Query 036368
Match_columns 378
No_of_seqs 178 out of 1297
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 11:59:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02632 phytoene synthase 100.0 4.7E-70 1E-74 537.4 38.0 322 54-375 6-328 (334)
2 TIGR03464 HpnC squalene syntha 100.0 1.8E-63 3.8E-68 477.0 31.5 264 104-373 2-266 (266)
3 TIGR03465 HpnD squalene syntha 100.0 6.3E-63 1.4E-67 473.0 31.9 264 104-373 2-265 (266)
4 cd00683 Trans_IPPS_HH Trans-Is 100.0 2.1E-61 4.5E-66 462.0 31.6 263 97-364 1-265 (265)
5 PF00494 SQS_PSY: Squalene/phy 100.0 2.7E-57 5.8E-62 433.1 24.2 257 103-363 1-267 (267)
6 COG1562 ERG9 Phytoene/squalene 100.0 2.7E-56 5.8E-61 429.8 31.0 282 90-376 4-287 (288)
7 TIGR01559 squal_synth farnesyl 100.0 1.3E-47 2.8E-52 376.7 29.1 272 96-371 2-294 (336)
8 KOG4411 Phytoene/squalene synt 100.0 3.2E-37 7E-42 279.7 26.9 261 93-361 9-276 (292)
9 KOG1459 Squalene synthetase [L 99.9 5.4E-27 1.2E-31 225.3 15.6 314 53-377 80-404 (413)
10 cd00867 Trans_IPPS Trans-Isopr 99.9 9E-22 2E-26 184.2 13.0 205 109-338 1-234 (236)
11 cd00385 Isoprenoid_Biosyn_C1 I 99.8 1.1E-19 2.5E-24 166.0 12.3 216 109-324 1-228 (243)
12 KOG1459 Squalene synthetase [L 99.7 8.4E-17 1.8E-21 155.4 11.9 271 94-367 31-316 (413)
13 TIGR02749 prenyl_cyano solanes 96.2 0.37 8E-06 47.7 17.8 138 189-326 142-304 (322)
14 PLN02890 geranyl diphosphate s 96.1 0.53 1.2E-05 48.4 18.7 140 188-327 235-399 (422)
15 cd00685 Trans_IPPS_HT Trans-Is 96.1 0.44 9.6E-06 45.4 17.1 125 188-327 116-244 (259)
16 PRK10888 octaprenyl diphosphat 95.6 1.1 2.5E-05 44.3 18.0 137 189-326 139-305 (323)
17 TIGR02748 GerC3_HepT heptapren 95.2 1.2 2.7E-05 44.0 16.7 139 188-326 137-301 (319)
18 PRK10581 geranyltranstransfera 94.8 0.27 6E-06 48.2 10.7 125 190-326 152-280 (299)
19 PLN02857 octaprenyl-diphosphat 94.0 0.83 1.8E-05 46.9 12.7 139 188-326 235-398 (416)
20 CHL00151 preA prenyl transfera 92.7 1.8 4E-05 42.8 12.5 139 188-326 142-305 (323)
21 COG0142 IspA Geranylgeranyl py 91.8 5.3 0.00011 39.6 14.4 137 188-324 142-302 (322)
22 PF00348 polyprenyl_synt: Poly 91.6 2.6 5.6E-05 40.2 11.7 74 193-266 119-194 (260)
23 cd00868 Terpene_cyclase_C1 Ter 90.6 12 0.00026 35.3 15.2 194 111-317 34-258 (284)
24 cd00684 Terpene_cyclase_plant_ 85.6 53 0.0012 34.9 19.9 204 113-331 272-507 (542)
25 PF03936 Terpene_synth_C: Terp 84.2 27 0.00059 32.6 13.3 174 111-288 50-253 (270)
26 PF06330 TRI5: Trichodiene syn 77.7 65 0.0014 32.7 13.7 164 112-290 76-259 (376)
27 cd00687 Terpene_cyclase_nonpla 77.1 71 0.0015 30.6 26.9 200 111-322 45-270 (303)
28 PLN02279 ent-kaur-16-ene synth 69.1 2E+02 0.0043 32.3 16.8 194 121-328 515-739 (784)
29 KOG0776 Geranylgeranyl pyropho 67.4 40 0.00086 34.3 9.5 118 207-326 229-368 (384)
30 cd00686 Terpene_cyclase_cis_tr 51.0 2.5E+02 0.0054 28.4 11.7 162 117-290 81-259 (357)
31 PHA01083 hypothetical protein 49.5 54 0.0012 28.9 6.1 61 244-311 20-90 (149)
32 PRK05255 hypothetical protein; 45.2 75 0.0016 28.7 6.5 62 149-218 106-169 (171)
33 TIGR01439 lp_hng_hel_AbrB loop 38.5 12 0.00025 25.0 0.3 21 268-288 5-25 (43)
34 PRK02899 adaptor protein; Prov 35.3 38 0.00083 31.2 3.2 44 270-315 11-54 (197)
35 PF07278 DUF1441: Protein of u 33.7 76 0.0016 28.1 4.6 54 148-201 66-143 (152)
36 COG3028 Uncharacterized protei 32.1 1.7E+02 0.0037 26.6 6.5 63 149-219 116-180 (187)
37 COG5204 SPT4 Transcription elo 23.5 43 0.00093 27.3 1.2 17 261-277 90-107 (112)
38 PF04751 DUF615: Protein of un 23.3 2E+02 0.0044 25.5 5.5 59 150-216 96-156 (157)
39 PF15496 DUF4646: Domain of un 22.1 53 0.0011 27.9 1.5 37 264-309 26-63 (123)
40 PF09712 PHA_synth_III_E: Poly 22.1 4.4E+02 0.0096 25.7 8.2 85 131-218 196-281 (293)
41 KOG3426 NADH:ubiquinone oxidor 21.3 1.9E+02 0.0041 24.4 4.5 49 119-170 21-71 (124)
42 PRK02315 adaptor protein; Prov 20.4 95 0.0021 29.3 3.0 44 270-315 11-54 (233)
No 1
>PLN02632 phytoene synthase
Probab=100.00 E-value=4.7e-70 Score=537.39 Aligned_cols=322 Identities=71% Similarity=1.164 Sum_probs=299.0
Q ss_pred CccchhhhHHHHHHhhhhhhhhhhh-hhccCCCCCChhhHHHHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHH
Q 036368 54 IPQSTALHVSEIVERQSQDNSLAME-DACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWC 132 (378)
Q Consensus 54 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~ 132 (378)
+..+++++|++++++|+.....+.. .....+++..+..++++|++|.++++++|+|||++++|||++.|+++++||+||
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~ai~alYAf~ 85 (334)
T PLN02632 6 AAASSEEKVYEVVLKQAALVRKAARRSVRPRATSLSPALLEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWC 85 (334)
T ss_pred CCCccHhHHHHHHHHHHHHHHHhcccccCCCCCCCCcccchHHHHHHHHHHhhcCchHHHHHHhCCHHHHHHHHHHHHHH
Confidence 5568999999999999998887622 111345566778999999999999999999999999999999999999999999
Q ss_pred HHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHH
Q 036368 133 RRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELY 212 (378)
Q Consensus 133 R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~ 212 (378)
|++|||+|+++.+.++.++|+||++.|+.++.|.|.||+..+|.+++.+++|+.++|.+||+||++|+...+|+|++||+
T Consensus 86 R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g~~~~pv~~aL~~~~~~~~L~~~~~~~li~g~~~Dl~~~~~~t~~eL~ 165 (334)
T PLN02632 86 RRTDELVDGPNASHITPAALDRWEARLEDLFDGRPYDMLDAALADTVSKFPLDIQPFRDMIEGMRMDLVKSRYENFDELY 165 (334)
T ss_pred HHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCCCCCHHHHH
Confidence 99999999988877778899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhc
Q 036368 213 LYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFAR 292 (378)
Q Consensus 213 ~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~ 292 (378)
.|||+|||+||+|+++++|..+......+.+.+.|.++|+|+|||||||||+||+++||||||.|+|++||+++++++.+
T Consensus 166 ~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv~eD~~~GRvYLP~e~L~~~Gv~~edl~~~ 245 (334)
T PLN02632 166 LYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAALALGIANQLTNILRDVGEDARRGRVYLPQDELAQFGLTDEDIFAG 245 (334)
T ss_pred HHHHHhhHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeCCHHHHHHcCCCHHHHhcC
Confidence 99999999999999999997653222234567899999999999999999999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHHH
Q 036368 293 KVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAY 372 (378)
Q Consensus 293 ~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~ 372 (378)
..+++++.++.+++++|+.||++|+.++..||+++++++++++.+|+.||++|+++||++|++|+++|+++|+|++++++
T Consensus 246 ~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r~~v~~a~~~y~~iL~~i~~~~~~v~~~R~~l~~~~Kl~~~~~~~ 325 (334)
T PLN02632 246 KVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASRWPVWASLLLYRQILDAIEANDYDNFTKRAYVGKWKKLLALPLAY 325 (334)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhHHHHHHHHHHHHHHHHHHHHcCCCcCCCCCccCHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred Hhh
Q 036368 373 NRA 375 (378)
Q Consensus 373 ~~~ 375 (378)
+++
T Consensus 326 ~~~ 328 (334)
T PLN02632 326 ARA 328 (334)
T ss_pred Hhh
Confidence 764
No 2
>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=100.00 E-value=1.8e-63 Score=476.98 Aligned_cols=264 Identities=29% Similarity=0.445 Sum_probs=251.4
Q ss_pred HhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCC-CCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhC
Q 036368 104 AEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGP-NATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKF 182 (378)
Q Consensus 104 r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~-~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~ 182 (378)
+++++|||+|++|+|+++|+++++||+|||++|||+|++ ..+.++.++|+||++.+++++.|.|.||+..+|.++++++
T Consensus 2 ~~~~~sf~~a~~~lp~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g~~~~pv~~aL~~~~~~~ 81 (266)
T TIGR03464 2 VAHYENFPVASLLLPARLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSGEPAAPVFVALARTVQRH 81 (266)
T ss_pred CCccCcHHHHHHhCCHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHc
Confidence 468899999999999999999999999999999999997 4445667889999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHh
Q 036368 183 PLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRD 262 (378)
Q Consensus 183 ~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRD 262 (378)
++|.++|.+||+||++|+.+.+|+|++||+.|||+|||+||+|+++++|..++. ..+.|.++|+|+||||||||
T Consensus 82 ~l~~~~~~~li~~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~~~------~~~~A~~lG~AlQltniLRD 155 (266)
T TIGR03464 82 GLPIEPFLDLLDAFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGASDPE------NVALSDAICTALQLINFWQD 155 (266)
T ss_pred CCChHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCCChh------HHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999975432 35789999999999999999
Q ss_pred HHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHHHHHHHHHH
Q 036368 263 VGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREIL 342 (378)
Q Consensus 263 l~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~~~ly~~iL 342 (378)
++||+++||||||.|+|++||++++|+.++..+++++.++.+++++|+.||.+|+.++..+|.+++.++++++.+|+.||
T Consensus 156 l~eD~~~gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~~~~y~~iL 235 (266)
T TIGR03464 156 VGVDYRKGRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRLGLELALIVRGGLRIL 235 (266)
T ss_pred hHHHHhcCCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCCCCCCCcccChHHHHHHHHHHHH
Q 036368 343 DAIEENDYDNLTKRAYVGRMKKFLMLPQAYN 373 (378)
Q Consensus 343 ~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~~ 373 (378)
++|+++||++|++|+++|+++|+|+++++.+
T Consensus 236 ~~l~~~~~~~~~~r~~~~~~~kl~~~~~a~~ 266 (266)
T TIGR03464 236 EKIERQGYDVLRERPKLGKFDWAGLLLRALW 266 (266)
T ss_pred HHHHHcCCCCCCCCCcCCHHHHHHHHHHHhC
Confidence 9999999999999999999999999999864
No 3
>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=100.00 E-value=6.3e-63 Score=473.02 Aligned_cols=264 Identities=34% Similarity=0.596 Sum_probs=253.8
Q ss_pred HhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCC
Q 036368 104 AEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFP 183 (378)
Q Consensus 104 r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~ 183 (378)
+.+|+|||++++|+|++.|+++++||+|||++|||+|+..++.++.++|+||++.+++++.|.|.|||..+|.+++..++
T Consensus 2 ~~~s~sF~~a~~~lp~~~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g~~~~pv~~al~~~~~~~~ 81 (266)
T TIGR03465 2 AASGSSFYYGMRLLPPERRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAGAPSHPVARALADPARRFD 81 (266)
T ss_pred CCCcCcHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHcC
Confidence 56899999999999999999999999999999999999777777889999999999999999999999999999999999
Q ss_pred CChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHhH
Q 036368 184 LDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDV 263 (378)
Q Consensus 184 l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRDl 263 (378)
++.++|.+||+||++|+...+|+|++||+.|||+|||+||+|+++++|..+ +...+.|.++|+|+|+||||||+
T Consensus 82 l~~~~~~~li~g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~~------~~~~~~a~~lG~AlqltnilRdv 155 (266)
