Query 044623
Match_columns 486
No_of_seqs 223 out of 1363
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 05:08:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044623.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044623hhsearch_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 3.2E-66 6.9E-71 531.4 38.5 329 144-478 4-332 (334)
2 TIGR03465 HpnD squalene syntha 100.0 7.4E-59 1.6E-63 462.2 32.3 264 203-472 2-265 (266)
3 TIGR03464 HpnC squalene syntha 100.0 1.2E-58 2.7E-63 461.0 31.7 263 203-471 2-265 (266)
4 cd00683 Trans_IPPS_HH Trans-Is 100.0 9.8E-58 2.1E-62 453.1 31.0 262 197-463 2-265 (265)
5 COG1562 ERG9 Phytoene/squalene 100.0 1.6E-53 3.5E-58 428.8 30.6 280 191-475 6-287 (288)
6 PF00494 SQS_PSY: Squalene/phy 100.0 5.8E-54 1.3E-58 424.8 23.2 257 202-462 1-267 (267)
7 TIGR01559 squal_synth farnesyl 100.0 3.5E-50 7.6E-55 412.3 27.4 273 195-470 2-294 (336)
8 KOG4411 Phytoene/squalene synt 100.0 2.4E-32 5.3E-37 261.2 26.2 255 192-454 9-269 (292)
9 KOG1459 Squalene synthetase [L 100.0 1.4E-29 3.1E-34 255.3 16.4 334 133-477 67-405 (413)
10 KOG1459 Squalene synthetase [L 100.0 4.6E-30 9.9E-35 258.9 11.8 299 164-469 5-319 (413)
11 cd00867 Trans_IPPS Trans-Isopr 99.8 1.3E-20 2.9E-25 182.6 13.7 204 208-436 1-233 (236)
12 cd00385 Isoprenoid_Biosyn_C1 I 99.8 4.1E-19 8.9E-24 166.7 12.2 216 208-423 1-228 (243)
13 cd00685 Trans_IPPS_HT Trans-Is 95.8 1.2 2.5E-05 44.5 19.3 125 287-426 116-244 (259)
14 TIGR02749 prenyl_cyano solanes 95.4 1.1 2.4E-05 46.4 17.8 138 288-425 142-304 (322)
15 PLN02890 geranyl diphosphate s 95.3 1.3 2.8E-05 47.9 18.6 139 288-426 236-399 (422)
16 TIGR02748 GerC3_HepT heptapren 94.0 8.3 0.00018 40.0 20.2 138 288-425 138-301 (319)
17 cd00687 Terpene_cyclase_nonpla 93.9 8 0.00017 39.0 25.5 199 211-421 46-270 (303)
18 CHL00151 preA prenyl transfera 93.3 3.6 7.9E-05 42.6 16.1 137 289-425 144-305 (323)
19 PRK10581 geranyltranstransfera 93.0 4.9 0.00011 41.4 16.4 126 289-425 152-280 (299)
20 PRK10888 octaprenyl diphosphat 93.0 3.1 6.8E-05 43.2 15.0 137 288-425 139-305 (323)
21 PLN02857 octaprenyl-diphosphat 92.5 1.7 3.7E-05 46.9 12.7 138 288-425 236-398 (416)
22 cd00868 Terpene_cyclase_C1 Ter 90.1 8.5 0.00018 37.9 14.1 186 219-417 47-259 (284)
23 PF00348 polyprenyl_synt: Poly 89.6 2.1 4.6E-05 42.7 9.4 73 293-365 120-194 (260)
24 PF03936 Terpene_synth_C: Terp 88.5 4.5 9.8E-05 39.5 10.8 167 217-387 59-253 (270)
25 COG0142 IspA Geranylgeranyl py 87.3 40 0.00086 35.0 19.4 137 287-423 142-302 (322)
26 cd00684 Terpene_cyclase_plant_ 75.0 1.4E+02 0.0031 33.2 19.3 189 221-425 283-502 (542)
27 PF06330 TRI5: Trichodiene syn 64.4 2E+02 0.0043 31.0 14.4 164 210-387 75-257 (376)
28 KOG0776 Geranylgeranyl pyropho 59.5 1.4E+02 0.0031 32.1 12.4 117 307-425 230-368 (384)
29 cd00686 Terpene_cyclase_cis_tr 35.7 1.3E+02 0.0028 32.1 7.4 161 216-387 81-257 (357)
30 PLN02279 ent-kaur-16-ene synth 33.8 8.7E+02 0.019 28.8 16.1 193 209-415 501-725 (784)
31 KOG3426 NADH:ubiquinone oxidor 26.7 1.5E+02 0.0032 26.7 5.2 50 217-269 20-71 (124)
32 PRK02899 adaptor protein; Prov 26.5 67 0.0015 31.2 3.4 43 370-414 12-54 (197)
33 PHA01083 hypothetical protein 24.7 2E+02 0.0043 27.1 5.9 60 342-408 19-88 (149)
34 PRK05255 hypothetical protein; 24.6 2.3E+02 0.0049 27.2 6.5 61 249-317 107-169 (171)
35 TIGR01439 lp_hng_hel_AbrB loop 23.2 35 0.00075 24.0 0.6 21 367-387 5-25 (43)
36 COG5204 SPT4 Transcription elo 20.2 55 0.0012 28.6 1.2 17 360-376 90-107 (112)
No 1
>PLN02632 phytoene synthase
Probab=100.00 E-value=3.2e-66 Score=531.42 Aligned_cols=329 Identities=81% Similarity=1.277 Sum_probs=301.1
Q ss_pred cccccCchhhHHHHHHHHhhhhccCCCccccccccCCCCCCCCChhhHHHHHHHHHHHHhhcCcchHHHHhcCCHHHHHH
Q 044623 144 GEVAMSSEEMVYNVVLKQAALVNKQPSGVTRDLDVNPDIALPGTLSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRA 223 (486)
Q Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~l~~a~~~C~evlr~~srSFyla~llLP~e~R~a 223 (486)
+++..+++++|+++++|++.......+. ..+ .+.+.. +...++++|++|.++++++|+|||+++++||++.|.+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~---~~~~~~--~~~~l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~a 77 (334)
T PLN02632 4 APAAASSEEKVYEVVLKQAALVRKAARR-SVR---PRATSL--SPALLEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKA 77 (334)
T ss_pred ccCCCccHhHHHHHHHHHHHHHHHhccc-ccC---CCCCCC--CcccchHHHHHHHHHHhhcCchHHHHHHhCCHHHHHH
Confidence 3477899999999999999988777665 333 222222 2357899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCCCChHHHHHHHHHHHhhccCCC
Q 044623 224 IWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRKSR 303 (486)
Q Consensus 224 i~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~~~Lp~~~l~~mIegm~~DL~~~~ 303 (486)
+++||+|||.+|||+|++..+.+++.+|+||++.++.++.|.+.||+..+|.+++.+|+++.++|.+||+||++|+...+
T Consensus 78 i~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g~~~~pv~~aL~~~~~~~~L~~~~~~~li~g~~~Dl~~~~ 157 (334)
T PLN02632 78 IWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLFDGRPYDMLDAALADTVSKFPLDIQPFRDMIEGMRMDLVKSR 157 (334)
T ss_pred HHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCC
Confidence 99999999999999999888777778899999999999999889999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhcCC
Q 044623 304 YKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVYLPQDELAQAGL 383 (486)
Q Consensus 304 ~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~Gv 383 (486)
|+|++||+.|||+|||+||+|+++++|..+......+.+.+.|.+||+|+|+||||||++||+++||||||.|+|++||+
T Consensus 158 ~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv~eD~~~GRvYLP~e~L~~~Gv 237 (334)
T PLN02632 158 YENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAALALGIANQLTNILRDVGEDARRGRVYLPQDELAQFGL 237 (334)
T ss_pred CCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeCCHHHHHHcCC
Confidence 99999999999999999999999999975522222244678999999999999999999999999999999999999999
Q ss_pred ChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCchHHHHHHHHHHHHHHHHHHCCCCCCCCCccCCHHHH
Q 044623 384 SDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463 (486)
Q Consensus 384 s~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~pv~a~~~ly~~iL~~Ie~~~ydvf~~Rv~vsk~~K 463 (486)
+++||+.+..+++++.++.+++.+|+.||++|+.++..||+++++++++++.+|+.||++|+++||++|++|+++++++|
T Consensus 238 ~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r~~v~~a~~~y~~iL~~i~~~~~~v~~~R~~l~~~~K 317 (334)
T PLN02632 238 TDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASRWPVWASLLLYRQILDAIEANDYDNFTKRAYVGKWKK 317 (334)
T ss_pred CHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhHHHHHHHHHHHHHHHHHHHHcCCCcCCCCCccCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhcCC
Q 044623 464 IAALPIAYAKSLLRP 478 (486)
Q Consensus 464 l~ll~~a~~~~~~~~ 478 (486)
+|+++++|.+....+
T Consensus 318 l~~~~~~~~~~~~~~ 332 (334)
T PLN02632 318 LLALPLAYARALFPP 332 (334)
T ss_pred HHHHHHHHHhhcccC
Confidence 999999988765443
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=7.4e-59 Score=462.15 Aligned_cols=264 Identities=35% Similarity=0.621 Sum_probs=252.4
Q ss_pred hhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCC
Q 044623 203 AEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFP 282 (486)
Q Consensus 203 r~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~~~ 282 (486)
+.+|+|||+++++||++.|.++++||+|||++|||+|+...+.++.++|+||++.++.++.|.+.||+..+|.+++..++
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 57899999999999999999999999999999999999666666778999999999999999889999999999999999
Q ss_pred CChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhH
Q 044623 283 VDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDV 362 (486)
Q Consensus 283 Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv 362 (486)
+|.++|.+||+||++|+...+|+|++||+.|||+|||+||+|+++++|..+ +...+.|.++|.|+|+||||||+
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 999999999999999999999999999999999999999999999998543 23568999999999999999999
Q ss_pred HHHHHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCchHHHHHHHHHHHHHH
Q 044623 363 GEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWASLLLYRQILD 442 (486)
Q Consensus 363 ~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~pv~a~~~ly~~iL~ 442 (486)
+||+.+||||||.|+|++||++++||..|..++++++++.+++.+|+.||++|+.++..+|+..++|+.+++.+|+.||+
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 044623 443 EIEANDYNNFTKRAYVSKAKKIAALPIAYA 472 (486)
Q Consensus 443 ~Ie~~~ydvf~~Rv~vsk~~Kl~ll~~a~~ 472 (486)
+|+++||++|++|+++++++|+++++++..
