Query 021668
Match_columns 309
No_of_seqs 192 out of 1553
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 04:45:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021668.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021668hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10581 geranyltranstransfera 100.0 8.8E-49 1.9E-53 369.7 27.3 244 62-309 2-299 (299)
2 COG0142 IspA Geranylgeranyl py 100.0 2.9E-46 6.3E-51 356.0 25.4 237 62-309 2-322 (322)
3 PLN02890 geranyl diphosphate s 100.0 7.5E-45 1.6E-49 355.4 26.7 235 64-309 85-422 (422)
4 TIGR02748 GerC3_HepT heptapren 100.0 5.2E-45 1.1E-49 347.0 24.9 234 63-309 5-319 (319)
5 PRK10888 octaprenyl diphosphat 100.0 9.1E-45 2E-49 345.8 25.1 234 63-309 6-323 (323)
6 PLN02857 octaprenyl-diphosphat 100.0 3.5E-44 7.6E-49 350.7 28.4 240 57-309 91-416 (416)
7 TIGR02749 prenyl_cyano solanes 100.0 3.7E-44 7.9E-49 341.5 24.9 235 62-309 5-322 (322)
8 CHL00151 preA prenyl transfera 100.0 9.3E-44 2E-48 338.9 24.9 235 62-309 6-323 (323)
9 KOG0776 Geranylgeranyl pyropho 100.0 1.5E-42 3.1E-47 330.9 23.8 241 59-307 63-384 (384)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 9.3E-40 2E-44 302.1 23.3 209 88-307 10-259 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 3.8E-38 8.2E-43 291.6 18.4 194 88-285 5-236 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 1.3E-28 2.8E-33 223.1 22.2 194 101-307 1-236 (236)
13 KOG0777 Geranylgeranyl pyropho 99.9 2.7E-21 5.8E-26 173.0 15.8 188 88-290 27-290 (322)
14 KOG0711 Polyprenyl synthetase 99.7 2.3E-16 5E-21 147.1 18.1 173 88-268 44-267 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.6 5.1E-13 1.1E-17 117.6 23.2 145 136-290 61-224 (243)
16 PLN02632 phytoene synthase 94.9 0.37 8E-06 46.6 11.7 114 173-293 143-280 (334)
17 cd00683 Trans_IPPS_HH Trans-Is 94.6 0.35 7.6E-06 44.7 10.4 110 173-292 96-227 (265)
18 TIGR03465 HpnD squalene syntha 94.3 0.66 1.4E-05 43.0 11.7 108 173-291 88-217 (266)
19 TIGR03464 HpnC squalene syntha 93.9 1.2 2.6E-05 41.4 12.4 109 173-292 89-219 (266)
20 TIGR01559 squal_synth farnesyl 93.1 2.6 5.7E-05 40.9 13.7 116 173-292 111-249 (336)
21 PF00494 SQS_PSY: Squalene/phy 93.0 1.3 2.7E-05 40.8 11.1 111 173-291 94-227 (267)
22 PF07307 HEPPP_synt_1: Heptapr 86.2 14 0.00031 33.5 11.7 86 114-210 29-140 (212)
23 cd00687 Terpene_cyclase_nonpla 80.3 46 0.00099 30.9 13.1 112 173-287 139-262 (303)
24 PRK12872 ubiA prenyltransferas 75.7 9.5 0.0002 35.5 6.9 42 234-278 172-213 (285)
25 PF06783 UPF0239: Uncharacteri 74.0 4.2 9.2E-05 31.5 3.3 23 221-243 14-36 (85)
26 PRK13105 ubiA prenyltransferas 73.3 17 0.00037 34.3 8.1 44 235-281 172-215 (282)
27 PF03936 Terpene_synth_C: Terp 70.7 12 0.00026 33.8 6.3 111 173-286 147-269 (270)
28 PRK12884 ubiA prenyltransferas 69.6 17 0.00036 33.8 7.0 65 208-275 140-204 (279)
29 PRK13591 ubiA prenyltransferas 63.9 23 0.00049 34.1 6.7 41 237-280 193-233 (307)
30 PLN00012 chlorophyll synthetas 62.6 21 0.00046 35.1 6.5 40 234-276 263-302 (375)
31 PRK13595 ubiA prenyltransferas 60.4 51 0.0011 31.4 8.4 76 207-287 155-230 (292)
32 COG1562 ERG9 Phytoene/squalene 59.4 1.4E+02 0.0029 28.4 11.1 109 173-291 106-236 (288)
33 PF01040 UbiA: UbiA prenyltran 57.5 31 0.00068 30.8 6.3 62 209-273 131-193 (257)
34 PRK09573 (S)-2,3-di-O-geranylg 54.5 62 0.0014 30.1 8.0 38 236-276 167-204 (279)
35 cd00684 Terpene_cyclase_plant_ 50.3 1.9E+02 0.0041 29.8 11.3 112 173-289 366-491 (542)
36 PRK12882 ubiA prenyltransferas 48.4 1.1E+02 0.0023 28.4 8.4 42 234-278 168-209 (276)
37 cd00868 Terpene_cyclase_C1 Ter 47.7 2.1E+02 0.0046 25.8 13.6 128 173-304 132-277 (284)
38 cd00685 Trans_IPPS_HT Trans-Is 45.4 1.9E+02 0.004 26.5 9.5 68 219-290 34-102 (259)
39 PRK12883 ubiA prenyltransferas 44.6 94 0.002 28.8 7.5 39 236-277 167-205 (277)
40 COG0382 UbiA 4-hydroxybenzoate 42.9 87 0.0019 29.3 7.0 73 204-279 147-220 (289)
41 TIGR02056 ChlG chlorophyll syn 42.7 82 0.0018 29.9 6.8 39 235-276 195-233 (306)
42 PLN02878 homogentisate phytylt 41.3 40 0.00086 32.0 4.3 46 236-284 169-214 (280)
43 TIGR02748 GerC3_HepT heptapren 40.7 2.6E+02 0.0056 26.7 9.9 71 216-290 56-126 (319)
44 PF00348 polyprenyl_synt: Poly 40.2 1.8E+02 0.0038 26.7 8.5 76 211-290 21-96 (260)
45 PRK10888 octaprenyl diphosphat 40.1 2.8E+02 0.0061 26.5 10.1 84 202-289 42-126 (323)
46 TIGR01476 chlor_syn_BchG bacte 39.2 21 0.00046 33.3 2.2 39 236-277 174-212 (283)
47 PRK12887 ubiA tocopherol phyty 37.1 48 0.001 31.6 4.3 44 230-276 189-232 (308)
48 TIGR01475 ubiA_other putative 31.9 1.7E+02 0.0036 27.3 7.0 37 238-277 173-209 (282)
49 PRK06080 1,4-dihydroxy-2-napht 30.4 1.7E+02 0.0037 27.2 6.8 40 235-277 180-219 (293)
50 PRK12392 bacteriochlorophyll c 30.4 1.5E+02 0.0032 28.7 6.5 50 227-279 184-233 (331)
51 PRK12875 ubiA prenyltransferas 28.7 48 0.001 31.3 2.7 39 234-275 176-214 (282)
52 PRK12871 ubiA prenyltransferas 27.9 1.7E+02 0.0038 27.7 6.4 39 233-274 185-223 (297)
53 PRK07566 bacteriochlorophyll/c 26.7 43 0.00092 32.0 2.0 36 237-275 203-238 (314)
54 PF10776 DUF2600: Protein of u 25.6 1.8E+02 0.004 28.2 6.1 89 210-303 36-146 (330)
55 cd00867 Trans_IPPS Trans-Isopr 22.6 5.3E+02 0.011 22.6 10.5 74 211-288 6-80 (236)
56 TIGR01474 ubiA_proteo 4-hydrox 20.9 3.7E+02 0.0079 25.0 7.1 65 204-271 140-205 (281)
No 1
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=8.8e-49 Score=369.69 Aligned_cols=244 Identities=29% Similarity=0.479 Sum_probs=216.1
Q ss_pred hHHHHHHHHHHHHHHHHhccCCcc------c----ccccccCCCCCCcchHHHHHHHHHHHhCCCchhhhhHHHHHHHHH
Q 021668 62 QIDEYMTLKAKKINKALFEGAAVP------L----ILQYPTLPNHEGERVHGTLCIASCELVGGNESSVMPLACAAEMLV 131 (309)
Q Consensus 62 ~~~~~l~~~~~~i~~~l~~~~~~~------~----~~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~~~~~~AaaiEliH 131 (309)
++..+++.....|++.|.+ .++ . .++|.+.. ||||+||.|++++++++|++++.++++|++|||||
T Consensus 2 ~~~~~~~~~~~~i~~~l~~--~~~~~~~~~~~l~~~~~~~~~~--gGKrlRp~L~l~~~~~~g~~~~~~~~~A~avEliH 77 (299)
T PRK10581 2 DFPQQLQACVQQANQALSR--FIAPLPFQNTPVVEAMQYGALL--GGKRLRPFLVYATGQMFGVSTNTLDAPAAAVECIH 77 (299)
T ss_pred CHHHHHHHHHHHHHHHHHH--HhhhcccCchHHHHHHHHHHhc--CcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 4667777788888888877 442 1 18898888 99999999999999999999888999999999999
Q ss_pred HhhH--------------------------------HHHHHHHHHHHHHhcc-CCCChHHHHHHHHHHHHHhccccchhh
Q 021668 132 TLAL--------------------------------NRALLCYAVEHMATKT-KNVSPDRLVRAIGEISSAVGTRGVLAG 178 (309)
Q Consensus 132 ~aSL--------------------------------GD~Ll~~Af~~l~~~~-~~~~~~~~~~~~~~la~~~G~~~~~~G 178 (309)
+||| ||+|++.||+++++.. ....+...++++.+++++.|..+||.|
T Consensus 78 ~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~G 157 (299)
T PRK10581 78 AYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGG 157 (299)
T ss_pred HHHHHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHh
Confidence 9999 9999999999998753 122344567888888888777899999
Q ss_pred hHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC-
Q 021668 179 RIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSE-EDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG- 256 (309)
Q Consensus 179 Q~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~-~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G- 256 (309)
|.+|+.+....++.++|.+|+.+|||+||++||++|++++|+++ +.++.+++||+++|+||||+|||+|++++++.+|
T Consensus 158 Q~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK 237 (299)
T PRK10581 158 QALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGK 237 (299)
T ss_pred hHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCC
Confidence 99999987667889999999999999999999999999999864 5789999999999999999999999999998887
Q ss_pred -------CCCchhhhhhhHHHHHHHHHHHHHHHHHHhccCCC-C-CHHHHHHHHHHHHhccC
Q 021668 257 -------DDEATYPKLMGVAGAKRYAKELVAEANQELAYFDP-T-RAAPLYHLADFLVSRHK 309 (309)
Q Consensus 257 -------~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~~l~~-~-~~~~L~~l~~~l~~R~~ 309 (309)
+||.|+|+++++++|++.+++|.++|++.|+.++. + .++.|.+|++|+.+|.+
T Consensus 238 ~~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~~~~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 238 RQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQSLDTSALEALANYIIQRDK 299 (299)
T ss_pred CcchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCchhHHHHHHHHHHHHhccC
Confidence 79999999999999999999999999999999953 3 36889999999999975
No 2
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=2.9e-46 Score=355.96 Aligned_cols=237 Identities=29% Similarity=0.466 Sum_probs=209.2
Q ss_pred hHHHHHHHHHHHHHHHHhccCCcc-c---c----cccccCCCCCCcchHHHHHHHHHHHhCCCch----hhhhHHHHHHH
Q 021668 62 QIDEYMTLKAKKINKALFEGAAVP-L---I----LQYPTLPNHEGERVHGTLCIASCELVGGNES----SVMPLACAAEM 129 (309)
Q Consensus 62 ~~~~~l~~~~~~i~~~l~~~~~~~-~---~----~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~----~~~~~AaaiEl 129 (309)
.+..++.+....|++.|.+ .++ . . +.|.+.+ ||||+||.|++++++++|.+.. +++++|++|||
T Consensus 2 ~~~~~~~~~~~~i~~~l~~--~l~~~~~~~l~~a~~~~~~a--GGKrlRP~l~l~~~~~~~~~~~~~~~~~~~~aaavEl 77 (322)
T COG0142 2 DLLALLLKRLARIEELLSE--LLSGSDPELLLEAMRYLLLA--GGKRLRPLLVLLAAEALGIDLETGGNDALDLAAAIEL 77 (322)
T ss_pred hHHHHHHHHHHHHHHHHHH--HhcccccHHHHHHHHHHHhc--CCccHhHHHHHHHHHHcCCCcccchhhHHHHHHHHHH
Confidence 3556777888888888888 554 1 1 8999988 9999999999999999985433 57999999999
Q ss_pred HHHhhH------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhh
Q 021668 130 LVTLAL------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGR 179 (309)
Q Consensus 130 iH~aSL------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ 179 (309)
||++|| ||+|++.||+++++.... ..+++..++.++ .+||+||
T Consensus 78 iH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~-----~~~~~~~~~~~~--~~~~~GQ 150 (322)
T COG0142 78 IHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSE-----ALEAIKALAEAI--NGLCGGQ 150 (322)
T ss_pred HHHHHHHHhhcccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCch-----hHHHHHHHHHHH--HHHHHhH
Confidence 999999 999999999999996421 345566667777 8999999
Q ss_pred HHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC---
Q 021668 180 IMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG--- 256 (309)
Q Consensus 180 ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G--- 256 (309)
.+|+.+.++.+|+++|.+|+++|||+||+++|++||++++++++..+.+++||+++|+||||+||+||+++|++++|
T Consensus 151 ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~ 230 (322)
T COG0142 151 ALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPV 230 (322)
T ss_pred HHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCc
Confidence 99999988779999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred -----CCCchhhhhhhHH---------------------------------HHHHHHHHHHHHHHHHhccCC-CCCHHHH
Q 021668 257 -----DDEATYPKLMGVA---------------------------------GAKRYAKELVAEANQELAYFD-PTRAAPL 297 (309)
Q Consensus 257 -----~gK~T~p~l~gle---------------------------------~A~~~a~~~~~~A~~~L~~l~-~~~~~~L 297 (309)
+||.|||++++++ ++.+.+.+|+++|++.|+.+| ++.++.|
T Consensus 231 g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~~~~~L 310 (322)
T COG0142 231 GSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSEAKEAL 310 (322)
T ss_pred chHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCchHHHHH
Confidence 7999999999877 445569999999999999996 4678999
Q ss_pred HHHHHHHHhccC
Q 021668 298 YHLADFLVSRHK 309 (309)
Q Consensus 298 ~~l~~~l~~R~~ 309 (309)
.++++|+++|.+
T Consensus 311 ~~la~~i~~R~~ 322 (322)
T COG0142 311 LELADFIIKRKY 322 (322)
T ss_pred HHHHHHHHhccC
Confidence 999999999974
No 3
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=7.5e-45 Score=355.45 Aligned_cols=235 Identities=21% Similarity=0.262 Sum_probs=202.2
Q ss_pred HHHHHHHHHHHHHHHhccC--Ccccc---cccccCCCCC--CcchHHHHHHHHHHHhCCCc-----------------hh
Q 021668 64 DEYMTLKAKKINKALFEGA--AVPLI---LQYPTLPNHE--GERVHGTLCIASCELVGGNE-----------------SS 119 (309)
Q Consensus 64 ~~~l~~~~~~i~~~l~~~~--~~~~~---~~y~l~~~~g--GKrlRP~L~ll~~~~~g~~~-----------------~~ 119 (309)
...++..+..|++.|.+.+ ..|.. ++|.+.. | |||+||.|++++++++|.+. +.