T TIGR03465 82 LPQEDFLEVIDGMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARIFGATD------ARTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCCC------hhHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999998643 23578999999999999999999
Q ss_pred HHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHHHHHHHHHHH
Q 036368 264 GEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILD 343 (378)
Q Consensus 264 ~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~~~ly~~iL~ 343 (378)
+||+.+||||||.|+|++||++++++..+..+++++.++.+++++|+.||++|+.++..+|+++++++++++.+|+.||+
T Consensus 156 ~eD~~~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~~~~~~~~~~~~~iL~ 235 (266)
T TIGR03465 156 GEDARRGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQRAARAMAAIYRALLD 235 (266)
T ss_pred HHHHhCCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHCCCCCCCCCcccChHHHHHHHHHHHH
Q 036368 344 AIEENDYDNLTKRAYVGRMKKFLMLPQAYN 373 (378)
Q Consensus 344 ~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~~ 373 (378)
+|+++||++|++|+++|+++|+|++|++.+
T Consensus 236 ~i~~~~~~~~~~r~~~~~~~k~~~~~~~~~ 265 (266)
T TIGR03465 236 EIEADGFQVLRQRVSLTPLRKLWIALRTWL 265 (266)
T ss_pred HHHHCCCCCCCCCCcCCHHHHHHHHHHHHh
Confidence 999999999999999999999999999865
No 4
>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=100.00 E-value=2.1e-61 Score=462.02 Aligned_cols=263 Identities=41% Similarity=0.715 Sum_probs=250.4
Q ss_pred HHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCC-cccHHHHHHHHHHHHHHHcCC-CCcHHHHH
Q 036368 97 ERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNAT-YMGSVVLDRWEERLQDIFYGR-PYDMLDAA 174 (378)
Q Consensus 97 ~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~-~~~~~~L~~Wr~~L~~i~~g~-p~~pv~~a 174 (378)
.+|.++++++|+|||++++|+|++.|+++++||+|||++|||+|++..+ ..+.++|+||++.|++++.|. +.|||..+
T Consensus 1 ~~c~~~~~~~~~sf~~a~~~lp~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~pv~~a 80 (265)
T cd00683 1 AYCRAILRKGSRSFYLASRLLPPELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWGGAPTHPVLRA 80 (265)
T ss_pred CHHHHHHHHhCCcHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcCCCCCChHHHH
Confidence 3799999999999999999999999999999999999999999998876 677889999999999999854 67999999
Q ss_pred HHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHH
Q 036368 175 LTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGN 254 (378)
Q Consensus 175 L~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~Al 254 (378)
|.+++++++++.++|.+||+||++|+...+|+|++||+.|||+|||+||+|+++++|.... +...+.|.++|+|+
T Consensus 81 l~~~~~~~~l~~~~~~~li~g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~~~-----~~~~~~A~~lG~Al 155 (265)
T cd00683 81 LADLARRYGIPREPFRDLLAGMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGASSD-----EAALERARALGLAL 155 (265)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCCCC-----hHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999996311 34578999999999
Q ss_pred HHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHH
Q 036368 255 QLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSS 334 (378)
Q Consensus 255 QLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~ 334 (378)
||||||||+++|+++||||||.|+|++||++++++..+..+++++.++.+++++|+.||..|+.++..+|++.+++++.+
T Consensus 156 qltnilRdv~eD~~~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~ 235 (265)
T cd00683 156 QLTNILRDVGEDARRGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSRFCVRAA 235 (265)
T ss_pred HHHHHHHHHHHHHccCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCcccChHHH
Q 036368 335 LLIYREILDAIEENDYDNLTKRAYVGRMKK 364 (378)
Q Consensus 335 ~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~k 364 (378)
+.+|+.||++|+++||++|+.|+++++++|
T Consensus 236 ~~~y~~il~~i~~~~~~~~~~r~~~~~~~k 265 (265)
T cd00683 236 AMLYRTILDEIEARGYDVLSVRVRVPKARK 265 (265)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Confidence 999999999999999999999999998875
No 5
>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=100.00 E-value=2.7e-57 Score=433.12 Aligned_cols=257 Identities=37% Similarity=0.672 Sum_probs=225.8
Q ss_pred HHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcC------CCCcHHHHHHH
Q 036368 103 CAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYG------RPYDMLDAALT 176 (378)
Q Consensus 103 ~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g------~p~~pv~~aL~ 176 (378)
+|++|+|||++++|+|++.|+++++||+|||++|||+|+++.+..+.++|+||++.+++++.+ .+.|||..+|.
T Consensus 1 lr~~~~sf~~a~~~lP~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~ 80 (267)
T PF00494_consen 1 LRKHSRSFYLASLLLPKEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALA 80 (267)
T ss_dssp -HHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHH
T ss_pred CCCCCccHHHHHHHCCHHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHH
Confidence 578999999999999999999999999999999999999998888889999999999999942 35699999999
Q ss_pred HHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHH
Q 036368 177 DTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQL 256 (378)
Q Consensus 177 ~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQL 256 (378)
++++.++++.++|.+||+||++|+.+.+|+|++||+.|||+|||+||+|+++++|..++ .+...++|.++|.|+|+
T Consensus 81 ~~~~~~~l~~~~l~~li~~~~~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~----~~~~~~~a~~lG~alql 156 (267)
T PF00494_consen 81 DLVRRYGLPREPLLELIDGMEMDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHDP----DEAARDAARALGRALQL 156 (267)
T ss_dssp HHHCCSHHHHHHHHHHHHHHHHCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSSTS----HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhhHHHHHHHHHHhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc----hhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999998432 23578999999999999
Q ss_pred HHHHHhHHHH-HhcCCCCCCHHhHHhcCCChHhhhhcc-CCHHHHHHHHHHHHHHHHHHHHHHHhhhcc-CccCCHHHHH
Q 036368 257 TNILRDVGED-ASRGRVYLPQDELAQFGLCDKDVFARK-VTDNWREFMKEQIKRARTFFNMAEEGASQL-DKDSRWPVWS 333 (378)
Q Consensus 257 tNiLRDl~eD-~~~GR~YLP~d~L~~~Gvs~edl~~~~-~~~~~~~~~~~l~~~A~~~l~~A~~~~~~L-p~~~r~~v~~ 333 (378)
||||||+++| +++||||||.|+|++||++++|+..+. .+++++.++.+++.+|+.+|++|+.++..+ |+.+++++++
T Consensus 157 ~nilRd~~~D~~~~gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~~~~~~~~ 236 (267)
T PF00494_consen 157 TNILRDIPEDALRRGRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPPPRARPAVAA 236 (267)
T ss_dssp HHHHHTHHHH-HHTT---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TTHHHHHHH
T ss_pred HHHHHHhHHHHHhcccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhhhHHHHH
Confidence 9999999999 899999999999999999999999886 888899999999999999999999999999 7778988999
Q ss_pred HHHHHHHHHHHHHHCCCC-CCCCCcccChHH
Q 036368 334 SLLIYREILDAIEENDYD-NLTKRAYVGRMK 363 (378)
Q Consensus 334 ~~~ly~~iL~~Ie~~~~~-vf~~r~~ls~~~ 363 (378)
++.+|..+|++|+++||+ +|++|+++++|+
T Consensus 237 ~~~~~~~~l~~l~~~~~~~v~~~r~~~~~~r 267 (267)
T PF00494_consen 237 AAALYRAILDKLERNGYDPVFQRRVKVSKWR 267 (267)
T ss_dssp HHHHHHHHHHHHHHTTT--GSSS-----HH-
T ss_pred HHHHHHHHHHHHHcCCCcccCCCCCcCCCCC
Confidence 999999999999999999 889999999985
No 6
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=2.7e-56 Score=429.78 Aligned_cols=282 Identities=40% Similarity=0.680 Sum_probs=261.2
Q ss_pred hhHHHHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCC--
Q 036368 90 MFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRP-- 167 (378)
Q Consensus 90 ~~l~~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p-- 167 (378)
+....++++|.++++++|+|||++++|+|+++|++++++|+|||++|||+|++..+......+.+|+..+...++|.|
T Consensus 4 ~~~~~~~~~c~~i~~~~srtf~la~~~lp~~~R~av~alYa~~R~~Ddv~D~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 83 (288)
T COG1562 4 MEIMEALDYCLDILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDGVSDPDLPAEILLAWRRELDGDFSGQPAS 83 (288)
T ss_pred cchhHHHHHHHHHHHHhCcchHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHhccccCCCcc
Confidence 346778999999999999999999999999999999999999999999999998884444556666666777777764
Q ss_pred CcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHH
Q 036368 168 YDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGA 247 (378)
Q Consensus 168 ~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A 247 (378)
.|||..+|.+++.+++++.++|.+|++||++|+...+|.+++||+.||++|||+||+|++.|+|.... ....+.|
T Consensus 84 ~~pv~~al~~~~~~~~~~~~~~~~~~da~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~~-----~~~~~~a 158 (288)
T COG1562 84 DHPVLAALVEVARRFGLPREAFPALIDAMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDKD-----AATRAYA 158 (288)
T ss_pred cCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCcccc-----hhhHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999997531 2235667
Q ss_pred HHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccC
Q 036368 248 LNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327 (378)
Q Consensus 248 ~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~ 327 (378)
..||.|+|+||||||++||..+||+|||.|+|.+||++.+|+.++.++++++.+|+.++.+|+.|+..|+.++..||..+
T Consensus 159 ~~lG~A~QlvNilRdv~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~~~ 238 (288)
T COG1562 159 RGLGLALQLVNILRDVGEDRRRGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGRA 238 (288)
T ss_pred HHHHHHHHHHHHHHHhHHHHhCCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCccc
Confidence 77999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHHHHhhh
Q 036368 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQ 376 (378)
Q Consensus 328 r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~~~~~ 376 (378)
++++..+..+|..++++|+++++++|+++..+++++|+|+++++.++..
T Consensus 239 ~~~~~~~~~~~~~~~~~i~a~~~~vl~~~~~l~~~~~~~~~~~~~~~~~ 287 (288)
T COG1562 239 QLAVLAAALLYAYLLDAIEADPADVLSQRAVLPKLRKLWLLLKAWLRGF 287 (288)
T ss_pred cchhhHHHHHHHHHHHHHHccchhhhccCcccCcchHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999999999988653
No 7
>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=100.00 E-value=1.3e-47 Score=376.70 Aligned_cols=272 Identities=16% Similarity=0.138 Sum_probs=220.8
Q ss_pred HHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHc------CCCCc
Q 036368 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFY------GRPYD 169 (378)
Q Consensus 96 ~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~------g~p~~ 169 (378)
.++|.++++.+|+|||+++++||+++|++++++|+|||.+|||+|++..+. ..++.+|++..+.+.. +.+ |
T Consensus 2 ~~~C~~~l~~~SrSF~~ai~~Lp~~lR~aV~~~Yl~cR~~DdIeDd~~~~~--~~kl~~l~~~~~~l~~~~~~~~~~~-~ 78 (336)
T TIGR01559 2 LGFCYELLNLTSRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDMTISV--DKKIPLLRDFHEKIYDPDWRFTESD-N 78 (336)
T ss_pred hHHHHHHHhhcCccHHHHHHHcCHHHHHHHHHHHHHHHhccccccCCCCCH--HHHHHHHHHHHHHHhccCcccCCCC-C
Confidence 578999999999999999999999999999999999999999999876543 3566666655544443 221 4
Q ss_pred HHHHHH----HHHHHhCCCChHHHHHHH--------HHHHhhcCCCCC--CCHHHHHHHHHHhhhHHHHHHHhhhCcCCC
Q 036368 170 MLDAAL----TDTVFKFPLDIKPFRDMI--------EGMRMDTRKFRY--EDFQELYLYCYYVAGTVGLMSVPVMGIAPD 235 (378)
Q Consensus 170 pv~~aL----~~~v~~~~l~~~~l~~li--------eg~~~DL~~~~~--~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~ 235 (378)
|...+| ...+..+..-.+++.++| +||++|+.+.+| +|++||+.|||+|||+||+|++++++..+.
