Query 022166
Match_columns 301
No_of_seqs 129 out of 1109
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 08:32:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022166.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022166hhsearch_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 6E-62 1.3E-66 446.8 31.2 261 7-279 44-313 (334)
2 TIGR03465 HpnD squalene syntha 100.0 3.6E-60 7.8E-65 424.3 30.1 259 20-299 2-263 (266)
3 TIGR03464 HpnC squalene syntha 100.0 7E-60 1.5E-64 422.1 30.1 259 20-299 2-264 (266)
4 cd00683 Trans_IPPS_HH Trans-Is 100.0 6E-60 1.3E-64 422.9 28.5 255 14-279 2-261 (265)
5 PF00494 SQS_PSY: Squalene/phy 100.0 7.1E-56 1.5E-60 397.1 19.6 251 19-279 1-264 (267)
6 COG1562 ERG9 Phytoene/squalene 100.0 2E-53 4.4E-58 380.4 28.1 261 7-279 5-271 (288)
7 KOG4411 Phytoene/squalene synt 100.0 1E-46 2.2E-51 314.0 27.5 286 1-301 1-292 (292)
8 TIGR01559 squal_synth farnesyl 100.0 8.6E-47 1.9E-51 344.5 24.5 254 12-279 2-283 (336)
9 KOG1459 Squalene synthetase [L 99.8 4.9E-19 1.1E-23 157.5 10.4 259 10-281 31-311 (413)
10 cd00867 Trans_IPPS Trans-Isopr 99.8 3E-18 6.5E-23 150.6 11.8 187 25-244 1-220 (236)
11 cd00385 Isoprenoid_Biosyn_C1 I 99.7 6.4E-17 1.4E-21 140.4 10.6 212 25-244 1-228 (243)
12 KOG1459 Squalene synthetase [L 99.3 2.5E-11 5.4E-16 108.7 14.7 251 7-279 127-387 (413)
13 PLN02890 geranyl diphosphate s 93.3 3.8 8.3E-05 39.2 14.8 136 105-247 235-399 (422)
14 PRK10888 octaprenyl diphosphat 93.2 6.1 0.00013 36.4 15.8 135 106-247 139-306 (323)
15 PRK10581 geranyltranstransfera 93.2 3 6.5E-05 38.0 13.6 120 108-246 153-280 (299)
16 TIGR02749 prenyl_cyano solanes 92.7 6.3 0.00014 36.3 15.0 134 106-246 142-304 (322)
17 TIGR02748 GerC3_HepT heptapren 92.6 4.5 9.8E-05 37.2 14.0 134 105-247 137-302 (319)
18 cd00685 Trans_IPPS_HT Trans-Is 91.4 3.7 8.1E-05 36.4 11.6 122 105-247 116-244 (259)
19 PLN02857 octaprenyl-diphosphat 91.3 4.8 0.0001 38.5 12.8 134 106-246 236-398 (416)
20 CHL00151 preA prenyl transfera 89.4 10 0.00022 34.9 13.0 134 106-246 143-305 (323)
21 cd00868 Terpene_cyclase_C1 Ter 85.1 26 0.00057 30.9 15.6 170 27-201 34-235 (284)
22 PF00348 polyprenyl_synt: Poly 79.8 15 0.00032 32.6 9.1 70 110-181 119-195 (260)
23 PF03936 Terpene_synth_C: Terp 78.8 44 0.00096 29.2 12.7 148 28-182 51-232 (270)
24 COG0142 IspA Geranylgeranyl py 69.9 91 0.002 28.7 13.4 138 104-245 141-303 (322)
25 cd00687 Terpene_cyclase_nonpla 68.3 90 0.0019 28.0 21.1 198 27-243 45-271 (303)
26 cd00686 Terpene_cyclase_cis_tr 63.9 47 0.001 30.8 8.4 135 33-178 81-228 (357)
27 PF06330 TRI5: Trichodiene syn 63.4 1.3E+02 0.0029 28.3 13.5 141 28-179 76-229 (376)
28 cd00684 Terpene_cyclase_plant_ 58.4 2E+02 0.0043 28.6 19.3 201 29-247 272-503 (542)
29 KOG0776 Geranylgeranyl pyropho 58.1 1.2E+02 0.0025 28.8 10.0 125 128-255 230-378 (384)
30 PRK05255 hypothetical protein; 45.3 1.8E+02 0.0039 24.2 8.6 65 63-138 104-169 (171)
31 PF09712 PHA_synth_III_E: Poly 38.9 1.4E+02 0.0031 27.1 7.4 87 46-138 195-281 (293)
32 TIGR01439 lp_hng_hel_AbrB loop 34.3 28 0.0006 21.1 1.5 17 185-201 6-22 (43)
33 COG5204 SPT4 Transcription elo 33.8 15 0.00033 27.2 0.2 18 175-193 90-107 (112)
34 PF13250 DUF4041: Domain of un 25.8 1.7E+02 0.0038 19.4 4.3 38 42-79 2-41 (56)
35 PRK02899 adaptor protein; Prov 25.6 99 0.0021 26.3 3.9 40 186-233 11-52 (197)
36 PF12588 PSDC: Phophatidylseri 22.0 1.6E+02 0.0034 23.7 4.1 50 86-135 2-52 (141)
37 COG1575 MenA 1,4-dihydroxy-2-n 20.0 42 0.0009 30.6 0.5 23 168-192 192-214 (303)
No 1
>PLN02632 phytoene synthase
Probab=100.00 E-value=6e-62 Score=446.83 Aligned_cols=261 Identities=21% Similarity=0.263 Sum_probs=247.1
Q ss_pred hHHHHHHHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCC
Q 022166 7 SLRAAFSHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEH 86 (301)
Q Consensus 7 ~~~~~~~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~ 86 (301)
.+.+++++|.++++++|+|||++++|+|+++|+++++||+|||++|+|+|+++++..+.++|+||++.++.++.|. +.|
T Consensus 44 ~l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g~-~~~ 122 (334)
T PLN02632 44 LLEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLFDGR-PYD 122 (334)
T ss_pred cchHHHHHHHHHHhhcCchHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCCC-CCC
Confidence 5889999999999999999999999999999999999999999999999999888888899999999999999986 589
Q ss_pred HHHHHHHHhHhhCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCC------ccHHHH
Q 022166 87 PVAQALASVLSENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKS------AAADHA 160 (301)
Q Consensus 87 Pv~~aL~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~------~~~~~~ 160 (301)
|+..+|.++++.++++.++|.+||+||++|++..+ |+|++||+.|||+|||+||+|+++++|..+ +.+.+.
T Consensus 123 pv~~aL~~~~~~~~L~~~~~~~li~g~~~Dl~~~~---~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~ 199 (334)
T PLN02632 123 MLDAALADTVSKFPLDIQPFRDMIEGMRMDLVKSR---YENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNA 199 (334)
T ss_pred hHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCC---CCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHHHH
Confidence 99999999999999999999999999999999998 999999999999999999999999998754 235788
Q ss_pred HHHHHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHh
Q 022166 161 ASHIGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARE 238 (301)
Q Consensus 161 a~~lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~ 238 (301)
|.++|.|+|+|||||||++|++ +||||||.|+|.+||++ +++.+. .+++++.++.+++++|+.||.+|+.
T Consensus 200 A~~lG~AlQltNILRDv~eD~~--~GRvYLP~e~L~~~Gv~~edl~~~~------~~~~~~~l~~~~~~~Ar~~~~~a~~ 271 (334)
T PLN02632 200 ALALGIANQLTNILRDVGEDAR--RGRVYLPQDELAQFGLTDEDIFAGK------VTDKWRAFMKFQIKRARMYFAEAEE 271 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh--CCceeCCHHHHHHcCCCHHHHhcCC------CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998 99999999999999999 777776 7799999999999999999999999
Q ss_pred hcCCCCCcch-hHHhhHhHHHHHHHHHHhCCCCCCCcccccc
Q 022166 239 LSGAVPIEAR-PVLLESVPAQVLLDSLNRVQFDVFDPRLARG 279 (301)
Q Consensus 239 ~~~~lp~~~r-~~~~~~~~~~~~L~~l~~~~~~v~~~r~~~~ 279 (301)
++..+|++.| ++++++.+|+.+|++|++.||++|++|++++
T Consensus 272 ~l~~lp~~~r~~v~~a~~~y~~iL~~i~~~~~~v~~~R~~l~ 313 (334)
T PLN02632 272 GVSELDPASRWPVWASLLLYRQILDAIEANDYDNFTKRAYVG 313 (334)
T ss_pred hHhhCCHHhHHHHHHHHHHHHHHHHHHHHcCCCcCCCCCccC
Confidence 9999999998 5667888999999999999999999999997
No 2
>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=3.6e-60 Score=424.27 Aligned_cols=259 Identities=25% Similarity=0.329 Sum_probs=243.4
Q ss_pred hccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhhC
Q 022166 20 RNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSEN 99 (301)
Q Consensus 20 ~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~~ 99 (301)
+++|+|||+|++++|++.|+++++||+|||++|+|+|+.+++..+.++|+||++.++.++.|. +.|||+.+|.++++.+
T Consensus 2 ~~~s~sF~~a~~~lp~~~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g~-~~~pv~~al~~~~~~~ 80 (266)
T TIGR03465 2 AASGSSFYYGMRLLPPERRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAGA-PSHPVARALADPARRF 80 (266)
T ss_pred CCCcCcHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCCC-CCChHHHHHHHHHHHc
Confidence 578999999999999999999999999999999999998889999999999999999999886 5899999999999999
Q ss_pred CCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHhchh
Q 022166 100 KISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKSAAADHAASHIGKASGLLLLLKSLPY 179 (301)
Q Consensus 100 ~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~~~~~~~a~~lG~alql~nilRd~~~ 179 (301)
++|+++|.+||+||++|++..+ |+|++||+.||++|||+||+|+++++|..++...+.|+++|.|+|+||||||+++
T Consensus 81 ~l~~~~~~~li~g~~~Dl~~~~---~~t~~dL~~Y~~~vAg~vg~l~~~llg~~~~~~~~~a~~lG~AlqltnilRdv~e 157 (266)
T TIGR03465 81 DLPQEDFLEVIDGMEMDLEQTR---YPDFAELDLYCDRVAGAVGRLSARIFGATDARTLEYAHHLGRALQLTNILRDVGE 157 (266)
T ss_pred CCCHHHHHHHHHHHHHHcCCCC---CCCHHHHHHHHHHhHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHHHHHHHHhHH
Confidence 9999999999999999999998 9999999999999999999999999998877788999999999999999999999
Q ss_pred hhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcch-hHHhhHhH
Q 022166 180 HASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVPIEAR-PVLLESVP 256 (301)
Q Consensus 180 d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~~r-~~~~~~~~ 256 (301)
|+. +||||||.|+|.+||++ ++..+. .++++++++.+++++|+.||.+|+.+++.+|++.+ ++++++.+
T Consensus 158 D~~--~gR~ylP~~~l~~~gv~~~~l~~~~------~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~~~~~~~~~~ 229 (266)
T TIGR03465 158 DAR--RGRIYLPAEELQRFGVPAADILEGR------YSPALAALCRFQAERARAHYAEADALLPACDRRAQRAARAMAAI 229 (266)
T ss_pred HHh--CCCeecCHHHHHHcCCCHHHhcCCC------CCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhhHHHHHHHHH
Confidence 999 99999999999999999 677776 67899999999999999999999999999998765 67778899
Q ss_pred HHHHHHHHHhCCCCCCCccccccccCCCchhhhHHHHHHHhhc
Q 022166 257 AQVLLDSLNRVQFDVFDPRLARGVLGVSPLWYHVKLKWYSWRG 299 (301)
Q Consensus 257 ~~~~L~~l~~~~~~v~~~r~~~~~~~~~~~~~~~~~~w~~~~~ 299 (301)
|+.+|++|++.||++|++|+.++ +++++|..|+.