T Consensus 236 ~i~~~~~~~~~~r~~~~~~~k~~~~~~~~~ 265 (266)
T TIGR03465 236 EIEADGFQVLRQRVSLTPLRKLWIALRTWL 265 (266)
T ss_pred HHHHCCCCCCCCCCcCCHHHHHHHHHHHHh
Confidence 999999999999999999999999998864
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=1.2e-58 Score=460.96 Aligned_cols=263 Identities=28% Similarity=0.458 Sum_probs=249.3
Q ss_pred hhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCC-CCCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhC
Q 044623 203 AEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPN-ASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKF 281 (486)
Q Consensus 203 r~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~-~~~i~~~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~~ 281 (486)
+++++|||+++++||++.|+++++||+|||.+|||+|++. .+.++...|+||++.++.++.|.+.||+..+|.++++++
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 4688999999999999999999999999999999999974 344456789999999999999988899999999999999
Q ss_pred CCChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHh
Q 044623 282 PVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361 (486)
Q Consensus 282 ~Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRD 361 (486)
++|.++|.+||+||++|+...+|+|++||+.|||+|||+||+|+++++|..+. ...+.|.++|+|+|+||||||
T Consensus 82 ~l~~~~~~~li~~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~~------~~~~~A~~lG~AlQltniLRD 155 (266)
T TIGR03464 82 GLPIEPFLDLLDAFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGASDP------ENVALSDAICTALQLINFWQD 155 (266)
T ss_pred CCChHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCCCh------hHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999986542 235789999999999999999
Q ss_pred HHHHHHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCchHHHHHHHHHHHHH
Q 044623 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWASLLLYRQIL 441 (486)
Q Consensus 362 v~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~pv~a~~~ly~~iL 441 (486)
++||+++||||||.|+|++||++++|+..+..+++++.++.+++.+|+.||++|+.++..+|++++.++.++..+|+.||
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 HHHHHCCCCCCCCCccCCHHHHHHHHHHHH
Q 044623 442 DEIEANDYNNFTKRAYVSKAKKIAALPIAY 471 (486)
Q Consensus 442 ~~Ie~~~ydvf~~Rv~vsk~~Kl~ll~~a~ 471 (486)
++|+++||++|++|+++++++|+|++++++
T Consensus 236 ~~l~~~~~~~~~~r~~~~~~~kl~~~~~a~ 265 (266)
T TIGR03464 236 EKIERQGYDVLRERPKLGKFDWAGLLLRAL 265 (266)
T ss_pred HHHHHcCCCCCCCCCcCCHHHHHHHHHHHh
Confidence 999999999999999999999999998875
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=9.8e-58 Score=453.07 Aligned_cols=262 Identities=44% Similarity=0.747 Sum_probs=249.0
Q ss_pred HHHHHHhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCC-CCcHHHHHHHHHHHHHHHcC-CCCCHHHHHH
Q 044623 197 RCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNAS-HITPTALDRWESRLEDLFRG-RPFDMLDAAL 274 (486)
Q Consensus 197 ~C~evlr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~-~i~~~~L~~Wrd~Le~~f~G-~p~~pv~~aL 274 (486)
+|.++++++|+|||+++++||++.|.++++||+|||++|||+|++..+ ..+..+|+||++.++.++.| .+.||+..+|
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 799999999999999999999999999999999999999999998876 56678999999999999985 4679999999
Q ss_pred HHHHHhCCCChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHH
Q 044623 275 SDTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQ 354 (486)
Q Consensus 275 ~~~v~~~~Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQ 354 (486)
.+++.+++++.++|.+||+||++|+...+|+|++||+.|||+|||+||+|+++++|... .+...+.|.++|+|+|
T Consensus 82 ~~~~~~~~l~~~~~~~li~g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~~-----~~~~~~~A~~lG~Alq 156 (265)
T cd00683 82 ADLARRYGIPREPFRDLLAGMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGASS-----DEAALERARALGLALQ 156 (265)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCCC-----ChHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999998621 1235689999999999
Q ss_pred HHHHHHhHHHHHHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCchHHHHHH
Q 044623 355 LTNILRDVGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWASL 434 (486)
Q Consensus 355 LTNILRDv~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~pv~a~~ 434 (486)
+||||||++||+++||+|||.|+|.+||++++||..|..++++++++.+++.+|+.||..|+.++..+|+..+.+++++.
T Consensus 157 ltnilRdv~eD~~~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~~ 236 (265)
T cd00683 157 LTNILRDVGEDARRGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSRFCVRAAA 236 (265)
T ss_pred HHHHHHHHHHHHccCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHCCCCCCCCCccCCHHHH
Q 044623 435 LLYRQILDEIEANDYNNFTKRAYVSKAKK 463 (486)
Q Consensus 435 ~ly~~iL~~Ie~~~ydvf~~Rv~vsk~~K 463 (486)
.+|+.||++|++++|++|++|+++++++|
T Consensus 237 ~~y~~il~~i~~~~~~~~~~r~~~~~~~k 265 (265)
T cd00683 237 MLYRTILDEIEARGYDVLSVRVRVPKARK 265 (265)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Confidence 99999999999999999999999998875
No 5
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=1.6e-53 Score=428.79 Aligned_cols=280 Identities=39% Similarity=0.691 Sum_probs=259.7
Q ss_pred HHHHHHHHHHHHhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCC--CC
Q 044623 191 LSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRP--FD 268 (486)
Q Consensus 191 l~~a~~~C~evlr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p--~~ 268 (486)
...++++|.++++++|+|||+++++||+++|++++++|+|||++|||+|++..+......+.+|+..+...+.|.+ .|
T Consensus 6 ~~~~~~~c~~i~~~~srtf~la~~~lp~~~R~av~alYa~~R~~Ddv~D~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~ 85 (288)
T COG1562 6 IMEALDYCLDILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDGVSDPDLPAEILLAWRRELDGDFSGQPASDH 85 (288)
T ss_pred hhHHHHHHHHHHHHhCcchHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHhccccCCCcccC
Confidence 5778899999999999999999999999999999999999999999999998884444556666676777776654 79
Q ss_pred HHHHHHHHHHHhCCCChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHH
Q 044623 269 MLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALA 348 (486)
Q Consensus 269 pv~~aL~~~v~~~~Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~ 348 (486)
|+..+|.+++.+|+++.++|.+|++||++|+...+|.|++||+.|||+|||+||+|+++|++... . ....+.|..
T Consensus 86 pv~~al~~~~~~~~~~~~~~~~~~da~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~-~----~~~~~~a~~ 160 (288)
T COG1562 86 PVLAALVEVARRFGLPREAFPALIDAMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDK-D----AATRAYARG 160 (288)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCccc-c----hhhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999998753 1 123456777
Q ss_pred HHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCch
Q 044623 349 LGIANQLTNILRDVGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRW 428 (486)
Q Consensus 349 LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~ 428 (486)
||.|+|+||||||++||.++||+|||.|+|.+||++.+|+..|.+.++++.+|..++.+|+.|+.+|+.++..||.++++
T Consensus 161 lG~A~QlvNilRdv~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~~~~~ 240 (288)
T COG1562 161 LGLALQLVNILRDVGEDRRRGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGRAQL 240 (288)
T ss_pred HHHHHHHHHHHHHhHHHHhCCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCccCCHHHHHHHHHHHHHhhh
Q 044623 429 PVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKKIAALPIAYAKSL 475 (486)
Q Consensus 429 pv~a~~~ly~~iL~~Ie~~~ydvf~~Rv~vsk~~Kl~ll~~a~~~~~ 475 (486)
+++++..+|..++++|+++++++|++++.+++++|+|++++++.+..