T Consensus 85 ~~~i~~~L~~v~~~L~~~v~~~~~~l~~a~~y~~~~--G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~~~ 162 (422)
T PLN02890 85 FSLVADELSLLANKLRSMVVAEVPKLASAAEYFFKV--GVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELRTR 162 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHccCChHHHHHHHHHHhC--CCCCccHhHHHHHHHHHHcCCCcccccccccchhhccchhhh
Confidence 3445666777777777721 11211 7888877 7 99999999999999998642 34
Q ss_pred hhhHHHHHHHHHHhhH------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHH
Q 021668 120 VMPLACAAEMLVTLAL------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSA 169 (309)
Q Consensus 120 ~~~~AaaiEliH~aSL------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~ 169 (309)
++++|++|||||+||| ||||++.||+.+++.. . .+++..++++
T Consensus 163 ~~~~AaavEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~----~---~~~~~~~s~a 235 (422)
T PLN02890 163 QQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALK----N---TEVVSLLATA 235 (422)
T ss_pred HHHHHHHHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCC----c---HHHHHHHHHH
Confidence 7899999999999999 9999999999998752 2 3445566778
Q ss_pred hccccchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhh
Q 021668 170 VGTRGVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDN 248 (309)
Q Consensus 170 ~G~~~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~ 248 (309)
+ ..||+||++|+.+..+ ++++++|.+++.+|||+||++||++||+++|++++.++.+++||+++|+||||+||+|||
T Consensus 236 ~--~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~ 313 (422)
T PLN02890 236 V--EHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDF 313 (422)
T ss_pred H--HHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 8 7899999999998765 689999999999999999999999999999999999999999999999999999999999
Q ss_pred cccchhcC--------CCCchhhhhh---------------------------------hHHHHHHHHHHHHHHHHHHhc
Q 021668 249 MKKKKEAG--------DDEATYPKLM---------------------------------GVAGAKRYAKELVAEANQELA 287 (309)
Q Consensus 249 ~~~~~~~G--------~gK~T~p~l~---------------------------------gle~A~~~a~~~~~~A~~~L~ 287 (309)
+++++.+| +||.|+|+++ |+++|++.+++|.++|++.|+
T Consensus 314 ~g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~ 393 (422)
T PLN02890 314 TGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIE 393 (422)
T ss_pred cCChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999888 7999999875 578999999999999999999
Q ss_pred cCCCC-------CHHHHHHHHHHHHhccC
Q 021668 288 YFDPT-------RAAPLYHLADFLVSRHK 309 (309)
Q Consensus 288 ~l~~~-------~~~~L~~l~~~l~~R~~ 309 (309)
.+|.. .++.|..|++++++|+|
T Consensus 394 ~lp~s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 394 SLPETDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred hCCCCccccchHHHHHHHHHHHHHHhccC
Confidence 99653 37899999999999986
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=5.2e-45 Score=347.00 Aligned_cols=234 Identities=24% Similarity=0.297 Sum_probs=204.8
Q ss_pred HHHHHHHHHHHHHHHHhccCCcc----c---ccccccCCCCCCcchHHHHHHHHHHHhCCCchhhhhHHHHHHHHHHhhH
Q 021668 63 IDEYMTLKAKKINKALFEGAAVP----L---ILQYPTLPNHEGERVHGTLCIASCELVGGNESSVMPLACAAEMLVTLAL 135 (309)
Q Consensus 63 ~~~~l~~~~~~i~~~l~~~~~~~----~---~~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~~~~~~AaaiEliH~aSL 135 (309)
+..+++.....|++.|.+ .+. . .++|.+.. ||||+||.|++++++++|++.+.++++|+++||||+|||
T Consensus 5 ~~~~~~~~l~~v~~~l~~--~~~~~~~~l~~~~~~~~~~--gGKriRp~L~ll~~~~~~~~~~~~~~~A~aiEliH~asL 80 (319)
T TIGR02748 5 IYSFLQKDIDSIEKELEK--AVQAEHPVLSEASLHLLEA--GGKRIRPVFVLLAGKFGDYDLDAIKHVAVALELIHMASL 80 (319)
T ss_pred HHHHHHHHHHHHHHHHHH--HhccCchHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH
Confidence 455677777788888777 432 1 16888878 999999999999999998888889999999999999999
Q ss_pred ------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhh
Q 021668 136 ------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINS 185 (309)
Q Consensus 136 ------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~ 185 (309)
||||++.||+++++.. .. +++..+++++ ..+|+||++|+.+
T Consensus 81 iHDDI~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~----~~---~~~~~~~~~~--~~~~~Gq~~~~~~ 151 (319)
T TIGR02748 81 VHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIK----DP---RAHQILSHTI--VEVCRGEIEQIKD 151 (319)
T ss_pred HhccccCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCC----cH---HHHHHHHHHH--HHHHHHHHHHHHh
Confidence 9999999999998752 22 3445567777 7899999999987
Q ss_pred CCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC--------
Q 021668 186 KGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG-------- 256 (309)
Q Consensus 186 ~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G-------- 256 (309)
..+ +.++++|..++.+|||+||++||.+|++++|++++.++.+++||+++|+||||+||++|++++++.+|
T Consensus 152 ~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~ 231 (319)
T TIGR02748 152 KYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLL 231 (319)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHh
Confidence 655 68899999999999999999999999999999999999999999999999999999999999988877
Q ss_pred CCCchhhhhh----------------------------------hHHHHHHHHHHHHHHHHHHhccCCC-CCHHHHHHHH
Q 021668 257 DDEATYPKLM----------------------------------GVAGAKRYAKELVAEANQELAYFDP-TRAAPLYHLA 301 (309)
Q Consensus 257 ~gK~T~p~l~----------------------------------gle~A~~~a~~~~~~A~~~L~~l~~-~~~~~L~~l~ 301 (309)
+||.|+|+++ ++++|++.+++|.++|++.|+.+|. +.++.|..++
T Consensus 232 ~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l~ 311 (319)
T TIGR02748 232 QGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGRAKKPLQEIA 311 (319)
T ss_pred CCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 8999999976 3567999999999999999999954 4678999999
Q ss_pred HHHHhccC
Q 021668 302 DFLVSRHK 309 (309)
Q Consensus 302 ~~l~~R~~ 309 (309)
+|+.+|.+
T Consensus 312 ~~~~~R~~ 319 (319)
T TIGR02748 312 KYIGKRKY 319 (319)
T ss_pred HHHHhccC
Confidence 99999974
No 5
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=9.1e-45 Score=345.76 Aligned_cols=234 Identities=21% Similarity=0.334 Sum_probs=203.8
Q ss_pred HHHHHHHHHHHHHHHHhccCCccc-------ccccccCCCCCCcchHHHHHHHHHHHhCCCchhhhhHHHHHHHHHHhhH
Q 021668 63 IDEYMTLKAKKINKALFEGAAVPL-------ILQYPTLPNHEGERVHGTLCIASCELVGGNESSVMPLACAAEMLVTLAL 135 (309)
Q Consensus 63 ~~~~l~~~~~~i~~~l~~~~~~~~-------~~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~~~~~~AaaiEliH~aSL 135 (309)
+..++......|++.|.+ .+.. ..+|.+.. ||||+||.|++++++++|++.+.++++|+++||||++||
T Consensus 6 ~~~~i~~~l~~v~~~l~~--~~~~~~~~l~~~~~~~~~~--~GKrlRp~l~ll~~~~~g~~~~~~~~~A~avEllH~asL 81 (323)
T PRK10888 6 INELTAQDMAGVNAAILE--QLNSDVQLINQLGYYIISG--GGKRIRPMIAVLAARAVGYQGNAHVTIAALIEFIHTATL 81 (323)
T ss_pred HHHHHHHHHHHHHHHHHH--HHcccchhHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHH
Confidence 455666777778877777 3321 17888877 999999999999999999988899999999999999999
Q ss_pred ------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhh
Q 021668 136 ------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINS 185 (309)
Q Consensus 136 ------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~ 185 (309)
||||++.||+++++.. .. +++..+++++ ..+|+||++|+.+
T Consensus 82 iHDDI~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~----~~---~~~~~~~~~~--~~~~~Gq~~d~~~ 152 (323)
T PRK10888 82 LHDDVVDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLG----SL---KVLEVMSEAV--NVIAEGEVLQLMN 152 (323)
T ss_pred HHcccccCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhCC----CH---HHHHHHHHHH--HHHHHHHHHHHHh
Confidence 9999999999998752 22 3345567777 7899999999987
Q ss_pred CCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC--------
Q 021668 186 KGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG-------- 256 (309)
Q Consensus 186 ~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G-------- 256 (309)
..+ ++++++|..|+.+|||+||++||++|++++|++++.++.+++||+++|+||||+||++||+++++.+|
T Consensus 153 ~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~ 232 (323)
T PRK10888 153 VNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLN 232 (323)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhh
Confidence 654 68999999999999999999999999999999999999999999999999999999999999988877
Q ss_pred CCCchhhhhh-------------------------------------hHHHHHHHHHHHHHHHHHHhccCCC-CCHHHHH
Q 021668 257 DDEATYPKLM-------------------------------------GVAGAKRYAKELVAEANQELAYFDP-TRAAPLY 298 (309)
Q Consensus 257 ~gK~T~p~l~-------------------------------------gle~A~~~a~~~~~~A~~~L~~l~~-~~~~~L~ 298 (309)
+||.|+|+++ +++++++.+++|.++|++.|+.+|. +.++.|.