T Consensus 230 ~~~iL~~i~~~~~~~~~~r~~~~---------~~~k~~~~~~~ 263 (266)
T TIGR03465 230 YRALLDEIEADGFQVLRQRVSLT---------PLRKLWIALRT 263 (266)
T ss_pred HHHHHHHHHHCCCCCCCCCCcCC---------HHHHHHHHHHH
Confidence 99999999999999999999997 56677776664
No 3
>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=7e-60 Score=422.14 Aligned_cols=259 Identities=19% Similarity=0.151 Sum_probs=241.9
Q ss_pred hccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccC-CChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhh
Q 022166 20 RNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIA-SDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSE 98 (301)
Q Consensus 20 ~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~-~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~ 98 (301)
+++++|||+|++|+|+++|+++++||||||++|||+|++ .++..+.++|+||++.+++++.|. ++|||..+|.++++.
T Consensus 2 ~~~~~sf~~a~~~lp~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g~-~~~pv~~aL~~~~~~ 80 (266)
T TIGR03464 2 VAHYENFPVASLLLPARLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSGE-PAAPVFVALARTVQR 80 (266)
T ss_pred CCccCcHHHHHHhCCHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCCC-CCChHHHHHHHHHHH
Confidence 467899999999999999999999999999999999996 567788999999999999999886 489999999999999
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHhch
Q 022166 99 NKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKSAAADHAASHIGKASGLLLLLKSLP 178 (301)
Q Consensus 99 ~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~~~~~~~a~~lG~alql~nilRd~~ 178 (301)
+++|.++|.+||+||++|+++.+ |+|++||+.|||+|||+||+|+++++|..+....+.|.++|.|+|+||||||++
T Consensus 81 ~~l~~~~~~~li~~~~~Dl~~~~---~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~~~~~~~A~~lG~AlQltniLRDl~ 157 (266)
T TIGR03464 81 HGLPIEPFLDLLDAFRQDVVVTR---YATWAELLDYCRYSANPVGRLVLDLYGASDPENVALSDAICTALQLINFWQDVG 157 (266)
T ss_pred cCCChHHHHHHHHHHHHhccCCC---CCCHHHHHHHHHHhHHHHHHHHHHHcCCCChhHHHHHHHHHHHHHHHHHHHhhH
Confidence 99999999999999999999998 999999999999999999999999999877777889999999999999999999
Q ss_pred hhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcchhHH-hhHh
Q 022166 179 YHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVPIEARPVL-LESV 255 (301)
Q Consensus 179 ~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~~r~~~-~~~~ 255 (301)
+|++ +||||||.|+|.+||++ ++..+. .++++++++.+++++|+.||.+|+.+++.+|.+.++++ .+..
T Consensus 158 eD~~--~gR~YLP~~~l~~~Gv~~edl~~~~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~~~ 229 (266)
T TIGR03464 158 VDYR--KGRVYLPRDDLARFGVSEEDLAAGR------ATPALRELMAFEVSRTRALLDRGAPLAARVDGRLGLELALIVR 229 (266)
T ss_pred HHHh--cCCccCCHHHHHHcCCCHHHHhcCC------CCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhhHHHHHHHH
Confidence 9999 99999999999999999 777776 67899999999999999999999999999999888765 5667
Q ss_pred HHHHHHHHHHhCCCCCCCccccccccCCCchhhhHHHHHHHhhc
Q 022166 256 PAQVLLDSLNRVQFDVFDPRLARGVLGVSPLWYHVKLKWYSWRG 299 (301)
Q Consensus 256 ~~~~~L~~l~~~~~~v~~~r~~~~~~~~~~~~~~~~~~w~~~~~ 299 (301)
+|+.+|++|++.||++|++|++++ +++++|..|+.
T Consensus 230 ~y~~iL~~l~~~~~~~~~~r~~~~---------~~~kl~~~~~a 264 (266)
T TIGR03464 230 GGLRILEKIERQGYDVLRERPKLG---------KFDWAGLLLRA 264 (266)
T ss_pred HHHHHHHHHHHcCCCCCCCCCcCC---------HHHHHHHHHHH
Confidence 999999999999999999999997 67778877765
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=6e-60 Score=422.87 Aligned_cols=255 Identities=23% Similarity=0.272 Sum_probs=243.0
Q ss_pred HHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCCh-HHHHHHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 022166 14 HCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDP-RIGLMRLVWWKEAIDKIYVRKQIEHPVAQAL 92 (301)
Q Consensus 14 ~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~-~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL 92 (301)
+|.++++++|+|||++++|+|++.|+++++||||||++|+|+|+++++ ..+.++|+||++.++.++.|+.+.|||+.+|
T Consensus 2 ~c~~~~~~~~~sf~~a~~~lp~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~pv~~al 81 (265)
T cd00683 2 YCRAILRKGSRSFYLASRLLPPELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWGGAPTHPVLRAL 81 (265)
T ss_pred HHHHHHHHhCCcHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcCCCCCChHHHHH
Confidence 799999999999999999999999999999999999999999999877 8899999999999999999777899999999
Q ss_pred HHhHhhCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCC-CCccHHHHHHHHHHHHHHH
Q 022166 93 ASVLSENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGI-KSAAADHAASHIGKASGLL 171 (301)
Q Consensus 93 ~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~-~~~~~~~~a~~lG~alql~ 171 (301)
.++++.++++.++|.+||+||++|++..+ |+|++||+.||++|||+||+|+++++|. .+++..+.|.++|.|+|+|
T Consensus 82 ~~~~~~~~l~~~~~~~li~g~~~Dl~~~~---~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~~~~~~~~~A~~lG~Alqlt 158 (265)
T cd00683 82 ADLARRYGIPREPFRDLLAGMAMDLDKRR---YETLDELDEYCYYVAGVVGLMLLRVFGASSDEAALERARALGLALQLT 158 (265)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHHhHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999988 9999999999999999999999999998 5667889999999999999
Q ss_pred HHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcchh
Q 022166 172 LLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVPIEARP 249 (301)
Q Consensus 172 nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~~r~ 249 (301)
|||||+++|++ +||||||.|+|.+||++ ++..+. .++++++++.+++++|+.||.+|+.+++.+|+..++
T Consensus 159 nilRdv~eD~~--~gR~YlP~d~l~~~gv~~~~l~~~~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~ 230 (265)
T cd00683 159 NILRDVGEDAR--RGRIYLPREELARFGVTLEDLLAPE------NSPAFRALLRRLIARARAHYREALAGLAALPRRSRF 230 (265)
T ss_pred HHHHHHHHHHc--cCCCcCCHHHHHHcCCCHHHHcCCC------CCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHH
Confidence 99999999998 99999999999999999 777766 779999999999999999999999999999999998
Q ss_pred HHhhH-hHHHHHHHHHHhCCCCCCCcccccc
Q 022166 250 VLLES-VPAQVLLDSLNRVQFDVFDPRLARG 279 (301)
Q Consensus 250 ~~~~~-~~~~~~L~~l~~~~~~v~~~r~~~~ 279 (301)
+++++ .+|+.++++|++.||++|+.|++++
T Consensus 231 ~~~~~~~~y~~il~~i~~~~~~~~~~r~~~~ 261 (265)
T cd00683 231 CVRAAAMLYRTILDEIEARGYDVLSVRVRVP 261 (265)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Confidence 88865 5889999999999999999999986
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=7.1e-56 Score=397.06 Aligned_cols=251 Identities=31% Similarity=0.425 Sum_probs=216.8
Q ss_pred HhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhc-----CCCCCCHHHHHHH
Q 022166 19 VRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYV-----RKQIEHPVAQALA 93 (301)
Q Consensus 19 ~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~-----g~~~~~Pv~~aL~ 93 (301)
++++|+|||+|++++|++.|++++++|+|||++|+|+|+++++..+.++|+||++.++.++. +..+.|||+.+|.
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 57899999999999999999999999999999999999999999999999999999999993 3357899999999
Q ss_pred HhHhhCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCC-Cc-cHHHHHHHHHHHHHHH
Q 022166 94 SVLSENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIK-SA-AADHAASHIGKASGLL 171 (301)
Q Consensus 94 ~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~-~~-~~~~~a~~lG~alql~ 171 (301)
++++.+++++++|.+||+||++|++..+ |+|++||+.||++|+|+||+|+++++|.. +. .+.+.|.++|.|+|+|
T Consensus 81 ~~~~~~~l~~~~l~~li~~~~~dl~~~~---~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~~~~~~~~a~~lG~alql~ 157 (267)
T PF00494_consen 81 DLVRRYGLPREPLLELIDGMEMDLEFTP---YETFADLERYCYYVAGSVGLLLLQLLGAHDPDEAARDAARALGRALQLT 157 (267)
T ss_dssp HHHCCSHHHHHHHHHHHHHHHHCTT-S-----SSHHHHHHHHHHHTHHHHHHHHHHHHSSTSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhhHHHHHHHHHHhcccccCCC---CCCHHHHHHHHHHHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999998 99999999999999999999999999984 33 5789999999999999
Q ss_pred HHHHhchhh-hhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCC-CCcc
Q 022166 172 LLLKSLPYH-ASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAV-PIEA 247 (301)
Q Consensus 172 nilRd~~~d-~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l-p~~~ 247 (301)
|||||+++| +. +||||||.|+|.+||++ ++..+.. .+++++.++.+++.+|+.+|.+|+.+++.+ |+..
T Consensus 158 nilRd~~~D~~~--~gR~ylP~d~l~~~gv~~~dl~~~~~-----~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~~ 230 (267)
T PF00494_consen 158 NILRDIPEDALR--RGRIYLPLDDLRRFGVTPEDLLAGRP-----RSERLRALIRELAARARAHLDEARAGLSALPPPRA 230 (267)
T ss_dssp HHHHTHHHH-HH--TT---S-HHHHHHTTSSHHHHHHHG------GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TTH
T ss_pred HHHHHhHHHHHh--cccccCCchhHHHcCCCHHHHHhccc-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhh
Confidence 999999999 78 99999999999999999 6654431 456799999999999999999999999999 6657
Q ss_pred hhH-HhhHhHHHHHHHHHHhCCCC-CCCcccccc
Q 022166 248 RPV-LLESVPAQVLLDSLNRVQFD-VFDPRLARG 279 (301)
Q Consensus 248 r~~-~~~~~~~~~~L~~l~~~~~~-v~~~r~~~~ 279 (301)
+++ ++++.+|..+|++|++.||+ +|++|++++
T Consensus 231 ~~~~~~~~~~~~~~l~~l~~~~~~~v~~~r~~~~ 264 (267)
T PF00494_consen 231 RPAVAAAAALYRAILDKLERNGYDPVFQRRVKVS 264 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTT--GSSS-----
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCcccCCCCCcCC
Confidence 775 66888999999999999999 889999987
No 6
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=2e-53 Score=380.38 Aligned_cols=261 Identities=27% Similarity=0.326 Sum_probs=239.0
Q ss_pred hHHHHHHHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCCh-HHHHHHHHHHHHHHHHHhcCCC-C
Q 022166 7 SLRAAFSHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDP-RIGLMRLVWWKEAIDKIYVRKQ-I 84 (301)
Q Consensus 7 ~~~~~~~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~-~~~~~rL~~w~~~l~~~~~g~~-~ 84 (301)
+...++.+|.++++++|++||++++|+|+++|++++++|+|||++|+|+|++++| ..+++++.||++. ...++|.+ .
T Consensus 5 ~~~~~~~~c~~i~~~~srtf~la~~~lp~~~R~av~alYa~~R~~Ddv~D~~~~~~~~~e~~~~~~~~~-~~~~~~~~~~ 83 (288)
T COG1562 5 EIMEALDYCLDILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDGVSDPDLPAEILLAWRREL-DGDFSGQPAS 83 (288)
T ss_pred chhHHHHHHHHHHHHhCcchHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHH-hccccCCCcc
Confidence 4567889999999999999999999999999999999999999999999999999 6677777777665 44445543 6
Q ss_pred CCHHHHHHHHhHhhCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCC-CccHHHHHHH
Q 022166 85 EHPVAQALASVLSENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIK-SAAADHAASH 163 (301)
Q Consensus 85 ~~Pv~~aL~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~-~~~~~~~a~~ 163 (301)
.|||..+|.+++++++++.++|.+|++||++|+...+ |.+++||+.||++|||+||+|++.|+|.. +....+.|..