T Consensus 241 ~~~~~~~~~~~~~~~i~a~~~~vl~~~~~l~~~~~~~~~~~~~~~~~ 287 (288)
T COG1562 241 AVLAAALLYAYLLDAIEADPADVLSQRAVLPKLRKLWLLLKAWLRGF 287 (288)
T ss_pred hhhHHHHHHHHHHHHHHccchhhhccCcccCcchHHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999988753
No 6
>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=5.8e-54 Score=424.79 Aligned_cols=257 Identities=39% Similarity=0.712 Sum_probs=224.3
Q ss_pred HhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcC------CCCCHHHHHHH
Q 044623 202 CAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRG------RPFDMLDAALS 275 (486)
Q Consensus 202 lr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G------~p~~pv~~aL~ 275 (486)
++++|+|||+++++||++.|++++++|+|||++|||+|+++.+..+.++|+||++.++.++.+ .+.||+..+|.
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 578999999999999999999999999999999999999998888888999999999999942 34589999999
Q ss_pred HHHHhCCCChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHH
Q 044623 276 DTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQL 355 (486)
Q Consensus 276 ~~v~~~~Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQL 355 (486)
+++++++++.++|.+||+||++|+...+|+|++||+.||++|||+||+|++++++...+ .+...++|.++|.|+|+
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 99999999999999999999999999999999999999999999999999999987422 13467899999999999
Q ss_pred HHHHHhHHHH-HHcCCCCCCHHhHHhcCCChhhhhccC-CCHHHHHHHHHHHHHHHHHHHHHHHhhhhc-cccCchHHHH
Q 044623 356 TNILRDVGED-AQRGRVYLPQDELAQAGLSDDDIFAGE-VTNKWRNFMKNQIKRARMFFDMAENGVTEL-SEASRWPVWA 432 (486)
Q Consensus 356 TNILRDv~ED-l~rGRiYLP~d~L~k~Gvs~edL~~g~-~~~~~r~li~~la~rAr~~l~~A~~~l~~L-p~~sr~pv~a 432 (486)
||||||+++| +++||+|||.|+|.+||++++|+..+. .+++++.++.+++.+|+++|++|+.++..+ |+.++.++.+
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 899999999999999999999999876 788899999999999999999999999999 6668888899
Q ss_pred HHHHHHHHHHHHHHCCCC-CCCCCccCCHHH
Q 044623 433 SLLLYRQILDEIEANDYN-NFTKRAYVSKAK 462 (486)
Q Consensus 433 ~~~ly~~iL~~Ie~~~yd-vf~~Rv~vsk~~ 462 (486)
++.+|..+|++|+++||+ +|++|+++++|+
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 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=3.5e-50 Score=412.34 Aligned_cols=273 Identities=18% Similarity=0.177 Sum_probs=225.2
Q ss_pred HHHHHHHHhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcH-HHHHHHHHHHHHH---HcCCCCCH-
Q 044623 195 YDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITP-TALDRWESRLEDL---FRGRPFDM- 269 (486)
Q Consensus 195 ~~~C~evlr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~-~~L~~Wrd~Le~~---f~G~p~~p- 269 (486)
+++|.++++.+|+|||+++++||+++|.+++++|+|||.+|||+|++..+...+ ..|++|.+.+.+. |.+.+ +|
T Consensus 2 ~~~C~~~l~~~SrSF~~ai~~Lp~~lR~aV~~~Yl~cR~~DdIeDd~~~~~~~kl~~l~~~~~~l~~~~~~~~~~~-~~~ 80 (336)
T TIGR01559 2 LGFCYELLNLTSRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDMTISVDKKIPLLRDFHEKIYDPDWRFTESD-NEK 80 (336)
T ss_pred hHHHHHHHhhcCccHHHHHHHcCHHHHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHhccCcccCCCC-Chh
Confidence 478999999999999999999999999999999999999999999988754221 2345555554431 32322 33
Q ss_pred ---HHHHHHHHHHhCCCChHHHHH--------HHHHHHhhccCCCC--CCHHHHHHHHHhhhhHHHHHHHhhhCCCC-CC
Q 044623 270 ---LDAALSDTVTKFPVDIQPFRD--------MIEGMRMDLRKSRY--KNFDELYLYCYYVAGTVGLMSVPVMGIAP-DS 335 (486)
Q Consensus 270 ---v~~aL~~~v~~~~Lp~~~l~~--------mIegm~~DL~~~~~--~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~-~~ 335 (486)
+...+..++..+....+++.+ |++||++|+....| +|++||+.|||+|||+||+|++++++... ++
T Consensus 81 ~~~L~~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~ 160 (336)
T TIGR01559 81 DRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFED 160 (336)
T ss_pred hHHHHHhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCC
Confidence 344445555555333334554 55999999999999 99999999999999999999999996421 11
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHH
Q 044623 336 QATTESVYNAALALGIANQLTNILRDVGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMA 415 (486)
Q Consensus 336 ~a~~e~~~~~A~~LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A 415 (486)
+.. ....+.|.+||+|||+||||||++||+++||+|||+|+|.+||++.+|+..+.+++++.+++.+++.+|+.||++|
T Consensus 161 ~~~-~~~~~~A~~lG~aLQlTNIlRDv~ED~~~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~a 239 (336)
T TIGR01559 161 PSL-GESEALSNSMGLFLQKTNIIRDYLEDINEGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDC 239 (336)
T ss_pred cch-hhhHHHHHHHHHHHHHHHHHHHHHhHHhCCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHH
Confidence 111 1235789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccccC-chHHHHHHHHHHHHHHHHHHCCCCCCCCCccCCHHHHHHHHHHH
Q 044623 416 ENGVTELSEAS-RWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKKIAALPIA 470 (486)
Q Consensus 416 ~~~l~~Lp~~s-r~pv~a~~~ly~~iL~~Ie~~~ydvf~~Rv~vsk~~Kl~ll~~a 470 (486)
..++..|+..+ +..+.+|..|+..+|..+. +|.++|++.+++++...+.++..+
T Consensus 240 l~yl~~l~~~~~~~fcaip~~mAi~TL~~~~-~n~~~~~~~VKi~r~~~~~~~~~~ 294 (336)
T TIGR01559 240 LTYLSRLRDQSIFNFCAIPQVMAIATLALCY-NNPQVFQGNVKIRKGTTVKLILDS 294 (336)
T ss_pred HHHHHhCCCcchhHHHHHHHHHHHHHHHHHh-cChhhcCCCceecHHHHHHHHHHc
Confidence 99999998765 4577889999999999997 567899999999999988888543
No 8
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=2.4e-32 Score=261.25 Aligned_cols=255 Identities=19% Similarity=0.283 Sum_probs=235.4
Q ss_pred HHHHHHHHHHHhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhh-cCCCCCCCCcHHHHHHHHHHHHHHHcCCC----
Q 044623 192 SEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDEL-VDGPNASHITPTALDRWESRLEDLFRGRP---- 266 (486)
Q Consensus 192 ~~a~~~C~evlr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdI-vDd~~~~~i~~~~L~~Wrd~Le~~f~G~p---- 266 (486)
..|+. |...++.++...|++...+|.+.|.++++|.|||.++..| +|....+.++.++|+||+|.|+.+|.-.|
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 55555 9999999999999999999999999999999999999995 55555667788999999999999996554
Q ss_pred CCHHHHHHHHHHHhCCCChHHHHHHHHHHHhhccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHH
Q 044623 267 FDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAA 346 (486)
Q Consensus 267 ~~pv~~aL~~~v~~~~Lp~~~l~~mIegm~~DL~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A 346 (486)
.+|++.+|..++..+++.+.++.+++++++.|.....|+++.||+.|.+.+-|++-.+.+++.|.... .++++|
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 RQPVAIALCSFAAGHNANKDMLLRLVEARQRTIGDRQFESINELEEYGESTISSLLCLQLDAGGKVLP------MADHAA 161 (292)
T ss_pred CcHHHHHHHHHHhccccCHHHHHHHHHHhhcCCcccchHHHHHHHHHHHhHHHHHHHHHHHhcCcccc------chHHHH
Confidence 48999999999999999999999999999999988999999999999999999999999999886543 357999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhcCCChhhh-hccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 044623 347 LALGIANQLTNILRDVGEDAQRGRVYLPQDELAQAGLSDDDI-FAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEA 425 (486)
Q Consensus 347 ~~LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~Gvs~edL-~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~ 425 (486)
.|+|.|.+++|+||.+|...++|-.|||.|.|..||++++|+ .+....+++..++.+++..|..|+..|+..+..+|++
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 999999999999999999999999999999999999999665 4667788899999999999999999999999999999
Q ss_pred CchHHHHHHHHHHHHHHHHHHCCCCCCCC
Q 044623 426 SRWPVWASLLLYRQILDEIEANDYNNFTK 454 (486)
Q Consensus 426 sr~pv~a~~~ly~~iL~~Ie~~~ydvf~~ 454 (486)
.| |++++......||+.|++++||+|++
T Consensus 242 vr-p~ll~tv~td~~l~~l~k~nfdi~~p 269 (292)
T KOG4411|consen 242 VR-PALLATVTTDYILKTLEKNNFDIYSP 269 (292)
T ss_pred HH-HHHHHhhhHHHHHHHHHHccccccCH
Confidence 99 89999999999999999999999988
No 9
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.96 E-value=1.4e-29 Score=255.35 Aligned_cols=334 Identities=34% Similarity=0.427 Sum_probs=302.8
Q ss_pred ccccceecccccc-cccCchhhHHHHHHHHhhhhccCCCccccccc-cCCCC-CCCCChhhHHHHHHHHHHHHhhcCcch
Q 044623 133 PEISCMVASTAGE-VAMSSEEMVYNVVLKQAALVNKQPSGVTRDLD-VNPDI-ALPGTLSLLSEAYDRCGEVCAEYAKTF 209 (486)
Q Consensus 133 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~-~~~~~-~~~~~~~~l~~a~~~C~evlr~~srSF 209 (486)
-+++++.+.|.|+ ++++++.++|.+++||++++.-+++++.-..+ +.++. +.++.-..+.++|+ +++.+..+.|
T Consensus 67 lVlraLdtvedd~sI~~d~kvpil~~fhk~i~~~~w~f~~s~~k~r~~l~qf~~v~~ef~~L~e~Yq---eviaeitk~m 143 (413)
T KOG1459|consen 67 LVLRALDTVEDDMSIPLDKKVPILRVFHKQIYLVDWQFRESSPKDRQLLPQFVVVSGEFLNLGEGYQ---EVIAEITKRM 143 (413)
T ss_pred eehhhhccCCCCCcccccccccHHHHHHHHHhhcCceecCCChhhhhhccccccchHHHHHhhHHHH---HHHHHHHHHH
Confidence 4677889999999 99999999999999999999999998544443 24443 35777788999997 8899999999
Q ss_pred HHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCCCChHHHH
Q 044623 210 YLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFR 289 (486)
Q Consensus 210 yla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~~~Lp~~~l~ 289 (486)
+.++..+-++.+++++.+|.+||.++.+++.+...++..++|+.|....++++.|.|.......+.+...+...+.++|-
T Consensus 144 g~Gma~~~~~~v~ti~d~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~l~ns~glfLqktnIirdy~ed~~d~r~Fw 223 (413)
T KOG1459|consen 144 GLGMALFIPEEVETIWDYDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQLSNSMGLFLQKTNIIRDYLEDPVDGRPFW 223 (413)
T ss_pred hchHHHhhHHHHhHHHHHHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHHHhcccchHHHHhHHHHHHHhccccCCccC
Confidence 99999999999999999999999999999999999999999999999999999998877777888888899999999998
Q ss_pred -HHHHHHHhh-ccCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 044623 290 -DMIEGMRMD-LRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQ 367 (486)
Q Consensus 290 -~mIegm~~D-L~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~EDl~ 367 (486)
++|.||.+| +....|++.+|+..||+++++++|+|..+.+ ++.-+...++++.+.+...|++.+.|+++++..+|+.
