIHMASLVHDDVIDD------------ADLRRGRPTIKSKW 102 (319)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHhccccCC------------CCCCCCCcCHHHHh
Confidence 3445555554444555666777888999999773 34566777754444
No 37
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=54.49 E-value=2.2e+02 Score=27.80 Aligned_cols=51 Identities=14% Similarity=-0.017 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhhcCCCCCC---CCCCCCCccccccChhHHHHHHHHHHHHHHH
Q 014378 172 EITEMIHVASLLHDDVLDDA---DTRRGIGSLNFVMGNKLAVLAGDFLLSRACV 222 (426)
Q Consensus 172 ~aiEliH~AsLIHDDIiD~s---~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~ 222 (426)
.++=+.|.+..+..|+.|-+ ..|+.+|-+..+...+.|...+=.++.-++.
T Consensus 44 ~~~~~~~~a~~~~Nd~~D~~~D~~n~~~Rpl~sG~is~~~a~~~~~~l~~~g~~ 97 (277)
T PRK12883 44 LVVYLGCSGGNTINDYFDYEIDKINRPNRPLPRGAMSRKAALYYSLLLFAVGLA 97 (277)
T ss_pred HHHHHHHHHHhHHHhhhhHhccccCCCCCCCCCCccCHHHHHHHHHHHHHHHHH
Confidence 34456678889999997733 3456677777777788888877766665543
No 38
>TIGR02056 ChlG chlorophyll synthase, ChlG. This model represents the strictly cyanobacterial and plant-specific chlorophyll synthase ChlG. ChlG is the enzyme (esterase) which attaches the side chain moiety onto chlorophyllide a. Both geranylgeranyl and phytyl pyrophosphates are substrates to varying degrees in enzymes from different sources. Thus, ChlG may act as the final or penultimate step in chlorophyll biosynthesis (along with the geranylgeranyl reductase, ChlP).
Probab=53.53 E-value=2.4e+02 Score=28.09 Aligned_cols=50 Identities=6% Similarity=-0.150 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhhcCCCCCCC---CCCCCCccccccChhHHHHHHHHHHHHHH
Q 014378 172 EITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (426)
Q Consensus 172 ~aiEliH~AsLIHDDIiD~s~---~RRG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (426)
.+.=++|.++-++.|+.|.+. ..|.+|........+.+...+-.++..++
T Consensus 61 l~~~l~~~~~n~~NDy~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~ 113 (306)
T TIGR02056 61 LSGPCLTGYTQTINDFYDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI 113 (306)
T ss_pred HHHHHHHHHHHHHHhHhhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 455799999999999988543 23456777777788888887766665554
No 39
>PF01040 UbiA: UbiA prenyltransferase family; InterPro: IPR000537 The UbiA family of prenyltransferases includes bacterial 4-hydroxybenzoate octaprenyltransferase (gene ubiA); yeast mitochondrial para-hydroxybenzoate--polyprenyltransferase (gene COQ2); and protohaem IX farnesyltransferase (haem O synthase) from yeast and mammals(gene COX10), and from bacteria (genes cyoE or ctaB) [, ]. These are integral membrane proteins, which probably contain seven transmembrane segments. The signature is also found in cytochrome C oxidase assembly factor. The complexity of cytochrome C oxidase requires assistance in building the complex, and this is carried out by the cytochrome C oxidase assembly factor.; GO: 0004659 prenyltransferase activity, 0016021 integral to membrane
Probab=52.29 E-value=2.1e+02 Score=26.89 Aligned_cols=147 Identities=18% Similarity=0.144 Sum_probs=75.1
