Query 038854
Match_columns 353
No_of_seqs 269 out of 1566
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 03:58:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10581 geranyltranstransfera 100.0 1.9E-66 4.2E-71 498.4 31.8 287 67-353 1-299 (299)
2 KOG0776 Geranylgeranyl pyropho 100.0 7.2E-66 1.6E-70 497.5 28.7 306 45-351 38-384 (384)
3 COG0142 IspA Geranylgeranyl py 100.0 1.7E-61 3.6E-66 469.0 31.7 277 68-353 2-322 (322)
4 TIGR02748 GerC3_HepT heptapren 100.0 4.3E-61 9.2E-66 465.8 30.4 274 68-353 4-319 (319)
5 PLN02857 octaprenyl-diphosphat 100.0 3.7E-61 8E-66 478.0 30.1 280 62-353 90-416 (416)
6 PRK10888 octaprenyl diphosphat 100.0 6.5E-61 1.4E-65 464.9 30.4 274 68-353 5-323 (323)
7 TIGR02749 prenyl_cyano solanes 100.0 6.6E-61 1.4E-65 464.8 30.3 275 67-353 4-322 (322)
8 CHL00151 preA prenyl transfera 100.0 4.4E-61 9.5E-66 466.5 28.9 275 67-353 5-323 (323)
9 PLN02890 geranyl diphosphate s 100.0 3.1E-60 6.8E-65 471.3 33.2 275 67-353 82-422 (422)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 7.4E-55 1.6E-59 410.8 26.9 247 94-351 4-259 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 2.1E-53 4.5E-58 401.2 18.8 228 98-329 3-236 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 9.4E-41 2E-45 309.0 22.8 225 111-351 1-236 (236)
13 KOG0777 Geranylgeranyl pyropho 100.0 1.2E-34 2.7E-39 260.8 16.0 229 94-337 21-293 (322)
14 KOG0711 Polyprenyl synthetase 100.0 1.1E-30 2.3E-35 245.2 20.5 213 94-315 38-270 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.8 5.1E-19 1.1E-23 159.8 24.4 197 112-336 2-226 (243)
16 PF07307 HEPPP_synt_1: Heptapr 97.0 0.0054 1.2E-07 56.4 10.0 100 126-241 31-135 (212)
17 cd00683 Trans_IPPS_HH Trans-Is 95.9 0.44 9.6E-06 44.9 15.9 95 226-337 112-228 (265)
18 TIGR03465 HpnD squalene syntha 95.9 1.1 2.4E-05 42.3 18.4 93 226-336 104-218 (266)
19 PLN02632 phytoene synthase 95.8 0.53 1.2E-05 46.3 16.5 98 226-337 159-280 (334)
20 TIGR01559 squal_synth farnesyl 94.7 1.5 3.1E-05 43.3 15.5 100 226-337 129-250 (336)
21 TIGR03464 HpnC squalene syntha 94.4 4.5 9.7E-05 38.3 17.8 94 226-337 105-220 (266)
22 PF00494 SQS_PSY: Squalene/phy 91.6 2.3 5.1E-05 39.8 11.2 97 226-338 110-230 (267)
23 TIGR02748 GerC3_HepT heptapren 87.3 6.3 0.00014 38.4 10.8 71 252-334 56-126 (319)
24 PRK12884 ubiA prenyltransferas 86.9 28 0.00061 32.9 16.7 160 133-319 42-204 (279)
25 PRK10888 octaprenyl diphosphat 86.9 5.1 0.00011 39.2 9.9 71 251-333 56-126 (323)
26 cd00687 Terpene_cyclase_nonpla 85.9 32 0.0007 32.6 15.3 92 226-330 158-261 (303)
27 PRK12882 ubiA prenyltransferas 85.8 32 0.0007 32.5 17.1 58 133-190 43-101 (276)
28 cd00685 Trans_IPPS_HT Trans-Is 85.4 8.3 0.00018 36.2 10.3 68 255-334 34-102 (259)
29 PF00348 polyprenyl_synt: Poly 83.7 13 0.00028 34.9 10.8 74 249-334 23-96 (260)
30 TIGR02749 prenyl_cyano solanes 79.7 15 0.00033 35.8 10.0 64 259-334 67-130 (322)
31 PRK07566 bacteriochlorophyll/c 75.3 83 0.0018 30.5 14.1 51 135-187 72-125 (314)
32 PRK10581 geranyltranstransfera 74.7 31 0.00068 33.3 10.5 70 252-333 57-128 (299)
33 CHL00151 preA prenyl transfera 73.8 21 0.00046 34.8 9.1 59 263-333 72-130 (323)
34 TIGR01474 ubiA_proteo 4-hydrox 73.5 77 0.0017 30.2 12.8 57 133-189 45-104 (281)
35 PRK12872 ubiA prenyltransferas 71.9 14 0.0003 35.1 7.2 40 270-320 172-211 (285)
36 PRK09573 (S)-2,3-di-O-geranylg 70.7 98 0.0021 29.3 17.9 57 133-189 42-99 (279)
37 PRK13105 ubiA prenyltransferas 69.4 26 0.00055 33.7 8.4 42 271-323 172-213 (282)
38 cd00867 Trans_IPPS Trans-Isopr 63.8 78 0.0017 28.6 10.3 39 246-284 5-43 (236)
39 COG1562 ERG9 Phytoene/squalene 63.8 1.4E+02 0.0031 28.7 16.6 94 227-337 123-238 (288)
40 TIGR01476 chlor_syn_BchG bacte 62.3 1.4E+02 0.0031 28.2 12.3 39 272-321 174-212 (283)
41 PLN02890 geranyl diphosphate s 59.8 67 0.0015 32.8 9.7 59 263-333 165-223 (422)
42 PF06783 UPF0239: Uncharacteri 59.7 12 0.00025 29.5 3.2 22 258-279 15-36 (85)
43 TIGR02056 ChlG chlorophyll syn 59.2 1.7E+02 0.0038 28.2 16.8 50 135-186 61-113 (306)
44 COG0142 IspA Geranylgeranyl py 55.5 91 0.002 30.4 9.6 62 262-335 69-130 (322)
45 PRK12878 ubiA 4-hydroxybenzoat 51.6 2.4E+02 0.0052 27.4 12.7 57 134-190 78-137 (314)
46 PLN02857 octaprenyl-diphosphat 51.1 45 0.00098 33.9 6.8 38 262-311 164-201 (416)
47 PRK13595 ubiA prenyltransferas 47.6 1.3E+02 0.0029 29.1 9.1 76 243-331 155-230 (292)
48 PLN00012 chlorophyll synthetas 42.4 3.7E+02 0.0079 27.0 21.7 40 270-320 263-302 (375)
49 KOG0776 Geranylgeranyl pyropho 42.2 1.8E+02 0.0039 29.3 9.3 67 256-334 125-193 (384)
50 PRK13591 ubiA prenyltransferas 37.6 4E+02 0.0087 26.0 17.7 40 273-323 193-232 (307)
51 PRK12871 ubiA prenyltransferas 36.5 4E+02 0.0086 25.7 16.8 36 272-318 188-223 (297)
52 PRK12875 ubiA prenyltransferas 35.0 35 0.00077 32.7 3.0 40 270-320 176-215 (282)
53 PRK12883 ubiA prenyltransferas 34.5 4E+02 0.0086 25.1 17.4 51 135-187 44-97 (277)
54 PRK13105 ubiA prenyltransferas 33.1 1.1E+02 0.0023 29.5 6.0 59 131-190 163-221 (282)
55 PF03936 Terpene_synth_C: Terp 32.8 3.8E+02 0.0083 24.4 11.7 94 225-330 165-269 (270)
56 PRK06080 1,4-dihydroxy-2-napht 31.5 4.5E+02 0.0098 24.8 15.2 39 271-320 180-218 (293)
57 PF01040 UbiA: UbiA prenyltran 29.4 4.3E+02 0.0092 23.8 15.0 62 245-317 131-193 (257)
58 PRK12848 ubiA 4-hydroxybenzoat 29.3 5E+02 0.011 24.6 15.2 54 135-188 49-105 (282)
59 COG1480 Predicted membrane-ass 29.0 1.5E+02 0.0032 32.2 6.6 72 153-235 603-675 (700)
60 PLN02878 homogentisate phytylt 28.9 92 0.002 30.0 4.7 50 267-327 164-213 (280)
61 cd00684 Terpene_cyclase_plant_ 28.9 5E+02 0.011 27.2 10.6 95 225-332 384-490 (542)
62 PRK13387 1,4-dihydroxy-2-napht 28.1 5.7E+02 0.012 24.8 10.5 32 276-318 206-237 (317)
63 PF04844 Ovate: Transcriptiona 26.4 2.5E+02 0.0053 20.6 5.5 51 64-122 3-53 (59)
64 PRK12875 ubiA prenyltransferas 23.1 1.9E+02 0.004 27.8 5.7 39 137-176 174-212 (282)
65 PF10776 DUF2600: Protein of u 23.0 1.2E+02 0.0027 29.8 4.5 96 246-347 36-146 (330)
66 TIGR01475 ubiA_other putative 22.6 6.5E+02 0.014 23.7 16.3 50 133-182 41-93 (282)
67 TIGR01568 A_thal_3678 uncharac 21.7 3.5E+02 0.0077 20.3 5.7 53 62-122 7-60 (66)
68 PRK06080 1,4-dihydroxy-2-napht 21.0 2.9E+02 0.0063 26.2 6.6 57 130-187 170-226 (293)
69 PLN02878 homogentisate phytylt 20.9 2.7E+02 0.0059 26.8 6.3 46 141-187 169-214 (280)
70 PRK07419 1,4-dihydroxy-2-napht 20.3 57 0.0012 31.7 1.6 36 274-320 189-224 (304)
No 1
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=1.9e-66 Score=498.45 Aligned_cols=287 Identities=42% Similarity=0.614 Sum_probs=259.5
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhCCC--CchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCccccccHHHHHHHHHHHH
Q 038854 67 FDFKSYMIQKASTVNQALDAAVSLK--DPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMS 144 (353)
Q Consensus 67 ~~~~~~l~~~~~~v~~~l~~~~~~~--~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~as 144 (353)
++|..+++.....|++.|.+.+... .++.+.++++|.+..||||+||.||+++++++|++++.+.++|++||+||+||
T Consensus 1 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~gGKrlRp~L~l~~~~~~g~~~~~~~~~A~avEliH~aS 80 (299)
T PRK10581 1 MDFPQQLQACVQQANQALSRFIAPLPFQNTPVVEAMQYGALLGGKRLRPFLVYATGQMFGVSTNTLDAPAAAVECIHAYS 80 (299)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhcCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 4688889889999999999988643 25679999999999999999999999999999998888899999999999999
Q ss_pred HHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccC-CCChHHHHHHHHHHHHHHhhhhhhhhccc
Q 038854 145 LIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTK-GVSPARIVRAIAELAKYIGADGLVAGQAE 223 (353)
Q Consensus 145 LIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~-~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~ 223 (353)
||||||||||+|++|||+||+|.+||+++|||+||+|++.||+.+++... ...+....+++.+++.+.+..+++.||.+
T Consensus 81 LiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~l 160 (299)
T PRK10581 81 LIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQAL 160 (299)
T ss_pred HHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHH
Confidence 99999999999999999999999999999999999999999999986422 23344556778888776555679999988
Q ss_pred ------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCH-HHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcc
Q 038854 224 ------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTD-NEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296 (353)
Q Consensus 224 ------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~-~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g 296 (353)
...+.++|.+|+.+|||+||++||.+|++++|+++ +.++.+++||+++|+||||+||++|++++++.+||+.|
T Consensus 161 d~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g 240 (299)
T PRK10581 161 DLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQG 240 (299)
T ss_pred HHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcc
Confidence 24678899999999999999999999999999864 57899999999999999999999999999999999999
Q ss_pred hhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcCCCCCh--HHHHHHHHHHHhccC
Q 038854 297 KDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKA--VPLIALANYIAYRQN 353 (353)
Q Consensus 297 ~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~~~~~~--~~L~~l~~~i~~R~~ 353 (353)
+|+++||+|||+++++++|++.++++.++|++.|+.+|.... +.|.+|++|+.+|.+
T Consensus 241 ~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~~~~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 241 ADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQSLDTSALEALANYIIQRDK 299 (299)
T ss_pred hhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCchhHHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999986443 789999999999975
No 2
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=7.2e-66 Score=497.49 Aligned_cols=306 Identities=51% Similarity=0.739 Sum_probs=281.0
Q ss_pred CCCCcchhhhhccccCCCCC------CcccHHHHHHHHHHHHHHHHHHHhCCC-CchhHHHHHHHhHhCCCcchHHHHHH
Q 038854 45 PRRPVSISAVQTLEENPAPS------PTFDFKSYMIQKASTVNQALDAAVSLK-DPVKIHESMRYSLLAGGKRVRPVLCL 117 (353)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~v~~~l~~~~~~~-~p~~l~~~~~y~~~~gGKr~Rp~L~l 117 (353)
++.+..|+...+++. .+++ +.+|+..|+..+++.|++.++..++.. +|..++++++|.+..+|||+||.+|+
T Consensus 38 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~d~~~~~~~~~~~ln~~l~~~~~~~~~~~~i~~a~ry~~la~gKr~rP~l~~ 116 (384)
T KOG0776|consen 38 LKVAAVLSSASSEAV-GPPTSFLSLRLLFDELSYMARKARSLNGALHYAVPLANEPLLISEAMRYLLLAGGKRVRPLLCL 116 (384)
T ss_pred cccchhhhhhhcccc-CCcchhhcchhhhhHHHHHHHHHHHHhhhhhhhcccccccchhHHHHHHHHHhcccccCchhhh
Confidence 345556888777662 2333 457899999999999999999999987 89999999999999999999999999
Q ss_pred HHHHHhC-CCccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCC
Q 038854 118 AACDLVG-GHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGV 196 (353)
Q Consensus 118 l~~~~~g-~~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~ 196 (353)
++|+++| |.....+++|+++||||++||||||+||||++++|||+|+.|++||+++|||+||||++.|++.++.+....