T Consensus 233 ~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~~~~~L~ 312 (323)
T PRK10888 233 EGKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTPWREALI 312 (323)
T ss_pred cCCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence 8999999865 4677889999999999999999964 4678999
Q ss_pred HHHHHHHhccC
Q 021668 299 HLADFLVSRHK 309 (309)
Q Consensus 299 ~l~~~l~~R~~ 309 (309)
.+++++.+|.+
T Consensus 313 ~l~~~~~~R~~ 323 (323)
T PRK10888 313 GLAHIAVQRDR 323 (323)
T ss_pred HHHHHHHhCcC
Confidence 99999999974
No 6
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=3.5e-44 Score=350.66 Aligned_cols=240 Identities=24% Similarity=0.279 Sum_probs=207.4
Q ss_pred CCchhhHHHHHHHHHHHHHHHHhccCCcc----c---ccccccCCCCCCcchHHHHHHHHHHHhCC------CchhhhhH
Q 021668 57 PFPEIQIDEYMTLKAKKINKALFEGAAVP----L---ILQYPTLPNHEGERVHGTLCIASCELVGG------NESSVMPL 123 (309)
Q Consensus 57 ~~~~~~~~~~l~~~~~~i~~~l~~~~~~~----~---~~~y~l~~~~gGKrlRP~L~ll~~~~~g~------~~~~~~~~ 123 (309)
+....++..++...+..|++.|.+ .+. . .++|.+.. ||||+||.|++++++++|. ..++++++
T Consensus 91 ~~~~~~~~~~v~~~l~~v~~~l~~--~~~~~~~~l~~~~~~~~~~--gGKriRP~Lvll~a~a~g~~~g~~~~~~~~~~l 166 (416)
T PLN02857 91 PISLSELFEPVADDLQQLNDNLQS--IVGAENPVLMSAAEQIFGA--GGKRMRPALVFLVSRATAELAGLKELTTEHRRL 166 (416)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH--HhccCchHHHHHHHHHHhC--CCccHhHHHHHHHHHHhccccCCCcchHHHHHH
Confidence 344455677788888899999888 442 1 17898888 9999999999999999852 24678999
Q ss_pred HHHHHHHHHhhH------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccc
Q 021668 124 ACAAEMLVTLAL------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTR 173 (309)
Q Consensus 124 AaaiEliH~aSL------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~ 173 (309)
|++|||||+||| ||||++.||+.+++.. ...+ +..+++++ .
T Consensus 167 AaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~~----~~~~---~~~~s~~~--~ 237 (416)
T PLN02857 167 AEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANLD----NLEV---IKLISQVI--K 237 (416)
T ss_pred HHHHHHHHHHHHHHCccccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcCC----cHHH---HHHHHHHH--H
Confidence 999999999999 9999999999998752 2334 44456666 6
Q ss_pred cchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 174 GVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 174 ~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
.+++||+.|+.+..+ ++++++|..++++|||.||++||++||+++|++++.++.+.+||+++|+||||+||++|+++++
T Consensus 238 ~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~ 317 (416)
T PLN02857 238 DFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQST 317 (416)
T ss_pred HHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH
Confidence 789999999877654 6889999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcC--------CCCchhhhhh---------------------------------hHHHHHHHHHHHHHHHHHHhccCCC
Q 021668 253 KEAG--------DDEATYPKLM---------------------------------GVAGAKRYAKELVAEANQELAYFDP 291 (309)
Q Consensus 253 ~~~G--------~gK~T~p~l~---------------------------------gle~A~~~a~~~~~~A~~~L~~l~~ 291 (309)
+.+| +||.|+|+++ |+++|++.+++|.++|++.|+.+|.
T Consensus 318 ~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~ 397 (416)
T PLN02857 318 EQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPR 397 (416)
T ss_pred HHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 8887 8999999876 7889999999999999999999964
Q ss_pred -CCHHHHHHHHHHHHhccC
Q 021668 292 -TRAAPLYHLADFLVSRHK 309 (309)
Q Consensus 292 -~~~~~L~~l~~~l~~R~~ 309 (309)
+.++.|..+++|+++|.+
T Consensus 398 ~~~~~~L~~L~~~~~~R~~ 416 (416)
T PLN02857 398 GAFRSSLEDMVDYNLERIY 416 (416)
T ss_pred CHHHHHHHHHHHHHHhccC
Confidence 457899999999999974
No 7
>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=3.7e-44 Score=341.53 Aligned_cols=235 Identities=23% Similarity=0.248 Sum_probs=203.1
Q ss_pred hHHHHHHHHHHHHHHHHhccCCcc----c---ccccccCCCCCCcchHHHHHHHHHHHhCCC---chhhhhHHHHHHHHH
Q 021668 62 QIDEYMTLKAKKINKALFEGAAVP----L---ILQYPTLPNHEGERVHGTLCIASCELVGGN---ESSVMPLACAAEMLV 131 (309)
Q Consensus 62 ~~~~~l~~~~~~i~~~l~~~~~~~----~---~~~y~l~~~~gGKrlRP~L~ll~~~~~g~~---~~~~~~~AaaiEliH 131 (309)
++..+++..+..|++.+.+ .+. . .++|.+.. ||||+||.|++++++++|++ ++.++++|+++||||
T Consensus 5 ~~~~~~~~~l~~v~~~l~~--~~~~~~~~l~~~~~~~~~~--gGKrlRp~l~ll~~~~~~~~~~~~~~~~~~A~avEliH 80 (322)
T TIGR02749 5 SLFAPVEDDLYLLTDNLKS--LVGARHPILYAAAEHLFSA--GGKRLRPAIVLLVSRATAEQQELTPRHRRLAEITEMIH 80 (322)
T ss_pred HHHHHHHHHHHHHHHHHHH--HhCCCChHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHH
Confidence 3556677778888888777 332 1 17888877 99999999999999999754 467889999999999
Q ss_pred HhhH------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHH
Q 021668 132 TLAL------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIM 181 (309)
Q Consensus 132 ~aSL------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~ 181 (309)
+||| ||||++.||+.+++.. ... ++..+++++ ..+|+||++
T Consensus 81 ~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~----~~~---~~~~~~~~~--~~~~~Gq~~ 151 (322)
T TIGR02749 81 TASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLE----NLE---VVKLISKVI--TDFAEGEIK 151 (322)
T ss_pred HHHHHHcccccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcC----CHH---HHHHHHHHH--HHHHHHHHH
Confidence 9999 9999999999998752 223 444566776 779999999
Q ss_pred HhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC----
Q 021668 182 EINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG---- 256 (309)
Q Consensus 182 Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G---- 256 (309)
|+.+..+ ++++++|.+|+.+|||+||++||++|++++|++++.++.+++||+++|+||||+||++|++++++.+|
T Consensus 152 ~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g 231 (322)
T TIGR02749 152 QGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAG 231 (322)
T ss_pred HHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChh
Confidence 9877654 68999999999999999999999999999999999999999999999999999999999999988877
Q ss_pred ----CCCchhhhhhh---------------------------------HHHHHHHHHHHHHHHHHHhccCCC-CCHHHHH
Q 021668 257 ----DDEATYPKLMG---------------------------------VAGAKRYAKELVAEANQELAYFDP-TRAAPLY 298 (309)
Q Consensus 257 ----~gK~T~p~l~g---------------------------------le~A~~~a~~~~~~A~~~L~~l~~-~~~~~L~ 298 (309)
+||.|+|++++ ++++++.+++|.++|++.|+.+|. +.++.|.
T Consensus 232 ~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~~~~~L~ 311 (322)
T TIGR02749 232 SDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSPPREALK 311 (322)
T ss_pred HHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence 89999998763 678999999999999999999954 4678999
Q ss_pred HHHHHHHhccC
Q 021668 299 HLADFLVSRHK 309 (309)
Q Consensus 299 ~l~~~l~~R~~ 309 (309)
+|++++.+|.+
T Consensus 312 ~l~~~~~~R~~ 322 (322)
T TIGR02749 312 ELVHFVLSRLY 322 (322)
T ss_pred HHHHHHHhcCC
Confidence 99999999974
No 8
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=9.3e-44 Score=338.92 Aligned_cols=235 Identities=23% Similarity=0.292 Sum_probs=203.5
Q ss_pred hHHHHHHHHHHHHHHHHhccCCcc----c---ccccccCCCCCCcchHHHHHHHHHHHhCCCc---hhhhhHHHHHHHHH
Q 021668 62 QIDEYMTLKAKKINKALFEGAAVP----L---ILQYPTLPNHEGERVHGTLCIASCELVGGNE---SSVMPLACAAEMLV 131 (309)
Q Consensus 62 ~~~~~l~~~~~~i~~~l~~~~~~~----~---~~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~---~~~~~~AaaiEliH 131 (309)
++..++++....|++.|.+ .++ . .++|.+.. ||||+||.||+++++++|++. ..++++|+++||+|
T Consensus 6 ~~~~~~~~~l~~i~~~l~~--~~~~~~~~l~~~~~~~~~~--gGKr~Rp~L~ll~~~~~~~~~~~~~~~~~~A~aiEllH 81 (323)
T CHL00151 6 NLLTPIEEELLILEDNLKK--LIGSGHPILYAAAKHLFSA--GGKRIRPAIVLLVAKATGGNMEIKTSQQRLAEITEIIH 81 (323)
T ss_pred HHHHHHHHHHHHHHHHHHH--HhCCCChhHHHHHHHHHhc--CCccHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHH
Confidence 5667788888888888877 432 1 18899888 999999999999999998853 45678999999999
Q ss_pred HhhH------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHH
Q 021668 132 TLAL------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIM 181 (309)
Q Consensus 132 ~aSL------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~ 181 (309)
++|| ||+|++.||+++++.. .... +..+++++ ..+++||.+
T Consensus 82 ~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~----~~~~---~~~~~~~~--~~l~~G~~~ 152 (323)
T CHL00151 82 TASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLN----NLEV---VKLISKVI--TDFAEGEIR 152 (323)
T ss_pred HHHHHHcccccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCC----ChHH---HHHHHHHH--HHHHHHHHH
Confidence 9999 9999999999998752 1223 34456666 778999999
Q ss_pred HhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC----
Q 021668 182 EINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG---- 256 (309)
Q Consensus 182 Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G---- 256 (309)
|..+..+ +.+.++|..++.+|||+||++||.+||+++|++++.++.+++||+++|+||||+||++|++++++.+|
T Consensus 153 ~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g 232 (323)
T CHL00151 153 QGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIG 232 (323)
T ss_pred HHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCch
Confidence 9877644 67889999999999999999999999999999999999999999999999999999999999988877
Q ss_pred ----CCCchhhhhhh---------------------------------HHHHHHHHHHHHHHHHHHhccCCC-CCHHHHH
Q 021668 257 ----DDEATYPKLMG---------------------------------VAGAKRYAKELVAEANQELAYFDP-TRAAPLY 298 (309)
Q Consensus 257 ----~gK~T~p~l~g---------------------------------le~A~~~a~~~~~~A~~~L~~l~~-~~~~~L~ 298 (309)
+||.|+|++++ +++|++.+.+|.++|++.|+.||. +.++.|.
T Consensus 233 ~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~ 312 (323)
T CHL00151 233 SDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSSAKDSLI 312 (323)
T ss_pred hhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence 89999999875 788999999999999999999954 4678999
Q ss_pred HHHHHHHhccC
Q 021668 299 HLADFLVSRHK 309 (309)
Q Consensus 299 ~l~~~l~~R~~ 309 (309)
.+++|+++|..
T Consensus 313 ~l~~~~~~R~~ 323 (323)
T CHL00151 313 EIANFIINRLN 323 (323)
T ss_pred HHHHHHHhccC
Confidence 99999999963
No 9
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.5e-42 Score=330.94 Aligned_cols=241 Identities=39% Similarity=0.569 Sum_probs=214.1
Q ss_pred chhhHHHHHHHHHHHHHHHHhccCCccc-----c----cccccCCCCCCcchHHHHHHHHHHHhC-CCchhhhhHHHHHH
Q 021668 59 PEIQIDEYMTLKAKKINKALFEGAAVPL-----I----LQYPTLPNHEGERVHGTLCIASCELVG-GNESSVMPLACAAE 128 (309)
Q Consensus 59 ~~~~~~~~l~~~~~~i~~~l~~~~~~~~-----~----~~y~l~~~~gGKrlRP~L~ll~~~~~g-~~~~~~~~~AaaiE 128 (309)
-.+++..|+......++..+.. .+|. . ++|.+.. +|||+||.+|+++|+.+| |+...++++|+++|
T Consensus 63 ~~~d~~~~~~~~~~~ln~~l~~--~~~~~~~~~~i~~a~ry~~la--~gKr~rP~l~~~~~e~~~~g~~~~q~~~A~i~E 138 (384)
T KOG0776|consen 63 LLFDELSYMARKARSLNGALHY--AVPLANEPLLISEAMRYLLLA--GGKRVRPLLCLAACELVGSGDESSQRSLAEIVE 138 (384)
T ss_pred hhhhHHHHHHHHHHHHhhhhhh--hcccccccchhHHHHHHHHHh--cccccCchhhhhHHHhccccccHHHHHHHHHHH
Confidence 4568888999999999999988 6542 1 8899988 999999999999999999 88899999999999
Q ss_pred HHHHhhH--------------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccch
Q 021668 129 MLVTLAL--------------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVL 176 (309)
Q Consensus 129 liH~aSL--------------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~ 176 (309)
|||++|| ||||++.|++.++.+.+....+.+.+++.++++..|..+..
