Query 014640
Match_columns 421
No_of_seqs 257 out of 1658
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:06:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014640.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014640hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02890 geranyl diphosphate s 100.0 1.2E-85 2.7E-90 671.2 40.2 418 1-421 1-422 (422)
2 TIGR02749 prenyl_cyano solanes 100.0 9E-70 2E-74 542.0 36.4 316 83-420 6-321 (322)
3 PLN02857 octaprenyl-diphosphat 100.0 4.8E-70 1E-74 556.9 34.0 323 80-421 94-416 (416)
4 TIGR02748 GerC3_HepT heptapren 100.0 1.5E-69 3.2E-74 540.1 35.3 315 81-421 3-319 (319)
5 CHL00151 preA prenyl transfera 100.0 6.3E-69 1.4E-73 536.4 35.1 318 81-420 5-322 (323)
6 PRK10888 octaprenyl diphosphat 100.0 1.5E-68 3.3E-73 533.2 35.7 315 82-421 5-323 (323)
7 COG0142 IspA Geranylgeranyl py 100.0 6.8E-68 1.5E-72 528.5 35.7 317 83-421 3-322 (322)
8 KOG0776 Geranylgeranyl pyropho 100.0 3.3E-65 7.1E-70 506.2 32.0 313 80-419 64-384 (384)
9 PRK10581 geranyltranstransfera 100.0 4.4E-61 9.6E-66 474.5 31.4 280 84-421 4-299 (299)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 2.4E-56 5.2E-61 433.1 28.6 254 106-419 3-259 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 2.2E-55 4.7E-60 426.7 16.1 249 111-380 3-259 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 1.4E-42 3E-47 330.8 26.2 235 126-419 1-236 (236)
13 KOG0777 Geranylgeranyl pyropho 100.0 2.2E-36 4.9E-41 278.7 20.6 269 107-398 21-293 (322)
14 KOG0711 Polyprenyl synthetase 100.0 8.7E-35 1.9E-39 279.8 26.7 297 107-421 38-347 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.9 5.6E-23 1.2E-27 191.5 26.7 226 163-416 13-241 (243)
16 PF07307 HEPPP_synt_1: Heptapr 97.8 0.00063 1.4E-08 64.2 14.5 105 161-273 34-139 (212)
17 TIGR01559 squal_synth farnesyl 96.9 0.025 5.5E-07 57.3 14.5 151 225-398 100-250 (336)
18 PF00494 SQS_PSY: Squalene/phy 96.9 0.034 7.3E-07 54.0 14.8 141 230-398 88-229 (267)
19 cd00683 Trans_IPPS_HH Trans-Is 96.6 0.16 3.4E-06 49.5 17.7 136 233-398 93-228 (265)
20 PLN02632 phytoene synthase 96.4 0.085 1.8E-06 53.4 14.2 139 233-398 140-280 (334)
21 TIGR03465 HpnD squalene syntha 96.2 0.14 3.1E-06 49.9 14.3 135 233-398 85-219 (266)
22 TIGR03464 HpnC squalene syntha 96.0 0.24 5.3E-06 48.3 15.2 134 234-398 87-220 (266)
23 cd00687 Terpene_cyclase_nonpla 90.9 12 0.00027 36.6 16.1 90 224-315 127-221 (303)
24 COG1562 ERG9 Phytoene/squalene 89.2 15 0.00032 36.6 14.9 137 232-398 102-238 (288)
25 PRK12884 ubiA prenyltransferas 87.8 17 0.00038 35.4 14.4 157 163-342 40-199 (279)
26 PRK12882 ubiA prenyltransferas 80.2 37 0.0008 33.1 12.9 57 164-220 42-101 (276)
27 cd00868 Terpene_cyclase_C1 Ter 79.8 58 0.0013 31.2 17.3 90 226-315 122-215 (284)
28 PRK07566 bacteriochlorophyll/c 63.2 1.2E+02 0.0025 30.4 12.1 52 167-218 72-126 (314)
29 TIGR01474 ubiA_proteo 4-hydrox 62.0 1.6E+02 0.0036 28.8 13.0 57 164-220 44-105 (281)
30 PF01040 UbiA: UbiA prenyltran 60.3 1.5E+02 0.0033 27.8 16.7 148 171-341 34-189 (257)
31 PRK12883 ubiA prenyltransferas 58.0 1.4E+02 0.0031 29.0 11.6 51 167-217 44-97 (277)
32 PRK09573 (S)-2,3-di-O-geranylg 56.7 2E+02 0.0043 28.0 14.7 56 164-219 41-99 (279)
33 COG0382 UbiA 4-hydroxybenzoate 55.3 2.1E+02 0.0046 28.0 16.1 159 162-344 49-213 (289)
34 PRK12878 ubiA 4-hydroxybenzoat 53.9 2.3E+02 0.005 28.4 12.4 57 164-220 76-137 (314)
35 TIGR02748 GerC3_HepT heptapren 53.9 1.5E+02 0.0031 29.8 11.0 47 280-338 56-102 (319)
36 PRK12871 ubiA prenyltransferas 53.4 1.9E+02 0.0041 28.8 11.6 47 172-219 54-114 (297)
37 TIGR02056 ChlG chlorophyll syn 52.6 2.4E+02 0.0051 28.1 12.2 51 166-216 60-113 (306)
38 PLN00012 chlorophyll synthetas 50.8 2E+02 0.0044 29.7 11.7 49 163-211 126-177 (375)
39 PRK10888 octaprenyl diphosphat 49.1 2.9E+02 0.0063 27.7 13.2 47 280-338 57-103 (323)
40 PF06783 UPF0239: Uncharacteri 46.4 22 0.00048 28.8 2.9 28 286-313 15-42 (85)
41 TIGR01475 ubiA_other putative 41.6 3.4E+02 0.0075 26.4 11.9 50 164-213 40-94 (282)
42 PRK12872 ubiA prenyltransferas 40.5 3.5E+02 0.0076 26.2 12.2 34 299-343 173-206 (285)
43 PRK12870 ubiA 4-hydroxybenzoat 38.9 3.9E+02 0.0085 26.3 13.2 58 165-222 51-113 (290)
44 PRK10581 geranyltranstransfera 37.7 1.7E+02 0.0038 29.0 8.6 61 163-223 206-278 (299)
45 PF03936 Terpene_synth_C: Terp 37.6 3.1E+02 0.0068 25.8 10.2 87 227-314 138-229 (270)
46 TIGR01476 chlor_syn_BchG bacte 35.9 3.6E+02 0.0079 26.2 10.5 148 171-336 49-199 (283)
47 cd00685 Trans_IPPS_HT Trans-Is 34.1 4.3E+02 0.0093 25.3 10.6 40 287-338 39-78 (259)
48 PF00348 polyprenyl_synt: Poly 33.0 2.7E+02 0.0059 26.7 9.0 52 276-339 22-73 (260)
49 PRK12848 ubiA 4-hydroxybenzoat 31.0 5.1E+02 0.011 25.3 12.4 53 167-219 49-106 (282)
50 PRK06080 1,4-dihydroxy-2-napht 29.7 3.4E+02 0.0073 26.5 9.1 82 255-337 2-89 (293)
51 PRK13105 ubiA prenyltransferas 27.7 1.1E+02 0.0023 30.4 5.1 65 267-342 139-204 (282)
52 PRK13591 ubiA prenyltransferas 25.1 7.2E+02 0.016 25.0 13.7 31 301-342 193-223 (307)
53 PLN00012 chlorophyll synthetas 23.7 3.3E+02 0.007 28.2 8.0 92 242-336 71-169 (375)
54 PRK09573 (S)-2,3-di-O-geranylg 23.3 5.6E+02 0.012 24.9 9.3 77 256-335 3-82 (279)
55 KOG3330 Transport protein part 22.5 97 0.0021 28.1 3.3 58 262-329 12-75 (183)
56 PRK12883 ubiA prenyltransferas 22.3 5.3E+02 0.011 25.0 8.9 79 255-336 2-83 (277)
57 PRK13387 1,4-dihydroxy-2-napht 22.0 2E+02 0.0043 28.9 5.9 62 255-316 2-68 (317)
58 PRK12884 ubiA prenyltransferas 21.6 5.3E+02 0.012 24.9 8.8 79 255-336 3-83 (279)
59 PRK12392 bacteriochlorophyll c 21.3 4.9E+02 0.011 26.3 8.6 76 255-334 11-94 (331)
60 PRK12871 ubiA prenyltransferas 20.9 5E+02 0.011 25.8 8.5 77 255-334 4-96 (297)
No 1
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=1.2e-85 Score=671.22 Aligned_cols=418 Identities=77% Similarity=1.081 Sum_probs=381.8
Q ss_pred ChhhhhhhhhhcccccCccccccccCCCCccc----cccchhhhhcCCcccccCCcccCCChhhhhhhcccccccCChhh
Q 014640 1 MLIYRGLSRISRISKKTSFGRRWLPSHPLLSG----ASHSAAAAAADSSVKVLGCREAYSWSLPALHGIRHQIHHQSSSV 76 (421)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~ 76 (421)
|+|+|+++||+ +.+.+++||+.+.+.+.+ ..+.+.+++.++++||.|||....|.+..++.+.++.+++..+.
T Consensus 1 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (422)
T PLN02890 1 MLLSRRVARIS---ATSGGGRGAYGCSQSLASSRAALLGRHGHPLSQSTSKVVGCRGTYSVSSRWLHGFQYQVRHQSSSL 77 (422)
T ss_pred CCcchHHHHHh---ccccccccchhhhhhhcccccccCCCCcccccCCCccccccccceeechhhhhhhhhhchhcccch
Confidence 89999999888 778889999999664333 33556778889999999999999999999999999999988889
Q ss_pred hhhhcCchHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhH
Q 014640 77 IEEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALAT 156 (421)
Q Consensus 77 ~~~~~d~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~ 156 (421)
++...+++..+.+|++.|+++|++.+.+..|.+.+++.|++..|.+|||+||+|++++++++|...++..++...+....
T Consensus 78 ~~~~~~~~~~i~~~L~~v~~~L~~~v~~~~~~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~ 157 (422)
T PLN02890 78 VEEQLDPFSLVADELSLLANKLRSMVVAEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVAS 157 (422)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHccCChHHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccchhhcc
Confidence 99999999999999999999999999999999999999999876779999999999999999864322100000011123
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 014640 157 ELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVE 236 (421)
Q Consensus 157 ~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~ 236 (421)
+.+++++.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++...++++++.+++++.
T Consensus 158 ~~~~~~~~~AaavEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~s~a~~ 237 (422)
T PLN02890 158 ELRTRQQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLLATAVE 237 (422)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence 45567899999999999999999999999999999999999999999999999999999999999989999999999999
Q ss_pred HHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccc
Q 014640 237 HLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 316 (421)
Q Consensus 237 ~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~ 316 (421)
.+++||++|+.+..+...++++|++++++|||+||+.||++||+++|++++..+.+++||+++|+||||+||++||++++
T Consensus 238 ~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~~ 317 (422)
T PLN02890 238 HLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTS 317 (422)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCh
Confidence 99999999999887778999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCC
Q 014640 317 ASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPE 396 (421)
Q Consensus 317 ~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~ 396 (421)
+.+|||.|+||++||+|+|+|+|++..+++.+++.+.+.+++++++++++|.++|++++|++++++|.++|.+.|+.||+
T Consensus 318 ~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~lp~ 397 (422)
T PLN02890 318 ASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIESLPE 397 (422)
T ss_pred hhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999988888889998888888999999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHHHHHHHhccC
Q 014640 397 NNDEDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 397 ~~~~~~~~~r~~L~~l~~~~~~R~k 421 (421)
+++++|..+|+.|..|++++++|+|
T Consensus 398 s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 398 TDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred CccccchHHHHHHHHHHHHHHhccC
Confidence 9876777789999999999999987
No 2
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase. Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.
Probab=100.00 E-value=9e-70 Score=541.95 Aligned_cols=316 Identities=45% Similarity=0.712 Sum_probs=298.8
Q ss_pred chHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHH
Q 014640 83 PFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 162 (421)
Q Consensus 83 ~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (421)
.+..+..++.+|++++.+.+.+.+|.+.++.+|++..| |||+||.|++++++++|+... ..+..
T Consensus 6 ~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKrlRp~l~ll~~~~~~~~~~--------------~~~~~ 69 (322)
T TIGR02749 6 LFAPVEDDLYLLTDNLKSLVGARHPILYAAAEHLFSAG--GKRLRPAIVLLVSRATAEQQE--------------LTPRH 69 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHCC--CchHHHHHHHHHHHHcCCCcc--------------ccHHH
Confidence 46678999999999999999999999999999999988 999999999999999875321 11367
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Q 014640 163 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGE 242 (421)
Q Consensus 163 ~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~Gq 242 (421)
+.+|+++||||+||||||||||+|+.|||+||+|.+||+++|||+||||+++|+..++..+++++++.+++++.++++||
T Consensus 70 ~~~A~avEliH~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq 149 (322)
T TIGR02749 70 RRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGE 149 (322)
T ss_pred HHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999888999999999999999999
Q ss_pred HHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCC
Q 014640 243 TMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 322 (421)
Q Consensus 243 ~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~ 322 (421)
++|+.+..+...++++|++++.+|||+||++||++|++++|.+++.++.+++||+++|+||||+||++||+++++.+|||
T Consensus 150 ~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~ 229 (322)
T TIGR02749 150 IKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKP 229 (322)
T ss_pred HHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCC
Confidence 99998776667899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcch
Q 014640 323 SLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDV 402 (421)
Q Consensus 323 ~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~ 402 (421)
.|+||++||+|+|+++++++.|.+.+++.+.+.++++++++.++|.++|++++|++++++|.++|++.|+.||+++
T Consensus 230 ~g~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~---- 305 (322)
T TIGR02749 230 AGSDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSP---- 305 (322)
T ss_pred hhHHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCH----
Confidence 9999999999999999999888888888888888899999999999999999999999999999999999999998
Q ss_pred HHHHHHHHHHHHHHHhcc
Q 014640 403 TKSRRALLDLTHRVITRN 420 (421)
Q Consensus 403 ~~~r~~L~~l~~~~~~R~ 420 (421)
.++.|..|++++++|+
T Consensus 306 --~~~~L~~l~~~~~~R~ 321 (322)
T TIGR02749 306 --PREALKELVHFVLSRL 321 (322)
T ss_pred --HHHHHHHHHHHHHhcC
Confidence 8999999999999996
No 3
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=4.8e-70 Score=556.87 Aligned_cols=323 Identities=41% Similarity=0.664 Sum_probs=301.7
Q ss_pred hcCchHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhH
Q 014640 80 QLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELR 159 (421)
Q Consensus 80 ~~d~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~ 159 (421)
..+.+..+.++++.|+++|++.+.+..|.+.+++.|++..| |||+||+|+++++++++..... .+..