T Consensus 117 ~~~e~~~~g~~~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~ 196 (384)
T KOG0776|consen 117 AACELVGSGDESSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPV 196 (384)
T ss_pred hHHHhccccccHHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCch
Confidence 9999999 888889999999999999999999999999999999999999999999999999999999999999887667
Q ss_pred ChHHHHHHHHHHHHHHhhhhhhhhccc--ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 038854 197 SPARIVRAIAELAKYIGADGLVAGQAE--KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLL 274 (353)
Q Consensus 197 ~~~~~~~~~~~l~~~i~~~~l~~GQ~~--~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~a 274 (353)
..+.+.++|.++++..+.++.+.|+.+ ++..+++|++++.+|||+|++.+|++|++++|+++++++.+++||++||++
T Consensus 197 v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~ 276 (384)
T KOG0776|consen 197 VVELMASAIADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLA 276 (384)
T ss_pred HHHHHHHHHHHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 788888999999998877778888766 566899999999999999999999999999999999999999999999999
Q ss_pred HHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHH------------------------------hHHHHHHHHHHHHH
Q 038854 275 FQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL------------------------------GIEESKKLADKLNK 324 (353)
Q Consensus 275 fQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~------------------------------~le~a~~~~~~~~~ 324 (353)
||+.||++||++.++++||++|.|+..|+.|+|+++ ++..|..+++++.+
T Consensus 277 fQvvDDildftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~ 356 (384)
T KOG0776|consen 277 FQVVDDILDFTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVPGVALAKYLARRHNN 356 (384)
T ss_pred HHHhhcccCcccchhhcCcchhhhhhhccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999987 45667899999999
Q ss_pred HHHHHHhcCCCCCh-HHHHHHHHHHHhc
Q 038854 325 DAQQQLSEFDQEKA-VPLIALANYIAYR 351 (353)
Q Consensus 325 ~A~~~L~~~~~~~~-~~L~~l~~~i~~R 351 (353)
+|++.|+.||++++ ++|++|+.++..|
T Consensus 357 ~Al~~l~~~p~s~ar~aL~~l~~~~~~r 384 (384)
T KOG0776|consen 357 KALEALQSLPRSEARSALENLVLAVLTR 384 (384)
T ss_pred HHHHHHhCCCCchHHHHHHHHHHHHhcC
Confidence 99999999999888 8999999998876
No 3
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=1.7e-61 Score=468.99 Aligned_cols=277 Identities=45% Similarity=0.670 Sum_probs=249.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCcc----ccccHHHHHHHHHHH
Q 038854 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHES----MAMPAACSIEMIHTM 143 (353)
Q Consensus 68 ~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~----~~~~lA~avEliH~a 143 (353)
.+...+.+..+.|++.|.+.++...|+.+.++++|.+..||||+||++++++++++|.+.+ .++++|++|||||++
T Consensus 2 ~~~~~~~~~~~~i~~~l~~~l~~~~~~~l~~a~~~~~~aGGKrlRP~l~l~~~~~~~~~~~~~~~~~~~~aaavEliH~~ 81 (322)
T COG0142 2 DLLALLLKRLARIEELLSELLSGSDPELLLEAMRYLLLAGGKRLRPLLVLLAAEALGIDLETGGNDALDLAAAIELIHTA 81 (322)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHhcCCccHhHHHHHHHHHHcCCCcccchhhHHHHHHHHHHHHHH
Confidence 4677888999999999999998545678999999999999999999999999999985444 468999999999999
Q ss_pred HHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc
Q 038854 144 SLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE 223 (353)
Q Consensus 144 sLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~ 223 (353)
||||||| ||+|++|||+||+|.+||+.+|||+||+|++.||+.+++.... ..+++..++..+ .+++.||++
T Consensus 82 SLiHDDv--mD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~-----~~~~~~~~~~~~--~~~~~GQ~l 152 (322)
T COG0142 82 SLIHDDL--MDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSE-----ALEAIKALAEAI--NGLCGGQAL 152 (322)
T ss_pred HHHHhhc--ccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCch-----hHHHHHHHHHHH--HHHHHhHHH
Confidence 9999999 9999999999999999999999999999999999999976321 244455555554 579999998
Q ss_pred ------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcch
Q 038854 224 ------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGK 297 (353)
Q Consensus 224 ------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~ 297 (353)
..+++++|.+|+++|||+||+++|++|++++|++++..+.++.||+++|+||||+||++|++++++++||++|+
T Consensus 153 Dl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~ 232 (322)
T COG0142 153 DLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGS 232 (322)
T ss_pred HHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcch
Confidence 23789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCcHHHHHhHHHH---------------------------------HHHHHHHHHHHHHHHhcCCCCCh-HHHHH
Q 038854 298 DLVADKLTYPKLLGIEES---------------------------------KKLADKLNKDAQQQLSEFDQEKA-VPLIA 343 (353)
Q Consensus 298 Dl~~gk~T~p~l~~le~a---------------------------------~~~~~~~~~~A~~~L~~~~~~~~-~~L~~ 343 (353)
|+++||.|||++++++.+ .++++.+.++|++.|+.+|.+.. +.|.+
T Consensus 233 Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~~~~~L~~ 312 (322)
T COG0142 233 DLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSEAKEALLE 312 (322)
T ss_pred HHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence 999999999999988744 44689999999999999985555 89999
Q ss_pred HHHHHHhccC
Q 038854 344 LANYIAYRQN 353 (353)
Q Consensus 344 l~~~i~~R~~ 353 (353)
+++|+++|.+
T Consensus 313 la~~i~~R~~ 322 (322)
T COG0142 313 LADFIIKRKY 322 (322)
T ss_pred HHHHHHhccC
Confidence 9999999974
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=4.3e-61 Score=465.84 Aligned_cols=274 Identities=34% Similarity=0.510 Sum_probs=248.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHH
Q 038854 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIH 147 (353)
Q Consensus 68 ~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIH 147 (353)
++..++.+++..|++.|.+.+....| .+.++++|++..||||+||.||+++++++|++.+..+++|++||+||+|||||
T Consensus 4 ~~~~~~~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKriRp~L~ll~~~~~~~~~~~~~~~A~aiEliH~asLiH 82 (319)
T TIGR02748 4 DIYSFLQKDIDSIEKELEKAVQAEHP-VLSEASLHLLEAGGKRIRPVFVLLAGKFGDYDLDAIKHVAVALELIHMASLVH 82 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCch-HHHHHHHHHHhcCCchHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 56778999999999999999876544 69999999999999999999999999999888888999999999999999999
Q ss_pred hCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc----
Q 038854 148 DDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE---- 223 (353)
Q Consensus 148 DDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~---- 223 (353)
||| ||+|++|||+||+|.+||+++|||+||||++.||+.+++.. . .+++..+++++ ..+++||++
T Consensus 83 DDI--~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~----~---~~~~~~~~~~~--~~~~~Gq~~~~~~ 151 (319)
T TIGR02748 83 DDV--IDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIK----D---PRAHQILSHTI--VEVCRGEIEQIKD 151 (319)
T ss_pred ccc--cCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCC----c---HHHHHHHHHHH--HHHHHHHHHHHHh
Confidence 999 99999999999999999999999999999999999998642 1 23445566665 468999987
Q ss_pred ---ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhh
Q 038854 224 ---KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLV 300 (353)
Q Consensus 224 ---~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~ 300 (353)
.+.++++|.+++.+|||+||++||.+|++++|++++.++.+++||+++|++|||+||++|++++++.+||+.++|++
T Consensus 152 ~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~ 231 (319)
T TIGR02748 152 KYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLL 231 (319)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHh
Confidence 24578899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcHHHHHh----------------------------------HHHHHHHHHHHHHHHHHHHhcCCCCCh-HHHHHHH
Q 038854 301 ADKLTYPKLLG----------------------------------IEESKKLADKLNKDAQQQLSEFDQEKA-VPLIALA 345 (353)
Q Consensus 301 ~gk~T~p~l~~----------------------------------le~a~~~~~~~~~~A~~~L~~~~~~~~-~~L~~l~ 345 (353)
+||+|+|++++ +++++++++++.++|.+.|+.||.+.. +.|.+++
T Consensus 232 ~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l~ 311 (319)
T TIGR02748 232 QGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGRAKKPLQEIA 311 (319)
T ss_pred CCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 99999999974 456889999999999999999987766 8899999
Q ss_pred HHHHhccC
Q 038854 346 NYIAYRQN 353 (353)
Q Consensus 346 ~~i~~R~~ 353 (353)
+|+.+|.+
T Consensus 312 ~~~~~R~~ 319 (319)
T TIGR02748 312 KYIGKRKY 319 (319)
T ss_pred HHHHhccC
Confidence 99999974
No 5
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=3.7e-61 Score=478.02 Aligned_cols=280 Identities=32% Similarity=0.456 Sum_probs=251.2
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCC------CccccccHHH
Q 038854 62 APSPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG------HESMAMPAAC 135 (353)
Q Consensus 62 ~~~~~~~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~------~~~~~~~lA~ 135 (353)
.+.++.++.+++.+++..|++.|.+.+....| .+.++++|.+..||||+||+||+++++++|. ..+..+.+|+
T Consensus 90 ~~~~~~~~~~~v~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKriRP~Lvll~a~a~g~~~g~~~~~~~~~~lAa 168 (416)
T PLN02857 90 EPISLSELFEPVADDLQQLNDNLQSIVGAENP-VLMSAAEQIFGAGGKRMRPALVFLVSRATAELAGLKELTTEHRRLAE 168 (416)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHhccCch-HHHHHHHHHHhCCCccHhHHHHHHHHHHhccccCCCcchHHHHHHHH
Confidence 46777889999999999999999999987665 6899999999999999999999999999852 2366789999
Q ss_pred HHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhh
Q 038854 136 SIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGAD 215 (353)
Q Consensus 136 avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~ 215 (353)
+|||||+|||||||| ||++++|||+||+|.+||+++|||+||||++.|++.+++. .. .+++..+++.+ .
T Consensus 169 aiEliH~ASLIHDDI--~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~----~~---~~~~~~~s~~~--~ 237 (416)
T PLN02857 169 ITEMIHTASLIHDDV--LDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANL----DN---LEVIKLISQVI--K 237 (416)
T ss_pred HHHHHHHHHHHHCcc--ccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcC----Cc---HHHHHHHHHHH--H
Confidence 999999999999999 9999999999999999999999999999999999999864 12 23344455544 3
Q ss_pred hhhhhccc-------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccch
Q 038854 216 GLVAGQAE-------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSS 288 (353)
Q Consensus 216 ~l~~GQ~~-------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~ 288 (353)
.++.||+. .+.++++|..++++|||+||+++|++|++++|++++..+.+++||+++|+||||+||++|+++++
T Consensus 238 ~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~ 317 (416)
T PLN02857 238 DFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQST 317 (416)
T ss_pred HHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH
Confidence 57788765 24678999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhCCCcchhhhcCCCcHHHHH---------------------------------hHHHHHHHHHHHHHHHHHHHhcCCC
Q 038854 289 KELGKTAGKDLVADKLTYPKLL---------------------------------GIEESKKLADKLNKDAQQQLSEFDQ 335 (353)
Q Consensus 289 ~~~GK~~g~Dl~~gk~T~p~l~---------------------------------~le~a~~~~~~~~~~A~~~L~~~~~ 335 (353)
+.+||+.|+||.+||+|+|+++ ++++|++.++++.++|++.|+.||.
T Consensus 318 ~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~ 397 (416)
T PLN02857 318 EQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPR 397 (416)
T ss_pred HHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 9999999999999999999987 6788999999999999999999987
Q ss_pred CCh-HHHHHHHHHHHhccC
Q 038854 336 EKA-VPLIALANYIAYRQN 353 (353)
Q Consensus 336 ~~~-~~L~~l~~~i~~R~~ 353 (353)
+.. +.|.+|++|+.+|.+
T Consensus 398 ~~~~~~L~~L~~~~~~R~~ 416 (416)
T PLN02857 398 GAFRSSLEDMVDYNLERIY 416 (416)
T ss_pred CHHHHHHHHHHHHHHhccC
Confidence 766 889999999999964
No 6
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=6.5e-61 Score=464.93 Aligned_cols=274 Identities=29% Similarity=0.451 Sum_probs=248.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHH
Q 038854 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIH 147 (353)
Q Consensus 68 ~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIH 147 (353)
++..++.+++..|++.|.+.+....| .+.++.+|.+..||||+||.|++++++++|++.+.++++|++||+||++||||
T Consensus 5 ~~~~~i~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~~GKrlRp~l~ll~~~~~g~~~~~~~~~A~avEllH~asLiH 83 (323)
T PRK10888 5 KINELTAQDMAGVNAAILEQLNSDVQ-LINQLGYYIISGGGKRIRPMIAVLAARAVGYQGNAHVTIAALIEFIHTATLLH 83 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccch-hHHHHHHHHHhCCCchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHH
Confidence 45778888999999999999876544 59999999999999999999999999999998888999999999999999999
Q ss_pred hCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc----
Q 038854 148 DDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE---- 223 (353)
Q Consensus 148 DDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~---- 223 (353)
||| ||++++|||+||+|.+||+++|||+||||++.|++.+++. +. .+++..+++++ ..++.||++
T Consensus 84 DDI--~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~----~~---~~~~~~~~~~~--~~~~~Gq~~d~~~ 152 (323)
T PRK10888 84 DDV--VDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSL----GS---LKVLEVMSEAV--NVIAEGEVLQLMN 152 (323)
T ss_pred ccc--ccCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhC----CC---HHHHHHHHHHH--HHHHHHHHHHHHh
Confidence 999 9999999999999999999999999999999999999864 12 34455566665 468899987
Q ss_pred ---ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhh
Q 038854 224 ---KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLV 300 (353)
Q Consensus 224 ---~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~ 300 (353)
.++++++|..|+.+|||+||++||.+|++++|++++.++.+++||+++|+||||+||++|++++++.+||+.|+|++
T Consensus 153 ~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~ 232 (323)
T PRK10888 153 VNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLN 232 (323)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhh
Confidence 24688999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcHHHHHh-------------------------------------HHHHHHHHHHHHHHHHHHHhcCCCCCh-HHHH
Q 038854 301 ADKLTYPKLLG-------------------------------------IEESKKLADKLNKDAQQQLSEFDQEKA-VPLI 342 (353)
Q Consensus 301 ~gk~T~p~l~~-------------------------------------le~a~~~~~~~~~~A~~~L~~~~~~~~-~~L~ 342 (353)
+||+|||++++ +++++++++++.++|++.|+.||++.. +.|.