T Consensus 224 p~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~-l~yls~l~~qsvfnfcaipqimai~Tlal~~nn~dvf 302 (413)
T KOG1459|consen 224 PREIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDV-LTYLSKLRTQSVFNFCAIPQIMAIATLALCYNNEDVF 302 (413)
T ss_pred hHHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHH-HHHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCHhHh
Confidence 999999999 8889999999999999999999999988876 4544555677899999999999999999999999999
Q ss_pred cCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCchHHHHHHHHHHHHHHHHHHC
Q 044623 368 RGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWASLLLYRQILDEIEAN 447 (486)
Q Consensus 368 rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~pv~a~~~ly~~iL~~Ie~~ 447 (486)
+|+++||+ |.+.++|+++++.+++++++.....+++..++++......|.-..+++++.++..|+. .+.+..+
T Consensus 303 rG~Vklrk------Gl~~~~I~~~k~~~~v~~~f~~y~~~i~~k~d~~dpnflklsask~~qv~esl~~~~~-~~~il~n 375 (413)
T KOG1459|consen 303 RGNVKLRK------GLAVELILASKTMDKVRNIFYMYLRDIRMKFDEADPNFLKLSASKTEQVWESLLLYRR-PDEILAN 375 (413)
T ss_pred ccceeecC------CchHHHHHhcccHHHHHHHHHHHHHHHHhhCCccCCCchhhhhhhHHHHHHHHHHhhc-ccccccc
Confidence 99999999 8999999999999999999999999999999999999888887778999999999887 8999999
Q ss_pred CCCCCCCCccCCHHHHHHHHHHHHHhhhcC
Q 044623 448 DYNNFTKRAYVSKAKKIAALPIAYAKSLLR 477 (486)
Q Consensus 448 ~ydvf~~Rv~vsk~~Kl~ll~~a~~~~~~~ 477 (486)
.++.|++|+++....++..++.||+++...
T Consensus 376 ~~~~f~k~~~v~~V~~i~al~~ay~~~v~~ 405 (413)
T KOG1459|consen 376 RYNNFTKRIYVGFVKKIAALPLAYAKSVSK 405 (413)
T ss_pred ccccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999997653
No 10
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.96 E-value=4.6e-30 Score=258.87 Aligned_cols=299 Identities=16% Similarity=0.135 Sum_probs=236.9
Q ss_pred hhccCCCccccccccCCCCCCCC-ChhhHHHHHHHHHHHHhhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCC
Q 044623 164 LVNKQPSGVTRDLDVNPDIALPG-TLSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPN 242 (486)
Q Consensus 164 ~~~~~~r~~~~~~~~~~~~~~~~-~~~~l~~a~~~C~evlr~~srSFyla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~ 242 (486)
.+|.|++. ..+++ ..|..+. +...+ .-+..|.+.+..+|++|..+++.++.++|.+++.||++.|.+|+++||++
T Consensus 5 ~~p~e~~~-l~~~k--~~~l~~~~eq~~~-~~~~~Cy~~l~~tsrsfa~Vi~~l~~elRNav~ifylVlraLdtvedd~s 80 (413)
T KOG1459|consen 5 WHPEESYN-LLKMK--KLPLVRVLEQSPL-PLLSPCYNLLNLTSRSFAAVIQELSSELRNAVCIFYLVLRALDTVEDDMS 80 (413)
T ss_pred cChhhhcC-chhhc--cCCcchhhhcCCc-hHHHHHHHHHHhhcchHHHHHHhhCHHHhhhhheeeeehhhhccCCCCCc
Confidence 45677766 55554 3333221 11112 67889999999999999999999999999999999999999999999999
Q ss_pred CCCCcH-HHHHHHHHHHHH---HHcCCCC---------CHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhccCCCCCCHH
Q 044623 243 ASHITP-TALDRWESRLED---LFRGRPF---------DMLDAALSDTVTKFP-VDIQPFRDMIEGMRMDLRKSRYKNFD 308 (486)
Q Consensus 243 ~~~i~~-~~L~~Wrd~Le~---~f~G~p~---------~pv~~aL~~~v~~~~-Lp~~~l~~mIegm~~DL~~~~~~T~~ 308 (486)
++...+ +.|..|++.+.. -|.++.+ +.+..+|..+-..|. +-.+..++|..||+..+... .+|+.
T Consensus 81 I~~d~kvpil~~fhk~i~~~~w~f~~s~~k~r~~l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~~-v~ti~ 159 (413)
T KOG1459|consen 81 IPLDKKVPILRVFHKQIYLVDWQFRESSPKDRQLLPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPEE-VETIW 159 (413)
T ss_pred ccccccccHHHHHHHHHhhcCceecCCChhhhhhccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHHH-HhHHH
Confidence 887655 577888888776 2444432 123334443333332 11234689999999998754 89999
Q ss_pred HHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhcCCChhhh
Q 044623 309 ELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVYLPQDELAQAGLSDDDI 388 (486)
Q Consensus 309 DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~Gvs~edL 388 (486)
|++.|||||||.||..+++++....-. .+..+..+.+++||.+||.||||||+.||...||-|||+|+|.++--+-+|+
T Consensus 160 d~d~yChyvagLVg~glsrlf~~s~le-~~~~~~e~l~ns~glfLqktnIirdy~ed~~d~r~Fwp~eIwg~y~d~L~d~ 238 (413)
T KOG1459|consen 160 DYDVYCHYVAGLVGIGLSRLFTASKLE-DLLARLEQLSNSMGLFLQKTNIIRDYLEDPVDGRPFWPREIWGKYMDKLKDF 238 (413)
T ss_pred HHHHHHHHHHHhhCCchHhhhhHHHHh-hhhhhHHHHhcccchHHHHhHHHHHHHhccccCCccChHHHHHHHHHHHHhh
Confidence 999999999999999999988643211 1233455789999999999999999999999999999999999997778899
Q ss_pred hccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCch-HHHHHHHHHHHHHHHHHHCCCCCCCCCccCCHHHHHHHH
Q 044623 389 FAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRW-PVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKKIAAL 467 (486)
Q Consensus 389 ~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~sr~-pv~a~~~ly~~iL~~Ie~~~ydvf~~Rv~vsk~~Kl~ll 467 (486)
..+.+++....++.++++.|..|...+..++..+..++.+ .++++..+...+|...- +|-++|++++++++.....++
T Consensus 239 ~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvfnfcaipqimai~Tlal~~-nn~dvfrG~VklrkGl~~~~I 317 (413)
T KOG1459|consen 239 RYPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVFNFCAIPQIMAIATLALCY-NNEDVFRGNVKLRKGLAVELI 317 (413)
T ss_pred hCccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHh-cCHhHhccceeecCCchHHHH
Confidence 9999999999999999999999999999999999988865 66788889888886555 788999999999987666555
Q ss_pred HH
Q 044623 468 PI 469 (486)
Q Consensus 468 ~~ 469 (486)
.+
T Consensus 318 ~~ 319 (413)
T KOG1459|consen 318 LA 319 (413)
T ss_pred Hh
Confidence 44
No 11
>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=99.84 E-value=1.3e-20 Score=182.63 Aligned_cols=204 Identities=27% Similarity=0.337 Sum_probs=158.1
Q ss_pred chHHHHhcCCH----------HHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHH-HHHHHHHHHcCCCCCHHHHHHHH
Q 044623 208 TFYLGTLLMTS----------ERRRAIWAIYVWCRRTDELVDGPNASHITPTALDR-WESRLEDLFRGRPFDMLDAALSD 276 (486)
Q Consensus 208 SFyla~llLP~----------e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~-Wrd~Le~~f~G~p~~pv~~aL~~ 276 (486)
+|++++.++++ ..+.++.+||+|++..|||+|+.......+....+ |-..+. +..| .+++..++..