T Consensus 84 ~~pv~~al~~~~~~~~~~~~~~~~~~da~~~Dl~~~~---y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~~~~~~~~a~~ 160 (288)
T COG1562 84 DHPVLAALVEVARRFGLPREAFPALIDAMRMDLDRTR---YLDFEELEEYCYGVAGAVGLLLARILGPDKDAATRAYARG 160 (288)
T ss_pred cCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhcc---ccCHHHHHHHHHHhHHHHHHHHHHHhCcccchhhHHHHHH
Confidence 8999999999999999999999999999999999999 99999999999999999999999999986 3345566777
Q ss_pred HHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 022166 164 IGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSG 241 (301)
Q Consensus 164 lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~ 241 (301)
+|.|+|+||||||++||.. +||+|||.|.|.+||++ ++.++. +++++++++..++.+|++|+..|+.+++
T Consensus 161 lG~A~QlvNilRdv~eD~~--~GrvylP~e~l~~~g~~~~d~~~~~------~~~~~~~~~~~~~~~ar~~~~~a~~~~~ 232 (288)
T COG1562 161 LGLALQLVNILRDVGEDRR--RGRVYLPAEELARFGVSEADLLAGR------VDDAFRELMRFEADRARDHLAEARRGLP 232 (288)
T ss_pred HHHHHHHHHHHHHhHHHHh--CCcccCCHHHHHHhCCCHHHHHccc------chhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999 99999999999999999 787777 6789999999999999999999999999
Q ss_pred CCCCcchhHHhh-HhHHHHHHHHHHhCCCCCCCcccccc
Q 022166 242 AVPIEARPVLLE-SVPAQVLLDSLNRVQFDVFDPRLARG 279 (301)
Q Consensus 242 ~lp~~~r~~~~~-~~~~~~~L~~l~~~~~~v~~~r~~~~ 279 (301)
.+|.+.++.+.+ ..+|..++.++++.+++||+++..++
T Consensus 233 ~lp~~~~~~~~~~~~~~~~~~~~i~a~~~~vl~~~~~l~ 271 (288)
T COG1562 233 ALPGRAQLAVLAAALLYAYLLDAIEADPADVLSQRAVLP 271 (288)
T ss_pred hCCccccchhhHHHHHHHHHHHHHHccchhhhccCcccC
Confidence 999999988876 46999999999999999999999997
No 7
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=1e-46 Score=314.03 Aligned_cols=286 Identities=47% Similarity=0.717 Sum_probs=260.7
Q ss_pred CCCCcchHHHHHHHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHH-hcccCCChHHHHHHHHHHHHHHHHHh
Q 022166 1 MSGASSSLRAAFSHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSK-AMDIASDPRIGLMRLVWWKEAIDKIY 79 (301)
Q Consensus 1 ~~~~~~~~~~~~~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~-i~D~~~~~~~~~~rL~~w~~~l~~~~ 79 (301)
|.++..+-..+.. |.+.++++|...|+|...+|.+.|.++++|.|||.|+.+ .+|+.++|.++.+||+||+|+|+.+|
T Consensus 1 ~~~~~~~s~~A~s-c~~~vr~ydy~~ylc~l~lp~e~r~aafaLrAfNVE~ar~~~d~~~~p~ia~mRL~fW~daIdk~y 79 (292)
T KOG4411|consen 1 MNGGGSSSRSALS-CVQQVRNYDYHHYLCLLELPTEMRKAAFALRAFNVELARIKVDTRKGPAIAMMRLQFWKDAIDKIY 79 (292)
T ss_pred CCCCCccchhHHH-HHHHHHhhhHHHHHHHHhCcHHHHHHHHHHHHhhHHHHHHhhccccCcHHHHHHHHHHHHHHHHHc
Confidence 5655444477777 999999999999999999999999999999999999999 55666899999999999999999999
Q ss_pred cCCC---CCCHHHHHHHHhHhhCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCCcc
Q 022166 80 VRKQ---IEHPVAQALASVLSENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKSAA 156 (301)
Q Consensus 80 ~g~~---~~~Pv~~aL~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~~~ 156 (301)
.-.| ++|||+++|..++..+++.+.++.+++++++.+..... |++..+|+.|.+.+-|++.++.+++.|.....
T Consensus 80 ~~~p~~v~~qPva~aL~~~~~~~~~nk~~L~rlV~aR~r~~~d~~---fesI~eLeeY~e~TissLL~l~l~agg~~~~~ 156 (292)
T KOG4411|consen 80 GISPLPVPRQPVAIALCSFAAGHNANKDMLLRLVEARQRTIGDRQ---FESINELEEYGESTISSLLCLQLDAGGKVLPM 156 (292)
T ss_pred CCCCCCCCCcHHHHHHHHHHhccccCHHHHHHHHHHhhcCCcccc---hHHHHHHHHHHHhHHHHHHHHHHHhcCccccc
Confidence 6554 89999999999999999999999999999999987777 99999999999999999999999999999889
Q ss_pred HHHHHHHHHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHH
Q 022166 157 ADHAASHIGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLL 234 (301)
Q Consensus 157 ~~~~a~~lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~ 234 (301)
+.++|.|+|.|.+++|+||.+|.... +|.+|||.|.|..||++ +++.... ..+++..++++++..|+.|+.
T Consensus 157 AdhaAshlGkA~gia~llrs~p~~~~--r~~~~iPadv~~lhGvtq~~il~~k~-----~~~g~~~~~fd~as~an~hL~ 229 (292)
T KOG4411|consen 157 ADHAASHLGKAYGIANLLRSTPPLLA--RGIVLIPADVMSLHGVTQLDILYKKK-----KLDGMVGMTFDLASEANRHLI 229 (292)
T ss_pred hHHHHHHHhHHHHHHHHHHhccHHHh--CCCccccHHHHHHcCCCHHHHHhhcc-----chhhhhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999 99999999999999999 5443221 557899999999999999999
Q ss_pred HHHhhcCCCCCcchhHHhhHhHHHHHHHHHHhCCCCCCCccccccccCCCchhhhHHHHHHHhhccC
Q 022166 235 KARELSGAVPIEARPVLLESVPAQVLLDSLNRVQFDVFDPRLARGVLGVSPLWYHVKLKWYSWRGKY 301 (301)
Q Consensus 235 ~a~~~~~~lp~~~r~~~~~~~~~~~~L~~l~~~~~~v~~~r~~~~~~~~~~~~~~~~~~w~~~~~~~ 301 (301)
.||+....+|+..|++++..+....+|+.|++.||+++++..+.. +|+..+-.+.|..|+.+|
T Consensus 230 ~AR~l~~kVP~~vrp~ll~tv~td~~l~~l~k~nfdi~~p~~~~R----~~L~lp~lLfw~sl~~~f 292 (292)
T KOG4411|consen 230 DARSLIEKVPKAVRPALLATVTTDYILKTLEKNNFDIYSPHLQRR----NPLLLPSLLFWRSLCSKF 292 (292)
T ss_pred HHHhHhhhCCHHHHHHHHHhhhHHHHHHHHHHccccccCHhhhcC----CcccccHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999966655 677667788899999987
No 8
>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=8.6e-47 Score=344.46 Aligned_cols=254 Identities=12% Similarity=0.073 Sum_probs=206.8
Q ss_pred HHHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCC----CCCCH
Q 022166 12 FSHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRK----QIEHP 87 (301)
Q Consensus 12 ~~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~----~~~~P 87 (301)
+.+|.++++++|+|||+++++||+++|.+++++|+|||++|+|+|+.+.+. +.++.+|++..+.+..+. ...||
T Consensus 2 ~~~C~~~l~~~SrSF~~ai~~Lp~~lR~aV~~~Yl~cR~~DdIeDd~~~~~--~~kl~~l~~~~~~l~~~~~~~~~~~~~ 79 (336)
T TIGR01559 2 LGFCYELLNLTSRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDMTISV--DKKIPLLRDFHEKIYDPDWRFTESDNE 79 (336)
T ss_pred hHHHHHHHhhcCccHHHHHHHcCHHHHHHHHHHHHHHHhccccccCCCCCH--HHHHHHHHHHHHHHhccCcccCCCCCh
Confidence 578999999999999999999999999999999999999999999876543 234544444333333321 01144
Q ss_pred H----HHHHHHhHhhCCCCHHHHHHHH--------HHHHhccccCCCCCC--CCHHHHHHHHHhhhhHHHHHHHHhcCC-
Q 022166 88 V----AQALASVLSENKISKGWLKRSV--------EARINDANREISDIP--EKIEDLEKYAEDTVSTLLYTTLQAGGI- 152 (301)
Q Consensus 88 v----~~aL~~~~~~~~l~~~~l~~li--------~~~~~dl~~~~~~~~--~t~~dL~~Y~~~~ag~vg~l~~~~lg~- 152 (301)
. +..+...+..+..-+..+.++| +||++|+.... + +|++||+.|||+|||+||.|++++++.
T Consensus 80 ~~~~L~~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~---~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~ 156 (336)
T TIGR01559 80 KDRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEV---TNEQTVGDYDKYCHYVAGLVGIGLSRLFVAS 156 (336)
T ss_pred hhHHHHHhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCc---CCCCCHHHHHHHHhccccHHHHHHHHHHhhc
Confidence 4 3334444444433333455555 99999999887 8 999999999999999999999999943
Q ss_pred --CCc---cHHHHHHHHHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHH
Q 022166 153 --KSA---AADHAASHIGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEM 225 (301)
Q Consensus 153 --~~~---~~~~~a~~lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~ 225 (301)
.++ ...+.|.++|.|+|+||||||+.||+. +||||||.|+|.+||++ ++..+. +++++..++.++
T Consensus 157 ~~~~~~~~~~~~~A~~lG~aLQlTNIlRDv~ED~~--~GR~YlP~e~l~~~g~~~~dl~~~~------~~~~~~~~l~~l 228 (336)
T TIGR01559 157 GFEDPSLGESEALSNSMGLFLQKTNIIRDYLEDIN--EGRMFWPREIWSKYAKKLGDFKKPE------NSDKALQCLNEL 228 (336)
T ss_pred CCCCcchhhhHHHHHHHHHHHHHHHHHHHHHhHHh--CCCCCCCHHHHHHcCCCHHHhcCcc------ccHHHHHHHHHH
Confidence 332 246899999999999999999999999 99999999999999999 666655 789999999999
Q ss_pred HHHHHHHHHHHHhhcCCCCCcc--hhHHhhHhHHHHHHHHHHhCCCCCCCcccccc
Q 022166 226 ASVANVHLLKARELSGAVPIEA--RPVLLESVPAQVLLDSLNRVQFDVFDPRLARG 279 (301)
Q Consensus 226 ~~~A~~~l~~a~~~~~~lp~~~--r~~~~~~~~~~~~L~~l~~~~~~v~~~r~~~~ 279 (301)
+.+|+.||..|..++..|+... .+|.+|.+++.++|..+ .+|.++|++.|.++
T Consensus 229 v~~A~~~~~~al~yl~~l~~~~~~~fcaip~~mAi~TL~~~-~~n~~~~~~~VKi~ 283 (336)
T TIGR01559 229 VTNALHHATDCLTYLSRLRDQSIFNFCAIPQVMAIATLALC-YNNPQVFQGNVKIR 283 (336)
T ss_pred HHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHH-hcChhhcCCCceec
Confidence 9999999999999999997765 46888999999999888 56778999987776
No 9
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.79 E-value=4.9e-19 Score=157.53 Aligned_cols=259 Identities=13% Similarity=0.009 Sum_probs=200.1
Q ss_pred HHHHHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHH-HHHHHHHHHHHHHH---HhcC-CC-
Q 022166 10 AAFSHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRI-GLMRLVWWKEAIDK---IYVR-KQ- 83 (301)
Q Consensus 10 ~~~~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~-~~~rL~~w~~~l~~---~~~g-~~- 83 (301)
.-+..|.+++...++||.....-++.+.|++++.+|...|.+|++.|+.+-|.. ..--|.-+.+.+.. -|.+ .+
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 567899999999999999999999999999999999999999999999865532 22233334433322 1111 11
Q ss_pred ------CCCHHHHHHHHhHhhCC-CCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCC---C
Q 022166 84 ------IEHPVAQALASVLSENK-ISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGI---K 153 (301)
Q Consensus 84 ------~~~Pv~~aL~~~~~~~~-l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~---~ 153 (301)
..|-|..+|...-..|. .-.+.-++|-.||...+... .+|..|++.||++|||-||.-++.++-. +
T Consensus 111 ~r~~l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~~----v~ti~d~d~yChyvagLVg~glsrlf~~s~le 186 (413)
T KOG1459|consen 111 DRQLLPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPEE----VETIWDYDVYCHYVAGLVGIGLSRLFTASKLE 186 (413)
T ss_pred hhhhccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHHH----HhHHHHHHHHHHHHHHhhCCchHhhhhHHHHh
Confidence 12223334433333222 22456778888998877766 5899999999999999999988888743 2
Q ss_pred C--ccHHHHHHHHHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHH
Q 022166 154 S--AAADHAASHIGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVA 229 (301)
Q Consensus 154 ~--~~~~~~a~~lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A 229 (301)
+ ....+..+.+|..+|.|||+||..||.. -||-|+|.|++.++--. |+.... +.+..-.++.+|++.|
T Consensus 187 ~~~~~~e~l~ns~glfLqktnIirdy~ed~~--d~r~Fwp~eIwg~y~d~L~d~~~~e------n~dl~l~Cln~m~tna 258 (413)
T KOG1459|consen 187 DLLARLEQLSNSMGLFLQKTNIIRDYLEDPV--DGRPFWPREIWGKYMDKLKDFRYPE------NDDLALQCLNEMVTNA 258 (413)
T ss_pred hhhhhHHHHhcccchHHHHhHHHHHHHhccc--cCCccChHHHHHHHHHHHHhhhCcc------chhHHHHHHHHHHHHH
Confidence 2 2356789999999999999999999999 89999999999888543 444433 6677788999999999
Q ss_pred HHHHHHHHhhcCCCCCcc--hhHHhhHhHHHHHHHHHHhCCCCCCCcccccccc
Q 022166 230 NVHLLKARELSGAVPIEA--RPVLLESVPAQVLLDSLNRVQFDVFDPRLARGVL 281 (301)
Q Consensus 230 ~~~l~~a~~~~~~lp~~~--r~~~~~~~~~~~~L~~l~~~~~~v~~~r~~~~~~ 281 (301)
..|-..+..++..+..++ .+|.+|.+++.++| .+..+|-+||+++|+++++
T Consensus 259 L~hv~d~l~yls~l~~qsvfnfcaipqimai~Tl-al~~nn~dvfrG~VklrkG 311 (413)
T KOG1459|consen 259 LMHVPDVLTYLSKLRTQSVFNFCAIPQIMAIATL-ALCYNNEDVFRGNVKLRKG 311 (413)
T ss_pred hhccHHHHHHHhhcccHHHHHHHHHHHHHHHHHH-HHHhcCHhHhccceeecCC
Confidence 999999999998887775 56888888888888 6778899999999999853
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=99.77 E-value=3e-18 Score=150.62 Aligned_cols=187 Identities=18% Similarity=0.109 Sum_probs=146.8
Q ss_pred hhhHHhhcCCh----------hhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHH-HHHHHHHHhcCCCCCCHHHHHHH
Q 022166 25 HHYLCLLELPP----------ELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVW-WKEAIDKIYVRKQIEHPVAQALA 93 (301)
Q Consensus 25 s~~~a~~~lp~----------~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~-w~~~l~~~~~g~~~~~Pv~~aL~ 93 (301)
+|++++.++|+ ..+.++..||+|++..|||.|+...+..+.....| |.+.+. +.. .++|+..++.