T Consensus 233 ~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~~~~~L~ 312 (323)
T PRK10888 233 EGKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTPWREALI 312 (323)
T ss_pred cCCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence 99999999863 556778889999999999999998766 8999
Q ss_pred HHHHHHHhccC
Q 038854 343 ALANYIAYRQN 353 (353)
Q Consensus 343 ~l~~~i~~R~~ 353 (353)
.+++++.+|.+
T Consensus 313 ~l~~~~~~R~~ 323 (323)
T PRK10888 313 GLAHIAVQRDR 323 (323)
T ss_pred HHHHHHHhCcC
Confidence 99999999975
No 7
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase. Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.
Probab=100.00 E-value=6.6e-61 Score=464.82 Aligned_cols=275 Identities=32% Similarity=0.431 Sum_probs=248.1
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCC---ccccccHHHHHHHHHHH
Q 038854 67 FDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGH---ESMAMPAACSIEMIHTM 143 (353)
Q Consensus 67 ~~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~---~~~~~~lA~avEliH~a 143 (353)
-++.+++.+++..|++.+.+.+...+| .+.++++|++..||||+||.||+++++++|+. .+..+.+|++||+||+|
T Consensus 4 ~~~~~~~~~~l~~v~~~l~~~~~~~~~-~l~~~~~~~~~~gGKrlRp~l~ll~~~~~~~~~~~~~~~~~~A~avEliH~a 82 (322)
T TIGR02749 4 TSLFAPVEDDLYLLTDNLKSLVGARHP-ILYAAAEHLFSAGGKRLRPAIVLLVSRATAEQQELTPRHRRLAEITEMIHTA 82 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCh-HHHHHHHHHHHCCCchHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHH
Confidence 457788999999999999999987766 69999999999999999999999999998754 35678899999999999
Q ss_pred HHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc
Q 038854 144 SLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE 223 (353)
Q Consensus 144 sLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~ 223 (353)
||||||| ||+|++|||+||+|++||+++|||+||||++.|++.+++.. . .+++..+++++ ..++.||++
T Consensus 83 sLiHDDi--iD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~----~---~~~~~~~~~~~--~~~~~Gq~~ 151 (322)
T TIGR02749 83 SLVHDDV--IDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLE----N---LEVVKLISKVI--TDFAEGEIK 151 (322)
T ss_pred HHHHccc--ccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcC----C---HHHHHHHHHHH--HHHHHHHHH
Confidence 9999999 99999999999999999999999999999999999998641 1 23445555555 358899876
Q ss_pred -------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcc
Q 038854 224 -------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296 (353)
Q Consensus 224 -------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g 296 (353)
.++++++|..|+.+|||+||++||++|++++|++++.++.+++||.++|+||||+||++|++++++.+||+.|
T Consensus 152 ~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g 231 (322)
T TIGR02749 152 QGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAG 231 (322)
T ss_pred HHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChh
Confidence 2468899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCcHHHHHh---------------------------------HHHHHHHHHHHHHHHHHHHhcCCCCCh-HHHH
Q 038854 297 KDLVADKLTYPKLLG---------------------------------IEESKKLADKLNKDAQQQLSEFDQEKA-VPLI 342 (353)
Q Consensus 297 ~Dl~~gk~T~p~l~~---------------------------------le~a~~~~~~~~~~A~~~L~~~~~~~~-~~L~ 342 (353)
+||++||+|+|++++ ++++++.++++.++|++.|..||++.. +.|.
T Consensus 232 ~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~~~~~L~ 311 (322)
T TIGR02749 232 SDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSPPREALK 311 (322)
T ss_pred HHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence 999999999999874 578889999999999999999988766 8899
Q ss_pred HHHHHHHhccC
Q 038854 343 ALANYIAYRQN 353 (353)
Q Consensus 343 ~l~~~i~~R~~ 353 (353)
+|++++.+|.+
T Consensus 312 ~l~~~~~~R~~ 322 (322)
T TIGR02749 312 ELVHFVLSRLY 322 (322)
T ss_pred HHHHHHHhcCC
Confidence 99999999975
No 8
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=4.4e-61 Score=466.50 Aligned_cols=275 Identities=32% Similarity=0.466 Sum_probs=245.9
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCc---cccccHHHHHHHHHHH
Q 038854 67 FDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE---SMAMPAACSIEMIHTM 143 (353)
Q Consensus 67 ~~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~---~~~~~lA~avEliH~a 143 (353)
.++..++.+++..|++.|.+.+...+| .+.++++|++..||||+||.||+++++++|++. ...+.+|++||+||+|
T Consensus 5 ~~~~~~~~~~l~~i~~~l~~~~~~~~~-~l~~~~~~~~~~gGKr~Rp~L~ll~~~~~~~~~~~~~~~~~~A~aiEllH~a 83 (323)
T CHL00151 5 SNLLTPIEEELLILEDNLKKLIGSGHP-ILYAAAKHLFSAGGKRIRPAIVLLVAKATGGNMEIKTSQQRLAEITEIIHTA 83 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCh-hHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHH
Confidence 578889999999999999999987766 699999999999999999999999999998854 3456789999999999
Q ss_pred HHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc
Q 038854 144 SLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE 223 (353)
Q Consensus 144 sLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~ 223 (353)
||||||| ||+|++|||+||+|.+||+++|||+||||++.||+.+++.. .... +..+++++ ..++.||++
T Consensus 84 sLiHDDi--~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~----~~~~---~~~~~~~~--~~l~~G~~~ 152 (323)
T CHL00151 84 SLVHDDV--IDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLN----NLEV---VKLISKVI--TDFAEGEIR 152 (323)
T ss_pred HHHHccc--ccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCC----ChHH---HHHHHHHH--HHHHHHHHH
Confidence 9999999 99999999999999999999999999999999999998642 1122 23334443 346677765
Q ss_pred -------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcc
Q 038854 224 -------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296 (353)
Q Consensus 224 -------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g 296 (353)
...+.++|..++.+|||+||++||.+|++++|++++.++.+++||+++|+||||+||++|++++++.+||+.|
T Consensus 153 ~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g 232 (323)
T CHL00151 153 QGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIG 232 (323)
T ss_pred HHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCch
Confidence 2457889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCcHHHHHh---------------------------------HHHHHHHHHHHHHHHHHHHhcCCCCCh-HHHH
Q 038854 297 KDLVADKLTYPKLLG---------------------------------IEESKKLADKLNKDAQQQLSEFDQEKA-VPLI 342 (353)
Q Consensus 297 ~Dl~~gk~T~p~l~~---------------------------------le~a~~~~~~~~~~A~~~L~~~~~~~~-~~L~ 342 (353)
+|+++||+|||++++ ++++++.++++.++|++.|+.||.+.. +.|.
T Consensus 233 ~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~ 312 (323)
T CHL00151 233 SDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSSAKDSLI 312 (323)
T ss_pred hhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence 999999999999986 678999999999999999999987766 8899
Q ss_pred HHHHHHHhccC
Q 038854 343 ALANYIAYRQN 353 (353)
Q Consensus 343 ~l~~~i~~R~~ 353 (353)
.+++|+.+|.|
T Consensus 313 ~l~~~~~~R~~ 323 (323)
T CHL00151 313 EIANFIINRLN 323 (323)
T ss_pred HHHHHHHhccC
Confidence 99999999987
No 9
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=3.1e-60 Score=471.25 Aligned_cols=275 Identities=29% Similarity=0.399 Sum_probs=249.0
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCC--CcchHHHHHHHHHHHhCCCc-----------------
Q 038854 67 FDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAG--GKRVRPVLCLAACDLVGGHE----------------- 127 (353)
Q Consensus 67 ~~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~g--GKr~Rp~L~ll~~~~~g~~~----------------- 127 (353)
.+++..+.+++..|++.|++.+....| .+.++++|++..| |||+||+|++++++++|.+.
T Consensus 82 ~~~~~~i~~~L~~v~~~L~~~v~~~~~-~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~ 160 (422)
T PLN02890 82 LDPFSLVADELSLLANKLRSMVVAEVP-KLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELR 160 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCCh-HHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccchhhccchh
Confidence 567778899999999999999987655 6999999999988 99999999999999998642
Q ss_pred cccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHH
Q 038854 128 SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAE 207 (353)
Q Consensus 128 ~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~ 207 (353)
+.++++|++|||||+|||||||| ||++++|||+||+|.+||+++|||+||||++.|++.++... ..+++..
T Consensus 161 ~~~~~~AaavEliH~ASLVHDDI--iD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~-------~~~~~~~ 231 (422)
T PLN02890 161 TRQQNIAEITEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALK-------NTEVVSL 231 (422)
T ss_pred hhHHHHHHHHHHHHHHHHHHccc--ccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCC-------cHHHHHH
Confidence 23578999999999999999999 99999999999999999999999999999999999997541 2345566
Q ss_pred HHHHHhhhhhhhhccc-------ccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhh
Q 038854 208 LAKYIGADGLVAGQAE-------KDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDD 280 (353)
Q Consensus 208 l~~~i~~~~l~~GQ~~-------~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DD 280 (353)
+++++ ..+++||++ .++++++|..++.+|||+||++||++||+++|++++..+.+++||+++|+||||+||
T Consensus 232 ~s~a~--~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DD 309 (422)
T PLN02890 232 LATAV--EHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDD 309 (422)
T ss_pred HHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67766 478999988 246889999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccchhhhCCCcchhhhcCCCcHHHHH---------------------------------hHHHHHHHHHHHHHHHH
Q 038854 281 ILDLTKSSKELGKTAGKDLVADKLTYPKLL---------------------------------GIEESKKLADKLNKDAQ 327 (353)
Q Consensus 281 ild~~~~~~~~GK~~g~Dl~~gk~T~p~l~---------------------------------~le~a~~~~~~~~~~A~ 327 (353)
++||+++++.+||+.|+||++||+|+|+++ +++++++++++|.++|+
T Consensus 310 iLD~~g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~ 389 (422)
T PLN02890 310 VLDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAA 389 (422)
T ss_pred HHhhcCChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999987 46788999999999999
Q ss_pred HHHhcCCCCC------h-HHHHHHHHHHHhccC
Q 038854 328 QQLSEFDQEK------A-VPLIALANYIAYRQN 353 (353)
Q Consensus 328 ~~L~~~~~~~------~-~~L~~l~~~i~~R~~ 353 (353)
+.|+.||.+. . +.|.+|++++++|.+
T Consensus 390 ~~L~~lp~s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 390 AAIESLPETDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred HHHHhCCCCccccchHHHHHHHHHHHHHHhccC
Confidence 9999998775 3 789999999999974
No 10
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=100.00 E-value=7.4e-55 Score=410.76 Aligned_cols=247 Identities=45% Similarity=0.659 Sum_probs=227.8
Q ss_pred hhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCc-cccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChh
Q 038854 94 VKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE-SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGED 172 (353)
Q Consensus 94 ~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~-~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~ 172 (353)
+.+.++++|.+..|||++||.+++++++++|+++ +.+.++|+++|++|+|+|||||| ||+|++|||+||+|.+||+.