Q ss_pred HHHHHHHhhcCCCCCCCCCC--C---CCccccccChhHHHHHHHHHHHHHHHHHHcCCCHHH--HHHHHHHHHHHHHHHH
Q 014378 176 MIHVASLLHDDVLDDADTRR--G---IGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEV--VTLLATVVEHLVTGET 248 (426)
Q Consensus 176 liH~AsLIHDDIiD~s~~RR--G---~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~~~~v--~~~ls~~~~~l~~Gq~ 248 (426)
++|.+.-+.||+.|-..-|. + +|-...+...+.+...+-.++..+.-.....+ +.. +-.+.-.+. +..-.-
T Consensus 34 ~~~~~~~~~Nd~~D~~~D~~~~~~~~rPl~~g~i~~~~~~~~~~~~~~l~l~l~~~~~-~~~~~~~~~~~~~~-~~Ys~~ 111 (257)
T PF01040_consen 34 LLQLAVYLLNDYFDYEEDRIHPNKPNRPLPSGRISPRQALIFALILLLLGLLLALLLG-PWFLLILLLGFLLG-LLYSPP 111 (257)
T ss_pred HHHHHHHHhhChhhhhcCcccccccCcchhHHHHhHHHHHHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHH-HHHhhh
Confidence 99999999999988665555 3 34445566666666666666655543332222 222 112222221 111110
Q ss_pred HhhcccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCC
Q 014378 249 MQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT-AEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 327 (426)
Q Consensus 249 ~dl~~~~~~~~s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~-~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~ 327 (426)
..+...+- ..+.. .+..+.....+|+...+.+ ....-.+.-+.--++.+....+|+.|+.+|
T Consensus 112 ~~lk~~~~----~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~D------- 174 (257)
T PF01040_consen 112 LRLKRRPL----WGELV------VALVFGLLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEGD------- 174 (257)
T ss_pred hhhcceec----cchhh------HHHhhhHhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-------
Confidence 01111000 00000 1111233333444444433 223333444446678888888899998755
Q ss_pred ccchhccCcccHHHHHHh
Q 014378 328 SLSDIRHGIITAPILFAM 345 (426)
Q Consensus 328 ~g~Dl~~Gk~TlPvl~Al 345 (426)
.+.|+.|+|+.+-.
T Consensus 175 ----~~~g~~Tl~v~~G~ 188 (257)
T PF01040_consen 175 ----RKAGRRTLPVLLGE 188 (257)
T ss_pred ----HHcCCcchHHHHHH
Confidence 46788999998843
No 40
>TIGR01475 ubiA_other putative 4-hydroxybenzoate polyprenyltransferase. A fairly deep split separates this polyprenyltransferase subfamily from the set of mitochondrial and proteobacterial 4-hydroxybenzoate polyprenyltransferases, described in TIGR01474. Protoheme IX farnesyltransferase (heme O synthase) (TIGR01473) is more distantly related. Because no species appears to have both this protein and a member of TIGR01474, it is likely that This model represents 4-hydroxybenzoate polyprenyltransferase, a critical enzyme of ubiquinone biosynthesis, in the Archaea, Gram-positive bacteria, Aquifex aeolicus, the Chlamydias, etc.
Probab=46.63 E-value=2.4e+02 Score=27.54 Aligned_cols=50 Identities=14% Similarity=0.043 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCC----C-CCCCCccccccChhHHHHHHHHHHH
Q 014378 169 CIAEITEMIHVASLLHDDVLDDAD----T-RRGIGSLNFVMGNKLAVLAGDFLLS 218 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~s~----~-RRG~pt~h~~~G~~~AVlaGD~Lla 218 (426)
-...+.=+++.+..+..|+.|.+. . .+.+|-...+...+.|...+=.+..