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 47888888888 99999999999999999999998766555555666 665543 3333 4567777777
Q ss_pred HHH-----hCCCChHHHHHHHHHHHhhccCCC--CCCHHHHHHHHHh-hhhHHHHHHHhhhCCCCCCccchhhHHHHHHH
Q 044623 277 TVT-----KFPVDIQPFRDMIEGMRMDLRKSR--YKNFDELYLYCYY-VAGTVGLMSVPVMGIAPDSQATTESVYNAALA 348 (486)
Q Consensus 277 ~v~-----~~~Lp~~~l~~mIegm~~DL~~~~--~~T~~DL~~Yc~~-VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~ 348 (486)
+.+ .+.+..+.+.+|++|+..|+...+ +.|+++|..||++ |||.+|.++..++.....+....+...+.+.+
T Consensus 78 l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (236)
T cd00867 78 LARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRA 157 (236)
T ss_pred HHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHH
Confidence 766 566777889999999999998876 8999999999999 99999998877765443322223456789999
Q ss_pred HHHHHHHHHHHHhHHHHH----------HcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q 044623 349 LGIANQLTNILRDVGEDA----------QRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENG 418 (486)
Q Consensus 349 LG~ALQLTNILRDv~EDl----------~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~ 418 (486)
+|+|+|++|+++|+.+|. ++||+|||.+.+ .+.+...++.+++.+...
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 hhhccccCchHHHHHHHH
Q 044623 419 VTELSEASRWPVWASLLL 436 (486)
Q Consensus 419 l~~Lp~~sr~pv~a~~~l 436 (486)
....|....++..+...+
T Consensus 216 ~~~~~~~~~~~~~~~~~~ 233 (236)
T cd00867 216 PPSLPRARRALIALADFL 233 (236)
T ss_pred CCCchHHHHHHHHHHHHH
Confidence 766553333344443333
No 12
>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=99.79 E-value=4.1e-19 Score=166.74 Aligned_cols=216 Identities=24% Similarity=0.242 Sum_probs=172.0
Q ss_pred chHHHHhcCCH--HHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh-----
Q 044623 208 TFYLGTLLMTS--ERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTK----- 280 (486)
Q Consensus 208 SFyla~llLP~--e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~----- 280 (486)
+|++++.+.|+ +.|.++..+|+|++.+|||.|+.......+....+|...-.....+...+++..++..+...
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (243)
T cd00385 1 FRPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEA 80 (243)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHH
Confidence 47888999999 99999999999999999999988776555555555511100000011234566666666665
Q ss_pred CCCChHHHHHHHHHHHhhccCCC--CCCHHHHHHHHHhh-hhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHH
Q 044623 281 FPVDIQPFRDMIEGMRMDLRKSR--YKNFDELYLYCYYV-AGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTN 357 (486)
Q Consensus 281 ~~Lp~~~l~~mIegm~~DL~~~~--~~T~~DL~~Yc~~V-AGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTN 357 (486)
+.+..+.+.++++|+..|+.... ++|++|+..||+.+ ++++|.++...++.........+.....+.++|.++|++|
T Consensus 81 ~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~n 160 (243)
T cd00385 81 LEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTN 160 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556778899999999998775 89999999999999 8888888777765433222224456788999999999999
Q ss_pred HHHhHHHHHHc--CCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 044623 358 ILRDVGEDAQR--GRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELS 423 (486)
Q Consensus 358 ILRDv~EDl~r--GRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp 423 (486)
.++|+..|... |++++|..++.++|++.+++..+...+.+..++..+...+++.+++.......++
T Consensus 161 Dl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 161 DLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 99999999987 8999999999999999999988888889999999999999999999998887765
No 13
>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=95.84 E-value=1.2 Score=44.50 Aligned_cols=125 Identities=17% Similarity=0.157 Sum_probs=79.9
Q ss_pred HHHHHHHHHHhhccCCC--CCCHHHHHHHHHhhhhHHHHHHHhhhCCC-CCCccchhhHHHHHHHHHHHHHHHHHHHhHH
Q 044623 287 PFRDMIEGMRMDLRKSR--YKNFDELYLYCYYVAGTVGLMSVPVMGIA-PDSQATTESVYNAALALGIANQLTNILRDVG 363 (486)
Q Consensus 287 ~l~~mIegm~~DL~~~~--~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~-~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~ 363 (486)
...+++.|...|+.... -.|++++..-+..-.|....++..+.+.- ..+....+...+.+.++|.++|+.|=+.|+-
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 45788999999987643 47899998888888887766655543321 1112233456789999999999988777763
Q ss_pred HHHH-cCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhccccC
Q 044623 364 EDAQ-RGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEAS 426 (486)
Q Consensus 364 EDl~-rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~s 426 (486)
.|-. .|+- ..+||..|+.+=-+.-++ -+.+..+.++|...+..+|...
T Consensus 196 ~~~~~~gK~------------~~~Di~~gk~T~~~~~~l---~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 196 GDPETLGKP------------VGSDLREGKCTLPVLLAL---RELAREYEEKALEALKALPESP 244 (259)
T ss_pred CChHHHCCC------------cchHHHcCCchHHHHHHH---HHHHHHHHHHHHHHHHcCCCcH
Confidence 2211 1111 124555555542222122 5678888888888888887653
No 14
>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=95.38 E-value=1.1 Score=46.44 Aligned_cols=138 Identities=14% Similarity=0.150 Sum_probs=80.0
Q ss_pred HHHHHHHHHhhccCC--CCCCHHHHHHHHHhhhhHHHHHHHhhhCCC-CCCccchhhHHHHHHHHHHHHHHHHHHHh---
Q 044623 288 FRDMIEGMRMDLRKS--RYKNFDELYLYCYYVAGTVGLMSVPVMGIA-PDSQATTESVYNAALALGIANQLTNILRD--- 361 (486)
Q Consensus 288 l~~mIegm~~DL~~~--~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~-~~~~a~~e~~~~~A~~LG~ALQLTNILRD--- 361 (486)
..+|++|...|+... .-.|.+++..-+++=.|.+...++.+-..- ..+....+...+...++|.|+|+.+=+.|
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 456888887776432 224777777666665566654444332211 11112234567889999999999988877
Q ss_pred --------HHHHHHcCCCCCCHHhHHhcCCChhhhhcc-CC-CHHHHHH---------HHHHHHHHHHHHHHHHHhhhhc
Q 044623 362 --------VGEDAQRGRVYLPQDELAQAGLSDDDIFAG-EV-TNKWRNF---------MKNQIKRARMFFDMAENGVTEL 422 (486)
Q Consensus 362 --------v~EDl~rGRiYLP~d~L~k~Gvs~edL~~g-~~-~~~~r~l---------i~~la~rAr~~l~~A~~~l~~L 422 (486)
++.|+..|.+-+|.=..-+..-....++.. .. .+.+..+ +...-+.++.+.++|...+..+
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 2334455777888888888888
Q ss_pred ccc
Q 044623 423 SEA 425 (486)
Q Consensus 423 p~~ 425 (486)
|+.