T Consensus 94 ~~~~~~~v~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKriRP~Lvll~a~a~g~~~g~-----------~~~~ 160 (416)
T PLN02857 94 LSELFEPVADDLQQLNDNLQSIVGAENPVLMSAAEQIFGAG--GKRMRPALVFLVSRATAELAGL-----------KELT 160 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhCC--CccHhHHHHHHHHHHhccccCC-----------Ccch
Confidence 34456778999999999999999999999999999999988 9999999999999998632110 0112
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014640 160 TRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 239 (421)
Q Consensus 160 ~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~ 239 (421)
++.+.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++.++++++++.+++++..++
T Consensus 161 ~~~~~lAaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~ 240 (416)
T PLN02857 161 TEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFA 240 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHCccccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999999999999999999999999988999999999999999
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccccccccccc
Q 014640 240 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 319 (421)
Q Consensus 240 ~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~ 319 (421)
+||++|+.+..+...++++|++++++|||+||+.+|++||+++|++++..+.+++||+++|+||||+||++||+++++.+
T Consensus 241 ~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~ 320 (416)
T PLN02857 241 SGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQL 320 (416)
T ss_pred hhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHh
Confidence 99999988877777899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014640 320 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 399 (421)
Q Consensus 320 GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 399 (421)
|||.|+||++||+|+|+|+|+++.|++.+++...+.+++++++++++|.++|++++|++++++|.++|++.|+.||+++
T Consensus 321 GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~- 399 (416)
T PLN02857 321 GKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPRGA- 399 (416)
T ss_pred CCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCH-
Confidence 9999999999999999999999988999999888888899999999999999999999999999999999999999998
Q ss_pred cchHHHHHHHHHHHHHHHhccC
Q 014640 400 EDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 400 ~~~~~~r~~L~~l~~~~~~R~k 421 (421)
.++.|..|++++++|.+
T Consensus 400 -----~~~~L~~L~~~~~~R~~ 416 (416)
T PLN02857 400 -----FRSSLEDMVDYNLERIY 416 (416)
T ss_pred -----HHHHHHHHHHHHHhccC
Confidence 89999999999999974
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=1.5e-69 Score=540.13 Aligned_cols=315 Identities=29% Similarity=0.496 Sum_probs=290.9
Q ss_pred cCchHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHH
Q 014640 81 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 160 (421)
Q Consensus 81 ~d~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~ 160 (421)
.+.+..+.++++.|++.|++.+.+..|.+.+++.|++..| |||+||.|++++++++|++. +
T Consensus 3 ~~~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~g--GKriRp~L~ll~~~~~~~~~-----------------~ 63 (319)
T TIGR02748 3 ADIYSFLQKDIDSIEKELEKAVQAEHPVLSEASLHLLEAG--GKRIRPVFVLLAGKFGDYDL-----------------D 63 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCCH-----------------H
Confidence 3457789999999999999999888899999999999988 99999999999999876532 2
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q 014640 161 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 240 (421)
Q Consensus 161 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~ 240 (421)
+++.+|+++||||+||||||||+|+|++|||+||+|.+||+++||++||||+++|+..+++.+++++++.+++++.++++
T Consensus 64 ~~~~~A~aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~ 143 (319)
T TIGR02748 64 AIKHVAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCR 143 (319)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999998888999999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccC
Q 014640 241 GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 320 (421)
Q Consensus 241 Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~G 320 (421)
||++|+.+..+...++++|++++++|||+||++||.+|++++|.+++.++.+++||+++|+||||+||++||+++++.+|
T Consensus 144 Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~G 223 (319)
T TIGR02748 144 GEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELG 223 (319)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhC
Confidence 99999988777778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccCcccHHHHHHHhhCchHHHHHHccc--CCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCC
Q 014640 321 KGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGF--EDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENN 398 (421)
Q Consensus 321 K~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~--~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~ 398 (421)
||.++||++||+|+|++++++..+ .++.+...+ .++++++.++++|.++|++++|+.++++|.++|.+.|+.||+++
T Consensus 224 K~~~~Dl~~gk~Tlp~l~al~~~~-~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~ 302 (319)
T TIGR02748 224 KPAGGDLLQGNVTLPVLYAMEDPF-LKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGR 302 (319)
T ss_pred CChhhHHhCCCchHHHHHHhcCcc-hhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCH
Confidence 999999999999999999998543 333332222 25688999999999999999999999999999999999999998
Q ss_pred CcchHHHHHHHHHHHHHHHhccC
Q 014640 399 DEDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 399 ~~~~~~~r~~L~~l~~~~~~R~k 421 (421)
.++.|..+++++++|++
T Consensus 303 ------~~~~L~~l~~~~~~R~~ 319 (319)
T TIGR02748 303 ------AKKPLQEIAKYIGKRKY 319 (319)
T ss_pred ------HHHHHHHHHHHHHhccC
Confidence 89999999999999975
No 5
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=6.3e-69 Score=536.41 Aligned_cols=318 Identities=40% Similarity=0.646 Sum_probs=298.9
Q ss_pred cCchHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHH
Q 014640 81 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 160 (421)
Q Consensus 81 ~d~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~ 160 (421)
.+.+..+.++++.|++.|++.+.+..|.+.++++|++..| |||+||.|++++++++|++... ..
T Consensus 5 ~~~~~~~~~~l~~i~~~l~~~~~~~~~~l~~~~~~~~~~g--GKr~Rp~L~ll~~~~~~~~~~~--------------~~ 68 (323)
T CHL00151 5 SNLLTPIEEELLILEDNLKKLIGSGHPILYAAAKHLFSAG--GKRIRPAIVLLVAKATGGNMEI--------------KT 68 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHhcC--CccHHHHHHHHHHHHcCCCccc--------------cH
Confidence 4557789999999999999999988899999999999988 9999999999999999874321 12
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q 014640 161 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 240 (421)
Q Consensus 161 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~ 240 (421)
.++.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||+++|+..++...++.+++.+++++..+++
T Consensus 69 ~~~~~A~aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~ 148 (323)
T CHL00151 69 SQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAE 148 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHH
Confidence 56789999999999999999999999999999999999999999999999999999999998888899999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccC
Q 014640 241 GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 320 (421)
Q Consensus 241 Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~G 320 (421)
||++|.....+...++++|++++.+|||+||++||.+||+++|.+++..+.+++||+++|+||||+||++||+++++.+|
T Consensus 149 G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~G 228 (323)
T CHL00151 149 GEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLG 228 (323)
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhC
Confidence 99999877666678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCc
Q 014640 321 KGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDE 400 (421)
Q Consensus 321 K~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~ 400 (421)
||.|+||++||+|+|++++++..+++.+++.+...++++++++++++.++|++++|+.++++|.++|.+.|+.||+++
T Consensus 229 K~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~-- 306 (323)
T CHL00151 229 KPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSS-- 306 (323)
T ss_pred CCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCH--
Confidence 999999999999999999999888888888877778889999999999999999999999999999999999999998
Q ss_pred chHHHHHHHHHHHHHHHhcc
Q 014640 401 DVTKSRRALLDLTHRVITRN 420 (421)
Q Consensus 401 ~~~~~r~~L~~l~~~~~~R~ 420 (421)
.++.|..+++++++|+
T Consensus 307 ----~~~~L~~l~~~~~~R~ 322 (323)
T CHL00151 307 ----AKDSLIEIANFIINRL 322 (323)
T ss_pred ----HHHHHHHHHHHHHhcc
Confidence 8999999999999996
No 6
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=1.5e-68 Score=533.15 Aligned_cols=315 Identities=32% Similarity=0.509 Sum_probs=290.5
Q ss_pred CchHHHHHHHHHHHHHHHHhhhcCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHH
Q 014640 82 DPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 161 (421)
Q Consensus 82 d~~~~i~~el~~v~~~l~~~~~~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~ 161 (421)
+.+..+..+++.|++.|.+.+.+..|.+.++..|++..| |||+||.|++++++++|++. +.
T Consensus 5 ~~~~~i~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~~--GKrlRp~l~ll~~~~~g~~~-----------------~~ 65 (323)
T PRK10888 5 KINELTAQDMAGVNAAILEQLNSDVQLINQLGYYIISGG--GKRIRPMIAVLAARAVGYQG-----------------NA 65 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhCC--CchHHHHHHHHHHHHcCCCh-----------------HH
Confidence 346788999999999999999988899999999999978 99999999999999987642 25
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Q 014640 162 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTG 241 (421)
Q Consensus 162 ~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~G 241 (421)
.+.+|+++||||+||||||||||++++|||+||+|.+||++.|||+||||++.|+..++...+++++..+++++..+++|
T Consensus 66 ~~~~A~avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~G 145 (323)
T PRK10888 66 HVTIAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEG 145 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999988899999999999999999
Q ss_pred HHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCC
Q 014640 242 ETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK 321 (421)
Q Consensus 242 q~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK 321 (421)
|.+|+.+..+...++++|++++.+|||+||++||.+|++++|.+++.++.+++||+++|+||||+||++||+++++.+||
T Consensus 146 q~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK 225 (323)
T PRK10888 146 EVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGK 225 (323)
T ss_pred HHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCC
Confidence 99999876666789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccccCcccHHHHHHHhhC-chHHHHHHccc---CCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCC
Q 014640 322 GSLSDIRHGIITAPILFAMEEF-PQLRTVVEQGF---EDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPEN 397 (421)
Q Consensus 322 ~~g~Dl~~Gk~TlPvl~Ale~~-~~l~~~l~~~~---~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~ 397 (421)
|.|+||++||+|+|++++++.. +..++.+.... ..+++++.+.+++.++|+++++++++++|.++|.+.|+.||++
T Consensus 226 ~~g~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~ 305 (323)
T PRK10888 226 NVGDDLNEGKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDT 305 (323)
T ss_pred CchhhhhcCCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 9999999999999999999864 33444443222 2346799999999999999999999999999999999999999
Q ss_pred CCcchHHHHHHHHHHHHHHHhccC
Q 014640 398 NDEDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 398 ~~~~~~~~r~~L~~l~~~~~~R~k 421 (421)
+ .++.|..+++++++|+.
T Consensus 306 ~------~~~~L~~l~~~~~~R~~ 323 (323)
T PRK10888 306 P------WREALIGLAHIAVQRDR 323 (323)
T ss_pred H------HHHHHHHHHHHHHhCcC
Confidence 8 99999999999999974
No 7
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=6.8e-68 Score=528.46 Aligned_cols=317 Identities=33% Similarity=0.516 Sum_probs=291.1
Q ss_pred chHHHHHHHHHHHHHHHHhhh-cCchHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHH
Q 014640 83 PFSLVADELSILAKRLRSMVV-AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 161 (421)
Q Consensus 83 ~~~~i~~el~~v~~~l~~~~~-~~~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~ 161 (421)
++..+.++++.|++.|.+.+. +.++.+.++..|++.+| |||+||++++++++++|.+... + .+.
T Consensus 3 ~~~~~~~~~~~i~~~l~~~l~~~~~~~l~~a~~~~~~aG--GKrlRP~l~l~~~~~~~~~~~~------------~-~~~ 67 (322)
T COG0142 3 LLALLLKRLARIEELLSELLSGSDPELLLEAMRYLLLAG--GKRLRPLLVLLAAEALGIDLET------------G-GND 67 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHhcC--CccHhHHHHHHHHHHcCCCccc------------c-hhh
Confidence 456788999999999999998 78889999999999988 9999999999999999832210 0 247
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHH
Q 014640 162 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN--TEVVTLLATVVEHLV 239 (421)
Q Consensus 162 ~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~--~~v~~~ls~~~~~l~ 239 (421)
+..+|++|||||++|||||||||+|++|||+||+|.+||+.+|||+||||++.||.++++..+ +.++..+++++..+|
T Consensus 68 ~~~~aaavEliH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~ 147 (322)
T COG0142 68 ALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLC 147 (322)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999999999999999999999999987 889999999999999
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccccccccccc
Q 014640 240 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 319 (421)
Q Consensus 240 ~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~ 319 (421)
+||.+|+.+..+. +|+++|++++++|||.||+++|.+||+++|++++..+.++.||+++|+||||+||+|||+++++++
T Consensus 148 ~GQ~lDl~~~~~~-~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~l 226 (322)
T COG0142 148 GGQALDLAFENKP-VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEEL 226 (322)
T ss_pred HhHHHHHHccCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHh
Confidence 9999999998776 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014640 320 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 399 (421)
Q Consensus 320 GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 399 (421)
|||+|+|+++||.|+|++++++..++-...+........+++++.+++.++|+++++..+++.|.++|++.|+.+|+++
T Consensus 227 GK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~- 305 (322)
T COG0142 227 GKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSE- 305 (322)
T ss_pred CCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCch-
Confidence 9999999999999999999999865422233333333339999999999999999999999999999999999999777
Q ss_pred cchHHHHHHHHHHHHHHHhccC
Q 014640 400 EDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 400 ~~~~~~r~~L~~l~~~~~~R~k 421 (421)
.++.|.++++++++|++
T Consensus 306 -----~~~~L~~la~~i~~R~~ 322 (322)
T COG0142 306 -----AKEALLELADFIIKRKY 322 (322)
T ss_pred -----HHHHHHHHHHHHHhccC
Confidence 99999999999999974
No 8
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=3.3e-65 Score=506.17 Aligned_cols=313 Identities=42% Similarity=0.606 Sum_probs=293.6
Q ss_pred hcCchHHHHHHHHHHHHHHHHhhhcC-ch-HHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHH
Q 014640 80 QLDPFSLVADELSILAKRLRSMVVAE-VP-KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATE 157 (421)
Q Consensus 80 ~~d~~~~i~~el~~v~~~l~~~~~~~-~p-~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~ 157 (421)
.-|....+..+++.|.+.+...+... +| .+....+|.+..+ ||++||.+|+++|++++.+..