T Consensus 40 l~~l~~~l~~~a~~~~Nd~~D~~~D~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~ 94 (282)
T TIGR01475 40 LILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLISKKEARTMIILSLA 94 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCCccCCCCCCCCCcCHHHHHHHHHHHHH
Confidence 344455688999999999977432 2 3467877777888888877765443
No 41
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=46.41 E-value=2.8e+02 Score=26.90 Aligned_cols=34 Identities=24% Similarity=0.422 Sum_probs=26.5
Q ss_pred HHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhh
Q 014378 303 NLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 347 (426)
Q Consensus 303 ~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~ 347 (426)
-+-.+.++..|+.|..+| -+.|+.|+|+.+-.++
T Consensus 172 l~~~~~~~~~d~~D~e~D-----------~~~G~~Tlpv~lG~~~ 205 (285)
T PRK12872 172 LKSFIREIVFDIKDIEGD-----------RKSGLKTLPIVLGKER 205 (285)
T ss_pred HHHHHHHHHHhcccchhH-----------HHcCCcccchhcchHH
Confidence 345678899999998765 4679999999986654
No 42
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=46.29 E-value=23 Score=28.75 Aligned_cols=27 Identities=22% Similarity=0.183 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014378 291 AEVAILAFDYGKNLGLAYQLIDDVLDF 317 (426)
Q Consensus 291 ~~~~~~l~~~G~~lGiafQI~DDllD~ 317 (426)
+...+.+=+||..+|-.||++==+--+
T Consensus 15 et~~e~llRYGLf~GAIFQliCilAiI 41 (85)
T PF06783_consen 15 ETFFENLLRYGLFVGAIFQLICILAII 41 (85)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhee
Confidence 457788999999999999997543333
No 43
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=42.67 E-value=4.7e+02 Score=28.32 Aligned_cols=92 Identities=12% Similarity=0.026 Sum_probs=61.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhcccCC-CCCCHHHHHHHHHhhhhhHHHH-HHHHHHHHc-CCCHHHHHHHH---HH
Q 014378 227 LKNTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLISN-SCKAIALLA-GQTAEVAILAF---DY 300 (426)
Q Consensus 227 l~~~~v~~~ls~~~~~l~~Gq~~dl~~~~~-~~~s~~~Yl~ii~~KTasL~~~-a~~~ga~la-g~~~~~~~~l~---~~ 300 (426)
.+....+..+.+.+..++.+-..+..|... ..++.++|++.-..-+|...-. .+..| ++ ..+.+..+.+. .+
T Consensus 352 ~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~--~g~~l~~e~~e~~~~~~~l 429 (542)
T cd00684 352 EGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLG--MGDILTEEAFEWLESRPKL 429 (542)
T ss_pred hcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHh--cCCCCCHHHHHHHhccHHH
Confidence 334567788889999999999999888643 3569999999765544443322 12221 12 13555554443 57
Q ss_pred HHHHHHHHhhhhhcccccCC
Q 014378 301 GKNLGLAYQLIDDVLDFTGT 320 (426)
Q Consensus 301 G~~lGiafQI~DDllD~~g~ 320 (426)
-...+....+.||+..+-.+
T Consensus 430 ~~~~~~i~rL~NDi~S~~kE 449 (542)
T cd00684 430 VRASSTIGRLMNDIATYEDE 449 (542)
T ss_pred HHHHHHHHHHhcChhhhHHH
Confidence 77888899999999998544
No 44
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=41.51 E-value=2.8e+02 Score=26.62 Aligned_cols=44 Identities=34% Similarity=0.321 Sum_probs=27.7
Q ss_pred CCCH-HHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHH
Q 014378 288 GQTA-EVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 343 (426)
Q Consensus 288 g~~~-~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~ 343 (426)
|.++ +....+...-+-+=.|+-|.||+.|= +++|.|++|+-..|
T Consensus 34 g~~~~~~~~~la~aiEllh~asLIhDDI~D~------------s~~RRG~p~~~~~~ 78 (259)
T cd00685 34 GGPELEAALRLAAAIELLHTASLVHDDVMDN------------SDLRRGKPTVHKVF 78 (259)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHhhhccC------------CcccCCCCcHHHHh
Confidence 4343 44455566667788899999999762 23466666654443
No 45
>PRK10581 geranyltranstransferase; Provisional
Probab=40.94 E-value=1.3e+02 Score=29.98 Aligned_cols=60 Identities=27% Similarity=0.302 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCCC------------CCCCCCCCccccccChhHHHHHHHHHHHHHHHHHHcCC
Q 014378 169 CIAEITEMIHVASLLHDDVLDD------------ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK 228 (426)
Q Consensus 169 ~lA~aiEliH~AsLIHDDIiD~------------s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l~ 228 (426)
.+...-+.+=.|.-|.|||+|- .+.+.|++|+=..+|...|-...+-++..|...|..+.