T Consensus 139 MIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~ 218 (384)
T KOG0776|consen 139 MIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLV 218 (384)
T ss_pred HHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhcccc
Confidence 9999999 99999999999999865444567777777777777777777
Q ss_pred hhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC
Q 021668 177 AGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG 256 (309)
Q Consensus 177 ~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G 256 (309)
.||.+|.. +...++|+.++.+|||+|++.+|++|+|++|.++++++.+++||+++|++||+.||++|++..++++|
T Consensus 219 ~~~~~d~~----~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~elG 294 (384)
T KOG0776|consen 219 AGEGLDLD----DVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELG 294 (384)
T ss_pred cccccccC----CcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcC
Confidence 77555543 35689999999999999999999999999999999999999999999999999999999999999998
Q ss_pred --------CCCchhhhhh------------------------------hHHHHHHHHHHHHHHHHHHhccCC-CCCHHHH
Q 021668 257 --------DDEATYPKLM------------------------------GVAGAKRYAKELVAEANQELAYFD-PTRAAPL 297 (309)
Q Consensus 257 --------~gK~T~p~l~------------------------------gle~A~~~a~~~~~~A~~~L~~l~-~~~~~~L 297 (309)
.|+.|+|+++ |++.|+.++++|.++|++.|+.+| ++++++|
T Consensus 295 K~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~~Al~~l~~~p~s~ar~aL 374 (384)
T KOG0776|consen 295 KTAGKDLKAGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVPGVALAKYLARRHNNKALEALQSLPRSEARSAL 374 (384)
T ss_pred cchhhhhhhccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHH
Confidence 7999999976 677889999999999999999995 5688999
Q ss_pred HHHHHHHHhc
Q 021668 298 YHLADFLVSR 307 (309)
Q Consensus 298 ~~l~~~l~~R 307 (309)
+.|+.++..|
T Consensus 375 ~~l~~~~~~r 384 (384)
T KOG0776|consen 375 ENLVLAVLTR 384 (384)
T ss_pred HHHHHHHhcC
Confidence 9999999877
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=9.3e-40 Score=302.07 Aligned_cols=209 Identities=32% Similarity=0.494 Sum_probs=189.6
Q ss_pred cccccCCCCCCcchHHHHHHHHHHHhCCCc-hhhhhHHHHHHHHHHhhH------------------------------H
Q 021668 88 LQYPTLPNHEGERVHGTLCIASCELVGGNE-SSVMPLACAAEMLVTLAL------------------------------N 136 (309)
Q Consensus 88 ~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~-~~~~~~AaaiEliH~aSL------------------------------G 136 (309)
++|.+.. ||||+||.|++++++++|+++ +.+.++|+++|++|++|| |
T Consensus 10 ~~~~~~~--~GK~~Rp~l~~~~~~~~g~~~~~~~~~la~aiEllh~asLIhDDI~D~s~~RRG~p~~~~~~G~~~Ail~g 87 (259)
T cd00685 10 LRYLLLA--GGKRLRPLLVLLAARALGGPELEAALRLAAAIELLHTASLVHDDVMDNSDLRRGKPTVHKVFGNATAILAG 87 (259)
T ss_pred HHHHHHc--CCccHhHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHhhhccCCcccCCCCcHHHHhCcccHHHHH
Confidence 5677667 999999999999999999988 899999999999999999 9
Q ss_pred HHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHH
Q 021668 137 RALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGV 215 (309)
Q Consensus 137 D~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Ga 215 (309)
|+|++.+|+++++...+ ...+++..+++++ ..++.||++|+.+... ..+.++|.+|+.+|||+||.++|.+|+
T Consensus 88 d~l~~~a~~~l~~~~~~----~~~~~~~~~~~~~--~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a 161 (259)
T cd00685 88 DYLLARAFELLARLGNP----YYPRALELFSEAI--LELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGA 161 (259)
T ss_pred HHHHHHHHHHHHhCCCc----cHHHHHHHHHHHH--HHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 99999999999986321 3456677778887 8999999999998866 689999999999999999999999999
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC--------CCCchhhhhhhHHHHHHHHHHHHHHHHHHhc
Q 021668 216 LIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG--------DDEATYPKLMGVAGAKRYAKELVAEANQELA 287 (309)
Q Consensus 216 ilag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G--------~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~ 287 (309)
+++|++++.++.+++||+++|++|||+||++|++++++..| +||.|||+++++ ++.+..|.++|+..|+
T Consensus 162 ~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l---~~~~~~~~~~a~~~l~ 238 (259)
T cd00685 162 LLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL---RELAREYEEKALEALK 238 (259)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999987666 799999999999 8899999999999999
Q ss_pred cCCCC-CHHHHHHHHHHHHhc
Q 021668 288 YFDPT-RAAPLYHLADFLVSR 307 (309)
Q Consensus 288 ~l~~~-~~~~L~~l~~~l~~R 307 (309)
.++.. .+..|.++++++.+|
T Consensus 239 ~~~~~~~~~~l~~~~~~~~~r 259 (259)
T cd00685 239 ALPESPAREALRALADFILER 259 (259)
T ss_pred cCCCcHHHHHHHHHHHHHHcC
Confidence 99653 367899999999987
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-38 Score=291.60 Aligned_cols=194 Identities=29% Similarity=0.482 Sum_probs=169.7
Q ss_pred cccccCCCCCCcchHHHHHHHHHHHhCCCchhhhhHHHHHHHHHHhhH------------------------------HH
Q 021668 88 LQYPTLPNHEGERVHGTLCIASCELVGGNESSVMPLACAAEMLVTLAL------------------------------NR 137 (309)
Q Consensus 88 ~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~~~~~~AaaiEliH~aSL------------------------------GD 137 (309)
++|.+.. ||||+||.|++++++++|++++.+.++|+++||||++|| ||
T Consensus 5 ~~~~~~~--~GK~~Rp~l~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~s~~RRG~pt~~~~~G~~~Ail~gd 82 (260)
T PF00348_consen 5 ARYYILR--GGKRIRPLLVLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDNSDLRRGKPTVHKKFGNAIAILAGD 82 (260)
T ss_dssp HHHHHHS--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEETTEECHHHHHHHHHHHHHHH
T ss_pred HHHHhhC--CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCCCccccccccccchhhhch
Confidence 4566767 999999999999999999999999999999999999999 99
Q ss_pred HHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHh
Q 021668 138 ALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLI 217 (309)
Q Consensus 138 ~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gail 217 (309)
+|++.||+++++.....+......++..+...+ .....||..|+.+.+.+.++++|..|+++|||+||++||++|+++
T Consensus 83 ~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~--~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~l 160 (260)
T PF00348_consen 83 YLLALAFELLARLGHFDPSERVLRILELFIEAL--IEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAIL 160 (260)
T ss_dssp HHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhcccchHHHHHHHHHHHHhc--ccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHh
Confidence 999999999999741112345556666555555 455677999998876688999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC--------CCCchhhhhhhHHHHHHHHHHHHHHHHHH
Q 021668 218 GGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG--------DDEATYPKLMGVAGAKRYAKELVAEANQE 285 (309)
Q Consensus 218 ag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G--------~gK~T~p~l~gle~A~~~a~~~~~~A~~~ 285 (309)
+|++++.++.+++||+++|+||||+||++|++++++..| +||.|+|++++++.+.+..+++...+.+.
T Consensus 161 ag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~~~~~~~~l~~~~~~ 236 (260)
T PF00348_consen 161 AGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERAREELRELLQEAYGK 236 (260)
T ss_dssp TTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhCHHHHHHHHHHHHcc
Confidence 999999999999999999999999999999999987776 89999999999999888888877776654
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=99.97 E-value=1.3e-28 Score=223.07 Aligned_cols=194 Identities=28% Similarity=0.434 Sum_probs=166.5
Q ss_pred hHHHHHHHHHHHhCCCchhhhhHHHHHHHHHHhhH-------------------------------HHHHHHHHHHHHHh
Q 021668 101 VHGTLCIASCELVGGNESSVMPLACAAEMLVTLAL-------------------------------NRALLCYAVEHMAT 149 (309)
Q Consensus 101 lRP~L~ll~~~~~g~~~~~~~~~AaaiEliH~aSL-------------------------------GD~Ll~~Af~~l~~ 149 (309)
+||.+++++++++|++.+.++.+++++|+||++++ ||+++..+|+.+.+
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~ai~~gd~l~~~a~~~l~~ 80 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALAILAGDYLLARAFQLLAR 80 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHHHHHHHHHHHHHHHHHHh
Confidence 59999999999999999999999999999999999 99999999999988
Q ss_pred ccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHH
Q 021668 150 KTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKL 228 (309)
Q Consensus 150 ~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l 228 (309)
.. ..+++..+++.+ ..+++||.+|+.+..+ ..|.++|..++.+|||.+|..+|..|+++++.+++.++.+
T Consensus 81 ~~-------~~~~~~~~~~~~--~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~ 151 (236)
T cd00867 81 LG-------YPRALELFAEAL--RELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEAL 151 (236)
T ss_pred CC-------hHHHHHHHHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHH
Confidence 52 223344456666 7899999999988753 6789999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhchhhhcccchhcC-------CCCchhhhhhhHHHHHHHHHHHHHHHHHHhccCCCC---CHHHHH
Q 021668 229 RKYGKCVGLAYQVWDDILDNMKKKKEAG-------DDEATYPKLMGVAGAKRYAKELVAEANQELAYFDPT---RAAPLY 298 (309)
Q Consensus 229 ~~~G~~lGlAFQI~DDiLD~~~~~~~~G-------~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~~l~~~---~~~~L~ 298 (309)
.+||+++|+||||+||++|+.+|.+..| +||.|+|.+.+ ++.+.++.+++.+.+..+.+. .+..+.
T Consensus 152 ~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~tlp~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (236)
T cd00867 152 KDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLREGRITLPVILA----RERAAEYAEEAYAALEALPPSLPRARRALI 227 (236)
T ss_pred HHHHHHHHHHHHHHHHhccccCChHHHCccHHHHHcCCchHHHHHH----HHHHHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence 9999999999999999999999987655 79999999988 555566666676766666322 467888
Q ss_pred HHHHHHHhc
Q 021668 299 HLADFLVSR 307 (309)
Q Consensus 299 ~l~~~l~~R 307 (309)
.++.++.+|
T Consensus 228 ~~~~~~~~r 236 (236)
T cd00867 228 ALADFLYRR 236 (236)
T ss_pred HHHHHHHhC
Confidence 899988876
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.87 E-value=2.7e-21 Score=173.00 Aligned_cols=188 Identities=16% Similarity=0.197 Sum_probs=159.3
Q ss_pred cccccCCCCCCcchHHHHHHHHHHHhCCCchhhhhHHHHHHHHHHhhH------------------------------HH
Q 021668 88 LQYPTLPNHEGERVHGTLCIASCELVGGNESSVMPLACAAEMLVTLAL------------------------------NR 137 (309)
Q Consensus 88 ~~y~l~~~~gGKrlRP~L~ll~~~~~g~~~~~~~~~AaaiEliH~aSL------------------------------GD 137 (309)
..|.+.. +||.+|--|.+++.+++..+.++.-.+...+||+|++|| .+
T Consensus 27 y~yilq~--PGKqfR~~L~~afNhwl~~P~dkLaii~~ivemLHNsSLLIDDIEDNs~LRRG~pvaHsIyGvpStINtAN 104 (322)
T KOG0777|consen 27 YNYILQK--PGKQFRLNLIVAFNHWLNLPKDKLAIISQIVEMLHNSSLLIDDIEDNSPLRRGQPVAHSIYGVPSTINTAN 104 (322)
T ss_pred HHHHHhC--chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccceeeccccccchhhcCCcchhhhccCcchhhhhH
Confidence 5688877 999999999999999999999988889999999999999 89
Q ss_pred HHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhhCCC--CCCHHHHHHHHHhchHHHHHHHHHHHH
Q 021668 138 ALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINSKGK--DVSLSELDFIKRLRCGKLIEASVVCGV 215 (309)
Q Consensus 138 ~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~--~~s~~~~~~i~~~KTg~Lf~~a~~~Ga 215 (309)
|++.+|.+.+.++. . +...+++ .+.+ ..++.||.+|+.|+.. ++|++.|..|+..|||-||.++.++.-
T Consensus 105 Y~yFlalekV~qLd--h--P~a~kif---teqL--leLHrGQGldIYWRD~~tcPtee~Yk~Mv~~KTGGLF~La~rLMq 175 (322)
T KOG0777|consen 105 YMYFLALEKVSQLD--H--PNAIKIF---TEQL--LELHRGQGLDIYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRLMQ 175 (322)
T ss_pred HHHHHHHHHHHhcC--C--chHHHHH---HHHH--HHHhcCCCcceeeeccCcCCCHHHHHHHHHHhcccHHHHHHHHHH
Confidence 99999999999873 2 2344444 4455 6789999999999865 689999999999999999999999999
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc--hhcC------CCCchhhhhh---------------------
Q 021668 216 LIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK--KEAG------DDEATYPKLM--------------------- 266 (309)
Q Consensus 216 ilag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~--~~~G------~gK~T~p~l~--------------------- 266 (309)
..+... +.+..+-..+|+.|||+||++++.... +..| +||.++|+++
T Consensus 176 lfS~~k----edl~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~t~~q~~Qvl~ILrqRT~d 251 (322)
T KOG0777|consen 176 LFSHHK----EDLVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALKTKGQTEQVLRILRQRTSD 251 (322)
T ss_pred HHHhcc----hhHHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhhcCCchHHHHHHHHHhhcc
Confidence 887533 357788889999999999999986532 2233 8999999876
Q ss_pred ---------------hHHHHHHHHHHHHHHHHHHhccCC
Q 021668 267 ---------------GVAGAKRYAKELVAEANQELAYFD 290 (309)
Q Consensus 267 ---------------gle~A~~~a~~~~~~A~~~L~~l~ 290 (309)
+++++|+..+++..+|+..++..+
T Consensus 252 idiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g 290 (322)
T KOG0777|consen 252 IDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDG 290 (322)
T ss_pred chHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcC
Confidence 467889999999999999998773
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.73 E-value=2.3e-16 Score=147.08 Aligned_cols=173 Identities=21% Similarity=0.251 Sum_probs=136.7
Q ss_pred cccccCCCCCCcchHHHHHHHHHHHhCCC-------chhhhhHHHHHHHHHHhhH-------------------------
Q 021668 88 LQYPTLPNHEGERVHGTLCIASCELVGGN-------ESSVMPLACAAEMLVTLAL------------------------- 135 (309)
Q Consensus 88 ~~y~l~~~~gGKrlRP~L~ll~~~~~g~~-------~~~~~~~AaaiEliH~aSL------------------------- 135 (309)
+.|-+ . |||..|...++.+.+++.+. ...+..+++.||+++++.|
T Consensus 44 L~yN~-~--GGK~nRgl~vv~s~~~L~~~~~l~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS~tRRGqpCWy~~~gVG 120 (347)
T KOG0711|consen 44 LDYNV-I--GGKLNRGLSVVDSFKALVEPRKLDEEELQLALILGWCVELLQAFFLVADDIMDNSKTRRGQPCWYQKPGVG 120 (347)
T ss_pred HhccC-c--ccccccchhHHHHHHHhcCccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccCCCcceeecCCcc
Confidence 66664 4 99999999999999998663 2346778899999999999
Q ss_pred ----HHHHHHHH--HHHHHhccCCCCh-HHHHHHHHHHHHHhccccchhhhHHHhhhCCC---CCCHHHHHHHHHhchHH
Q 021668 136 ----NRALLCYA--VEHMATKTKNVSP-DRLVRAIGEISSAVGTRGVLAGRIMEINSKGK---DVSLSELDFIKRLRCGK 205 (309)
Q Consensus 136 ----GD~Ll~~A--f~~l~~~~~~~~~-~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~---~~s~~~~~~i~~~KTg~ 205 (309)
.|+++-.| +.+|.+...+.+. .+.++++.+.. ..++.||.++-...+. ..|++.|..|+.+|||.