T Consensus 79 ~~~~~L~~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~ 158 (336)
T TIGR01559 79 EKDRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGF 158 (336)
T ss_pred hhhHHHHHhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCC
Confidence 444333 333333322223455555 999999999999 999999999999999999999999964211
Q ss_pred CCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHH
Q 036368 236 SSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNM 315 (378)
Q Consensus 236 ~~~~~~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~ 315 (378)
.........+.|.+||.|+|+||||||++||+.+||+|||.|+|.+||++.+|+..+.+++++..++.+++.+|+.||..
T Consensus 159 ~~~~~~~~~~~A~~lG~aLQlTNIlRDv~ED~~~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~ 238 (336)
T TIGR01559 159 EDPSLGESEALSNSMGLFLQKTNIIRDYLEDINEGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATD 238 (336)
T ss_pred CCcchhhhHHHHHHHHHHHHHHHHHHHHHhHHhCCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHH
Confidence 10001123578999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCcc-CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHH
Q 036368 316 AEEGASQLDKD-SRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQA 371 (378)
Q Consensus 316 A~~~~~~Lp~~-~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a 371 (378)
|..++..|+.. .+....+|..+.-..|..+.+| .++|++.+++++.....++.++
T Consensus 239 al~yl~~l~~~~~~~fcaip~~mAi~TL~~~~~n-~~~~~~~VKi~r~~~~~~~~~~ 294 (336)
T TIGR01559 239 CLTYLSRLRDQSIFNFCAIPQVMAIATLALCYNN-PQVFQGNVKIRKGTTVKLILDS 294 (336)
T ss_pred HHHHHHhCCCcchhHHHHHHHHHHHHHHHHHhcC-hhhcCCCceecHHHHHHHHHHc
Confidence 99999999644 4556788889999999999554 5799999999988877766543
No 8
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=3.2e-37 Score=279.69 Aligned_cols=261 Identities=19% Similarity=0.241 Sum_probs=240.1
Q ss_pred HHHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhh-hccCCCCCcccHHHHHHHHHHHHHHHcCCC----
Q 036368 93 EEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDE-LVDGPNATYMGSVVLDRWEERLQDIFYGRP---- 167 (378)
Q Consensus 93 ~~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~Dd-ivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p---- 167 (378)
..|.. |-..++.++...|++.+.+|.++|+++++|.|||.++.. .+|....+.++.+||+||+|.++.+|.-.|
T Consensus 9 ~~A~s-c~~~vr~ydy~~ylc~l~lp~e~r~aafaLrAfNVE~ar~~~d~~~~p~ia~mRL~fW~daIdk~y~~~p~~v~ 87 (292)
T KOG4411|consen 9 RSALS-CVQQVRNYDYHHYLCLLELPTEMRKAAFALRAFNVELARIKVDTRKGPAIAMMRLQFWKDAIDKIYGISPLPVP 87 (292)
T ss_pred hhHHH-HHHHHHhhhHHHHHHHHhCcHHHHHHHHHHHHhhHHHHHHhhccccCcHHHHHHHHHHHHHHHHHcCCCCCCCC
Confidence 45555 999999999999999999999999999999999999999 567777888999999999999999997765
Q ss_pred CcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHH
Q 036368 168 YDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGA 247 (378)
Q Consensus 168 ~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A 247 (378)
+||++.+|..++..+++.+.++.+++++++.|.....|+++.||++|.+.+-|++.++.+++.|..... ++++|
T Consensus 88 ~qPva~aL~~~~~~~~~nk~~L~rlV~aR~r~~~d~~fesI~eLeeY~e~TissLL~l~l~agg~~~~~------AdhaA 161 (292)
T KOG4411|consen 88 RQPVAIALCSFAAGHNANKDMLLRLVEARQRTIGDRQFESINELEEYGESTISSLLCLQLDAGGKVLPM------ADHAA 161 (292)
T ss_pred CcHHHHHHHHHHhccccCHHHHHHHHHHhhcCCcccchHHHHHHHHHHHhHHHHHHHHHHHhcCccccc------hHHHH
Confidence 699999999999999999999999999999999889999999999999999999999999999976543 47999
Q ss_pred HHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhh-hccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCcc
Q 036368 248 LNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVF-ARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKD 326 (378)
Q Consensus 248 ~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~-~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~ 326 (378)
.|+|.|.+++|+||.++...++|-.|||.|.|..||++++|+. +....+.+..++.+++..|+.|+..|++.++.+|+.
T Consensus 162 shlGkA~gia~llrs~p~~~~r~~~~iPadv~~lhGvtq~~il~~k~~~~g~~~~~fd~as~an~hL~~AR~l~~kVP~~ 241 (292)
T KOG4411|consen 162 SHLGKAYGIANLLRSTPPLLARGIVLIPADVMSLHGVTQLDILYKKKKLDGMVGMTFDLASEANRHLIDARSLIEKVPKA 241 (292)
T ss_pred HHHhHHHHHHHHHHhccHHHhCCCccccHHHHHHcCCCHHHHHhhccchhhhhhHHHHHHHHHHHHHHHHHhHhhhCCHH
Confidence 9999999999999999999999999999999999999996665 566778899999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCC-CcccCh
Q 036368 327 SRWPVWSSLLIYREILDAIEENDYDNLTK-RAYVGR 361 (378)
Q Consensus 327 ~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~-r~~ls~ 361 (378)
+| |++++......||+.|++++|++|++ .....+
T Consensus 242 vr-p~ll~tv~td~~l~~l~k~nfdi~~p~~~~R~~ 276 (292)
T KOG4411|consen 242 VR-PALLATVTTDYILKTLEKNNFDIYSPHLQRRNP 276 (292)
T ss_pred HH-HHHHHhhhHHHHHHHHHHccccccCHhhhcCCc
Confidence 98 88888899999999999999999987 444333
No 9
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.95 E-value=5.4e-27 Score=225.29 Aligned_cols=314 Identities=29% Similarity=0.393 Sum_probs=278.5
Q ss_pred CCccchhhhHHHHHHhhhhhhhhhhhhhc----cCCCCC-----ChhhHHHHHHHHHHHHHhcCcchHHHHhcCCHHHHH
Q 036368 53 GIPQSTALHVSEIVERQSQDNSLAMEDAC----RSKPQF-----HPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQK 123 (378)
Q Consensus 53 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~-----~~~~l~~a~~~C~~i~r~~s~sfyla~~llP~~~R~ 123 (378)
.++++++..++.++.||..++.-+-+... ...|++ .-..|.++|+ +++.+..+.|+.+...+-.+.++
T Consensus 80 sI~~d~kvpil~~fhk~i~~~~w~f~~s~~k~r~~l~qf~~v~~ef~~L~e~Yq---eviaeitk~mg~Gma~~~~~~v~ 156 (413)
T KOG1459|consen 80 SIPLDKKVPILRVFHKQIYLVDWQFRESSPKDRQLLPQFVVVSGEFLNLGEGYQ---EVIAEITKRMGLGMALFIPEEVE 156 (413)
T ss_pred cccccccccHHHHHHHHHhhcCceecCCChhhhhhccccccchHHHHHhhHHHH---HHHHHHHHHHhchHHHhhHHHHh
Confidence 47899999999999999999998722111 113433 2234666665 88888899999999988888899
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCCCChHHHH-HHHHHHHhh-cC
Q 036368 124 AIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFR-DMIEGMRMD-TR 201 (378)
Q Consensus 124 al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~l~~~~l~-~lieg~~~D-L~ 201 (378)
+++..|.|||.++.+|+.+....+..+.|+.|....+++++|.+-...-..+.+...+...+.++|. ++|.|+.+| |.
T Consensus 157 ti~d~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~l~ns~glfLqktnIirdy~ed~~d~r~Fwp~eIwg~y~d~L~ 236 (413)
T KOG1459|consen 157 TIWDYDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQLSNSMGLFLQKTNIIRDYLEDPVDGRPFWPREIWGKYMDKLK 236 (413)
T ss_pred HHHHHHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHHHhcccchHHHHhHHHHHHHhccccCCccChHHHHHHHHHHHH
Confidence 9999999999999999999988888999999999999999998877777888889999999999998 999999999 99
Q ss_pred CCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHh
Q 036368 202 KFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQ 281 (378)
Q Consensus 202 ~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~ 281 (378)
..+|++.+|+..||+...+|.|+|-.+.+ +..-+.+..+++.+.+...|++.+.|++|++..+|..+|++|||.
T Consensus 237 d~~~~en~dl~l~Cln~m~tnaL~hv~d~-l~yls~l~~qsvfnfcaipqimai~Tlal~~nn~dvfrG~Vklrk----- 310 (413)
T KOG1459|consen 237 DFRYPENDDLALQCLNEMVTNALMHVPDV-LTYLSKLRTQSVFNFCAIPQIMAIATLALCYNNEDVFRGNVKLRK----- 310 (413)
T ss_pred hhhCccchhHHHHHHHHHHHHHhhccHHH-HHHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCHhHhccceeecC-----
Confidence 99999999999999999999999998876 444445556889999999999999999999999999999999999
Q ss_pred cCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccCh
Q 036368 282 FGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGR 361 (378)
Q Consensus 282 ~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~ 361 (378)
|++.++++++...++|++++.....+++..++++....-.|....+|+++.....|+. .+.++.+.+++|++|+++..
T Consensus 311 -Gl~~~~I~~~k~~~~v~~~f~~y~~~i~~k~d~~dpnflklsask~~qv~esl~~~~~-~~~il~n~~~~f~k~~~v~~ 388 (413)
T KOG1459|consen 311 -GLAVELILASKTMDKVRNIFYMYLRDIRMKFDEADPNFLKLSASKTEQVWESLLLYRR-PDEILANRYNNFTKRIYVGF 388 (413)
T ss_pred -CchHHHHHhcccHHHHHHHHHHHHHHHHhhCCccCCCchhhhhhhHHHHHHHHHHhhc-cccccccccccccchhHHHH
Confidence 8999999999999999999999999999999999988777777778999999988887 89999999999999999999
Q ss_pred HHHHHHHHHHHHhhhc
Q 036368 362 MKKFLMLPQAYNRAQS 377 (378)
Q Consensus 362 ~~kl~~l~~a~~~~~~ 377 (378)
-.++..+..+|.++.+
T Consensus 389 V~~i~al~~ay~~~v~ 404 (413)
T KOG1459|consen 389 VKKIAALPLAYAKSVS 404 (413)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999999998765
No 10
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=99.87 E-value=9e-22 Score=184.22 Aligned_cols=205 Identities=25% Similarity=0.296 Sum_probs=160.0
Q ss_pred chHHHHhcCCH----------HHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHH-HHHHHHHHHcCCCCcHHHHHHHH
Q 036368 109 TFYLGTLLMTE----------ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDR-WEERLQDIFYGRPYDMLDAALTD 177 (378)
Q Consensus 109 sfyla~~llP~----------~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~-Wr~~L~~i~~g~p~~pv~~aL~~ 177 (378)
+|+++++++|+ ..+.++..||+|++..|||+|+.......+....| |-+.+. +..| .+++..++..
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~a-i~~g--d~l~~~a~~~ 77 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALA-ILAG--DYLLARAFQL 77 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHH-HHHH--HHHHHHHHHH
Confidence 47888889998 99999999999999999999987766555556666 665433 2333 4677777877
Q ss_pred HHH-----hCCCChHHHHHHHHHHHhhcCCCC--CCCHHHHHHHHHH-hhhHHHHHHHhhhCcCCCCCCchhhHHHHHHH
Q 036368 178 TVF-----KFPLDIKPFRDMIEGMRMDTRKFR--YEDFQELYLYCYY-VAGTVGLMSVPVMGIAPDSSSSAQSIYNGALN 249 (378)
Q Consensus 178 ~v~-----~~~l~~~~l~~lieg~~~DL~~~~--~~t~~dL~~Y~~~-vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~ 249 (378)
+.+ .+.+..+.+.+|++|+.+|+...+ +.|++++..||++ |||.+|.++..+....+......+.+.+.+.+
T Consensus 78 l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (236)
T cd00867 78 LARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRA 157 (236)
T ss_pred HHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHH
Confidence 766 567778899999999999998876 9999999999999 99999998887765443321123567789999
Q ss_pred HHHHHHHHHHHHhHHHHH----------hcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHh
Q 036368 250 LGVGNQLTNILRDVGEDA----------SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEG 319 (378)
Q Consensus 250 LG~AlQLtNiLRDl~eD~----------~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~ 319 (378)
+|+|+|++|.++|+.+|. .+||+|||.+++ .+.+...++.+++.+...