T Consensus 64 ~~d~~~~~~~~~~~ln~~l~~~~~~~~~~~~i~~a~ry~~la~--gKr~rP~l~~~~~e~~~~g~~-------------- 127 (384)
T KOG0776|consen 64 LFDELSYMARKARSLNGALHYAVPLANEPLLISEAMRYLLLAG--GKRVRPLLCLAACELVGSGDE-------------- 127 (384)
T ss_pred hhhHHHHHHHHHHHHhhhhhhhcccccccchhHHHHHHHHHhc--ccccCchhhhhHHHhcccccc--------------
Confidence 44777888899999999999988766 44 5777777999988 999999999999999983221
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCC--CCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 014640 158 LRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVV 235 (421)
Q Consensus 158 ~~~~~~~lA~avEliH~AsLIHDDI--iD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~ 235 (421)
..++.+|+++||||+|||||||| ||++++|||+||.|..||+++|||+|||||++|+..++.+.|+.+++++++++
T Consensus 128 --~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI 205 (384)
T KOG0776|consen 128 --SSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMASAI 205 (384)
T ss_pred --HHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHHHH
Confidence 37899999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccccC---CC-CCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014640 236 EHLVTGETMQMTTSS---DQ-RCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 311 (421)
Q Consensus 236 ~~l~~Gq~~dl~~~~---~~-~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD 311 (421)
.++++|++++....+ +. +..+++|..++.+|||+|++.+|++|++++|.++++++.+++||+|||++||++||++|
T Consensus 206 ~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDild 285 (384)
T KOG0776|consen 206 ADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILD 285 (384)
T ss_pred HHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 999999999998874 32 34789999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHh
Q 014640 312 FTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 391 (421)
Q Consensus 312 ~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L 391 (421)
|+...+.+||++|.|+..|+.|+|+||++++.|++.+.+.+.+.++.+++++.+.+. +++.|..+|++|.++|++.|
T Consensus 286 ftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~---~v~~a~~la~~~~~~Al~~l 362 (384)
T KOG0776|consen 286 FTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVP---GVALAKYLARRHNNKALEAL 362 (384)
T ss_pred cccchhhcCcchhhhhhhccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999987 99999999999999999999
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014640 392 DSLPENNDEDVTKSRRALLDLTHRVITR 419 (421)
Q Consensus 392 ~~lp~~~~~~~~~~r~~L~~l~~~~~~R 419 (421)
+.||+++ +|++|++|+..+++|
T Consensus 363 ~~~p~s~------ar~aL~~l~~~~~~r 384 (384)
T KOG0776|consen 363 QSLPRSE------ARSALENLVLAVLTR 384 (384)
T ss_pred hCCCCch------HHHHHHHHHHHHhcC
Confidence 9999999 999999999999887
No 9
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=4.4e-61 Score=474.54 Aligned_cols=280 Identities=27% Similarity=0.396 Sum_probs=249.1
Q ss_pred hHHHHHHHHHHHHHHHHhhhcC---chHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHH
Q 014640 84 FSLVADELSILAKRLRSMVVAE---VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 160 (421)
Q Consensus 84 ~~~i~~el~~v~~~l~~~~~~~---~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~ 160 (421)
...+...++.|++.|.+.+... ++.+.++..|++..| |||+||+|++++++++|.+. +
T Consensus 4 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~g--GKrlRp~L~l~~~~~~g~~~-----------------~ 64 (299)
T PRK10581 4 PQQLQACVQQANQALSRFIAPLPFQNTPVVEAMQYGALLG--GKRLRPFLVYATGQMFGVST-----------------N 64 (299)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhcC--cccHHHHHHHHHHHHhCCCH-----------------H
Confidence 3457778888999998887642 567999999999988 99999999999999998642 2
Q ss_pred HHHHHHHHHHHHHHHHHhhcCC--CCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCC--------HHHHHH
Q 014640 161 RQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN--------TEVVTL 230 (421)
Q Consensus 161 ~~~~lA~avEliH~AsLIHDDI--iD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~--------~~v~~~ 230 (421)
....+|+++||||+|||||||| ||+|++|||+||+|.+||++.|||+||||++.|+..++.... .++++.
T Consensus 65 ~~~~~A~avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~ 144 (299)
T PRK10581 65 TLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISE 144 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHH
Confidence 5678999999999999999999 999999999999999999999999999999999999987542 234556
Q ss_pred HHHH--HHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHHhhhhh
Q 014640 231 LATV--VEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTA-EVAILAFDYGKNLGLAYQLID 307 (421)
Q Consensus 231 ls~~--~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~-~~~~~l~~~G~~lG~AfQI~D 307 (421)
++.+ +..+++||.+|+.+... ..+.++|++|+.+|||+||++||.+|++++|.++ +.++.+++||+++|+||||+|
T Consensus 145 ~~~~~~~~~l~~GQ~ld~~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~D 223 (299)
T PRK10581 145 LASASGIAGMCGGQALDLEAEGK-QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQD 223 (299)
T ss_pred HHHhcccchhhHhhHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 6664 56899999999987654 5789999999999999999999999999999864 578999999999999999999
Q ss_pred ccccccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHH
Q 014640 308 DVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLA 387 (421)
Q Consensus 308 DllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A 387 (421)
|++||+++++.+|||.|+|+++||+|+|+++++ ++++.++++|.++|
T Consensus 224 DilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~---------------------------------e~a~~~a~~~~~~A 270 (299)
T PRK10581 224 DILDVVGDTATLGKRQGADQQLGKSTYPALLGL---------------------------------EQARKKARDLIDDA 270 (299)
T ss_pred HHccccCChHHHCCCcchhhhcCCCCHHHHHHH---------------------------------HHHHHHHHHHHHHH
Confidence 999999999999999999999999999999964 57888999999999
Q ss_pred HHHhccCCCCCCcchHHHHHHHHHHHHHHHhccC
Q 014640 388 AAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 421 (421)
Q Consensus 388 ~~~L~~lp~~~~~~~~~~r~~L~~l~~~~~~R~k 421 (421)
.+.|+.+|+++. .++.|..+++++++|+|
T Consensus 271 ~~~l~~l~~~~~-----~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 271 RQSLDQLAAQSL-----DTSALEALANYIIQRDK 299 (299)
T ss_pred HHHHHhCcCCch-----hHHHHHHHHHHHHhccC
Confidence 999999998771 37899999999999986
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=2.4e-56 Score=433.14 Aligned_cols=254 Identities=39% Similarity=0.575 Sum_probs=239.3
Q ss_pred chHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 014640 106 VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDD 185 (421)
Q Consensus 106 ~p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~ 185 (421)
.+.+.++..|++..| ||++||.+++++++++|++.. +.+..+|+++|++|+||||||||+|+
T Consensus 3 ~~~l~~~~~~~~~~~--GK~~Rp~l~~~~~~~~g~~~~----------------~~~~~la~aiEllh~asLIhDDI~D~ 64 (259)
T cd00685 3 VELLREALRYLLLAG--GKRLRPLLVLLAARALGGPEL----------------EAALRLAAAIELLHTASLVHDDVMDN 64 (259)
T ss_pred chHHHHHHHHHHHcC--CccHhHHHHHHHHHHhCCCch----------------HHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 467889999998877 999999999999999987531 26789999999999999999999999
Q ss_pred CCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHH
Q 014640 186 ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN---TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 262 (421)
Q Consensus 186 s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~---~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~ 262 (421)
|.+|||+||+|.+||+..|||+||+|++.++..++...+ +++++.+++++..+++||++|+.+..+...++++|+++
T Consensus 65 s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~ 144 (259)
T cd00685 65 SDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRI 144 (259)
T ss_pred CcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHH
Confidence 999999999999999999999999999999999998877 78999999999999999999998877667899999999
Q ss_pred HhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhh
Q 014640 263 TYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 342 (421)
Q Consensus 263 i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~ 342 (421)
+.+|||+||+.+|.+|++++|++++..+.+++||+++|++|||+||++|++++++.+||+.++||++||+|||+++++
T Consensus 145 ~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l-- 222 (259)
T cd00685 145 IRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL-- 222 (259)
T ss_pred HHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014640 343 FPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 419 (421)
Q Consensus 343 ~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~r~~L~~l~~~~~~R 419 (421)
++.++.|.++|...|+.+|.+. .++.|.++++++++|
T Consensus 223 ----------------------------------~~~~~~~~~~a~~~l~~~~~~~------~~~~l~~~~~~~~~r 259 (259)
T cd00685 223 ----------------------------------RELAREYEEKALEALKALPESP------AREALRALADFILER 259 (259)
T ss_pred ----------------------------------HHHHHHHHHHHHHHHHcCCCcH------HHHHHHHHHHHHHcC
Confidence 6889999999999999999887 789999999999887
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=2.2e-55 Score=426.71 Aligned_cols=249 Identities=33% Similarity=0.540 Sum_probs=216.6
Q ss_pred HHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCC
Q 014640 111 SAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRR 190 (421)
Q Consensus 111 ~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RR 190 (421)
+++.|++..| |||+||.|++++++++|++ .+.+..+|+++||||+||||||||+|+|++||
T Consensus 3 ~~~~~~~~~~--GK~~Rp~l~~~~~~~~~~~-----------------~~~~~~~a~avEliH~asLIhDDI~D~s~~RR 63 (260)
T PF00348_consen 3 EPARYYILRG--GKRIRPLLVLLAAEALGGD-----------------PEKAIPLAAAVELIHAASLIHDDIIDNSDLRR 63 (260)
T ss_dssp HHHHHHHHSS--SCHHHHHHHHHHHHHTTCH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHTTCSEET
T ss_pred HHHHHHhhCC--CccHHHHHHHHHHHHhCCC-----------------HHHHHHHHHHHHHHHHHHHHhhhhhcccccCC
Confidence 4567778878 9999999999999999853 24789999999999999999999999999999
Q ss_pred CCCcchhccChHHHHHHHHHHHHHHHHHHHcCC----CHH---HHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHH
Q 014640 191 GIGSLNFVMGNKLAVLAGDFLLSRACVALASLK----NTE---VVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 263 (421)
Q Consensus 191 G~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~----~~~---v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i 263 (421)
|+||+|.+||++.|||+||||++.|+..++... +.. +.+.+...+.....||..++.+... ..++++|++++
T Consensus 64 G~pt~~~~~G~~~Ail~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~-~~~~~~y~~i~ 142 (260)
T PF00348_consen 64 GKPTVHKKFGNAIAILAGDYLLALAFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDK-DPTEEEYLEII 142 (260)
T ss_dssp TEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS-STSHHHHHHHH
T ss_pred CCccccccccccchhhhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhccccccc-cccHHHHHHHH
Confidence 999999999999999999999999999999887 233 3444444555566667777776544 78999999999
Q ss_pred hhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhhC
Q 014640 264 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF 343 (421)
Q Consensus 264 ~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~ 343 (421)
.+|||+||++||++|++++|.+++..+.+++||+++|+||||+||++|++++++.+||+.|+||++||+|+|+++++++.
T Consensus 143 ~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~ 222 (260)
T PF00348_consen 143 RLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERA 222 (260)
T ss_dssp HHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHH
T ss_pred hhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred ch-HHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHH
Q 014640 344 PQ-LRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELA 380 (421)
Q Consensus 344 ~~-l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a 380 (421)
++ .++++.. +.+..+.+.+.+.+..++.++++++.+
T Consensus 223 ~~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (260)
T PF00348_consen 223 REELRELLQE-AYGKEDSEEALEIIAQTGALEYTRKFM 259 (260)
T ss_dssp HHHHHHHHHH-HHHHSHHHHHHHHHHHHHHHTHHHHHH
T ss_pred HHHHHHHHHH-HHcccchHHHHHHHHHHHHHHHHHhhc
Confidence 54 4455443 344557778888888999999888765
No 12
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=100.00 E-value=1.4e-42 Score=330.77 Aligned_cols=235 Identities=40% Similarity=0.603 Sum_probs=213.4
Q ss_pred cHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhc-cChHHH
Q 014640 126 FRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV-MGNKLA 204 (421)
Q Consensus 126 ~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~-~G~~~A 204 (421)
+||.+++++++++|+.. +.+..+|+++|+||++++|||||+|++..|||+|++|.+ ||+..|
T Consensus 1 ~r~~~~~~~~~~~~~~~-----------------~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~a 63 (236)
T cd00867 1 SRPLLVLLLARALGGDL-----------------EAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALA 63 (236)
T ss_pred CcHHHHHHHHHHcCCCH-----------------HHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHH
Confidence 59999999999998642 368899999999999999999999999999999999999 999999
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCC
Q 014640 205 VLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ 284 (421)
Q Consensus 205 vl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~ 284 (421)
+++||+++..++..++.....++.+.+++++..+++||.+|+.+..+...|+++|++++++|||++|+.+|..++++++.
T Consensus 64 i~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~ 143 (236)
T cd00867 64 ILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGA 143 (236)
T ss_pred HHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCc
Confidence 99999999999999998888889999999999999999999988765578999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHH
Q 014640 285 TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIAL 364 (421)
Q Consensus 285 ~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~ 364 (421)
+++..+.++.||+++|+||||.||++|+.++.+.+|| .++||++||+|+|++++
T Consensus 144 ~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~------------------------- 197 (236)
T cd00867 144 DDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILA------------------------- 197 (236)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHH-------------------------
Confidence 9999999999999999999999999999999999999 99999999999999997
Q ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHhc
Q 014640 365 EYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 419 (421)
Q Consensus 365 ~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~r~~L~~l~~~~~~R 419 (421)
.+.+.++.+++.+.+..+++... ..+..+..++..+.+|
T Consensus 198 ------------~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~r 236 (236)
T cd00867 198 ------------RERAAEYAEEAYAALEALPPSLP----RARRALIALADFLYRR 236 (236)
T ss_pred ------------HHHHHHHHHHHHHHHHhCCCCch----HHHHHHHHHHHHHHhC
Confidence 46666777777777777765541 1567788888888765
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=2.2e-36 Score=278.72 Aligned_cols=269 Identities=21% Similarity=0.290 Sum_probs=240.4
Q ss_pred hHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 014640 107 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDA 186 (421)
Q Consensus 107 p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s 186 (421)
..+-++-.|++..+ ||.+|--|.+.+-+.+..+. ++...+..++||+|++||+.|||.|++
T Consensus 21 ~ill~Py~yilq~P--GKqfR~~L~~afNhwl~~P~-----------------dkLaii~~ivemLHNsSLLIDDIEDNs 81 (322)
T KOG0777|consen 21 SILLKPYNYILQKP--GKQFRLNLIVAFNHWLNLPK-----------------DKLAIISQIVEMLHNSSLLIDDIEDNS 81 (322)
T ss_pred HHHhchHHHHHhCc--hHHHHHHHHHHHHHHHhCCH-----------------HHHHHHHHHHHHHhccceeeccccccc
Confidence 35777889999977 99999999999999987542 256678999999999999999999999
Q ss_pred CCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccccCCC-CCCHHHHHHHHhh
Q 014640 187 DTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQ-RCSMDYYMQKTYY 265 (421)
Q Consensus 187 ~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~Gq~~dl~~~~~~-~~s~~~Yl~~i~~ 265 (421)
..|||.|++|..||+...|+++.|++.+|.+.+..+..|+.+.++.+-+.+++.||.+|+.|+... .+|+++|..|+-.
