Query 038404
Match_columns 287
No_of_seqs 213 out of 1085
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 10:40:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038404.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038404hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10581 geranyltranstransfera 100.0 3.5E-70 7.7E-75 497.1 32.8 285 3-287 9-299 (299)
2 COG0142 IspA Geranylgeranyl py 100.0 4.9E-66 1.1E-70 474.9 31.7 277 2-287 8-322 (322)
3 PRK10888 octaprenyl diphosphat 100.0 1.2E-64 2.6E-69 465.6 31.2 274 2-287 11-323 (323)
4 TIGR02748 GerC3_HepT heptapren 100.0 1.6E-64 3.6E-69 464.6 31.2 274 2-287 10-319 (319)
5 TIGR02749 prenyl_cyano solanes 100.0 3.1E-64 6.8E-69 462.9 31.5 274 2-287 11-322 (322)
6 PLN02890 geranyl diphosphate s 100.0 3.7E-64 8E-69 472.7 32.2 274 2-287 89-422 (422)
7 CHL00151 preA prenyl transfera 100.0 5.1E-64 1.1E-68 462.1 30.0 274 2-287 12-323 (323)
8 PLN02857 octaprenyl-diphosphat 100.0 2.2E-63 4.8E-68 467.7 29.3 274 2-287 102-416 (416)
9 cd00685 Trans_IPPS_HT Trans-Is 100.0 1.3E-59 2.8E-64 421.2 29.9 254 21-285 3-259 (259)
10 KOG0776 Geranylgeranyl pyropho 100.0 2.3E-60 5E-65 434.0 25.4 279 3-285 73-384 (384)
11 PF00348 polyprenyl_synt: Poly 100.0 6.6E-58 1.4E-62 410.3 22.4 235 25-263 2-236 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 4.2E-44 9.2E-49 315.8 26.9 231 39-285 1-236 (236)
13 KOG0777 Geranylgeranyl pyropho 100.0 2E-38 4.3E-43 269.0 17.7 232 22-268 21-290 (322)
14 KOG0711 Polyprenyl synthetase 100.0 4.6E-37 1E-41 271.8 19.8 220 22-250 38-271 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.9 1.7E-21 3.7E-26 168.9 26.5 200 40-267 2-223 (243)
16 PF07307 HEPPP_synt_1: Heptapr 97.6 0.0021 4.6E-08 55.7 13.3 110 53-180 30-140 (212)
17 cd00683 Trans_IPPS_HH Trans-Is 97.1 0.048 1E-06 48.9 17.1 111 143-271 96-228 (265)
18 PLN02632 phytoene synthase 97.1 0.053 1.2E-06 50.5 17.4 115 143-272 143-281 (334)
19 TIGR03465 HpnD squalene syntha 96.8 0.2 4.3E-06 45.0 18.6 109 143-270 88-218 (266)
20 TIGR03464 HpnC squalene syntha 96.7 0.4 8.7E-06 43.1 19.2 111 143-272 89-221 (266)
21 TIGR01559 squal_synth farnesyl 96.6 0.21 4.5E-06 46.6 17.5 115 143-269 111-248 (336)
22 PF00494 SQS_PSY: Squalene/phy 96.1 0.43 9.3E-06 42.6 15.8 109 143-268 94-226 (267)
23 cd00687 Terpene_cyclase_nonpla 92.2 8.6 0.00019 34.7 17.3 109 143-264 139-261 (303)
24 PF03936 Terpene_synth_C: Terp 90.4 1.2 2.5E-05 39.4 7.5 109 143-264 147-269 (270)
25 cd00868 Terpene_cyclase_C1 Ter 87.5 20 0.00043 31.7 17.8 112 143-267 132-257 (284)
26 PRK10888 octaprenyl diphosphat 86.6 6.7 0.00015 36.3 10.1 71 185-267 56-126 (323)
27 cd00685 Trans_IPPS_HT Trans-Is 86.3 8.5 0.00018 34.2 10.3 63 193-267 39-101 (259)
28 TIGR02748 GerC3_HepT heptapren 85.9 9.2 0.0002 35.3 10.6 70 186-267 56-125 (319)
29 PF00348 polyprenyl_synt: Poly 84.1 10 0.00022 33.8 9.7 73 184-268 24-96 (260)
30 COG1562 ERG9 Phytoene/squalene 84.1 33 0.00073 31.3 18.1 111 143-271 106-238 (288)
31 PRK12884 ubiA prenyltransferas 82.9 35 0.00075 30.6 18.7 162 59-253 40-204 (279)
32 TIGR02749 prenyl_cyano solanes 77.7 22 0.00047 32.9 9.8 60 196-267 70-129 (322)
33 PRK12872 ubiA prenyltransferas 77.3 9.9 0.00021 34.2 7.3 41 204-255 172-212 (285)
34 TIGR01474 ubiA_proteo 4-hydrox 75.6 62 0.0013 29.2 14.3 59 60-118 44-105 (281)
35 PRK13105 ubiA prenyltransferas 74.5 21 0.00045 32.5 8.6 42 205-257 172-213 (282)
36 COG0142 IspA Geranylgeranyl py 72.9 9.2 0.0002 35.4 6.0 60 197-268 70-129 (322)
37 PF06783 UPF0239: Uncharacteri 72.2 5.4 0.00012 29.4 3.4 23 191-213 14-36 (85)
38 CHL00151 preA prenyl transfera 72.1 30 0.00065 32.0 9.2 58 197-266 72-129 (323)
39 PRK10581 geranyltranstransfera 71.8 66 0.0014 29.4 11.3 63 57-121 204-278 (299)
40 PLN00012 chlorophyll synthetas 70.0 13 0.00029 35.2 6.5 41 203-254 262-302 (375)
41 PRK12882 ubiA prenyltransferas 68.7 87 0.0019 28.0 17.9 59 60-118 42-101 (276)
42 PRK07566 bacteriochlorophyll/c 66.4 1.1E+02 0.0023 28.2 14.1 51 63-115 72-125 (314)
43 cd00867 Trans_IPPS Trans-Isopr 65.9 86 0.0019 26.9 10.8 38 181-218 6-43 (236)
44 cd00684 Terpene_cyclase_plant_ 59.9 1.9E+02 0.0041 28.8 19.3 111 143-267 366-491 (542)
45 PRK13105 ubiA prenyltransferas 59.1 42 0.00091 30.5 7.3 60 58-118 162-221 (282)
46 TIGR02056 ChlG chlorophyll syn 59.0 40 0.00087 30.9 7.3 51 62-114 60-113 (306)
47 PLN02890 geranyl diphosphate s 52.8 82 0.0018 30.4 8.5 59 197-267 165-223 (422)
48 PRK13595 ubiA prenyltransferas 52.8 1.2E+02 0.0027 27.7 9.3 76 177-265 155-230 (292)
49 PRK09573 (S)-2,3-di-O-geranylg 52.7 1.7E+02 0.0037 26.1 20.2 59 58-116 39-98 (279)
50 PRK12878 ubiA 4-hydroxybenzoat 50.5 2.1E+02 0.0044 26.4 13.8 59 60-118 76-137 (314)
51 PRK13591 ubiA prenyltransferas 50.4 2.1E+02 0.0045 26.4 15.7 39 207-256 193-231 (307)
52 TIGR01475 ubiA_other putative 49.0 2E+02 0.0043 25.8 14.4 52 58-109 38-92 (282)
53 TIGR01476 chlor_syn_BchG bacte 46.7 12 0.00026 33.8 1.7 39 206-255 174-212 (283)
54 PLN02857 octaprenyl-diphosphat 46.6 1.2E+02 0.0026 29.2 8.6 49 47-97 279-339 (416)
55 PRK12875 ubiA prenyltransferas 46.0 72 0.0016 29.0 6.7 46 65-111 174-219 (282)
56 PRK12887 ubiA tocopherol phyty 44.7 63 0.0014 29.7 6.2 44 201-255 190-233 (308)
57 PF12029 DUF3516: Domain of un 42.3 80 0.0017 30.6 6.5 83 201-283 216-303 (461)
58 KOG0776 Geranylgeranyl pyropho 41.7 1.9E+02 0.0042 27.5 8.8 66 190-267 125-192 (384)
59 PRK12875 ubiA prenyltransferas 41.4 27 0.00058 31.7 3.2 40 204-254 176-215 (282)
60 PLN02878 homogentisate phytylt 40.6 51 0.0011 30.0 4.8 51 201-262 164-214 (280)
61 PRK12392 bacteriochlorophyll c 38.5 3.3E+02 0.0071 25.3 13.4 48 198-256 185-232 (331)
62 PRK12847 ubiA 4-hydroxybenzoat 38.5 2.9E+02 0.0064 24.7 13.6 57 61-117 50-109 (285)
63 PRK06080 1,4-dihydroxy-2-napht 38.4 1.4E+02 0.003 26.9 7.4 58 56-114 168-225 (293)
64 PF01040 UbiA: UbiA prenyltran 37.2 2.7E+02 0.0058 23.9 16.5 63 178-251 130-193 (257)
65 PLN02878 homogentisate phytylt 36.0 1.6E+02 0.0034 26.9 7.1 48 67-115 167-214 (280)
66 COG0382 UbiA 4-hydroxybenzoate 35.6 1.8E+02 0.0039 26.2 7.6 167 57-257 48-220 (289)
67 TIGR02056 ChlG chlorophyll syn 34.4 1.7E+02 0.0037 26.7 7.3 52 60-112 187-238 (306)
68 PRK13106 ubiA prenyltransferas 32.3 3.8E+02 0.0083 24.5 9.2 49 58-106 51-102 (300)
69 PRK12884 ubiA prenyltransferas 31.6 1.8E+02 0.0039 25.9 6.9 57 52-109 151-207 (279)
70 PRK12871 ubiA prenyltransferas 30.3 4.2E+02 0.0092 24.1 18.7 36 206-252 188-223 (297)
71 TIGR01476 chlor_syn_BchG bacte 29.6 2.7E+02 0.0057 24.9 7.7 49 61-110 166-214 (283)
72 PRK07566 bacteriochlorophyll/c 28.1 1.6E+02 0.0035 27.0 6.1 54 59-113 192-245 (314)
73 PLN02279 ent-kaur-16-ene synth 28.0 7E+02 0.015 26.3 11.2 112 144-267 601-725 (784)
74 PRK12882 ubiA prenyltransferas 25.5 2.6E+02 0.0056 24.9 6.8 35 71-106 172-206 (276)
75 PRK07419 1,4-dihydroxy-2-napht 25.5 39 0.00085 31.0 1.5 39 211-260 192-230 (304)
76 TIGR00751 menA 1,4-dihydroxy-2 25.4 58 0.0013 29.5 2.6 37 208-255 179-215 (284)
77 PRK12887 ubiA tocopherol phyty 25.0 1.6E+02 0.0034 27.0 5.4 53 61-114 187-239 (308)
78 PRK13387 1,4-dihydroxy-2-napht 24.1 26 0.00057 32.3 0.1 31 211-252 207-237 (317)
79 TIGR02235 menA_cyano-plnt 1,4- 24.1 67 0.0014 29.2 2.7 42 205-257 173-214 (285)
80 KOG1345 Serine/threonine kinas 22.7 49 0.0011 30.3 1.5 25 58-83 127-151 (378)
81 PF06304 DUF1048: Protein of u 22.7 88 0.0019 24.0 2.7 22 207-228 45-66 (103)
82 PLN02922 prenyltransferase 22.1 58 0.0012 30.1 1.9 37 208-255 203-239 (315)
83 PF01040 UbiA: UbiA prenyltran 21.7 2E+02 0.0042 24.8 5.2 53 51-104 140-193 (257)
84 PRK12883 ubiA prenyltransferas 21.5 5.8E+02 0.012 22.7 17.4 52 62-115 43-97 (277)
85 PLN02922 prenyltransferase 21.3 4.1E+02 0.009 24.4 7.4 56 58-114 190-245 (315)
86 PRK12872 ubiA prenyltransferas 20.6 5.3E+02 0.012 22.8 7.9 44 70-114 175-218 (285)
No 1
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=3.5e-70 Score=497.06 Aligned_cols=285 Identities=43% Similarity=0.651 Sum_probs=257.8
Q ss_pred hHHHHHHHHHhHHhccC--CcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCC
Q 038404 3 SKAKRVNKALDETVQLR--HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPC 80 (287)
Q Consensus 3 ~~~~~i~~~l~~~~~~~--~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~ 80 (287)
+..+.|++.|.+.++.. .++.+.++++|.+..||||+||.|++++++++|++++...++|++||++|+||||||||||
T Consensus 9 ~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~gGKrlRp~L~l~~~~~~g~~~~~~~~~A~avEliH~aSLiHDDip~ 88 (299)
T PRK10581 9 ACVQQANQALSRFIAPLPFQNTPVVEAMQYGALLGGKRLRPFLVYATGQMFGVSTNTLDAPAAAVECIHAYSLIHDDLPA 88 (299)
T ss_pred HHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhcCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHcCccc
Confidence 45688999999988652 2556999999999999999999999999999999888899999999999999999999999
Q ss_pred CCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccC-CCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCC
Q 038404 81 MDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKST-EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKD 159 (287)
Q Consensus 81 ~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~ 159 (287)
||+|++|||+||+|.+||++.|||+||+|++.||+.+++... ...+....+++..++.+.|..+++.||.+|+.+....