T Consensus 158 lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~tlp~~~~----------------------~~~~~~~~~~~~~~~~~~ 215 (236)
T cd00867 158 LGLAFQLTDDLLDVFGDAEELGKVGSDLREGRITLPVILA----------------------RERAAEYAEEAYAALEAL 215 (236)
T ss_pred HHHHHHHHHHhccccCChHHHCccHHHHHcCCchHHHHHH----------------------HHHHHHHHHHHHHHHHhC
Confidence 999999999999998877 899999999987 566677788888888877
Q ss_pred hhccCccCCHHHHHHHHHH
Q 036368 320 ASQLDKDSRWPVWSSLLIY 338 (378)
Q Consensus 320 ~~~Lp~~~r~~v~~~~~ly 338 (378)
....|....+...+...+|
T Consensus 216 ~~~~~~~~~~~~~~~~~~~ 234 (236)
T cd00867 216 PPSLPRARRALIALADFLY 234 (236)
T ss_pred CCCchHHHHHHHHHHHHHH
Confidence 7666544443444444333
No 11
>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=99.81 E-value=1.1e-19 Score=166.03 Aligned_cols=216 Identities=21% Similarity=0.194 Sum_probs=174.1
Q ss_pred chHHHHhcCCH--HHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHh-----
Q 036368 109 TFYLGTLLMTE--ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFK----- 181 (378)
Q Consensus 109 sfyla~~llP~--~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~----- 181 (378)
+|++++.+.|. +.|..+..+|+|++.+|||.|+.......+....||...-.....+...+++..++..+...
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (243)
T cd00385 1 FRPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEA 80 (243)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHH
Confidence 47889999999 99999999999999999999988776655555566511100001111245677777777665
Q ss_pred CCCChHHHHHHHHHHHhhcCCCC--CCCHHHHHHHHHHh-hhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHH
Q 036368 182 FPLDIKPFRDMIEGMRMDTRKFR--YEDFQELYLYCYYV-AGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTN 258 (378)
Q Consensus 182 ~~l~~~~l~~lieg~~~DL~~~~--~~t~~dL~~Y~~~v-AG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtN 258 (378)
+.+..+.+.++++|+..|+.... ++|++++..|++.+ ++.++.++....+.........+.+...+.++|.++|++|
T Consensus 81 ~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~n 160 (243)
T cd00385 81 LEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTN 160 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 55567888999999999998765 89999999999999 8888888877766543221123456788999999999999
Q ss_pred HHHhHHHHHhc--CCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 036368 259 ILRDVGEDASR--GRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLD 324 (378)
Q Consensus 259 iLRDl~eD~~~--GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp 324 (378)
.++|+..|... |++++|..++.++|++.+++.....++.+.+++..+...++..+++..+....+|
T Consensus 161 Dl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 161 DLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 99999999987 8999999999999999999999889999999999999999999999988877765
No 12
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.70 E-value=8.4e-17 Score=155.35 Aligned_cols=271 Identities=17% Similarity=0.170 Sum_probs=205.6
Q ss_pred HHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCccc-HHHHHHHHHHHHHH---HcC-CC-
Q 036368 94 EAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMG-SVVLDRWEERLQDI---FYG-RP- 167 (378)
Q Consensus 94 ~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~-~~~L~~Wr~~L~~i---~~g-~p- 167 (378)
.-+..|.+++-..+++|-.-..-++.+.|++++.+|...|.+|++.|+.+.+... .--|.-+...+... |.+ .|
T Consensus 31 ~~~~~Cy~~l~~tsrsfa~Vi~~l~~elRNav~ifylVlraLdtvedd~sI~~d~kvpil~~fhk~i~~~~w~f~~s~~k 110 (413)
T KOG1459|consen 31 PLLSPCYNLLNLTSRSFAAVIQELSSELRNAVCIFYLVLRALDTVEDDMSIPLDKKVPILRVFHKQIYLVDWQFRESSPK 110 (413)
T ss_pred hHHHHHHHHHHhhcchHHHHHHhhCHHHhhhhheeeeehhhhccCCCCCcccccccccHHHHHHHHHhhcCceecCCChh
Confidence 5678899999999999999999999999999999999999999999998655432 22344444444332 322 22
Q ss_pred -------CcHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCc
Q 036368 168 -------YDMLDAALTDTVFKFP-LDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSS 239 (378)
Q Consensus 168 -------~~pv~~aL~~~v~~~~-l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~ 239 (378)
.|.|..++..+-..|. +=.+.-++|-.||..-+.. ..+|..|++.||.+|||-||.-.+.++-...-+. +
T Consensus 111 ~r~~l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~-~v~ti~d~d~yChyvagLVg~glsrlf~~s~le~-~ 188 (413)
T KOG1459|consen 111 DRQLLPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPE-EVETIWDYDVYCHYVAGLVGIGLSRLFTASKLED-L 188 (413)
T ss_pred hhhhccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHH-HHhHHHHHHHHHHHHHHhhCCchHhhhhHHHHhh-h
Confidence 1334455554444443 1123456788888776653 5899999999999999999988887765421111 2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHh
Q 036368 240 AQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEG 319 (378)
Q Consensus 240 ~~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~ 319 (378)
..+..+..+.+|..+|-|||+||..||..-||-++|.++..++--.-+|+...++++.....+.++++-|..|-......
T Consensus 189 ~~~~e~l~ns~glfLqktnIirdy~ed~~d~r~Fwp~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~y 268 (413)
T KOG1459|consen 189 LARLEQLSNSMGLFLQKTNIIRDYLEDPVDGRPFWPREIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDVLTY 268 (413)
T ss_pred hhhHHHHhcccchHHHHhHHHHHHHhccccCCccChHHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHHHHH
Confidence 23445678999999999999999999999999999999999985556888888999999999999999999999999888
Q ss_pred hhccCccCCH-HHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHH
Q 036368 320 ASQLDKDSRW-PVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLM 367 (378)
Q Consensus 320 ~~~Lp~~~r~-~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~ 367 (378)
+..+...+-+ .+.++..+....|. +.-+|-++|++++++++..--..
T Consensus 269 ls~l~~qsvfnfcaipqimai~Tla-l~~nn~dvfrG~VklrkGl~~~~ 316 (413)
T KOG1459|consen 269 LSKLRTQSVFNFCAIPQIMAIATLA-LCYNNEDVFRGNVKLRKGLAVEL 316 (413)
T ss_pred HhhcccHHHHHHHHHHHHHHHHHHH-HHhcCHhHhccceeecCCchHHH
Confidence 8888765543 44566666666664 44678899999999987654333
No 13
>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=96.24 E-value=0.37 Score=47.72 Aligned_cols=138 Identities=17% Similarity=0.167 Sum_probs=80.6
Q ss_pred HHHHHHHHHhhcCCC--CCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCC-CCchhhHHHHHHHHHHHHHHHHHHHh---
Q 036368 189 FRDMIEGMRMDTRKF--RYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDS-SSSAQSIYNGALNLGVGNQLTNILRD--- 262 (378)
Q Consensus 189 l~~lieg~~~DL~~~--~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~-~~~~~~~~~~A~~LG~AlQLtNiLRD--- 262 (378)
..++++|...|+... .-.+.+++..-.+.=.|++...++.+-..-.+. ....+.+.+.+.++|.|+|+.+=+.|
T Consensus 142 ~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~ 221 (322)
T TIGR02749 142 ITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTG 221 (322)
T ss_pred HHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 457888887776432 224666666655655566655554432221111 11134577899999999999987777
Q ss_pred --------HHHHHhcCCCCCCHHhHHhcCCChHhhhhc-cC-CHHHHHH---------HHHHHHHHHHHHHHHHHhhhcc
Q 036368 263 --------VGEDASRGRVYLPQDELAQFGLCDKDVFAR-KV-TDNWREF---------MKEQIKRARTFFNMAEEGASQL 323 (378)
Q Consensus 263 --------l~eD~~~GR~YLP~d~L~~~Gvs~edl~~~-~~-~~~~~~~---------~~~l~~~A~~~l~~A~~~~~~L 323 (378)
++.|+..|.+-+|.=..-+..-....++.. .. ...+..+ +...-+.++.+.++|.+.+..+
T Consensus 222 ~~~~~GK~~g~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~l 301 (322)
T TIGR02749 222 STEQLGKPAGSDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFL 301 (322)
T ss_pred ChHhhCCChhHHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 578999999988864332221111122211 11 1112222 3344556788888888888888
Q ss_pred Ccc
Q 036368 324 DKD 326 (378)
Q Consensus 324 p~~ 326 (378)
|..
T Consensus 302 p~~ 304 (322)
T TIGR02749 302 PPS 304 (322)
T ss_pred CCC
Confidence 764
No 14
>PLN02890 geranyl diphosphate synthase
Probab=96.13 E-value=0.53 Score=48.39 Aligned_cols=140 Identities=16% Similarity=0.111 Sum_probs=86.3
Q ss_pred HHHHHHHHHHhhcCCC--CCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCC-CCchhhHHHHHHHHHHHHHHHHHHHhH-
Q 036368 188 PFRDMIEGMRMDTRKF--RYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDS-SSSAQSIYNGALNLGVGNQLTNILRDV- 263 (378)
Q Consensus 188 ~l~~lieg~~~DL~~~--~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~-~~~~~~~~~~A~~LG~AlQLtNiLRDl- 263 (378)
...+|++|..+|+... .-.|++++..-.++-.|.+...++.+-++-.+. ....+.+.+.+.++|.|+|+.+=+-|+
T Consensus 235 a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~ 314 (422)
T PLN02890 235 AVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFT 314 (422)
T ss_pred HHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4568999999998642 234777777766666677766665543221111 111234678899999999999888886
Q ss_pred ----------HHHHhcCCCCCCHHhHHhcCCChHhhhh-ccCC-HHHHH---------HHHHHHHHHHHHHHHHHHhhhc
Q 036368 264 ----------GEDASRGRVYLPQDELAQFGLCDKDVFA-RKVT-DNWRE---------FMKEQIKRARTFFNMAEEGASQ 322 (378)
Q Consensus 264 ----------~eD~~~GR~YLP~d~L~~~Gvs~edl~~-~~~~-~~~~~---------~~~~l~~~A~~~l~~A~~~~~~ 322 (378)
+.|+..|.+-+|.=..-+..-....++. +..+ +.+.. .+..-.+.|+.|.++|.+.+..
T Consensus 315 g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~ 394 (422)
T PLN02890 315 GTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIES 394 (422)
T ss_pred CChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4788899998887543321101112221 1111 12222 2344556788999999999998
Q ss_pred cCccC
Q 036368 323 LDKDS 327 (378)
Q Consensus 323 Lp~~~ 327 (378)
+|...
T Consensus 395 lp~s~ 399 (422)
T PLN02890 395 LPETD 399 (422)
T ss_pred CCCCc
Confidence 88653
No 15
>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=96.11 E-value=0.44 Score=45.42 Aligned_cols=125 Identities=16% Similarity=0.090 Sum_probs=79.8
Q ss_pred HHHHHHHHHHhhcCCCC--CCCHHHHHHHHHHhhhHHHHHHHhhhCcCCC-CCCchhhHHHHHHHHHHHHHHHHHHHhHH
Q 036368 188 PFRDMIEGMRMDTRKFR--YEDFQELYLYCYYVAGTVGLMSVPVMGIAPD-SSSSAQSIYNGALNLGVGNQLTNILRDVG 264 (378)
Q Consensus 188 ~l~~lieg~~~DL~~~~--~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~-~~~~~~~~~~~A~~LG~AlQLtNiLRDl~ 264 (378)
...+++.|...|+.... -.|++++..-+..-.|.+..+++.+.+.-.. +....+.+.+.+.++|.++|+.|=+.|+-
T Consensus 116 ~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~ 195 (259)
T cd00685 116 AILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLF 195 (259)
T ss_pred HHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 46689999999987543 4688988888888888887666554432111 11123567889999999999988777764
Q ss_pred HHHh-cCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccC
Q 036368 265 EDAS-RGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327 (378)
Q Consensus 265 eD~~-~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~ 327 (378)
.+.. .|+- ..+|+..|..+=-+. ..+-+.+..+.+++...+..+|...