T Consensus 121 ~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~-----f~T~lGdllt~~~~~~~ls~fsl~~y~~Iv~~KTa~ 195 (347)
T KOG0711|consen 121 LDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVT-----FQTELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAY 195 (347)
T ss_pred hhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHH-----HHHhhhccccCcccchhHhhhhHHHHHHHhhccccc
Confidence 57666555 4566655554443 45666666644 4578888777544333 36789999999999999
Q ss_pred H-HHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcC-------CCCchhhhhhhH
Q 021668 206 L-IEASVVCGVLIGG-GSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAG-------DDEATYPKLMGV 268 (309)
Q Consensus 206 L-f~~a~~~Gailag-~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G-------~gK~T~p~l~gl 268 (309)
+ |-+|++++.+++| .+.+.......+-..+|..||++||+||++||++.+| .+|.||.+..++
T Consensus 196 YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgkiGtDIqDnKCsWlv~~al 267 (347)
T KOG0711|consen 196 YSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGKIGTDIQDNKCSWLVVKAL 267 (347)
T ss_pred eeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCCCCCccccCceeeehHHHH
Confidence 9 9999999999998 4567788899999999999999999999999998887 789999875443
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=99.60 E-value=5.1e-13 Score=117.63 Aligned_cols=145 Identities=28% Similarity=0.385 Sum_probs=118.8
Q ss_pred HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHhccccchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHH
Q 021668 136 NRALLCYAVEHMATKTKNVSPDRLVRAIGEISSAVGTRGVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCG 214 (309)
Q Consensus 136 GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~~~G~~~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~G 214 (309)
||.++..+++.+.+.. + ......+.+.+ ..++.||..|+.+... ..+.++|..+.+.|||.++...|..+
T Consensus 61 ~~~~~~~~~~~~~~~~---~----~~~~~~~~~~~--~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~ 131 (243)
T cd00385 61 GDLLLADAFEELAREG---S----PEALEILAEAL--LDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLG 131 (243)
T ss_pred HHHHHHHHHHHHHhCC---C----HHHHHHHHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHH
Confidence 6778888888887642 1 22334455666 7899999999988753 57899999999999999999999999
Q ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhh------------------hHHHHHHHHH
Q 021668 215 VLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLM------------------GVAGAKRYAK 276 (309)
Q Consensus 215 ailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~------------------gle~A~~~a~ 276 (309)
+...+.+......+..+|.++|++||+.||+.|+.++.+.. +|+.|+|.++ +++.+.+.+.
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 210 (243)
T cd00385 132 AGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG-EGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELA 210 (243)
T ss_pred HHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh-CCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHH
Confidence 98888777778899999999999999999999999987754 2789999764 5678888888
Q ss_pred HHHHHHHHHhccCC
Q 021668 277 ELVAEANQELAYFD 290 (309)
Q Consensus 277 ~~~~~A~~~L~~l~ 290 (309)
++.+++++.+..+.
T Consensus 211 ~~~~~~~~~~~~~~ 224 (243)
T cd00385 211 KLAEEALKELNELI 224 (243)
T ss_pred HHHHHHHHHHhcCC
Confidence 99999998888773
No 16
>PLN02632 phytoene synthase
Probab=94.87 E-value=0.37 Score=46.55 Aligned_cols=114 Identities=18% Similarity=0.192 Sum_probs=75.2
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHHHHHHHHHhchhhhcc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGS--EEDIEKLRKYGKCVGLAYQVWDDILDNMK 250 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~--~~~~~~l~~~G~~lGlAFQI~DDiLD~~~ 250 (309)
.+|++|..+|+.... -.|.++++.-+.+--|.+..+++.+ ++..+ ....+.+...+.++|+|+|+.+=+.|+-.
T Consensus 143 ~~li~g~~~Dl~~~~-~~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv~e 218 (334)
T PLN02632 143 RDMIEGMRMDLVKSR-YENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILRDVGE 218 (334)
T ss_pred HHHHHHHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999986542 3467777665655556666555554 33222 22235677889999999999998888876
Q ss_pred cchhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCCCC
Q 021668 251 KKKEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDPTR 293 (309)
Q Consensus 251 ~~~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~~~ 293 (309)
|.+ .|.+-+|.- ..+..-...++.+.++|...+..+|...
T Consensus 219 D~~---~GRvYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~ 280 (334)
T PLN02632 219 DAR---RGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPAS 280 (334)
T ss_pred HHh---CCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHh
Confidence 653 345555531 1233334778899999999999887533
No 17
>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=94.58 E-value=0.35 Score=44.74 Aligned_cols=110 Identities=22% Similarity=0.204 Sum_probs=75.1
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
..|++|...|+.... -.|.++++..+.+=-|++..+++.+ ++.... +....++.++|.|+|+.+=+.|+-.|.
T Consensus 96 ~~li~g~~~Dl~~~~-~~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv~eD~ 168 (265)
T cd00683 96 RDLLAGMAMDLDKRR-YETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDVGEDA 168 (265)
T ss_pred HHHHHHHHHhCCCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999987542 3467777776666566665555543 332111 346789999999999999888988776
Q ss_pred hhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCCC
Q 021668 253 KEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDPT 292 (309)
Q Consensus 253 ~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~~ 292 (309)
+ .|.+.+|.- -.+++-...++.+...|...+..+|..
T Consensus 169 ~---~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~ 227 (265)
T cd00683 169 R---RGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRR 227 (265)
T ss_pred c---cCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHh
Confidence 3 355555531 134555677889999999999888753
No 18
>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=94.32 E-value=0.66 Score=43.05 Aligned_cols=108 Identities=19% Similarity=0.168 Sum_probs=74.2
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
..|++|...|+.... -.|.++++.-+.+--|.+..+++.+ ++..+ +....++.++|.|+|+.+=+.|+-.|.
T Consensus 88 ~~li~g~~~Dl~~~~-~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~----~~~~~~a~~lG~AlqltnilRdv~eD~ 159 (266)
T TIGR03465 88 LEVIDGMEMDLEQTR-YPDFAELDLYCDRVAGAVGRLSARI---FGATD----ARTLEYAHHLGRALQLTNILRDVGEDA 159 (266)
T ss_pred HHHHHHHHHHcCCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---hCCCC----hhHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 467899999986542 3567777776666666666666654 33333 235788999999999999888887665
Q ss_pred hhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCC
Q 021668 253 KEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDP 291 (309)
Q Consensus 253 ~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~ 291 (309)
+ .|++-+|.- ..+.+--..++.+.++|.+.+..+|.
T Consensus 160 ~---~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~ 217 (266)
T TIGR03465 160 R---RGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDR 217 (266)
T ss_pred h---CCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCH
Confidence 4 356666641 13344456678888888888888864
No 19
>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=93.87 E-value=1.2 Score=41.40 Aligned_cols=109 Identities=13% Similarity=0.000 Sum_probs=72.1
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
..+++|...|+.... -.|.++++.-+.+-.|++..+++.+ ++..+++ ...++.++|.|+|+.+=+.|+-.|.
T Consensus 89 ~~li~~~~~Dl~~~~-~~t~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl~eD~ 160 (266)
T TIGR03464 89 LDLLDAFRQDVVVTR-YATWAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDVGVDY 160 (266)
T ss_pred HHHHHHHHHhccCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 456788888876442 3577777776655556666655543 3333332 3468999999999999888887665
Q ss_pred hhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCCC
Q 021668 253 KEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDPT 292 (309)
Q Consensus 253 ~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~~ 292 (309)
.. |.+-+|.- -.++.-...++.+..+|...+..+|..
T Consensus 161 ~~---gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~ 219 (266)
T TIGR03464 161 RK---GRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGR 219 (266)
T ss_pred hc---CCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHh
Confidence 42 45555431 134445567788899999999888653
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=93.10 E-value=2.6 Score=40.85 Aligned_cols=116 Identities=14% Similarity=0.075 Sum_probs=72.9
Q ss_pred ccchhhhHHHhhhCCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhccc
Q 021668 173 RGVLAGRIMEINSKGK-DVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKK 251 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~-~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~ 251 (309)
..|+.|..+|+..... ..|.++|+.-+.+=-|..=.+.+.+-+. .|...+......+++..+|+|+|+.+=+.|+..|
T Consensus 111 ~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQlTNIlRDv~ED 189 (336)
T TIGR01559 111 RRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQKTNIIRDYLED 189 (336)
T ss_pred HHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHhH
Confidence 5678999988765421 1577777665544444443344444222 2222222223468999999999999999999877
Q ss_pred chhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCCC
Q 021668 252 KKEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDPT 292 (309)
Q Consensus 252 ~~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~~ 292 (309)
.+. |..=+|.- ..+++--..|..+..+|+..+..++..
T Consensus 190 ~~~---GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~al~yl~~l~~~ 249 (336)
T TIGR01559 190 INE---GRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTYLSRLRDQ 249 (336)
T ss_pred HhC---CCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 542 44444431 234555677888889999999888543
No 21
>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=93.03 E-value=1.3 Score=40.79 Aligned_cols=111 Identities=14% Similarity=0.090 Sum_probs=74.4
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
.+|++|...|+.... -.|.+++..-+.+=+|++..+.+.+-..- .+. .....++.++|.|+|+.|=+.|+-.|.
T Consensus 94 ~~li~~~~~dl~~~~-~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~~~D~ 167 (267)
T PF00494_consen 94 LELIDGMEMDLEFTP-YETFADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDIPEDA 167 (267)
T ss_dssp HHHHHHHHHCTT-S---SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTHHHH-
T ss_pred HHHHHHhcccccCCC-CCCHHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 567899999987543 34788888877788888877666654432 222 468889999999999999999998883
Q ss_pred hhcCCCCchhhh-----------------------hhhHHHHHHHHHHHHHHHHHHhccCCC
Q 021668 253 KEAGDDEATYPK-----------------------LMGVAGAKRYAKELVAEANQELAYFDP 291 (309)
Q Consensus 253 ~~~G~gK~T~p~-----------------------l~gle~A~~~a~~~~~~A~~~L~~l~~ 291 (309)
... |++-+|. ...+..--..++.+.++|...+..+++
T Consensus 168 ~~~--gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~ 227 (267)
T PF00494_consen 168 LRR--GRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPP 227 (267)
T ss_dssp HHT--T---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--
T ss_pred Hhc--ccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 333 4444443 112445567788889999999999843
No 22
>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=86.23 E-value=14 Score=33.50 Aligned_cols=86 Identities=12% Similarity=0.070 Sum_probs=58.3
Q ss_pred CCCchhhhhHHHHHHHHHHhhH-------------------------HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHH
Q 021668 114 GGNESSVMPLACAAEMLVTLAL-------------------------NRALLCYAVEHMATKTKNVSPDRLVRAIGEISS 168 (309)
Q Consensus 114 g~~~~~~~~~AaaiEliH~aSL-------------------------GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~la~ 168 (309)
+..++.....+.++-++|+|-. |||.-++-|.+|++.+ + +.+++.++.