T Consensus 4 ~~l~~~~~~~~~~~GK~~Rp~l~~~~~~~~g~~~~~~~~~la~aiEllh~asLIhDDI--~D~s~~RRG~p~~~~~~G~~ 81 (259)
T cd00685 4 ELLREALRYLLLAGGKRLRPLLVLLAARALGGPELEAALRLAAAIELLHTASLVHDDV--MDNSDLRRGKPTVHKVFGNA 81 (259)
T ss_pred hHHHHHHHHHHHcCCccHhHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHhhh--ccCCcccCCCCcHHHHhCcc
Confidence 4689999999999999999999999999999988 88999999999999999999999 99999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhcccc-------cCChhHHHHHHHhcHHHHHHH
Q 038854 173 VAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEK-------DLGIEHLEFIHEHKTAALLEA 245 (353)
Q Consensus 173 ~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~~-------~~~~~~~~~i~~~KTg~L~~~ 245 (353)
.|||+||+|++.+++.+++...+ ...+++..+++.+ .+++.||+++ ..+.++|.+|+.+|||+||.+
T Consensus 82 ~Ail~gd~l~~~a~~~l~~~~~~----~~~~~~~~~~~~~--~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~ 155 (259)
T cd00685 82 TAILAGDYLLARAFELLARLGNP----YYPRALELFSEAI--LELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAA 155 (259)
T ss_pred cHHHHHHHHHHHHHHHHHhCCCc----cHHHHHHHHHHHH--HHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHH
Confidence 99999999999999999865321 3456677777765 5799999881 578899999999999999999
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHH
Q 038854 246 AVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKD 325 (353)
Q Consensus 246 ~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~ 325 (353)
+|.+|++++|++++.++.+++||+++|++|||+||++|++++++.+||+.++|+++||+|||+++++ ++.++.+.++
T Consensus 156 ~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l---~~~~~~~~~~ 232 (259)
T cd00685 156 APLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL---RELAREYEEK 232 (259)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH---HHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999 8899999999
Q ss_pred HHHHHhcCCCCCh-HHHHHHHHHHHhc
Q 038854 326 AQQQLSEFDQEKA-VPLIALANYIAYR 351 (353)
Q Consensus 326 A~~~L~~~~~~~~-~~L~~l~~~i~~R 351 (353)
|++.|+.++.+.. ..|.++++++.+|
T Consensus 233 a~~~l~~~~~~~~~~~l~~~~~~~~~r 259 (259)
T cd00685 233 ALEALKALPESPAREALRALADFILER 259 (259)
T ss_pred HHHHHHcCCCcHHHHHHHHHHHHHHcC
Confidence 9999999986654 7799999999887
No 11
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=100.00 E-value=2.1e-53 Score=401.16 Aligned_cols=228 Identities=42% Similarity=0.630 Sum_probs=202.6
Q ss_pred HHHHHhHhCCCcchHHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHH
Q 038854 98 ESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLA 177 (353)
Q Consensus 98 ~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~ 177 (353)
++++|++..||||+||.||+++++++|++++.+.++|++|||||++||||||| ||+|++|||+||+|.+||++.|||+
T Consensus 3 ~~~~~~~~~~GK~~Rp~l~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI--~D~s~~RRG~pt~~~~~G~~~Ail~ 80 (260)
T PF00348_consen 3 EPARYYILRGGKRIRPLLVLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDI--IDNSDLRRGKPTVHKKFGNAIAILA 80 (260)
T ss_dssp HHHHHHHHSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHH--HTTCSEETTEECHHHHHHHHHHHHH
T ss_pred HHHHHHhhCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhh--hcccccCCCCccccccccccchhhh
Confidence 67889999999999999999999999999999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc----c--cCChhHHHHHHHhcHHHHHHHHHHHHH
Q 038854 178 GDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE----K--DLGIEHLEFIHEHKTAALLEAAVVLGA 251 (353)
Q Consensus 178 GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~----~--~~~~~~~~~i~~~KTg~L~~~~~~lga 251 (353)
||+|++.|++.+++.....+......++..+...+. ....||.. . ..++++|..|+++|||+||++||++|+
T Consensus 81 gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~--~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga 158 (260)
T PF00348_consen 81 GDYLLALAFELLARLGHFDPSERVLRILELFIEALI--EGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGA 158 (260)
T ss_dssp HHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcc--cceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHH
Confidence 999999999999976411122345555555554432 23456766 2 568999999999999999999999999
Q ss_pred HhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHH
Q 038854 252 ILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQ 329 (353)
Q Consensus 252 ~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~ 329 (353)
+++|++++.++.+++||.++|++|||+||++|++++++..||+.|+||++||+|||++++++.+.+..+++...+.+.
T Consensus 159 ~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~~~~~~~~l~~~~~~ 236 (260)
T PF00348_consen 159 ILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERAREELRELLQEAYGK 236 (260)
T ss_dssp HHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhCHHHHHHHHHHHHcc
Confidence 999999999999999999999999999999999999999999999999999999999999999888887777766553
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=9.4e-41 Score=309.00 Aligned_cols=225 Identities=37% Similarity=0.578 Sum_probs=195.7
Q ss_pred hHHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccc-cChhHHHHHHHHHHHHHHHHH
Q 038854 111 VRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTI-YGEDVAVLAGDALLAYAFEHI 189 (353)
Q Consensus 111 ~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~-~G~~~Avl~GD~Ll~~a~~~l 189 (353)
+||.+++++++++|++.+.+..+++++|+||++++||||| +|++..|||+|++|.+ ||+..|+++||+++..++..+
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 HhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc-----c--cCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHH
Q 038854 190 AVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE-----K--DLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVE 262 (353)
Q Consensus 190 ~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~-----~--~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~ 262 (353)
.+.. ..+++..+.+.+ .+++.||.+ . ..++++|..++++|||++|..+|..++++++.+++..+
T Consensus 79 ~~~~-------~~~~~~~~~~~~--~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~ 149 (236)
T cd00867 79 ARLG-------YPRALELFAEAL--RELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAE 149 (236)
T ss_pred HhCC-------hHHHHHHHHHHH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHH
Confidence 8642 223344445554 478999988 2 56889999999999999999999999999999988999
Q ss_pred HHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcCCCCC---hH
Q 038854 263 KLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEK---AV 339 (353)
Q Consensus 263 ~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~~~~~---~~ 339 (353)
.+++||+++|++|||.||++|+.+|.+..|| .++|+.+||+|||.+++.+ .+.++.+++.+.+..+.+.. ..
T Consensus 150 ~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (236)
T cd00867 150 ALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILARE----RAAEYAEEAYAALEALPPSLPRARR 224 (236)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHHHH----HHHHHHHHHHHHHHhCCCCchHHHH
Confidence 9999999999999999999999999999999 9999999999999999844 44455566666666554332 37
Q ss_pred HHHHHHHHHHhc
Q 038854 340 PLIALANYIAYR 351 (353)
Q Consensus 340 ~L~~l~~~i~~R 351 (353)
.+..++.++.+|
T Consensus 225 ~~~~~~~~~~~r 236 (236)
T cd00867 225 ALIALADFLYRR 236 (236)
T ss_pred HHHHHHHHHHhC
Confidence 788888888765
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.2e-34 Score=260.77 Aligned_cols=229 Identities=24% Similarity=0.364 Sum_probs=199.5
Q ss_pred hhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhH
Q 038854 94 VKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDV 173 (353)
Q Consensus 94 ~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~ 173 (353)
..+.++..|.+..+||++|.-|.++...++..+.++...+..+|||+|++||+.||| -|++.+|||.|++|..||++.
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 467889999999999999999999999999999999988999999999999999999 799999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc--------ccCChhHHHHHHHhcHHHHHHH
Q 038854 174 AVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE--------KDLGIEHLEFIHEHKTAALLEA 245 (353)
Q Consensus 174 Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~--------~~~~~~~~~~i~~~KTg~L~~~ 245 (353)
.||+++|++..|++.+.++.. | ...+++ .+.+ ..++.||.+ .+++.+.|..|+..|||-||.+
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 999999999999999998742 2 223333 2222 258899988 3568999999999999999999
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHH---------------
Q 038854 246 AVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL--------------- 310 (353)
Q Consensus 246 ~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~--------------- 310 (353)
++++.-..+... +.+..+-..+|+.|||+||++++..-+..-.|.+++|+.|||.++|+|+
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 999999987433 4477888899999999999999976666678999999999999999987
Q ss_pred ---------------------hHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 311 ---------------------GIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 311 ---------------------~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
++++++.+.+++..+|..+++....++
T Consensus 246 rqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g~Np 293 (322)
T KOG0777|consen 246 RQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDGENP 293 (322)
T ss_pred HHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 467889999999999999998765444
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.97 E-value=1.1e-30 Score=245.18 Aligned_cols=213 Identities=23% Similarity=0.301 Sum_probs=174.4
Q ss_pred hhHHHHHHHhHhCCCcchHHHHHHHHHHHhCCCc-------cccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcc
Q 038854 94 VKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE-------SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNH 166 (353)
Q Consensus 94 ~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~~g~~~-------~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h 166 (353)
+++.+.+.|.+ .|||..|+..|+-+.+++.++. ..+..++|+||++++.+||.||| ||+|.+|||+||||
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 56777777874 7999999999999999886632 12456899999999999999999 99999999999999
Q ss_pred cccChh-HHHHHHHHHHHHHHHHHHhccCCCC-hHHHHHHHHHHHHHHhhhhhhhhccc---------ccCChhHHHHHH
Q 038854 167 TIYGED-VAVLAGDALLAYAFEHIAVCTKGVS-PARIVRAIAELAKYIGADGLVAGQAE---------KDLGIEHLEFIH 235 (353)
Q Consensus 167 ~~~G~~-~Avl~GD~Ll~~a~~~l~~~~~~~~-~~~~~~~~~~l~~~i~~~~l~~GQ~~---------~~~~~~~~~~i~ 235 (353)
.+-|++ .|||-+-.|-+.-..+|.+...+.. ......++.+.. .....||.+ ..++++.|..|+
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 5999887777777777765444432 223333333332 345678777 346789999999
Q ss_pred HhcHHHH-HHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHH
Q 038854 236 EHKTAAL-LEAAVVLGAILGG-GTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIE 313 (353)
Q Consensus 236 ~~KTg~L-~~~~~~lga~lag-~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le 313 (353)
..|||.+ |.+|+.+|.+++| ++.+.......+...+|..||++||++|+++|++.+||. |.||.++|+||.++.+++
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 456667789999999999999999999999999999997 899999999999987666
Q ss_pred HH
Q 038854 314 ES 315 (353)
Q Consensus 314 ~a 315 (353)
+|
T Consensus 269 ~~ 270 (347)
T KOG0711|consen 269 RA 270 (347)
T ss_pred hc
Confidence 54
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=99.85 E-value=5.1e-19 Score=159.85 Aligned_cols=197 Identities=36% Similarity=0.473 Sum_probs=156.9
Q ss_pred HHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccc---cChhHHHHHHHHHHHHHHHH
Q 038854 112 RPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTI---YGEDVAVLAGDALLAYAFEH 188 (353)
Q Consensus 112 Rp~L~ll~~~~~g~~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~---~G~~~Avl~GD~Ll~~a~~~ 188 (353)
||..++..+.. ..++.++|.+|+++++|||| +|++..|||.|++|.. +|...+++.|+.++..+++.
T Consensus 2 ~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~DDi--~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 (243)
T cd00385 2 RPLAVLLEPEA--------SRLRAAVEKLHAASLVHDDI--VDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEE 71 (243)
T ss_pred cHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhc--ccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHH
Confidence 45555554443 57889999999999999999 9999999999999998 99999999999999999999
Q ss_pred HHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc-----c--cCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHH
Q 038854 189 IAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE-----K--DLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEV 261 (353)
Q Consensus 189 l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~-----~--~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~ 261 (353)
+..... ......+.+.+ .+++.||.. . ..+.++|..+.+.|||.++...|..++...+.+.+..
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 875421 12223333333 356778776 1 4788999999999999999999999988877777777
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHH------------------hHHHHHHHHHHHH
Q 038854 262 EKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL------------------GIEESKKLADKLN 323 (353)
Q Consensus 262 ~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~------------------~le~a~~~~~~~~ 323 (353)
..+..++.++|.++|+.||+.|+.++.+.. +|+.|+|.++ +++.+.+.+..+.
T Consensus 143 ~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~---------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~ 213 (243)
T cd00385 143 EALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLA 213 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCHHHh---------CCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHH
Confidence 899999999999999999999997654431 4789999886 3456777777888
Q ss_pred HHHHHHHhcCCCC
Q 038854 324 KDAQQQLSEFDQE 336 (353)
Q Consensus 324 ~~A~~~L~~~~~~ 336 (353)
+++.+.+..+...
T Consensus 214 ~~~~~~~~~~~~~ 226 (243)
T cd00385 214 EEALKELNELILS 226 (243)
T ss_pred HHHHHHHhcCCCC
Confidence 8888887776544
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=97.02 E-value=0.0054 Score=56.36 Aligned_cols=100 Identities=20% Similarity=0.187 Sum_probs=63.6
Q ss_pred CccccccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHH
Q 038854 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAI 205 (353)
Q Consensus 126 ~~~~~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~ 205 (353)
.++.....+.++-++|+|...||.| |++..+.+...-.+ ...||+|||.-+.-+.+|++.. ...++
T Consensus 31 ~~~~~~~~~~a~~LVq~aLDtHd~V---~~~~~~~~~~~k~R----QLtVLAGDy~S~~yY~lLA~~~-------~i~li 96 (212)
T PF07307_consen 31 SEEEAERYALATMLVQIALDTHDEV---DNAGDESEESSKER----QLTVLAGDYYSGLYYQLLAESG-------DISLI 96 (212)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhhhh---ccccccccHHHHhh----hhhhhhHHHHHHHHHHHHHhCC-------CHHHH
Confidence 5566778889999999999999998 66443333222111 4589999999999999999762 23455
Q ss_pred HHHHHHHhhhhhhhhccc----ccCChhHH-HHHHHhcHHH
Q 038854 206 AELAKYIGADGLVAGQAE----KDLGIEHL-EFIHEHKTAA 241 (353)
Q Consensus 206 ~~l~~~i~~~~l~~GQ~~----~~~~~~~~-~~i~~~KTg~ 241 (353)
..++.++. .+.+.... ...+.++| ..+..-+|+-
T Consensus 97 ~~ls~aI~--eiNE~K~~ly~~~~~~~e~~~~~~~~ies~l 135 (212)
T PF07307_consen 97 RALSEAIK--EINELKMSLYQKKKETAEEYLESVVTIESAL 135 (212)
T ss_pred HHHHHHHH--HHHHHHHHHHHhhhCCHHHHHHHHHHHHHHH
Confidence 56666652 34444433 23344443 3343344543
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=95.91 E-value=0.44 Score=44.91 Aligned_cols=95 Identities=17% Similarity=0.210 Sum_probs=64.1
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCc
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLT 305 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T 305 (353)
.+.++++..+..-.|+...+++.+ ++.... +....++.++|.|+|+.|=+.|+ +.|+..|++.
T Consensus 112 ~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv-----------~eD~~~gR~Y 174 (265)
T cd00683 112 ETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDV-----------GEDARRGRIY 174 (265)
T ss_pred CCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHH-----------HHHHccCCCc
Confidence 367778877777667666665543 332112 34668999999999999988887 3455555555
Q ss_pred HHH----------------------HHhHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 306 YPK----------------------LLGIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 306 ~p~----------------------l~~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
+|. .-.++.-.+.++.+...|.+.+..+|+..