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~a-i~~---gd~l~~~a~~ 76 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALA-ILA---GDYLLARAFQ 76 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHH-HHH---HHHHHHHHHH
Confidence 36677777888 89999999999999999999997655444445566 665543 333 3578888888
Q ss_pred HhHh-----hCCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHh-hhhHHHHHHHHhcCC--CC----ccHHHHH
Q 022166 94 SVLS-----ENKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAED-TVSTLLYTTLQAGGI--KS----AAADHAA 161 (301)
Q Consensus 94 ~~~~-----~~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~-~ag~vg~l~~~~lg~--~~----~~~~~~a 161 (301)
.+.+ .+.+..+.+.++++|+..|+.... ..+.|++++..||+. |++.+|.++..+... .+ +...+.+
T Consensus 77 ~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~-~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (236)
T cd00867 77 LLARLGYPRALELFAEALRELLEGQALDLEFER-DTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYG 155 (236)
T ss_pred HHHhCChHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHH
Confidence 8776 677888999999999999997662 127899999999999 999999988766522 21 3467899
Q ss_pred HHHHHHHHHHHHHHhchhhh----------hcCCCcccccHHHHHhCCCchhccCCccccccCcHHHHHHHHHHHHHHHH
Q 022166 162 SHIGKASGLLLLLKSLPYHA----------SRNRHFSYIPAEVAANHGLLVKEGGRSEIHLDSREGLCDAVFEMASVANV 231 (301)
Q Consensus 162 ~~lG~alql~nilRd~~~d~----------~~~~gR~yLP~d~l~~~gv~~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~ 231 (301)
.++|.|+|++|.++|+.+|. . .||+|||.+.+ ...+...++.
T Consensus 156 ~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~--~gr~tlp~~~~--------------------------~~~~~~~~~~ 207 (236)
T cd00867 156 RALGLAFQLTDDLLDVFGDAEELGKVGSDLR--EGRITLPVILA--------------------------RERAAEYAEE 207 (236)
T ss_pred HHHHHHHHHHHHhccccCChHHHCccHHHHH--cCCchHHHHHH--------------------------HHHHHHHHHH
Confidence 99999999999999999888 6 89999998875 2445566777
Q ss_pred HHHHHHhhcCCCC
Q 022166 232 HLLKARELSGAVP 244 (301)
Q Consensus 232 ~l~~a~~~~~~lp 244 (301)
++..+..+....|
T Consensus 208 ~~~~~~~~~~~~~ 220 (236)
T cd00867 208 AYAALEALPPSLP 220 (236)
T ss_pred HHHHHHhCCCCch
Confidence 8888887776655
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=99.70 E-value=6.4e-17 Score=140.37 Aligned_cols=212 Identities=18% Similarity=0.067 Sum_probs=161.9
Q ss_pred hhhHHhhcCCh--hhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhh----
Q 022166 25 HHYLCLLELPP--ELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSE---- 98 (301)
Q Consensus 25 s~~~a~~~lp~--~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~---- 98 (301)
++++++.+.|. +.|..+..+|+|++.+|||.|+...+........+|...-... ...+..+|+..++..+.+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 79 (243)
T cd00385 1 FRPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPE-AILAGDLLLADAFEELAREGSPE 79 (243)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchH-HHHHHHHHHHHHHHHHHhCCCHH
Confidence 36778888898 9999999999999999999998866554444555551100000 0012456777777777665
Q ss_pred -CCCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhh-hhHHHHHHHHhcCCC------CccHHHHHHHHHHHHHH
Q 022166 99 -NKISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDT-VSTLLYTTLQAGGIK------SAAADHAASHIGKASGL 170 (301)
Q Consensus 99 -~~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~-ag~vg~l~~~~lg~~------~~~~~~~a~~lG~alql 170 (301)
+....+.+.++++|+..|+..... .++|++++..|++.+ ++.++.++....+.. .+....++.++|.++|+
T Consensus 80 ~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql 158 (243)
T cd00385 80 ALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQL 158 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Confidence 556677899999999999976532 368999999999999 777777776655443 23467889999999999
Q ss_pred HHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 022166 171 LLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVP 244 (301)
Q Consensus 171 ~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp 244 (301)
+|.++|+..|...+.|++++|..++.++|++ ++.... ..+.+.+++..+...+++.+.+..+....+|
T Consensus 159 ~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 159 TNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVE------KSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHH------HCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 9999999999983118999999999999998 333333 4467788899999999999999998888776
No 12
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.35 E-value=2.5e-11 Score=108.75 Aligned_cols=251 Identities=10% Similarity=0.010 Sum_probs=186.7
Q ss_pred hHHHHH-HHHHHHHhccCChhhHHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCC
Q 022166 7 SLRAAF-SHCVQQVRNYDYHHYLCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIE 85 (301)
Q Consensus 7 ~~~~~~-~~c~~~~~~~~~s~~~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~ 85 (301)
.+...| +.|.++.+ .++.....+-.+.++++...|-+||.++.+++...........|..|.-..+++++|.+ -
T Consensus 127 ~L~e~Yqeviaeitk----~mg~Gma~~~~~~v~ti~d~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~l~ns~g-l 201 (413)
T KOG1459|consen 127 NLGEGYQEVIAEITK----RMGLGMALFIPEEVETIWDYDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQLSNSMG-L 201 (413)
T ss_pred HhhHHHHHHHHHHHH----HHhchHHHhhHHHHhHHHHHHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHHHhcccc-h
Confidence 456666 34555554 67776544444449999999999999999999876666667778888888888887642 1
Q ss_pred CHHHHHHHHhHhhCCCCHHHHH-HHHHHHHhc-cccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc-----CCCCccHH
Q 022166 86 HPVAQALASVLSENKISKGWLK-RSVEARIND-ANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG-----GIKSAAAD 158 (301)
Q Consensus 86 ~Pv~~aL~~~~~~~~l~~~~l~-~li~~~~~d-l~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l-----g~~~~~~~ 158 (301)
.-.-..+.+...+...+..+|- ++|.|+.+| +.... +++.+|+--||....++.+++-.... +.+++...
T Consensus 202 fLqktnIirdy~ed~~d~r~Fwp~eIwg~y~d~L~d~~---~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvf 278 (413)
T KOG1459|consen 202 FLQKTNIIRDYLEDPVDGRPFWPREIWGKYMDKLKDFR---YPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVF 278 (413)
T ss_pred HHHHhHHHHHHHhccccCCccChHHHHHHHHHHHHhhh---CccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHH
Confidence 1111234444445555556666 999999999 87777 99999999999999999998765433 56666777
Q ss_pred HHHHHHHHHHHHHHHHHhchhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHHHHH
Q 022166 159 HAASHIGKASGLLLLLKSLPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKA 236 (301)
Q Consensus 159 ~~a~~lG~alql~nilRd~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a 236 (301)
..+-..|.+-+.|+++++..+|.. +|+++||+ |.+ .++.+. +.++++.++.....+++...+++
T Consensus 279 nfcaipqimai~Tlal~~nn~dvf--rG~Vklrk------Gl~~~~I~~~k------~~~~v~~~f~~y~~~i~~k~d~~ 344 (413)
T KOG1459|consen 279 NFCAIPQIMAIATLALCYNNEDVF--RGNVKLRK------GLAVELILASK------TMDKVRNIFYMYLRDIRMKFDEA 344 (413)
T ss_pred HHHHHHHHHHHHHHHHHhcCHhHh--ccceeecC------CchHHHHHhcc------cHHHHHHHHHHHHHHHHhhCCcc
Confidence 888899999999999999999999 99999998 777 455555 66899999999988888888887
Q ss_pred HhhcCCCCCcchhHHhhHhHHHHHHHHHHhCCCCCCCcccccc
Q 022166 237 RELSGAVPIEARPVLLESVPAQVLLDSLNRVQFDVFDPRLARG 279 (301)
Q Consensus 237 ~~~~~~lp~~~r~~~~~~~~~~~~L~~l~~~~~~v~~~r~~~~ 279 (301)
....-.|....+--++....-....+.+..+.++.|.+++.++
T Consensus 345 dpnflklsask~~qv~esl~~~~~~~~il~n~~~~f~k~~~v~ 387 (413)
T KOG1459|consen 345 DPNFLKLSASKTEQVWESLLLYRRPDEILANRYNNFTKRIYVG 387 (413)
T ss_pred CCCchhhhhhhHHHHHHHHHHhhccccccccccccccchhHHH
Confidence 7655445433333333333333347888888899999988875
No 13
>PLN02890 geranyl diphosphate synthase
Probab=93.30 E-value=3.8 Score=39.19 Aligned_cols=136 Identities=11% Similarity=-0.009 Sum_probs=83.2
Q ss_pred HHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc---cHHHHHHHHHHHHHHHHHHHhc
Q 022166 105 WLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA---AADHAASHIGKASGLLLLLKSL 177 (301)
Q Consensus 105 ~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~---~~~~~a~~lG~alql~nilRd~ 177 (301)
.+.++++|...|+.... ..-.|++++..-.+.-.+++...++.+ + |.+++ ....+..++|.|+|+.+=+-|+
T Consensus 235 a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~ 313 (422)
T PLN02890 235 AVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDF 313 (422)
T ss_pred HHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45678888888886542 113577777766666666666655543 2 33332 2457899999999999888886
Q ss_pred -----------hhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHH---------HHHHHHHHHHHHHH
Q 022166 178 -----------PYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDA---------VFEMASVANVHLLK 235 (301)
Q Consensus 178 -----------~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~---------~~~~~~~A~~~l~~ 235 (301)
+.|+. .|.+-+|.=..-+..-. .++..... ..+.+..+ +.+-...|++|.++
T Consensus 314 ~g~~~~~GK~~g~DL~--eGk~TlPvl~al~~~~~l~~~l~~~~~----~~~~v~~~~~~i~~~gaie~a~~la~~~~~~ 387 (422)
T PLN02890 314 TGTSASLGKGSLSDIR--HGVITAPILFAMEEFPQLREVVDRGFD----NPANVDIALEYLGKSRGIQRTRELAREHANL 387 (422)
T ss_pred cCChhhhCCCchhhHh--cCCccHHHHHHHhcCHHHHHHHhcccC----CHHHHHHHHHHHHHcCHHHHHHHHHHHHHHH
Confidence 35666 78888887543221101 12211110 11222222 33445568999999
Q ss_pred HHhhcCCCCCcc
Q 022166 236 ARELSGAVPIEA 247 (301)
Q Consensus 236 a~~~~~~lp~~~ 247 (301)
|.+.+..+|...