T Consensus 29 ~l~~~~~~~~~~a~~LVq~aLDtHd~V~~~~~~~~~~~k~RQLtVLAGDy~S~~yY~lLA~~~-~------i~li~~ls~ 101 (212)
T PF07307_consen 29 ELSEEEAERYALATMLVQIALDTHDEVDNAGDESEESSKERQLTVLAGDYYSGLYYQLLAESG-D------ISLIRALSE 101 (212)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhhhhhccccccccHHHHhhhhhhhhHHHHHHHHHHHHHhCC-C------HHHHHHHHH
Confidence 3356788899999999999954 9999999999999973 2 455666788
Q ss_pred HhccccchhhhHHHhhhCCCCCCHHH-HHHHHHhchHHHHHHH
Q 021668 169 AVGTRGVLAGRIMEINSKGKDVSLSE-LDFIKRLRCGKLIEAS 210 (309)
Q Consensus 169 ~~G~~~~~~GQ~~Dl~~~~~~~s~~~-~~~i~~~KTg~Lf~~a 210 (309)
++ ..+.+....=-... ..+.++ +..+..-+|+.+...+
T Consensus 102 aI--~eiNE~K~~ly~~~--~~~~e~~~~~~~~ies~l~~~~~ 140 (212)
T PF07307_consen 102 AI--KEINELKMSLYQKK--KETAEEYLESVVTIESALFQSFA 140 (212)
T ss_pred HH--HHHHHHHHHHHHhh--hCCHHHHHHHHHHHHHHHHHHHH
Confidence 77 77777775432222 235444 4444445555554443
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=80.26 E-value=46 Score=30.93 Aligned_cols=112 Identities=15% Similarity=0.082 Sum_probs=67.2
Q ss_pred ccchhhhHHHhhhCCC--CCCHHHHHHHHHhchHHHHHHHHHHHHHhcC--CCHHHHH--HHHHHHHHHHHHHHHHhchh
Q 021668 173 RGVLAGRIMEINSKGK--DVSLSELDFIKRLRCGKLIEASVVCGVLIGG--GSEEDIE--KLRKYGKCVGLAYQVWDDIL 246 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~--~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag--~~~~~~~--~l~~~G~~lGlAFQI~DDiL 246 (309)
...+.|+..+..+... .+|.++|..+ +..|+...-+ +.+.-...| .++...+ .+.++-+..+...-+.+||.
T Consensus 139 ~~~~~a~~~e~~~~~~~~~psl~eYl~~-R~~~~g~~~~-~~l~~~~~g~~lp~~~~~~~~~~~l~~~~~~~~~l~NDl~ 216 (303)
T cd00687 139 EDYFDAYIWEGKNRLNGHVPDVAEYLEM-RRFNIGADPC-LGLSEFIGGPEVPAAVRLDPVMRALEALASDAIALVNDIY 216 (303)
T ss_pred HHHHHHHHHHHHHHhcCCCcCHHHHHHH-hhhccccccc-HHHHHHhcCCCCCHHHHhChHHHHHHHHHHHHHHHHHHHH
Confidence 4566788877655433 4789988886 6666443211 112222223 2444333 37888889999999999999
Q ss_pred hhcccchhcCCCCchhhhhh------hHHHHHHHHHHHHHHHHHHhc
Q 021668 247 DNMKKKKEAGDDEATYPKLM------GVAGAKRYAKELVAEANQELA 287 (309)
Q Consensus 247 D~~~~~~~~G~gK~T~p~l~------gle~A~~~a~~~~~~A~~~L~ 287 (309)
.+..+....| .-.++..++ ..++|.+.+.++++++++...
T Consensus 217 S~~KE~~~~g-~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f~ 262 (303)
T cd00687 217 SYEKEIKANG-EVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQFE 262 (303)
T ss_pred hhHHHHHhCC-ccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 9987653333 124444432 456666666666666555543
No 24
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=75.67 E-value=9.5 Score=35.46 Aligned_cols=42 Identities=19% Similarity=0.195 Sum_probs=33.5
Q ss_pred HHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHH
Q 021668 234 CVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKEL 278 (309)
Q Consensus 234 ~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~ 278 (309)
-+-.+.++..|+.|..+|.+ .|+.|+|+..|.+.++....-+
T Consensus 172 l~~~~~~~~~d~~D~e~D~~---~G~~Tlpv~lG~~~t~~~~~~~ 213 (285)
T PRK12872 172 LKSFIREIVFDIKDIEGDRK---SGLKTLPIVLGKERTLKFLLIL 213 (285)
T ss_pred HHHHHHHHHHhcccchhHHH---cCCcccchhcchHHHHHHHHHH
Confidence 34578889999999999987 4999999999888776554433
No 25
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=74.00 E-value=4.2 Score=31.55 Aligned_cols=23 Identities=35% Similarity=0.482 Sum_probs=19.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHh
Q 021668 221 SEEDIEKLRKYGKCVGLAYQVWD 243 (309)
Q Consensus 221 ~~~~~~~l~~~G~~lGlAFQI~D 243 (309)
.++..+.+-+||..+|-+||++=
T Consensus 14 Eet~~e~llRYGLf~GAIFQliC 36 (85)
T PF06783_consen 14 EETFFENLLRYGLFVGAIFQLIC 36 (85)
T ss_pred cchHHHHHHHHHHHHHHHHHHHH
Confidence 34567899999999999999973
No 26
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=73.34 E-value=17 Score=34.33 Aligned_cols=44 Identities=20% Similarity=0.311 Sum_probs=35.8
Q ss_pred HHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHH
Q 021668 235 VGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAE 281 (309)
Q Consensus 235 lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~ 281 (309)
+..++.+..|+.|+.+|.+ .|+.|+|+.+|.+.|...+.-..--
T Consensus 172 ~~~a~~ii~~irDie~Dr~---~G~~Tlpv~lG~~~a~~~~~~l~~~ 215 (282)
T PRK13105 172 WGMASHAFGAVQDVVADRE---AGIASIATVLGARRTVRLAVGLYAA 215 (282)
T ss_pred HHHHHHHHHhCcchHhHHH---cCCccchHHhcHHHHHHHHHHHHHH
Confidence 3668999999999999987 4999999999998887665544433
No 27
>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=70.67 E-value=12 Score=33.80 Aligned_cols=111 Identities=16% Similarity=0.137 Sum_probs=59.9
Q ss_pred ccchhhhHHHhhhCCC--CCCHHHHHHHHHhchHHHHHHHHHHHHHhcCC----CHHHHHHHHHHHHHHHHHHHHHhchh
Q 021668 173 RGVLAGRIMEINSKGK--DVSLSELDFIKRLRCGKLIEASVVCGVLIGGG----SEEDIEKLRKYGKCVGLAYQVWDDIL 246 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~--~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~----~~~~~~~l~~~G~~lGlAFQI~DDiL 246 (309)
...+.|...+..+... -+|.++|..+ +..|+...-+.......++.. ..+.++.-..+-+..+..--+.+||.
T Consensus 147 ~~~~~~~~~e~~~~~~~~~ps~eeYl~~-R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~ 225 (270)
T PF03936_consen 147 REYLNAYLWEARWRERGRIPSLEEYLEM-RRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLY 225 (270)
T ss_dssp HHHHHHHHHHHHHHHTTS--SHHHHHHH-HHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccCCCCCHHHHHHh-ccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccc
Confidence 4455566666555432 4788988887 556654422222221111211 11223221226666666666779999
Q ss_pred hhcccchhcCCCCchhh-hh-----hhHHHHHHHHHHHHHHHHHHh
Q 021668 247 DNMKKKKEAGDDEATYP-KL-----MGVAGAKRYAKELVAEANQEL 286 (309)
Q Consensus 247 D~~~~~~~~G~gK~T~p-~l-----~gle~A~~~a~~~~~~A~~~L 286 (309)
.+..+... | +..++. ++ ..++.|...+.+.++++.+.+
T Consensus 226 S~~KE~~~-g-~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~ef 269 (270)
T PF03936_consen 226 SYKKEIAR-G-DVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREF 269 (270)
T ss_dssp HHHHHHHT-T-SCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhcchhh-c-ccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhc
Confidence 99765432 3 122333 22 267888888888888887765
No 28
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=69.64 E-value=17 Score=33.78 Aligned_cols=65 Identities=22% Similarity=0.177 Sum_probs=42.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHH
Q 021668 208 EASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYA 275 (309)
Q Consensus 208 ~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a 275 (309)
..+...|....+......-.+.-+.--..+.+++..|+.|..+|.+ .|+.|+|+.+|.+.+...+
T Consensus 140 ~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e~D~~---~G~~Tl~v~~G~~~~~~~~ 204 (279)
T PRK12884 140 GMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVEGDRL---RGARTLAILYGEKIAGRIA 204 (279)
T ss_pred HHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH---cCCeeechHhcHHHHHHHH
Confidence 3444445443333322222334455566678899999999999877 4899999988877665443
No 29
>PRK13591 ubiA prenyltransferase; Provisional
Probab=63.93 E-value=23 Score=34.06 Aligned_cols=41 Identities=12% Similarity=0.043 Sum_probs=32.8
Q ss_pred HHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHH
Q 021668 237 LAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVA 280 (309)
Q Consensus 237 lAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~ 280 (309)
.+..+.+|+.|+.+|.. .|+.|+|+.+|.+.|+....-..-
T Consensus 193 ~~~~iindirDiEGDr~---~G~kTLPV~lG~~~A~~l~~~l~~ 233 (307)
T PRK13591 193 FINSCVYDFKDVKGDTL---AGIKTLPVSLGEQKTRNLLLGIHL 233 (307)
T ss_pred HHHHHHHHhhhhHhHHH---cCCeeEEEEECHHHHHHHHHHHHH
Confidence 34457899999999988 499999999999998766554443
No 30
>PLN00012 chlorophyll synthetase; Provisional
Probab=62.64 E-value=21 Score=35.15 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=34.2
Q ss_pred HHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHH
Q 021668 234 CVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAK 276 (309)
Q Consensus 234 ~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~ 276 (309)
-+++++-+.+|+.|+.+|.+ .|+.|+|+.+|.+.++..+-
T Consensus 263 l~~lai~ivnd~~Die~Dr~---aG~~TLpV~~G~~~a~~l~~ 302 (375)
T PLN00012 263 IAGLGIAIVNDFKSIEGDRA---LGLQSLPVAFGVETAKWICV 302 (375)
T ss_pred HHHHHHHHHhhhcchhhHHH---cCCcccceeechHHHHHHHH
Confidence 47888999999999999987 48999999999888776643
No 31
>PRK13595 ubiA prenyltransferase; Provisional
Probab=60.44 E-value=51 Score=31.41 Aligned_cols=76 Identities=16% Similarity=0.030 Sum_probs=51.9
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHh
Q 021668 207 IEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAEANQEL 286 (309)
Q Consensus 207 f~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~A~~~L 286 (309)
+..+...|+...|...... .--...-.+++|.+..|+.|+.+|.+ .|..|.|+.+|.+.+-..+.-..--|...+
T Consensus 155 ~g~p~~~~~~~~g~~~~~~--~l~a~~~w~~g~dii~ai~DiegDr~---~Gi~Slpv~lG~r~a~~~a~~~~~~a~~~~ 229 (292)
T PRK13595 155 YALPLALPALALGAPVPWP--PLLALMAWSVGKHAFDAAQDIPADRA---AGTRTVATTLGVRGTALYALAWFLLAGALL 229 (292)
T ss_pred HHHHHHHHHHHcCCcchHH--HHHHHHHHHHHHHHHHhccChHhHHH---cCCeechHHhCcHhHHHHHHHHHHHHHHHH
Confidence 4556777777776543221 12233456699999999999999887 489999999988877766665544444443
Q ss_pred c
Q 021668 287 A 287 (309)
Q Consensus 287 ~ 287 (309)
-
T Consensus 230 ~ 230 (292)
T PRK13595 230 W 230 (292)
T ss_pred H
Confidence 3
No 32
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=59.43 E-value=1.4e+02 Score=28.39 Aligned_cols=109 Identities=16% Similarity=0.202 Sum_probs=66.5
Q ss_pred ccchhhhHHHhhhCCCCCCHHHHHHHHHhchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccc
Q 021668 173 RGVLAGRIMEINSKGKDVSLSELDFIKRLRCGKLIEASVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKK 252 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~~~s~~~~~~i~~~KTg~Lf~~a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~ 252 (309)
..|+.|+..|+..... .+.++++.-+ +-||.... +.+..|++-.+ -.........+|.|+|..+=+.|+--|-
T Consensus 106 ~~~~da~~~Dl~~~~y-~~~~eL~~Yc-~~vAg~vG--~l~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRdv~eD~ 178 (288)
T COG1562 106 PALIDAMRMDLDRTRY-LDFEELEEYC-YGVAGAVG--LLLARILGPDK---DAATRAYARGLGLALQLVNILRDVGEDR 178 (288)
T ss_pred HHHHHHHHHHhhhccc-cCHHHHHHHH-HHhHHHHH--HHHHHHhCccc---chhhHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 4578999999876643 3455555433 33443322 22333444322 2234555556999999999888887665
Q ss_pred hhcCCCCchhhhh----------------------hhHHHHHHHHHHHHHHHHHHhccCCC
Q 021668 253 KEAGDDEATYPKL----------------------MGVAGAKRYAKELVAEANQELAYFDP 291 (309)
Q Consensus 253 ~~~G~gK~T~p~l----------------------~gle~A~~~a~~~~~~A~~~L~~l~~ 291 (309)
. .|+.=+|.- ..+.+--..++++...|...+..+|.