T Consensus 89 ~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~ 168 (299)
T PRK10581 89 MDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQ 168 (299)
T ss_pred ccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCC
Confidence 999999999999999999999999999999999999987532 2233455677888887655578999999999887666
Q ss_pred CCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCC
Q 038404 160 VSLNELENIHLHKTAKLLEAAVVCGVIIGGGNM-IEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238 (287)
Q Consensus 160 ~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~-~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~ 238 (287)
++.+.|.+|+.+|||+||.+||.+|++++|+++ +..+.+++||.++|+||||+||++|++++++.+||+.++|+++||+
T Consensus 169 ~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~ 248 (299)
T PRK10581 169 VPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKS 248 (299)
T ss_pred CCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCC
Confidence 889999999999999999999999999999764 5678999999999999999999999999999999999999999999
Q ss_pred cHHHHHhHHHHHHHHHHHHHHHHHHhhccCc-cc-HHHHHHHHHHHHhccC
Q 038404 239 TYPKLMGIENARKFACDLLAQATEELAYFEV-AR-AAPLYHLAYYIASRQH 287 (287)
Q Consensus 239 T~p~~~~l~~a~~~~~~~~~~A~~~L~~l~~-~~-~~~L~~l~~~~~~R~~ 287 (287)
|||+++++++|++.+++|.++|.+.|+.+|. .. ++.|.+|++|+++|++
T Consensus 249 T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~~~~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 249 TYPALLGLEQARKKARDLIDDARQSLDQLAAQSLDTSALEALANYIIQRDK 299 (299)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCchhHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999964 33 5889999999999975
No 2
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=4.9e-66 Score=474.88 Aligned_cols=277 Identities=44% Similarity=0.660 Sum_probs=250.8
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCch----hHhHHHHHHHHHHHHHHHHhC
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDES----SAMPVACALEMIHTMSLVHDD 77 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~----~~~~~A~avEliH~asLihDD 77 (287)
.++.+.|++.|.+.++...|+.+.+++.|.+..||||+||.+++++++++|.+.+ ++.++|++|||+|++||||||
T Consensus 8 ~~~~~~i~~~l~~~l~~~~~~~l~~a~~~~~~aGGKrlRP~l~l~~~~~~~~~~~~~~~~~~~~aaavEliH~~SLiHDD 87 (322)
T COG0142 8 LKRLARIEELLSELLSGSDPELLLEAMRYLLLAGGKRLRPLLVLLAAEALGIDLETGGNDALDLAAAIELIHTASLIHDD 87 (322)
T ss_pred HHHHHHHHHHHHHHhcccccHHHHHHHHHHHhcCCccHhHHHHHHHHHHcCCCcccchhhHHHHHHHHHHHHHHHHHHhh
Confidence 4567899999999998446677999999999999999999999999999984433 569999999999999999999
Q ss_pred CCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcC
Q 038404 78 LPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEG 157 (287)
Q Consensus 78 I~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~ 157 (287)
| ||+|++|||+||+|.+||+..||++||+|++.||+++++.... ...++..++.++ ..+|.||.+|+.+.+
T Consensus 88 v--mD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~-----~~~~~~~~~~~~--~~~~~GQ~lDl~~~~ 158 (322)
T COG0142 88 L--MDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSE-----ALEAIKALAEAI--NGLCGGQALDLAFEN 158 (322)
T ss_pred c--ccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCch-----hHHHHHHHHHHH--HHHHHhHHHHHHccC
Confidence 9 9999999999999999999999999999999999999986431 234445555555 789999999999988
Q ss_pred CCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCC
Q 038404 158 KDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237 (287)
Q Consensus 158 ~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk 237 (287)
+.+|+++|..|+++|||+||+++|.+|+++++++++..+.+++||.++|+||||+||++|+++|++.+||++|+|+++||
T Consensus 159 ~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK 238 (322)
T COG0142 159 KPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGK 238 (322)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcchHHHcCC
Confidence 77999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHhHHHHHH---------------------------------HHHHHHHHHHHHhhccCc-ccHHHHHHHHHHHH
Q 038404 238 ATYPKLMGIENARK---------------------------------FACDLLAQATEELAYFEV-ARAAPLYHLAYYIA 283 (287)
Q Consensus 238 ~T~p~~~~l~~a~~---------------------------------~~~~~~~~A~~~L~~l~~-~~~~~L~~l~~~~~ 283 (287)
+|||++++++.+.+ .++.|.++|++.|+.+|. ..++.|.++++|++
T Consensus 239 ~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~~~~~L~~la~~i~ 318 (322)
T COG0142 239 PTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSEAKEALLELADFII 318 (322)
T ss_pred chHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHH
Confidence 99999999875444 589999999999999973 46799999999999
Q ss_pred hccC
Q 038404 284 SRQH 287 (287)
Q Consensus 284 ~R~~ 287 (287)
+|.+
T Consensus 319 ~R~~ 322 (322)
T COG0142 319 KRKY 322 (322)
T ss_pred hccC
Confidence 9974
No 3
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=1.2e-64 Score=465.62 Aligned_cols=274 Identities=29% Similarity=0.478 Sum_probs=246.4
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCC
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCM 81 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~ 81 (287)
+++++.|++.|.+.+....| .+.++.+|.+..||||+||.+++++++++|++.+..+++|++||++|+|||||||| |
T Consensus 11 ~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~~GKrlRp~l~ll~~~~~g~~~~~~~~~A~avEllH~asLiHDDI--~ 87 (323)
T PRK10888 11 AQDMAGVNAAILEQLNSDVQ-LINQLGYYIISGGGKRIRPMIAVLAARAVGYQGNAHVTIAALIEFIHTATLLHDDV--V 87 (323)
T ss_pred HHHHHHHHHHHHHHHcccch-hHHHHHHHHHhCCCchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHccc--c
Confidence 35678999999999987444 59999999999999999999999999999998888999999999999999999999 9
Q ss_pred CCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCC-C
Q 038404 82 DNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKD-V 160 (287)
Q Consensus 82 D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~-~ 160 (287)
|+|++|||+||+|.+||++.|||+||||++.+++.++++. ...+ +..+++++ ..+++||.+|+.+.... +
T Consensus 88 D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~----~~~~---~~~~~~~~--~~~~~Gq~~d~~~~~~~~~ 158 (323)
T PRK10888 88 DESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLG----SLKV---LEVMSEAV--NVIAEGEVLQLMNVNDPDI 158 (323)
T ss_pred cCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhCC----CHHH---HHHHHHHH--HHHHHHHHHHHHhccCCCC
Confidence 9999999999999999999999999999999999998752 2233 34455555 67899999999875433 8
Q ss_pred CHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcH
Q 038404 161 SLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATY 240 (287)
Q Consensus 161 ~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~ 240 (287)
++++|..|+.+|||+||++||.+|++++|++++..+.+++||+++|+||||+||++|++++++.+||+.++||++||+||
T Consensus 159 s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~~gk~Tl 238 (323)
T PRK10888 159 TEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPTL 238 (323)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhhcCCchH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHh-------------------------------------HHHHHHHHHHHHHHHHHHhhccCcc-cHHHHHHHHHHH
Q 038404 241 PKLMG-------------------------------------IENARKFACDLLAQATEELAYFEVA-RAAPLYHLAYYI 282 (287)
Q Consensus 241 p~~~~-------------------------------------l~~a~~~~~~~~~~A~~~L~~l~~~-~~~~L~~l~~~~ 282 (287)
|++++ ++++++.+++|.++|.+.|+.+|+. .++.|..+++++
T Consensus 239 p~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l~~~~ 318 (323)
T PRK10888 239 PLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTPWREALIGLAHIA 318 (323)
T ss_pred HHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 99873 4566777889999999999999654 468999999999
Q ss_pred HhccC
Q 038404 283 ASRQH 287 (287)
Q Consensus 283 ~~R~~ 287 (287)
.+|++
T Consensus 319 ~~R~~ 323 (323)
T PRK10888 319 VQRDR 323 (323)
T ss_pred HhCcC
Confidence 99975
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=1.6e-64 Score=464.61 Aligned_cols=274 Identities=34% Similarity=0.486 Sum_probs=246.9
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCC
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCM 81 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~ 81 (287)
+++++.|++.|.+.+....| .+.+++.|.+..||||+||.||+++++++|++++.++++|++||+||+|||||||| |
T Consensus 10 ~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKriRp~L~ll~~~~~~~~~~~~~~~A~aiEliH~asLiHDDI--~ 86 (319)
T TIGR02748 10 QKDIDSIEKELEKAVQAEHP-VLSEASLHLLEAGGKRIRPVFVLLAGKFGDYDLDAIKHVAVALELIHMASLVHDDV--I 86 (319)
T ss_pred HHHHHHHHHHHHHHhccCch-HHHHHHHHHHhcCCchHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccc--c
Confidence 45678999999999876444 59999999999999999999999999998888888999999999999999999999 9
Q ss_pred CCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC-CC
Q 038404 82 DNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DV 160 (287)
Q Consensus 82 D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~-~~ 160 (287)
|+|++|||+||+|.+||++.|||+||||++++++.++++.. .. ++..+++++ ..++.||.+|+.+... ..
T Consensus 87 D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~----~~---~~~~~~~~~--~~~~~Gq~~~~~~~~~~~~ 157 (319)
T TIGR02748 87 DDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKD----PR---AHQILSHTI--VEVCRGEIEQIKDKYNFDQ 157 (319)
T ss_pred CCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCCc----HH---HHHHHHHHH--HHHHHHHHHHHHhccCCCC
Confidence 99999999999999999999999999999999999987522 23 344455555 6799999999987643 37
Q ss_pred CHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcH
Q 038404 161 SLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATY 240 (287)
Q Consensus 161 ~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~ 240 (287)
++++|..|+.+|||+||++||.+|++++|++++..+.+++||.++|+||||+||++||+++++.+|||.++|+++||.|+
T Consensus 158 ~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~~gk~Tl 237 (319)
T TIGR02748 158 NLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTL 237 (319)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHhCCCchH
Confidence 89999999999999999999999999999999989999999999999999999999999999999999999999999999
Q ss_pred HHHHhH----------------------------------HHHHHHHHHHHHHHHHHhhccCcc-cHHHHHHHHHHHHhc
Q 038404 241 PKLMGI----------------------------------ENARKFACDLLAQATEELAYFEVA-RAAPLYHLAYYIASR 285 (287)
Q Consensus 241 p~~~~l----------------------------------~~a~~~~~~~~~~A~~~L~~l~~~-~~~~L~~l~~~~~~R 285 (287)
|+++++ ++|+..+++|.++|.+.|+.||.. .++.|..+++++.+|
T Consensus 238 p~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l~~~~~~R 317 (319)
T TIGR02748 238 PVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGRAKKPLQEIAKYIGKR 317 (319)
T ss_pred HHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhc
Confidence 999854 568888999999999999999653 468899999999999
Q ss_pred cC
Q 038404 286 QH 287 (287)
Q Consensus 286 ~~ 287 (287)
++
T Consensus 318 ~~ 319 (319)
T TIGR02748 318 KY 319 (319)
T ss_pred cC
Confidence 75
No 5
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase. Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.
Probab=100.00 E-value=3.1e-64 Score=462.90 Aligned_cols=274 Identities=32% Similarity=0.439 Sum_probs=245.5
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCC---chhHhHHHHHHHHHHHHHHHHhCC
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGD---ESSAMPVACALEMIHTMSLVHDDL 78 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~---~~~~~~~A~avEliH~asLihDDI 78 (287)
+.++..|++.|.+.+....| .+.++++|++..||||+||.+|+++++++|+. ++..+++|++||++|+||||||||
T Consensus 11 ~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKrlRp~l~ll~~~~~~~~~~~~~~~~~~A~avEliH~asLiHDDi 89 (322)
T TIGR02749 11 EDDLYLLTDNLKSLVGARHP-ILYAAAEHLFSAGGKRLRPAIVLLVSRATAEQQELTPRHRRLAEITEMIHTASLVHDDV 89 (322)
T ss_pred HHHHHHHHHHHHHHhCCCCh-HHHHHHHHHHHCCCchHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHHHHHHccc
Confidence 45678999999999987555 59999999999999999999999999998753 367889999999999999999999
Q ss_pred CCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC
Q 038404 79 PCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK 158 (287)
Q Consensus 79 ~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~ 158 (287)
||+|++|||+||+|.+||++.|||+||||+++|++.+++.. ...++ ..+++++ ..++.||++|+.+...
T Consensus 90 --iD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~----~~~~~---~~~~~~~--~~~~~Gq~~~~~~~~~ 158 (322)
T TIGR02749 90 --IDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLE----NLEVV---KLISKVI--TDFAEGEIKQGLNQFD 158 (322)
T ss_pred --ccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcC----CHHHH---HHHHHHH--HHHHHHHHHHHHcccC
Confidence 99999999999999999999999999999999999998752 12344 4445554 6789999999876543
Q ss_pred -CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCC
Q 038404 159 -DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237 (287)
Q Consensus 159 -~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk 237 (287)
.+++++|..|+.+|||+||++||.+|++++|++++..+.+++||.++|+||||+||++|++++++.+||+.++||++||
T Consensus 159 ~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g~Dl~~Gk 238 (322)
T TIGR02749 159 SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMKGN 238 (322)
T ss_pred CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChhHHHhCCC
Confidence 3789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHh---------------------------------HHHHHHHHHHHHHHHHHHhhccCcc-cHHHHHHHHHHHH
Q 038404 238 ATYPKLMG---------------------------------IENARKFACDLLAQATEELAYFEVA-RAAPLYHLAYYIA 283 (287)
Q Consensus 238 ~T~p~~~~---------------------------------l~~a~~~~~~~~~~A~~~L~~l~~~-~~~~L~~l~~~~~ 283 (287)
+|+|++++ ++++++.+++|.++|++.|+.+|+. .++.|.+|++++.
T Consensus 239 ~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~~~~~L~~l~~~~~ 318 (322)
T TIGR02749 239 LTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSPPREALKELVHFVL 318 (322)
T ss_pred chHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence 99999975 5678889999999999999999653 4689999999999
Q ss_pred hccC
Q 038404 284 SRQH 287 (287)
Q Consensus 284 ~R~~ 287 (287)
+|++
T Consensus 319 ~R~~ 322 (322)
T TIGR02749 319 SRLY 322 (322)
T ss_pred hcCC
Confidence 9974
No 6
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=3.7e-64 Score=472.70 Aligned_cols=274 Identities=31% Similarity=0.412 Sum_probs=246.7
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCC--CCchHHHHHHHHHHHhCCCc-----------------hhHhHHH
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAG--GKRVRPVLCIASCELVGGDE-----------------SSAMPVA 62 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~g--GKr~Rp~l~l~~~~~~~~~~-----------------~~~~~~A 62 (287)
+++++.|++.|.+.+....| .+.++++|.+..| |||+||.+++++++++|.+. ++++++|
T Consensus 89 ~~~L~~v~~~L~~~v~~~~~-~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~~A 167 (422)
T PLN02890 89 ADELSLLANKLRSMVVAEVP-KLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELRTRQQNIA 167 (422)
T ss_pred HHHHHHHHHHHHHHHccCCh-HHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccchhhccchhhhHHHHH
Confidence 45678999999999987555 5999999999888 99999999999999988642 3467899
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhh
Q 038404 63 CALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGS 142 (287)
Q Consensus 63 ~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ 142 (287)
++||+||+|||||||| ||++++|||+||+|.+||++.||++||||+++|+..++... .. +++..+++++
T Consensus 168 aavEliH~ASLVHDDI--iD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~----~~---~~~~~~s~a~-- 236 (422)
T PLN02890 168 EITEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALK----NT---EVVSLLATAV-- 236 (422)
T ss_pred HHHHHHHHHHHHHccc--ccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCC----cH---HHHHHHHHHH--
Confidence 9999999999999999 99999999999999999999999999999999999998742 12 3445556666
Q ss_pred hhhhhhhhhhhhhcCC-CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccc
Q 038404 143 EGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKS 221 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~-~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~ 221 (287)
..+++||.+|+.+..+ .+++++|..++.+|||+||++||.+|++++|++++..+.+++||.++|+||||+||++||+++
T Consensus 237 ~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~ 316 (422)
T PLN02890 237 EHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence 7899999999988754 389999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhCCccchhhhcCCCcHHHHH---------------------------------hHHHHHHHHHHHHHHHHHHhhccC
Q 038404 222 SKELGKTAGKDLVSDKATYPKLM---------------------------------GIENARKFACDLLAQATEELAYFE 268 (287)
Q Consensus 222 ~~~~GK~~~~Dl~~gk~T~p~~~---------------------------------~l~~a~~~~~~~~~~A~~~L~~l~ 268 (287)
++.+||+.++||++||.|+|+++ ++++|++.+++|.++|.+.|+.||
T Consensus 317 ~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~lp 396 (422)
T PLN02890 317 SASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIESLP 396 (422)
T ss_pred hhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 99999999999999999999997 457888999999999999999996
Q ss_pred ccc-------HHHHHHHHHHHHhccC
Q 038404 269 VAR-------AAPLYHLAYYIASRQH 287 (287)
Q Consensus 269 ~~~-------~~~L~~l~~~~~~R~~ 287 (287)
... ++.|..+++++++|++
T Consensus 397 ~s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 397 ETDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred CCccccchHHHHHHHHHHHHHHhccC
Confidence 543 7899999999999975
No 7
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=5.1e-64 Score=462.11 Aligned_cols=274 Identities=30% Similarity=0.468 Sum_probs=244.5
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCc---hhHhHHHHHHHHHHHHHHHHhCC
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDE---SSAMPVACALEMIHTMSLVHDDL 78 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~---~~~~~~A~avEliH~asLihDDI 78 (287)
++.++.|++.|.+.+....| .+.++++|.+..||||+||.+|+++++++|++. .+.+++|++||++|+||||||||
T Consensus 12 ~~~l~~i~~~l~~~~~~~~~-~l~~~~~~~~~~gGKr~Rp~L~ll~~~~~~~~~~~~~~~~~~A~aiEllH~asLiHDDi 90 (323)
T CHL00151 12 EEELLILEDNLKKLIGSGHP-ILYAAAKHLFSAGGKRIRPAIVLLVAKATGGNMEIKTSQQRLAEITEIIHTASLVHDDV 90 (323)
T ss_pred HHHHHHHHHHHHHHhCCCCh-hHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHHHHHHccc
Confidence 45678999999999987555 599999999999999999999999999998743 45678999999999999999999
Q ss_pred CCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC
Q 038404 79 PCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK 158 (287)
Q Consensus 79 ~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~ 158 (287)
||+|++|||+||+|.+||++.|||+||||++.|++.+++... ....+ .+++++ ..++.||..|..+...