T Consensus 302 p~~ 304 (322)
T TIGR02749 302 PPS 304 (322)
T ss_pred CCC
Confidence 763
No 15
>PLN02890 geranyl diphosphate synthase
Probab=95.34 E-value=1.3 Score=47.90 Aligned_cols=139 Identities=17% Similarity=0.191 Sum_probs=86.0
Q ss_pred HHHHHHHHHhhccCC--CCCCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHhH--
Q 044623 288 FRDMIEGMRMDLRKS--RYKNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRDV-- 362 (486)
Q Consensus 288 l~~mIegm~~DL~~~--~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-- 362 (486)
..+|++|...|+... .-.|++++..-.++=.|.+...++.+-++ ...+....+.+.+...++|.|+|+.+=+-|+
T Consensus 236 ~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g 315 (422)
T PLN02890 236 VEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTG 315 (422)
T ss_pred HHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 568889998887643 23578888777776666666555443221 1111112334668899999999999888886
Q ss_pred ---------HHHHHcCCCCCCHHhHHhcCCChhhhh-ccCCC-HHHH---H------HHHHHHHHHHHHHHHHHHhhhhc
Q 044623 363 ---------GEDAQRGRVYLPQDELAQAGLSDDDIF-AGEVT-NKWR---N------FMKNQIKRARMFFDMAENGVTEL 422 (486)
Q Consensus 363 ---------~EDl~rGRiYLP~d~L~k~Gvs~edL~-~g~~~-~~~r---~------li~~la~rAr~~l~~A~~~l~~L 422 (486)
+.|++.|.+-+|.=..-+..-....++ .+..+ +.+. + .+..-...|+.|.++|...+..+
T Consensus 316 ~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~l 395 (422)
T PLN02890 316 TSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIESL 395 (422)
T ss_pred ChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 478889999888754332211111222 12211 1222 2 23344556889999999999988
Q ss_pred cccC
Q 044623 423 SEAS 426 (486)
Q Consensus 423 p~~s 426 (486)
|...
T Consensus 396 p~s~ 399 (422)
T PLN02890 396 PETD 399 (422)
T ss_pred CCCc
Confidence 8653
No 16
>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=94.03 E-value=8.3 Score=39.95 Aligned_cols=138 Identities=13% Similarity=0.160 Sum_probs=84.1
Q ss_pred HHHHHHHHHhhccCC--CCCCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHhH--
Q 044623 288 FRDMIEGMRMDLRKS--RYKNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRDV-- 362 (486)
Q Consensus 288 l~~mIegm~~DL~~~--~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-- 362 (486)
+.+|++|...|+... .-.|.+++..-++.=.|.+..+.+.+-.. ...+....+...+...++|.|+|+.|=+.|+
T Consensus 138 ~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~ 217 (319)
T TIGR02748 138 IVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 567888988887542 23578887777777777765554443211 1111112334667899999999999988886
Q ss_pred ---------HHHHHcCCCCCCHHhHHhcCCChh---hhhccCCCHHHHHH---H------HHHHHHHHHHHHHHHHhhhh
Q 044623 363 ---------GEDAQRGRVYLPQDELAQAGLSDD---DIFAGEVTNKWRNF---M------KNQIKRARMFFDMAENGVTE 421 (486)
Q Consensus 363 ---------~EDl~rGRiYLP~d~L~k~Gvs~e---dL~~g~~~~~~r~l---i------~~la~rAr~~l~~A~~~l~~ 421 (486)
+.|+..|..-+|.=..-+..-..+ .+......+.+..+ + ..-...|..+.++|...+..
T Consensus 218 ~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~ 297 (319)
T TIGR02748 218 TEEELGKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDG 297 (319)
T ss_pred CHHhhCCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhc
Confidence 578889999888765443211111 12221222222222 2 23345578888888888888
Q ss_pred cccc
Q 044623 422 LSEA 425 (486)
Q Consensus 422 Lp~~ 425 (486)
+|..
T Consensus 298 lp~~ 301 (319)
T TIGR02748 298 LPDG 301 (319)
T ss_pred CCCC
Confidence 8763
No 17
>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=93.90 E-value=8 Score=38.97 Aligned_cols=199 Identities=17% Similarity=0.149 Sum_probs=114.7
Q ss_pred HHHhcCC---HHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCC------CCCHHHHHHHHHHHhC
Q 044623 211 LGTLLMT---SERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGR------PFDMLDAALSDTVTKF 281 (486)
Q Consensus 211 la~llLP---~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~------p~~pv~~aL~~~v~~~ 281 (486)
+++.+.| ++....++-+..|.-..||.-|+... ....+....+.+..++.|. +.+|+..++.++..+.
T Consensus 46 ~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~d~~~r~ 122 (303)
T cd00687 46 LAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQK---SPEDGEAGVTRLLDILRGDGLDSPDDATPLEFGLADLWRRT 122 (303)
T ss_pred HHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCcccc---CHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHHHHh
Confidence 4455544 44455556677888889999887531 1223333345555555542 2367888888887754
Q ss_pred C--CChHHHHHHHHHHHhhcc----------CCCCCCHHHHHHHHHhhhhHHHH-HHHhh-hCCC-CCCccchhhHHHHH
Q 044623 282 P--VDIQPFRDMIEGMRMDLR----------KSRYKNFDELYLYCYYVAGTVGL-MSVPV-MGIA-PDSQATTESVYNAA 346 (486)
Q Consensus 282 ~--Lp~~~l~~mIegm~~DL~----------~~~~~T~~DL~~Yc~~VAGtVG~-Lll~i-lg~~-~~~~a~~e~~~~~A 346 (486)
. .+......+++++...+. ....+|++|+..+=..+.|.-.. .++.+ +|.. ++.....+......
T Consensus 123 ~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~~l~ 202 (303)
T cd00687 123 LARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMRALE 202 (303)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHHHHH
Confidence 2 334444444444433322 23457888887776666554332 23332 3422 11111122244566
Q ss_pred HHHHHHHHHHHHHHhHHHHH-HcCCC-CCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 044623 347 LALGIANQLTNILRDVGEDA-QRGRV-YLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421 (486)
Q Consensus 347 ~~LG~ALQLTNILRDv~EDl-~rGRi-YLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~ 421 (486)
...+....++|=|=....+. ..|.. =+-.=++.++|++.++ ..+.+..++......|.+.+..+..
T Consensus 203 ~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~e---------A~~~~~~~~~~~~~~f~~~~~~l~~ 270 (303)
T cd00687 203 ALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEE---------AISVVRDMHNERITQFEELEASLIK 270 (303)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHH---------HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 67777788888888888888 77773 3334456667777643 4556677777777777777765543
No 18
>CHL00151 preA prenyl transferase; Reviewed
Probab=93.31 E-value=3.6 Score=42.64 Aligned_cols=137 Identities=14% Similarity=0.097 Sum_probs=74.4
Q ss_pred HHHHHHHHhhccC--CCCCCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHh----
Q 044623 289 RDMIEGMRMDLRK--SRYKNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRD---- 361 (486)
Q Consensus 289 ~~mIegm~~DL~~--~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRD---- 361 (486)
.++.+|...+... ..-.|.+++..-+++=.|....+.+.+-.. ...+....+...+...++|.|+|+.+=+-|
T Consensus 144 ~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~ 223 (323)
T CHL00151 144 TDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSS 223 (323)
T ss_pred HHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 4555665554332 122355665554344444444444332211 111112234567889999999999988887
Q ss_pred -------HHHHHHcCCCCCCHHhHHhcCCChhhhhc-cC-CCHHHHHH---------HHHHHHHHHHHHHHHHHhhhhcc
Q 044623 362 -------VGEDAQRGRVYLPQDELAQAGLSDDDIFA-GE-VTNKWRNF---------MKNQIKRARMFFDMAENGVTELS 423 (486)
Q Consensus 362 -------v~EDl~rGRiYLP~d~L~k~Gvs~edL~~-g~-~~~~~r~l---------i~~la~rAr~~l~~A~~~l~~Lp 423 (486)
++.|++.|++-+|.=..-+..-....++. .. ..+.+..+ +.+....|+.|.++|.+.+..+|
T Consensus 224 ~~~~GK~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp 303 (323)
T CHL00151 224 TESLGKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLP 303 (323)
T ss_pred hhhhCCCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCC
Confidence 46799999998885432221111111111 11 11222222 34445568888888988888887
Q ss_pred cc
Q 044623 424 EA 425 (486)
Q Consensus 424 ~~ 425 (486)
..
T Consensus 304 ~~ 305 (323)
T CHL00151 304 PS 305 (323)
T ss_pred CC
Confidence 64
No 19
>PRK10581 geranyltranstransferase; Provisional
Probab=93.03 E-value=4.9 Score=41.38 Aligned_cols=126 Identities=21% Similarity=0.188 Sum_probs=78.0
Q ss_pred HHHHHHHHhhccCCC-CCCHHHHHHHHHhhhhHHHHHHHhhhCCC-CCC-ccchhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 044623 289 RDMIEGMRMDLRKSR-YKNFDELYLYCYYVAGTVGLMSVPVMGIA-PDS-QATTESVYNAALALGIANQLTNILRDVGED 365 (486)
Q Consensus 289 ~~mIegm~~DL~~~~-~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~-~~~-~a~~e~~~~~A~~LG~ALQLTNILRDv~ED 365 (486)
..|+.|...|+.... ..|.+++..-+++=.|....+.+.+-++- ..+ ....+...+.+.++|.|+|+.+=+.|+-.|
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 357788888876532 35788888777777777765554433221 111 112344668899999999998877776322
Q ss_pred HHcCCCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 044623 366 AQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEA 425 (486)
Q Consensus 366 l~rGRiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~ 425 (486)
- +.+.|- .-.|+..|+.+--+.-.+......|+.+.++|.+.+..+|..