T Consensus 179 ~---~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~ 236 (288)
T COG1562 179 R---RGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPG 236 (288)
T ss_pred h---CCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCc
Confidence 5 245555521 12344456788889999999998865
No 33
>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=57.53 E-value=31 Score=30.83 Aligned_cols=62 Identities=23% Similarity=0.245 Sum_probs=42.9
Q ss_pred HHHHHHHHhcCCC-HHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHH
Q 021668 209 ASVVCGVLIGGGS-EEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKR 273 (309)
Q Consensus 209 ~a~~~Gailag~~-~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~ 273 (309)
....+|+...+.+ ....-.+.-+.--++.+.....|+.|+.+|.+ .|+.|+|+.+|.+.+..
T Consensus 131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~D~~---~g~~Tl~v~~G~~~~~~ 193 (257)
T PF01040_consen 131 LLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEGDRK---AGRRTLPVLLGEKKARY 193 (257)
T ss_pred HhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH---cCCcchHHHHHHHHHHH
Confidence 4444454444443 23333444555677888888889999999966 48999999998888765
No 34
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=54.54 E-value=62 Score=30.06 Aligned_cols=38 Identities=24% Similarity=0.206 Sum_probs=28.2
Q ss_pred HHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHH
Q 021668 236 GLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAK 276 (309)
Q Consensus 236 GlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~ 276 (309)
.+++=+..|+.|+.+|.+ .|..|+|+.+|.+.+...+.
T Consensus 167 ~~~~~~~~~~~D~~~D~~---~G~~tlpv~~G~~~a~~~~~ 204 (279)
T PRK09573 167 TWSREIVKDIEDIEGDLK---ENVITLPIKYGIKKSWYIAK 204 (279)
T ss_pred HHHHHHHhhhhhhhhHHH---CCCccccHHhhHHHHHHHHH
Confidence 345556688899988876 48999999988877765543
No 35
>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=50.30 E-value=1.9e+02 Score=29.81 Aligned_cols=112 Identities=20% Similarity=0.150 Sum_probs=71.7
Q ss_pred ccchhhhHHHhhhCCC--CCCHHHHHHHHHhchHHHHH--HHHHHHHHhcC-CCHHHHHHHH---HHHHHHHHHHHHHhc
Q 021668 173 RGVLAGRIMEINSKGK--DVSLSELDFIKRLRCGKLIE--ASVVCGVLIGG-GSEEDIEKLR---KYGKCVGLAYQVWDD 244 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~~--~~s~~~~~~i~~~KTg~Lf~--~a~~~Gailag-~~~~~~~~l~---~~G~~lGlAFQI~DD 244 (309)
..++.+-..+..|... -+|.++|... +.-|+...- ..+..| ++. .+++..+.+. .+-...+....+.||
T Consensus 366 ~~~~~a~l~EA~w~~~g~vPt~eEYl~~-~~~S~g~~~~~~~~~~~--~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~ND 442 (542)
T cd00684 366 KDLVKAYLVEAKWAHEGYVPTFEEYMEN-ALVSIGLGPLLLTSFLG--MGDILTEEAFEWLESRPKLVRASSTIGRLMND 442 (542)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHhh-hhHHhhHHHHHHHHHHh--cCCCCCHHHHHHHhccHHHHHHHHHHHHHhcC
Confidence 4566777777777543 4788988886 455544322 222222 221 3566655444 577888999999999
Q ss_pred hhhhcccchhcCCCCchhhhhh------hHHHHHHHHHHHHHHHHHHhccC
Q 021668 245 ILDNMKKKKEAGDDEATYPKLM------GVAGAKRYAKELVAEANQELAYF 289 (309)
Q Consensus 245 iLD~~~~~~~~G~gK~T~p~l~------gle~A~~~a~~~~~~A~~~L~~l 289 (309)
+..+....+ .| .-.+....+ ..+.|.+.+.+.++.+++.+.+.
T Consensus 443 i~S~~kE~~-rG-dv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e 491 (542)
T cd00684 443 IATYEDEMK-RG-DVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEE 491 (542)
T ss_pred hhhhHHHHh-cC-CcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 998876543 23 113444432 57888899999999999888753
No 36
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=48.44 E-value=1.1e+02 Score=28.44 Aligned_cols=42 Identities=26% Similarity=0.308 Sum_probs=32.6
Q ss_pred HHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHH
Q 021668 234 CVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKEL 278 (309)
Q Consensus 234 ~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~ 278 (309)
..-+++-+..|+.|+.+|.+ .|..|+|+.+|.+.+...+--+
T Consensus 168 l~~~~~~~~~~~~D~e~D~~---~G~~tlpv~~G~~~t~~~~~~~ 209 (276)
T PRK12882 168 LATLAREIIKDVEDIEGDRA---EGARTLPILIGVRKALYVAAAF 209 (276)
T ss_pred HHHHHHHHHhhhhhhhhHHH---cCCccccHHhhHHHHHHHHHHH
Confidence 34567788899999998877 4899999999988887654433
No 37
>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=47.72 E-value=2.1e+02 Score=25.76 Aligned_cols=128 Identities=17% Similarity=0.041 Sum_probs=75.9
Q ss_pred ccchhhhHHHhhhCC--CCCCHHHHHHHHHhchHHH-HHHHH-HHHHHhcCCCH---HHHHHHHHHHHHHHHHHHHHhch
Q 021668 173 RGVLAGRIMEINSKG--KDVSLSELDFIKRLRCGKL-IEASV-VCGVLIGGGSE---EDIEKLRKYGKCVGLAYQVWDDI 245 (309)
Q Consensus 173 ~~~~~GQ~~Dl~~~~--~~~s~~~~~~i~~~KTg~L-f~~a~-~~Gailag~~~---~~~~~l~~~G~~lGlAFQI~DDi 245 (309)
...+.|...+..+.. ..++.++|..+ +..|+.. +.+++ ..+.-. .-++ .....+..+-...+..-=+.+|+
T Consensus 132 ~~~~~~~~~e~~~~~~~~~p~~~eYl~~-R~~~~g~~~~~~l~~~~~g~-~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl 209 (284)
T cd00868 132 KDLLRAYLVEAKWANEGYVPSFEEYLEN-RRVSIGYPPLLALSFLGMGD-ILPEEAFEWLPSYPKLVRASSTIGRLLNDI 209 (284)
T ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHh-ceehhhHHHHHHHHHHHcCC-CCCHHHHHHhhhhHHHHHHHHHHHHHhccc
Confidence 456677777776643 25788988886 6667644 22221 111111 1233 34566788888888888899999
Q ss_pred hhhcccchhcCCCCchhhhhh------hHHHHHHHHHHHHHHHHHHhccC----C-CCCHHHHHHHHHHH
Q 021668 246 LDNMKKKKEAGDDEATYPKLM------GVAGAKRYAKELVAEANQELAYF----D-PTRAAPLYHLADFL 304 (309)
Q Consensus 246 LD~~~~~~~~G~gK~T~p~l~------gle~A~~~a~~~~~~A~~~L~~l----~-~~~~~~L~~l~~~l 304 (309)
..+.... ..| .-.+++.++ .++.|.+.+.+.++++++.+..+ + +.....+..+..++
T Consensus 210 ~S~~kE~-~~g-~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 277 (284)
T cd00868 210 ASYEKEI-ARG-EVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLA 277 (284)
T ss_pred hHHHHHH-ccC-CcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 9997654 223 122555443 56777777777777777666543 2 22344455444443
No 38
>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=45.40 E-value=1.9e+02 Score=26.45 Aligned_cols=68 Identities=31% Similarity=0.291 Sum_probs=50.2
Q ss_pred CCCH-HHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHhccCC
Q 021668 219 GGSE-EDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAEANQELAYFD 290 (309)
Q Consensus 219 g~~~-~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~~l~ 290 (309)
|.++ +....+...-+-+=.++-|-|||.|=.. .. .|++|+-..+|...|-....-+...|.+.|...+
T Consensus 34 g~~~~~~~~~la~aiEllh~asLIhDDI~D~s~--~R--RG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~~ 102 (259)
T cd00685 34 GGPELEAALRLAAAIELLHTASLVHDDVMDNSD--LR--RGKPTVHKVFGNATAILAGDYLLARAFELLARLG 102 (259)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHhhhccCCc--cc--CCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhCC
Confidence 4344 5556677777788889999999976432 11 4788888888888888888888888888887663
No 39
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=44.65 E-value=94 Score=28.80 Aligned_cols=39 Identities=23% Similarity=0.250 Sum_probs=30.7
Q ss_pred HHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHH
Q 021668 236 GLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKE 277 (309)
Q Consensus 236 GlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~ 277 (309)
.+++.+..|+.|+.+|.+ .|+.|+|+.+|.+.++....-
T Consensus 167 ~~~~~~~~~~~D~e~D~~---~G~~Tlpv~~G~~~a~~~~~~ 205 (277)
T PRK12883 167 NVAREIMKDIEDIEGDKA---KGAKTLPIIIGKKRAAYIGAI 205 (277)
T ss_pred HHHHHHHhhhhhhccHHH---cCCcCcChHhcHHHHHHHHHH
Confidence 356778899999999877 489999999988877665443
No 40
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=42.89 E-value=87 Score=29.26 Aligned_cols=73 Identities=22% Similarity=0.156 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHH
Q 021668 204 GKLIEASVVCGVLIGGG-SEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELV 279 (309)
Q Consensus 204 g~Lf~~a~~~Gailag~-~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~ 279 (309)
|..+..+..+|+...+. .....-.+.-+..-..++|.+..|+.|..+|.+ .|..|.|+.+|.+.+...+.-+.
T Consensus 147 g~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~D~~---~G~~s~~~~~G~~~a~~l~~~~~ 220 (289)
T COG0382 147 GLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEGDRK---AGLKSLPVLFGIKKALALALLLL 220 (289)
T ss_pred HHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccchHh---cCCcchHHHhCchhHHHHHHHHH
Confidence 44566666667665553 233445678888889999999999999999987 48888999888777665554444
No 41
>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=42.74 E-value=82 Score=29.89 Aligned_cols=39 Identities=15% Similarity=0.195 Sum_probs=32.0
Q ss_pred HHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHH
Q 021668 235 VGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAK 276 (309)
Q Consensus 235 lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~ 276 (309)
...++-+.+|+.|+.+|.+ .|+.|+|+.+|.+.++....
T Consensus 195 ~~~~i~~~n~~~D~e~D~~---~G~~Tlpv~lG~~~a~~~~~ 233 (306)
T TIGR02056 195 AGLGIAIVNDFKSVEGDRA---LGLQSLPVAFGIETAAWICV 233 (306)
T ss_pred HHHHHHHHHHccChHHHHH---cCCcCcchhcChHHHHHHHH
Confidence 4556668999999999987 49999999999888776655
No 42
>PLN02878 homogentisate phytyltransferase
Probab=41.32 E-value=40 Score=32.00 Aligned_cols=46 Identities=13% Similarity=0.115 Sum_probs=35.4
Q ss_pred HHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHHHHH
Q 021668 236 GLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAEANQ 284 (309)
Q Consensus 236 GlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~A~~ 284 (309)
..+.-|..|+.|+.||.+ .|..|+|+.+|.+.+...+--...-|.-
T Consensus 169 ~~~i~i~KDi~DieGD~~---~Gi~Tlpv~lG~~~~~~i~~~ll~~aY~ 214 (280)
T PLN02878 169 SVVIALFKDIPDVEGDRI---FGIRSFSVRLGQKRVFWLCVNLLEMAYA 214 (280)
T ss_pred HHHHHHHhhCcCchhHHH---CCCceechhhChHHHHHHHHHHHHHHHH
Confidence 333448999999999988 4899999999988887776665555443
No 43
>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=40.72 E-value=2.6e+02 Score=26.68 Aligned_cols=71 Identities=17% Similarity=0.141 Sum_probs=49.8
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHhccCC
Q 021668 216 LIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAEANQELAYFD 290 (309)
Q Consensus 216 ilag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~~l~ 290 (309)
.++|.+.+....+...=+-|=.|.=|-|||.|--.. . .|++|....+|...|....+-+..+|.+.+..++
T Consensus 56 ~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~s~~--R--Rg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~ 126 (319)
T TIGR02748 56 KFGDYDLDAIKHVAVALELIHMASLVHDDVIDDADL--R--RGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIK 126 (319)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHhccccCCCCC--C--CCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCC
Confidence 344555555555666667777888899999774321 1 4788888888888887777777778888777664
No 44
>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=40.21 E-value=1.8e+02 Score=26.70 Aligned_cols=76 Identities=28% Similarity=0.184 Sum_probs=57.8
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHhccCC
Q 021668 211 VVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVAEANQELAYFD 290 (309)
Q Consensus 211 ~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~~A~~~L~~l~ 290 (309)
|.+.+...|.+.+....+...-+.+=.++=|-|||.|--.. . .|++|.-..+|...|.....-+...|.+.+...+
T Consensus 21 ~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~s~~--R--RG~pt~~~~~G~~~Ail~gd~ll~~a~~~l~~~~ 96 (260)
T PF00348_consen 21 VLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDNSDL--R--RGKPTVHKKFGNAIAILAGDYLLALAFELLARLG 96 (260)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSE--E--TTEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhccccc--C--CCCccccccccccchhhhchHHHHHHHHHHHHhh
Confidence 33344455566677777888888889999999999774321 1 4788888888999988888888888888887765
No 45
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=40.09 E-value=2.8e+02 Score=26.51 Aligned_cols=84 Identities=18% Similarity=0.115 Sum_probs=52.6
Q ss_pred chHHHHHHH-HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHHH
Q 021668 202 RCGKLIEAS-VVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELVA 280 (309)
Q Consensus 202 KTg~Lf~~a-~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~~ 280 (309)
.-|..++.. +.+.+.+.|.+.+....+..--+-+=.+..|-|||.|-..- . .|++|.-..+|...|--..+-+..