T Consensus 91 --~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~----~~~~~---~~~~~~--~~l~~G~~~~~~~~~~ 159 (323)
T CHL00151 91 --IDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLNN----LEVVK---LISKVI--TDFAEGEIRQGLVQFD 159 (323)
T ss_pred --ccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCCC----hHHHH---HHHHHH--HHHHHHHHHHHhcCCC
Confidence 999999999999999999999999999999999999987521 22333 334444 5689999999876543
Q ss_pred -CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCC
Q 038404 159 -DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237 (287)
Q Consensus 159 -~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk 237 (287)
..++++|..|+.+|||+||++||.+|++++|++++..+.+++||.++|+||||+||++|++++++.+||+.++|+++||
T Consensus 160 ~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g~Dl~eGk 239 (323)
T CHL00151 160 TTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGN 239 (323)
T ss_pred CCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCchhhHhcCc
Confidence 2788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHh---------------------------------HHHHHHHHHHHHHHHHHHhhccCc-ccHHHHHHHHHHHH
Q 038404 238 ATYPKLMG---------------------------------IENARKFACDLLAQATEELAYFEV-ARAAPLYHLAYYIA 283 (287)
Q Consensus 238 ~T~p~~~~---------------------------------l~~a~~~~~~~~~~A~~~L~~l~~-~~~~~L~~l~~~~~ 283 (287)
+|||++++ +++|++.+++|.++|.+.|+.||. ..++.|..++++++
T Consensus 240 ~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l~~~~~ 319 (323)
T CHL00151 240 LTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSSAKDSLIEIANFII 319 (323)
T ss_pred hHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence 99999986 678899999999999999999965 34689999999999
Q ss_pred hccC
Q 038404 284 SRQH 287 (287)
Q Consensus 284 ~R~~ 287 (287)
+|.|
T Consensus 320 ~R~~ 323 (323)
T CHL00151 320 NRLN 323 (323)
T ss_pred hccC
Confidence 9986
No 8
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=2.2e-63 Score=467.69 Aligned_cols=274 Identities=32% Similarity=0.459 Sum_probs=244.4
Q ss_pred chHHHHHHHHHhHHhccCCcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhC------CCchhHhHHHHHHHHHHHHHHHH
Q 038404 2 TSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVG------GDESSAMPVACALEMIHTMSLVH 75 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~------~~~~~~~~~A~avEliH~asLih 75 (287)
+++++.|++.|.+.+....| .+.++++|++..||||+||.||++++++++ ...++.+++|++|||||+|||||
T Consensus 102 ~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKriRP~Lvll~a~a~g~~~g~~~~~~~~~~lAaaiEliH~ASLIH 180 (416)
T PLN02857 102 ADDLQQLNDNLQSIVGAENP-VLMSAAEQIFGAGGKRMRPALVFLVSRATAELAGLKELTTEHRRLAEITEMIHTASLIH 180 (416)
T ss_pred HHHHHHHHHHHHHHhccCch-HHHHHHHHHHhCCCccHhHHHHHHHHHHhccccCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999977555 599999999999999999999999999875 22467899999999999999999
Q ss_pred hCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhh
Q 038404 76 DDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDS 155 (287)
Q Consensus 76 DDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~ 155 (287)
||| ||+|++|||+||+|.+||++.|||+||||+++|++.++++. ...++++ ++.++ ..++.||..|+.+
T Consensus 181 DDI--~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~~----~~~~~~~---~s~~~--~~l~~Gei~q~~~ 249 (416)
T PLN02857 181 DDV--LDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANLD----NLEVIKL---ISQVI--KDFASGEIKQASS 249 (416)
T ss_pred Ccc--ccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcCC----cHHHHHH---HHHHH--HHHHhhHHHHHhc
Confidence 999 99999999999999999999999999999999999998752 2244444 44444 5689999998876
Q ss_pred cCC-CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhh
Q 038404 156 EGK-DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLV 234 (287)
Q Consensus 156 ~~~-~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~ 234 (287)
... .+++++|..++++|||+||++||.+|++++|++++..+.+++||.++|+||||+||++|++++++.+||+.++||.
T Consensus 250 ~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~GK~~g~DL~ 329 (416)
T PLN02857 250 LFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLA 329 (416)
T ss_pred ccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHhCCCcchhhh
Confidence 543 3789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcHHHHH---------------------------------hHHHHHHHHHHHHHHHHHHhhccCcc-cHHHHHHHHH
Q 038404 235 SDKATYPKLM---------------------------------GIENARKFACDLLAQATEELAYFEVA-RAAPLYHLAY 280 (287)
Q Consensus 235 ~gk~T~p~~~---------------------------------~l~~a~~~~~~~~~~A~~~L~~l~~~-~~~~L~~l~~ 280 (287)
+||.|+|+++ ++++|++.+++|.++|++.|+.||.. .++.|..+++
T Consensus 330 eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~~~~~L~~L~~ 409 (416)
T PLN02857 330 KGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPRGAFRSSLEDMVD 409 (416)
T ss_pred cCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 9999999997 57789999999999999999999654 4689999999
Q ss_pred HHHhccC
Q 038404 281 YIASRQH 287 (287)
Q Consensus 281 ~~~~R~~ 287 (287)
|+++|.+
T Consensus 410 ~~~~R~~ 416 (416)
T PLN02857 410 YNLERIY 416 (416)
T ss_pred HHHhccC
Confidence 9999974
No 9
>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=1.3e-59 Score=421.17 Aligned_cols=254 Identities=43% Similarity=0.649 Sum_probs=234.1
Q ss_pred cHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCc-hhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcCh
Q 038404 21 PAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDE-SSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGE 99 (287)
Q Consensus 21 ~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~-~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~ 99 (287)
++.+.++++|.+..||||+||.+++++++++|+++ +.+.++|+++|++|+|||||||| ||+|+.|||+||+|.+||+
T Consensus 3 ~~~l~~~~~~~~~~~GK~~Rp~l~~~~~~~~g~~~~~~~~~la~aiEllh~asLIhDDI--~D~s~~RRG~p~~~~~~G~ 80 (259)
T cd00685 3 VELLREALRYLLLAGGKRLRPLLVLLAARALGGPELEAALRLAAAIELLHTASLVHDDV--MDNSDLRRGKPTVHKVFGN 80 (259)
T ss_pred chHHHHHHHHHHHcCCccHhHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHhhh--ccCCcccCCCCcHHHHhCc
Confidence 34689999999999999999999999999999988 89999999999999999999999 9999999999999999999
Q ss_pred hHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC-CCCHHHHHHHHhcchHHHHH
Q 038404 100 DTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLE 178 (287)
Q Consensus 100 ~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~-~~~~~~~~~i~~~KTg~l~~ 178 (287)
..|||+||+|++.+++.+++.... ...+++..+++.+ ..++.||.+|+.+... .++++.|..|+.+|||+||.
T Consensus 81 ~~Ail~gd~l~~~a~~~l~~~~~~----~~~~~~~~~~~~~--~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~ 154 (259)
T cd00685 81 ATAILAGDYLLARAFELLARLGNP----YYPRALELFSEAI--LELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFA 154 (259)
T ss_pred ccHHHHHHHHHHHHHHHHHhCCCc----cHHHHHHHHHHHH--HHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHH
Confidence 999999999999999999975321 3345566666666 7899999999998765 48999999999999999999
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHH
Q 038404 179 AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLA 258 (287)
Q Consensus 179 ~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~ 258 (287)
++|.+|+++++++++..+.+++||.++|++|||+||++|++++++.+||+.++|+++||+|||+++++ ++.++.|.+
T Consensus 155 ~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l---~~~~~~~~~ 231 (259)
T cd00685 155 AAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL---RELAREYEE 231 (259)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH---HHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999 889999999
Q ss_pred HHHHHhhccCccc-HHHHHHHHHHHHhc
Q 038404 259 QATEELAYFEVAR-AAPLYHLAYYIASR 285 (287)
Q Consensus 259 ~A~~~L~~l~~~~-~~~L~~l~~~~~~R 285 (287)
+|++.|+.+++.. +..|.++++++.+|
T Consensus 232 ~a~~~l~~~~~~~~~~~l~~~~~~~~~r 259 (259)
T cd00685 232 KALEALKALPESPAREALRALADFILER 259 (259)
T ss_pred HHHHHHHcCCCcHHHHHHHHHHHHHHcC
Confidence 9999999996543 68899999999887
No 10
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=2.3e-60 Score=434.03 Aligned_cols=279 Identities=53% Similarity=0.766 Sum_probs=248.1
Q ss_pred hHHHHHHHHHhHHhccC-CcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhC-CCchhHhHHHHHHHHHHHHHHHHhCCCC
Q 038404 3 SKAKRVNKALDETVQLR-HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVG-GDESSAMPVACALEMIHTMSLVHDDLPC 80 (287)
Q Consensus 3 ~~~~~i~~~l~~~~~~~-~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~-~~~~~~~~~A~avEliH~asLihDDI~~ 80 (287)
.+.+.++..+...++.. .|..+.+.++|.+..+|||+||.+|+++|++++ |....+.++|+++||||++||||||+||
T Consensus 73 ~~~~~ln~~l~~~~~~~~~~~~i~~a~ry~~la~gKr~rP~l~~~~~e~~~~g~~~~q~~~A~i~EMIHtaSLIHDDv~~ 152 (384)
T KOG0776|consen 73 RKARSLNGALHYAVPLANEPLLISEAMRYLLLAGGKRVRPLLCLAACELVGSGDESSQRSLAEIVEMIHTASLIHDDVPC 152 (384)
T ss_pred HHHHHHhhhhhhhcccccccchhHHHHHHHHHhcccccCchhhhhHHHhccccccHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 45678888888988876 788899999999999999999999999999999 8888999999999999999999999999
Q ss_pred CCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCCC
Q 038404 81 MDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDV 160 (287)
Q Consensus 81 ~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~~ 160 (287)
||++++|||+||.|..||+++|||+||||+++|++.++.+......+.+.+++.++++..|.++...||.+|... .
T Consensus 153 mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~----~ 228 (384)
T KOG0776|consen 153 MDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVAGEGLDLDD----V 228 (384)
T ss_pred ccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhcccccccccccCC----c
Confidence 999999999999999999999999999999999999999765444455566666666655544445554444322 5
Q ss_pred CHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcH
Q 038404 161 SLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATY 240 (287)
Q Consensus 161 ~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~ 240 (287)
..++|+.+..+|||+|++.+|++|++++|.++++++.+++||+++|++||+.||++|+...++.+||+.+.|+..|+.|+
T Consensus 229 ~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~~g~lT~ 308 (384)
T KOG0776|consen 229 GLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLKAGKLTA 308 (384)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhhhccccc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHH------------------------------hHHHHHHHHHHHHHHHHHHhhccC-cccHHHHHHHHHHHHhc
Q 038404 241 PKLM------------------------------GIENARKFACDLLAQATEELAYFE-VARAAPLYHLAYYIASR 285 (287)
Q Consensus 241 p~~~------------------------------~l~~a~~~~~~~~~~A~~~L~~l~-~~~~~~L~~l~~~~~~R 285 (287)
|+++ ++..|+..+++|.++|.+.|+.|| ++.+++|++++.++..|
T Consensus 309 P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~~Al~~l~~~p~s~ar~aL~~l~~~~~~r 384 (384)
T KOG0776|consen 309 PVLFALEKSPELREKLEREFSEPLDGFDADKAVPGVALAKYLARRHNNKALEALQSLPRSEARSALENLVLAVLTR 384 (384)
T ss_pred cchhhhhhChHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHHhcC
Confidence 9987 455677889999999999999995 45679999999999876
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=6.6e-58 Score=410.31 Aligned_cols=235 Identities=42% Similarity=0.649 Sum_probs=212.0
Q ss_pred HHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHH
Q 038404 25 HEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAIL 104 (287)
Q Consensus 25 ~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail 104 (287)
.+++.|++..||||+||.+|+++++++|++++.+.++|++||++|++||||||| ||+|++|||+||+|.+||++.|||
T Consensus 2 ~~~~~~~~~~~GK~~Rp~l~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI--~D~s~~RRG~pt~~~~~G~~~Ail 79 (260)
T PF00348_consen 2 LEPARYYILRGGKRIRPLLVLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDI--IDNSDLRRGKPTVHKKFGNAIAIL 79 (260)
T ss_dssp HHHHHHHHHSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHH--HTTCSEETTEECHHHHHHHHHHHH
T ss_pred hHHHHHHhhCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhh--hcccccCCCCccccccccccchhh
Confidence 367788888999999999999999999999999999999999999999999999 999999999999999999999999
Q ss_pred HhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHH
Q 038404 105 AGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCG 184 (287)
Q Consensus 105 ~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~g 184 (287)
+||+|++.|++.++++....+......++..+...+ .....||..|+.+....+++++|..|+++|||+||++||++|
T Consensus 80 ~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~--~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~g 157 (260)
T PF00348_consen 80 AGDYLLALAFELLARLGHFDPSERVLRILELFIEAL--IEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLG 157 (260)
T ss_dssp HHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred hchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhc--ccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHH
Confidence 999999999999998642122345555666655554 456678999998876568999999999999999999999999
Q ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHH
Q 038404 185 VIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEE 263 (287)
Q Consensus 185 a~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~ 263 (287)
++++|++++..+.+++||.++|+||||+||++|++++++..||+.++||++||+|||++++++.+.+..+++...+.+.
T Consensus 158 a~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~~~~~~~~l~~~~~~ 236 (260)
T PF00348_consen 158 AILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERAREELRELLQEAYGK 236 (260)
T ss_dssp HHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhCHHHHHHHHHHHHcc
Confidence 9999999999999999999999999999999999999999999999999999999999999999998888887776543
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=4.2e-44 Score=315.80 Aligned_cols=231 Identities=35% Similarity=0.557 Sum_probs=202.8
Q ss_pred hHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhh-cChhHHHHHhHHHHHHHHHHH
Q 038404 39 VRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKV-FGEDTAILAGDALLSLAFEHV 117 (287)
Q Consensus 39 ~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~-~G~~~Ail~gd~L~~~a~~~l 117 (287)
+||.+++++++++|++.+.+..+++++|++|++++||||| +|++..|||+||+|.+ ||+..|+++||+++..++..+
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI--~D~~~~rrg~~~~~~~~~g~~~ai~~gd~l~~~a~~~l 78 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDI--VDDSDLRRGKPTAHLRRFGNALAILAGDYLLARAFQLL 78 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHccc--ccCCccCCCCccHhHHhhCHhHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999999999999999999999999 9999999999999999 999999999999999999999
Q ss_pred HcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC-CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHH
Q 038404 118 AAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVE 196 (287)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~-~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~ 196 (287)
.++. ..... ..+...+ ..+++||.+|+.+..+ ..|+++|..++++|||++|..+|..++++++.+++..+
T Consensus 79 ~~~~----~~~~~---~~~~~~~--~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~ 149 (236)
T cd00867 79 ARLG----YPRAL---ELFAEAL--RELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAE 149 (236)
T ss_pred HhCC----hHHHH---HHHHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHH
Confidence 8752 12333 3344444 6799999999988753 48999999999999999999999999999999888889
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhccCcc---cHH
Q 038404 197 RVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYFEVA---RAA 273 (287)
Q Consensus 197 ~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l~~~---~~~ 273 (287)
.+.+||.++|+||||.||++|+.+|.+..|| .++|+++||+|||.+++ .+.+.++.+++.+.+..+.+. .+.
T Consensus 150 ~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (236)
T cd00867 150 ALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILA----RERAAEYAEEAYAALEALPPSLPRARR 224 (236)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHH----HHHHHHHHHHHHHHHHhCCCCchHHHH
Confidence 9999999999999999999999999999999 99999999999999988 555666666666666666322 357
Q ss_pred HHHHHHHHHHhc
Q 038404 274 PLYHLAYYIASR 285 (287)
Q Consensus 274 ~L~~l~~~~~~R 285 (287)
.+..++.++.+|
T Consensus 225 ~~~~~~~~~~~r 236 (236)
T cd00867 225 ALIALADFLYRR 236 (236)
T ss_pred HHHHHHHHHHhC
Confidence 788888888776
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=2e-38 Score=269.02 Aligned_cols=232 Identities=24% Similarity=0.344 Sum_probs=203.3
Q ss_pred HHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhH
Q 038404 22 AKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDT 101 (287)
Q Consensus 22 ~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~ 101 (287)
+.+.+|..|.+..+||.+|.-|.+....|+..+.++...+..+|||+|++||..||| .|+|..|||.|++|..||++.