T Consensus 196 ~~~~~~gK~------------~~~Di~~gk~T~~~~---~~l~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 196 GDPETLGKP------------VGSDLREGKCTLPVL---LALRELAREYEEKALEALKALPESP 244 (259)
T ss_pred CChHHHCCC------------cchHHHcCCchHHHH---HHHHHHHHHHHHHHHHHHHcCCCcH
Confidence 3221 1211 124455554442221 1225677888888888888887653
No 16
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=95.58 E-value=1.1 Score=44.30 Aligned_cols=137 Identities=15% Similarity=0.091 Sum_probs=85.6
Q ss_pred HHHHHHHHHhhcCC--CCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCC-CchhhHHHHHHHHHHHHHHHHHHHhH--
Q 036368 189 FRDMIEGMRMDTRK--FRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSS-SSAQSIYNGALNLGVGNQLTNILRDV-- 263 (378)
Q Consensus 189 l~~lieg~~~DL~~--~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~-~~~~~~~~~A~~LG~AlQLtNiLRDl-- 263 (378)
...+++|...|+.. ..-.|.+++..-++.=.|++..+++.+.++-.+.. ...+.+...+.++|.|+|+.+=+-|+
T Consensus 139 ~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~ 218 (323)
T PRK10888 139 VNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 45788899888753 33458888888788888888777766543221111 01234668899999999999877766
Q ss_pred ---------HHHHhcCCCCCCHHhHHhcCCChH--h-h---hhccCC-HHHHHH---------HHHHHHHHHHHHHHHHH
Q 036368 264 ---------GEDASRGRVYLPQDELAQFGLCDK--D-V---FARKVT-DNWREF---------MKEQIKRARTFFNMAEE 318 (378)
Q Consensus 264 ---------~eD~~~GR~YLP~d~L~~~Gvs~e--d-l---~~~~~~-~~~~~~---------~~~l~~~A~~~l~~A~~ 318 (378)
+.|+..|++-+|.=..-+. .+++ . + ...... +.+..+ +..-.+.|+.|.++|.+
T Consensus 219 ~~~~~GK~~g~Dl~~gk~Tlp~l~al~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~ 297 (323)
T PRK10888 219 DGETLGKNVGDDLNEGKPTLPLLHAMHH-GTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIA 297 (323)
T ss_pred ChHhhCCCchhhhhcCCchHHHHHHHHh-CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHH
Confidence 6788899998885433221 1221 1 1 111111 122222 33445567888888888
Q ss_pred hhhccCcc
Q 036368 319 GASQLDKD 326 (378)
Q Consensus 319 ~~~~Lp~~ 326 (378)
.+..+|..
T Consensus 298 ~L~~lp~~ 305 (323)
T PRK10888 298 ALQVLPDT 305 (323)
T ss_pred HHhcCCCC
Confidence 88888864
No 17
>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=95.19 E-value=1.2 Score=43.95 Aligned_cols=139 Identities=14% Similarity=0.135 Sum_probs=84.5
Q ss_pred HHHHHHHHHHhhcCCC--CCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCC-CCCchhhHHHHHHHHHHHHHHHHHHHhH-
Q 036368 188 PFRDMIEGMRMDTRKF--RYEDFQELYLYCYYVAGTVGLMSVPVMGIAPD-SSSSAQSIYNGALNLGVGNQLTNILRDV- 263 (378)
Q Consensus 188 ~l~~lieg~~~DL~~~--~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~-~~~~~~~~~~~A~~LG~AlQLtNiLRDl- 263 (378)
.+.++++|...|+... .-.++++...-++.-.|++..+++.+-.+-.+ +....+.+.+.+.++|.|+|+.|=+.|+
T Consensus 137 ~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~ 216 (319)
T TIGR02748 137 TIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFV 216 (319)
T ss_pred HHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3568899988887542 23467776666677777776655544222111 1111245678999999999999888875
Q ss_pred ----------HHHHhcCCCCCCHHhHHhcCCChHh---hhhccCCHHHHHH---------HHHHHHHHHHHHHHHHHhhh
Q 036368 264 ----------GEDASRGRVYLPQDELAQFGLCDKD---VFARKVTDNWREF---------MKEQIKRARTFFNMAEEGAS 321 (378)
Q Consensus 264 ----------~eD~~~GR~YLP~d~L~~~Gvs~ed---l~~~~~~~~~~~~---------~~~l~~~A~~~l~~A~~~~~ 321 (378)
+.|+..|+.-+|.=..-+..-..+. +......+.+..+ +..-...+..+.++|.+.+.
T Consensus 217 ~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~ 296 (319)
T TIGR02748 217 GTEEELGKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLD 296 (319)
T ss_pred CCHHhhCCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHh
Confidence 5788899998887654432111111 1111112222222 22344567888888888888
Q ss_pred ccCcc
Q 036368 322 QLDKD 326 (378)
Q Consensus 322 ~Lp~~ 326 (378)
.+|..
T Consensus 297 ~lp~~ 301 (319)
T TIGR02748 297 GLPDG 301 (319)
T ss_pred cCCCC
Confidence 88763
No 18
>PRK10581 geranyltranstransferase; Provisional
Probab=94.76 E-value=0.27 Score=48.17 Aligned_cols=125 Identities=18% Similarity=0.118 Sum_probs=78.2
Q ss_pred HHHHHHHHhhcCCCC-CCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCC--CchhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 036368 190 RDMIEGMRMDTRKFR-YEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSS--SSAQSIYNGALNLGVGNQLTNILRDVGED 266 (378)
Q Consensus 190 ~~lieg~~~DL~~~~-~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~--~~~~~~~~~A~~LG~AlQLtNiLRDl~eD 266 (378)
..|+.|...|+.... ..+.+++..-+++=.|.+..+++.+.++-.... ...+.+.+.+.++|.|+|+.+=+.|+-.|
T Consensus 152 ~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~ 231 (299)
T PRK10581 152 AGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGD 231 (299)
T ss_pred chhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Confidence 357889988986432 357888877777777777666655433211111 11245678999999999999888776322
Q ss_pred H-hcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCcc
Q 036368 267 A-SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKD 326 (378)
Q Consensus 267 ~-~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~ 326 (378)
. ..|.- .-+|+..|..+--+.-.++.-.+.++.+.++|.+.+..+|..
T Consensus 232 ~~~~GK~------------~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~ 280 (299)
T PRK10581 232 TATLGKR------------QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQ 280 (299)
T ss_pred hHHHCCC------------cchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 1 11110 113444444443333345566678899999999999888753
No 19
>PLN02857 octaprenyl-diphosphate synthase
Probab=94.04 E-value=0.83 Score=46.93 Aligned_cols=139 Identities=17% Similarity=0.187 Sum_probs=80.2
Q ss_pred HHHHHHHHHHhhcCC--CCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCC-CCchhhHHHHHHHHHHHHHHHHHHHhH-
Q 036368 188 PFRDMIEGMRMDTRK--FRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDS-SSSAQSIYNGALNLGVGNQLTNILRDV- 263 (378)
Q Consensus 188 ~l~~lieg~~~DL~~--~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~-~~~~~~~~~~A~~LG~AlQLtNiLRDl- 263 (378)
.+.++.+|...|+.. ..-.|.+++..-.++-.|.+...++.+-.+-.+. ....+.+.+.+.++|+|+|+.+=+.|+
T Consensus 235 ~~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~ 314 (416)
T PLN02857 235 VIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFT 314 (416)
T ss_pred HHHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345677776666442 2224667766666666666665555443221111 111345778999999999999888874
Q ss_pred ----------HHHHhcCCCCCCHHhHHhcCCChHhhhhcc--CCHHHHHH---------HHHHHHHHHHHHHHHHHhhhc
Q 036368 264 ----------GEDASRGRVYLPQDELAQFGLCDKDVFARK--VTDNWREF---------MKEQIKRARTFFNMAEEGASQ 322 (378)
Q Consensus 264 ----------~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~--~~~~~~~~---------~~~l~~~A~~~l~~A~~~~~~ 322 (378)
+.|+..|.+-+|.=.--+..-...+++... ..+.+.++ +..-.+.++.+.++|.+.+..
T Consensus 315 ~~~~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~ 394 (416)
T PLN02857 315 QSTEQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLEC 394 (416)
T ss_pred CCHHHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHh
Confidence 578899999888643211110111222111 11222222 334445678888888888888
Q ss_pred cCcc
Q 036368 323 LDKD 326 (378)
Q Consensus 323 Lp~~ 326 (378)
||..
T Consensus 395 Lp~~ 398 (416)
T PLN02857 395 LPRG 398 (416)
T ss_pred CCCC
Confidence 8764
No 20
>CHL00151 preA prenyl transferase; Reviewed
Probab=92.73 E-value=1.8 Score=42.77 Aligned_cols=139 Identities=13% Similarity=0.070 Sum_probs=76.6
Q ss_pred HHHHHHHHHHhhcCC--CCCCCHHHHHHHHHHhhhHHHHHHHhhhCcC-CCCCCchhhHHHHHHHHHHHHHHHHHHHh--
Q 036368 188 PFRDMIEGMRMDTRK--FRYEDFQELYLYCYYVAGTVGLMSVPVMGIA-PDSSSSAQSIYNGALNLGVGNQLTNILRD-- 262 (378)
Q Consensus 188 ~l~~lieg~~~DL~~--~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~-~~~~~~~~~~~~~A~~LG~AlQLtNiLRD-- 262 (378)
...++.+|...|... ..-.|.++...-++.=.|.+..+++.+-..- +......+.+.+.+.++|.|+|+.+=+-|
T Consensus 142 ~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~ 221 (323)
T CHL00151 142 VITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDIT 221 (323)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 344667776665432 1223455544433444555555554432211 11111234577899999999999987777
Q ss_pred ---------HHHHHhcCCCCCCHHhHHhcCCChHhhhh-cc-CCHHHHHH---------HHHHHHHHHHHHHHHHHhhhc
Q 036368 263 ---------VGEDASRGRVYLPQDELAQFGLCDKDVFA-RK-VTDNWREF---------MKEQIKRARTFFNMAEEGASQ 322 (378)
Q Consensus 263 ---------l~eD~~~GR~YLP~d~L~~~Gvs~edl~~-~~-~~~~~~~~---------~~~l~~~A~~~l~~A~~~~~~ 322 (378)
++.|+..|++-+|.=..-+..-....++. .. ..+.+..+ +.+-.+.++.|.++|.+.+..
T Consensus 222 ~~~~~~GK~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~ 301 (323)
T CHL00151 222 SSTESLGKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKF 301 (323)
T ss_pred cChhhhCCCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHh
Confidence 46789999998885433221101111111 11 11222222 345556788889999888888
Q ss_pred cCcc
Q 036368 323 LDKD 326 (378)
Q Consensus 323 Lp~~ 326 (378)
+|..
T Consensus 302 lp~~ 305 (323)
T CHL00151 302 LPPS 305 (323)
T ss_pred CCCC
Confidence 8764
No 21
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=91.80 E-value=5.3 Score=39.56 Aligned_cols=137 Identities=15% Similarity=0.120 Sum_probs=84.5
Q ss_pred HHHHHHHHHHhhcCCCC-CCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCC-CCchhhHHHHHHHHHHHHHHHHHHHhH--
Q 036368 188 PFRDMIEGMRMDTRKFR-YEDFQELYLYCYYVAGTVGLMSVPVMGIAPDS-SSSAQSIYNGALNLGVGNQLTNILRDV-- 263 (378)
Q Consensus 188 ~l~~lieg~~~DL~~~~-~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~-~~~~~~~~~~A~~LG~AlQLtNiLRDl-- 263 (378)
-...|+.|...|+.... ..|.+++..=.+.=.|.+...++.+.++-... ....+.+...+..+|.|+|+.+=+=|+
T Consensus 142 ~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~ 221 (322)
T COG0142 142 AINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITG 221 (322)
T ss_pred HHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCC
Confidence 45689999999997543 26778777777777777777666654432221 123467789999999999999766665
Q ss_pred ---------HHHHhcCCCCCCHHhHHhcCCChHh-hhhcc-CCHHHHHHHH---------HHHHHHHHHHHHHHHhhhcc
Q 036368 264 ---------GEDASRGRVYLPQDELAQFGLCDKD-VFARK-VTDNWREFMK---------EQIKRARTFFNMAEEGASQL 323 (378)
Q Consensus 264 ---------~eD~~~GR~YLP~d~L~~~Gvs~ed-l~~~~-~~~~~~~~~~---------~l~~~A~~~l~~A~~~~~~L 323 (378)
+.|+..|.+-+|.=..-+.+-..+. +.... ....+..+.. .-...+..+.++|.+.+..+
T Consensus 222 d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l 301 (322)
T COG0142 222 DEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKL 301 (322)
T ss_pred ChHHhCCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhC
Confidence 4466667777776554443322111 10000 0002222221 22335888888888888888
Q ss_pred C
Q 036368 324 D 324 (378)
Q Consensus 324 p 324 (378)
|
T Consensus 302 ~ 302 (322)
T COG0142 302 P 302 (322)
T ss_pred C
Confidence 8
No 22
>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=91.64 E-value=2.6 Score=40.20 Aligned_cols=74 Identities=15% Similarity=0.122 Sum_probs=52.6
Q ss_pred HHHHHhhcCCC-CCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCC-CchhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 036368 193 IEGMRMDTRKF-RYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSS-SSAQSIYNGALNLGVGNQLTNILRDVGED 266 (378)
Q Consensus 193 ieg~~~DL~~~-~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~-~~~~~~~~~A~~LG~AlQLtNiLRDl~eD 266 (378)
..|...|+... .-.|++++..-.+.-.|++..+.+.+..+-.... ...+.+.+.+.++|+|+|+.|=+.|+..|
T Consensus 119 ~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 119 EIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp HHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred eeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCc
Confidence 34456676542 3679999999999999999888777644322211 12345778999999999999988887754
No 23
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=90.56 E-value=12 Score=35.30 Aligned_cols=194 Identities=15% Similarity=0.118 Sum_probs=105.2
Q ss_pred HHHHhcCCHH----HHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHH----HcCCC--CcHHHHHHHHHHH
Q 036368 111 YLGTLLMTEE----RQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDI----FYGRP--YDMLDAALTDTVF 180 (378)
Q Consensus 111 yla~~llP~~----~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i----~~g~p--~~pv~~aL~~~v~ 180 (378)
++++...|.. .+..+.-+.+|.-.+||.-|+.... .......+.+.+. ..+.| .+|+..+|.++..