T Consensus 42 ~~GKrlRp~l~ll~~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D~s~~--R--RG~pt~~~~~G~~~Ail~GD~L~~ 117 (323)
T PRK10888 42 GGGKRIRPMIAVLAARAVGYQGNAHVTIAALIEFIHTATLLHDDVVDESDM--R--RGKATANAAFGNAASVLVGDFIYT 117 (323)
T ss_pred CCCchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHcccccCCcc--c--CCCCCHHHHhCccHHHHHHHHHHH
Confidence 335555543 23333444555555555666667777888999999774321 1 478888777777666666666666
Q ss_pred HHHHHhccC
Q 021668 281 EANQELAYF 289 (309)
Q Consensus 281 ~A~~~L~~l 289 (309)
.|.+.+..+
T Consensus 118 ~a~~~l~~~ 126 (323)
T PRK10888 118 RAFQMMTSL 126 (323)
T ss_pred HHHHHHHhC
Confidence 676666654
No 46
>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=39.16 E-value=21 Score=33.27 Aligned_cols=39 Identities=15% Similarity=0.135 Sum_probs=31.7
Q ss_pred HHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHH
Q 021668 236 GLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKE 277 (309)
Q Consensus 236 GlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~ 277 (309)
..++.+.+|+.|+.+|.+ .|+.|+|+.+|.+.++..+.-
T Consensus 174 ~~~i~~~nd~~D~~~D~~---~G~~Tl~v~lG~~~a~~l~~~ 212 (283)
T TIGR01476 174 AHGIMTLNDFKSVEGDRQ---LGLRSLPVMIGVKRAAIVAVT 212 (283)
T ss_pred HHHHHHHHhccchhhHHH---cCCcCcceEEcHHHHHHHHHH
Confidence 345678999999999987 489999999998888765544
No 47
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=37.13 E-value=48 Score=31.64 Aligned_cols=44 Identities=14% Similarity=0.176 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHH
Q 021668 230 KYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAK 276 (309)
Q Consensus 230 ~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~ 276 (309)
-+.--+-.++.+..|+.|..+|.+ .|+.|+|+.+|.+.+...+.
T Consensus 189 ~~~~~~~~~~~l~~di~D~egD~~---~Gi~Tlav~lG~~~a~~l~~ 232 (308)
T PRK12887 189 LFVLVFTFAIAIFKDIPDMEGDRQ---YQITTFTLRLGKQAVFKLSC 232 (308)
T ss_pred HHHHHHHHHHHHHHhccchhhHHH---cCCcchhHHHhHHHHHHHHH
Confidence 344455668889999999999987 48999999988777764433
No 48
>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=31.88 E-value=1.7e+02 Score=27.25 Aligned_cols=37 Identities=19% Similarity=0.255 Sum_probs=28.2
Q ss_pred HHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHH
Q 021668 238 AYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKE 277 (309)
Q Consensus 238 AFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~ 277 (309)
.+-+..|+.|+.+|.+ .|..|+|+.+|.+.++....-
T Consensus 173 ~~~~i~~~~D~e~D~~---~G~~tlpv~~G~~~a~~~~~~ 209 (282)
T TIGR01475 173 GFDLIYAIQDYEFDRK---NGLHSIPARFGIKAALKIASL 209 (282)
T ss_pred HHHHHHHHhhHHhHHH---cCCCchHHHhchHHHHHHHHH
Confidence 4566888889988876 489999999988777655443
No 49
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=30.44 E-value=1.7e+02 Score=27.25 Aligned_cols=40 Identities=18% Similarity=0.157 Sum_probs=30.1
Q ss_pred HHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHH
Q 021668 235 VGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKE 277 (309)
Q Consensus 235 lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~ 277 (309)
+-.++-+.+|+.|+.+|.+ .|+.|+|+.+|.+.++....-
T Consensus 180 ~~~~~~~~n~~~D~~~D~~---~G~~Tl~v~lG~~~a~~~~~~ 219 (293)
T PRK06080 180 LIGAVLLANNIRDIETDRE---NGKNTLAVRLGDKNARRLHAA 219 (293)
T ss_pred HHHHHHHhcCCCcchhHHH---cCCeeEEeeECcHhHHHHHHH
Confidence 3455668899999999987 489999998887776654443
No 50
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=30.38 E-value=1.5e+02 Score=28.66 Aligned_cols=50 Identities=10% Similarity=0.079 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHHHHHH
Q 021668 227 KLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYAKELV 279 (309)
Q Consensus 227 ~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a~~~~ 279 (309)
.+.-+.--+.+++-+..|+.|+.+|.+. |+.|+|+.+|.+.+...+--+.
T Consensus 184 ~l~~~~~l~~~~~~~i~d~~D~egD~~~---G~kTlpV~~G~~~a~~i~~~~~ 233 (331)
T PRK12392 184 WLAGLNFFMAIALIIMNDFKSVEGDKEG---GLKSLTVMIGAKNTFLVSFIII 233 (331)
T ss_pred HHHHHHHHHHHHHHHHHcccchhhHHHc---CCeeeEeEEcHhhHHHHHHHHH
Confidence 3444555677889999999999999874 8999999998887766554443
No 51
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=28.72 E-value=48 Score=31.29 Aligned_cols=39 Identities=13% Similarity=0.170 Sum_probs=32.1
Q ss_pred HHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHH
Q 021668 234 CVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYA 275 (309)
Q Consensus 234 ~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a 275 (309)
-+.+++.+.+++.|+.+|.+ .|+.|+|+.+|.+.++..+
T Consensus 176 l~~~~~~~in~i~Die~D~~---aGi~Tlav~lG~~~a~~~~ 214 (282)
T PRK12875 176 LWAMGMHTFSAIPDIEPDRA---AGIRTTATVLGERRTYAYC 214 (282)
T ss_pred HHHHHHHHHHhccCHHHHHH---cCCccchhhccHhhHHHHH
Confidence 55677788999999999987 4899999999988776443
No 52
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=27.87 E-value=1.7e+02 Score=27.65 Aligned_cols=39 Identities=15% Similarity=0.164 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHH
Q 021668 233 KCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRY 274 (309)
Q Consensus 233 ~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~ 274 (309)
--+-+++-+..|+.|..+|.+ .|+.|+|+.+|...++..
T Consensus 185 ~~w~~~~~~~~a~~D~e~D~~---~G~~Tlpv~~G~~~t~~~ 223 (297)
T PRK12871 185 YPWTMAHLGLNDFIDLENDRA---RGMKSIAVLYGMKGTMYW 223 (297)
T ss_pred HHHHHHHHHHHHHhhhhhHHH---cCCeeeeeeechHHHHHH
Confidence 333556788899999988877 489999999887766643
No 53
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=26.70 E-value=43 Score=31.96 Aligned_cols=36 Identities=17% Similarity=0.173 Sum_probs=29.1
Q ss_pred HHHHHHhchhhhcccchhcCCCCchhhhhhhHHHHHHHH
Q 021668 237 LAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGAKRYA 275 (309)
Q Consensus 237 lAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A~~~a 275 (309)
.++.+.+|+.|..+|.+ .|+.|+|+.+|.+.++...
T Consensus 203 ~~~~~~~d~~D~e~D~~---aG~~Tlpv~~G~~~a~~l~ 238 (314)
T PRK07566 203 HGIMTLNDFKSVEGDRQ---LGLRSLPVVFGEKNAARIA 238 (314)
T ss_pred HHHHHHHHHHHhHhHHH---cCCcccceeEcHHHHHHHH
Confidence 44578999999999977 4899999999887766554
No 54
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=25.62 E-value=1.8e+02 Score=28.22 Aligned_cols=89 Identities=25% Similarity=0.264 Sum_probs=49.4
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhh-hHHHH-----------------
Q 021668 210 SVVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLM-GVAGA----------------- 271 (309)
Q Consensus 210 a~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~-gle~A----------------- 271 (309)
-|+.|++.+=.+....+.+- .+=+|||-+.|+||=.-|....- +-..+..++ ++.-|
T Consensus 36 HceGgsi~al~~~~~~~~~i----~fIVAyQTIsDYLDNLcDrs~~~-d~~~Fr~LH~am~dAl~p~a~~~dYY~~~~~~ 110 (330)
T PF10776_consen 36 HCEGGSIYALLPGENRDELI----RFIVAYQTISDYLDNLCDRSTSL-DPKDFRQLHQAMLDALDPGAPLSDYYRYRPEQ 110 (330)
T ss_pred CCcchhhhhhcCCccHhhHH----HHHHHHHHHHHHHHhhhhccCCC-ChHHHHHHHHHHHHHcCCCCCcchHHHcCCcc
Confidence 36666665533222222222 34589999999999876533211 112222222 22111
Q ss_pred --HHHHHHHHHHHHHHhccCCCC--CHHHHHHHHHH
Q 021668 272 --KRYAKELVAEANQELAYFDPT--RAAPLYHLADF 303 (309)
Q Consensus 272 --~~~a~~~~~~A~~~L~~l~~~--~~~~L~~l~~~ 303 (309)
......+++.|.+.|..+|+- -+..+.+++.+
T Consensus 111 dDGGYL~~LV~tCq~~l~~lP~y~~V~~~l~~la~l 146 (330)
T PF10776_consen 111 DDGGYLRALVRTCQQVLAQLPSYELVRPYLLELARL 146 (330)
T ss_pred ccChHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 256778888999999988762 23456666554
No 55
>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=22.55 E-value=5.3e+02 Score=22.60 Aligned_cols=74 Identities=28% Similarity=0.135 Sum_probs=43.9
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhh-hhHHHHHHHHHHHHHHHHHHhcc
Q 021668 211 VVCGVLIGGGSEEDIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKL-MGVAGAKRYAKELVAEANQELAY 288 (309)
Q Consensus 211 ~~~Gailag~~~~~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l-~gle~A~~~a~~~~~~A~~~L~~ 288 (309)
+.+.+-+.|.+.+.+..+..--+.|=.+.-|.|||.|=... . .|+.|.... +|...|.......+..+...+..
T Consensus 6 ~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~--r--rg~~~~~~~~~g~~~ai~~gd~l~~~a~~~l~~ 80 (236)
T cd00867 6 VLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDL--R--RGKPTAHLRRFGNALAILAGDYLLARAFQLLAR 80 (236)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCcc--C--CCCccHhHHhhCHhHHHHHHHHHHHHHHHHHHh
Confidence 33334444556666666777777778888899999884322 1 355665554 55555544455555555555544
No 56
>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=20.89 E-value=3.7e+02 Score=25.04 Aligned_cols=65 Identities=14% Similarity=-0.022 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHhcCCCHH-HHHHHHHHHHHHHHHHHHHhchhhhcccchhcCCCCchhhhhhhHHHH
Q 021668 204 GKLIEASVVCGVLIGGGSEE-DIEKLRKYGKCVGLAYQVWDDILDNMKKKKEAGDDEATYPKLMGVAGA 271 (309)
Q Consensus 204 g~Lf~~a~~~Gailag~~~~-~~~~l~~~G~~lGlAFQI~DDiLD~~~~~~~~G~gK~T~p~l~gle~A 271 (309)
|..+..+..+|......+-. ..-.+.-..--.-..|.+..++.|..+|.+ .|+.|+|+.+|.+.+
T Consensus 140 g~~~~~~~~~g~~a~~g~~~~~~~ll~~~~~lw~~~~~~~~a~~D~e~D~~---~G~~tlpv~~G~~~~ 205 (281)
T TIGR01474 140 GLAFGWGALMGWAAVTGDLSTAAWVLYLANILWTLGYDTIYAMQDKEDDIK---IGVKSTALRFGDNTK 205 (281)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHH---cCCCcccHHhhhhhH
Confidence 34455555555433322211 111122223333445666778888888876 489999998886654
Done!