T Consensus 21 ~ill~Py~yilq~PGKqfR~~L~~afNhwl~~P~dkLaii~~ivemLHNsSLLIDDI--EDNs~LRRG~pvaHsIyGvpS 98 (322)
T KOG0777|consen 21 SILLKPYNYILQKPGKQFRLNLIVAFNHWLNLPKDKLAIISQIVEMLHNSSLLIDDI--EDNSPLRRGQPVAHSIYGVPS 98 (322)
T ss_pred HHHhchHHHHHhCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccceeeccc--cccchhhcCCcchhhhccCcc
Confidence 457899999999999999999999999999999999999999999999999999999 899999999999999999999
Q ss_pred HHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCC--CCHHHHHHHHhcchHHHHHH
Q 038404 102 AILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKD--VSLNELENIHLHKTAKLLEA 179 (287)
Q Consensus 102 Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~--~~~~~~~~i~~~KTg~l~~~ 179 (287)
+||+++|++..|.+.++.+.. | ....++ ...+ ..++.||.+|+.|++.- ++++.|..|+..|||-||.+
T Consensus 99 tINtANY~yFlalekV~qLdh---P-~a~kif---teqL--leLHrGQGldIYWRD~~tcPtee~Yk~Mv~~KTGGLF~L 169 (322)
T KOG0777|consen 99 TINTANYMYFLALEKVSQLDH---P-NAIKIF---TEQL--LELHRGQGLDIYWRDFLTCPTEEMYKNMVMNKTGGLFRL 169 (322)
T ss_pred hhhhhHHHHHHHHHHHHhcCC---c-hHHHHH---HHHH--HHHhcCCCcceeeeccCcCCCHHHHHHHHHHhcccHHHH
Confidence 999999999999999998753 2 333333 3333 57899999999998754 88999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHh--------------
Q 038404 180 AVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMG-------------- 245 (287)
Q Consensus 180 ~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~-------------- 245 (287)
+.++.-.++... +.+..+-.-+|+.|||+||++++..-+..-.|.+++|+.|||.++|++++
T Consensus 170 a~rLMqlfS~~k----edl~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~t~~q~~Qvl~IL 245 (322)
T KOG0777|consen 170 ALRLMQLFSHHK----EDLVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALKTKGQTEQVLRIL 245 (322)
T ss_pred HHHHHHHHHhcc----hhHHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhhcCCchHHHHHHH
Confidence 999998887433 35788889999999999999999888888899999999999999999983
Q ss_pred ----------------------HHHHHHHHHHHHHHHHHHhhccC
Q 038404 246 ----------------------IENARKFACDLLAQATEELAYFE 268 (287)
Q Consensus 246 ----------------------l~~a~~~~~~~~~~A~~~L~~l~ 268 (287)
+++++...+++..+|++.+...+
T Consensus 246 rqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g 290 (322)
T KOG0777|consen 246 RQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDG 290 (322)
T ss_pred HHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45677777777778887777663
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=4.6e-37 Score=271.83 Aligned_cols=220 Identities=25% Similarity=0.317 Sum_probs=184.3
Q ss_pred HHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCc-------hhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchh
Q 038404 22 AKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDE-------SSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNH 94 (287)
Q Consensus 22 ~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~-------~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h 94 (287)
+++.+.+.|.+ .|||..|...|+.+.+++.++. ..+..++|+||+++++.||.||| ||+|.+|||+||||
T Consensus 38 ~~~~~~L~yN~-~GGK~nRgl~vv~s~~~L~~~~~l~~~~~~~a~~lGw~vElLQaffLiaDDI--MDnS~tRRGqpCWy 114 (347)
T KOG0711|consen 38 EWLKEVLDYNV-IGGKLNRGLSVVDSFKALVEPRKLDEEELQLALILGWCVELLQAFFLVADDI--MDNSKTRRGQPCWY 114 (347)
T ss_pred HHHHHHHhccC-cccccccchhHHHHHHHhcCccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh--hccccccCCCccee
Confidence 46778888884 8999999999999999887632 34567899999999999999999 99999999999999
Q ss_pred hhcChh-HHHHHhHHHHHHHHHHHHcccCCCCH-HHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCC---CCHHHHHHHH
Q 038404 95 KVFGED-TAILAGDALLSLAFEHVAAKSTEISP-DRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKD---VSLNELENIH 169 (287)
Q Consensus 95 ~~~G~~-~Ail~gd~L~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~---~~~~~~~~i~ 169 (287)
++.|++ .|||-+-.|-+....+|.+..++.+. ...++++.++. ..++.||.++....+.. +|++.|..|+
T Consensus 115 ~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~-----f~T~lGdllt~~~~~~~ls~fsl~~y~~Iv 189 (347)
T KOG0711|consen 115 QKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVT-----FQTELGDLLTTPEGNKDLSKFSLEKYVFIV 189 (347)
T ss_pred ecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHH-----HHHhhhccccCcccchhHhhhhHHHHHHHh
Confidence 999995 68988866666666676654444332 34555665554 56788987776554432 8899999999
Q ss_pred hcchHHH-HHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHH
Q 038404 170 LHKTAKL-LEAAVVCGVIIGG-GNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIE 247 (287)
Q Consensus 170 ~~KTg~l-~~~~~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~ 247 (287)
.+|||.+ |.+|..+|.+++| .+.+.......+...+|..||++||++|++||++.+||. |+||.++||||.++.+++
T Consensus 190 ~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgki-GtDIqDnKCsWlv~~al~ 268 (347)
T KOG0711|consen 190 EYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGKI-GTDIQDNKCSWLVVKALQ 268 (347)
T ss_pred hccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCCC-CCccccCceeeehHHHHh
Confidence 9999998 9999999999998 567777889999999999999999999999999999997 999999999999998877
Q ss_pred HHH
Q 038404 248 NAR 250 (287)
Q Consensus 248 ~a~ 250 (287)
+|.
T Consensus 269 ~~~ 271 (347)
T KOG0711|consen 269 RAS 271 (347)
T ss_pred hcC
Confidence 663
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=99.90 E-value=1.7e-21 Score=168.85 Aligned_cols=200 Identities=35% Similarity=0.479 Sum_probs=163.5
Q ss_pred HHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhh---cChhHHHHHhHHHHHHHHHH
Q 038404 40 RPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKV---FGEDTAILAGDALLSLAFEH 116 (287)
Q Consensus 40 Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~---~G~~~Ail~gd~L~~~a~~~ 116 (287)
||..++..++. ...+.+++.+|+++++|||| +|++..||++|++|.. +|...+++.|+.++..+++.
T Consensus 2 ~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~DDi--~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 (243)
T cd00385 2 RPLAVLLEPEA--------SRLRAAVEKLHAASLVHDDI--VDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEE 71 (243)
T ss_pred cHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhc--ccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHH
Confidence 45555554443 57899999999999999999 9999999999999998 99999999999999999999
Q ss_pred HHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC-CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHH
Q 038404 117 VAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEV 195 (287)
Q Consensus 117 l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~-~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~ 195 (287)
+..... ......+.+.+ ..++.||..|+.+... .++.++|..+.+.|||.++...+..++...+.+....
T Consensus 72 ~~~~~~-------~~~~~~~~~~~--~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~ 142 (243)
T cd00385 72 LAREGS-------PEALEILAEAL--LDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELL 142 (243)
T ss_pred HHhCCC-------HHHHHHHHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHH
Confidence 987422 12333444444 6789999999998753 3789999999999999999999999888877666677
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHh------------------HHHHHHHHHHHH
Q 038404 196 ERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMG------------------IENARKFACDLL 257 (287)
Q Consensus 196 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~------------------l~~a~~~~~~~~ 257 (287)
..+..++.++|.+||+.||+.|+..+.+.. +|++|+|.++. ++.+...+..+.
T Consensus 143 ~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~---------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~ 213 (243)
T cd00385 143 EALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLA 213 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCHHHh---------CCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHH
Confidence 889999999999999999999998765432 47899999873 456667777777
Q ss_pred HHHHHHhhcc
Q 038404 258 AQATEELAYF 267 (287)
Q Consensus 258 ~~A~~~L~~l 267 (287)
+++.+.+..+
T Consensus 214 ~~~~~~~~~~ 223 (243)
T cd00385 214 EEALKELNEL 223 (243)
T ss_pred HHHHHHHhcC
Confidence 8877777776
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=97.58 E-value=0.0021 Score=55.69 Aligned_cols=110 Identities=20% Similarity=0.223 Sum_probs=71.3
Q ss_pred CCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHH
Q 038404 53 GDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRA 132 (287)
Q Consensus 53 ~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~ 132 (287)
-.++.....+.++-++|.|...||.| |++..+++...-.+ ...||+|||.-+.-+.+|++.+. +.+
T Consensus 30 l~~~~~~~~~~a~~LVq~aLDtHd~V---~~~~~~~~~~~k~R----QLtVLAGDy~S~~yY~lLA~~~~-------i~l 95 (212)
T PF07307_consen 30 LSEEEAERYALATMLVQIALDTHDEV---DNAGDESEESSKER----QLTVLAGDYYSGLYYQLLAESGD-------ISL 95 (212)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhhhhh---ccccccccHHHHhh----hhhhhhHHHHHHHHHHHHHhCCC-------HHH
Confidence 35677788999999999999999998 66444333332222 46899999999999999998632 345
Q ss_pred HHHHHHHhhhhhhhhhhhhhhhhcCCCCCHHH-HHHHHhcchHHHHHHH
Q 038404 133 IAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE-LENIHLHKTAKLLEAA 180 (287)
Q Consensus 133 ~~~~~~~~g~~~~~~GQ~~d~~~~~~~~~~~~-~~~i~~~KTg~l~~~~ 180 (287)
+..++.++ ..+.+....= .... ..+.++ +..+..-+|+-+..++
T Consensus 96 i~~ls~aI--~eiNE~K~~l-y~~~-~~~~e~~~~~~~~ies~l~~~~~ 140 (212)
T PF07307_consen 96 IRALSEAI--KEINELKMSL-YQKK-KETAEEYLESVVTIESALFQSFA 140 (212)
T ss_pred HHHHHHHH--HHHHHHHHHH-HHhh-hCCHHHHHHHHHHHHHHHHHHHH
Confidence 56666666 5566555332 2221 235444 4444445555554443
No 17
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=97.12 E-value=0.048 Score=48.87 Aligned_cols=111 Identities=23% Similarity=0.239 Sum_probs=74.5
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccch
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSS 222 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~ 222 (287)
..++.|...|+.... ..|.++++..+..-.|+...+++.+ ++.... +....++.++|.|+|+.|=+.|+
T Consensus 96 ~~li~g~~~Dl~~~~-~~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv---- 164 (265)
T cd00683 96 RDLLAGMAMDLDKRR-YETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDV---- 164 (265)
T ss_pred HHHHHHHHHhCCCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHH----
Confidence 457788888887542 2577777776666556665555443 332111 24568899999999999988887
Q ss_pred hhhCCccchhhhcCCCcHHHH----------------------HhHHHHHHHHHHHHHHHHHHhhccCccc
Q 038404 223 KELGKTAGKDLVSDKATYPKL----------------------MGIENARKFACDLLAQATEELAYFEVAR 271 (287)
Q Consensus 223 ~~~GK~~~~Dl~~gk~T~p~~----------------------~~l~~a~~~~~~~~~~A~~~L~~l~~~~ 271 (287)
+.|+..|++.+|.= -.++.--..++.+...|...+..+|...
T Consensus 165 -------~eD~~~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~ 228 (265)
T cd00683 165 -------GEDARRGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRS 228 (265)
T ss_pred -------HHHHccCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence 44555666666532 2345556668888889998888887544
No 18
>PLN02632 phytoene synthase
Probab=97.07 E-value=0.053 Score=50.49 Aligned_cols=115 Identities=20% Similarity=0.165 Sum_probs=76.0
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGN--MIEVERVRKYARCIGLLFQVVDDILDVTK 220 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~--~~~~~~l~~~g~~lG~afQi~DD~ld~~~ 220 (287)
..++.|...|+.... ..|.++++.-++.-.|++-.+++.+ ++..+ ....+.+...+.++|+|+|+.|=+.|+
T Consensus 143 ~~li~g~~~Dl~~~~-~~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv-- 216 (334)
T PLN02632 143 RDMIEGMRMDLVKSR-YENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILRDV-- 216 (334)
T ss_pred HHHHHHHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHHHH--
Confidence 356788888886542 2577877776655556666655544 23222 122245678899999999999988887
Q ss_pred chhhhCCccchhhhcCCCcHHHHH----------------------hHHHHHHHHHHHHHHHHHHhhccCcccH
Q 038404 221 SSKELGKTAGKDLVSDKATYPKLM----------------------GIENARKFACDLLAQATEELAYFEVARA 272 (287)
Q Consensus 221 ~~~~~GK~~~~Dl~~gk~T~p~~~----------------------~l~~a~~~~~~~~~~A~~~L~~l~~~~~ 272 (287)
+.|+..|++-+|.=. .+..--..++.++++|...+..+|...+
T Consensus 217 ---------~eD~~~GRvYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r 281 (334)
T PLN02632 217 ---------GEDARRGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASR 281 (334)
T ss_pred ---------HHHHhCCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhH
Confidence 456666676666421 2333346688888999999988876543
No 19
>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=96.85 E-value=0.2 Score=45.00 Aligned_cols=109 Identities=18% Similarity=0.169 Sum_probs=73.5
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccch
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSS 222 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~ 222 (287)
..+++|+..|+.... ..|.++++.-++.-.|++..+++.+ ++..++ .....+.++|.|+|+.|=+.|+
T Consensus 88 ~~li~g~~~Dl~~~~-~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv---- 155 (266)
T TIGR03465 88 LEVIDGMEMDLEQTR-YPDFAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV---- 155 (266)
T ss_pred HHHHHHHHHHcCCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh----
Confidence 457788888886542 2678887776665556666665554 333232 3468899999999999888887
Q ss_pred hhhCCccchhhhcCCCcHHHHH----------------------hHHHHHHHHHHHHHHHHHHhhccCcc
Q 038404 223 KELGKTAGKDLVSDKATYPKLM----------------------GIENARKFACDLLAQATEELAYFEVA 270 (287)
Q Consensus 223 ~~~GK~~~~Dl~~gk~T~p~~~----------------------~l~~a~~~~~~~~~~A~~~L~~l~~~ 270 (287)
+.|+..|++.+|.=. .+..--..++.++++|.+.+..+|..
T Consensus 156 -------~eD~~~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~ 218 (266)
T TIGR03465 156 -------GEDARRGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRR 218 (266)
T ss_pred -------HHHHhCCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHh
Confidence 456666777776421 23344455777888888888888653
No 20
>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=96.66 E-value=0.4 Score=43.06 Aligned_cols=111 Identities=14% Similarity=0.026 Sum_probs=72.7
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccch
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSS 222 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~ 222 (287)
..++.|...|+.... ..|.++++.-+++-.|++..+++.+ ++..+++ ...++.++|.|+|+.|=+.|+
T Consensus 89 ~~li~~~~~Dl~~~~-~~t~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl---- 156 (266)
T TIGR03464 89 LDLLDAFRQDVVVTR-YATWAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDV---- 156 (266)
T ss_pred HHHHHHHHHhccCCC-CCCHHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhh----
Confidence 346778888886543 2578887776655556666665443 3333332 346889999999999888786
Q ss_pred hhhCCccchhhhcCCCcHHHH----------------------HhHHHHHHHHHHHHHHHHHHhhccCcccH
Q 038404 223 KELGKTAGKDLVSDKATYPKL----------------------MGIENARKFACDLLAQATEELAYFEVARA 272 (287)
Q Consensus 223 ~~~GK~~~~Dl~~gk~T~p~~----------------------~~l~~a~~~~~~~~~~A~~~L~~l~~~~~ 272 (287)
++|+..|++.+|.= -.++.--..++.+..+|...+..+|....
T Consensus 157 -------~eD~~~gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~ 221 (266)
T TIGR03464 157 -------GVDYRKGRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRLG 221 (266)
T ss_pred -------HHHHhcCCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhh
Confidence 45555666666532 13444455678888888888888875443
No 21
>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=96.64 E-value=0.21 Score=46.57 Aligned_cols=115 Identities=13% Similarity=0.066 Sum_probs=69.3
Q ss_pred hhhhhhhhhhhhhcCC-CCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccc
Q 038404 143 EGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKS 221 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~-~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~ 221 (287)
..|..|...|+..... ..|.+++..-+.+=-|..=.+.+.+-+..+-.++. .....+++..+|+|+|+.|=+.|+
T Consensus 111 ~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~~~-~~~~~~~A~~lG~aLQlTNIlRDv--- 186 (336)
T TIGR01559 111 RRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFEDPS-LGESEALSNSMGLFLQKTNIIRDY--- 186 (336)
T ss_pred HHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCCcc-hhhhHHHHHHHHHHHHHHHHHHHH---
Confidence 3466788777764431 15677766554333333333333433222112222 223468899999999999988887
Q ss_pred hhhhCCccchhhhcCCCcHHHH----------------------HhHHHHHHHHHHHHHHHHHHhhccCc
Q 038404 222 SKELGKTAGKDLVSDKATYPKL----------------------MGIENARKFACDLLAQATEELAYFEV 269 (287)
Q Consensus 222 ~~~~GK~~~~Dl~~gk~T~p~~----------------------~~l~~a~~~~~~~~~~A~~~L~~l~~ 269 (287)
++|+.+|++=||.= ..++.--..+..+.+.|...+..++.