T Consensus 175 lP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~ 228 (265)
T cd00683 175 LPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRS 228 (265)
T ss_pred CCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence 553 22345556678888899999888888543
No 18
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=95.85 E-value=1.1 Score=42.31 Aligned_cols=93 Identities=15% Similarity=0.214 Sum_probs=63.9
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCc
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLT 305 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T 305 (353)
.+.++++..+..-.|.+..+++.+ ++..+ +.....+.++|.|+|+.|=+.|+ +.|+..|++-
T Consensus 104 ~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~----~~~~~~a~~lG~AlqltnilRdv-----------~eD~~~gR~y 165 (266)
T TIGR03465 104 PDFAELDLYCDRVAGAVGRLSARI---FGATD----ARTLEYAHHLGRALQLTNILRDV-----------GEDARRGRIY 165 (266)
T ss_pred CCHHHHHHHHHHhHHHHHHHHHHH---hCCCC----hhHHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCCee
Confidence 467788887777777777766654 33322 23577899999999999988887 4566666666
Q ss_pred HHHH----------------------HhHHHHHHHHHHHHHHHHHHHhcCCCC
Q 038854 306 YPKL----------------------LGIEESKKLADKLNKDAQQQLSEFDQE 336 (353)
Q Consensus 306 ~p~l----------------------~~le~a~~~~~~~~~~A~~~L~~~~~~ 336 (353)
+|.= -.++.-.+.++.+.++|.+.+..+|+.
T Consensus 166 lP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~ 218 (266)
T TIGR03465 166 LPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRR 218 (266)
T ss_pred cCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHh
Confidence 6641 123444566778888888888888753
No 19
>PLN02632 phytoene synthase
Probab=95.81 E-value=0.53 Score=46.28 Aligned_cols=98 Identities=17% Similarity=0.175 Sum_probs=65.9
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCC--HHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCC
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGT--DNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADK 303 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~--~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk 303 (353)
.+.++++..+.+-.|.+..+++.+ ++..+ ....+.+...+.++|+|+|+.|=+.|+ +.|+..|+
T Consensus 159 ~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv-----------~eD~~~GR 224 (334)
T PLN02632 159 ENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILRDV-----------GEDARRGR 224 (334)
T ss_pred CCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHhCCc
Confidence 367788877777777776666654 33222 222345678899999999999988887 45555666
Q ss_pred CcHHHH----------------------HhHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 304 LTYPKL----------------------LGIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 304 ~T~p~l----------------------~~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
+-+|.= -.++.-.+.++.++.+|...+..+|+..
T Consensus 225 vYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~ 280 (334)
T PLN02632 225 VYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPAS 280 (334)
T ss_pred eeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHh
Confidence 555531 1233334678888999999898887644
No 20
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=94.67 E-value=1.5 Score=43.34 Aligned_cols=100 Identities=15% Similarity=0.136 Sum_probs=61.5
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCc
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLT 305 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T 305 (353)
.+.+++...+.+=.|.-=.+.+.+-+. +|...+.......++..+|+++|+.|=+.|+ ++|+.+|++=
T Consensus 129 ~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQlTNIlRDv-----------~ED~~~GR~Y 196 (336)
T TIGR01559 129 QTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQKTNIIRDY-----------LEDINEGRMF 196 (336)
T ss_pred CCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHHHHHHHHHH-----------HhHHhCCCCC
Confidence 567777766644444443344443332 2222222223467899999999999988887 4555566655
Q ss_pred HHHH----------------------HhHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 306 YPKL----------------------LGIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 306 ~p~l----------------------~~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
||.= -.++.-...+..+.++|++.+..++...
T Consensus 197 lP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~al~yl~~l~~~~ 250 (336)
T TIGR01559 197 WPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTYLSRLRDQS 250 (336)
T ss_pred CCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 5532 2344455667788888888888885433
No 21
>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=94.43 E-value=4.5 Score=38.27 Aligned_cols=94 Identities=11% Similarity=0.041 Sum_probs=62.7
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCc
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLT 305 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T 305 (353)
.+.++++..+.+-.|.+..+++. +++..+++ ...++.++|.|+|+.|=+.|+ ++|...|++-
T Consensus 105 ~t~~eL~~Y~~~vAg~vg~l~~~---i~g~~~~~----~~~~A~~lG~AlQltniLRDl-----------~eD~~~gR~Y 166 (266)
T TIGR03464 105 ATWAELLDYCRYSANPVGRLVLD---LYGASDPE----NVALSDAICTALQLINFWQDV-----------GVDYRKGRVY 166 (266)
T ss_pred CCHHHHHHHHHHhHHHHHHHHHH---HcCCCChh----HHHHHHHHHHHHHHHHHHHhh-----------HHHHhcCCcc
Confidence 46788888776666777766554 33333332 346899999999999888887 3455555555
Q ss_pred HHHH----------------------HhHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 306 YPKL----------------------LGIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 306 ~p~l----------------------~~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
+|.= -.++.-.+.++.+..+|...+..+|...
T Consensus 167 LP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~ 220 (266)
T TIGR03464 167 LPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRL 220 (266)
T ss_pred CCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence 5421 1344455667888889988888887543
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=91.62 E-value=2.3 Score=39.82 Aligned_cols=97 Identities=22% Similarity=0.154 Sum_probs=63.0
Q ss_pred CChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchh-hhcCCC
Q 038854 226 LGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKD-LVADKL 304 (353)
Q Consensus 226 ~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~D-l~~gk~ 304 (353)
.+.++++..+..-+|++..+.+.+...- .+. .....++.++|.++|+.|=+.|+ +.| +..|++
T Consensus 110 ~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~-----------~~D~~~~gR~ 173 (267)
T PF00494_consen 110 ETFADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI-----------PEDALRRGRI 173 (267)
T ss_dssp SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH-----------HHH-HHTT--
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh-----------HHHHHhcccc
Confidence 4778888888888888887766544421 222 45778899999999999988887 355 455555
Q ss_pred cHHHH-----------------------HhHHHHHHHHHHHHHHHHHHHhcCCCCCh
Q 038854 305 TYPKL-----------------------LGIEESKKLADKLNKDAQQQLSEFDQEKA 338 (353)
Q Consensus 305 T~p~l-----------------------~~le~a~~~~~~~~~~A~~~L~~~~~~~~ 338 (353)
-+|.= -.+..-.+.++.+.++|.+.+..+|+...
T Consensus 174 ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~~ 230 (267)
T PF00494_consen 174 YLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPPPRA 230 (267)
T ss_dssp -S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TTH
T ss_pred cCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhh
Confidence 55531 12344456677888888888888854443
No 23
>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=87.32 E-value=6.3 Score=38.42 Aligned_cols=71 Identities=18% Similarity=0.193 Sum_probs=52.3
Q ss_pred HhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHh
Q 038854 252 ILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLS 331 (353)
Q Consensus 252 ~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~ 331 (353)
.++|.+.+....+...-+.|=.|.-|.||++| .++++.|++|....+|...|.-....+...|.+.+.
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 34455555555566666778888899999988 367888999988888877777777777777777776
Q ss_pred cCC
Q 038854 332 EFD 334 (353)
Q Consensus 332 ~~~ 334 (353)
..+
T Consensus 124 ~~~ 126 (319)
T TIGR02748 124 EIK 126 (319)
T ss_pred hCC
Confidence 654
No 24
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=86.90 E-value=28 Score=32.89 Aligned_cols=160 Identities=19% Similarity=0.191 Sum_probs=80.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCCC---CCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Q 038854 133 AACSIEMIHTMSLIHDDLPCMDNDPL---RRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELA 209 (353)
Q Consensus 133 lA~avEliH~asLIHDDI~~iD~s~~---RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~ 209 (353)
...++=++|.+.-+.+|+ .|-+.= |..+|....+...+.|...+-.+...++-...-. ++. .-.+.-+.
T Consensus 42 ~~l~~~l~~~a~~~~Nd~--~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l----~~~--~~~~~~~~ 113 (279)
T PRK12884 42 GFLTAFFASGSANALNDY--FDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI----SPL--AFLVVILV 113 (279)
T ss_pred HHHHHHHHHHHHHHHHhh--hhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH----hHH--HHHHHHHH
Confidence 345667899999999999 554432 5556666666667777766665555554332211 111 11111110
Q ss_pred HHHhhhhhhhhcccccCChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchh
Q 038854 210 KYIGADGLVAGQAEKDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSK 289 (353)
Q Consensus 210 ~~i~~~~l~~GQ~~~~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~ 289 (353)
-.+ ....--..+..+. +..+. -|..+..+...|....+......-.+.-+.-.....+++..|+.|.
T Consensus 114 ~~~---~~~Ys~~lK~~~~--~~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~----- 180 (279)
T PRK12884 114 SVL---GILYNWKLKEYGL--IGNLY---VAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDV----- 180 (279)
T ss_pred HHH---HHHHHHhhccccc--hhHHH---HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhh-----
Confidence 000 0000000011110 01111 1223344444554443333222222333344455667778888887
Q ss_pred hhCCCcchhhhcCCCcHHHHHhHHHHHHHH
Q 038854 290 ELGKTAGKDLVADKLTYPKLLGIEESKKLA 319 (353)
Q Consensus 290 ~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~ 319 (353)
..|.+.|+.|+|+++|.+++...+
T Consensus 181 ------e~D~~~G~~Tl~v~~G~~~~~~~~ 204 (279)
T PRK12884 181 ------EGDRLRGARTLAILYGEKIAGRIA 204 (279)
T ss_pred ------hhHHHcCCeeechHhcHHHHHHHH
Confidence 367888999999999888776544
No 25
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=86.86 E-value=5.1 Score=39.23 Aligned_cols=71 Identities=21% Similarity=0.181 Sum_probs=48.8
Q ss_pred HHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHH
Q 038854 251 AILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQL 330 (353)
Q Consensus 251 a~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L 330 (353)
+.+.|.+.+....+..--+.|=.+..|.||+.| +++++.|++|+-..+|-..|.-....+...|.+.+
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 334455555555566666778888999999987 46788889888888776666555555666666665
Q ss_pred hcC
Q 038854 331 SEF 333 (353)
Q Consensus 331 ~~~ 333 (353)
..+
T Consensus 124 ~~~ 126 (323)
T PRK10888 124 TSL 126 (323)
T ss_pred HhC
Confidence 544
No 26
>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=85.88 E-value=32 Score=32.61 Aligned_cols=92 Identities=15% Similarity=0.176 Sum_probs=51.4
Q ss_pred CChhHHHHHHHhcH-HHHHHHHHHHHHHhCC--CCHHHHH--HHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhh
Q 038854 226 LGIEHLEFIHEHKT-AALLEAAVVLGAILGG--GTDNEVE--KLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLV 300 (353)
Q Consensus 226 ~~~~~~~~i~~~KT-g~L~~~~~~lga~lag--~~~~~~~--~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~ 300 (353)
+++++|..+- ..| |..+.+.+ +-...| .+++..+ .++.+-+..+...-+.||+..+.++.. .
T Consensus 158 psl~eYl~~R-~~~~g~~~~~~l--~~~~~g~~lp~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~----------~ 224 (303)
T cd00687 158 PDVAEYLEMR-RFNIGADPCLGL--SEFIGGPEVPAAVRLDPVMRALEALASDAIALVNDIYSYEKEIK----------A 224 (303)
T ss_pred cCHHHHHHHh-hhcccccccHHH--HHHhcCCCCCHHHHhChHHHHHHHHHHHHHHHHHHHHhhHHHHH----------h
Confidence 5788888774 445 43332211 111122 2444333 377788888888899999999854331 2
Q ss_pred cCC-CcHHHHH------hHHHHHHHHHHHHHHHHHHH
Q 038854 301 ADK-LTYPKLL------GIEESKKLADKLNKDAQQQL 330 (353)
Q Consensus 301 ~gk-~T~p~l~------~le~a~~~~~~~~~~A~~~L 330 (353)
.|. .++..++ ..+.|.+.+.+..+++.+..
T Consensus 225 ~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f 261 (303)
T cd00687 225 NGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQF 261 (303)
T ss_pred CCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH
Confidence 233 4444444 45566666655555544433
No 27
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=85.76 E-value=32 Score=32.51 Aligned_cols=58 Identities=14% Similarity=-0.010 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCC-CCCCCCCcccccChhHHHHHHHHHHHHHHHHHH
Q 038854 133 AACSIEMIHTMSLIHDDLPCMDNDP-LRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIA 190 (353)
Q Consensus 133 lA~avEliH~asLIHDDI~~iD~s~-~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~ 190 (353)
+..++=++|.+.-+.+|+-+.|-|. .|+++|...-....+.|...+-.+...++-...
T Consensus 43 ~~l~~~l~~~~~~~~Nd~~D~~iD~~~~~~Rpl~~G~is~~~a~~~~~~l~~~g~~~~~ 101 (276)
T PRK12882 43 AFAAVFLATGAGNAINDYFDREIDRINRPDRPIPSGAVSPRGALAFSILLFAAGVALAF 101 (276)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccccccCCCCCcCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 3455678899999999983333332 257788888888888898888777766664433
No 28
>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=85.41 E-value=8.3 Score=36.18 Aligned_cols=68 Identities=25% Similarity=0.285 Sum_probs=50.3
Q ss_pred CCCH-HHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcC
Q 038854 255 GGTD-NEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEF 333 (353)
Q Consensus 255 g~~~-~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~ 333 (353)
|.++ +....+...-+-+=.+.-|.||+.| .++.+.|++|+-..+|...|.-...-+...|.+.+...