T Consensus 207 ~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~ 278 (299)
T PRK10581 207 VLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLA 278 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 4555667788889999999982 34566777766666666666555656666666666654
No 46
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=38.07 E-value=3.7e+02 Score=25.85 Aligned_cols=52 Identities=29% Similarity=0.205 Sum_probs=36.3
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHH
Q 014378 280 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 343 (426)
Q Consensus 280 ~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~ 343 (426)
|.+.+.+.|.+.+....+...-..+=.++-|.||+.|= +++|.|++|.-..|
T Consensus 21 ~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~------------s~~RRG~pt~~~~~ 72 (260)
T PF00348_consen 21 VLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDN------------SDLRRGKPTVHKKF 72 (260)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTT------------CSEETTEECHHHHH
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcc------------cccCCCCccccccc
Confidence 33444555566666667777788888999999999772 35677887755544
No 47
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=37.60 E-value=3.6e+02 Score=25.44 Aligned_cols=87 Identities=10% Similarity=0.054 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccCCC-CCCHHHHHHHHHhhhhhHHHHHHHHHHHHc---C-CCHHHHHHHHHHHHHHHH
Q 014378 232 VVTLLATVVEHLVTGETMQMTTSSDQ-RCSMDYYMQKTYYKTASLISNSCKAIALLA---G-QTAEVAILAFDYGKNLGL 306 (426)
Q Consensus 232 v~~~ls~~~~~l~~Gq~~dl~~~~~~-~~s~~~Yl~ii~~KTasL~~~a~~~ga~la---g-~~~~~~~~l~~~G~~lGi 306 (426)
+...|.+.+...+.|...+..+.... .+|.++|+.+=..-+|..+...+..-++ + | .+.+..+.-..+-...+.
T Consensus 138 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~ 216 (270)
T PF03936_consen 138 QIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFAL-EFALGELPPEVLEHPPMLRRLAAD 216 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHC-SSCHTHHHHHHHHTTHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhC-CCccccccHHHHHhchHHHHHHHH
Confidence 45568888888898888887776443 5689999986555554444333322111 2 1 111222221125555666
Q ss_pred HHhhhhhcccccC
Q 014378 307 AYQLIDDVLDFTG 319 (426)
Q Consensus 307 afQI~DDllD~~g 319 (426)
.--+.||+..|..
T Consensus 217 ~~~l~NDl~S~~K 229 (270)
T PF03936_consen 217 IIRLVNDLYSYKK 229 (270)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHhcccchhhc
Confidence 6667799998843
No 48
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=36.67 E-value=1.9e+02 Score=28.28 Aligned_cols=50 Identities=8% Similarity=-0.193 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCC---CCccccccChhHHHHHHHHHHHHHH
Q 014378 172 EITEMIHVASLLHDDVLDDADTRRG---IGSLNFVMGNKLAVLAGDFLLSRAC 221 (426)
Q Consensus 172 ~aiEliH~AsLIHDDIiD~s~~RRG---~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (426)
.+.=++|.++-+..|+.|.+.-|+. +|......-.+.+...+=.++..++
T Consensus 45 ~~~~l~~~~~n~~Nd~~D~~~D~~~~~~Rpi~~G~is~~~a~~~~~~~~~~~~ 97 (283)
T TIGR01476 45 MAGPLGTGFSQSINDYFDRDVDAINEPQRPIPSGIISLREVRWNWLVLTVAGL 97 (283)
T ss_pred HHHHHHHHHHHHHHhHhhhCcccCCCCCCCCCCCCcCHHHHHHHHHHHHHHHH
Confidence 4566899999999999997765554 4555555566677666655555444
No 49
>PRK13591 ubiA prenyltransferase; Provisional
Probab=35.28 E-value=4.8e+02 Score=26.30 Aligned_cols=31 Identities=23% Similarity=0.337 Sum_probs=23.2
Q ss_pred HHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhh
Q 014378 306 LAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 347 (426)
Q Consensus 306 iafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~ 347 (426)
.+..+.+|+.|..|| .++|+.|+|+.+-.+.