T Consensus 187 --------~ED~~~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~al~yl~~l~~ 248 (336)
T TIGR01559 187 --------LEDINEGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTYLSRLRD 248 (336)
T ss_pred --------HhHHhCCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 45666677777643 23444455677788888888888844
No 22
>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=96.07 E-value=0.43 Score=42.57 Aligned_cols=109 Identities=19% Similarity=0.120 Sum_probs=71.2
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccch
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSS 222 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~ 222 (287)
..++.|...|+.... ..|.+++..-+.+-+|++..+.+.+...- .+. ......+.++|.|+|+.|=+.|+
T Consensus 94 ~~li~~~~~dl~~~~-~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~---- 163 (267)
T PF00494_consen 94 LELIDGMEMDLEFTP-YETFADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI---- 163 (267)
T ss_dssp HHHHHHHHHCTT-S---SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH----
T ss_pred HHHHHHhcccccCCC-CCCHHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh----
Confidence 457788888887543 25888888877777888877765554321 122 35788899999999999888887
Q ss_pred hhhCCccchh-hhcCCCcHHHHH-----------------------hHHHHHHHHHHHHHHHHHHhhccC
Q 038404 223 KELGKTAGKD-LVSDKATYPKLM-----------------------GIENARKFACDLLAQATEELAYFE 268 (287)
Q Consensus 223 ~~~GK~~~~D-l~~gk~T~p~~~-----------------------~l~~a~~~~~~~~~~A~~~L~~l~ 268 (287)
+.| +..|++-+|.=. .+..--..++.+..+|.+.+..+|
T Consensus 164 -------~~D~~~~gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~ 226 (267)
T PF00494_consen 164 -------PEDALRRGRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALP 226 (267)
T ss_dssp -------HHH-HHTT---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS-
T ss_pred -------HHHHHhcccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 455 556666665421 233444567788888888888883
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=92.22 E-value=8.6 Score=34.75 Aligned_cols=109 Identities=15% Similarity=0.100 Sum_probs=62.0
Q ss_pred hhhhhhhhhhhhhcCCC--CCHHHHHHHHhcchHH-HHHHHHHHHHHhcC--CCHHHHH--HHHHHHHHHHHHHHHHHhh
Q 038404 143 EGLVAGEIMDIDSEGKD--VSLNELENIHLHKTAK-LLEAAVVCGVIIGG--GNMIEVE--RVRKYARCIGLLFQVVDDI 215 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~--~~~~~~~~i~~~KTg~-l~~~~~~~ga~la~--~~~~~~~--~l~~~g~~lG~afQi~DD~ 215 (287)
...+.|+..+..+.... ++.++|..+ +..|+. .+.++ ++-...| .+++... .+..+-...+...-+.||+
T Consensus 139 ~~~~~a~~~e~~~~~~~~~psl~eYl~~-R~~~~g~~~~~~--l~~~~~g~~lp~~~~~~~~~~~l~~~~~~~~~l~NDl 215 (303)
T cd00687 139 EDYFDAYIWEGKNRLNGHVPDVAEYLEM-RRFNIGADPCLG--LSEFIGGPEVPAAVRLDPVMRALEALASDAIALVNDI 215 (303)
T ss_pred HHHHHHHHHHHHHHhcCCCcCHHHHHHH-hhhcccccccHH--HHHHhcCCCCCHHHHhChHHHHHHHHHHHHHHHHHHH
Confidence 34566776666554322 789999887 455543 33222 1222222 2344332 4778888889999999999
Q ss_pred hccccchhhhCCccchhhhcCC-CcHHHHH------hHHHHHHHHHHHHHHHHHHh
Q 038404 216 LDVTKSSKELGKTAGKDLVSDK-ATYPKLM------GIENARKFACDLLAQATEEL 264 (287)
Q Consensus 216 ld~~~~~~~~GK~~~~Dl~~gk-~T~p~~~------~l~~a~~~~~~~~~~A~~~L 264 (287)
..|..+.. ..|. .++..++ ..+.|.+.+.++.+++.+.+
T Consensus 216 ~S~~KE~~----------~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f 261 (303)
T cd00687 216 YSYEKEIK----------ANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQF 261 (303)
T ss_pred HhhHHHHH----------hCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH
Confidence 88854321 2233 4555544 35566666666555555444
No 24
>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=90.36 E-value=1.2 Score=39.43 Aligned_cols=109 Identities=12% Similarity=0.156 Sum_probs=55.7
Q ss_pred hhhhhhhhhhhhhcCC--CCCHHHHHHHHhcchHHH-HHHHHHHHHHhcCC-CH---HHHHHHHHHHHHHHHHHHHHHhh
Q 038404 143 EGLVAGEIMDIDSEGK--DVSLNELENIHLHKTAKL-LEAAVVCGVIIGGG-NM---IEVERVRKYARCIGLLFQVVDDI 215 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~--~~~~~~~~~i~~~KTg~l-~~~~~~~ga~la~~-~~---~~~~~l~~~g~~lG~afQi~DD~ 215 (287)
...+.|...+..+... .++.++|..+. ..|+.. +.+++.. ..++.. +. +....-..+-...+..--+.||+
T Consensus 147 ~~~~~~~~~e~~~~~~~~~ps~eeYl~~R-~~t~g~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl 224 (270)
T PF03936_consen 147 REYLNAYLWEARWRERGRIPSLEEYLEMR-RHTSGVYPCLALIE-FALEFALGELPPEVLEHPPMLRRLAADIIRLVNDL 224 (270)
T ss_dssp HHHHHHHHHHHHHHHTTS--SHHHHHHHH-HHHTSHHHHHHHHH-HHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccCCCCCHHHHHHhc-cccccccHHHHHHH-HhCCCccccccHHHHHhchHHHHHHHHHHHHhccc
Confidence 3455555555554432 37899998875 444443 3332221 111211 11 11222112566666666777999
Q ss_pred hccccchhhhCCccchhhhcCCC-cHHHHH------hHHHHHHHHHHHHHHHHHHh
Q 038404 216 LDVTKSSKELGKTAGKDLVSDKA-TYPKLM------GIENARKFACDLLAQATEEL 264 (287)
Q Consensus 216 ld~~~~~~~~GK~~~~Dl~~gk~-T~p~~~------~l~~a~~~~~~~~~~A~~~L 264 (287)
..|..+ +.+|.. ++..++ .++.|...+.+.++++.+.+
T Consensus 225 ~S~~KE-----------~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~ef 269 (270)
T PF03936_consen 225 YSYKKE-----------IARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREF 269 (270)
T ss_dssp HHHHHH-----------HHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhcc-----------hhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhc
Confidence 888432 333333 333332 56777777777777776655
No 25
>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=87.47 E-value=20 Score=31.73 Aligned_cols=112 Identities=14% Similarity=0.037 Sum_probs=66.5
Q ss_pred hhhhhhhhhhhhhcCC--CCCHHHHHHHHhcchHHH-HHHHHHHHHHhc-CCCH---HHHHHHHHHHHHHHHHHHHHHhh
Q 038404 143 EGLVAGEIMDIDSEGK--DVSLNELENIHLHKTAKL-LEAAVVCGVIIG-GGNM---IEVERVRKYARCIGLLFQVVDDI 215 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~--~~~~~~~~~i~~~KTg~l-~~~~~~~ga~la-~~~~---~~~~~l~~~g~~lG~afQi~DD~ 215 (287)
...+.|...+..+... .++.++|..+ +..|+.. +.+++.. ...+ ..++ .....+..+....+..--+.||+
T Consensus 132 ~~~~~~~~~e~~~~~~~~~p~~~eYl~~-R~~~~g~~~~~~l~~-~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl 209 (284)
T cd00868 132 KDLLRAYLVEAKWANEGYVPSFEEYLEN-RRVSIGYPPLLALSF-LGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDI 209 (284)
T ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHh-ceehhhHHHHHHHHH-HHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccc
Confidence 4456666666655432 3788998887 4566544 3222111 1111 1233 33456778888888888899999
Q ss_pred hccccchhhhCCccchhhhcCC-CcHHHHH------hHHHHHHHHHHHHHHHHHHhhcc
Q 038404 216 LDVTKSSKELGKTAGKDLVSDK-ATYPKLM------GIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 216 ld~~~~~~~~GK~~~~Dl~~gk-~T~p~~~------~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
..|.-+. ..|. .+++.++ .++.|.+.+.+..+++.+.+..+
T Consensus 210 ~S~~kE~-----------~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~ 257 (284)
T cd00868 210 ASYEKEI-----------ARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEE 257 (284)
T ss_pred hHHHHHH-----------ccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 8885332 1232 3666555 46677777777777777666543
No 26
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=86.65 E-value=6.7 Score=36.32 Aligned_cols=71 Identities=15% Similarity=0.068 Sum_probs=45.8
Q ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHh
Q 038404 185 VIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEEL 264 (287)
Q Consensus 185 a~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L 264 (287)
+.+.|.+.+....+..--+.+=.+..|.||+.| .++++.|++|+-..++-..|--.-.-+...|.+.+
T Consensus 56 ~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D------------~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l 123 (323)
T PRK10888 56 ARAVGYQGNAHVTIAALIEFIHTATLLHDDVVD------------ESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMM 123 (323)
T ss_pred HHHcCCChHHHHHHHHHHHHHHHHHHHHccccc------------CCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHH
Confidence 333444444444556666777788999999987 56788889888877765555444444555555555
Q ss_pred hcc
Q 038404 265 AYF 267 (287)
Q Consensus 265 ~~l 267 (287)
..+
T Consensus 124 ~~~ 126 (323)
T PRK10888 124 TSL 126 (323)
T ss_pred HhC
Confidence 443
No 27
>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=86.29 E-value=8.5 Score=34.21 Aligned_cols=63 Identities=30% Similarity=0.231 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhcc
Q 038404 193 IEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 193 ~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
+....+...-+-+=.++-|.||+.| .++.+.|++|+-..++...|--...-+...|.+.+..+
T Consensus 39 ~~~~~la~aiEllh~asLIhDDI~D------------~s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~ 101 (259)
T cd00685 39 EAALRLAAAIELLHTASLVHDDVMD------------NSDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARL 101 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcc------------CCcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhC
Confidence 4445666677778889999999977 44677888888888877766666666677777777665
No 28
>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=85.87 E-value=9.2 Score=35.30 Aligned_cols=70 Identities=21% Similarity=0.193 Sum_probs=49.1
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhh
Q 038404 186 IIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELA 265 (287)
Q Consensus 186 ~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~ 265 (287)
.+.+.+.+....+...-+-+=.|.-|.||+.| .++++.|++|....+|-..|--.-.-+...|.+.+.
T Consensus 56 ~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D------------~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~ 123 (319)
T TIGR02748 56 KFGDYDLDAIKHVAVALELIHMASLVHDDVID------------DADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMT 123 (319)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHhccccC------------CCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHH
Confidence 34454555444556666777788899999987 457888899988888777666666666666666665
Q ss_pred cc
Q 038404 266 YF 267 (287)
Q Consensus 266 ~l 267 (287)
.+
T Consensus 124 ~~ 125 (319)
T TIGR02748 124 EI 125 (319)
T ss_pred hC
Confidence 55
No 29
>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=84.13 E-value=10 Score=33.78 Aligned_cols=73 Identities=29% Similarity=0.168 Sum_probs=57.0
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHH
Q 038404 184 GVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEE 263 (287)
Q Consensus 184 ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~ 263 (287)
.+.+.+.+.+....+...-..+=.++-|.||+.| .+++|.|++|.-..++...|--...-++..|.+.
T Consensus 24 ~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D------------~s~~RRG~pt~~~~~G~~~Ail~gd~ll~~a~~~ 91 (260)
T PF00348_consen 24 AAEALGGDPEKAIPLAAAVELIHAASLIHDDIID------------NSDLRRGKPTVHKKFGNAIAILAGDYLLALAFEL 91 (260)
T ss_dssp HHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHT------------TCSEETTEECHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhc------------ccccCCCCccccccccccchhhhchHHHHHHHHH
Confidence 3444455666666777888888899999999977 5578899999988888888877777778888877
Q ss_pred hhccC
Q 038404 264 LAYFE 268 (287)
Q Consensus 264 L~~l~ 268 (287)
+..++
T Consensus 92 l~~~~ 96 (260)
T PF00348_consen 92 LARLG 96 (260)
T ss_dssp HHHHC
T ss_pred HHHhh
Confidence 77665
No 30
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=84.06 E-value=33 Score=31.25 Aligned_cols=111 Identities=25% Similarity=0.273 Sum_probs=69.3
Q ss_pred hhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccch
Q 038404 143 EGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSS 222 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~ 222 (287)
..++.|+..|+..... .+.++++.-+.+=.|..-.+ +..+++-.+ ..........+|.|+|+.|=+.|+
T Consensus 106 ~~~~da~~~Dl~~~~y-~~~~eL~~Yc~~vAg~vG~l---~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRdv---- 174 (288)
T COG1562 106 PALIDAMRMDLDRTRY-LDFEELEEYCYGVAGAVGLL---LARILGPDK---DAATRAYARGLGLALQLVNILRDV---- 174 (288)
T ss_pred HHHHHHHHHHhhhccc-cCHHHHHHHHHHhHHHHHHH---HHHHhCccc---chhhHHHHHHHHHHHHHHHHHHHh----
Confidence 3567788888876542 34566554443332333333 233444322 233455555699999999988887
Q ss_pred hhhCCccchhhhcCCCcHHHHH----------------------hHHHHHHHHHHHHHHHHHHhhccCccc
Q 038404 223 KELGKTAGKDLVSDKATYPKLM----------------------GIENARKFACDLLAQATEELAYFEVAR 271 (287)
Q Consensus 223 ~~~GK~~~~Dl~~gk~T~p~~~----------------------~l~~a~~~~~~~~~~A~~~L~~l~~~~ 271 (287)
+.|...|+.-+|.=. .++.--..++++...|...+..+|...
T Consensus 175 -------~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~~~ 238 (288)
T COG1562 175 -------GEDRRRGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGRA 238 (288)
T ss_pred -------HHHHhCCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCccc
Confidence 667778888777321 334444568888889999999886543
No 31
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=82.93 E-value=35 Score=30.58 Aligned_cols=162 Identities=20% Similarity=0.126 Sum_probs=82.5
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCCCCCCC---CcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHH
Q 038404 59 MPVACALEMIHTMSLVHDDLPCMDNDDF---RRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAE 135 (287)
Q Consensus 59 ~~~A~avEliH~asLihDDI~~~D~s~~---RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~ 135 (287)
.-...++=++|.+.-+.+|+ .|.+.- |..+|-...+...+.|...+-.+...++-...-+ ++.. -.+.-
T Consensus 40 ~l~~l~~~l~~~a~~~~Nd~--~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l----~~~~--~~~~~ 111 (279)
T PRK12884 40 LLGFLTAFFASGSANALNDY--FDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI----SPLA--FLVVI 111 (279)
T ss_pred HHHHHHHHHHHHHHHHHHhh--hhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH----hHHH--HHHHH
Confidence 44456677999999999999 554432 5556666555556667666655555444332221 1111 11111
Q ss_pred HHHHhhhhhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 038404 136 LGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDI 215 (287)
Q Consensus 136 ~~~~~g~~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ 215 (287)
++ ...+=..-...+. .+. +..+. .|..+..+...|....+......=.+.-+.--....+++.+|+
T Consensus 112 ~~-------~~~~~~Ys~~lK~--~~~--~~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 177 (279)
T PRK12884 112 LV-------SVLGILYNWKLKE--YGL--IGNLY---VAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDI 177 (279)
T ss_pred HH-------HHHHHHHHHhhcc--ccc--hhHHH---HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHh
Confidence 11 1111111111111 111 01111 1333444555555443332221212333444555667888888
Q ss_pred hccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHH
Q 038404 216 LDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFA 253 (287)
Q Consensus 216 ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~ 253 (287)
.|.. +|-+.|+.|+|+.++.+.+....
T Consensus 178 ~D~e-----------~D~~~G~~Tl~v~~G~~~~~~~~ 204 (279)
T PRK12884 178 EDVE-----------GDRLRGARTLAILYGEKIAGRIA 204 (279)
T ss_pred hhhh-----------hHHHcCCeeechHhcHHHHHHHH
Confidence 8874 46678999999999887776543
No 32
>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=77.68 E-value=22 Score=32.90 Aligned_cols=60 Identities=28% Similarity=0.205 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhcc
Q 038404 196 ERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 196 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
..+...-..+=.|.-|.||++| .+++|.|++|+-..+|...|--.-.-+...|...+..+
T Consensus 70 ~~~A~avEliH~asLiHDDiiD------------~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~ 129 (322)
T TIGR02749 70 RRLAEITEMIHTASLVHDDVID------------ESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANL 129 (322)
T ss_pred HHHHHHHHHHHHHHHHHccccc------------CccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhc
Confidence 3455566677778899999987 56788999999888877666666566666666666554
No 33
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=77.30 E-value=9.9 Score=34.18 Aligned_cols=41 Identities=29% Similarity=0.318 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038404 204 CIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACD 255 (287)
Q Consensus 204 ~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~ 255 (287)
-+-...++.+|+.|..+ |-+.|+.|+|+.+|.++++....-
T Consensus 172 l~~~~~~~~~d~~D~e~-----------D~~~G~~Tlpv~lG~~~t~~~~~~ 212 (285)
T PRK12872 172 LKSFIREIVFDIKDIEG-----------DRKSGLKTLPIVLGKERTLKFLLI 212 (285)
T ss_pred HHHHHHHHHHhcccchh-----------HHHcCCcccchhcchHHHHHHHHH
Confidence 34567889999999865 556799999999999888776443
No 34
>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=75.62 E-value=62 Score=29.20 Aligned_cols=59 Identities=19% Similarity=0.106 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCC--CC-cCccchhhhcChhHHHHHhHHHHHHHHHHHH
Q 038404 60 PVACALEMIHTMSLVHDDLPCMDNDD--FR-RGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118 (287)
Q Consensus 60 ~~A~avEliH~asLihDDI~~~D~s~--~R-Rg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~ 118 (287)
-...++=++|.+.-+..|+-|.|-|. .| +.+|-...+-..+.|...+-.+...++-...