T Consensus 34 g~~~~~~~~~la~aiEllh~asLIhDDI~D------------~s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~ 101 (259)
T cd00685 34 GGPELEAALRLAAAIELLHTASLVHDDVMD------------NSDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARL 101 (259)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHhhhcc------------CCcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhC
Confidence 4444 5556667777788889999999987 35677888888888877777777777777777777665
Q ss_pred C
Q 038854 334 D 334 (353)
Q Consensus 334 ~ 334 (353)
+
T Consensus 102 ~ 102 (259)
T cd00685 102 G 102 (259)
T ss_pred C
Confidence 4
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=83.73 E-value=13 Score=34.95 Aligned_cols=74 Identities=27% Similarity=0.198 Sum_probs=59.5
Q ss_pred HHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHH
Q 038854 249 LGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQ 328 (353)
Q Consensus 249 lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~ 328 (353)
+.+.+.|.+.+....+...-+.|=.++-|.||++| .++++.|++|.-..+|...|.-...-+...|.+
T Consensus 23 ~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D------------~s~~RRG~pt~~~~~G~~~Ail~gd~ll~~a~~ 90 (260)
T PF00348_consen 23 LAAEALGGDPEKAIPLAAAVELIHAASLIHDDIID------------NSDLRRGKPTVHKKFGNAIAILAGDYLLALAFE 90 (260)
T ss_dssp HHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHT------------TCSEETTEECHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhc------------ccccCCCCccccccccccchhhhchHHHHHHHH
Confidence 34444556667777788888889999999999988 367889999999999988888888888888888
Q ss_pred HHhcCC
Q 038854 329 QLSEFD 334 (353)
Q Consensus 329 ~L~~~~ 334 (353)
.+...+
T Consensus 91 ~l~~~~ 96 (260)
T PF00348_consen 91 LLARLG 96 (260)
T ss_dssp HHHHHC
T ss_pred HHHHhh
Confidence 887665
No 30
>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=79.65 E-value=15 Score=35.81 Aligned_cols=64 Identities=22% Similarity=0.193 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcCC
Q 038854 259 NEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFD 334 (353)
Q Consensus 259 ~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~~ 334 (353)
+....+...-+.|=.+.-|.||++| .++++.|++|.-..+|...|.-.-+.+...|.+.+..++
T Consensus 67 ~~~~~~A~avEliH~asLiHDDiiD------------~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~ 130 (322)
T TIGR02749 67 PRHRRLAEITEMIHTASLVHDDVID------------ESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLE 130 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccc------------CccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcC
Confidence 3334455566777788899999988 468889999999888877777666777777777766553
No 31
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=75.29 E-value=83 Score=30.53 Aligned_cols=51 Identities=10% Similarity=0.017 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCCCC---CCCCCcccccChhHHHHHHHHHHHHHHH
Q 038854 135 CSIEMIHTMSLIHDDLPCMDNDPLR---RGKPTNHTIYGEDVAVLAGDALLAYAFE 187 (353)
Q Consensus 135 ~avEliH~asLIHDDI~~iD~s~~R---RG~pt~h~~~G~~~Avl~GD~Ll~~a~~ 187 (353)
.+.=++|.++-+++|+ .|.+.-| +.+|...-+...+.|...+-.++..++-
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 3345689999999999 6654433 5667777777888888877766666553
No 32
>PRK10581 geranyltranstransferase; Provisional
Probab=74.73 E-value=31 Score=33.32 Aligned_cols=70 Identities=23% Similarity=0.220 Sum_probs=51.6
Q ss_pred HhCCCCHHHHHHHHHHHHHHHHHHHhhhhh--hhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHH
Q 038854 252 ILGGGTDNEVEKLRTFARCIGLLFQVVDDI--LDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQ 329 (353)
Q Consensus 252 ~lag~~~~~~~~l~~~g~~lG~afQI~DDi--ld~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~ 329 (353)
.+.|.+++....+..--+.|=.+.-|.||+ +| .+|++.|++|.-..+|...|.-.-..+...|.+.
T Consensus 57 ~~~g~~~~~~~~~A~avEliH~aSLiHDDip~~D------------~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~ 124 (299)
T PRK10581 57 QMFGVSTNTLDAPAAAVECIHAYSLIHDDLPAMD------------DDDLRRGLPTCHVKFGEANAILAGDALQTLAFSI 124 (299)
T ss_pred HHhCCCHHHHHHHHHHHHHHHHHHHHHcCccccc------------CCCccCCCcChHHHhCcchHHHHHHHHHHHHHHH
Confidence 334455555555666667777888999999 77 4788999999999888777776666777777777
Q ss_pred HhcC
Q 038854 330 LSEF 333 (353)
Q Consensus 330 L~~~ 333 (353)
+...
T Consensus 125 l~~~ 128 (299)
T PRK10581 125 LSDA 128 (299)
T ss_pred HHhC
Confidence 7654
No 33
>CHL00151 preA prenyl transferase; Reviewed
Probab=73.80 E-value=21 Score=34.79 Aligned_cols=59 Identities=20% Similarity=0.193 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcC
Q 038854 263 KLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEF 333 (353)
Q Consensus 263 ~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~ 333 (353)
.+...-+.+=.+.-|.||++| .++++.|++|+-..+|...|.-.-..+...|.+.+...
T Consensus 72 ~~A~aiEllH~asLiHDDi~D------------~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~ 130 (323)
T CHL00151 72 RLAEITEIIHTASLVHDDVID------------ECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANL 130 (323)
T ss_pred HHHHHHHHHHHHHHHHccccc------------CccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhC
Confidence 455556667778889999987 46778888888887766555555555555555555443
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=73.53 E-value=77 Score=30.18 Aligned_cols=57 Identities=18% Similarity=0.139 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCC--CC-CCCCCcccccChhHHHHHHHHHHHHHHHHH
Q 038854 133 AACSIEMIHTMSLIHDDLPCMDNDP--LR-RGKPTNHTIYGEDVAVLAGDALLAYAFEHI 189 (353)
Q Consensus 133 lA~avEliH~asLIHDDI~~iD~s~--~R-RG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l 189 (353)
...++=++|.+.-+..|+-+.|-|. .| +.+|...-+...+.|...+-.+...++-..
T Consensus 45 ~~~~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~~~~l~ 104 (281)
T TIGR01474 45 FTVGAILMRGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVALGVL 104 (281)
T ss_pred HHHHHHHHHHHHHHHHhHhhhcccccCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 3345567899999999994333342 23 467888888888888887777666665443
No 35
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=71.89 E-value=14 Score=35.08 Aligned_cols=40 Identities=28% Similarity=0.289 Sum_probs=32.3
Q ss_pred HHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHH
Q 038854 270 CIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLAD 320 (353)
Q Consensus 270 ~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~ 320 (353)
-+-..+++..|+.|.. .|.+.|+.|+|+.+|.++++.+..
T Consensus 172 l~~~~~~~~~d~~D~e-----------~D~~~G~~Tlpv~lG~~~t~~~~~ 211 (285)
T PRK12872 172 LKSFIREIVFDIKDIE-----------GDRKSGLKTLPIVLGKERTLKFLL 211 (285)
T ss_pred HHHHHHHHHHhcccch-----------hHHHcCCcccchhcchHHHHHHHH
Confidence 3456788999999984 577789999999999988876654
No 36
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=70.66 E-value=98 Score=29.31 Aligned_cols=57 Identities=12% Similarity=0.086 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCCC-CCCCCCcccccChhHHHHHHHHHHHHHHHHH
Q 038854 133 AACSIEMIHTMSLIHDDLPCMDNDPL-RRGKPTNHTIYGEDVAVLAGDALLAYAFEHI 189 (353)
Q Consensus 133 lA~avEliH~asLIHDDI~~iD~s~~-RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l 189 (353)
...++=++|.+.-+.+|+-+.|.|.. ++.+|....+...+.|...+-.+...++-..
T Consensus 42 ~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~l~ 99 (279)
T PRK09573 42 AALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLILS 99 (279)
T ss_pred HHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHHHH
Confidence 34556789999999999943333332 3678888888888999888887777766433
No 37
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=69.36 E-value=26 Score=33.74 Aligned_cols=42 Identities=21% Similarity=0.266 Sum_probs=34.0
Q ss_pred HHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHH
Q 038854 271 IGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLN 323 (353)
Q Consensus 271 lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~ 323 (353)
...++.+.+|+.|+. .|-++||.|+|+.+|.+++..++.-..
T Consensus 172 ~~~a~~ii~~irDie-----------~Dr~~G~~Tlpv~lG~~~a~~~~~~l~ 213 (282)
T PRK13105 172 WGMASHAFGAVQDVV-----------ADREAGIASIATVLGARRTVRLAVGLY 213 (282)
T ss_pred HHHHHHHHHhCcchH-----------hHHHcCCccchHHhcHHHHHHHHHHHH
Confidence 366899999999984 577789999999999998887665433
No 38
>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=63.82 E-value=78 Score=28.65 Aligned_cols=39 Identities=28% Similarity=0.179 Sum_probs=27.5
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhc
Q 038854 246 AVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDL 284 (353)
Q Consensus 246 ~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~ 284 (353)
.+.+.+.+.|.+.+....+..--+.|=.+.-+.||+.|=
T Consensus 5 ~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~ 43 (236)
T cd00867 5 LVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDD 43 (236)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccC
Confidence 344444444666666667777778888888999999884
No 39
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=63.77 E-value=1.4e+02 Score=28.71 Aligned_cols=94 Identities=23% Similarity=0.257 Sum_probs=58.9
Q ss_pred ChhHHHHHHHhcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcH
Q 038854 227 GIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTY 306 (353)
Q Consensus 227 ~~~~~~~i~~~KTg~L~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~ 306 (353)
+.++++..+..-.|..-.+ +..+++-.. ..........+|.|+|+.+=+.|+ +.|...|++=+
T Consensus 123 ~~~eL~~Yc~~vAg~vG~l---~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRdv-----------~eD~~~Grvyl 185 (288)
T COG1562 123 DFEELEEYCYGVAGAVGLL---LARILGPDK---DAATRAYARGLGLALQLVNILRDV-----------GEDRRRGRVYL 185 (288)
T ss_pred CHHHHHHHHHHhHHHHHHH---HHHHhCccc---chhhHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCcccC
Confidence 3556665554333433322 334554322 234555566699999999988888 57777777766
Q ss_pred HHH----H------------------hHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038854 307 PKL----L------------------GIEESKKLADKLNKDAQQQLSEFDQEK 337 (353)
Q Consensus 307 p~l----~------------------~le~a~~~~~~~~~~A~~~L~~~~~~~ 337 (353)
|.= + .++.--+.++++...|...+..+|...
T Consensus 186 P~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~~~ 238 (288)
T COG1562 186 PAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGRA 238 (288)
T ss_pred CHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCccc
Confidence 621 1 233444667888889999888887544
No 40
>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=62.31 E-value=1.4e+02 Score=28.19 Aligned_cols=39 Identities=13% Similarity=0.197 Sum_probs=31.1
Q ss_pred HHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHH
Q 038854 272 GLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADK 321 (353)
Q Consensus 272 G~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~ 321 (353)
..+..+.+|+.|+. .|.+.|+.|+|+.+|.++++.++.-
T Consensus 174 ~~~i~~~nd~~D~~-----------~D~~~G~~Tl~v~lG~~~a~~l~~~ 212 (283)
T TIGR01476 174 AHGIMTLNDFKSVE-----------GDRQLGLRSLPVMIGVKRAAIVAVT 212 (283)
T ss_pred HHHHHHHHhccchh-----------hHHHcCCcCcceEEcHHHHHHHHHH
Confidence 34467889999883 6788899999999999888776554
No 41
>PLN02890 geranyl diphosphate synthase
Probab=59.83 E-value=67 Score=32.76 Aligned_cols=59 Identities=20% Similarity=0.168 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcC
Q 038854 263 KLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEF 333 (353)
Q Consensus 263 ~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~ 333 (353)
.+...-+.|=.|.-|.||++| ..|.+.|++|.-..+|-..|.-.-+.+...|...+...
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 455556667778889999988 36788889888888777666665666666666666544
No 42
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=59.71 E-value=12 Score=29.49 Aligned_cols=22 Identities=23% Similarity=0.466 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 038854 258 DNEVEKLRTFARCIGLLFQVVD 279 (353)
Q Consensus 258 ~~~~~~l~~~g~~lG~afQI~D 279 (353)
+...+.+-+||..+|-+||++=
T Consensus 15 et~~e~llRYGLf~GAIFQliC 36 (85)
T PF06783_consen 15 ETFFENLLRYGLFVGAIFQLIC 36 (85)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 4567889999999999999964
No 43
>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=59.23 E-value=1.7e+02 Score=28.17 Aligned_cols=50 Identities=14% Similarity=0.038 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCCC---CCCCCCcccccChhHHHHHHHHHHHHHH
Q 038854 135 CSIEMIHTMSLIHDDLPCMDNDPL---RRGKPTNHTIYGEDVAVLAGDALLAYAF 186 (353)
Q Consensus 135 ~avEliH~asLIHDDI~~iD~s~~---RRG~pt~h~~~G~~~Avl~GD~Ll~~a~ 186 (353)
.+.=++|.++-+++|+ .|.+.- .|.+|........+.+...+-.++..++
T Consensus 61 l~~~l~~~~~n~~NDy--~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~ 113 (306)
T TIGR02056 61 LSGPCLTGYTQTINDF--YDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI 113 (306)
T ss_pred HHHHHHHHHHHHHHhH--hhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 4557899999999999 675432 3556666666777888777765555444
No 44
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=55.53 E-value=91 Score=30.42 Aligned_cols=62 Identities=24% Similarity=0.194 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcCCC
Q 038854 262 EKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQ 335 (353)
Q Consensus 262 ~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~~~ 335 (353)
-.+...-+.|=.+.=|.||++| .+|++.|++|...++|-..|.-.-..+...|.+.+...+.