T Consensus 34 ~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~----~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~ 109 (284)
T cd00868 34 FWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTL----EELELFTEAVERWDISAIDELPEYMKPVFKALYDLVN 109 (284)
T ss_pred HHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCH----HHHHHHHHHHHhcChhhhhhCCHHHHHHHHHHHHHHH
Confidence 6666666654 5667777788888899999974432 1222233333321 12234 2578888877655
Q ss_pred hCCC--C-----------hHHHHHHHHHHHhhcC---CCCCCCHHHHHHHHHHhhhHHHHHHHh--hhCcCCCC-C-Cch
Q 036368 181 KFPL--D-----------IKPFRDMIEGMRMDTR---KFRYEDFQELYLYCYYVAGTVGLMSVP--VMGIAPDS-S-SSA 240 (378)
Q Consensus 181 ~~~l--~-----------~~~l~~lieg~~~DL~---~~~~~t~~dL~~Y~~~vAG~VG~l~~~--ilg~~~~~-~-~~~ 240 (378)
+..- + .+.+.++++++..... ...++|++|...+-..++|.--.+.+- .+|..-+. . ...
T Consensus 110 r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~ 189 (284)
T cd00868 110 EIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWL 189 (284)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHh
Confidence 3211 1 2344566666665543 235778888777766666553333322 23322110 0 011
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCC-CCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHH
Q 036368 241 QSIYNGALNLGVGNQLTNILRDVGEDASRGRV-YLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAE 317 (378)
Q Consensus 241 ~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~-YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~ 317 (378)
..+.......+....++|=+-........|.. =+..=++.++|++.++ ..+.+..+++...+.|.+..
T Consensus 190 ~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~e---------A~~~~~~~~~~~~~~~~~~~ 258 (284)
T cd00868 190 PSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEE---------ALEELRKMIEEAWKELNEEV 258 (284)
T ss_pred hhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHH---------HHHHHHHHHHHHHHHHHHHH
Confidence 23344555566666667666666666677765 4445566677887663 23344445555555555443
No 24
>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=85.61 E-value=53 Score=34.88 Aligned_cols=204 Identities=15% Similarity=0.125 Sum_probs=111.3
Q ss_pred HHhcCCH--HHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHH----cCCCC--cHHHHHHHHHHH----
Q 036368 113 GTLLMTE--ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIF----YGRPY--DMLDAALTDTVF---- 180 (378)
Q Consensus 113 a~~llP~--~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~----~g~p~--~pv~~aL~~~v~---- 180 (378)
|+.+-|. ..|-.+.-+-+|.-.+||+-|... +...+..+-+.+++.. .+.|. .++..+|.+++.
T Consensus 272 a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~g----t~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~ 347 (542)
T cd00684 272 GTYFEPQYSLARIALAKTIALITVIDDTYDVYG----TLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEE 347 (542)
T ss_pred hcccCccchHHHHHHHHHHHHHhhhHhhhccCC----CHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHH
Confidence 3455554 334455556666678899998543 2334555555555432 23342 246666765444
Q ss_pred ----hCCCC-----hHHHHHHHHHHHhhcC---CCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHH----
Q 036368 181 ----KFPLD-----IKPFRDMIEGMRMDTR---KFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIY---- 244 (378)
Q Consensus 181 ----~~~l~-----~~~l~~lieg~~~DL~---~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~---- 244 (378)
..+.. ++.+.+++.|+..... ....+|++|.......++|.--.++.-.++..... +.+...
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l--~~e~~e~~~~ 425 (542)
T cd00684 348 ELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDIL--TEEAFEWLES 425 (542)
T ss_pred HHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCC--CHHHHHHHhc
Confidence 11211 3556677778777653 34578999988888777766555555444433221 112111
Q ss_pred --HHHHHHHHHHHHHHHHHhHHHHHhcCCC-CCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhh-
Q 036368 245 --NGALNLGVGNQLTNILRDVGEDASRGRV-YLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGA- 320 (378)
Q Consensus 245 --~~A~~LG~AlQLtNiLRDl~eD~~~GR~-YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~- 320 (378)
......+....|.|=+-.......+|.+ =.-.-.|.++|+|.++ ..+.+..+++.+.+.+++..-..
T Consensus 426 ~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~ee---------A~~~i~~~ie~~wk~ln~e~l~~~ 496 (542)
T cd00684 426 RPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEE---------AREEIKKMIEDAWKELNEEFLKPS 496 (542)
T ss_pred cHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHH---------HHHHHHHHHHHHHHHHHHHHhcCC
Confidence 1112223333344444444444556763 4445577888988763 44567777777877777765333
Q ss_pred hccCccCCHHH
Q 036368 321 SQLDKDSRWPV 331 (378)
Q Consensus 321 ~~Lp~~~r~~v 331 (378)
..+|..+...+
T Consensus 497 ~~~p~~~~~~~ 507 (542)
T cd00684 497 SDVPRPIKQRF 507 (542)
T ss_pred CCCCHHHHHHH
Confidence 44665544333
No 25
>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=84.17 E-value=27 Score=32.58 Aligned_cols=174 Identities=13% Similarity=0.093 Sum_probs=94.2
Q ss_pred HHHHhcCCH--HHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHH----HcCCC--CcHHHHHHHHHHHhC
Q 036368 111 YLGTLLMTE--ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDI----FYGRP--YDMLDAALTDTVFKF 182 (378)
Q Consensus 111 yla~~llP~--~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i----~~g~p--~~pv~~aL~~~v~~~ 182 (378)
.+++.+.|. +.+..+.-+..|.-..||+.|+.... ..++.+.+.++.. ....| ..|+..++.++..+.
T Consensus 50 ~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~D~~~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~ 125 (270)
T PF03936_consen 50 LLAARFYPDSSDELLAAADWMAWLFIFDDFFDDGGSA----EELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRI 125 (270)
T ss_dssp HHHHHHSGCGHHHHHHHHHHHHHHHHHHHHHHTTSHH----HHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHH
T ss_pred hhhheeCCCcHHHHHHHHhhchheeeeeeccccccch----HHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHH
Confidence 344555554 56677888888899999999975432 1244455555532 11122 246667777665543
Q ss_pred C--CChH------------HHHHHHHHHHhhc---CCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCC-CCchhhHH
Q 036368 183 P--LDIK------------PFRDMIEGMRMDT---RKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDS-SSSAQSIY 244 (378)
Q Consensus 183 ~--l~~~------------~l~~lieg~~~DL---~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~-~~~~~~~~ 244 (378)
. ++.. .+.++++|..... ....++|++|...+=..++|.--.+.+-.++..... ....+...
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~ 205 (270)
T PF03936_consen 126 AARMSPAQRRRDQIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLE 205 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHH
T ss_pred HHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHH
Confidence 2 2222 2233344433332 235688988888888888876655554433321100 00011111
Q ss_pred ---HHHHHHHHHHHHHHHHHhHHHHHhcCCCCC-CHHhHHhcCCChHh
Q 036368 245 ---NGALNLGVGNQLTNILRDVGEDASRGRVYL-PQDELAQFGLCDKD 288 (378)
Q Consensus 245 ---~~A~~LG~AlQLtNiLRDl~eD~~~GR~YL-P~d~L~~~Gvs~ed 288 (378)
......+....++|=|-....+...|...= -.=++.++|++.++
T Consensus 206 ~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~v~~l~~~~~~s~e~ 253 (270)
T PF03936_consen 206 HPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNLVVVLMNEHGLSLEE 253 (270)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSHHHHHHHHHTHHHHH
T ss_pred hchHHHHHHHHHHHHhcccchhhcchhhcccccHHHHhhhhcCCCHHH
Confidence 134556677777788888888887777521 12244555777663
No 26
>PF06330 TRI5: Trichodiene synthase (TRI5); InterPro: IPR024652 This family consists of several fungal trichodiene synthase proteins (EC:4.2.3.6). TRI5 encodes the enzyme trichodiene synthase, which has been shown to catalyse the first step in the trichothecene pathways of Fusarium and Trichothecium species [, ].; GO: 0045482 trichodiene synthase activity, 0016106 sesquiterpenoid biosynthetic process; PDB: 1YYT_A 2PS5_A 2AEL_A 1YYS_A 1YJ4_A 2Q9Y_A 2PS4_A 2AEK_B 1KIY_B 2PS7_A ....
Probab=77.74 E-value=65 Score=32.72 Aligned_cols=164 Identities=13% Similarity=0.131 Sum_probs=86.4
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhCCCCh----
Q 036368 112 LGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRP-YDMLDAALTDTVFKFPLDI---- 186 (378)
Q Consensus 112 la~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p-~~pv~~aL~~~v~~~~l~~---- 186 (378)
.+-..+|.+.+.++...+++.-.+||+.+++.. .+..|. .++..|.+ .||++..+.+......-=-
T Consensus 76 ~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~~~------~l~~F~---~~l~~Gq~Q~~p~L~~~~~~L~~~~~~fgpf~ 146 (376)
T PF06330_consen 76 YCYPHLPKEVQVAIAIYTTYVIIIDDSSQEPSD------DLRTFH---QRLILGQPQKHPLLDGFASLLREMWRHFGPFC 146 (376)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHTT--S-SHH------HHTTHH---HHHHHT---SSHHHHHHHHHHHHHHTTS-HHH
T ss_pred eecCCCCHHHHHHHHHHHHHHHhcccccccccH------HHHHHH---HHHhcCCCCCCHHHHHHHHHHHHHHHHcchHH
Confidence 455778999999999999999999999887532 233333 34566776 4999988887765332111
Q ss_pred -----HHHHHHHHHHHhhcC-CCCCC---CHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHH
Q 036368 187 -----KPFRDMIEGMRMDTR-KFRYE---DFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLT 257 (378)
Q Consensus 187 -----~~l~~lieg~~~DL~-~~~~~---t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLt 257 (378)
.--.++++|.--.-. ...++ ++.++.+-..+++.+.+.++-+---.+ +. +...+....+......+
T Consensus 147 anmI~~STLdFi~g~~LE~~~f~~~p~A~~FP~fLR~ktGlsEaYA~FiFPk~~fp-e~----~~~~~y~~AIpdl~~fi 221 (376)
T PF06330_consen 147 ANMIVKSTLDFINGCWLEQKNFHGSPGAPDFPDFLRRKTGLSEAYAFFIFPKALFP-EV----EYFIQYTPAIPDLMRFI 221 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHTTT----TT-TTHHHHHHHHHH-HHHHHHHT--TTTS--TT----TTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCccccHHHHhccCcchhheeeecccccCC-hH----HHHHHHHHHHHHHHHHH
Confidence 112355555532211 12222 455555555555555555444322211 11 22345556677778888
Q ss_pred HHHHhHHHHH-----hcCC-CCCCHHhHHhcCCChHhhh
Q 036368 258 NILRDVGEDA-----SRGR-VYLPQDELAQFGLCDKDVF 290 (378)
Q Consensus 258 NiLRDl~eD~-----~~GR-~YLP~d~L~~~Gvs~edl~ 290 (378)
|++-||--=. ...+ .|+ ...-.-+|+|..+-+
T Consensus 222 ~~~NDILSFYKE~l~a~E~~NyI-~n~A~~~g~S~~eaL 259 (376)
T PF06330_consen 222 NYVNDILSFYKEELVAGETGNYI-HNRARVHGVSILEAL 259 (376)
T ss_dssp HHHHHHHHHHHHHTTSSSSSSHH-HHHHHHHT--HHHHH
T ss_pred HhhhhHHHHHHhhcccccccchh-hhhhhccCCCHHHHH
Confidence 8888885433 3334 344 555566777766544
No 27
>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=77.12 E-value=71 Score=30.64 Aligned_cols=200 Identities=16% Similarity=0.121 Sum_probs=110.2
Q ss_pred HHHHhcCCH---HHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCC------CCcHHHHHHHHHHHh
Q 036368 111 YLGTLLMTE---ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGR------PYDMLDAALTDTVFK 181 (378)
Q Consensus 111 yla~~llP~---~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~------p~~pv~~aL~~~v~~ 181 (378)
.+++++.|. +.-..+.-+..|.-..||..|+... ....+....+.+.++..|. +..|+..++.++..+
T Consensus 45 ~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~d~~~r 121 (303)
T cd00687 45 DLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQK---SPEDGEAGVTRLLDILRGDGLDSPDDATPLEFGLADLWRR 121 (303)
T ss_pred HHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCcccc---CHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHHHH
Confidence 466677764 3333444566777888999997531 1222333334555555542 236888888888775
Q ss_pred CC--CChHHH-------HHHHHHHHhhcC---CCCCCCHHHHHHHHHHhhhHHHHH-HHh-hhCcCCCCCC-chhhHHHH
Q 036368 182 FP--LDIKPF-------RDMIEGMRMDTR---KFRYEDFQELYLYCYYVAGTVGLM-SVP-VMGIAPDSSS-SAQSIYNG 246 (378)
Q Consensus 182 ~~--l~~~~l-------~~lieg~~~DL~---~~~~~t~~dL~~Y~~~vAG~VG~l-~~~-ilg~~~~~~~-~~~~~~~~ 246 (378)
.. .+..+. .++++|+..... ....+|+++...+=..+.|.-..+ ++. ++|..-+... ..+.+...