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 34455668899999999984333342 33 4688888888888888877766666654433
No 35
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=74.48 E-value=21 Score=32.49 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHH
Q 038404 205 IGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLL 257 (287)
Q Consensus 205 lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~ 257 (287)
...++.+.+++.|+.+ |-++||.|+|+.+|.+.+...+.-..
T Consensus 172 ~~~a~~ii~~irDie~-----------Dr~~G~~Tlpv~lG~~~a~~~~~~l~ 213 (282)
T PRK13105 172 WGMASHAFGAVQDVVA-----------DREAGIASIATVLGARRTVRLAVGLY 213 (282)
T ss_pred HHHHHHHHHhCcchHh-----------HHHcCCccchHHhcHHHHHHHHHHHH
Confidence 3668999999999865 45679999999999988877655443
No 36
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=72.91 E-value=9.2 Score=35.39 Aligned_cols=60 Identities=27% Similarity=0.199 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhccC
Q 038404 197 RVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYFE 268 (287)
Q Consensus 197 ~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l~ 268 (287)
.+...-+-+=.+.=|.||++| .+|+|.|++|....++-..|--.-.-+...|.+.+...+
T Consensus 70 ~~aaavEliH~~SLiHDDvmD------------~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~ 129 (322)
T COG0142 70 DLAAAIELIHTASLIHDDLMD------------DDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLG 129 (322)
T ss_pred HHHHHHHHHHHHHHHHhhccc------------CCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCC
Confidence 344445556667778999976 568999999999999877777777777777777777764
No 37
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=72.23 E-value=5.4 Score=29.36 Aligned_cols=23 Identities=22% Similarity=0.417 Sum_probs=19.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 038404 191 NMIEVERVRKYARCIGLLFQVVD 213 (287)
Q Consensus 191 ~~~~~~~l~~~g~~lG~afQi~D 213 (287)
.+...+.+-+||..+|-.||+.=
T Consensus 14 Eet~~e~llRYGLf~GAIFQliC 36 (85)
T PF06783_consen 14 EETFFENLLRYGLFVGAIFQLIC 36 (85)
T ss_pred cchHHHHHHHHHHHHHHHHHHHH
Confidence 35567888999999999999973
No 38
>CHL00151 preA prenyl transferase; Reviewed
Probab=72.08 E-value=30 Score=31.98 Aligned_cols=58 Identities=26% Similarity=0.186 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhc
Q 038404 197 RVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAY 266 (287)
Q Consensus 197 ~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~ 266 (287)
.+...-..+=.+.-|.||+.| .+++|.|++|+-..+|...|--.-.-+...|...+..
T Consensus 72 ~~A~aiEllH~asLiHDDi~D------------~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~ 129 (323)
T CHL00151 72 RLAEITEIIHTASLVHDDVID------------ECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLAN 129 (323)
T ss_pred HHHHHHHHHHHHHHHHccccc------------CccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHh
Confidence 345556667778889999977 5677888888887776555444444444444444443
No 39
>PRK10581 geranyltranstransferase; Provisional
Probab=71.84 E-value=66 Score=29.40 Aligned_cols=63 Identities=22% Similarity=0.201 Sum_probs=49.0
Q ss_pred hHhHHHHHHHHHHHHHHHHhCCCCCC------------CCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHccc
Q 038404 57 SAMPVACALEMIHTMSLVHDDLPCMD------------NDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKS 121 (287)
Q Consensus 57 ~~~~~A~avEliH~asLihDDI~~~D------------~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~ 121 (287)
....+...-+.+=.|.=|.||| +| ..+.+.|++|+-..+|...|-...+-+...|.+.+..+.
T Consensus 204 ~~~~l~~~g~~lG~aFQI~DDi--lD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~ 278 (299)
T PRK10581 204 ALPVLDRYAESIGLAFQVQDDI--LDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLA 278 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--ccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 3455666678888999999999 66 345788899988888888777777777888888888763
No 40
>PLN00012 chlorophyll synthetase; Provisional
Probab=70.02 E-value=13 Score=35.20 Aligned_cols=41 Identities=22% Similarity=0.348 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHH
Q 038404 203 RCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFAC 254 (287)
Q Consensus 203 ~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~ 254 (287)
--.++++-+.+|+.|+.+ |-+.|+.|+|+.++.+.++..+-
T Consensus 262 ~l~~lai~ivnd~~Die~-----------Dr~aG~~TLpV~~G~~~a~~l~~ 302 (375)
T PLN00012 262 SIAGLGIAIVNDFKSIEG-----------DRALGLQSLPVAFGVETAKWICV 302 (375)
T ss_pred HHHHHHHHHHhhhcchhh-----------HHHcCCcccceeechHHHHHHHH
Confidence 347888899999988854 66789999999999887776643
No 41
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=68.71 E-value=87 Score=27.99 Aligned_cols=59 Identities=12% Similarity=0.005 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCC-CCcCccchhhhcChhHHHHHhHHHHHHHHHHHH
Q 038404 60 PVACALEMIHTMSLVHDDLPCMDNDD-FRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118 (287)
Q Consensus 60 ~~A~avEliH~asLihDDI~~~D~s~-~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~ 118 (287)
-...+.=++|.++-+..|+-|.|-|. .|+.+|-.-.....+.|...+-.+...++-...
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 44555678899999999984333332 367788888777888888887777666654433
No 42
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=66.39 E-value=1.1e+02 Score=28.16 Aligned_cols=51 Identities=14% Similarity=0.056 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCCCC---cCccchhhhcChhHHHHHhHHHHHHHHH
Q 038404 63 CALEMIHTMSLVHDDLPCMDNDDFR---RGKPTNHKVFGEDTAILAGDALLSLAFE 115 (287)
Q Consensus 63 ~avEliH~asLihDDI~~~D~s~~R---Rg~pt~h~~~G~~~Ail~gd~L~~~a~~ 115 (287)
.+.=++|.++-+..|+ .|.+.-| +.+|....+...+.+...+-.++..++-
T Consensus 72 l~~~l~~~~~~~~Nd~--~D~~~D~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~ 125 (314)
T PRK07566 72 LAGPLLCGTSQTLNDY--FDREVDAINEPYRPIPSGAISLRWVLYLIAVLTVLGLA 125 (314)
T ss_pred HHHHHHHHHHHHHhhh--hccCccccCCCCCCCCCceeCHHHHHHHHHHHHHHHHH
Confidence 3355689999999999 6654433 5677777777778887777666665553
No 43
>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=65.90 E-value=86 Score=26.89 Aligned_cols=38 Identities=24% Similarity=0.176 Sum_probs=25.6
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 038404 181 VVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDV 218 (287)
Q Consensus 181 ~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~ 218 (287)
+.+.+.+.|.+.+..-.+..--.-+=.+.-+.||+.|=
T Consensus 6 ~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~ 43 (236)
T cd00867 6 VLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDD 43 (236)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccC
Confidence 33334444555555556777777778888999999883
No 44
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=59.94 E-value=1.9e+02 Score=28.80 Aligned_cols=111 Identities=16% Similarity=0.115 Sum_probs=69.2
Q ss_pred hhhhhhhhhhhhhcCCC--CCHHHHHHHHhcchHHH-H-HHHHHHHHHhcC-CCHHHHHHH---HHHHHHHHHHHHHHHh
Q 038404 143 EGLVAGEIMDIDSEGKD--VSLNELENIHLHKTAKL-L-EAAVVCGVIIGG-GNMIEVERV---RKYARCIGLLFQVVDD 214 (287)
Q Consensus 143 ~~~~~GQ~~d~~~~~~~--~~~~~~~~i~~~KTg~l-~-~~~~~~ga~la~-~~~~~~~~l---~~~g~~lG~afQi~DD 214 (287)
..++.+-..+..|.... ++.++|.... .-|+.. . ...+..| ++. .+++..+.+ .++....+....+.||
T Consensus 366 ~~~~~a~l~EA~w~~~g~vPt~eEYl~~~-~~S~g~~~~~~~~~~~--~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~ND 442 (542)
T cd00684 366 KDLVKAYLVEAKWAHEGYVPTFEEYMENA-LVSIGLGPLLLTSFLG--MGDILTEEAFEWLESRPKLVRASSTIGRLMND 442 (542)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHhhh-hHHhhHHHHHHHHHHh--cCCCCCHHHHHHHhccHHHHHHHHHHHHHhcC
Confidence 44566666777666433 8889888774 445433 2 1112222 221 355554433 3677788888999999
Q ss_pred hhccccchhhhCCccchhhhcCC-CcHHHHH------hHHHHHHHHHHHHHHHHHHhhcc
Q 038404 215 ILDVTKSSKELGKTAGKDLVSDK-ATYPKLM------GIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 215 ~ld~~~~~~~~GK~~~~Dl~~gk-~T~p~~~------~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
+..+..+. ..|. ++...++ ..+.|.+.+.+.++.+.+.+.+.
T Consensus 443 i~S~~kE~-----------~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e 491 (542)
T cd00684 443 IATYEDEM-----------KRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEE 491 (542)
T ss_pred hhhhHHHH-----------hcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 98875332 2333 4555555 46788888888899998888753
No 45
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=59.07 E-value=42 Score=30.50 Aligned_cols=60 Identities=15% Similarity=0.080 Sum_probs=48.3
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHH
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~ 118 (287)
..-++.++=+.-.+.++.-++||++.|. +.|+.|.-.++|.+.|....-.++..++-.+.
T Consensus 162 ~~l~~~~~~~~~~a~~ii~~irDie~Dr-~~G~~Tlpv~lG~~~a~~~~~~l~~~a~~~~~ 221 (282)
T PRK13105 162 LWAVLAAFFLWGMASHAFGAVQDVVADR-EAGIASIATVLGARRTVRLAVGLYAAAAVLML 221 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcchHhHH-HcCCccchHHhcHHHHHHHHHHHHHHHHHHHH
Confidence 3456667777788999999998888876 68999999999999999887777777665544
No 46
>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=59.05 E-value=40 Score=30.88 Aligned_cols=51 Identities=14% Similarity=0.051 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCCCC---CcCccchhhhcChhHHHHHhHHHHHHHH
Q 038404 62 ACALEMIHTMSLVHDDLPCMDNDDF---RRGKPTNHKVFGEDTAILAGDALLSLAF 114 (287)
Q Consensus 62 A~avEliH~asLihDDI~~~D~s~~---RRg~pt~h~~~G~~~Ail~gd~L~~~a~ 114 (287)
..+.=++|.++-++.|+ .|.+.- .|.+|........+.+...+-.++..++
T Consensus 60 ll~~~l~~~~~n~~NDy--~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~ 113 (306)
T TIGR02056 60 LLSGPCLTGYTQTINDF--YDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI 113 (306)
T ss_pred HHHHHHHHHHHHHHHhH--hhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 35567899999999999 665432 3456666666667777777655554443
No 47
>PLN02890 geranyl diphosphate synthase
Probab=52.82 E-value=82 Score=30.43 Aligned_cols=59 Identities=22% Similarity=0.196 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhcc
Q 038404 197 RVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 197 ~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
.+...-+.+=.|.-|.||++| .+|.+.|++|+-..++-..|--.-.-++..|...+..+
T Consensus 165 ~~AaavEliH~ASLVHDDIiD------------~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~ 223 (422)
T PLN02890 165 NIAEITEMIHVASLLHDDVLD------------DADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAAL 223 (422)
T ss_pred HHHHHHHHHHHHHHHHccccc------------CCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcC
Confidence 455666677788899999988 55788888888887776666555555555555555443
No 48
>PRK13595 ubiA prenyltransferase; Provisional
Probab=52.78 E-value=1.2e+02 Score=27.68 Aligned_cols=76 Identities=12% Similarity=0.049 Sum_probs=50.3
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHH
Q 038404 177 LEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDL 256 (287)
Q Consensus 177 ~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~ 256 (287)
+..+...|+...|...... .+ -...-.+++|++.-|+.|..+ |-+.|..|.|+.+|.+.+-..+.-.
T Consensus 155 ~g~p~~~~~~~~g~~~~~~-~l-~a~~~w~~g~dii~ai~Dieg-----------Dr~~Gi~Slpv~lG~r~a~~~a~~~ 221 (292)
T PRK13595 155 YALPLALPALALGAPVPWP-PL-LALMAWSVGKHAFDAAQDIPA-----------DRAAGTRTVATTLGVRGTALYALAW 221 (292)
T ss_pred HHHHHHHHHHHcCCcchHH-HH-HHHHHHHHHHHHHHhccChHh-----------HHHcCCeechHHhCcHhHHHHHHHH
Confidence 4556667766666432221 12 233455689999999999754 5567999999999998887776665
Q ss_pred HHHHHHHhh
Q 038404 257 LAQATEELA 265 (287)
Q Consensus 257 ~~~A~~~L~ 265 (287)
.--+-..+-
T Consensus 222 ~~~a~~~~~ 230 (292)
T PRK13595 222 FLLAGALLW 230 (292)
T ss_pred HHHHHHHHH
Confidence 444444443
No 49
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=52.72 E-value=1.7e+02 Score=26.14 Aligned_cols=59 Identities=12% Similarity=0.104 Sum_probs=41.9
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCCCCC-CcCccchhhhcChhHHHHHhHHHHHHHHHH
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDNDDF-RRGKPTNHKVFGEDTAILAGDALLSLAFEH 116 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~s~~-RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~ 116 (287)
..-...++=++|.+.-+..|+-|.|.|.. ++.+|-+..+-..+.|.+.+-.++..++-.
T Consensus 39 ~~l~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l 98 (279)
T PRK09573 39 IILAALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLIL 98 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHHH
Confidence 34445567799999999999944434332 367888887788888888887777666643
No 50
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=50.53 E-value=2.1e+02 Score=26.38 Aligned_cols=59 Identities=10% Similarity=0.008 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCC-CCCc--CccchhhhcChhHHHHHhHHHHHHHHHHHH
Q 038404 60 PVACALEMIHTMSLVHDDLPCMDND-DFRR--GKPTNHKVFGEDTAILAGDALLSLAFEHVA 118 (287)
Q Consensus 60 ~~A~avEliH~asLihDDI~~~D~s-~~RR--g~pt~h~~~G~~~Ail~gd~L~~~a~~~l~ 118 (287)
-...+.=++|+++-+..|+-|.|-| ..+| .+|.....-..+.|+..+-.+...++-.+.
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 3445566899999999998433333 2343 588888888888887776666555554443
No 51
>PRK13591 ubiA prenyltransferase; Provisional
Probab=50.36 E-value=2.1e+02 Score=26.42 Aligned_cols=39 Identities=23% Similarity=0.351 Sum_probs=30.6
Q ss_pred HHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHH
Q 038404 207 LLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDL 256 (287)
Q Consensus 207 ~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~ 256 (287)
.+..+.+|+.|..+ |-++|+.|+|+.+|.+.|+....-.
T Consensus 193 ~~~~iindirDiEG-----------Dr~~G~kTLPV~lG~~~A~~l~~~l 231 (307)
T PRK13591 193 FINSCVYDFKDVKG-----------DTLAGIKTLPVSLGEQKTRNLLLGI 231 (307)
T ss_pred HHHHHHHHhhhhHh-----------HHHcCCeeEEEEECHHHHHHHHHHH
Confidence 34457899999855 5678999999999999988775544
No 52
>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=48.97 E-value=2e+02 Score=25.78 Aligned_cols=52 Identities=10% Similarity=-0.013 Sum_probs=33.1
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCCCC--C-CcCccchhhhcChhHHHHHhHHH
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDNDD--F-RRGKPTNHKVFGEDTAILAGDAL 109 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~s~--~-RRg~pt~h~~~G~~~Ail~gd~L 109 (287)
..-...+.=+++++.-+..|+-|.|-|. . .+.+|-.-..-..+.|...+-.+
T Consensus 38 ~~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~~Rt~~RPl~sG~is~~~a~~~~~~~ 92 (282)
T TIGR01475 38 LILILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLISKKEARTMIILS 92 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccCCCCCCCCCcCHHHHHHHHHHH
Confidence 3344556668899999999983332322 2 25677777677777777766443
No 53
>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=46.72 E-value=12 Score=33.80 Aligned_cols=39 Identities=18% Similarity=0.232 Sum_probs=30.2
Q ss_pred HHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038404 206 GLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACD 255 (287)
Q Consensus 206 G~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~ 255 (287)
..++.+.||+.|+.+ |.+.|+.|+|+.+|.+.++....-
T Consensus 174 ~~~i~~~nd~~D~~~-----------D~~~G~~Tl~v~lG~~~a~~l~~~ 212 (283)
T TIGR01476 174 AHGIMTLNDFKSVEG-----------DRQLGLRSLPVMIGVKRAAIVAVT 212 (283)
T ss_pred HHHHHHHHhccchhh-----------HHHcCCcCcceEEcHHHHHHHHHH
Confidence 344678999999854 667899999999998888776444
No 54
>PLN02857 octaprenyl-diphosphate synthase
Probab=46.64 E-value=1.2e+02 Score=29.24 Aligned_cols=49 Identities=22% Similarity=0.248 Sum_probs=31.8
Q ss_pred HHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCCC--C----------CCCCcCccchhhhc
Q 038404 47 SCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMD--N----------DDFRRGKPTNHKVF 97 (287)
Q Consensus 47 ~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~D--~----------s~~RRg~pt~h~~~ 97 (287)
++-+.|.+++....+..--+.+=.+.=|.||+ +| . ++.+.|++|+-..|
T Consensus 279 gallaga~~~~~~~l~~fG~~LGiAFQI~DDi--LD~~~~~~~~GK~~g~DL~eGK~TlPli~ 339 (416)
T PLN02857 279 AAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDI--LDFTQSTEQLGKPAGSDLAKGNLTAPVIF 339 (416)
T ss_pred HHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHH--HhhcCCHHHhCCCcchhhhcCCccHHHHH
Confidence 33444555555555666677888899999999 66 2 34566666665443
No 55
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=46.00 E-value=72 Score=28.95 Aligned_cols=46 Identities=17% Similarity=0.091 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHH
Q 038404 65 LEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLS 111 (287)
Q Consensus 65 vEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~ 111 (287)
.=++..+.++..++||+++|. |.|++|.-.++|.+.+....-.++.