T Consensus 82 ~LRRG~pvaHsIyGvpStINtANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~tcPtee~Yk~Mv~~ 161 (322)
T KOG0777|consen 82 PLRRGQPVAHSIYGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLTCPTEEMYKNMVMN 161 (322)
T ss_pred hhhcCCcchhhhccCcchhhhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCcCCCHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999997665 5689999999999
Q ss_pred hhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhhCc-
Q 014640 266 KTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFP- 344 (421)
Q Consensus 266 KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~- 344 (421)
|||.||.++.++.-.++....+ +..+-.-+|+.|||+||++++...+-.-.|..+.||.|||.+.|+++|+...+
T Consensus 162 KTGGLF~La~rLMqlfS~~ked----l~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~t~~q 237 (322)
T KOG0777|consen 162 KTGGLFRLALRLMQLFSHHKED----LVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALKTKGQ 237 (322)
T ss_pred hcccHHHHHHHHHHHHHhcchh----HHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhhcCCc
Confidence 9999999999999888866554 45566789999999999999987777778999999999999999999997654
Q ss_pred --hHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCC
Q 014640 345 --QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENN 398 (421)
Q Consensus 345 --~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~ 398 (421)
+...++.+...+-+-...++.++++.|+++||+....+...+|...++....++
T Consensus 238 ~~Qvl~ILrqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g~Np 293 (322)
T KOG0777|consen 238 TEQVLRILRQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDGENP 293 (322)
T ss_pred hHHHHHHHHHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 455666666666666677999999999999999999999999999999998887
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=8.7e-35 Score=279.76 Aligned_cols=297 Identities=19% Similarity=0.143 Sum_probs=243.8
Q ss_pred hHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHcCCCCCCCCCCCchhhHhHHhHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 014640 107 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDA 186 (421)
Q Consensus 107 p~l~~~~~y~~~~g~~GKr~Rp~Lvll~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s 186 (421)
+.+.....|... | ||..|+..++.+.+++.++... +++....+..++|++|+++++.||-|||||+|
T Consensus 38 ~~~~~~L~yN~~-G--GK~nRgl~vv~s~~~L~~~~~l----------~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS 104 (347)
T KOG0711|consen 38 EWLKEVLDYNVI-G--GKLNRGLSVVDSFKALVEPRKL----------DEEELQLALILGWCVELLQAFFLVADDIMDNS 104 (347)
T ss_pred HHHHHHHhccCc-c--cccccchhHHHHHHHhcCccCC----------CHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 457777888854 7 9999999999999999875432 34556788899999999999999999999999
Q ss_pred CCCCCCCcchhccChH-HHHHHHHHHHHHHHHHHHc----C-CCHHHHHHHHHHHHHHHHHHHHhccccC--CCCCCHHH
Q 014640 187 DTRRGIGSLNFVMGNK-LAVLAGDFLLSRACVALAS----L-KNTEVVTLLATVVEHLVTGETMQMTTSS--DQRCSMDY 258 (421)
Q Consensus 187 ~~RRG~pt~~~~~G~~-~Avl~GD~Lla~A~~~la~----~-~~~~v~~~ls~~~~~l~~Gq~~dl~~~~--~~~~s~~~ 258 (421)
.+|||+|||+.+-|.+ .|||-+-+|-+.-..+|-+ . ...++++++..+...++.|++++-.... ....|++.
T Consensus 105 ~tRRGqpCWy~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~ 184 (347)
T KOG0711|consen 105 KTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVTFQTELGDLLTTPEGNKDLSKFSLEK 184 (347)
T ss_pred cccCCCcceeecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHHHHHhhhccccCcccchhHhhhhHHH
Confidence 9999999999999995 5777554444433344432 1 2357899999999999999665543322 12468999
Q ss_pred HHHHHhhhhhhH-HHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHH
Q 014640 259 YMQKTYYKTASL-ISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 336 (421)
Q Consensus 259 Yl~~i~~KTasL-~~~a~~~ga~lag~-~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPv 336 (421)
|..|+.+|||.+ |.+|.++|.+++|. +.+.......+-.++|..||++||+||++||++.+|| .|.||.++|+||.+
T Consensus 185 y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgk-iGtDIqDnKCsWlv 263 (347)
T KOG0711|consen 185 YVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCSWLV 263 (347)
T ss_pred HHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCC-CCCccccCceeeeh
Confidence 999999999999 99999999999994 5567777889999999999999999999999999999 48999999999999
Q ss_pred HHHHhh-CchHHHHHHcccC--CchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHH
Q 014640 337 LFAMEE-FPQLRTVVEQGFE--DSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLT 413 (421)
Q Consensus 337 l~Ale~-~~~l~~~l~~~~~--~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~~~~~~~r~~L~~l~ 413 (421)
.+|++. ++++.+++...+. +++.++.+..+..+.+.-+.-.+.-.....+....|+.++.+... .+..+..++
T Consensus 264 ~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~~f~~yE~~~~~~Ik~~I~~~~~~~~~----~~~v~t~fl 339 (347)
T KOG0711|consen 264 VKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPALFIEYEEGSYKKIKKLISQVDEDTGV----KVKVGTSFL 339 (347)
T ss_pred HHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHhhhhHHHHHHHHHHHccCCCcc----hhhhHHHHH
Confidence 999998 5788888887776 557888999988888877777777777788888888888776532 566777899
Q ss_pred HHHHhccC
Q 014640 414 HRVITRNK 421 (421)
Q Consensus 414 ~~~~~R~k 421 (421)
.++.+|+|
T Consensus 340 ~kiykr~k 347 (347)
T KOG0711|consen 340 NKIYKRSK 347 (347)
T ss_pred HHHHhhcC
Confidence 99999975
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=99.92 E-value=5.6e-23 Score=191.48 Aligned_cols=226 Identities=31% Similarity=0.437 Sum_probs=193.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhc---cChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014640 163 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV---MGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 239 (421)
Q Consensus 163 ~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~---~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~ 239 (421)
..++.++|.+|+++++||||+|++..|+|.++++.. +|...+++.|+.++..++..+.....+.+...+.+.+.+++
T Consensus 13 ~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (243)
T cd00385 13 SRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLL 92 (243)
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 478999999999999999999999999999999988 99999999999999999999988777888999999999999
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccccccccccc
Q 014640 240 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 319 (421)
Q Consensus 240 ~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~ 319 (421)
.||..|+.+..+...+.++|+.+++.|||.++...|..++...+.+......+..+|.++|++||+.||+.||..+....
T Consensus 93 ~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~ 172 (243)
T cd00385 93 EGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG 172 (243)
T ss_pred HHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh
Confidence 99999998876556899999999999999999999999999888877778889999999999999999999998775331
Q ss_pred CCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 014640 320 GKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 399 (421)
Q Consensus 320 GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~lp~~~~ 399 (421)
+|+.|+|.+++.+......+. ..+..++.++.+...+..+.+++.+.+..+.....
T Consensus 173 ---------~~~~~l~~~~~~~~~~~~~~~---------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 173 ---------EGKCTLPVLYALEYGVPAEDL---------------LLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred ---------CCchHHHHHHHHHhCChhhHH---------------HHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 579999999988764321111 16778899999999999999999999988876541
Q ss_pred cchHHHHHHHHHHHHHH
Q 014640 400 EDVTKSRRALLDLTHRV 416 (421)
Q Consensus 400 ~~~~~~r~~L~~l~~~~ 416 (421)
.....+...+..+
T Consensus 229 ----~~~~~~~~~~~~~ 241 (243)
T cd00385 229 ----DVPRALLALALNL 241 (243)
T ss_pred ----HHHHHHHHHHHHH
Confidence 1344555554443
No 16
>PF07307 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; InterPro: IPR009920 This family contains subunit 1 of bacterial heptaprenyl diphosphate synthase (HEPPP synthase) (2.5.1.30 from EC) (approximately 230 residues long). The enzyme consists of two subunits, both of which are required for catalysis of heptaprenyl diphosphate synthesis, the precursor for the side chain of the isoprenoid quinone menaquinone-7 (MQ-7) [, ].
Probab=97.81 E-value=0.00063 Score=64.23 Aligned_cols=105 Identities=19% Similarity=0.206 Sum_probs=78.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q 014640 161 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 240 (421)
Q Consensus 161 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~ 240 (421)
+....+.++-++|+|...||.|-. +..+.+...-.+ ...||+|||.=++-+.+|+..++..++..+++++..+.+
T Consensus 34 ~~~~~~~a~~LVq~aLDtHd~V~~-~~~~~~~~~k~R----QLtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE 108 (212)
T PF07307_consen 34 EAERYALATMLVQIALDTHDEVDN-AGDESEESSKER----QLTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKEINE 108 (212)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc-ccccccHHHHhh----hhhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 567889999999999999999866 333333222222 569999999999999999999999999999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHh-hhhhhHHHH
Q 014640 241 GETMQMTTSSDQRCSMDYYMQKTY-YKTASLISN 273 (421)
Q Consensus 241 Gq~~dl~~~~~~~~s~~~Yl~~i~-~KTasL~~~ 273 (421)
....=-... ..+.++|++-+. -+|+.+...
T Consensus 109 ~K~~ly~~~---~~~~e~~~~~~~~ies~l~~~~ 139 (212)
T PF07307_consen 109 LKMSLYQKK---KETAEEYLESVVTIESALFQSF 139 (212)
T ss_pred HHHHHHHhh---hCCHHHHHHHHHHHHHHHHHHH
Confidence 986554332 246777776543 445444333
No 17
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=96.89 E-value=0.025 Score=57.28 Aligned_cols=151 Identities=15% Similarity=0.152 Sum_probs=94.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhh
Q 014640 225 TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQ 304 (421)
Q Consensus 225 ~~v~~~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQ 304 (421)
+..-+.+.+.+..|.+|..+++....-...|.++|..-+++=-|.-=.+.+.+-+. +|...+......+++..+|+|+|
T Consensus 100 ~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQ 178 (336)
T TIGR01559 100 PKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQ 178 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHH
Confidence 34667777888899999998876542222788888888877655543444443322 22222211223678999999999
Q ss_pred hhhccccccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHH
Q 014640 305 LIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHA 384 (421)
Q Consensus 305 I~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~ 384 (421)
+.|=+.|+ +.|+.+|++=||.=..-+......++. .++.-+...+. ++.-...|..|.
T Consensus 179 lTNIlRDv-----------~ED~~~GR~YlP~e~l~~~g~~~~dl~-----~~~~~~~~~~~------l~~lv~~A~~~~ 236 (336)
T TIGR01559 179 KTNIIRDY-----------LEDINEGRMFWPREIWSKYAKKLGDFK-----KPENSDKALQC------LNELVTNALHHA 236 (336)
T ss_pred HHHHHHHH-----------HhHHhCCCCCCCHHHHHHcCCCHHHhc-----CccccHHHHHH------HHHHHHHHHHHH
Confidence 99999888 456788998888643222222222221 22222233322 344457788999
Q ss_pred HHHHHHhccCCCCC
Q 014640 385 NLAAAAIDSLPENN 398 (421)
Q Consensus 385 ~~A~~~L~~lp~~~ 398 (421)
+.|...+..+++..
T Consensus 237 ~~al~yl~~l~~~~ 250 (336)
T TIGR01559 237 TDCLTYLSRLRDQS 250 (336)
T ss_pred HHHHHHHHhCCCcc
Confidence 99999999997655
No 18
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=96.85 E-value=0.034 Score=53.97 Aligned_cols=141 Identities=20% Similarity=0.169 Sum_probs=89.4
Q ss_pred HHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcc
Q 014640 230 LLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDV 309 (421)
Q Consensus 230 ~ls~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDl 309 (421)
+-...+..+.+|..+|+.... ..|++++...++.-+|++..+.+.+... ..+. ..+..++.++|.|+|+.|=+
T Consensus 88 l~~~~l~~li~~~~~dl~~~~--~~t~~~L~~Y~~~vag~vg~l~~~~~~~--~~~~---~~~~~~a~~lG~alql~nil 160 (267)
T PF00494_consen 88 LPREPLLELIDGMEMDLEFTP--YETFADLERYCYYVAGSVGLLLLQLLGA--HDPD---EAARDAARALGRALQLTNIL 160 (267)
T ss_dssp HHHHHHHHHHHHHHHCTT-S----SSHHHHHHHHHHHTHHHHHHHHHHHHS--STSH---HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHhcccccCCC--CCCHHHHHHHHHHHHHHHHHHHHHHhcc--ccch---hhHHHHHHHHHHHHHHHHHH
Confidence 344567889999999988643 4589999999999999987776555322 1222 34677889999999999988
Q ss_pred ccccccccccCCCcccc-cccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Q 014640 310 LDFTGTSASLGKGSLSD-IRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAA 388 (421)
Q Consensus 310 lD~~~~~~~~GK~~g~D-l~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~ 388 (421)
.|+ +.| +..|++-+|.=..-+..=...+++... ..+..+..+ +..-...|+.|.++|.