T Consensus 69 ~~~aaavEliH~~SLiHDDvmD------------~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~ 130 (322)
T COG0142 69 LDLAAAIELIHTASLIHDDLMD------------DDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGS 130 (322)
T ss_pred HHHHHHHHHHHHHHHHHhhccc------------CCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCc
Confidence 3444445556667778999976 4789999999999998877777777778888888877653
No 45
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=51.62 E-value=2.4e+02 Score=27.44 Aligned_cols=57 Identities=11% Similarity=0.001 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCC-CCCC--CCCCcccccChhHHHHHHHHHHHHHHHHHH
Q 038854 134 ACSIEMIHTMSLIHDDLPCMDND-PLRR--GKPTNHTIYGEDVAVLAGDALLAYAFEHIA 190 (353)
Q Consensus 134 A~avEliH~asLIHDDI~~iD~s-~~RR--G~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~ 190 (353)
..+.=++|.++-++.|+-+.|-| ..+| .+|........+.|+..+-.+...++-.+.
T Consensus 78 ~l~~~l~~~a~~~~Nd~~Dr~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~g~~l~~ 137 (314)
T PRK12878 78 FVGAIAMRGAGCTYNDIVDRDIDAKVARTRSRPLPSGQVSRKQAKVFMVLQALVGLAVLL 137 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34556899999999998333333 2344 578888888888887776666555554443
No 46
>PLN02857 octaprenyl-diphosphate synthase
Probab=51.05 E-value=45 Score=33.93 Aligned_cols=38 Identities=29% Similarity=0.357 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHh
Q 038854 262 EKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLG 311 (353)
Q Consensus 262 ~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~ 311 (353)
..+...-+.|=.+.-|.||++|= +|++.|++|.-..+|
T Consensus 164 ~~lAaaiEliH~ASLIHDDI~D~------------s~~RRG~pt~h~~~G 201 (416)
T PLN02857 164 RRLAEITEMIHTASLIHDDVLDE------------SDMRRGKETVHQLYG 201 (416)
T ss_pred HHHHHHHHHHHHHHHHHCccccC------------CcccCCCCCccccCC
Confidence 34445556666777899999883 567777777665554
No 47
>PRK13595 ubiA prenyltransferase; Provisional
Probab=47.58 E-value=1.3e+02 Score=29.06 Aligned_cols=76 Identities=18% Similarity=0.026 Sum_probs=51.7
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHH
Q 038854 243 LEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKL 322 (353)
Q Consensus 243 ~~~~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~ 322 (353)
+..+...|+...|......- + -..--.+++|++.-|+.|+. .|.+.|..|.|+.+|.+.+-.++.-.
T Consensus 155 ~g~p~~~~~~~~g~~~~~~~-l-~a~~~w~~g~dii~ai~Die-----------gDr~~Gi~Slpv~lG~r~a~~~a~~~ 221 (292)
T PRK13595 155 YALPLALPALALGAPVPWPP-L-LALMAWSVGKHAFDAAQDIP-----------ADRAAGTRTVATTLGVRGTALYALAW 221 (292)
T ss_pred HHHHHHHHHHHcCCcchHHH-H-HHHHHHHHHHHHHHhccChH-----------hHHHcCCeechHHhCcHhHHHHHHHH
Confidence 45566677766665432221 1 23345568999999999974 57778999999999999988877765
Q ss_pred HHHHHHHHh
Q 038854 323 NKDAQQQLS 331 (353)
Q Consensus 323 ~~~A~~~L~ 331 (353)
.--|.-.+-
T Consensus 222 ~~~a~~~~~ 230 (292)
T PRK13595 222 FLLAGALLW 230 (292)
T ss_pred HHHHHHHHH
Confidence 554444443
No 48
>PLN00012 chlorophyll synthetase; Provisional
Probab=42.44 E-value=3.7e+02 Score=26.97 Aligned_cols=40 Identities=23% Similarity=0.334 Sum_probs=33.3
Q ss_pred HHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHH
Q 038854 270 CIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLAD 320 (353)
Q Consensus 270 ~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~ 320 (353)
-.++++-+.+|+.|+. .|.+.|+.|+|+.+|.++++.++-
T Consensus 263 l~~lai~ivnd~~Die-----------~Dr~aG~~TLpV~~G~~~a~~l~~ 302 (375)
T PLN00012 263 IAGLGIAIVNDFKSIE-----------GDRALGLQSLPVAFGVETAKWICV 302 (375)
T ss_pred HHHHHHHHHhhhcchh-----------hHHHcCCcccceeechHHHHHHHH
Confidence 4788899999999983 678889999999999888876654
No 49
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=42.22 E-value=1.8e+02 Score=29.29 Aligned_cols=67 Identities=24% Similarity=0.300 Sum_probs=46.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhhhh--hhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHHHHHhcC
Q 038854 256 GTDNEVEKLRTFARCIGLLFQVVDDI--LDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEF 333 (353)
Q Consensus 256 ~~~~~~~~l~~~g~~lG~afQI~DDi--ld~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~~~L~~~ 333 (353)
+.......+..+.+.|=.+-=|.||+ +| -.|++.||+|--.++|-.-|.=.=+-+...|-+.|..+
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 44555678888999999999999999 65 25777788777777765544433345555666666555
Q ss_pred C
Q 038854 334 D 334 (353)
Q Consensus 334 ~ 334 (353)
.
T Consensus 193 ~ 193 (384)
T KOG0776|consen 193 E 193 (384)
T ss_pred c
Confidence 3
No 50
>PRK13591 ubiA prenyltransferase; Provisional
Probab=37.65 E-value=4e+02 Score=26.03 Aligned_cols=40 Identities=25% Similarity=0.326 Sum_probs=31.5
Q ss_pred HHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHH
Q 038854 273 LLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLN 323 (353)
Q Consensus 273 ~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~ 323 (353)
.+..+.+|+.|+. +|..+|+.|+|+.+|.++|+.+..-+.
T Consensus 193 ~~~~iindirDiE-----------GDr~~G~kTLPV~lG~~~A~~l~~~l~ 232 (307)
T PRK13591 193 FINSCVYDFKDVK-----------GDTLAGIKTLPVSLGEQKTRNLLLGIH 232 (307)
T ss_pred HHHHHHHHhhhhH-----------hHHHcCCeeEEEEECHHHHHHHHHHHH
Confidence 3445789999984 678899999999999999987665443
No 51
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=36.46 E-value=4e+02 Score=25.67 Aligned_cols=36 Identities=17% Similarity=0.238 Sum_probs=26.5
Q ss_pred HHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHH
Q 038854 272 GLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKL 318 (353)
Q Consensus 272 G~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~ 318 (353)
-..+-+..|+.|. .+|.+.|+.|+|+++|.+.++..
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 3445666777776 36888999999999988777643
No 52
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=34.96 E-value=35 Score=32.73 Aligned_cols=40 Identities=18% Similarity=0.152 Sum_probs=31.6
Q ss_pred HHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHH
Q 038854 270 CIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLAD 320 (353)
Q Consensus 270 ~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~ 320 (353)
....++.+.+++.|+ ..|.+.|+.|+|+.+|.+.+..++.
T Consensus 176 l~~~~~~~in~i~Di-----------e~D~~aGi~Tlav~lG~~~a~~~~~ 215 (282)
T PRK12875 176 LWAMGMHTFSAIPDI-----------EPDRAAGIRTTATVLGERRTYAYCA 215 (282)
T ss_pred HHHHHHHHHHhccCH-----------HHHHHcCCccchhhccHhhHHHHHH
Confidence 556677788888887 3688899999999999988875543
No 53
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=34.48 E-value=4e+02 Score=25.05 Aligned_cols=51 Identities=14% Similarity=0.104 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCC---CCCCCCCcccccChhHHHHHHHHHHHHHHH
Q 038854 135 CSIEMIHTMSLIHDDLPCMDNDP---LRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187 (353)
Q Consensus 135 ~avEliH~asLIHDDI~~iD~s~---~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~ 187 (353)
.++=+.|.+.-+.+|+ .|-+. .|+.+|-.......+.|...+-.+...++-
T Consensus 44 ~~~~~~~~a~~~~Nd~--~D~~~D~~n~~~Rpl~sG~is~~~a~~~~~~l~~~g~~ 97 (277)
T PRK12883 44 LVVYLGCSGGNTINDY--FDYEIDKINRPNRPLPRGAMSRKAALYYSLLLFAVGLA 97 (277)
T ss_pred HHHHHHHHHHhHHHhh--hhHhccccCCCCCCCCCCccCHHHHHHHHHHHHHHHHH
Confidence 3555667888999998 55432 245667776677778887777666655543
No 54
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=33.08 E-value=1.1e+02 Score=29.46 Aligned_cols=59 Identities=15% Similarity=0.047 Sum_probs=45.3
Q ss_pred ccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHH
Q 038854 131 MPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIA 190 (353)
Q Consensus 131 ~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~ 190 (353)
..++.++=+.-.+.++..|++++|.|. +.|+.|.-.++|.+.|....-.++..++-.+.
T Consensus 163 ~l~~~~~~~~~~a~~ii~~irDie~Dr-~~G~~Tlpv~lG~~~a~~~~~~l~~~a~~~~~ 221 (282)
T PRK13105 163 WAVLAAFFLWGMASHAFGAVQDVVADR-EAGIASIATVLGARRTVRLAVGLYAAAAVLML 221 (282)
T ss_pred HHHHHHHHHHHHHHHHHHhCcchHhHH-HcCCccchHHhcHHHHHHHHHHHHHHHHHHHH
Confidence 335566666678889999998777776 57999999999999998877777666654443
No 55
>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=32.83 E-value=3.8e+02 Score=24.37 Aligned_cols=94 Identities=13% Similarity=0.175 Sum_probs=49.3
Q ss_pred cCChhHHHHHHHhcHHHHHHHHHHHHHHhCCC-CHH---HHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhh
Q 038854 225 DLGIEHLEFIHEHKTAALLEAAVVLGAILGGG-TDN---EVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLV 300 (353)
Q Consensus 225 ~~~~~~~~~i~~~KTg~L~~~~~~lga~lag~-~~~---~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~ 300 (353)
.+++++|..+-+.-+|..+...+.. ..++.. ++. ..+.-..+-+..+..--+.||+..+. +++.
T Consensus 165 ~ps~eeYl~~R~~t~g~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~-----------KE~~ 232 (270)
T PF03936_consen 165 IPSLEEYLEMRRHTSGVYPCLALIE-FALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYK-----------KEIA 232 (270)
T ss_dssp --SHHHHHHHHHHHTSHHHHHHHHH-HHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHH-----------HHHH
T ss_pred CCCHHHHHHhccccccccHHHHHHH-HhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhh-----------cchh
Confidence 3578888887544444433332221 111211 122 22221125555566666679999984 3344
Q ss_pred cCCC-cHHHHH------hHHHHHHHHHHHHHHHHHHH
Q 038854 301 ADKL-TYPKLL------GIEESKKLADKLNKDAQQQL 330 (353)
Q Consensus 301 ~gk~-T~p~l~------~le~a~~~~~~~~~~A~~~L 330 (353)
+|.. .+..++ .+|.|.+.+.+.++++.+.+
T Consensus 233 ~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~ef 269 (270)
T PF03936_consen 233 RGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREF 269 (270)
T ss_dssp TTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhc
Confidence 4443 333322 56778888888888877754
No 56
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=31.51 E-value=4.5e+02 Score=24.82 Aligned_cols=39 Identities=21% Similarity=0.212 Sum_probs=28.8
Q ss_pred HHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHH
Q 038854 271 IGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLAD 320 (353)
Q Consensus 271 lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~ 320 (353)
+-.++-+.+|+.|+. .|.+.|+.|+|+.+|.++++.+..
T Consensus 180 ~~~~~~~~n~~~D~~-----------~D~~~G~~Tl~v~lG~~~a~~~~~ 218 (293)
T PRK06080 180 LIGAVLLANNIRDIE-----------TDRENGKNTLAVRLGDKNARRLHA 218 (293)
T ss_pred HHHHHHHhcCCCcch-----------hHHHcCCeeEEeeECcHhHHHHHH
Confidence 345556778888873 678889999999988877765544
No 57
>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=29.39 E-value=4.3e+02 Score=23.84 Aligned_cols=62 Identities=27% Similarity=0.338 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCC-HHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHH
Q 038854 245 AAVVLGAILGGGT-DNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKK 317 (353)
Q Consensus 245 ~~~~lga~lag~~-~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~ 317 (353)
....+|....+.+ ....-.+.-+.-.++......+|+.|+. +|.+.|+.|+|+.+|.+++..
T Consensus 131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~-----------~D~~~g~~Tl~v~~G~~~~~~ 193 (257)
T PF01040_consen 131 LLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIE-----------GDRKAGRRTLPVLLGEKKARY 193 (257)
T ss_pred HhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHH-----------HHHHcCCcchHHHHHHHHHHH
Confidence 4444444444443 2333344444467778888888999984 577789999999998887765
No 58
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=29.30 E-value=5e+02 Score=24.58 Aligned_cols=54 Identities=19% Similarity=0.166 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCC--CC-CCCCCcccccChhHHHHHHHHHHHHHHHH
Q 038854 135 CSIEMIHTMSLIHDDLPCMDNDP--LR-RGKPTNHTIYGEDVAVLAGDALLAYAFEH 188 (353)
Q Consensus 135 ~avEliH~asLIHDDI~~iD~s~--~R-RG~pt~h~~~G~~~Avl~GD~Ll~~a~~~ 188 (353)
.++=++|.+.-+..|+-+.|-|. .| |.+|..--+-..+.|+..|-.++..++-.