T Consensus 122 ~~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~~l 201 (303)
T cd00687 122 TLARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMRAL 201 (303)
T ss_pred hccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHHHH
Confidence 42 334443 344455443322 234577777666655555543322 222 2343211000 01223345
Q ss_pred HHHHHHHHHHHHHHHhHHHHH-hcCCCC-CCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 036368 247 ALNLGVGNQLTNILRDVGEDA-SRGRVY-LPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQ 322 (378)
Q Consensus 247 A~~LG~AlQLtNiLRDl~eD~-~~GR~Y-LP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~ 322 (378)
-...+....++|=|=....+. +.|... +-.=++.++|++.++ ..+.+..+++.....|.++++.+..
T Consensus 202 ~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~e---------A~~~~~~~~~~~~~~f~~~~~~l~~ 270 (303)
T cd00687 202 EALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEE---------AISVVRDMHNERITQFEELEASLIK 270 (303)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHH---------HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 556677777888777777787 777742 333355667888763 3345566666667777777665533
No 28
>PLN02279 ent-kaur-16-ene synthase
Probab=69.10 E-value=2e+02 Score=32.27 Aligned_cols=194 Identities=13% Similarity=0.105 Sum_probs=91.3
Q ss_pred HHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcC-----CCCc--HHHHHHHHHHHhC--------CCC
Q 036368 121 RQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYG-----RPYD--MLDAALTDTVFKF--------PLD 185 (378)
Q Consensus 121 ~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g-----~p~~--pv~~aL~~~v~~~--------~l~ 185 (378)
.|-.+.-.-++.-.+||+-|... +.+.|+-+-+.+++.... .|.+ .+..+|.+++... +..
T Consensus 515 aRi~~aK~~~L~tviDD~fD~yG----t~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~~~~~qGr~ 590 (784)
T PLN02279 515 ARLSWAKNGVLTTVVDDFFDVGG----SEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDKAFTWQGRN 590 (784)
T ss_pred HHHHHHHHHHHHHHHHHHhhccC----CHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHHHHHHcCch
Confidence 45555556666677788877322 345566666666665321 1332 3555665554432 222
Q ss_pred -----hHHHHHHHHHHHhhc---CCCCCCCHHHHHHHHHHhhhHHHHHHH---hhhCcCCC-CCCchhhHHHHHHHHHHH
Q 036368 186 -----IKPFRDMIEGMRMDT---RKFRYEDFQELYLYCYYVAGTVGLMSV---PVMGIAPD-SSSSAQSIYNGALNLGVG 253 (378)
Q Consensus 186 -----~~~l~~lieg~~~DL---~~~~~~t~~dL~~Y~~~vAG~VG~l~~---~ilg~~~~-~~~~~~~~~~~A~~LG~A 253 (378)
++.+.+++.++.... .....+|++|...-+.-+.| ++.+++ .++|..-. .........+.....+.-
T Consensus 591 v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~-l~~i~l~~~~~~G~~l~eev~e~~~~~~L~~l~s~I 669 (784)
T PLN02279 591 VTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFA-LGPIVLPALYLVGPKLSEEVVDSPELHKLYKLMSTC 669 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhh-hHHHHHHHHHHhCCCCCHHHHhCcchhHHHHHHHHH
Confidence 244556666655443 22345688887776554443 443222 34552110 000000111122222222
Q ss_pred HHHHHHHHhHHHHHhcCCCCCCHHhHHhc--CCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHh--hhccCccCC
Q 036368 254 NQLTNILRDVGEDASRGRVYLPQDELAQF--GLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEG--ASQLDKDSR 328 (378)
Q Consensus 254 lQLtNiLRDl~eD~~~GR~YLP~d~L~~~--Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~--~~~Lp~~~r 328 (378)
..+.|=+........+|-+=.=.-.|.++ |++.++ ..+-+..+++.+.+.+.+-.-. -..+|..++
T Consensus 670 ~RLlNDI~S~e~E~~rG~~nsV~cYMke~~~gvSeEE---------Ai~~i~~~Ie~~wKeLn~~~l~~~~~~vp~~~~ 739 (784)
T PLN02279 670 GRLLNDIRGFKRESKEGKLNAVSLHMIHGNGNSTEEE---------AIESMKGLIESQRRELLRLVLQEKGSNVPRECK 739 (784)
T ss_pred HHHHHhccccHhHHhCCCcceehhhhccCCCCCCHHH---------HHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHH
Confidence 33333333333444566531112234444 677663 3334667777777766665321 123565444
No 29
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=67.39 E-value=40 Score=34.33 Aligned_cols=118 Identities=14% Similarity=0.130 Sum_probs=67.8
Q ss_pred CHHHHHHHHHHhhhHHHHH---HHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHhH-----------HHHHhcCCC
Q 036368 207 DFQELYLYCYYVAGTVGLM---SVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDV-----------GEDASRGRV 272 (378)
Q Consensus 207 t~~dL~~Y~~~vAG~VG~l---~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRDl-----------~eD~~~GR~ 272 (378)
-+++|+.=.++-.|++..- +..+||..++. -.+.++++++++|.++|+++=+-|+ +.|+..|-.
T Consensus 229 ~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~e--v~e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~~g~l 306 (384)
T KOG0776|consen 229 GLEYLEFKTLLKTASLLAKSCVAAAILGGGSEE--VIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLKAGKL 306 (384)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHH--HHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhhhccc
Confidence 3455554455555555543 34467644332 2467899999999999999755554 335555655
Q ss_pred CCCH----HhHHhcC----CChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCcc
Q 036368 273 YLPQ----DELAQFG----LCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKD 326 (378)
Q Consensus 273 YLP~----d~L~~~G----vs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~ 326 (378)
-=|. +.-.+++ =...+-..+....++...+..-...|+.|-++|.+.+..+|+.
T Consensus 307 T~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~~Al~~l~~~p~s 368 (384)
T KOG0776|consen 307 TAPVLFALEKSPELREKLEREFSEPLDGFDADKAVPGVALAKYLARRHNNKALEALQSLPRS 368 (384)
T ss_pred cccchhhhhhChHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 3333 3222110 0000111222334555677777778889999998888887764
No 30
>cd00686 Terpene_cyclase_cis_trans_C1 Cis, Trans, Terpene Cyclases, Class 1. This CD includes the terpenoid cyclase, trichodiene synthase, which catalyzes the cyclization of farnesyl diphosphate (FPP) to trichodiene using a cis-trans pathway, and is the first committed step in the biosynthesis of trichothecene toxins and antibiotics. As with other enzymes with the 'terpenoid synthase fold', this enzyme has two conserved metal binding motifs that coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP. 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 as homodimers and are found in several genera of fungi.
Probab=50.98 E-value=2.5e+02 Score=28.37 Aligned_cols=162 Identities=12% Similarity=0.105 Sum_probs=91.3
Q ss_pred CCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCC-CcHHHHH----HHHHHHhCCCC-----h
Q 036368 117 MTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRP-YDMLDAA----LTDTVFKFPLD-----I 186 (378)
Q Consensus 117 lP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p-~~pv~~a----L~~~v~~~~l~-----~ 186 (378)
.+++...++..-|.+.-.+||+.+++... |..|. +++..|+| .||++.. |.+..+.|+== .
T Consensus 81 ~skev~~~isi~~tY~~~lDD~~~e~~~~------m~~f~---~dL~~G~~qkhP~l~~v~~~l~~~lr~fGpF~s~~Ii 151 (357)
T cd00686 81 VSKECMADLSIHYTYTLVLDDSKDDPYPT------MVNYF---DDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLI 151 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccchH------HHHHH---HHHhcCCCCCCcHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 68899999999999999999999987643 33333 34567887 5995544 44455544400 0
Q ss_pred HHHHHHHHHHHhhc-CCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchh-hHHHHHHHHHHHHHHHHHHHhHH
Q 036368 187 KPFRDMIEGMRMDT-RKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQ-SIYNGALNLGVGNQLTNILRDVG 264 (378)
Q Consensus 187 ~~l~~lieg~~~DL-~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~-~~~~~A~~LG~AlQLtNiLRDl~ 264 (378)
.--.++++|.-..- +...++.-.+.-.|.+...|.-.-...-++- +..-+.. -......++...+..+|.+-||-
T Consensus 152 kSTLdFv~g~~iEq~nf~~~p~A~~fP~ylR~ksGl~E~yA~FiFP---k~~FpE~~~~~qi~~AIp~~~~~i~~~NDIL 228 (357)
T cd00686 152 RSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWP---KEQFNERSLFLEITSAIAQMENWMVWVNDLM 228 (357)
T ss_pred HHHHHHHHHHHHhhhccCCCCCCcccchHHHhccCCcceeEEEecc---hhhCchHhhHHHhhHHHHHHHHHHHhhhhhh
Confidence 11235666654442 2344666667778888888843333332332 1111111 22333446666666677777764
Q ss_pred H----HH-hcCCCCCCHHhHHhcCCChHhhh
Q 036368 265 E----DA-SRGRVYLPQDELAQFGLCDKDVF 290 (378)
Q Consensus 265 e----D~-~~GR~YLP~d~L~~~Gvs~edl~ 290 (378)
- .. .+.|.=+=.-...-+|+|..+-+
T Consensus 229 SFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL 259 (357)
T cd00686 229 SFYKEFDDERDQISLVKNYVVSDEISLHEAL 259 (357)
T ss_pred heehhhcccccccchHHHhhhhcCCCHHHHH
Confidence 2 22 23334333444455788876543
No 31
>PHA01083 hypothetical protein
Probab=49.47 E-value=54 Score=28.88 Aligned_cols=61 Identities=20% Similarity=0.250 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHhcC-CCCCCHHhHH----hcCCChHhhhh-----ccCCHHHHHHHHHHHHHHHH
Q 036368 244 YNGALNLGVGNQLTNILRDVGEDASRG-RVYLPQDELA----QFGLCDKDVFA-----RKVTDNWREFMKEQIKRART 311 (378)
Q Consensus 244 ~~~A~~LG~AlQLtNiLRDl~eD~~~G-R~YLP~d~L~----~~Gvs~edl~~-----~~~~~~~~~~~~~l~~~A~~ 311 (378)
...|..||+--|.+ -+++.| |.|+|.+... ..|++++...- ...+|+.+.+++.++.+...