T Consensus 388 A~~~L~~lp~s~ 399 (422)
T PLN02890 388 AAAAIESLPETD 399 (422)
T ss_pred HHHHHHhCCCCc
Confidence 999999998764
No 14
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=93.24 E-value=6.1 Score=36.41 Aligned_cols=135 Identities=15% Similarity=0.031 Sum_probs=82.7
Q ss_pred HHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc----CCCCc---cHHHHHHHHHHHHHHHHHHHhc-
Q 022166 106 LKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG----GIKSA---AADHAASHIGKASGLLLLLKSL- 177 (301)
Q Consensus 106 l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l----g~~~~---~~~~~a~~lG~alql~nilRd~- 177 (301)
...+..|...|+.... ..-.|++++..-++.-.|+++.+++.+- |.+++ ....++.++|.|+|+.+=+-|+
T Consensus 139 ~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~ 217 (323)
T PRK10888 139 VNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYS 217 (323)
T ss_pred HHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4567788888875431 1146888888877777777777666543 33332 2457889999999999888776
Q ss_pred ----------hhhhhcCCCcccccHHHHHhCCCc---hhcc---CCccccccCcHHHHHH---------HHHHHHHHHHH
Q 022166 178 ----------PYHASRNRHFSYIPAEVAANHGLL---VKEG---GRSEIHLDSREGLCDA---------VFEMASVANVH 232 (301)
Q Consensus 178 ----------~~d~~~~~gR~yLP~d~l~~~gv~---~l~~---~~~~~~~~~~~~~~~~---------~~~~~~~A~~~ 232 (301)
+.|+. .|++-+|.=..-+..-. ..+. +..+ ..+.+..+ +.+....|+++
T Consensus 218 ~~~~~~GK~~g~Dl~--~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~l~~~g~~e~~~~~a~~~ 291 (323)
T PRK10888 218 ADGETLGKNVGDDLN--EGKPTLPLLHAMHHGTPEQAAMIRTAIEQGN----GRHLLEPVLEAMNACGSLEWTRQRAEEE 291 (323)
T ss_pred CChHhhCCCchhhhh--cCCchHHHHHHHHhCCHHHHHHHHHHHhCCC----CHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence 56677 78888885433221111 1110 0100 11122222 33444567888
Q ss_pred HHHHHhhcCCCCCcc
Q 022166 233 LLKARELSGAVPIEA 247 (301)
Q Consensus 233 l~~a~~~~~~lp~~~ 247 (301)
..+|.+.+..+|...
T Consensus 292 ~~~A~~~L~~lp~~~ 306 (323)
T PRK10888 292 ADKAIAALQVLPDTP 306 (323)
T ss_pred HHHHHHHHhcCCCCH
Confidence 999999998898753
No 15
>PRK10581 geranyltranstransferase; Provisional
Probab=93.22 E-value=3 Score=38.03 Aligned_cols=120 Identities=14% Similarity=0.041 Sum_probs=74.4
Q ss_pred HHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc----cHHHHHHHHHHHHHHHHHHHhchh
Q 022166 108 RSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA----AADHAASHIGKASGLLLLLKSLPY 179 (301)
Q Consensus 108 ~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~----~~~~~a~~lG~alql~nilRd~~~ 179 (301)
.|+.|+..|+..... ..+.+++..-++.=.|++...++.+ + |..++ ...+++.++|.|+|+.+=+.|+--
T Consensus 153 ~l~~GQ~ld~~~~~~--~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g 230 (299)
T PRK10581 153 GMCGGQALDLEAEGK--QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVG 230 (299)
T ss_pred hhhHhhHHHHhccCC--CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccC
Confidence 467888888865431 3578888777776667766555433 2 43322 245789999999999998888744
Q ss_pred hhhcCCCcccccHHHHHhCCCchhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 022166 180 HASRNRHFSYIPAEVAANHGLLVKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVPIE 246 (301)
Q Consensus 180 d~~~~~gR~yLP~d~l~~~gv~~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~ 246 (301)
|... .|+ ---+|+..|. .+-.+-..++.....++++.++|.+.+..+|..
T Consensus 231 ~~~~-~GK----------~~g~Dl~~gk------~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~ 280 (299)
T PRK10581 231 DTAT-LGK----------RQGADQQLGK------STYPALLGLEQARKKARDLIDDARQSLDQLAAQ 280 (299)
T ss_pred ChHH-HCC----------CcchhhhcCC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 4331 111 0001333333 112222345566678899999999988888764
No 16
>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=92.68 E-value=6.3 Score=36.32 Aligned_cols=134 Identities=13% Similarity=0.033 Sum_probs=77.3
Q ss_pred HHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc---cHHHHHHHHHHHHHHHHHHHh--
Q 022166 106 LKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA---AADHAASHIGKASGLLLLLKS-- 176 (301)
Q Consensus 106 l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~---~~~~~a~~lG~alql~nilRd-- 176 (301)
..+++.|...|+.... ..-.+.+++..-.+.-.|++...++.+ + |.++. ...+++.++|.|+|+.+=+.|
T Consensus 142 ~~~~~~Gq~~~~~~~~-~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~ 220 (322)
T TIGR02749 142 ITDFAEGEIKQGLNQF-DSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFT 220 (322)
T ss_pred HHHHHHHHHHHHHccc-CCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 4567777776764331 012466776665555556665544433 2 33322 356788999999999988877
Q ss_pred ---------chhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHH---------HHHHHHHHHHHHHHH
Q 022166 177 ---------LPYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDA---------VFEMASVANVHLLKA 236 (301)
Q Consensus 177 ---------~~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~---------~~~~~~~A~~~l~~a 236 (301)
++.|+. .|++-+|.=..-+..-. .++..... ..+.+..+ +......++++.++|
T Consensus 221 ~~~~~~GK~~g~Dl~--~Gk~Tlp~l~al~~~~~~~~~l~~~~~----~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A 294 (322)
T TIGR02749 221 GSTEQLGKPAGSDLM--KGNLTAPVLFALEEEPKLSELIEREFS----QKGDLEQALSLVRKSGGIKKARELAKEQAQLA 294 (322)
T ss_pred CChHhhCCChhHHHh--CCCchHHHHHHHhcChHHHHHHHhccC----CHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Confidence 457777 78888886433222111 12211100 11122222 334445678888889
Q ss_pred HhhcCCCCCc
Q 022166 237 RELSGAVPIE 246 (301)
Q Consensus 237 ~~~~~~lp~~ 246 (301)
.+.+..+|+.
T Consensus 295 ~~~L~~lp~~ 304 (322)
T TIGR02749 295 LQSLSFLPPS 304 (322)
T ss_pred HHHHHhCCCC
Confidence 8888888875
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=92.59 E-value=4.5 Score=37.19 Aligned_cols=134 Identities=13% Similarity=0.065 Sum_probs=81.9
Q ss_pred HHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc---cHHHHHHHHHHHHHHHHHHHhc
Q 022166 105 WLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA---AADHAASHIGKASGLLLLLKSL 177 (301)
Q Consensus 105 ~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~---~~~~~a~~lG~alql~nilRd~ 177 (301)
.+.+++.|...|+.... ..-.+++++..-++.-.|++...++.+ + |.++. ...+++.++|.|+|+.|=+.|+
T Consensus 137 ~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~ 215 (319)
T TIGR02748 137 TIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDF 215 (319)
T ss_pred HHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 35678888888875431 113577777666666667766655443 2 33332 3457889999999999988886
Q ss_pred -----------hhhhhcCCCcccccHHHHHhCCCc-h----hccCCccccccCcHHHHHHH---------HHHHHHHHHH
Q 022166 178 -----------PYHASRNRHFSYIPAEVAANHGLL-V----KEGGRSEIHLDSREGLCDAV---------FEMASVANVH 232 (301)
Q Consensus 178 -----------~~d~~~~~gR~yLP~d~l~~~gv~-~----l~~~~~~~~~~~~~~~~~~~---------~~~~~~A~~~ 232 (301)
+.|+. .|+.-+|.=..-+..-. . +.... ..+.+..++ ..-...++.+
T Consensus 216 ~~~~~~~GK~~~~Dl~--~gk~Tlp~l~al~~~~~~~~l~~~~~~~------~~~~~~~~~~~i~~~g~~~~a~~~a~~~ 287 (319)
T TIGR02748 216 VGTEEELGKPAGGDLL--QGNVTLPVLYAMEDPFLKKRIEQVLEET------TAEEMEPLIEEVKKSDAIEYAYAVSDRY 287 (319)
T ss_pred cCCHHhhCCChhhHHh--CCCchHHHHHHhcCcchhHHHHHHHcCC------CHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence 46677 78888887554332111 1 11111 112233222 2344457888
Q ss_pred HHHHHhhcCCCCCcc
Q 022166 233 LLKARELSGAVPIEA 247 (301)
Q Consensus 233 l~~a~~~~~~lp~~~ 247 (301)
..+|.+.+..+|...
T Consensus 288 ~~~A~~~L~~lp~~~ 302 (319)
T TIGR02748 288 LKKALELLDGLPDGR 302 (319)
T ss_pred HHHHHHHHhcCCCCH
Confidence 899999888898753
No 18
>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=91.36 E-value=3.7 Score=36.39 Aligned_cols=122 Identities=16% Similarity=0.056 Sum_probs=76.3
Q ss_pred HHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc----CCCC---ccHHHHHHHHHHHHHHHHHHHhc
Q 022166 105 WLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG----GIKS---AAADHAASHIGKASGLLLLLKSL 177 (301)
Q Consensus 105 ~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l----g~~~---~~~~~~a~~lG~alql~nilRd~ 177 (301)
.+.+++.|+..|+.... ....|++++..-+..-.|+...+++.+. |.++ ....+++.++|.++|+.|=+.|+
T Consensus 116 ~~~~~~~GQ~~d~~~~~-~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~ 194 (259)
T cd00685 116 AILELVEGQLLDLLSEY-DTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDL 194 (259)
T ss_pred HHHHHHHHHHHHHHccC-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 56788899999987652 1136888888888777777765554432 3222 23568899999999999888877
Q ss_pred hhhhhcCCCcccccHHHHHhCCCchhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcc
Q 022166 178 PYHASRNRHFSYIPAEVAANHGLLVKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARELSGAVPIEA 247 (301)
Q Consensus 178 ~~d~~~~~gR~yLP~d~l~~~gv~~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~~ 247 (301)
-.+... .|+- -.+|+..+..+ -.++..+-..++.+..++...++.+|...