T Consensus 49 ~g~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~l~~~~~~l 105 (282)
T PRK12848 49 LGVFLMRAAGCVINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFLL 105 (282)
T ss_pred HHHHHHHHHHHHHHhhHHhccCCCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHH
Confidence 34458899999999994333332 23 46888888888888988887777766543
No 59
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=28.96 E-value=1.5e+02 Score=32.17 Aligned_cols=72 Identities=22% Similarity=0.355 Sum_probs=52.5
Q ss_pred CCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHhhhhhhhhccc-ccCChhHH
Q 038854 153 MDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAE-KDLGIEHL 231 (353)
Q Consensus 153 iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~l~~~i~~~~l~~GQ~~-~~~~~~~~ 231 (353)
+|+.++|-.+|-...+ .+|| .+++-+++...+...+.+++++.+++..+.++ .+-.||+- .+.+.+++
T Consensus 603 v~Ee~FRY~GPkPqSK---EtaI----ImlADSvEAAvRSl~~p~~~ki~~~v~~II~~----rl~DgQl~~s~lT~~El 671 (700)
T COG1480 603 VKEEEFRYPGPKPQSK---ETAI----IMLADSVEAAVRSLKEPNPEKIEEMVDKIIQA----RLQDGQLSESGLTLKEL 671 (700)
T ss_pred CCHhhccCCCCCCCcc---hhhe----ehhHhHHHHHHhhccCCCHHHHHHHHHHHHHH----HHhcCCccccCCcHHHH
Confidence 5999999888876655 3443 24556677777766677788888888777654 47789987 56888888
Q ss_pred HHHH
Q 038854 232 EFIH 235 (353)
Q Consensus 232 ~~i~ 235 (353)
+.|.
T Consensus 672 ~~I~ 675 (700)
T COG1480 672 EIIA 675 (700)
T ss_pred HHHH
Confidence 8775
No 60
>PLN02878 homogentisate phytyltransferase
Probab=28.89 E-value=92 Score=30.01 Aligned_cols=50 Identities=20% Similarity=0.203 Sum_probs=36.9
Q ss_pred HHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHHHHHHHHH
Q 038854 267 FARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQ 327 (353)
Q Consensus 267 ~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~~~~~~A~ 327 (353)
|..-+..+.-+..|+.|+. .|...|..|+|+.+|.+++..++--+..-|-
T Consensus 164 f~~~f~~~i~i~KDi~Die-----------GD~~~Gi~Tlpv~lG~~~~~~i~~~ll~~aY 213 (280)
T PLN02878 164 FMCFFSVVIALFKDIPDVE-----------GDRIFGIRSFSVRLGQKRVFWLCVNLLEMAY 213 (280)
T ss_pred HHHHHHHHHHHHhhCcCch-----------hHHHCCCceechhhChHHHHHHHHHHHHHHH
Confidence 4444455555899999985 4667899999999999998877765555443
No 61
>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=28.89 E-value=5e+02 Score=27.22 Aligned_cols=95 Identities=18% Similarity=0.138 Sum_probs=59.2
Q ss_pred cCChhHHHHHHHhcHHHHH-HHHHHHHHHhCC-CCHHHHHHH---HHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhh
Q 038854 225 DLGIEHLEFIHEHKTAALL-EAAVVLGAILGG-GTDNEVEKL---RTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDL 299 (353)
Q Consensus 225 ~~~~~~~~~i~~~KTg~L~-~~~~~lga~lag-~~~~~~~~l---~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl 299 (353)
.++.++|......-+|... ...+..| ++. .+++..+.+ .++....+....+.||+..+-.+ .
T Consensus 384 vPt~eEYl~~~~~S~g~~~~~~~~~~~--~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE-----------~ 450 (542)
T cd00684 384 VPTFEEYMENALVSIGLGPLLLTSFLG--MGDILTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDE-----------M 450 (542)
T ss_pred CCCHHHHHhhhhHHhhHHHHHHHHHHh--cCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHH-----------H
Confidence 3578888877644444432 2222222 121 455655543 36777888889999999988432 2
Q ss_pred hcCC-CcHHHHH------hHHHHHHHHHHHHHHHHHHHhc
Q 038854 300 VADK-LTYPKLL------GIEESKKLADKLNKDAQQQLSE 332 (353)
Q Consensus 300 ~~gk-~T~p~l~------~le~a~~~~~~~~~~A~~~L~~ 332 (353)
..|. .+...++ ..|.|.+.+.+.++++.+.+.+
T Consensus 451 ~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~ 490 (542)
T cd00684 451 KRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNE 490 (542)
T ss_pred hcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 2333 3555554 4678888888999999888864
No 62
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=28.07 E-value=5.7e+02 Score=24.84 Aligned_cols=32 Identities=22% Similarity=0.375 Sum_probs=25.1
Q ss_pred HhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHH
Q 038854 276 QVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKL 318 (353)
Q Consensus 276 QI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~ 318 (353)
.+.|++.|+ .+|.++||.|+|+.+|.+++..+
T Consensus 206 ll~Nn~~D~-----------e~D~~~gk~TL~v~lG~~~a~~l 237 (317)
T PRK13387 206 MLANNLRDL-----------DEDIKNHRYTLVYYIGREKGVVL 237 (317)
T ss_pred HHhcCCccc-----------hhHHHcCCeeeeeeEcHHhHHHH
Confidence 556788777 37889999999999887777644
No 63
>PF04844 Ovate: Transcriptional repressor, ovate; InterPro: IPR006458 This group of sequences contain an uncharacterised domain of about 70 residues found exclusively in plants, generally toward the C terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana (Mouse-ear cress). Other regions of these proteins tend to consist largely of low-complexity sequence. Function is not known.
Probab=26.45 E-value=2.5e+02 Score=20.58 Aligned_cols=51 Identities=18% Similarity=0.251 Sum_probs=35.6
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHHhCCCCchhHHHHHHHhHhCCCcchHHHHHHHHHHH
Q 038854 64 SPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDL 122 (353)
Q Consensus 64 ~~~~~~~~~l~~~~~~v~~~l~~~~~~~~p~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~ 122 (353)
.+.-||+.-|.+... .+ ....+..+.+.+..++....|..++.++-++...
T Consensus 3 DP~~DFr~SM~EMI~------~~--~i~~~~~LeeLL~cYL~LN~~~~H~~Iv~aF~dv 53 (59)
T PF04844_consen 3 DPYEDFRESMVEMIE------EN--GIRDWDDLEELLACYLSLNSPEHHKFIVEAFVDV 53 (59)
T ss_pred CHHHHHHHHHHHHHH------Hc--CCCCHHHHHHHHHHHHHhCChhhhhHHHHHHHHH
Confidence 345677776665332 22 2335678999999999899999999988776554
No 64
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=23.07 E-value=1.9e+02 Score=27.78 Aligned_cols=39 Identities=18% Similarity=0.132 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHH
Q 038854 137 IEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVL 176 (353)
Q Consensus 137 vEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl 176 (353)
.=+...+.++..++|++++|. |.|++|.-.++|.+.+..
T Consensus 174 ~~l~~~~~~~in~i~Die~D~-~aGi~Tlav~lG~~~a~~ 212 (282)
T PRK12875 174 GWLWAMGMHTFSAIPDIEPDR-AAGIRTTATVLGERRTYA 212 (282)
T ss_pred HHHHHHHHHHHHhccCHHHHH-HcCCccchhhccHhhHHH
Confidence 336666778888997666664 689999999999998764
No 65
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=22.98 E-value=1.2e+02 Score=29.82 Aligned_cols=96 Identities=18% Similarity=0.120 Sum_probs=51.6
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhH-------------
Q 038854 246 AVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGI------------- 312 (353)
Q Consensus 246 ~~~lga~lag~~~~~~~~l~~~g~~lG~afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~l------------- 312 (353)
-|+.|++.+-.+.+..+.+-+ +=+|||-+.|+||=..|....-- ..|++.=-.+++-.+..
T Consensus 36 HceGgsi~al~~~~~~~~~i~----fIVAyQTIsDYLDNLcDrs~~~d--~~~Fr~LH~am~dAl~p~a~~~dYY~~~~~ 109 (330)
T PF10776_consen 36 HCEGGSIYALLPGENRDELIR----FIVAYQTISDYLDNLCDRSTSLD--PKDFRQLHQAMLDALDPGAPLSDYYRYRPE 109 (330)
T ss_pred CCcchhhhhhcCCccHhhHHH----HHHHHHHHHHHHHhhhhccCCCC--hHHHHHHHHHHHHHcCCCCCcchHHHcCCc
Confidence 466666655333333334444 36899999999997655332111 12222111111111100
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCh--HHHHHHHHH
Q 038854 313 EESKKLADKLNKDAQQQLSEFDQEKA--VPLIALANY 347 (353)
Q Consensus 313 e~a~~~~~~~~~~A~~~L~~~~~~~~--~~L~~l~~~ 347 (353)
+.--.....+++.+++.+..+|.-.. ..+.+++.+
T Consensus 110 ~dDGGYL~~LV~tCq~~l~~lP~y~~V~~~l~~la~l 146 (330)
T PF10776_consen 110 QDDGGYLRALVRTCQQVLAQLPSYELVRPYLLELARL 146 (330)
T ss_pred cccChHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 00013456888999999999986554 566677664
No 66
>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=22.59 E-value=6.5e+02 Score=23.67 Aligned_cols=50 Identities=12% Similarity=0.014 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCC--CC-CCCCCcccccChhHHHHHHHHHH
Q 038854 133 AACSIEMIHTMSLIHDDLPCMDNDP--LR-RGKPTNHTIYGEDVAVLAGDALL 182 (353)
Q Consensus 133 lA~avEliH~asLIHDDI~~iD~s~--~R-RG~pt~h~~~G~~~Avl~GD~Ll 182 (353)
...++=++|.+.-+.+|+-+.|.|. .| +.+|-.......+.|...+-.+.
T Consensus 41 ~~l~~~l~~~a~~~~Nd~~D~~~D~~~~Rt~~RPl~sG~is~~~a~~~~~~~~ 93 (282)
T TIGR01475 41 ILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLISKKEARTMIILSL 93 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccCCCCccCCCCCCCCCcCHHHHHHHHHHHH
Confidence 3455668899999999983322332 22 56787777778888877765443
No 67
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=21.70 E-value=3.5e+02 Score=20.26 Aligned_cols=53 Identities=19% Similarity=0.210 Sum_probs=38.1
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHhCCCCc-hhHHHHHHHhHhCCCcchHHHHHHHHHHH
Q 038854 62 APSPTFDFKSYMIQKASTVNQALDAAVSLKDP-VKIHESMRYSLLAGGKRVRPVLCLAACDL 122 (353)
Q Consensus 62 ~~~~~~~~~~~l~~~~~~v~~~l~~~~~~~~p-~~l~~~~~y~~~~gGKr~Rp~L~ll~~~~ 122 (353)
++.+.-||+.-|.+....- ....+ ..+.+.+..++...+|..++.++-++...
T Consensus 7 S~DPy~DFr~SM~EMI~~~--------~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~dl 60 (66)
T TIGR01568 7 SDDPYEDFRRSMEEMIEER--------ELEADWKELEELLACYLDLNPKKSHRFIVRAFVDI 60 (66)
T ss_pred CCChHHHHHHHHHHHHHHc--------CCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHHHH
Confidence 3466788888888754321 22334 67889999999899999999888776554
No 68
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=20.97 E-value=2.9e+02 Score=26.15 Aligned_cols=57 Identities=23% Similarity=0.262 Sum_probs=40.9
Q ss_pred cccHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHH
Q 038854 130 AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187 (353)
Q Consensus 130 ~~~lA~avEliH~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~ 187 (353)
..-++..+-++-...++..|++++++|. +.|+.|.-..+|.+.|...--.++..++-
T Consensus 170 ~~~~~l~~~l~~~~~~~~n~~~D~~~D~-~~G~~Tl~v~lG~~~a~~~~~~l~~~~~~ 226 (293)
T PRK06080 170 VFLPALPCGLLIGAVLLANNIRDIETDR-ENGKNTLAVRLGDKNARRLHAALLALAYL 226 (293)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCcchhHH-HcCCeeEEeeECcHhHHHHHHHHHHHHHH
Confidence 4445666677777788889998777765 57999999999998876554444444443
No 69
>PLN02878 homogentisate phytyltransferase
Probab=20.85 E-value=2.7e+02 Score=26.81 Aligned_cols=46 Identities=17% Similarity=0.264 Sum_probs=35.8
Q ss_pred HHHHHHHhCCCCCCCCCCCCCCCCcccccChhHHHHHHHHHHHHHHH
Q 038854 141 HTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187 (353)
Q Consensus 141 H~asLIHDDI~~iD~s~~RRG~pt~h~~~G~~~Avl~GD~Ll~~a~~ 187 (353)
-.+-.+..|+|++++|.. .|..|.-.++|.+.+....-.++..++-
T Consensus 169 ~~~i~i~KDi~DieGD~~-~Gi~Tlpv~lG~~~~~~i~~~ll~~aY~ 214 (280)
T PLN02878 169 SVVIALFKDIPDVEGDRI-FGIRSFSVRLGQKRVFWLCVNLLEMAYA 214 (280)
T ss_pred HHHHHHHhhCcCchhHHH-CCCceechhhChHHHHHHHHHHHHHHHH
Confidence 344568899998888865 5999999999998877766677666665
No 70
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=20.33 E-value=57 Score=31.68 Aligned_cols=36 Identities=22% Similarity=0.236 Sum_probs=27.2
Q ss_pred HHHhhhhhhhcccchhhhCCCcchhhhcCCCcHHHHHhHHHHHHHHH
Q 038854 274 LFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLAD 320 (353)
Q Consensus 274 afQI~DDild~~~~~~~~GK~~g~Dl~~gk~T~p~l~~le~a~~~~~ 320 (353)
+-...|++.|+ .+|.+.||.|+|+.+|.++++.+..
T Consensus 189 ~IL~~Nn~rD~-----------e~D~~~Gk~TL~v~lG~~~a~~ly~ 224 (304)
T PRK07419 189 LILFCSHFHQV-----------EDDLAAGKRSPIVRLGTKRGAQLLP 224 (304)
T ss_pred HHHHHcCCcch-----------hhHHHcCCcceeeeechHhHHHHHH
Confidence 33456788887 3788999999999998887765543
Done!