T Consensus 20 kqLA~~LGVs~q~I-------S~~R~G~r~~i~de~A~~LAe~aGiDp~eall~i~aDraetp~~kalWesIaKKlng 90 (149)
T PHA01083 20 KQIAHDLGVSPQKI-------SKMRTGVRTYISDEEAIFLAESAGIDPEIALLGCHADRNENPRAKAIWESIAKKQNG 90 (149)
T ss_pred HHHHHHhCCCHHHH-------HHHHcCCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhc
Confidence 45677777776664 577899 9999999653 36999887653 45678888888887766543
No 32
>PRK05255 hypothetical protein; Provisional
Probab=45.25 E-value=75 Score=28.73 Aligned_cols=62 Identities=29% Similarity=0.524 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhcC-CCCCCCHHHHHHHHHHh
Q 036368 149 SVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFP-LDIKPFRDMIEGMRMDTR-KFRYEDFQELYLYCYYV 218 (378)
Q Consensus 149 ~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~-l~~~~l~~lieg~~~DL~-~~~~~t~~dL~~Y~~~v 218 (378)
.-+|..|++.|-. .| ..+|.+++..|+ .+.+.|..+|..-..+.. +.+..+.-+|-.|+...
T Consensus 106 ~h~lE~wRdrLi~--~~------d~al~e~~~~~P~~DrQ~LRqLiR~A~kE~~~~kppk~~R~LF~~Lr~~ 169 (171)
T PRK05255 106 FHKLERWRDRLLA--EG------DDALTEFLEEYPDADRQQLRQLIRNAKKEKAQNKPPKSFRELFQYLREL 169 (171)
T ss_pred HHHHHHHHHHHHh--CC------HHHHHHHHHHCchhhHHHHHHHHHHHHHHHHcCCCchhHHHHHHHHHHH
Confidence 3578889998754 23 256777888885 889999999999998864 45678999999998764
No 33
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=38.52 E-value=12 Score=24.97 Aligned_cols=21 Identities=24% Similarity=0.638 Sum_probs=18.1
Q ss_pred hcCCCCCCHHhHHhcCCChHh
Q 036368 268 SRGRVYLPQDELAQFGLCDKD 288 (378)
Q Consensus 268 ~~GR~YLP~d~L~~~Gvs~ed 288 (378)
..||+.||.++.++.|+...|
T Consensus 5 ~kgri~iP~~~r~~l~~~~gd 25 (43)
T TIGR01439 5 KKGQIVIPKEIREKLGLKEGD 25 (43)
T ss_pred cCCeEEecHHHHHHcCcCCCC
Confidence 479999999999999988654
No 34
>PRK02899 adaptor protein; Provisional
Probab=35.29 E-value=38 Score=31.19 Aligned_cols=44 Identities=16% Similarity=0.422 Sum_probs=37.5
Q ss_pred CCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHH
Q 036368 270 GRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNM 315 (378)
Q Consensus 270 GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~ 315 (378)
=||+|-.+.|.+.|++.+||+.+ ++++..++..|.+.|..-+.=
T Consensus 11 Irv~it~~DL~eRgi~~~dL~~n--~~k~e~lF~~mm~Ea~~e~~F 54 (197)
T PRK02899 11 IKIFLTFDDLSERGLTKEDLWRD--APKVHQLFRDMMQEANKELGF 54 (197)
T ss_pred EEEEEeHHHHHHcCCCHHHHhcC--cHHHHHHHHHHHHHhhhccCc
Confidence 37899999999999999999974 588999999999998765543
No 35
>PF07278 DUF1441: Protein of unknown function (DUF1441); InterPro: IPR009901 This entry is represented by Bacteriophage VT1-Sakai, H0025. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Enterobacterial proteins of around 160 residues in length. The function of this family is unknown.
Probab=33.70 E-value=76 Score=28.14 Aligned_cols=54 Identities=13% Similarity=0.274 Sum_probs=33.1
Q ss_pred cHHHHHHHHHHHHHH-H---cCC--CCcHHHHHHHHH--------------HH-hCCCChHH---HHHHHHHHHhhcC
Q 036368 148 GSVVLDRWEERLQDI-F---YGR--PYDMLDAALTDT--------------VF-KFPLDIKP---FRDMIEGMRMDTR 201 (378)
Q Consensus 148 ~~~~L~~Wr~~L~~i-~---~g~--p~~pv~~aL~~~--------------v~-~~~l~~~~---l~~lieg~~~DL~ 201 (378)
...+.+||+...+++ | .|. |.+.|...++.+ +. .++|+++. +..+||..+.++.
T Consensus 66 p~dRK~w~qsE~eRlk~e~e~g~Lipa~eV~~~~s~~~Kav~q~LetlPD~LERd~gL~p~~v~~vQ~~iD~lR~~l~ 143 (152)
T PF07278_consen 66 PKDRKAWWQSENERLKFEKETGQLIPAEEVRREMSEMAKAVVQVLETLPDILERDAGLPPEQVARVQSVIDDLRDQLA 143 (152)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccCcHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHHHHHHHHHH
Confidence 357899999999886 3 454 434444444332 22 36777643 4577777777664
No 36
>COG3028 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.10 E-value=1.7e+02 Score=26.55 Aligned_cols=63 Identities=22% Similarity=0.389 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhcC-CCCCCCHHHHHHHHHHhh
Q 036368 149 SVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFP-LDIKPFRDMIEGMRMDTR-KFRYEDFQELYLYCYYVA 219 (378)
Q Consensus 149 ~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~-l~~~~l~~lieg~~~DL~-~~~~~t~~dL~~Y~~~vA 219 (378)
.-++..||++|-. .|. .||.+++..|+ -+.+.|+.+|..-..... +.++.++-++..|.....
T Consensus 116 lHklE~~RdrLia--~GD------~Alt~~l~~~P~aDrq~LR~LvRna~kE~a~NKPPks~ReifQ~lk~l~ 180 (187)
T COG3028 116 LHKLEQLRDRLIA--EGD------GALTEFLNQYPDADRQQLRTLIRNAKKEQAQNKPPKSFREIFQYLKELM 180 (187)
T ss_pred HHHHHHHHHHHHh--cCc------hHHHHHHHHCCcccHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence 3567889987633 343 57778888886 678999999998888764 578889999999987543
No 37
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=23.51 E-value=43 Score=27.33 Aligned_cols=17 Identities=47% Similarity=0.870 Sum_probs=14.4
Q ss_pred HhHHHHH-hcCCCCCCHH
Q 036368 261 RDVGEDA-SRGRVYLPQD 277 (378)
Q Consensus 261 RDl~eD~-~~GR~YLP~d 277 (378)
-|+.||+ ++||+|-|.+
T Consensus 90 edvve~L~~~g~~Y~pR~ 107 (112)
T COG5204 90 EDVVEDLEQHGRIYYPRT 107 (112)
T ss_pred HHHHHHHHHhCccccCCC
Confidence 4788888 6999999986
No 38
>PF04751 DUF615: Protein of unknown function (DUF615); InterPro: IPR006839 The proteins in this entry are functionally uncharacterised. The entry contains the Escherichia coli (strain K12) protein YjgA (P0A8X0 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2P0T_A.
Probab=23.26 E-value=2e+02 Score=25.50 Aligned_cols=59 Identities=29% Similarity=0.551 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhcCC-CCCCCHHHHHHHHH
Q 036368 150 VVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFP-LDIKPFRDMIEGMRMDTRK-FRYEDFQELYLYCY 216 (378)
Q Consensus 150 ~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~-l~~~~l~~lieg~~~DL~~-~~~~t~~dL~~Y~~ 216 (378)
.++..|+|.|-. |. ..+|.+++..|+ .+.+.|..+|.....+... .+....-+|..|..
T Consensus 96 h~lE~wRdrLi~---~~-----~~al~e~~~~~p~~D~Q~LRqLiR~a~ke~~~~k~~ka~R~Lfr~Lr 156 (157)
T PF04751_consen 96 HRLERWRDRLIA---DD-----DSALTEFLAEYPDADRQQLRQLIRNARKEREANKPPKAYRELFRYLR 156 (157)
T ss_dssp HHHHHHHHHHHH---S------HHHHHHHHHHSTTS-HHHHHHHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHh---CC-----hHHHHHHHHHCChhhHHHHHHHHHHHHHHHHcCCCchhHHHHHHHHh
Confidence 478899998755 22 266777888886 7899999999999998764 45567778877764
No 39
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=22.14 E-value=53 Score=27.91 Aligned_cols=37 Identities=27% Similarity=0.521 Sum_probs=24.8
Q ss_pred HHHHhcCCCCCC-HHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHH
Q 036368 264 GEDASRGRVYLP-QDELAQFGLCDKDVFARKVTDNWREFMKEQIKRA 309 (378)
Q Consensus 264 ~eD~~~GR~YLP-~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A 309 (378)
...+..|-.|+| -+.|..|+|+++| |..++.++...|
T Consensus 26 s~~l~~gFp~~~~P~~l~~~DVs~eD---------W~~F~~dl~~aa 63 (123)
T PF15496_consen 26 SDSLSSGFPYLYPPPPLASHDVSEED---------WTRFLNDLSEAA 63 (123)
T ss_pred CCccccCCCCcCCCchhhhcCCCHHH---------HHHHHHHHHHHH
Confidence 344556776663 4456999999986 666777776554
No 40
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=22.06 E-value=4.4e+02 Score=25.72 Aligned_cols=85 Identities=9% Similarity=-0.003 Sum_probs=48.9
Q ss_pred HHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHH
Q 036368 131 WCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRP-YDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQ 209 (378)
Q Consensus 131 f~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p-~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~ 209 (378)
+...+.+.++.+......++-.+.|.+..++.|...- .+........++...--=+..+.++++-....+. ++|-.
T Consensus 196 ~~~~l~~~~~~g~~~~s~re~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~~~a~m~~r~~~~~~~e~~L~~l~---lPTr~ 272 (293)
T PF09712_consen 196 MMEKLQERAEEGEQIKSWREFYDIWIDAAEEAYEELFRSEEFAQAYGQLVNALMDLRKQQQEVVEEYLRSLN---LPTRS 272 (293)
T ss_pred HHHHHHHhhccCCCCcCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCHH
Confidence 3444445566554443445667889999998875432 1223333333433222224556677777666664 88888
Q ss_pred HHHHHHHHh
Q 036368 210 ELYLYCYYV 218 (378)
Q Consensus 210 dL~~Y~~~v 218 (378)
|++....++
T Consensus 273 evd~l~k~l 281 (293)
T PF09712_consen 273 EVDELYKRL 281 (293)
T ss_pred HHHHHHHHH
Confidence 887766544
No 41
>KOG3426 consensus NADH:ubiquinone oxidoreductase, NDUFA6/B14 subunit [Energy production and conversion]
Probab=21.25 E-value=1.9e+02 Score=24.42 Aligned_cols=49 Identities=20% Similarity=0.371 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHc--CCCCcH
Q 036368 119 EERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFY--GRPYDM 170 (378)
Q Consensus 119 ~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~--g~p~~p 170 (378)
+.+|+.+-+..||||.+-.|+|+-+.-.+ -+...|+.+..-|. +.-.+|
T Consensus 21 EARrrvl~~yra~~R~iP~~~~dy~L~dm---~~~~~R~~ir~qf~kn~hvTD~ 71 (124)
T KOG3426|consen 21 EARRRVLDLYRAWYRSIPTIVDDYNLQDM---TVSQLRDKIREQFRKNAHVTDP 71 (124)
T ss_pred HHHHHHHHHHHHHHHhcChHHHhcCCccc---CHHHHHHHHHHHHHhcCCcCCc
Confidence 45555566666999999999998765333 35667888887664 333454
No 42
>PRK02315 adaptor protein; Provisional
Probab=20.36 E-value=95 Score=29.29 Aligned_cols=44 Identities=16% Similarity=0.290 Sum_probs=37.4
Q ss_pred CCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHH
Q 036368 270 GRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNM 315 (378)
Q Consensus 270 GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~ 315 (378)
=||+|-.+.|+..|++..||+. +.++...++..|++.|..-..=
T Consensus 11 IRv~it~~DL~eRGi~~~dL~~--n~~k~e~fF~~mm~Ea~~e~~F 54 (233)
T PRK02315 11 IKVFITYDDLEERGFEREDLLY--NREKIEEFFYSMMDEVDEEDDF 54 (233)
T ss_pred EEEEecHHHHHHcCCCHHHHhc--CcHHHHHHHHHHHHHhccccCc
Confidence 3789999999999999999995 4588999999999998765443
Done!