T Consensus 195 ~~~~~~-~gK~----------~~~Di~~gk~T---------~~~~~~l~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 195 FGDPET-LGKP----------VGSDLREGKCT---------LPVLLALRELAREYEEKALEALKALPESP 244 (259)
T ss_pred cCChHH-HCCC----------cchHHHcCCch---------HHHHHHHHHHHHHHHHHHHHHHHcCCCcH
Confidence 544321 1220 00144333311 11222336678888888988888888654
No 19
>PLN02857 octaprenyl-diphosphate synthase
Probab=91.29 E-value=4.8 Score=38.50 Aligned_cols=134 Identities=12% Similarity=0.041 Sum_probs=76.1
Q ss_pred HHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc---cHHHHHHHHHHHHHHHHHHHhc-
Q 022166 106 LKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA---AADHAASHIGKASGLLLLLKSL- 177 (301)
Q Consensus 106 l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~---~~~~~a~~lG~alql~nilRd~- 177 (301)
+.++..|...++.... ..-.+.+++..-.+.-.|++...++.+ + |.+++ ....+..++|.|+|+.+=+.|+
T Consensus 236 ~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~ 314 (416)
T PLN02857 236 IKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFT 314 (416)
T ss_pred HHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4455566555543321 013467776666666666665555433 2 33332 3567899999999999888875
Q ss_pred ----------hhhhhcCCCcccccHHH-HHhCCCc-hhccCCccccccCcHHHHHH---------HHHHHHHHHHHHHHH
Q 022166 178 ----------PYHASRNRHFSYIPAEV-AANHGLL-VKEGGRSEIHLDSREGLCDA---------VFEMASVANVHLLKA 236 (301)
Q Consensus 178 ----------~~d~~~~~gR~yLP~d~-l~~~gv~-~l~~~~~~~~~~~~~~~~~~---------~~~~~~~A~~~l~~a 236 (301)
+.|+. .|++-+|.=. +.+..-- .++..... ..+.+.++ +.+-...++++.++|
T Consensus 315 ~~~~~~GK~~g~DL~--eGK~TlPli~al~~~~~l~~~l~~~~~----~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A 388 (416)
T PLN02857 315 QSTEQLGKPAGSDLA--KGNLTAPVIFALEKEPELREIIESEFC----EEGSLEEAIELVNEGGGIERAQELAKEKADLA 388 (416)
T ss_pred CCHHHhCCCcchhhh--cCCccHHHHHHHhcChHHHHHHhhccC----CHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHH
Confidence 46777 7888888643 2211100 22211100 11222222 233445688888999
Q ss_pred HhhcCCCCCc
Q 022166 237 RELSGAVPIE 246 (301)
Q Consensus 237 ~~~~~~lp~~ 246 (301)
.+.+..+|..
T Consensus 389 ~~~L~~Lp~~ 398 (416)
T PLN02857 389 IQNLECLPRG 398 (416)
T ss_pred HHHHHhCCCC
Confidence 9888888865
No 20
>CHL00151 preA prenyl transferase; Reviewed
Probab=89.36 E-value=10 Score=34.92 Aligned_cols=134 Identities=12% Similarity=0.018 Sum_probs=73.2
Q ss_pred HHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHh---c-CCCCc---cHHHHHHHHHHHHHHHHHHHhc-
Q 022166 106 LKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQA---G-GIKSA---AADHAASHIGKASGLLLLLKSL- 177 (301)
Q Consensus 106 l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~---l-g~~~~---~~~~~a~~lG~alql~nilRd~- 177 (301)
+..+..|...+..... ..-.|.+++..-++.-.|++..+++.+ + |.+++ ....+..++|.|+|+.+=+.|+
T Consensus 143 ~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~ 221 (323)
T CHL00151 143 ITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDIT 221 (323)
T ss_pred HHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4445555554443221 002355555443344445555544433 2 33322 3567889999999999888874
Q ss_pred ----------hhhhhcCCCcccccHHHHHhCCCc--hhccCCccccccCcHHHHHH---------HHHHHHHHHHHHHHH
Q 022166 178 ----------PYHASRNRHFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDA---------VFEMASVANVHLLKA 236 (301)
Q Consensus 178 ----------~~d~~~~~gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~---------~~~~~~~A~~~l~~a 236 (301)
+.|+. .|++-+|.=..-+..-. .++..... ..+.+..+ +.+....++.|.++|
T Consensus 222 ~~~~~~GK~~g~Dl~--eGk~Tlp~l~al~~~~~~~~~l~~~~~----~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A 295 (323)
T CHL00151 222 SSTESLGKPIGSDLK--NGNLTAPVLFALTQNSKLAKLIEREFC----ETKDISQALQIIKETNGIEKAKDLALEHMQAA 295 (323)
T ss_pred cChhhhCCCchhhHh--cCchHHHHHHHHhcChHHHHHHHHhcC----CHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHH
Confidence 56777 78888885433221111 11111100 11222222 345556688999999
Q ss_pred HhhcCCCCCc
Q 022166 237 RELSGAVPIE 246 (301)
Q Consensus 237 ~~~~~~lp~~ 246 (301)
.+.+..+|..
T Consensus 296 ~~~L~~lp~~ 305 (323)
T CHL00151 296 IQCLKFLPPS 305 (323)
T ss_pred HHHHHhCCCC
Confidence 9988888865
No 21
>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=85.09 E-value=26 Score=30.88 Aligned_cols=170 Identities=12% Similarity=-0.022 Sum_probs=84.0
Q ss_pred hHHhhcCChh----hhhHHHHHHHHHHHHHHhcccCCChHHH---HHHHHHHHHHHHHHhcCCC-CCCHHHHHHHHhHhh
Q 022166 27 YLCLLELPPE----LRKTAFALRAFNVETSKAMDIASDPRIG---LMRLVWWKEAIDKIYVRKQ-IEHPVAQALASVLSE 98 (301)
Q Consensus 27 ~~a~~~lp~~----~R~~~~alyaf~r~~d~i~D~~~~~~~~---~~rL~~w~~~l~~~~~g~~-~~~Pv~~aL~~~~~~ 98 (301)
++++...|.. .+..+.-+.+|.-.+||.-|........ ...+..|... ...+.| ..+|+..+|.++.++
T Consensus 34 ~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~---~~~~~p~~~~~~~~~l~d~~~r 110 (284)
T cd00868 34 FWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFTEAVERWDIS---AIDELPEYMKPVFKALYDLVNE 110 (284)
T ss_pred HHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHHhcChh---hhhhCCHHHHHHHHHHHHHHHH
Confidence 4667777754 4555566677888899999986543221 1112222211 111111 246788888877653
Q ss_pred C--CCCH----HHHH-------HHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHH-HH-hcCCCCc--------
Q 022166 99 N--KISK----GWLK-------RSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTT-LQ-AGGIKSA-------- 155 (301)
Q Consensus 99 ~--~l~~----~~l~-------~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~-~~-~lg~~~~-------- 155 (301)
. ..++ .... +++++............++|+++...+-..++|.-..+. .. ..|..-+
T Consensus 111 ~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~ 190 (284)
T cd00868 111 IEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWLP 190 (284)
T ss_pred HHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHhh
Confidence 1 1122 4434 444444433322111126788888777666655433222 22 2343222
Q ss_pred cHHHHHHHHHHHHHHHHHHHhchhhhhcCCCcc-cccHHHHHhCCCc
Q 022166 156 AADHAASHIGKASGLLLLLKSLPYHASRNRHFS-YIPAEVAANHGLL 201 (301)
Q Consensus 156 ~~~~~a~~lG~alql~nilRd~~~d~~~~~gR~-yLP~d~l~~~gv~ 201 (301)
....+....+....++|=+-+...... .|.+ -+..-++.++|++
T Consensus 191 ~~~~l~~~~~~~~~l~NDl~S~~kE~~--~g~~~N~v~vl~~~~~~~ 235 (284)
T cd00868 191 SYPKLVRASSTIGRLLNDIASYEKEIA--RGEVANSVECYMKEYGVS 235 (284)
T ss_pred hhHHHHHHHHHHHHHhccchHHHHHHc--cCCcccHHHHHHhccCCC
Confidence 123444555555555555555555554 4543 3444445555544
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=79.78 E-value=15 Score=32.62 Aligned_cols=70 Identities=19% Similarity=0.068 Sum_probs=50.0
Q ss_pred HHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc----CCCC---ccHHHHHHHHHHHHHHHHHHHhchhhh
Q 022166 110 VEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG----GIKS---AAADHAASHIGKASGLLLLLKSLPYHA 181 (301)
Q Consensus 110 i~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l----g~~~---~~~~~~a~~lG~alql~nilRd~~~d~ 181 (301)
..++..|+..... ..+++++..-++.-.|++..+.+++. |.+. +....++.++|.|+|+.|=+.|+-.|-
T Consensus 119 ~~~q~~d~~~~~~--~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~ 195 (260)
T PF00348_consen 119 EIGQALDLANEDK--DPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDE 195 (260)
T ss_dssp HHHHHHHHHTTTS--STSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHH
T ss_pred eeehhhccccccc--cccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcH
Confidence 3346667765521 46899999988888888888776554 3331 235689999999999999888876543
No 23
>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=78.79 E-value=44 Score=29.17 Aligned_cols=148 Identities=14% Similarity=0.019 Sum_probs=79.9
Q ss_pred HHhhcCCh--hhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHH----hc-CCCCCCHHHHHHHHhHhhC-
Q 022166 28 LCLLELPP--ELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKI----YV-RKQIEHPVAQALASVLSEN- 99 (301)
Q Consensus 28 ~a~~~lp~--~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~----~~-g~~~~~Pv~~aL~~~~~~~- 99 (301)
+++.+.|. +.+..+.-+..|.-..||+.|+.+.... ++.+.+.+... .. +.....|+..++.++..+.
T Consensus 51 ~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~D~~~~~~~----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~ 126 (270)
T PF03936_consen 51 LAARFYPDSSDELLAAADWMAWLFIFDDFFDDGGSAEE----LEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIA 126 (270)
T ss_dssp HHHHHSGCGHHHHHHHHHHHHHHHHHHHHHHTTSHHHH----HHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHH
T ss_pred hhheeCCCcHHHHHHHHhhchheeeeeeccccccchHH----HHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHH
Confidence 45667774 4566667788899999999997643322 33344444321 11 1112346777777776532
Q ss_pred -CCCHHHHHH-----HHHHHHhcc----------ccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc--CCCC-ccH---
Q 022166 100 -KISKGWLKR-----SVEARINDA----------NREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG--GIKS-AAA--- 157 (301)
Q Consensus 100 -~l~~~~l~~-----li~~~~~dl----------~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l--g~~~-~~~--- 157 (301)
.+++.+..+ +++.+...+ .... ++|++++..+=..+.|+...+.+..+ +... ...
T Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~---~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~ 203 (270)
T PF03936_consen 127 ARMSPAQRRRDQIKRFRNSWREYLNAYLWEARWRERGR---IPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEV 203 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-----SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHH
T ss_pred HHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHHhccCC---CCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHH
Confidence 233333222 444444333 2223 78999988887777777555554422 3211 111
Q ss_pred ----HHHHHHHHHHHHHHHHHHhchhhhh
Q 022166 158 ----DHAASHIGKASGLLLLLKSLPYHAS 182 (301)
Q Consensus 158 ----~~~a~~lG~alql~nilRd~~~d~~ 182 (301)
..+....+..+.++|=|-+.+.+..