T Consensus 174 ~~l~~~~~~~in~i~Die~D~-~aGi~Tlav~lG~~~a~~~~~~~~~ 219 (282)
T PRK12875 174 GWLWAMGMHTFSAIPDIEPDR-AAGIRTTATVLGERRTYAYCAACWL 219 (282)
T ss_pred HHHHHHHHHHHHhccCHHHHH-HcCCccchhhccHhhHHHHHHHHHH
Confidence 336667778889998777765 7999999999999988744434433
No 56
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=44.70 E-value=63 Score=29.68 Aligned_cols=44 Identities=18% Similarity=0.303 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038404 201 YARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACD 255 (287)
Q Consensus 201 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~ 255 (287)
+.--.-.++.+.+|+.|..+ |.+.|+.|+|+.+|.+.+.....-
T Consensus 190 ~~~~~~~~~~l~~di~D~eg-----------D~~~Gi~Tlav~lG~~~a~~l~~~ 233 (308)
T PRK12887 190 FVLVFTFAIAIFKDIPDMEG-----------DRQYQITTFTLRLGKQAVFKLSCW 233 (308)
T ss_pred HHHHHHHHHHHHHhccchhh-----------HHHcCCcchhHHHhHHHHHHHHHH
Confidence 44455567889999999855 567899999999988887754433
No 57
>PF12029 DUF3516: Domain of unknown function (DUF3516); InterPro: IPR021904 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 460 to 473 amino acids in length. This domain is found associated with PF00270 from PFAM, PF00271 from PFAM.
Probab=42.27 E-value=80 Score=30.58 Aligned_cols=83 Identities=12% Similarity=0.091 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHH---HHHhHHHHHHHHHHHHHHHHHHhhcc-CcccH-HHH
Q 038404 201 YARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYP---KLMGIENARKFACDLLAQATEELAYF-EVARA-APL 275 (287)
Q Consensus 201 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p---~~~~l~~a~~~~~~~~~~A~~~L~~l-~~~~~-~~L 275 (287)
....+.-+|-..-.---+.++.+-.-|.+-.|.-|.-.|+- ..|+|.++....-.|+..|.+.|.+- |...+ +.|
T Consensus 216 L~e~L~~af~~y~~~hPWv~~~~l~PKSVvRdM~E~amtF~dyV~~YgLaRSEGvlLRYLsDAyraL~qtVP~~~rteel 295 (461)
T PF12029_consen 216 LAELLEAAFETYRRGHPWVGDFELSPKSVVRDMYERAMTFSDYVSRYGLARSEGVLLRYLSDAYRALRQTVPEDARTEEL 295 (461)
T ss_pred hHHHHHHHHHHHHhcCCcccCCCCCcchHHHHHHHhhCCHHHHHHHhCcchhhhHHHHHHHHHHHHHhhhCChhhcCchH
Confidence 45667777777766667777777788888999988888875 45799999999999999999999987 76654 789
Q ss_pred HHHHHHHH
Q 038404 276 YHLAYYIA 283 (287)
Q Consensus 276 ~~l~~~~~ 283 (287)
.++++|+-
T Consensus 296 ~dii~WLg 303 (461)
T PF12029_consen 296 EDIIEWLG 303 (461)
T ss_pred HHHHHHHH
Confidence 99998874
No 58
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=41.66 E-value=1.9e+02 Score=27.52 Aligned_cols=66 Identities=29% Similarity=0.291 Sum_probs=44.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhh--hccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHhhcc
Q 038404 190 GNMIEVERVRKYARCIGLLFQVVDDI--LDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 190 ~~~~~~~~l~~~g~~lG~afQi~DD~--ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
+.......+..+.+-|=.+-=|.||+ +| -.|++.||+|--.++|-..|-=.=.-++..|...|..+
T Consensus 125 g~~~~q~~~A~i~EMIHtaSLIHDDv~~mD------------~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l 192 (384)
T KOG0776|consen 125 GDESSQRSLAEIVEMIHTASLIHDDVPCMD------------DADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASL 192 (384)
T ss_pred cccHHHHHHHHHHHHHHHHHHHhcCccccc------------ccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhc
Confidence 44555667888899999999999999 66 34666777666666654444333444555566666655
No 59
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=41.37 E-value=27 Score=31.72 Aligned_cols=40 Identities=13% Similarity=0.196 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHH
Q 038404 204 CIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFAC 254 (287)
Q Consensus 204 ~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~ 254 (287)
-...++.+.+++.|+. .|.+.|+.|+|+.+|.+.+.....
T Consensus 176 l~~~~~~~in~i~Die-----------~D~~aGi~Tlav~lG~~~a~~~~~ 215 (282)
T PRK12875 176 LWAMGMHTFSAIPDIE-----------PDRAAGIRTTATVLGERRTYAYCA 215 (282)
T ss_pred HHHHHHHHHHhccCHH-----------HHHHcCCccchhhccHhhHHHHHH
Confidence 4556777888888874 467789999999999888775543
No 60
>PLN02878 homogentisate phytyltransferase
Probab=40.57 E-value=51 Score=29.96 Aligned_cols=51 Identities=16% Similarity=0.241 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHH
Q 038404 201 YARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATE 262 (287)
Q Consensus 201 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A~~ 262 (287)
|..-+..+.-+.+|+.|+.|| -+.|..|+|+.+|.+++...+--...-|.-
T Consensus 164 f~~~f~~~i~i~KDi~DieGD-----------~~~Gi~Tlpv~lG~~~~~~i~~~ll~~aY~ 214 (280)
T PLN02878 164 FMCFFSVVIALFKDIPDVEGD-----------RIFGIRSFSVRLGQKRVFWLCVNLLEMAYA 214 (280)
T ss_pred HHHHHHHHHHHHhhCcCchhH-----------HHCCCceechhhChHHHHHHHHHHHHHHHH
Confidence 444444555599999999765 457899999999998888776665555443
No 61
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=38.55 E-value=3.3e+02 Score=25.30 Aligned_cols=48 Identities=10% Similarity=0.162 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHH
Q 038404 198 VRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDL 256 (287)
Q Consensus 198 l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~ 256 (287)
+.-+.--+..++-+.+|+.|+.+ |.+.|+.|+|+.+|.+.+...+--+
T Consensus 185 l~~~~~l~~~~~~~i~d~~D~eg-----------D~~~G~kTlpV~~G~~~a~~i~~~~ 232 (331)
T PRK12392 185 LAGLNFFMAIALIIMNDFKSVEG-----------DKEGGLKSLTVMIGAKNTFLVSFII 232 (331)
T ss_pred HHHHHHHHHHHHHHHHcccchhh-----------HHHcCCeeeEeEEcHhhHHHHHHHH
Confidence 33444456678888899988854 6677999999999888776554433
No 62
>PRK12847 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=38.54 E-value=2.9e+02 Score=24.74 Aligned_cols=57 Identities=14% Similarity=0.160 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCC--CC-cCccchhhhcChhHHHHHhHHHHHHHHHHH
Q 038404 61 VACALEMIHTMSLVHDDLPCMDNDD--FR-RGKPTNHKVFGEDTAILAGDALLSLAFEHV 117 (287)
Q Consensus 61 ~A~avEliH~asLihDDI~~~D~s~--~R-Rg~pt~h~~~G~~~Ail~gd~L~~~a~~~l 117 (287)
...++=++|++.-+..|+-|.|-|. .| +.+|-+--+-..+.|...+-.++..++-.+
T Consensus 50 ~~l~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~Rpl~sG~is~~~a~~~~~~l~~~~~~l~ 109 (285)
T PRK12847 50 FIIGSVLMRSAGCIINDIFDRKIDKHVARTKNRPLASGALSVKQALILLFILLLIALVIL 109 (285)
T ss_pred HHHHHHHHHHHHHHHHhHHHhhhccCCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 3445568999999999993333332 34 467777666677777777766666655444
No 63
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=38.36 E-value=1.4e+02 Score=26.90 Aligned_cols=58 Identities=24% Similarity=0.308 Sum_probs=43.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHH
Q 038404 56 SSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAF 114 (287)
Q Consensus 56 ~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~ 114 (287)
....-++..+-++-...++..|++|+++|. +.|+.|.-..+|.+.+...--.++..++
T Consensus 168 ~~~~~~~l~~~l~~~~~~~~n~~~D~~~D~-~~G~~Tl~v~lG~~~a~~~~~~l~~~~~ 225 (293)
T PRK06080 168 SAVFLPALPCGLLIGAVLLANNIRDIETDR-ENGKNTLAVRLGDKNARRLHAALLALAY 225 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCcchhHH-HcCCeeEEeeECcHhHHHHHHHHHHHHH
Confidence 345556666777777888889998877765 6899999999999887655555554444
No 64
>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=37.20 E-value=2.7e+02 Score=23.90 Aligned_cols=63 Identities=21% Similarity=0.266 Sum_probs=40.6
Q ss_pred HHHHHHHHHhcCCC-HHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHH
Q 038404 178 EAAVVCGVIIGGGN-MIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARK 251 (287)
Q Consensus 178 ~~~~~~ga~la~~~-~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~ 251 (287)
.....+|+...+.+ ....--+.-+.--++......+|+.|+.+ |.+.|+.|+|+.+|.+.+..
T Consensus 130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~-----------D~~~g~~Tl~v~~G~~~~~~ 193 (257)
T PF01040_consen 130 GLLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEG-----------DRKAGRRTLPVLLGEKKARY 193 (257)
T ss_pred hHhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHH-----------HHHcCCcchHHHHHHHHHHH
Confidence 34444444444433 22222334444677778888889999855 55678999999998887766
No 65
>PLN02878 homogentisate phytyltransferase
Probab=36.00 E-value=1.6e+02 Score=26.87 Aligned_cols=48 Identities=17% Similarity=0.278 Sum_probs=37.2
Q ss_pred HHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHH
Q 038404 67 MIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFE 115 (287)
Q Consensus 67 liH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~ 115 (287)
+.-..-.+..|+||+++|. ..|..|.-.++|.+.+....-.++..++-
T Consensus 167 ~f~~~i~i~KDi~DieGD~-~~Gi~Tlpv~lG~~~~~~i~~~ll~~aY~ 214 (280)
T PLN02878 167 FFSVVIALFKDIPDVEGDR-IFGIRSFSVRLGQKRVFWLCVNLLEMAYA 214 (280)
T ss_pred HHHHHHHHHhhCcCchhHH-HCCCceechhhChHHHHHHHHHHHHHHHH
Confidence 3334456889999888875 58899999999999888777777777764
No 66
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=35.57 E-value=1.8e+02 Score=26.18 Aligned_cols=167 Identities=19% Similarity=0.117 Sum_probs=91.5
Q ss_pred hHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCc-----CccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHH
Q 038404 57 SAMPVACALEMIHTMSLVHDDLPCMDNDDFRR-----GKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVR 131 (287)
Q Consensus 57 ~~~~~A~avEliH~asLihDDI~~~D~s~~RR-----g~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~ 131 (287)
...-...++=+.-++.-+.+|+ .|-+.-|+ .+|-+..+-..+.|....-.++..++-...-++ +.. -
T Consensus 48 ~~~l~~l~~~~~~~ag~~iND~--~D~eiD~~n~rt~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l~----~~~--~ 119 (289)
T COG0382 48 LLLLAFLAFFLARSAGYVINDL--ADREIDRINPRTKNRPLPSGRVSVKEALLLAILLLLLGLALALLLN----PLA--F 119 (289)
T ss_pred HHHHHHHHHHHHHHHhHHHHHH--hhhhccCCCCCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHh----HHH--H
Confidence 3344455566778888899999 66555444 555555555666666555555544444333221 111 1
Q ss_pred HHHHHHHHhhhhhhhhhhhhhhhhcCCCCCHHHHHHHHhcchHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHH
Q 038404 132 AIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGG-NMIEVERVRKYARCIGLLFQ 210 (287)
Q Consensus 132 ~~~~~~~~~g~~~~~~GQ~~d~~~~~~~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~-~~~~~~~l~~~g~~lG~afQ 210 (287)
++.-.+ ...+=.. ...++. .-..++- -|..+..+.-.|+...+. .....--+.-+..-..++|.
T Consensus 120 ~l~~~~-------~~l~~~Y-~~~Kr~-~~~~~~~------lg~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~ 184 (289)
T COG0382 120 LLSLAA-------LVLALAY-PFLKRF-TFLPQLV------LGLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYD 184 (289)
T ss_pred HHHHHH-------HHHHHHH-HHhhcC-CchHHHH------HHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHH
Confidence 111111 1111111 212111 1122221 155666666666655543 23333456777778888999
Q ss_pred HHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHH
Q 038404 211 VVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLL 257 (287)
Q Consensus 211 i~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~ 257 (287)
+..|+.|..+| -+.|..|.|+.+|.+.+...+.-+.
T Consensus 185 ~i~~~~D~e~D-----------~~~G~~s~~~~~G~~~a~~l~~~~~ 220 (289)
T COG0382 185 IIYAIQDIEGD-----------RKAGLKSLPVLFGIKKALALALLLL 220 (289)
T ss_pred HHHhccCccch-----------HhcCCcchHHHhCchhHHHHHHHHH
Confidence 99999998665 4568889999988777665544433
No 67
>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=34.36 E-value=1.7e+02 Score=26.72 Aligned_cols=52 Identities=13% Similarity=0.153 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHH
Q 038404 60 PVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSL 112 (287)
Q Consensus 60 ~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~ 112 (287)
-++..+=++-.+.++..|++|+++|. |.|++|.-..+|.+.+......++..
T Consensus 187 l~~~~~~l~~~~i~~~n~~~D~e~D~-~~G~~Tlpv~lG~~~a~~~~~~l~~~ 238 (306)
T TIGR02056 187 VLTLIYSIAGLGIAIVNDFKSVEGDR-ALGLQSLPVAFGIETAAWICVGAIDI 238 (306)
T ss_pred HHHHHHHHHHHHHHHHHHccChHHHH-HcCCcCcchhcChHHHHHHHHHHHHH
Confidence 34444445666777889997666664 78999999999999887766655443
No 68
>PRK13106 ubiA prenyltransferase; Reviewed
Probab=32.26 E-value=3.8e+02 Score=24.46 Aligned_cols=49 Identities=18% Similarity=0.190 Sum_probs=33.3
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCCCC--CC-cCccchhhhcChhHHHHHh
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDNDD--FR-RGKPTNHKVFGEDTAILAG 106 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~s~--~R-Rg~pt~h~~~G~~~Ail~g 106 (287)
..-...++=+++++.-+..|+-|.|-|. .| +.+|-+..+-..+.|+..+
T Consensus 51 l~l~~lg~~l~~~a~~~~Nd~~D~diD~~~~RT~~RPl~sG~is~~~A~~~~ 102 (300)
T PRK13106 51 LILIFLALFFLRTAGMTNDNLADLEIDAKNPRTKNRPLVTGAIKISEAKALI 102 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHhccccCCCccCCCCCCCCCcCHHHHHHHH
Confidence 3445566788999999999883333332 33 5688887777778887665
No 69
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=31.64 E-value=1.8e+02 Score=25.91 Aligned_cols=57 Identities=21% Similarity=0.210 Sum_probs=34.1
Q ss_pred CCCchhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHH
Q 038404 52 GGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDAL 109 (287)
Q Consensus 52 ~~~~~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L 109 (287)
++.......++..+=+......+.-|++|+|+| .+.|.+|.-..+|.+.+....-.+
T Consensus 151 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e~D-~~~G~~Tl~v~~G~~~~~~~~~~~ 207 (279)
T PRK12884 151 GELNEAVILLAAMAFLMTLGREIMKDIEDVEGD-RLRGARTLAILYGEKIAGRIAAAL 207 (279)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhH-HHcCCeeechHhcHHHHHHHHHHH
Confidence 433333444443333444444555677555554 468999999999999887655433
No 70
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=30.31 E-value=4.2e+02 Score=24.10 Aligned_cols=36 Identities=14% Similarity=0.275 Sum_probs=26.5
Q ss_pred HHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHH
Q 038404 206 GLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKF 252 (287)
Q Consensus 206 G~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~ 252 (287)
-..+-+.+|+.|. .+|.+.|+.|+|+.+|...++..