T Consensus 193 ~~~~iindirDiEGD-----------r~~G~kTLPV~lG~~~ 223 (307)
T PRK13591 193 FINSCVYDFKDVKGD-----------TLAGIKTLPVSLGEQK 223 (307)
T ss_pred HHHHHHHHhhhhHhH-----------HHcCCeeEEEEECHHH
Confidence 344578999998755 5789999999876544
No 50
>PRK12870 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=31.79 E-value=5.1e+02 Score=25.55 Aligned_cols=58 Identities=17% Similarity=-0.019 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCC----CC-CCCCccccccChhHHHHHHHHHHHHHHHHHHcC
Q 014378 170 IAEITEMIHVASLLHDDVLDDAD----TR-RGIGSLNFVMGNKLAVLAGDFLLSRACVALASL 227 (426)
Q Consensus 170 lA~aiEliH~AsLIHDDIiD~s~----~R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~~la~l 227 (426)
...++=++|.+..+..|+.|.+- .| +.+|-+..+...+.|++.+-.++..++.....+
T Consensus 51 ~~lg~~~~~~a~~~~Nd~~D~~iD~~~~Rt~~RPL~sG~is~~~a~~~~~~~~~~~~~l~~~l 113 (290)
T PRK12870 51 IILGALATSAAGCVVNDLWDRDIDPQVERTRFRPLASRRLSVKVGIVIAIVALLCAAGLAFFL 113 (290)
T ss_pred HHHHHHHHHHHHHHHHhHHHhccCCCCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455678999999999977432 33 478888888889999998888877776444433
No 51
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=27.43 E-value=1e+02 Score=30.54 Aligned_cols=60 Identities=20% Similarity=0.196 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH-HHHHhhhhhcccccCCccccCCCccchhccCcccHHHHH
Q 014378 273 ASLISNSCKAIALLAGQTAEVAILAFDYGKNL-GLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 343 (426)
Q Consensus 273 asL~~~a~~~ga~lag~~~~~~~~l~~~G~~l-GiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~ 343 (426)
+.+|..+..+|....+..-...-.+--.+--+ ..++.+.+|+.|+.+|. ++|+.|+|+.+
T Consensus 140 ~~~f~~~~v~G~~~~~~~~~~~~~l~~~~~~~~~~a~~ii~~irDie~Dr-----------~~G~~Tlpv~l 200 (282)
T PRK13105 140 STHFVSPALYGLVLAGAPFTAALWAVLAAFFLWGMASHAFGAVQDVVADR-----------EAGIASIATVL 200 (282)
T ss_pred HHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHhCcchHhHH-----------HcCCccchHHh
No 52
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=27.26 E-value=3.8e+02 Score=26.24 Aligned_cols=81 Identities=19% Similarity=0.123 Sum_probs=46.6
Q ss_pred CHHHHHHHHHhhhhhHHHHHHHHHHHHcCC--CHHHH-HHHHHHHH-HHHHHHhhhhhcccccC--Ccc-ccCCCccchh
Q 014378 260 SMDYYMQKTYYKTASLISNSCKAIALLAGQ--TAEVA-ILAFDYGK-NLGLAYQLIDDVLDFTG--TSA-SLGKGSLSDI 332 (426)
Q Consensus 260 s~~~Yl~ii~~KTasL~~~a~~~ga~lag~--~~~~~-~~l~~~G~-~lGiafQI~DDllD~~g--~~~-~~GK~~g~Dl 332 (426)
+...|++..+-+|-.....++-+|+.++.. ..+.. -.+.-++- -+=.+-.+.||+-|+.. |.. ..|+ ..=+
T Consensus 2 ~~~~~~~~~Rp~~~~~~~~p~l~G~~~a~~~~~~~~~~~ll~~l~~~l~~~~~n~~Ndy~D~~~g~D~~~~~~~--~r~l 79 (293)
T PRK06080 2 TFKAWLELARPKTLPAAFAPVLVGTALAYWLGSFHPLLALLALLAALLLQIATNLANDYGDYVKGTDTEDRVGP--LRAI 79 (293)
T ss_pred CHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHhHHHhccCCCcccccCC--cccc
Confidence 456799999999988878888888877621 11111 11111221 11224478999999963 221 1121 2336
Q ss_pred ccCcccHHHH
Q 014378 333 RHGIITAPIL 342 (426)
Q Consensus 333 ~~Gk~TlPvl 342 (426)
..|++|..-.