T Consensus 161 Rd~-----------~~D~~~~gR~ylP~d~l~~~gv~~~dl~~~~-~~~~~~~~~---------~~~~~~~A~~~l~~a~ 219 (267)
T PF00494_consen 161 RDI-----------PEDALRRGRIYLPLDDLRRFGVTPEDLLAGR-PRSERLRAL---------IRELAARARAHLDEAR 219 (267)
T ss_dssp HTH-----------HHH-HHTT---S-HHHHHHTTSSHHHHHHHG--GGHHHHHH---------HHHHHHHHHHHHHHHH
T ss_pred HHh-----------HHHHHhcccccCCchhHHHcCCCHHHHHhcc-cCCHHHHHH---------HHHHHHHHHHHHHHHH
Confidence 887 457 788999998766433221112222211 111123322 2455688999999999
Q ss_pred HHhccCCCCC
Q 014640 389 AAIDSLPENN 398 (421)
Q Consensus 389 ~~L~~lp~~~ 398 (421)
..+..+|+..
T Consensus 220 ~~~~~l~~~~ 229 (267)
T PF00494_consen 220 AGLSALPPPR 229 (267)
T ss_dssp HGGGGS--TT
T ss_pred HHHHHcCCHh
Confidence 9999996665
No 19
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=96.63 E-value=0.16 Score=49.46 Aligned_cols=136 Identities=21% Similarity=0.226 Sum_probs=90.5
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccc
Q 014640 233 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 312 (421)
Q Consensus 233 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~ 312 (421)
..+..+++|..+|+... ...|++++...++.-.|+...+.+.+ ++.... +....++.++|+|+|+.|=+.|+
T Consensus 93 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv 164 (265)
T cd00683 93 EPFRDLLAGMAMDLDKR--RYETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDV 164 (265)
T ss_pred HHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHH
Confidence 44678999999998853 34678888888888777776655443 332122 23568899999999999988887
Q ss_pred cccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014640 313 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 392 (421)
Q Consensus 313 ~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 392 (421)
+.|+..|++.+|.=..-+..-...+++.. ...+.+..+ ++.-...|+.|...|...+.
T Consensus 165 -----------~eD~~~gR~YlP~d~l~~~gv~~~~l~~~--~~~~~~~~~---------~~~~~~~A~~~~~~a~~~~~ 222 (265)
T cd00683 165 -----------GEDARRGRIYLPREELARFGVTLEDLLAP--ENSPAFRAL---------LRRLIARARAHYREALAGLA 222 (265)
T ss_pred -----------HHHHccCCCcCCHHHHHHcCCCHHHHcCC--CCCHHHHHH---------HHHHHHHHHHHHHHHHHhHH
Confidence 45678899999875543332222222221 112222222 34445779999999999999
Q ss_pred cCCCCC
Q 014640 393 SLPENN 398 (421)
Q Consensus 393 ~lp~~~ 398 (421)
.+|...
T Consensus 223 ~lp~~~ 228 (265)
T cd00683 223 ALPRRS 228 (265)
T ss_pred hCCHhh
Confidence 999543
No 20
>PLN02632 phytoene synthase
Probab=96.35 E-value=0.085 Score=53.41 Aligned_cols=139 Identities=14% Similarity=0.101 Sum_probs=91.2
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHHHHhhhhhccc
Q 014640 233 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT--AEVAILAFDYGKNLGLAYQLIDDVL 310 (421)
Q Consensus 233 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~--~~~~~~l~~~G~~lG~AfQI~DDll 310 (421)
..+..+++|..+|+... ...|++++...++.-.|.+-.+++.+ ++..+ ....+.+...+.++|+|+|+.|=+.
T Consensus 140 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILR 214 (334)
T PLN02632 140 QPFRDMIEGMRMDLVKS--RYENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILR 214 (334)
T ss_pred HHHHHHHHHHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999998754 34588888888888888877666654 33222 1222446778999999999999888
Q ss_pred cccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHH
Q 014640 311 DFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 390 (421)
Q Consensus 311 D~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~ 390 (421)
|+ +.|+..|.+-+|.=..-+..=...+++... . .+.+.. + +..-...|+.|.++|...
T Consensus 215 Dv-----------~eD~~~GRvYLP~e~L~~~Gv~~edl~~~~-~-~~~~~~---l------~~~~~~~Ar~~~~~a~~~ 272 (334)
T PLN02632 215 DV-----------GEDARRGRVYLPQDELAQFGLTDEDIFAGK-V-TDKWRA---F------MKFQIKRARMYFAEAEEG 272 (334)
T ss_pred HH-----------HHHHhCCceeCCHHHHHHcCCCHHHHhcCC-C-CHHHHH---H------HHHHHHHHHHHHHHHHHh
Confidence 87 467888999998654332221122222221 1 112222 2 233336799999999999
Q ss_pred hccCCCCC
Q 014640 391 IDSLPENN 398 (421)
Q Consensus 391 L~~lp~~~ 398 (421)
+..+|...
T Consensus 273 l~~lp~~~ 280 (334)
T PLN02632 273 VSELDPAS 280 (334)
T ss_pred HhhCCHHh
Confidence 99999764
No 21
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=96.17 E-value=0.14 Score=49.91 Aligned_cols=135 Identities=17% Similarity=0.099 Sum_probs=90.8
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccc
Q 014640 233 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 312 (421)
Q Consensus 233 ~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~ 312 (421)
..+..+++|..+|+... ...|++++...++.-.|++..+.+.+ ++..++ .....+.++|.|+|+.|=+.|+
T Consensus 85 ~~~~~li~g~~~Dl~~~--~~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv 155 (266)
T TIGR03465 85 EDFLEVIDGMEMDLEQT--RYPDFAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred HHHHHHHHHHHHHcCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh
Confidence 34678899999998754 35689999998888888887776654 333332 2467889999999999988887
Q ss_pred cccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhc
Q 014640 313 TGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 392 (421)
Q Consensus 313 ~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~ 392 (421)
+.|+..|++.+|.=..-+.+-...++.... ..+.+..+ +..-...|+.|.++|...+.
T Consensus 156 -----------~eD~~~gR~ylP~~~l~~~gv~~~~l~~~~--~~~~~~~~---------~~~l~~~A~~~l~~a~~~~~ 213 (266)
T TIGR03465 156 -----------GEDARRGRIYLPAEELQRFGVPAADILEGR--YSPALAAL---------CRFQAERARAHYAEADALLP 213 (266)
T ss_pred -----------HHHHhCCCeecCHHHHHHcCCCHHHhcCCC--CCHHHHHH---------HHHHHHHHHHHHHHHHHhhh
Confidence 357788999998755433221222222211 11222222 23444678899999999999
Q ss_pred cCCCCC
Q 014640 393 SLPENN 398 (421)
Q Consensus 393 ~lp~~~ 398 (421)
.+|...
T Consensus 214 ~~p~~~ 219 (266)
T TIGR03465 214 ACDRRA 219 (266)
T ss_pred hCCHhh
Confidence 998644
No 22
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=96.03 E-value=0.24 Score=48.31 Aligned_cols=134 Identities=10% Similarity=-0.020 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccccc
Q 014640 234 VVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFT 313 (421)
Q Consensus 234 ~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~ 313 (421)
.+..+++|..+|+... ...|++++...+++-.|++..+++.+ ++..+++ ...++.++|.|+|+.|=+.|+
T Consensus 87 ~~~~li~~~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl- 156 (266)
T TIGR03464 87 PFLDLLDAFRQDVVVT--RYATWAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDV- 156 (266)
T ss_pred HHHHHHHHHHHhccCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhh-
Confidence 4567889999998754 24688888888888888877765543 3433333 246788999999999988886
Q ss_pred ccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhcc
Q 014640 314 GTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 393 (421)
Q Consensus 314 ~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L~~ 393 (421)
+.|+..|.+.+|.=..-+.+=...+++... ....+..+ ++.-...|+.|..+|...+..
T Consensus 157 ----------~eD~~~gR~YLP~~~l~~~Gv~~edl~~~~--~~~~~~~~---------~~~~~~~A~~~~~~a~~~~~~ 215 (266)
T TIGR03464 157 ----------GVDYRKGRVYLPRDDLARFGVSEEDLAAGR--ATPALREL---------MAFEVSRTRALLDRGAPLAAR 215 (266)
T ss_pred ----------HHHHhcCCccCCHHHHHHcCCCHHHHhcCC--CCHHHHHH---------HHHHHHHHHHHHHHHHHhHHh
Confidence 456778999998644332221122232221 12222222 344457789999999999999
Q ss_pred CCCCC
Q 014640 394 LPENN 398 (421)
Q Consensus 394 lp~~~ 398 (421)
+|...
T Consensus 216 lp~~~ 220 (266)
T TIGR03464 216 VDGRL 220 (266)
T ss_pred CCHhh
Confidence 98653
No 23
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=90.86 E-value=12 Score=36.58 Aligned_cols=90 Identities=11% Similarity=0.119 Sum_probs=59.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhccccCC-CCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcC--CCHHHHH--HHHHHHHH
Q 014640 224 NTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLISNSCKAIALLAG--QTAEVAI--LAFDYGKN 298 (421)
Q Consensus 224 ~~~v~~~ls~~~~~l~~Gq~~dl~~~~~-~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag--~~~~~~~--~l~~~G~~ 298 (421)
.+.....+.+.+...+.|...+..+... ..+|.++|+++=..-.|..+..++ +-...| .++.+.. .+..+-..
T Consensus 127 ~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l--~~~~~g~~lp~~~~~~~~~~~l~~~ 204 (303)
T cd00687 127 SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGL--SEFIGGPEVPAAVRLDPVMRALEAL 204 (303)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHH--HHHhcCCCCCHHHHhChHHHHHHHH
Confidence 4667788888888999999888655433 247999999754444454442221 212222 3444333 36778888
Q ss_pred HHHHhhhhhcccccccc
Q 014640 299 LGLAYQLIDDVLDFTGT 315 (421)
Q Consensus 299 lG~AfQI~DDllD~~~~ 315 (421)
.+...-+.||+..|..+
T Consensus 205 ~~~~~~l~NDl~S~~KE 221 (303)
T cd00687 205 ASDAIALVNDIYSYEKE 221 (303)
T ss_pred HHHHHHHHHHHHhhHHH
Confidence 89999999999999544
No 24
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=89.16 E-value=15 Score=36.56 Aligned_cols=137 Identities=15% Similarity=0.134 Sum_probs=82.9
Q ss_pred HHHHHHHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccc
Q 014640 232 ATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 311 (421)
Q Consensus 232 s~~~~~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD 311 (421)
...+.++..|..+|+....- .++++...-+++-.|..-- -+..+++-.. ..........+|.|+|+.|=+.|
T Consensus 102 ~~~~~~~~da~~~Dl~~~~y--~~~~eL~~Yc~~vAg~vG~---l~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRd 173 (288)
T COG1562 102 REAFPALIDAMRMDLDRTRY--LDFEELEEYCYGVAGAVGL---LLARILGPDK---DAATRAYARGLGLALQLVNILRD 173 (288)
T ss_pred HHHHHHHHHHHHHHhhhccc--cCHHHHHHHHHHhHHHHHH---HHHHHhCccc---chhhHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999877532 3455555555544443322 2334554332 22234444559999999998888
Q ss_pred ccccccccCCCcccccccCcccHHHHHHHhhCchHHHHHHcccCCchHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHh
Q 014640 312 FTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 391 (421)
Q Consensus 312 ~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~~l~~~l~~~~~~~~~~~~i~~li~~sg~i~~a~~~a~~~~~~A~~~L 391 (421)
+ +.|.+.|++=+|.=-..+-.....++..... .+.+..+ +++-...++.|...|...|
T Consensus 174 v-----------~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~--~~~~~~~---------~~~~~~~ar~~~~~a~~~~ 231 (288)
T COG1562 174 V-----------GEDRRRGRVYLPAEELARFGVSEADLLAGRV--DDAFREL---------MRFEADRARDHLAEARRGL 231 (288)
T ss_pred h-----------HHHHhCCcccCCHHHHHHhCCCHHHHHcccc--hhHHHHH---------HHHHHHHHHHHHHHHHHhh
Confidence 7 5678889888885433222222333332211 1122222 2444578899999999999
Q ss_pred ccCCCCC
Q 014640 392 DSLPENN 398 (421)
Q Consensus 392 ~~lp~~~ 398 (421)
..+|...
T Consensus 232 ~~lp~~~ 238 (288)
T COG1562 232 PALPGRA 238 (288)
T ss_pred hhCCccc
Confidence 9999876
No 25
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=87.83 E-value=17 Score=35.40 Aligned_cols=157 Identities=15% Similarity=0.059 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCC---CCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q 014640 163 QCIAEITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 239 (421)
Q Consensus 163 ~~lA~avEliH~AsLIHDDIiD~s~---~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~ 239 (421)
.-...++=++|.+..+.+|+.|-+. .|..+|-...+...+.+...+=.+...++....-+ ++...-. . +..+.
T Consensus 40 ~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l-~~~~~~~-~--~~~~~ 115 (279)
T PRK12884 40 LLGFLTAFFASGSANALNDYFDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI-SPLAFLV-V--ILVSV 115 (279)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHH-H--HHHHH
Confidence 3445566789999999999977443 35666766666667777777766655554333322 2221111 0 01111
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhcccccccccccc
Q 014640 240 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 319 (421)
Q Consensus 240 ~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~ 319 (421)
-+=..-...+.. .-..+.. .|..++.+...|+...+......-.+.-+.--..+.+++.+|+.|..+
T Consensus 116 ~~~~Ys~~lK~~--~~~~~~~------~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e~----- 182 (279)
T PRK12884 116 LGILYNWKLKEY--GLIGNLY------VAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVEG----- 182 (279)
T ss_pred HHHHHHHhhccc--cchhHHH------HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhh-----
Confidence 111111111110 1011111 222334444445443333322222333344555667888999999854
Q ss_pred CCCcccccccCcccHHHHHHHhh
Q 014640 320 GKGSLSDIRHGIITAPILFAMEE 342 (421)
Q Consensus 320 GK~~g~Dl~~Gk~TlPvl~Ale~ 342 (421)
|-+.|+.|+|+.+--+.
T Consensus 183 ------D~~~G~~Tl~v~~G~~~ 199 (279)
T PRK12884 183 ------DRLRGARTLAILYGEKI 199 (279)
T ss_pred ------HHHcCCeeechHhcHHH
Confidence 45779999999886543
No 26
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=80.25 E-value=37 Score=33.14 Aligned_cols=57 Identities=11% Similarity=-0.073 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCC---CCCCCCCcchhccChHHHHHHHHHHHHHHHHHHH
Q 014640 164 CIAEITEMIHVASLLHDDVLDDA---DTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 220 (421)
Q Consensus 164 ~lA~avEliH~AsLIHDDIiD~s---~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la 220 (421)
-+..++=++|.++.+..|+.|-+ ..|+.+|-.......+.|...+=.+...++....