T Consensus 204 ~~~~~~l~~~~~~~~~l~NDl~S~~KE~~ 232 (270)
T PF03936_consen 204 LEHPPMLRRLAADIIRLVNDLYSYKKEIA 232 (270)
T ss_dssp HHTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhchHHHHHHHHHHHHhcccchhhcchh
Confidence 1145556666677777777766666
No 24
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=69.88 E-value=91 Score=28.66 Aligned_cols=138 Identities=14% Similarity=0.043 Sum_probs=78.5
Q ss_pred HHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhc----CCCC---ccHHHHHHHHHHHHHHHHHHHh
Q 022166 104 GWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAG----GIKS---AAADHAASHIGKASGLLLLLKS 176 (301)
Q Consensus 104 ~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~l----g~~~---~~~~~~a~~lG~alql~nilRd 176 (301)
+....|+.|+..|+..... ..|.+++..-.+.=.|.+....+.+. |... +....++..+|.|+|+.+=+-|
T Consensus 141 ~~~~~~~~GQ~lDl~~~~~--~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD 218 (322)
T COG0142 141 EAINGLCGGQALDLAFENK--PVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILD 218 (322)
T ss_pred HHHHHHHHhHHHHHHccCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhc
Confidence 3577889999999987741 26777777776666666666555443 3332 2456899999999999987777
Q ss_pred chhhhhc-C--------CCcccccHHHHHhCCCc-h--hccCCccccccCcHHHHHHH------HHHHHHHHHHHHHHHh
Q 022166 177 LPYHASR-N--------RHFSYIPAEVAANHGLL-V--KEGGRSEIHLDSREGLCDAV------FEMASVANVHLLKARE 238 (301)
Q Consensus 177 ~~~d~~~-~--------~gR~yLP~d~l~~~gv~-~--l~~~~~~~~~~~~~~~~~~~------~~~~~~A~~~l~~a~~ 238 (301)
+--|... | .|.+-+|.=..-+.+-. + +........ .-+++.+++ ..-...+..+..+|.+
T Consensus 219 ~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~ 296 (322)
T COG0142 219 ITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGG--EVEEALELLRKSGAIEYAKNLAKTYVEKAKE 296 (322)
T ss_pred CCCChHHhCCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcch--HHHHHHHHHHHcchHHHHHHHHHHHHHHHHH
Confidence 6554432 0 45555555433222211 0 000000000 001111111 2233358888888888
Q ss_pred hcCCCCC
Q 022166 239 LSGAVPI 245 (301)
Q Consensus 239 ~~~~lp~ 245 (301)
.+..+|.
T Consensus 297 ~L~~l~~ 303 (322)
T COG0142 297 ALEKLPD 303 (322)
T ss_pred HHHhCCC
Confidence 8888883
No 25
>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=68.31 E-value=90 Score=27.97 Aligned_cols=198 Identities=14% Similarity=0.084 Sum_probs=107.9
Q ss_pred hHHhhcCChhhhhHH---HHHHHHHHHHHHhcccCC-ChHHHHHHHHHHHHHHHHHhcCC-----CCCCHHHHHHHHhHh
Q 022166 27 YLCLLELPPELRKTA---FALRAFNVETSKAMDIAS-DPRIGLMRLVWWKEAIDKIYVRK-----QIEHPVAQALASVLS 97 (301)
Q Consensus 27 ~~a~~~lp~~~R~~~---~alyaf~r~~d~i~D~~~-~~~~~~~rL~~w~~~l~~~~~g~-----~~~~Pv~~aL~~~~~ 97 (301)
.+++.+.|......+ .-+..|.-..||..|... ++.....- .+.+.++..|. .+..|+..++.+..+
T Consensus 45 ~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~p~~~~~~d~~~ 120 (303)
T cd00687 45 DLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAG----VTRLLDILRGDGLDSPDDATPLEFGLADLWR 120 (303)
T ss_pred HHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHH----HHHHHhccCCCCCCCCCCCCHHHHHHHHHHH
Confidence 467788884433333 345678888899998763 34332211 12333444432 245788888888876
Q ss_pred hC--CCCHHHHHHHHHHHHhccc-------cCCCCCCCCHHHHHHHHHhhhhHHH-HHHHHh-cCCCC-------ccHHH
Q 022166 98 EN--KISKGWLKRSVEARINDAN-------REISDIPEKIEDLEKYAEDTVSTLL-YTTLQA-GGIKS-------AAADH 159 (301)
Q Consensus 98 ~~--~l~~~~l~~li~~~~~dl~-------~~~~~~~~t~~dL~~Y~~~~ag~vg-~l~~~~-lg~~~-------~~~~~ 159 (301)
+. ..+++....+++.+...+. .......+|+++...+=..+.|... ..++.+ .|..- +....
T Consensus 121 r~~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~~ 200 (303)
T cd00687 121 RTLARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMRA 200 (303)
T ss_pred HhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHHH
Confidence 43 4446665555555544332 1100115777777666555544332 222222 35321 12345
Q ss_pred HHHHHHHHHHHHHHHHhchhhh-hcCCCcc-cccHHHHHhCCCchhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHH
Q 022166 160 AASHIGKASGLLLLLKSLPYHA-SRNRHFS-YIPAEVAANHGLLVKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKAR 237 (301)
Q Consensus 160 ~a~~lG~alql~nilRd~~~d~-~~~~gR~-yLP~d~l~~~gv~~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~ 237 (301)
+....+..+.++|=|-+...+. + .|.. -+-.-++.++|++ . +...+.+..+.....+.+.+..
T Consensus 201 l~~~~~~~~~l~NDl~S~~KE~~~--~g~~~N~V~vl~~~~g~s------------~-~eA~~~~~~~~~~~~~~f~~~~ 265 (303)
T cd00687 201 LEALASDAIALVNDIYSYEKEIKA--NGEVHNLVKVLAEEHGLS------------L-EEAISVVRDMHNERITQFEELE 265 (303)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHh--CCccchHHHHHHHHcCCC------------H-HHHHHHHHHHHHHHHHHHHHHH
Confidence 6677777888888888888777 5 5653 3333345566666 1 2233345555666666666666
Q ss_pred hhcCCC
Q 022166 238 ELSGAV 243 (301)
Q Consensus 238 ~~~~~l 243 (301)
+.+...
T Consensus 266 ~~l~~~ 271 (303)
T cd00687 266 ASLIKS 271 (303)
T ss_pred Hhcccc
Confidence 654333
No 26
>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=63.90 E-value=47 Score=30.84 Aligned_cols=135 Identities=8% Similarity=-0.052 Sum_probs=75.9
Q ss_pred CChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHh----HhhCCC-----CH
Q 022166 33 LPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASV----LSENKI-----SK 103 (301)
Q Consensus 33 lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~----~~~~~l-----~~ 103 (301)
.+++...++..-|.+.-.+||+.++.++.+. .++ .++..|++.+||++..+.+. ++.++- -.
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 VSKECMADLSIHYTYTLVLDDSKDDPYPTMV-----NYF----DDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLI 151 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccchHHH-----HHH----HHHhcCCCCCCcHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 5777888887788888899999887754432 233 23456888899966655544 443331 11
Q ss_pred HHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCC----ccHHHHHHHHHHHHHHHHHHHhch
Q 022166 104 GWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKS----AAADHAASHIGKASGLLLLLKSLP 178 (301)
Q Consensus 104 ~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~----~~~~~~a~~lG~alql~nilRd~~ 178 (301)
....+++++.--..+... .+++-.++-.|.+...|.-.-...-++..+. +...++..++...+..+|.+.||-
T Consensus 152 kSTLdFv~g~~iEq~nf~--~~p~A~~fP~ylR~ksGl~E~yA~FiFPk~~FpE~~~~~qi~~AIp~~~~~i~~~NDIL 228 (357)
T cd00686 152 RSTLDFFEGCWIEQYNFG--GFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVWVNDLM 228 (357)
T ss_pred HHHHHHHHHHHHhhhccC--CCCCCcccchHHHhccCCcceeEEEecchhhCchHhhHHHhhHHHHHHHHHHHhhhhhh
Confidence 234455555443322211 1455556666776666653333333332221 123344557777777777777764
No 27
>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=63.39 E-value=1.3e+02 Score=28.25 Aligned_cols=141 Identities=11% Similarity=0.115 Sum_probs=78.1
Q ss_pred HHhhcCChhhhhHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhhC--CCCH--
Q 022166 28 LCLLELPPELRKTAFALRAFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSEN--KISK-- 103 (301)
Q Consensus 28 ~a~~~lp~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~~--~l~~-- 103 (301)
.|-..+|.+.+-.+...+++.-.+||+.++.++. +..+. .+...|.++.||++..+...++.. ..++
T Consensus 76 ~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~~~~------l~~F~---~~l~~Gq~Q~~p~L~~~~~~L~~~~~~fgpf~ 146 (376)
T PF06330_consen 76 YCYPHLPKEVQVAIAIYTTYVIIIDDSSQEPSDD------LRTFH---QRLILGQPQKHPLLDGFASLLREMWRHFGPFC 146 (376)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHTT--S-SHHH------HTTHH---HHHHHT---SSHHHHHHHHHHHHHHTTS-HHH
T ss_pred eecCCCCHHHHHHHHHHHHHHHhcccccccccHH------HHHHH---HHHhcCCCCCCHHHHHHHHHHHHHHHHcchHH
Confidence 4557789999999999999999999997765311 12222 234567778899999999887632 1222
Q ss_pred -----HHHHHHHHHHHh---ccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCC-ccHHHHHHHHHHHHHHHHHH
Q 022166 104 -----GWLKRSVEARIN---DANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKS-AAADHAASHIGKASGLLLLL 174 (301)
Q Consensus 104 -----~~l~~li~~~~~---dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~-~~~~~~a~~lG~alql~nil 174 (301)
....+++++..- |....+ .-+++.++.+-..+++.+.+.++-+---.++ ....++...+......+|++
T Consensus 147 anmI~~STLdFi~g~~LE~~~f~~~p--~A~~FP~fLR~ktGlsEaYA~FiFPk~~fpe~~~~~~y~~AIpdl~~fi~~~ 224 (376)
T PF06330_consen 147 ANMIVKSTLDFINGCWLEQKNFHGSP--GAPDFPDFLRRKTGLSEAYAFFIFPKALFPEVEYFIQYTPAIPDLMRFINYV 224 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHTTT----T--T-TTHHHHHHHHHH-HHHHHHHT--TTTS-TTTTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhcccCCCCC--CCccccHHHHhccCcchhheeeecccccCChHHHHHHHHHHHHHHHHHHHhh
Confidence 234455555432 111111 1245667766666666666655543322222 23456666788888888888
Q ss_pred Hhchh
Q 022166 175 KSLPY 179 (301)
Q Consensus 175 Rd~~~ 179 (301)
.||-.
T Consensus 225 NDILS 229 (376)
T PF06330_consen 225 NDILS 229 (376)
T ss_dssp HHHHH
T ss_pred hhHHH
Confidence 88753
No 28
>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=58.36 E-value=2e+02 Score=28.55 Aligned_cols=201 Identities=13% Similarity=-0.019 Sum_probs=100.2
Q ss_pred HhhcCChh--hhhHHHHHHHHHHHHHHhcccCCChHHH---HHHHHHHHHHHHHHhcCCC-CCCHHHHHHHHhHh-----
Q 022166 29 CLLELPPE--LRKTAFALRAFNVETSKAMDIASDPRIG---LMRLVWWKEAIDKIYVRKQ-IEHPVAQALASVLS----- 97 (301)
Q Consensus 29 a~~~lp~~--~R~~~~alyaf~r~~d~i~D~~~~~~~~---~~rL~~w~~~l~~~~~g~~-~~~Pv~~aL~~~~~----- 97 (301)
++.+-|.. .|-.+.=+..+.-.+||+-|..+..+.. ...+++|-.. +..+-| .-.++..+|.+++.
T Consensus 272 a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~---~~~~lPe~mk~~~~al~~~~~ei~~~ 348 (542)
T cd00684 272 GTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDIS---AIDQLPEYMKIVFKALLNTVNEIEEE 348 (542)
T ss_pred hcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhcccc---chhhccHHHHHHHHHHHHHHHHHHHH
Confidence 45666633 3444444566778899999876544321 2233444321 111111 11256677775543
Q ss_pred ---hCCCC-----HHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhhhhHHHHHHHHhcCCCC---ccHH-------H
Q 022166 98 ---ENKIS-----KGWLKRSVEARINDANREISDIPEKIEDLEKYAEDTVSTLLYTTLQAGGIKS---AAAD-------H 159 (301)
Q Consensus 98 ---~~~l~-----~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ag~vg~l~~~~lg~~~---~~~~-------~ 159 (301)
..+.. ++.+.++++++............||++|.......+.|.-..+..-.+|... ++.. .
T Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~ 428 (542)
T cd00684 349 LLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPK 428 (542)
T ss_pred HHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHH
Confidence 12211 2445566666665553221112789999888887776655544443333321 1121 2
Q ss_pred HHHHHHHHHHHHHHHHhchhhhhcCCCc-ccccHHHHHhCCCchhccCCccccccCcHHHHHHHHHHHHHHHHHHHHHHh
Q 022166 160 AASHIGKASGLLLLLKSLPYHASRNRHF-SYIPAEVAANHGLLVKEGGRSEIHLDSREGLCDAVFEMASVANVHLLKARE 238 (301)
Q Consensus 160 ~a~~lG~alql~nilRd~~~d~~~~~gR-~yLP~d~l~~~gv~~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~ 238 (301)
+....+....++|=+-....... +|- +-.-.-.|.++|++ .+...+.+..+++.+...+.+..-
T Consensus 429 l~~~~~~i~rL~NDi~S~~kE~~--rGdv~n~V~~ymke~g~s-------------~eeA~~~i~~~ie~~wk~ln~e~l 493 (542)
T cd00684 429 LVRASSTIGRLMNDIATYEDEMK--RGDVASSIECYMKEYGVS-------------EEEAREEIKKMIEDAWKELNEEFL 493 (542)
T ss_pred HHHHHHHHHHHhcChhhhHHHHh--cCCcccHHHHHHHhcCCC-------------HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22223333333443333333333 555 34445567777766 133445566777777776666543
Q ss_pred hc-CCCCCcc
Q 022166 239 LS-GAVPIEA 247 (301)
Q Consensus 239 ~~-~~lp~~~ 247 (301)
-. ..+|...
T Consensus 494 ~~~~~~p~~~ 503 (542)
T cd00684 494 KPSSDVPRPI 503 (542)
T ss_pred cCCCCCCHHH
Confidence 22 3355443
No 29
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=58.12 E-value=1.2e+02 Score=28.78 Aligned_cols=125 Identities=22% Similarity=0.038 Sum_probs=62.6
Q ss_pred HHHHHHHHH-hhhhHHHH--HHHHhcCCCCc----cHHHHHHHHHHHHHHHHHHHhchh-----------hhhcCCCccc
Q 022166 128 IEDLEKYAE-DTVSTLLY--TTLQAGGIKSA----AADHAASHIGKASGLLLLLKSLPY-----------HASRNRHFSY 189 (301)
Q Consensus 128 ~~dL~~Y~~-~~ag~vg~--l~~~~lg~~~~----~~~~~a~~lG~alql~nilRd~~~-----------d~~~~~gR~y 189 (301)
+++|+.=-+ .+|+-+.- .+..++|..++ .+.++++++|.++|+++=+-|.-. |+. .|..-
T Consensus 230 ~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~--~g~lT 307 (384)
T KOG0776|consen 230 LEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLK--AGKLT 307 (384)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhh--hcccc
Confidence 444443333 33433332 23355655443 467899999999999975555422 333 33332
Q ss_pred ccH----HHHHhCCCchhccCCcccccc-CcHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCc-chhHHhhHh
Q 022166 190 IPA----EVAANHGLLVKEGGRSEIHLD-SREGLCDAVFEMASVANVHLLKARELSGAVPIE-ARPVLLESV 255 (301)
Q Consensus 190 LP~----d~l~~~gv~~l~~~~~~~~~~-~~~~~~~~~~~~~~~A~~~l~~a~~~~~~lp~~-~r~~~~~~~ 255 (301)
-|. +.-.++.- .+.++..++..+ ...++...+..-...|++|-.+|.+.+..+|+. +|.++.-.+
T Consensus 308 ~P~Lf~~e~~pe~~e-~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~~Al~~l~~~p~s~ar~aL~~l~ 378 (384)
T KOG0776|consen 308 APVLFALEKSPELRE-KLEREFSEPLDGFDADKAVPGVALAKYLARRHNNKALEALQSLPRSEARSALENLV 378 (384)
T ss_pred ccchhhhhhChHHHH-HHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHH
Confidence 232 11111000 011111110000 112333456666667889999999888888876 466665433
No 30
>PRK05255 hypothetical protein; Provisional
Probab=45.32 E-value=1.8e+02 Score=24.22 Aligned_cols=65 Identities=15% Similarity=0.317 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhhC-CCCHHHHHHHHHHHHhccccCCCCCCCCHHHHHHHHHhh
Q 022166 63 IGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSEN-KISKGWLKRSVEARINDANREISDIPEKIEDLEKYAEDT 138 (301)
Q Consensus 63 ~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~~-~l~~~~l~~li~~~~~dl~~~~~~~~~t~~dL~~Y~~~~ 138 (301)
....+|..|||.|-. ++ ++ ++.+.+..| ..+...|+.+|..-........ ++.+.-+|-.|+...
T Consensus 104 ~~~h~lE~wRdrLi~---~~---d~---al~e~~~~~P~~DrQ~LRqLiR~A~kE~~~~k--ppk~~R~LF~~Lr~~ 169 (171)
T PRK05255 104 ARFHKLERWRDRLLA---EG---DD---ALTEFLEEYPDADRQQLRQLIRNAKKEKAQNK--PPKSFRELFQYLREL 169 (171)
T ss_pred HHHHHHHHHHHHHHh---CC---HH---HHHHHHHHCchhhHHHHHHHHHHHHHHHHcCC--CchhHHHHHHHHHHH
Confidence 345678899998743 22 34 445555556 5788999999998888776543 167888999998764
No 31
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=38.89 E-value=1.4e+02 Score=27.09 Aligned_cols=87 Identities=10% Similarity=0.050 Sum_probs=50.4
Q ss_pred HHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhHhhCCCCHHHHHHHHHHHHhccccCCCCCC
Q 022166 46 AFNVETSKAMDIASDPRIGLMRLVWWKEAIDKIYVRKQIEHPVAQALASVLSENKISKGWLKRSVEARINDANREISDIP 125 (301)
Q Consensus 46 af~r~~d~i~D~~~~~~~~~~rL~~w~~~l~~~~~g~~~~~Pv~~aL~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~~~ 125 (301)
.+...+.+.++....+...+.-...|.+..+.+|..-..++........++...---+..+.++++.....+. +
T Consensus 195 ~~~~~l~~~~~~g~~~~s~re~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~~~a~m~~r~~~~~~~e~~L~~l~------l 268 (293)
T PF09712_consen 195 RMMEKLQERAEEGEQIKSWREFYDIWIDAAEEAYEELFRSEEFAQAYGQLVNALMDLRKQQQEVVEEYLRSLN------L 268 (293)
T ss_pred HHHHHHHHhhccCCCCcCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC------C
Confidence 3445555555554444445556788888888887654344455454444443222224456666666655553 7
Q ss_pred CCHHHHHHHHHhh
Q 022166 126 EKIEDLEKYAEDT 138 (301)
Q Consensus 126 ~t~~dL~~Y~~~~ 138 (301)
||-+|++.....+
T Consensus 269 PTr~evd~l~k~l 281 (293)
T PF09712_consen 269 PTRSEVDELYKRL 281 (293)
T ss_pred CCHHHHHHHHHHH
Confidence 8888887766554
No 32
>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=34.35 E-value=28 Score=21.14 Aligned_cols=17 Identities=29% Similarity=0.403 Sum_probs=16.0
Q ss_pred CCcccccHHHHHhCCCc
Q 022166 185 RHFSYIPAEVAANHGLL 201 (301)
Q Consensus 185 ~gR~yLP~d~l~~~gv~ 201 (301)
.||+.||.++.++.|+.
T Consensus 6 kgri~iP~~~r~~l~~~ 22 (43)
T TIGR01439 6 KGQIVIPKEIREKLGLK 22 (43)
T ss_pred CCeEEecHHHHHHcCcC
Confidence 79999999999999987
No 33
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=33.76 E-value=15 Score=27.23 Aligned_cols=18 Identities=11% Similarity=0.152 Sum_probs=14.3
Q ss_pred HhchhhhhcCCCcccccHH
Q 022166 175 KSLPYHASRNRHFSYIPAE 193 (301)
Q Consensus 175 Rd~~~d~~~~~gR~yLP~d 193 (301)
-|+.+|+.+ +||+|-|.+
T Consensus 90 edvve~L~~-~g~~Y~pR~ 107 (112)
T COG5204 90 EDVVEDLEQ-HGRIYYPRT 107 (112)
T ss_pred HHHHHHHHH-hCccccCCC
Confidence 467778876 899999975
No 34
>PF13250 DUF4041: Domain of unknown function (DUF4041)
Probab=25.80 E-value=1.7e+02 Score=19.40 Aligned_cols=38 Identities=29% Similarity=0.218 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhcccCC--ChHHHHHHHHHHHHHHHHHh
Q 022166 42 FALRAFNVETSKAMDIAS--DPRIGLMRLVWWKEAIDKIY 79 (301)
Q Consensus 42 ~alyaf~r~~d~i~D~~~--~~~~~~~rL~~w~~~l~~~~ 79 (301)
..+.||+-|+|.+...++ +-...+.|+.--.+.|....
T Consensus 2 l~lraFN~EcD~~i~kv~~~Ni~~~~~rI~ksf~~iNkl~ 41 (56)
T PF13250_consen 2 LMLRAFNGECDAAISKVKYNNIDTMEKRIEKSFEQINKLG 41 (56)
T ss_pred hhHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHcC
Confidence 368899999999999885 33444556665556665543
No 35
>PRK02899 adaptor protein; Provisional
Probab=25.61 E-value=99 Score=26.33 Aligned_cols=40 Identities=15% Similarity=0.065 Sum_probs=32.9
Q ss_pred CcccccHHHHHhCCCc--hhccCCccccccCcHHHHHHHHHHHHHHHHHH
Q 022166 186 HFSYIPAEVAANHGLL--VKEGGRSEIHLDSREGLCDAVFEMASVANVHL 233 (301)
Q Consensus 186 gR~yLP~d~l~~~gv~--~l~~~~~~~~~~~~~~~~~~~~~~~~~A~~~l 233 (301)
=||+|-.+.|...|++ +++. ++++..++...|...|...+
T Consensus 11 Irv~it~~DL~eRgi~~~dL~~--------n~~k~e~lF~~mm~Ea~~e~ 52 (197)
T PRK02899 11 IKIFLTFDDLSERGLTKEDLWR--------DAPKVHQLFRDMMQEANKEL 52 (197)
T ss_pred EEEEEeHHHHHHcCCCHHHHhc--------CcHHHHHHHHHHHHHhhhcc
Confidence 3799999999999999 6764 45889999999998886543
No 36
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=21.97 E-value=1.6e+02 Score=23.72 Aligned_cols=50 Identities=10% Similarity=0.139 Sum_probs=29.5
Q ss_pred CHHHHHHHHhHhhCCCCHHHHHHHHHHHHhccccCCCC-CCCCHHHHHHHH
Q 022166 86 HPVAQALASVLSENKISKGWLKRSVEARINDANREISD-IPEKIEDLEKYA 135 (301)
Q Consensus 86 ~Pv~~aL~~~~~~~~l~~~~l~~li~~~~~dl~~~~~~-~~~t~~dL~~Y~ 135 (301)
||++++|.+.+.....-.-++.+|++-...+.+..... .+.|++++..-+
T Consensus 2 ~p~vqefk~lIe~dp~l~ml~~~Mf~q~~~~~~p~g~~~~i~~~~~mL~~l 52 (141)
T PF12588_consen 2 HPVVQEFKDLIESDPRLYMLFTQMFDQPPYNADPTGNPPQIRDYDEMLQLL 52 (141)
T ss_pred ChHHHHHHHHHhcCHHHHHHHHHHHhCcccccCCCCCccccccHHHHHHHH
Confidence 78999999999876655666666666622222222101 256666665544
No 37
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=20.02 E-value=42 Score=30.65 Aligned_cols=23 Identities=9% Similarity=-0.116 Sum_probs=18.3
Q ss_pred HHHHHHHHhchhhhhcCCCcccccH
Q 022166 168 SGLLLLLKSLPYHASRNRHFSYIPA 192 (301)
Q Consensus 168 lql~nilRd~~~d~~~~~gR~yLP~ 192 (301)
.=++|-+||+.+|.+ .||.-||-
T Consensus 192 Il~aNNirDie~D~~--~gk~TLav 214 (303)
T COG1575 192 ILLANNLRDIEEDIR--NGKYTLAV 214 (303)
T ss_pred HHHhcccccchhHHh--cCCcceee
Confidence 345677899999999 88877774
Done!