T Consensus 232 ~---------~~~GK~--~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~ 280 (299)
T PRK10581 232 T---------ATLGKR--QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQ 280 (299)
T ss_pred h---------HHHCCC--cchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 1 111110 123455555554444455666678899999999999888753
No 20
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=92.96 E-value=3.1 Score=43.23 Aligned_cols=137 Identities=17% Similarity=0.123 Sum_probs=84.9
Q ss_pred HHHHHHHHHhhccC--CCCCCHHHHHHHHHhhhhHHHHHHHhhhCCC-CCCccchhhHHHHHHHHHHHHHHHHHHHhH--
Q 044623 288 FRDMIEGMRMDLRK--SRYKNFDELYLYCYYVAGTVGLMSVPVMGIA-PDSQATTESVYNAALALGIANQLTNILRDV-- 362 (486)
Q Consensus 288 l~~mIegm~~DL~~--~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~-~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-- 362 (486)
...|.+|...|+.. ..-.|.+++..-+..=.|+...+++.+-+.- ..+....+.......++|.|+|+.+=+-|+
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 45678888888753 2346888888888887777777666543221 111112234567899999999999888776
Q ss_pred ---------HHHHHcCCCCCCHHhHHhcCCChh------hhhccCC-CHHHH---HH------HHHHHHHHHHHHHHHHH
Q 044623 363 ---------GEDAQRGRVYLPQDELAQAGLSDD------DIFAGEV-TNKWR---NF------MKNQIKRARMFFDMAEN 417 (486)
Q Consensus 363 ---------~EDl~rGRiYLP~d~L~k~Gvs~e------dL~~g~~-~~~~r---~l------i~~la~rAr~~l~~A~~ 417 (486)
+.|+..|.+-||.=..-+. .+++ .+..... .+.+. +. +......|+.|.++|.+
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 6788999998985432222 1221 1121111 12222 22 23444557888888888
Q ss_pred hhhhcccc
Q 044623 418 GVTELSEA 425 (486)
Q Consensus 418 ~l~~Lp~~ 425 (486)
.+..+|+.
T Consensus 298 ~L~~lp~~ 305 (323)
T PRK10888 298 ALQVLPDT 305 (323)
T ss_pred HHhcCCCC
Confidence 88888764
No 21
>PLN02857 octaprenyl-diphosphate synthase
Probab=92.52 E-value=1.7 Score=46.92 Aligned_cols=138 Identities=19% Similarity=0.209 Sum_probs=79.2
Q ss_pred HHHHHHHHHhhccCC--CCCCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHhH--
Q 044623 288 FRDMIEGMRMDLRKS--RYKNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRDV-- 362 (486)
Q Consensus 288 l~~mIegm~~DL~~~--~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-- 362 (486)
..++.+|...++... .-.|.+++..-.++=.|.+....+.+-.. ...+....+...+...++|.|+|+.+=+.|+
T Consensus 236 ~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~ 315 (416)
T PLN02857 236 IKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 456667765554321 22477777776666666665554443221 1111122344678899999999999888885
Q ss_pred ---------HHHHHcCCCCCCHHhHHhcCCChhhhhccC--CCHH---HHHH------HHHHHHHHHHHHHHHHHhhhhc
Q 044623 363 ---------GEDAQRGRVYLPQDELAQAGLSDDDIFAGE--VTNK---WRNF------MKNQIKRARMFFDMAENGVTEL 422 (486)
Q Consensus 363 ---------~EDl~rGRiYLP~d~L~k~Gvs~edL~~g~--~~~~---~r~l------i~~la~rAr~~l~~A~~~l~~L 422 (486)
+.|+..|.+-+|.=.--+..-...+++... ..+. +.++ +..-.+.|+.+.++|.+.+..|
T Consensus 316 ~~~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~L 395 (416)
T PLN02857 316 STEQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECL 395 (416)
T ss_pred CHHHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 578999999888643211111111222211 1122 2222 2334455788888888888888
Q ss_pred ccc
Q 044623 423 SEA 425 (486)
Q Consensus 423 p~~ 425 (486)
|..
T Consensus 396 p~~ 398 (416)
T PLN02857 396 PRG 398 (416)
T ss_pred CCC
Confidence 764
No 22
>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=90.07 E-value=8.5 Score=37.92 Aligned_cols=186 Identities=16% Similarity=0.133 Sum_probs=102.0
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHH----HHcCCC--CCHHHHHHHHHHHhCC--CC------
Q 044623 219 ERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLED----LFRGRP--FDMLDAALSDTVTKFP--VD------ 284 (486)
Q Consensus 219 e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~----~f~G~p--~~pv~~aL~~~v~~~~--Lp------ 284 (486)
+.+..+.-+.+|.-.+||.-|+.... .....+.+.+.. ...+.| .+|+..+|.++..+.. .+
T Consensus 47 ~~l~~~a~~~~~~f~~DD~~D~~~~~----~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~ 122 (284)
T cd00868 47 EARIALAKTIALLTVIDDTYDDYGTL----EELELFTEAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSE 122 (284)
T ss_pred HHHHHHHHHHHHHHHHHhccccCCCH----HHHHHHHHHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCch
Confidence 46778888888889999999875432 112223333332 111223 2467777777665321 11
Q ss_pred -----hHHHHHHHHHHHhhccC---CCCCCHHHHHHHHHhhhhHHHHHH-Hh-hhCCCCC--CccchhhHHHHHHHHHHH
Q 044623 285 -----IQPFRDMIEGMRMDLRK---SRYKNFDELYLYCYYVAGTVGLMS-VP-VMGIAPD--SQATTESVYNAALALGIA 352 (486)
Q Consensus 285 -----~~~l~~mIegm~~DL~~---~~~~T~~DL~~Yc~~VAGtVG~Ll-l~-ilg~~~~--~~a~~e~~~~~A~~LG~A 352 (486)
.+.+.++++++...... ..++|++|+..+-..++|.--.+. .. .+|..-. .....+.........+..
T Consensus 123 ~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~ 202 (284)
T cd00868 123 SLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASSTI 202 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHHH
Confidence 12234555555555432 357888888777766665533332 22 2332211 011223344566666777
Q ss_pred HHHHHHHHhHHHHHHcCCC-CCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 044623 353 NQLTNILRDVGEDAQRGRV-YLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAEN 417 (486)
Q Consensus 353 LQLTNILRDv~EDl~rGRi-YLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~ 417 (486)
..++|=|-........|.. =+..=++.++|++.++ ..+.+..++......+.+...
T Consensus 203 ~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~e---------A~~~~~~~~~~~~~~~~~~~~ 259 (284)
T cd00868 203 GRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEE---------ALEELRKMIEEAWKELNEEVL 259 (284)
T ss_pred HHHhccchHHHHHHccCCcccHHHHHHhccCCCHHH---------HHHHHHHHHHHHHHHHHHHHh
Confidence 7777777777777777765 5555566777776543 334455555555555555443
No 23
>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=89.58 E-value=2.1 Score=42.70 Aligned_cols=73 Identities=22% Similarity=0.214 Sum_probs=51.6
Q ss_pred HHHHhhccCC-CCCCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 044623 293 EGMRMDLRKS-RYKNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRDVGED 365 (486)
Q Consensus 293 egm~~DL~~~-~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~ED 365 (486)
.|...|+... .-.|++++..-++.-.|++..+.+.+..+ ...+....+.+.+.+.++|+|+|+.|=+.|+-.|
T Consensus 120 ~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 120 IGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp HHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred eehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCc
Confidence 3455666543 35699999999999999988887765432 1222223445678999999999999988887654
No 24
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=88.49 E-value=4.5 Score=39.55 Aligned_cols=167 Identities=17% Similarity=0.135 Sum_probs=91.2
Q ss_pred CHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHH----HcCCC--CCHHHHHHHHHHHhCC--CChHHH
Q 044623 217 TSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDL----FRGRP--FDMLDAALSDTVTKFP--VDIQPF 288 (486)
Q Consensus 217 P~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~----f~G~p--~~pv~~aL~~~v~~~~--Lp~~~l 288 (486)
.++.+..+.-+..|.-.+||+.|+.... ..++.+.+.++.. ....| ..|+..++.++..+.. ++....
T Consensus 59 ~~~~l~~~a~~~~w~f~~DD~~D~~~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~ 134 (270)
T PF03936_consen 59 SSDELLAAADWMAWLFIFDDFFDDGGSA----EELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQR 134 (270)
T ss_dssp GHHHHHHHHHHHHHHHHHHHHHHTTSHH----HHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHhhchheeeeeeccccccch----HHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhc
Confidence 3556778888899999999999975431 1244555555532 11112 1356677777665432 122222
Q ss_pred HH-----HHHHHHhhc----------cCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCC-ccchhhHH---HHHHHH
Q 044623 289 RD-----MIEGMRMDL----------RKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDS-QATTESVY---NAALAL 349 (486)
Q Consensus 289 ~~-----mIegm~~DL----------~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~-~a~~e~~~---~~A~~L 349 (486)
.+ +++.+...+ ....++|++|+..+=..+.|..-.+.+-.++..... ....+... ......