T Consensus 80 ~~G~is~~~~ 89 (293)
T PRK06080 80 GRGGISPKQV 89 (293)
T ss_pred cCCCCCHHHH
Confidence 6787776653
No 53
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.55 E-value=1.2e+02 Score=27.71 Aligned_cols=58 Identities=24% Similarity=0.265 Sum_probs=38.9
Q ss_pred HHHhhhhhHHHHHHHHHHHHcC------CCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhcc
Q 014378 267 KTYYKTASLISNSCKAIALLAG------QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 334 (426)
Q Consensus 267 ii~~KTasL~~~a~~~ga~lag------~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~ 334 (426)
.+..-.+-||.+. -||+++. ...++-..+.+.|+|+|+ .++||+|.= .+-|.|.|+++
T Consensus 12 ~~~k~naELFtLT--YGaiV~ql~kDyed~e~Vn~qLdkMGyNiG~--RLiedFLAk------s~vpRC~dfre 75 (183)
T KOG3330|consen 12 KSKKMNAELFTLT--YGAIVTQLCKDYEDPEDVNKQLDKMGYNIGI--RLIEDFLAK------SNVPRCVDFRE 75 (183)
T ss_pred HHHhhhhhhhhhh--HHHHHHHHHHhhcCHHHHHHHHHhccchhhH--HHHHHHHhh------cCCchhhhHHH
Confidence 3444466676542 3444432 245677889999999997 689998864 35567888865
No 54
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=21.96 E-value=1.4e+02 Score=30.02 Aligned_cols=54 Identities=19% Similarity=0.179 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCC-CCCCCCCCCccccccChhHHHHHHHHHHHHHH
Q 014378 168 QCIAEITEMIHVASLLHDDVLD-DADTRRGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (426)
Q Consensus 168 ~~lA~aiEliH~AsLIHDDIiD-~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (426)
.-++...-+...+.++..|+.| ++|.+.|++|.-..+|.+.+....-+++..++
T Consensus 192 ~l~~~~~~l~~~~~~~~~d~~D~e~D~~aG~~Tlpv~~G~~~a~~l~~~l~~~~~ 246 (314)
T PRK07566 192 VILALLYSLGAHGIMTLNDFKSVEGDRQLGLRSLPVVFGEKNAARIACVVIDLFQ 246 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHhHHHcCCcccceeEcHHHHHHHHHHHHHHHH
Confidence 3444555556666778888888 55667799999999999988877666655554
No 55
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=21.27 E-value=4.5e+02 Score=25.72 Aligned_cols=56 Identities=25% Similarity=0.216 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCC-CCCCCCCCCccccccChhHHHHHHHHHHHHHH
Q 014378 166 RQQCIAEITEMIHVASLLHDDVLD-DADTRRGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (426)
Q Consensus 166 ~~~~lA~aiEliH~AsLIHDDIiD-~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (426)
...-++..+-++-.+.++..|+.| +.|.+.|+.|.-.++|.+.+...--.++..++
T Consensus 169 ~~~~~~l~~~l~~~~~~~~n~~~D~~~D~~~G~~Tl~v~lG~~~a~~~~~~l~~~~~ 225 (293)
T PRK06080 169 AVFLPALPCGLLIGAVLLANNIRDIETDRENGKNTLAVRLGDKNARRLHAALLALAY 225 (293)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcchhHHHcCCeeEEeeECcHhHHHHHHHHHHHHH
Confidence 345566677777788888899999 55666799999999999987766666655554
No 56
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=20.91 E-value=1.7e+02 Score=28.61 Aligned_cols=52 Identities=19% Similarity=0.221 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCC-CCCCCCCCCccccccChhHHHHHHHHHHHH
Q 014378 168 QCIAEITEMIHVASLLHDDVLD-DADTRRGIGSLNFVMGNKLAVLAGDFLLSR 219 (426)
Q Consensus 168 ~~lA~aiEliH~AsLIHDDIiD-~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~ 219 (426)
.-++..+-+.-.+.+..+|+.| +.|.+.|++|.=..+|.+.+...--.++..