T Consensus 42 l~~l~~~l~~~~~~~~Nd~~D~~iD~~~~~~Rpl~~G~is~~~a~~~~~~l~~~g~~~~~ 101 (276)
T PRK12882 42 LAFAAVFLATGAGNAINDYFDREIDRINRPDRPIPSGAVSPRGALAFSILLFAAGVALAF 101 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccccccCCCCCcCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34445568899999999997743 3457888888888889999888888777764443
No 27
>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=79.84 E-value=58 Score=31.15 Aligned_cols=90 Identities=9% Similarity=0.005 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhccccC-CCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCH---HHHHHHHHHHHHHHH
Q 014640 226 EVVTLLATVVEHLVTGETMQMTTSS-DQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTA---EVAILAFDYGKNLGL 301 (421)
Q Consensus 226 ~v~~~ls~~~~~l~~Gq~~dl~~~~-~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~---~~~~~l~~~G~~lG~ 301 (421)
.....+.+.+...+.|...+..+.. ...++.++|+.+-..-.|..+..++.--+.--..++ .....+..+....+.
T Consensus 122 ~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~ 201 (284)
T cd00868 122 ESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASST 201 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHH
Confidence 6677788888888888888876642 335799999987655544443322221111112344 345667788888888
Q ss_pred Hhhhhhcccccccc
Q 014640 302 AYQLIDDVLDFTGT 315 (421)
Q Consensus 302 AfQI~DDllD~~~~ 315 (421)
.--+.||+..|..+
T Consensus 202 ~~~l~NDl~S~~kE 215 (284)
T cd00868 202 IGRLLNDIASYEKE 215 (284)
T ss_pred HHHHhccchHHHHH
Confidence 88999999998543
No 28
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=63.16 E-value=1.2e+02 Score=30.42 Aligned_cols=52 Identities=8% Similarity=-0.113 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCC---CCCCcchhccChHHHHHHHHHHHHHHHHH
Q 014640 167 EITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRACVA 218 (421)
Q Consensus 167 ~avEliH~AsLIHDDIiD~s~~R---RG~pt~~~~~G~~~Avl~GD~Lla~A~~~ 218 (421)
.+.=++|.++.+..|+.|.+.-| +.+|....+...+.+...+-.++..++..
T Consensus 72 l~~~l~~~~~~~~Nd~~D~~~D~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l 126 (314)
T PRK07566 72 LAGPLLCGTSQTLNDYFDREVDAINEPYRPIPSGAISLRWVLYLIAVLTVLGLAV 126 (314)
T ss_pred HHHHHHHHHHHHHhhhhccCccccCCCCCCCCCceeCHHHHHHHHHHHHHHHHHH
Confidence 44557999999999999965544 45777777788888888887776666543
No 29
>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=61.99 E-value=1.6e+02 Score=28.78 Aligned_cols=57 Identities=16% Similarity=-0.004 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCC----CC-CCCCcchhccChHHHHHHHHHHHHHHHHHHH
Q 014640 164 CIAEITEMIHVASLLHDDVLDDAD----TR-RGIGSLNFVMGNKLAVLAGDFLLSRACVALA 220 (421)
Q Consensus 164 ~lA~avEliH~AsLIHDDIiD~s~----~R-RG~pt~~~~~G~~~Avl~GD~Lla~A~~~la 220 (421)
-+..++=++|.+..+..|+.|.+- .| +.+|-...+...+.|...+-.+...++....
T Consensus 44 ~~~~~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~~~~l~~ 105 (281)
T TIGR01474 44 LFTVGAILMRGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVALGVLL 105 (281)
T ss_pred HHHHHHHHHHHHHHHHHhHhhhcccccCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 344555688999999999987432 23 4688888888888888888877776665443
No 30
>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=60.31 E-value=1.5e+02 Score=27.77 Aligned_cols=148 Identities=18% Similarity=0.149 Sum_probs=76.1
Q ss_pred HHHHHHHhhcCCCCCCCCCC--C---CCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHH--HHHHHHHHHHHHHHHH
Q 014640 171 MIHVASLLHDDVLDDADTRR--G---IGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEV--VTLLATVVEHLVTGET 243 (421)
Q Consensus 171 liH~AsLIHDDIiD~s~~RR--G---~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v--~~~ls~~~~~l~~Gq~ 243 (421)
++|.+.-+.||+.|-+.-|. + +|-...+...+.+...+-.++..+....... ++.. +-.+.-.+. +..-.-
T Consensus 34 ~~~~~~~~~Nd~~D~~~D~~~~~~~~rPl~~g~i~~~~~~~~~~~~~~l~l~l~~~~-~~~~~~~~~~~~~~~-~~Ys~~ 111 (257)
T PF01040_consen 34 LLQLAVYLLNDYFDYEEDRIHPNKPNRPLPSGRISPRQALIFALILLLLGLLLALLL-GPWFLLILLLGFLLG-LLYSPP 111 (257)
T ss_pred HHHHHHHHhhChhhhhcCcccccccCcchhHHHHhHHHHHHHHHHHHHHHHHHHHhc-CchhHHHHHHHHHHH-HHHhhh
Confidence 99999999999988666665 4 3444556666666666666655554322222 2221 112222221 111110
Q ss_pred HhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHhhhhhccccccccccccCCC
Q 014640 244 MQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT-AEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 322 (421)
Q Consensus 244 ~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~-~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~ 322 (421)
..++..+- .++.. .|..+.....+|+...+.+ ....-.+.-+.--++.+....+|+.|+.+|
T Consensus 112 ~~lk~~~~----~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~D------- 174 (257)
T PF01040_consen 112 LRLKRRPL----WGELV------VALVFGLLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEGD------- 174 (257)
T ss_pred hhhcceec----cchhh------HHHhhhHhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-------
Confidence 11111100 01100 1122333333444444433 223333344445678888888899998665
Q ss_pred cccccccCcccHHHHHHHh
Q 014640 323 SLSDIRHGIITAPILFAME 341 (421)
Q Consensus 323 ~g~Dl~~Gk~TlPvl~Ale 341 (421)
.+.|+.|+|+.+..+
T Consensus 175 ----~~~g~~Tl~v~~G~~ 189 (257)
T PF01040_consen 175 ----RKAGRRTLPVLLGEK 189 (257)
T ss_pred ----HHcCCcchHHHHHHH
Confidence 467889999988443
No 31
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=58.02 E-value=1.4e+02 Score=28.95 Aligned_cols=51 Identities=14% Similarity=-0.017 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhhcCCCCCCC---CCCCCCcchhccChHHHHHHHHHHHHHHHH
Q 014640 167 EITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRACV 217 (421)
Q Consensus 167 ~avEliH~AsLIHDDIiD~s~---~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~ 217 (421)
.++=+.|.+..+..|+.|-+. .|+.+|-...+...+.|...+-.++..++.
T Consensus 44 ~~~~~~~~a~~~~Nd~~D~~~D~~n~~~Rpl~sG~is~~~a~~~~~~l~~~g~~ 97 (277)
T PRK12883 44 LVVYLGCSGGNTINDYFDYEIDKINRPNRPLPRGAMSRKAALYYSLLLFAVGLA 97 (277)
T ss_pred HHHHHHHHHHhHHHhhhhHhccccCCCCCCCCCCccCHHHHHHHHHHHHHHHHH
Confidence 345566788899999977433 456677777777778888877766665543
No 32
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=56.74 E-value=2e+02 Score=28.05 Aligned_cols=56 Identities=11% Similarity=-0.061 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCCC---CCCCcchhccChHHHHHHHHHHHHHHHHHH
Q 014640 164 CIAEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 219 (421)
Q Consensus 164 ~lA~avEliH~AsLIHDDIiD~s~~R---RG~pt~~~~~G~~~Avl~GD~Lla~A~~~l 219 (421)
-...++=++|.+..+..|+.|-+..| +.+|-...+...+.|...+=.++..++...
T Consensus 41 l~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l~ 99 (279)
T PRK09573 41 LAALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLILS 99 (279)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHHHH
Confidence 34445668999999999998865433 578888888888999999888877776443
No 33
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=55.34 E-value=2.1e+02 Score=27.99 Aligned_cols=159 Identities=18% Similarity=0.083 Sum_probs=93.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCC-----CCCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 014640 162 QQCIAEITEMIHVASLLHDDVLDDADTRR-----GIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVE 236 (421)
Q Consensus 162 ~~~lA~avEliH~AsLIHDDIiD~s~~RR-----G~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~ 236 (421)
..-...++=+.-.+..+.+|+.|-+.-|. .+|-...+-..+.|....-.++..++....-+......-.+.-.+.
T Consensus 49 ~~l~~l~~~~~~~ag~~iND~~D~eiD~~n~rt~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l~~~~~~l~~~~~~l 128 (289)
T COG0382 49 LLLAFLAFFLARSAGYVINDLADREIDRINPRTKNRPLPSGRVSVKEALLLAILLLLLGLALALLLNPLAFLLSLAALVL 128 (289)
T ss_pred HHHHHHHHHHHHHHhHHHHHHhhhhccCCCCCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34445555677888999999988555444 5555666667777777776666666544433332222222222222
Q ss_pred HHHHHHHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHhhhhhcccccccc
Q 014640 237 HLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTGT 315 (421)
Q Consensus 237 ~l~~Gq~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~-~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~ 315 (421)
.... --++. ..-..++. -|..+..+.-.|+...+. .....-.+.-+..-..++|.+..|+.|..+|
T Consensus 129 ~~~Y---~~~Kr----~~~~~~~~------lg~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~D 195 (289)
T COG0382 129 ALAY---PFLKR----FTFLPQLV------LGLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEGD 195 (289)
T ss_pred HHHH---HHhhc----CCchHHHH------HHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccch
Confidence 2222 11111 11222222 245566666667655553 2334455667777888999999999999765
Q ss_pred ccccCCCcccccccCcccHHHHHHHhhCc
Q 014640 316 SASLGKGSLSDIRHGIITAPILFAMEEFP 344 (421)
Q Consensus 316 ~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~~ 344 (421)
-+.|..|.|+.|-.+...
T Consensus 196 -----------~~~G~~s~~~~~G~~~a~ 213 (289)
T COG0382 196 -----------RKAGLKSLPVLFGIKKAL 213 (289)
T ss_pred -----------HhcCCcchHHHhCchhHH
Confidence 367888999988665433
No 34
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=53.94 E-value=2.3e+02 Score=28.41 Aligned_cols=57 Identities=12% Similarity=-0.073 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCC---CCCC--CCCcchhccChHHHHHHHHHHHHHHHHHHH
Q 014640 164 CIAEITEMIHVASLLHDDVLDDA---DTRR--GIGSLNFVMGNKLAVLAGDFLLSRACVALA 220 (421)
Q Consensus 164 ~lA~avEliH~AsLIHDDIiD~s---~~RR--G~pt~~~~~G~~~Avl~GD~Lla~A~~~la 220 (421)
-...+.=++|.++.+..|+.|.+ ..+| .+|....+...+.|+..+-.+...++..+.
T Consensus 76 l~~l~~~l~~~a~~~~Nd~~Dr~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~g~~l~~ 137 (314)
T PRK12878 76 LFFVGAIAMRGAGCTYNDIVDRDIDAKVARTRSRPLPSGQVSRKQAKVFMVLQALVGLAVLL 137 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34455668999999999997743 2343 588888888889888877777666654444
No 35
>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=53.85 E-value=1.5e+02 Score=29.80 Aligned_cols=47 Identities=19% Similarity=0.122 Sum_probs=30.7
Q ss_pred HHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHH
Q 014640 280 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 338 (421)
Q Consensus 280 ~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~ 338 (421)
.++|.+.+....+...-+-+=.|.-|.||+.|= +++|.|++|....|
T Consensus 56 ~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~------------s~~RRg~pt~~~~~ 102 (319)
T TIGR02748 56 KFGDYDLDAIKHVAVALELIHMASLVHDDVIDD------------ADLRRGRPTIKSKW 102 (319)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHhccccCC------------CCCCCCCcCHHHHh
Confidence 344555554444455556777888999999773 35677877765554
No 36
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=53.43 E-value=1.9e+02 Score=28.80 Aligned_cols=47 Identities=13% Similarity=0.072 Sum_probs=30.5
Q ss_pred HHHHHHhhcCCCCCC----C-CC---------CCCCcchhccChHHHHHHHHHHHHHHHHHH
Q 014640 172 IHVASLLHDDVLDDA----D-TR---------RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 219 (421)
Q Consensus 172 iH~AsLIHDDIiD~s----~-~R---------RG~pt~~~~~G~~~Avl~GD~Lla~A~~~l 219 (421)
.|.+ .+..|+.|.+ + .| +.+|....+...+.|...+=.+...++..+
T Consensus 54 ~~ag-~~iND~~D~~~D~~~v~rtm~r~~~P~~~Rpl~sG~is~~~a~~~~i~l~~i~~~l~ 114 (297)
T PRK12871 54 FEAG-FVLNDYVDRKRDRLDVENTLTRYWRPFKERPIPSGKLSSKNAFALFILLAAVTSALI 114 (297)
T ss_pred HHHH-HHHhhHHHHhcCcchHhhhhhccccCCCCCccCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 3555 4788886532 1 11 467777778888888888877776665443
No 37
>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=52.63 E-value=2.4e+02 Score=28.09 Aligned_cols=51 Identities=6% Similarity=-0.165 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCC---CCCCcchhccChHHHHHHHHHHHHHHH
Q 014640 166 AEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRAC 216 (421)
Q Consensus 166 A~avEliH~AsLIHDDIiD~s~~R---RG~pt~~~~~G~~~Avl~GD~Lla~A~ 216 (421)
..+.=++|.++-++.|+.|.+..+ |.+|........+.+...+=.++..++
T Consensus 60 ll~~~l~~~~~n~~NDy~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~ 113 (306)
T TIGR02056 60 LLSGPCLTGYTQTINDFYDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI 113 (306)
T ss_pred HHHHHHHHHHHHHHHhHhhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 345578999999999998865333 456666666778888877766665554
No 38
>PLN00012 chlorophyll synthetase; Provisional
Probab=50.81 E-value=2e+02 Score=29.66 Aligned_cols=49 Identities=8% Similarity=-0.093 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCC---CCCCcchhccChHHHHHHHHHH
Q 014640 163 QCIAEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFL 211 (421)
Q Consensus 163 ~~lA~avEliH~AsLIHDDIiD~s~~R---RG~pt~~~~~G~~~Avl~GD~L 211 (421)
..+..+.=+++.++-+..|+.|.+.-+ +.+|........+.++..+-.+
T Consensus 126 l~~ll~~~L~~~~an~iNDy~D~~iD~~~~~~Rpi~sG~Is~~~al~~~~~l 177 (375)
T PLN00012 126 VCMLMSGPFLTGYTQTINDWYDREIDAINEPYRPIPSGAISENEVITQIWVL 177 (375)
T ss_pred HHHHHHHHHHHHHHHHHHCeecHhhhccCCCCCCcCCCccCHHHHHHHHHHH
Confidence 334455668888899999998854333 4566666777777777744333
No 39
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=49.08 E-value=2.9e+02 Score=27.74 Aligned_cols=47 Identities=30% Similarity=0.270 Sum_probs=30.6
Q ss_pred HHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHH
Q 014640 280 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 338 (421)
Q Consensus 280 ~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~ 338 (421)
.+.|.+.+....+...-+-+=.|..|.||+.|= +++|.|++|+-..|
T Consensus 57 ~~~g~~~~~~~~~A~avEllH~asLiHDDI~D~------------s~~RRG~pt~~~~~ 103 (323)
T PRK10888 57 RAVGYQGNAHVTIAALIEFIHTATLLHDDVVDE------------SDMRRGKATANAAF 103 (323)
T ss_pred HHcCCChHHHHHHHHHHHHHHHHHHHHcccccC------------CcccCCCCCHHHHh
Confidence 334444443444455556777889999999773 46788888865554
No 40
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=46.43 E-value=22 Score=28.76 Aligned_cols=28 Identities=21% Similarity=0.161 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccc
Q 014640 286 AEVAILAFDYGKNLGLAYQLIDDVLDFT 313 (421)
Q Consensus 286 ~~~~~~l~~~G~~lG~AfQI~DDllD~~ 313 (421)
+...+.+-+||..+|-.||++==+--++
T Consensus 15 et~~e~llRYGLf~GAIFQliCilAiI~ 42 (85)
T PF06783_consen 15 ETFFENLLRYGLFVGAIFQLICILAIIL 42 (85)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHheee
Confidence 4567888899999999999975443333
No 41
>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=41.55 E-value=3.4e+02 Score=26.40 Aligned_cols=50 Identities=14% Similarity=0.042 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCC-----CCCCCcchhccChHHHHHHHHHHHH
Q 014640 164 CIAEITEMIHVASLLHDDVLDDADT-----RRGIGSLNFVMGNKLAVLAGDFLLS 213 (421)
Q Consensus 164 ~lA~avEliH~AsLIHDDIiD~s~~-----RRG~pt~~~~~G~~~Avl~GD~Lla 213 (421)
-...++=+++.+..+..|+.|.+.- ++.+|-...+...+.|...+=.+..