T Consensus 188 ~~~~~~~~a~~D~-----------e~D~~~G~~Tlpv~~G~~~t~~~ 223 (297)
T PRK12871 188 TMAHLGLNDFIDL-----------ENDRARGMKSIAVLYGMKGTMYW 223 (297)
T ss_pred HHHHHHHHHHhhh-----------hhHHHcCCeeeeeeechHHHHHH
Confidence 3445677777776 44778899999999988777654
No 71
>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=29.60 E-value=2.7e+02 Score=24.95 Aligned_cols=49 Identities=14% Similarity=0.168 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHH
Q 038404 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALL 110 (287)
Q Consensus 61 ~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~ 110 (287)
++..+-+.-.+.+...|++|+++|. +.|++|.-..+|.+.+...--.++
T Consensus 166 ~~~~~~l~~~~i~~~nd~~D~~~D~-~~G~~Tl~v~lG~~~a~~l~~~l~ 214 (283)
T TIGR01476 166 VALIYSLGAHGIMTLNDFKSVEGDR-QLGLRSLPVMIGVKRAAIVAVTTI 214 (283)
T ss_pred HHHHHHHHHHHHHHHHhccchhhHH-HcCCcCcceEEcHHHHHHHHHHHH
Confidence 3445556666678889997665554 679999999999998876544433
No 72
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=28.08 E-value=1.6e+02 Score=26.96 Aligned_cols=54 Identities=19% Similarity=0.212 Sum_probs=37.2
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHH
Q 038404 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLA 113 (287)
Q Consensus 59 ~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a 113 (287)
.-++...-+...+.++..|++|+++|. |.|++|.-..+|.+.+....-+++..+
T Consensus 192 ~l~~~~~~l~~~~~~~~~d~~D~e~D~-~aG~~Tlpv~~G~~~a~~l~~~l~~~~ 245 (314)
T PRK07566 192 VILALLYSLGAHGIMTLNDFKSVEGDR-QLGLRSLPVVFGEKNAARIACVVIDLF 245 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHhHH-HcCCcccceeEcHHHHHHHHHHHHHHH
Confidence 344445555566667788886666554 579999999999998776655554444
No 73
>PLN02279 ent-kaur-16-ene synthase
Probab=28.01 E-value=7e+02 Score=26.26 Aligned_cols=112 Identities=15% Similarity=0.116 Sum_probs=60.1
Q ss_pred hhhhhhhhhhhhcCCC--CCHHHHHHHHhcchHHHHHHHHHHHHHhcC-CCHHHHH--HHHHHHHHHHHHHHHHHhhhcc
Q 038404 144 GLVAGEIMDIDSEGKD--VSLNELENIHLHKTAKLLEAAVVCGVIIGG-GNMIEVE--RVRKYARCIGLLFQVVDDILDV 218 (287)
Q Consensus 144 ~~~~GQ~~d~~~~~~~--~~~~~~~~i~~~KTg~l~~~~~~~ga~la~-~~~~~~~--~l~~~g~~lG~afQi~DD~ld~ 218 (287)
..+.+-..+..|.... ++.++|.... ..|..+-...+.+...++. .+++..+ ...++-...+...-+.||+..+
T Consensus 601 ~ll~ayl~EAeW~~~g~vPT~eEYL~na-~vS~~l~~i~l~~~~~~G~~l~eev~e~~~~~~L~~l~s~I~RLlNDI~S~ 679 (784)
T PLN02279 601 DLLKSMLTEAQWSSNKSTPTLDEYMTNA-YVSFALGPIVLPALYLVGPKLSEEVVDSPELHKLYKLMSTCGRLLNDIRGF 679 (784)
T ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHhhc-hhhhhhHHHHHHHHHHhCCCCCHHHHhCcchhHHHHHHHHHHHHHHhcccc
Confidence 3444544555555332 7888887663 2333321111111111222 2333332 3556777888888999998776
Q ss_pred ccchhhhCCccchhhhcCCCcHHHHH--------hHHHHHHHHHHHHHHHHHHhhcc
Q 038404 219 TKSSKELGKTAGKDLVSDKATYPKLM--------GIENARKFACDLLAQATEELAYF 267 (287)
Q Consensus 219 ~~~~~~~GK~~~~Dl~~gk~T~p~~~--------~l~~a~~~~~~~~~~A~~~L~~l 267 (287)
..+. . +|+.+...++ ..+.|.+.++..++.+.+.|.+.
T Consensus 680 e~E~-~----------rG~~nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~ 725 (784)
T PLN02279 680 KRES-K----------EGKLNAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRL 725 (784)
T ss_pred HhHH-h----------CCCcceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4322 2 2333333332 25677777888888888777653
No 74
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=25.49 E-value=2.6e+02 Score=24.92 Aligned_cols=35 Identities=17% Similarity=0.212 Sum_probs=25.1
Q ss_pred HHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHh
Q 038404 71 MSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAG 106 (287)
Q Consensus 71 asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~g 106 (287)
+-.+..|++|+++| .+.|.||.-..+|.+.+....
T Consensus 172 ~~~~~~~~~D~e~D-~~~G~~tlpv~~G~~~t~~~~ 206 (276)
T PRK12882 172 AREIIKDVEDIEGD-RAEGARTLPILIGVRKALYVA 206 (276)
T ss_pred HHHHHhhhhhhhhH-HHcCCccccHHhhHHHHHHHH
Confidence 44555677544554 478999999999999876554
No 75
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=25.46 E-value=39 Score=31.02 Aligned_cols=39 Identities=13% Similarity=0.135 Sum_probs=0.0
Q ss_pred HHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHHHHH
Q 038404 211 VVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQA 260 (287)
Q Consensus 211 i~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~~~A 260 (287)
..|++.|+ .+|.+.||.|+|+.+|.++++....-..--+
T Consensus 192 ~~Nn~rD~-----------e~D~~~Gk~TL~v~lG~~~a~~ly~~l~~~a 230 (304)
T PRK07419 192 FCSHFHQV-----------EDDLAAGKRSPIVRLGTKRGAQLLPWIVGLI 230 (304)
T ss_pred HHcCCcch-----------hhHHHcCCcceeeeechHhHHHHHHHHHHHH
No 76
>TIGR00751 menA 1,4-dihydroxy-2-naphthoate octaprenyltransferase. This membrane-associated enzyme converts 1,4-dihydroxy-2-naphthoic acid (DHNA) to demethylmenaquinone, a step in menaquinone biosynthesis.
Probab=25.45 E-value=58 Score=29.54 Aligned_cols=37 Identities=16% Similarity=0.249 Sum_probs=27.9
Q ss_pred HHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038404 208 LFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACD 255 (287)
Q Consensus 208 afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~ 255 (287)
+--..|++.|+. +|.+.||.|+|+.+|.+.++....-
T Consensus 179 ~il~~Nn~~D~~-----------~D~~~Gk~Tl~v~lG~~~a~~l~~~ 215 (284)
T TIGR00751 179 AVLNINNLRDIP-----------TDARAGKNTLAVRLGDARTRMYHQG 215 (284)
T ss_pred HHHHHcCcccch-----------hHHHcCCEeehhhcchHhHHHHHHH
Confidence 445578888874 5778899999999998888765443
No 77
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=24.96 E-value=1.6e+02 Score=27.03 Aligned_cols=53 Identities=13% Similarity=0.174 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHH
Q 038404 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAF 114 (287)
Q Consensus 61 ~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~ 114 (287)
++..+-+.-.+-.+.-|+||+++|. +.|+.|.-..+|.+.+....-.++..++
T Consensus 187 ~~~~~~~~~~~~~l~~di~D~egD~-~~Gi~Tlav~lG~~~a~~l~~~ll~~~y 239 (308)
T PRK12887 187 LTLFVLVFTFAIAIFKDIPDMEGDR-QYQITTFTLRLGKQAVFKLSCWVLTACY 239 (308)
T ss_pred HHHHHHHHHHHHHHHHhccchhhHH-HcCCcchhHHHhHHHHHHHHHHHHHHHH
Confidence 3444555556677788998887775 6899999999999988766555555443
No 78
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=24.13 E-value=26 Score=32.33 Aligned_cols=31 Identities=16% Similarity=0.333 Sum_probs=0.0
Q ss_pred HHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHH
Q 038404 211 VVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKF 252 (287)
Q Consensus 211 i~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~ 252 (287)
+.|++.|+ .+|.++||.|+|+.+|.+++...
T Consensus 207 l~Nn~~D~-----------e~D~~~gk~TL~v~lG~~~a~~l 237 (317)
T PRK13387 207 LANNLRDL-----------DEDIKNHRYTLVYYIGREKGVVL 237 (317)
T ss_pred HhcCCccc-----------hhHHHcCCeeeeeeEcHHhHHHH
No 79
>TIGR02235 menA_cyano-plnt 1,4-dihydroxy-2-naphthoate phytyltransferase. This family of phytyltransferases, found in plants and cyanobacteria, are involved in the biosythesis of phylloquinone (Vitamin K1). Phylloquinone is a critical component of photosystem I. The closely related MenA enzyme from bacteria transfers a prenyl group (which only differs in the saturation of the isoprenyl groups) in the biosynthesis of menaquinone. Activity towards both substrates in certain organisms should be considered a possibility.
Probab=24.08 E-value=67 Score=29.18 Aligned_cols=42 Identities=19% Similarity=0.143 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHHHH
Q 038404 205 IGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLL 257 (287)
Q Consensus 205 lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~~~ 257 (287)
+-.+-...|++.|+ .+|.+.||.|+|+.+|.+.+.....-..
T Consensus 173 ~~~~iL~~Nn~rD~-----------e~D~~~Gk~TL~v~lG~~~a~~l~~~l~ 214 (285)
T TIGR02235 173 ATTLILFCSHFHQV-----------EDDLAHGKRSPVVRLGTKLAAKIVPWVI 214 (285)
T ss_pred HHHHHHHhcCCccc-----------hhHHHcCCcceeheecHHhHHHHHHHHH
No 80
>KOG1345 consensus Serine/threonine kinase [Signal transduction mechanisms]
Probab=22.75 E-value=49 Score=30.34 Aligned_cols=25 Identities=36% Similarity=0.592 Sum_probs=20.7
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCC
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDN 83 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~ 83 (287)
...++.|||++|.--|||.||- +||
T Consensus 127 ~~ql~SAi~fMHsknlVHRdlK-~eN 151 (378)
T KOG1345|consen 127 FAQLLSAIEFMHSKNLVHRDLK-AEN 151 (378)
T ss_pred HHHHHHHHHHhhccchhhcccc-cce
Confidence 3578999999999999999984 443
No 81
>PF06304 DUF1048: Protein of unknown function (DUF1048); InterPro: IPR008316 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2O3L_B 2HH6_A 2O4T_A.
Probab=22.73 E-value=88 Score=23.97 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=16.9
Q ss_pred HHHHHHHhhhccccchhhhCCc
Q 038404 207 LLFQVVDDILDVTKSSKELGKT 228 (287)
Q Consensus 207 ~afQi~DD~ld~~~~~~~~GK~ 228 (287)
-..+|.+|++|++.....-|++
T Consensus 45 ~~~~il~dildlfEe~aadG~~ 66 (103)
T PF06304_consen 45 DMMEILSDILDLFEEAAADGKS 66 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHHHHHHHHHcCCC
Confidence 4569999999999887777776
No 82
>PLN02922 prenyltransferase
Probab=22.10 E-value=58 Score=30.08 Aligned_cols=37 Identities=14% Similarity=0.109 Sum_probs=27.9
Q ss_pred HHHHHHhhhccccchhhhCCccchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038404 208 LFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACD 255 (287)
Q Consensus 208 afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~p~~~~l~~a~~~~~~ 255 (287)
+-...|++.|+. +|.+.||.|+|+.+|.++++....-
T Consensus 203 ~iL~~Nn~rD~e-----------~D~~~Gk~TL~v~lG~~~a~~l~~~ 239 (315)
T PLN02922 203 LILFCSHFHQID-----------GDRAVGKMSPLVRLGTEKGSRVVRW 239 (315)
T ss_pred HHHHHccCcchh-----------hHHHcCccceeeEEChHHHHHHHHH
Confidence 346678888874 5778899999999988877665443
No 83
>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=21.67 E-value=2e+02 Score=24.79 Aligned_cols=53 Identities=21% Similarity=0.333 Sum_probs=33.7
Q ss_pred hCCCc-hhHhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHH
Q 038404 51 VGGDE-SSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAIL 104 (287)
Q Consensus 51 ~~~~~-~~~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail 104 (287)
.+++. ....-.+..+-++-.+.....|++|+++| .+.|++|.-..+|.+.+..
T Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~D-~~~g~~Tl~v~~G~~~~~~ 193 (257)
T PF01040_consen 140 AGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEGD-RKAGRRTLPVLLGEKKARY 193 (257)
T ss_pred cCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-HHcCCcchHHHHHHHHHHH
Confidence 44442 23333333333433344444488878888 7899999999999988875
No 84
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=21.54 E-value=5.8e+02 Score=22.65 Aligned_cols=52 Identities=12% Similarity=0.119 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCCC---CCcCccchhhhcChhHHHHHhHHHHHHHHH
Q 038404 62 ACALEMIHTMSLVHDDLPCMDNDD---FRRGKPTNHKVFGEDTAILAGDALLSLAFE 115 (287)
Q Consensus 62 A~avEliH~asLihDDI~~~D~s~---~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~ 115 (287)
..++=+.|++.-+..|+ .|-+. .|+.+|-.......+.|...+-.+...++-
T Consensus 43 ~~~~~~~~~a~~~~Nd~--~D~~~D~~n~~~Rpl~sG~is~~~a~~~~~~l~~~g~~ 97 (277)
T PRK12883 43 FLVVYLGCSGGNTINDY--FDYEIDKINRPNRPLPRGAMSRKAALYYSLLLFAVGLA 97 (277)
T ss_pred HHHHHHHHHHHhHHHhh--hhHhccccCCCCCCCCCCccCHHHHHHHHHHHHHHHHH
Confidence 34566678888999998 55332 355667666666777777766666555543
No 85
>PLN02922 prenyltransferase
Probab=21.25 E-value=4.1e+02 Score=24.43 Aligned_cols=56 Identities=14% Similarity=0.168 Sum_probs=42.7
Q ss_pred HhHHHHHHHHHHHHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHH
Q 038404 58 AMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAF 114 (287)
Q Consensus 58 ~~~~A~avEliH~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~ 114 (287)
..-++..+-++-++-+...+++|+++| .|-||-|.-..+|.+.|...=-.++..++
T Consensus 190 ~~l~slp~gll~~~iL~~Nn~rD~e~D-~~~Gk~TL~v~lG~~~a~~l~~~l~~~~y 245 (315)
T PLN02922 190 VLSASVLVGLTTTLILFCSHFHQIDGD-RAVGKMSPLVRLGTEKGSRVVRWAVLLLY 245 (315)
T ss_pred HHHHHHHHHHHHHHHHHHccCcchhhH-HHcCccceeeEEChHHHHHHHHHHHHHHH
Confidence 345666778888888999999877776 46888899999999988766555555554
No 86
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=20.60 E-value=5.3e+02 Score=22.82 Aligned_cols=44 Identities=18% Similarity=0.141 Sum_probs=30.1
Q ss_pred HHHHHHhCCCCCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHH
Q 038404 70 TMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAF 114 (287)
Q Consensus 70 ~asLihDDI~~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~ 114 (287)
....+.-|++|+++|. +.|.+|.-..+|.+.+....-.+...++
T Consensus 175 ~~~~~~~d~~D~e~D~-~~G~~Tlpv~lG~~~t~~~~~~~~~~~~ 218 (285)
T PRK12872 175 FIREIVFDIKDIEGDR-KSGLKTLPIVLGKERTLKFLLILNLLFL 218 (285)
T ss_pred HHHHHHHhcccchhHH-HcCCcccchhcchHHHHHHHHHHHHHHH
Confidence 3334557786555554 6899999999999988766555544443
Done!