T Consensus 164 ~~~~~~~~l~~~~i~~~nd~~D~~~D~~~G~~Tl~v~lG~~~a~~l~~~l~~~ 216 (283)
T TIGR01476 164 VVVALIYSLGAHGIMTLNDFKSVEGDRQLGLRSLPVMIGVKRAAIVAVTTINV 216 (283)
T ss_pred HHHHHHHHHHHHHHHHHHhccchhhHHHcCCcCcceEEcHHHHHHHHHHHHHH
Confidence 3345555566777889999999 667778999999999999887765554433
No 57
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=20.60 E-value=2.1e+02 Score=28.74 Aligned_cols=63 Identities=14% Similarity=0.086 Sum_probs=37.7
Q ss_pred CHHHHHHHHHhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-HHHh----hhhhcccccCCcc
Q 014378 260 SMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLG-LAYQ----LIDDVLDFTGTSA 322 (426)
Q Consensus 260 s~~~Yl~ii~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG-iafQ----I~DDllD~~g~~~ 322 (426)
+...|++.++-+|-..-..|+-+|+.++-......+...-+..-+| +++| +.||+-||..+.+
T Consensus 2 ~~~~~~~~~Rp~tl~~s~~pvllG~a~a~~~~~~~~~~~~ll~ll~~~~~~~~~N~~NDy~D~~~g~D 69 (317)
T PRK13387 2 SAKLFLKLVEIHTKIASFFPVILGTLFSLYVAKIFDWLLFLAFMVAMLAFDIATTAINNYMDFKKALD 69 (317)
T ss_pred CHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHhHHHHhcCCC
Confidence 3567999999998888778888888776211000111111222233 3345 6899999965433
No 58
>PRK13595 ubiA prenyltransferase; Provisional
Probab=20.45 E-value=2e+02 Score=28.86 Aligned_cols=59 Identities=15% Similarity=0.049 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhhhhcccccCCccccCCCccchhccCcccHHHHHHhhh
Q 014378 276 ISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 347 (426)
Q Consensus 276 ~~~a~~~ga~lag~~~~~~~~l~~~G~~lGiafQI~DDllD~~g~~~~~GK~~g~Dl~~Gk~TlPvl~Al~~ 347 (426)
+..+...|+...|......-. -...-.+++|++.-|+.|..+ |-+.|..|.|+.+-.+.
T Consensus 155 ~g~p~~~~~~~~g~~~~~~~l--~a~~~w~~g~dii~ai~Dieg-----------Dr~~Gi~Slpv~lG~r~ 213 (292)
T PRK13595 155 YALPLALPALALGAPVPWPPL--LALMAWSVGKHAFDAAQDIPA-----------DRAAGTRTVATTLGVRG 213 (292)
T ss_pred HHHHHHHHHHHcCCcchHHHH--HHHHHHHHHHHHHHhccChHh-----------HHHcCCeechHHhCcHh
Confidence 455666777677754332212 223445689999999999755 45789999999986543
No 59
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=20.06 E-value=8.2e+02 Score=23.86 Aligned_cols=53 Identities=15% Similarity=-0.003 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHhhcCCCCCCC----CC-CCCCccccccChhHHHHHHHHHHHHHHHHH
Q 014378 172 EITEMIHVASLLHDDVLDDAD----TR-RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 224 (426)
Q Consensus 172 ~aiEliH~AsLIHDDIiD~s~----~R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~~l 224 (426)
.++=++|.+..+..|+.|.+- .| +.+|.+--+...+.|...|=.++..++...
T Consensus 49 ~g~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~l~~~~~~l~ 106 (282)
T PRK12848 49 LGVFLMRAAGCVINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFLLV 106 (282)
T ss_pred HHHHHHHHHHHHHHhhHHhccCCCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 344488999999999977432 33 468988888899999999888887776443
Done!