T Consensus 40 l~~l~~~l~~~a~~~~Nd~~D~~~D~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~ 94 (282)
T TIGR01475 40 LILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLISKKEARTMIILSLA 94 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCCccCCCCCCCCCcCHHHHHHHHHHHHH
Confidence 3444556889999999999774332 2457777777788888777755443
No 42
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=40.54 E-value=3.5e+02 Score=26.19 Aligned_cols=34 Identities=24% Similarity=0.429 Sum_probs=26.8
Q ss_pred HHHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhhC
Q 014640 299 LGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF 343 (421)
Q Consensus 299 lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~~ 343 (421)
+-.+.++.+|+.|+.+| -+.|+.|+|+.+-.+..
T Consensus 173 ~~~~~~~~~d~~D~e~D-----------~~~G~~Tlpv~lG~~~t 206 (285)
T PRK12872 173 KSFIREIVFDIKDIEGD-----------RKSGLKTLPIVLGKERT 206 (285)
T ss_pred HHHHHHHHHhcccchhH-----------HHcCCcccchhcchHHH
Confidence 35678899999998665 46799999999976543
No 43
>PRK12870 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=38.88 E-value=3.9e+02 Score=26.31 Aligned_cols=58 Identities=17% Similarity=-0.019 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCC----C-CCCCcchhccChHHHHHHHHHHHHHHHHHHHcC
Q 014640 165 IAEITEMIHVASLLHDDVLDDADT----R-RGIGSLNFVMGNKLAVLAGDFLLSRACVALASL 222 (421)
Q Consensus 165 lA~avEliH~AsLIHDDIiD~s~~----R-RG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~ 222 (421)
...++=++|.+..+..|+.|.+-- | +.+|-+..+...+.|++.+-.++..++.....+
T Consensus 51 ~~lg~~~~~~a~~~~Nd~~D~~iD~~~~Rt~~RPL~sG~is~~~a~~~~~~~~~~~~~l~~~l 113 (290)
T PRK12870 51 IILGALATSAAGCVVNDLWDRDIDPQVERTRFRPLASRRLSVKVGIVIAIVALLCAAGLAFFL 113 (290)
T ss_pred HHHHHHHHHHHHHHHHhHHHhccCCCCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556789999999999774433 3 468888888888999988888777666444333
No 44
>PRK10581 geranyltranstransferase; Provisional
Probab=37.71 E-value=1.7e+02 Score=29.05 Aligned_cols=61 Identities=26% Similarity=0.296 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCC------------CCCCCCCCcchhccChHHHHHHHHHHHHHHHHHHHcCC
Q 014640 163 QCIAEITEMIHVASLLHDDVLDD------------ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK 223 (421)
Q Consensus 163 ~~lA~avEliH~AsLIHDDIiD~------------s~~RRG~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~ 223 (421)
..+...-+.+=.|+=|.|||.|- .+.+.|++|+=..+|...|-...+-++..|...|..+.
T Consensus 206 ~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~ 278 (299)
T PRK10581 206 PVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLA 278 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 34566677888899999999993 34556677766666666666655666666666666664
No 45
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=37.63 E-value=3.1e+02 Score=25.78 Aligned_cols=87 Identities=10% Similarity=0.054 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHHHhccccCCC-CCCHHHHHHHHhhhhhhHHHHHHHHHHHHc---C-CCHHHHHHHHHHHHHHHH
Q 014640 227 VVTLLATVVEHLVTGETMQMTTSSDQ-RCSMDYYMQKTYYKTASLISNSCKAIALLA---G-QTAEVAILAFDYGKNLGL 301 (421)
Q Consensus 227 v~~~ls~~~~~l~~Gq~~dl~~~~~~-~~s~~~Yl~~i~~KTasL~~~a~~~ga~la---g-~~~~~~~~l~~~G~~lG~ 301 (421)
+.+.|.+.+...+.|...+..+.... .+|.++|+.+=..-+|..+...+..-++ + | .+++....-..+-...+.
T Consensus 138 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~ 216 (270)
T PF03936_consen 138 QIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFAL-EFALGELPPEVLEHPPMLRRLAAD 216 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHC-SSCHTHHHHHHHHTTHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhC-CCccccccHHHHHhchHHHHHHHH
Confidence 44558888888888888887765433 5789999986555555544443332112 2 1 112222221225566666
Q ss_pred Hhhhhhccccccc
Q 014640 302 AYQLIDDVLDFTG 314 (421)
Q Consensus 302 AfQI~DDllD~~~ 314 (421)
.--+.||+..|..
T Consensus 217 ~~~l~NDl~S~~K 229 (270)
T PF03936_consen 217 IIRLVNDLYSYKK 229 (270)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHhcccchhhc
Confidence 6677799999843
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=35.88 E-value=3.6e+02 Score=26.21 Aligned_cols=148 Identities=11% Similarity=-0.015 Sum_probs=0.0
Q ss_pred HHHHHHHhhcCCCCCCCCCCC---CCcchhccChHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 014640 171 MIHVASLLHDDVLDDADTRRG---IGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMT 247 (421)
Q Consensus 171 liH~AsLIHDDIiD~s~~RRG---~pt~~~~~G~~~Avl~GD~Lla~A~~~la~~~~~~v~~~ls~~~~~l~~Gq~~dl~ 247 (421)
++|.++-+..|+.|.+..|+. +|......-.+.+...+=.++..++....-+.+... .+..+...=..=..
T Consensus 49 l~~~~~n~~Nd~~D~~~D~~~~~~Rpi~~G~is~~~a~~~~~~~~~~~~~l~~~l~~~~~------~~l~~~~~~~~~~Y 122 (283)
T TIGR01476 49 LGTGFSQSINDYFDRDVDAINEPQRPIPSGIISLREVRWNWLVLTVAGLLVALVLGNWLI------VLFTVVGIVLAVIY 122 (283)
T ss_pred HHHHHHHHHHhHhhhCcccCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHhhee
Q ss_pred ccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCccccc
Q 014640 248 TSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI 327 (421)
Q Consensus 248 ~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl 327 (421)
+.+.......-.+--+..=-+..........+..+..+....-..--+|. ...++.+.||+.|+.+|.
T Consensus 123 s~~p~~lk~~~~~g~~~vg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~i~~~nd~~D~~~D~----------- 190 (283)
T TIGR01476 123 SMPPIKLKRNGWLGPPAVGLSYEGLPWMAGHAIFAPLTWQSVVVALIYSL-GAHGIMTLNDFKSVEGDR----------- 190 (283)
T ss_pred cCchhhhccCCCccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HHHHHHHHHhccchhhHH-----------
Q ss_pred ccCcccHHH
Q 014640 328 RHGIITAPI 336 (421)
Q Consensus 328 ~~Gk~TlPv 336 (421)
+.|+.|+|+
T Consensus 191 ~~G~~Tl~v 199 (283)
T TIGR01476 191 QLGLRSLPV 199 (283)
T ss_pred HcCCcCcce
No 47
>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=34.06 E-value=4.3e+02 Score=25.30 Aligned_cols=40 Identities=35% Similarity=0.306 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHH
Q 014640 287 EVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 338 (421)
Q Consensus 287 ~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~ 338 (421)
+....+...-+-+=.|+-|.||+.|= +++|.|++|+-..|
T Consensus 39 ~~~~~la~aiEllh~asLIhDDI~D~------------s~~RRG~p~~~~~~ 78 (259)
T cd00685 39 EAALRLAAAIELLHTASLVHDDVMDN------------SDLRRGKPTVHKVF 78 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccC------------CcccCCCCcHHHHh
Confidence 44444555666778899999999662 23567777765544
No 48
>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=32.99 E-value=2.7e+02 Score=26.72 Aligned_cols=52 Identities=29% Similarity=0.208 Sum_probs=36.5
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCcccccccCcccHHHHHH
Q 014640 276 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFA 339 (421)
Q Consensus 276 ~~ga~lag~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~A 339 (421)
.+.+.+.|.+.+....+...-+-+=.|+-|.||+.|= +++|.|++|.-..|-
T Consensus 22 ~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~------------s~~RRG~pt~~~~~G 73 (260)
T PF00348_consen 22 LLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDN------------SDLRRGKPTVHKKFG 73 (260)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTT------------CSEETTEECHHHHHH
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcc------------cccCCCCcccccccc
Confidence 3344445566666666777778888999999999773 457888888665553
No 49
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=31.03 E-value=5.1e+02 Score=25.27 Aligned_cols=53 Identities=15% Similarity=-0.003 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHhhcCCCCCCC----CC-CCCCcchhccChHHHHHHHHHHHHHHHHHH
Q 014640 167 EITEMIHVASLLHDDVLDDAD----TR-RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 219 (421)
Q Consensus 167 ~avEliH~AsLIHDDIiD~s~----~R-RG~pt~~~~~G~~~Avl~GD~Lla~A~~~l 219 (421)
.++=++|.+..+..|+.|.+- .| +.+|.+-.+-..+.|...+=.++..++...
T Consensus 49 ~g~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~l~~~~~~l~ 106 (282)
T PRK12848 49 LGVFLMRAAGCVINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFLLV 106 (282)
T ss_pred HHHHHHHHHHHHHHhhHHhccCCCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 344488999999999977433 23 468888888889999999888877776443
No 50
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=29.68 E-value=3.4e+02 Score=26.52 Aligned_cols=82 Identities=17% Similarity=0.068 Sum_probs=47.3
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHcCC--CHHHH-HHHHHHHH-HHHHHhhhhhccccccc--cccccCCCcccccc
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLAGQ--TAEVA-ILAFDYGK-NLGLAYQLIDDVLDFTG--TSASLGKGSLSDIR 328 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~lag~--~~~~~-~~l~~~G~-~lG~AfQI~DDllD~~~--~~~~~GK~~g~Dl~ 328 (421)
+...|++.++-+|-..-..++-+|+.++.. ..... -.+.-++- -+=.+-.+.||+-|+.. |.++.-+ ...=+-
T Consensus 2 ~~~~~~~~~Rp~~~~~~~~p~l~G~~~a~~~~~~~~~~~ll~~l~~~l~~~~~n~~Ndy~D~~~g~D~~~~~~-~~r~l~ 80 (293)
T PRK06080 2 TFKAWLELARPKTLPAAFAPVLVGTALAYWLGSFHPLLALLALLAALLLQIATNLANDYGDYVKGTDTEDRVG-PLRAIG 80 (293)
T ss_pred CHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHhHHHhccCCCcccccC-Cccccc
Confidence 467899999999988888888888777621 11111 11111121 12234478999999953 3211111 123466
Q ss_pred cCcccHHHH
Q 014640 329 HGIITAPIL 337 (421)
Q Consensus 329 ~Gk~TlPvl 337 (421)
.|+.|.+-.
T Consensus 81 ~G~is~~~~ 89 (293)
T PRK06080 81 RGGISPKQV 89 (293)
T ss_pred CCCCCHHHH
Confidence 788776653
No 51
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=27.69 E-value=1.1e+02 Score=30.39 Aligned_cols=65 Identities=18% Similarity=0.192 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH-HHHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhh
Q 014640 267 TASLISNSCKAIALLAGQTAEVAILAFDYGKNL-GLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 342 (421)
Q Consensus 267 TasL~~~a~~~ga~lag~~~~~~~~l~~~G~~l-G~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~ 342 (421)
.+.+|......|....+..-...-.+--.+--+ ..++.+.+|+.|+.+|. ++|+.|+|+.+-.+.
T Consensus 139 ~~~~f~~~~v~G~~~~~~~~~~~~~l~~~~~~~~~~a~~ii~~irDie~Dr-----------~~G~~Tlpv~lG~~~ 204 (282)
T PRK13105 139 SSTHFVSPALYGLVLAGAPFTAALWAVLAAFFLWGMASHAFGAVQDVVADR-----------EAGIASIATVLGARR 204 (282)
T ss_pred HHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHhCcchHhHH-----------HcCCccchHHhcHHH
No 52
>PRK13591 ubiA prenyltransferase; Provisional
Probab=25.08 E-value=7.2e+02 Score=25.03 Aligned_cols=31 Identities=23% Similarity=0.337 Sum_probs=23.6
Q ss_pred HHhhhhhccccccccccccCCCcccccccCcccHHHHHHHhh
Q 014640 301 LAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 342 (421)
Q Consensus 301 ~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~TlPvl~Ale~ 342 (421)
.+..+.+|+.|..+| .++|+.|+|+.+--+.
T Consensus 193 ~~~~iindirDiEGD-----------r~~G~kTLPV~lG~~~ 223 (307)
T PRK13591 193 FINSCVYDFKDVKGD-----------TLAGIKTLPVSLGEQK 223 (307)
T ss_pred HHHHHHHHhhhhHhH-----------HHcCCeeEEEEECHHH
Confidence 344578999999665 5779999999886554
No 53
>PLN00012 chlorophyll synthetase; Provisional
Probab=23.73 E-value=3.3e+02 Score=28.18 Aligned_cols=92 Identities=15% Similarity=0.003 Sum_probs=53.5
Q ss_pred HHHhccccCCCCCCHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHH------HHHHH-HHHHHHHhhhhhccccccc
Q 014640 242 ETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAI------LAFDY-GKNLGLAYQLIDDVLDFTG 314 (421)
Q Consensus 242 q~~dl~~~~~~~~s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~------~l~~~-G~~lG~AfQI~DDllD~~~ 314 (421)
|...++...........|++.++-||-.+...++.+|+..+|.-.-... .+.-+ |--+-.+=++.||+.|..-
T Consensus 71 ~~~~~~~~~~~~~~~k~~l~L~RP~t~~~~~~~v~~G~~~~g~~~~~~~~~~~~ll~~ll~~~L~~~~an~iNDy~D~~i 150 (375)
T PLN00012 71 QLLGIKGAAQETDIWKIRLQLTKPVTWPPLVWGVLCGAAASGNFHWTLEDVAKSIVCMLMSGPFLTGYTQTINDWYDREI 150 (375)
T ss_pred HhhCCCCcccchHHHHHHHHHhCHHHHHHHHHHHHHHHHHcCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHCeecHhh
Confidence 3444444433333457899999999998877788888876653211111 11111 2222233477999999876
Q ss_pred cccccCCCcccccccCcccHHH
Q 014640 315 TSASLGKGSLSDIRHGIITAPI 336 (421)
Q Consensus 315 ~~~~~GK~~g~Dl~~Gk~TlPv 336 (421)
|... |+ ..=+..|++|...
T Consensus 151 D~~~--~~-~Rpi~sG~Is~~~ 169 (375)
T PLN00012 151 DAIN--EP-YRPIPSGAISENE 169 (375)
T ss_pred hccC--CC-CCCcCCCccCHHH
Confidence 6322 22 3457778776443
No 54
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=23.28 E-value=5.6e+02 Score=24.85 Aligned_cols=77 Identities=18% Similarity=0.117 Sum_probs=46.2
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHcCC-CHHHH-HHHHHHHHHH-HHHhhhhhccccccccccccCCCcccccccCcc
Q 014640 256 MDYYMQKTYYKTASLISNSCKAIALLAGQ-TAEVA-ILAFDYGKNL-GLAYQLIDDVLDFTGTSASLGKGSLSDIRHGII 332 (421)
Q Consensus 256 ~~~Yl~~i~~KTasL~~~a~~~ga~lag~-~~~~~-~~l~~~G~~l-G~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~ 332 (421)
...|++.++-++..+...++..|..++.. ..+.. -.+.-+|--+ -.+=.+.||+.|+.-|..+ | ...=+-.|++
T Consensus 3 ~~~~~~l~Rp~~~~~~~~~~~~g~~la~~~~~~~~~~~l~~l~~~l~~~~~~~iNd~~D~~iD~~~--~-~~Rpl~sG~i 79 (279)
T PRK09573 3 IKAYFELIRPKNCIGASIGAIIGYLIASNFKIDLKGIILAALVVFLVCAGGNVINDIYDIEIDKIN--K-PERPIPSGRI 79 (279)
T ss_pred HHHHHHHHhHhHHHHHHHHHHHHHHHHccCCcchHHHHHHHHHHHHHHHHHHHHHhhccccccccc--C-CCCCcCCCcc
Confidence 56799999999988887888888888743 22211 1111122211 1222689999999766432 2 1233667777
Q ss_pred cHH
Q 014640 333 TAP 335 (421)
Q Consensus 333 TlP 335 (421)
|..
T Consensus 80 s~~ 82 (279)
T PRK09573 80 SLK 82 (279)
T ss_pred CHH
Confidence 643
No 55
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.52 E-value=97 Score=28.11 Aligned_cols=58 Identities=24% Similarity=0.271 Sum_probs=38.9
Q ss_pred HHhhhhhhHHHHHHHHHHHHc----C--CCHHHHHHHHHHHHHHHHHhhhhhccccccccccccCCCccccccc
Q 014640 262 KTYYKTASLISNSCKAIALLA----G--QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 329 (421)
Q Consensus 262 ~i~~KTasL~~~a~~~ga~la----g--~~~~~~~~l~~~G~~lG~AfQI~DDllD~~~~~~~~GK~~g~Dl~~ 329 (421)
.+..-.+-||.+. -||+++ . ...++-..+.+.|+|+|+ .++||+|.= .+-|.|.|+++
T Consensus 12 ~~~k~naELFtLT--YGaiV~ql~kDyed~e~Vn~qLdkMGyNiG~--RLiedFLAk------s~vpRC~dfre 75 (183)
T KOG3330|consen 12 KSKKMNAELFTLT--YGAIVTQLCKDYEDPEDVNKQLDKMGYNIGI--RLIEDFLAK------SNVPRCVDFRE 75 (183)
T ss_pred HHHhhhhhhhhhh--HHHHHHHHHHhhcCHHHHHHHHHhccchhhH--HHHHHHHhh------cCCchhhhHHH
Confidence 4444466776543 344443 2 245677889999999997 789998864 35667888855
No 56
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=22.34 E-value=5.3e+02 Score=24.97 Aligned_cols=79 Identities=13% Similarity=0.109 Sum_probs=47.2
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHcCCC-HHH-HHHHHHHHHHHH-HHhhhhhccccccccccccCCCcccccccCc
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLAGQT-AEV-AILAFDYGKNLG-LAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 331 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~-~~~-~~~l~~~G~~lG-~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk 331 (421)
+...|++.++-++..+-..+..+|+.++... +.. .-.+.-.|--++ .+=.+.||+.|+.-|.. .|| ..=+-.|+
T Consensus 2 ~l~~~~~l~Rp~~~~~~~~~~~~G~~la~~~~~~~~~~~l~~~~~~~~~~a~~~~Nd~~D~~~D~~--n~~-~Rpl~sG~ 78 (277)
T PRK12883 2 ELKAFIEITRPHNCILAGIVGILGSLVALGGIPPIKTLILIFLVVYLGCSGGNTINDYFDYEIDKI--NRP-NRPLPRGA 78 (277)
T ss_pred CHHHHHHHHhhhHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHhHHHhhhhHhcccc--CCC-CCCCCCCc
Confidence 4678999999999887666677887776322 211 111111222222 34578999999986653 232 34456677
Q ss_pred ccHHH
Q 014640 332 ITAPI 336 (421)
Q Consensus 332 ~TlPv 336 (421)
.|...
T Consensus 79 is~~~ 83 (277)
T PRK12883 79 MSRKA 83 (277)
T ss_pred cCHHH
Confidence 66433
No 57
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=22.05 E-value=2e+02 Score=28.88 Aligned_cols=62 Identities=15% Similarity=0.089 Sum_probs=37.6
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-HHhh----hhhccccccccc
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLG-LAYQ----LIDDVLDFTGTS 316 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~~~~~~l~~~G~~lG-~AfQ----I~DDllD~~~~~ 316 (421)
+...|++.++-+|-..-..|+-+|+.++-......+...-+..-+| +++| +.||+-||..+.
T Consensus 2 ~~~~~~~~~Rp~tl~~s~~pvllG~a~a~~~~~~~~~~~~ll~ll~~~~~~~~~N~~NDy~D~~~g~ 68 (317)
T PRK13387 2 SAKLFLKLVEIHTKIASFFPVILGTLFSLYVAKIFDWLLFLAFMVAMLAFDIATTAINNYMDFKKAL 68 (317)
T ss_pred CHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHhHHHHhcCC
Confidence 4577999999999888778888887776211000111111222233 3345 689999996543
No 58
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=21.57 E-value=5.3e+02 Score=24.86 Aligned_cols=79 Identities=13% Similarity=0.010 Sum_probs=48.4
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHcCCCH-HHHHHHHHHHHHH-HHHhhhhhccccccccccccCCCcccccccCcc
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLAGQTA-EVAILAFDYGKNL-GLAYQLIDDVLDFTGTSASLGKGSLSDIRHGII 332 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~lag~~~-~~~~~l~~~G~~l-G~AfQI~DDllD~~~~~~~~GK~~g~Dl~~Gk~ 332 (421)
....|++.++-++..+...++.+|+.++.... ...-.+.-+|--+ -.+-.+.||+.|+.-|..+ |+ ..-+-.|+.
T Consensus 3 ~l~~~~~l~R~~~~~~~~~~~~~g~~la~~~~~~~~~~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~--r~-~Rpl~~G~i 79 (279)
T PRK12884 3 KMKAYLELLRPEHGLMAGIAVVLGAIIALGGLPLDEALLGFLTAFFASGSANALNDYFDYEVDRIN--RP-DRPIPSGRI 79 (279)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhcc--CC-CCCCCCCCC
Confidence 35689999999988887777888887775431 1111111122222 1223689999999876544 43 344667777
Q ss_pred cHHH
Q 014640 333 TAPI 336 (421)
Q Consensus 333 TlPv 336 (421)
|..-
T Consensus 80 s~~~ 83 (279)
T PRK12884 80 SRRE 83 (279)
T ss_pred CHHH
Confidence 6543
No 59
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=21.34 E-value=4.9e+02 Score=26.32 Aligned_cols=76 Identities=16% Similarity=0.139 Sum_probs=43.2
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHcCC--CHHHHH-----HHHHHHHHHHHHh-hhhhccccccccccccCCCcccc
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLAGQ--TAEVAI-----LAFDYGKNLGLAY-QLIDDVLDFTGTSASLGKGSLSD 326 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~lag~--~~~~~~-----~l~~~G~~lG~Af-QI~DDllD~~~~~~~~GK~~g~D 326 (421)
+...|++.++-+|-. ...+|..|+.++.. .+.... .+.-++-.+|.++ ++.||+.|+.-|. ..|+. .=
T Consensus 11 ~~k~~l~L~kP~t~l-~~~p~~~g~~lA~g~~~~~~~~~~l~l~~~~~~~~L~~~a~~~iND~~D~~~D~--~n~rt-Rp 86 (331)
T PRK12392 11 KIRAHLELLDPVTWI-SVFPCLAGGVMASGAMQPTLHDYLLLLALFLMYGPLGTGFSQSVNDYFDLELDR--VNEPT-RP 86 (331)
T ss_pred HHHHHHHHHCHHHHH-HHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHhHHhcceeecccc--cCCCC-CC
Confidence 467899999998877 44566666666532 111111 1112222334333 8999999996554 23332 33
Q ss_pred cccCcccH
Q 014640 327 IRHGIITA 334 (421)
Q Consensus 327 l~~Gk~Tl 334 (421)
+-.|++|-
T Consensus 87 l~~G~is~ 94 (331)
T PRK12392 87 IPSGRLSE 94 (331)
T ss_pred CCcCCcCH
Confidence 55676663
No 60
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=20.90 E-value=5e+02 Score=25.76 Aligned_cols=77 Identities=18% Similarity=0.208 Sum_probs=43.5
Q ss_pred CHHHHHHHHhhhhhhHHHHHHHHHHHHc----CC-CHHHH---HHHHHHHHHHHHHhhhhhccccccccccc----cC--
Q 014640 255 SMDYYMQKTYYKTASLISNSCKAIALLA----GQ-TAEVA---ILAFDYGKNLGLAYQLIDDVLDFTGTSAS----LG-- 320 (421)
Q Consensus 255 s~~~Yl~~i~~KTasL~~~a~~~ga~la----g~-~~~~~---~~l~~~G~~lG~AfQI~DDllD~~~~~~~----~G-- 320 (421)
+...|++.++-+|-.+.-.+.-.|..++ |. +.... -...-+..+.| . +.||+.|..-|..+ ++
T Consensus 4 ~~~~~~~l~Rp~~l~~~~~~~~~g~~lA~~~~g~~~~~~~~l~~l~~~l~~~ag--~-~iND~~D~~~D~~~v~rtm~r~ 80 (297)
T PRK12871 4 TLKAYIDLTRAHFLPAWPLLFCSGLVLAFANYGGFSWELTIKAALIGLFGFEAG--F-VLNDYVDRKRDRLDVENTLTRY 80 (297)
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHH--H-HHhhHHHHhcCcchHhhhhhcc
Confidence 5778999999997655444444665554 32 22211 22233334443 4 99999999776422 23
Q ss_pred -CC-cccccccCcccH
Q 014640 321 -KG-SLSDIRHGIITA 334 (421)
Q Consensus 321 -K~-~g~Dl~~Gk~Tl 334 (421)
|| ...=+-.|++|.
T Consensus 81 ~~P~~~Rpl~sG~is~ 96 (297)
T PRK12871 81 WRPFKERPIPSGKLSS 96 (297)
T ss_pred ccCCCCCccCCCCcCH
Confidence 33 223356677763
Done!