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~ 214 (270)
T PF03936_consen 135 RRDQIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLA 214 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHH
T ss_pred ccHHhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHH
Confidence 22 444444443 234688999998888888877655554433321100 00111011 145566
Q ss_pred HHHHHHHHHHHhHHHHHHcCCCC-CCHHhHHhcCCChhh
Q 044623 350 GIANQLTNILRDVGEDAQRGRVY-LPQDELAQAGLSDDD 387 (486)
Q Consensus 350 G~ALQLTNILRDv~EDl~rGRiY-LP~d~L~k~Gvs~ed 387 (486)
+....++|=|-....+..+|... +-.=++.++|++.++
T Consensus 215 ~~~~~l~NDl~S~~KE~~~g~~~N~v~~l~~~~~~s~e~ 253 (270)
T PF03936_consen 215 ADIIRLVNDLYSYKKEIARGDVHNLVVVLMNEHGLSLEE 253 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSCCSHHHHHHHHHTHHHHH
T ss_pred HHHHHHhcccchhhcchhhcccccHHHHhhhhcCCCHHH
Confidence 77777788888888888777652 222245555666543
No 25
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=87.28 E-value=40 Score=35.04 Aligned_cols=137 Identities=16% Similarity=0.224 Sum_probs=83.8
Q ss_pred HHHHHHHHHHhhccCCCC-CCHHHHHHHHHhhhhHHHHHHHhhhCC-CCCCccchhhHHHHHHHHHHHHHHHHHHHhH--
Q 044623 287 PFRDMIEGMRMDLRKSRY-KNFDELYLYCYYVAGTVGLMSVPVMGI-APDSQATTESVYNAALALGIANQLTNILRDV-- 362 (486)
Q Consensus 287 ~l~~mIegm~~DL~~~~~-~T~~DL~~Yc~~VAGtVG~Lll~ilg~-~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-- 362 (486)
-...|+.|...|+....- .|.+++..=.+.=.|.....+..+.++ ...+....+.+.+.+..+|.|+|+.+=+-|+
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 356899999999876532 678887776666666666655554432 2222233456778999999999999766664
Q ss_pred ---------HHHHHcCCCCCCHHhHHhcCCChhh-h---hc-cCCCHHHHHHH------HHHHHHHHHHHHHHHHhhhhc
Q 044623 363 ---------GEDAQRGRVYLPQDELAQAGLSDDD-I---FA-GEVTNKWRNFM------KNQIKRARMFFDMAENGVTEL 422 (486)
Q Consensus 363 ---------~EDl~rGRiYLP~d~L~k~Gvs~ed-L---~~-g~~~~~~r~li------~~la~rAr~~l~~A~~~l~~L 422 (486)
+.|+..|.+-+|.=..-+.+-..+. + .. +..-+++..++ ..-...|..+.++|...+..+
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 4467777787777654443332111 1 11 11111122222 122345888888888888888
Q ss_pred c
Q 044623 423 S 423 (486)
Q Consensus 423 p 423 (486)
|
T Consensus 302 ~ 302 (322)
T COG0142 302 P 302 (322)
T ss_pred C
Confidence 7
No 26
>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=75.04 E-value=1.4e+02 Score=33.19 Aligned_cols=189 Identities=17% Similarity=0.176 Sum_probs=99.6
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHH----cCCCC--CHHHHHHHHHHHh--------CCCC--
Q 044623 221 RRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLF----RGRPF--DMLDAALSDTVTK--------FPVD-- 284 (486)
Q Consensus 221 R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f----~G~p~--~pv~~aL~~~v~~--------~~Lp-- 284 (486)
|..+.=+-.|.-.+||+-|... +...|+.+-+.++..- .+-|. .++..+|.+++.+ .+..
T Consensus 283 Rl~~aK~~~l~~~iDD~fD~~g----t~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~ 358 (542)
T cd00684 283 RIALAKTIALITVIDDTYDVYG----TLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVV 358 (542)
T ss_pred HHHHHHHHHHHhhhHhhhccCC----CHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchH
Confidence 4445555566677888888433 2333555555555321 22232 2455666654431 1111
Q ss_pred ---hHHHHHHHHHHHhhcc---CCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHH-------HHHHHHHH
Q 044623 285 ---IQPFRDMIEGMRMDLR---KSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVY-------NAALALGI 351 (486)
Q Consensus 285 ---~~~l~~mIegm~~DL~---~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~-------~~A~~LG~ 351 (486)
++.+.+++.|+...+. ....+|++|+......++|.--.+..-.++..... ++++. ......+.
T Consensus 359 ~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l---~~e~~e~~~~~~~l~~~~~~ 435 (542)
T cd00684 359 PYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDIL---TEEAFEWLESRPKLVRASST 435 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCC---CHHHHHHHhccHHHHHHHHH
Confidence 2345566777766653 34578999998887777665554444444433211 11111 22223333
Q ss_pred HHHHHHHHHhHHHHHHcCCC-CCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhh-hhcccc
Q 044623 352 ANQLTNILRDVGEDAQRGRV-YLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGV-TELSEA 425 (486)
Q Consensus 352 ALQLTNILRDv~EDl~rGRi-YLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l-~~Lp~~ 425 (486)
...+.|=|-.......+|-+ =.-.=.|.++|++.++ ..+.+..+++.+.+.+.+..-.. ..+|..
T Consensus 436 i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~ee---------A~~~i~~~ie~~wk~ln~e~l~~~~~~p~~ 502 (542)
T cd00684 436 IGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEE---------AREEIKKMIEDAWKELNEEFLKPSSDVPRP 502 (542)
T ss_pred HHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHH---------HHHHHHHHHHHHHHHHHHHHhcCCCCCCHH
Confidence 34444444444444556663 3334467778777543 55677888888877777765322 334443
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=64.37 E-value=2e+02 Score=30.95 Aligned_cols=164 Identities=15% Similarity=0.143 Sum_probs=80.0
Q ss_pred HHHHhcCCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhCCCChHHH
Q 044623 210 YLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRP-FDMLDAALSDTVTKFPVDIQPF 288 (486)
Q Consensus 210 yla~llLP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p-~~pv~~aL~~~v~~~~Lp~~~l 288 (486)
..+-..+|.+.+.+|...+++.-.+||+.+++. ..+..|.. +.+.|.+ +||++..|.+......---.+|
T Consensus 75 ~~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~~------~~l~~F~~---~l~~Gq~Q~~p~L~~~~~~L~~~~~~fgpf 145 (376)
T PF06330_consen 75 VYCYPHLPKEVQVAIAIYTTYVIIIDDSSQEPS------DDLRTFHQ---RLILGQPQKHPLLDGFASLLREMWRHFGPF 145 (376)
T ss_dssp HHHSTTS-HHHHHHHHHHHHHHHHHTT--S-SH------HHHTTHHH---HHHHT---SSHHHHHHHHHHHHHHTTS-HH
T ss_pred EeecCCCCHHHHHHHHHHHHHHHhccccccccc------HHHHHHHH---HHhcCCCCCCHHHHHHHHHHHHHHHHcchH
Confidence 345567899999999999999999999988753 23444443 4556765 4899888877765432111122
Q ss_pred ---------HHHHHHHHhhcc-CCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCC--CCCccchhhHHHHHHHHHHHHHHH
Q 044623 289 ---------RDMIEGMRMDLR-KSRYKNFDELYLYCYYVAGTVGLMSVPVMGIA--PDSQATTESVYNAALALGIANQLT 356 (486)
Q Consensus 289 ---------~~mIegm~~DL~-~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~--~~~~a~~e~~~~~A~~LG~ALQLT 356 (486)
.++++|.--.-. ...++.-.++=.|.+.-.|.-.-...-+|-.+ |+. +...+....+......+
T Consensus 146 ~anmI~~STLdFi~g~~LE~~~f~~~p~A~~FP~fLR~ktGlsEaYA~FiFPk~~fpe~----~~~~~y~~AIpdl~~fi 221 (376)
T PF06330_consen 146 CANMIVKSTLDFINGCWLEQKNFHGSPGAPDFPDFLRRKTGLSEAYAFFIFPKALFPEV----EYFIQYTPAIPDLMRFI 221 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTT----TT-TTHHHHHHHHHH-HHHHHHHT--TTTS-TT----TTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCccccHHHHhccCcchhheeeecccccCChH----HHHHHHHHHHHHHHHHH
Confidence 345555432211 12233333444454444442222222234222 111 12344455666777777
Q ss_pred HHHHhHHHHH-----HcCCC-CCCHHhHHhcCCChhh
Q 044623 357 NILRDVGEDA-----QRGRV-YLPQDELAQAGLSDDD 387 (486)
Q Consensus 357 NILRDv~EDl-----~rGRi-YLP~d~L~k~Gvs~ed 387 (486)
|++-||=-=. ...+. |+ ...-.-+|++..+
T Consensus 222 ~~~NDILSFYKE~l~a~E~~NyI-~n~A~~~g~S~~e 257 (376)
T PF06330_consen 222 NYVNDILSFYKEELVAGETGNYI-HNRARVHGVSILE 257 (376)
T ss_dssp HHHHHHHHHHHHHTTSSSSSSHH-HHHHHHHT--HHH
T ss_pred HhhhhHHHHHHhhcccccccchh-hhhhhccCCCHHH
Confidence 7777774332 23333 44 4445556666543
No 28
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=59.54 E-value=1.4e+02 Score=32.07 Aligned_cols=117 Identities=16% Similarity=0.177 Sum_probs=67.1
Q ss_pred HHHHHHHHHhhhhHHHHH---HHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhH-----------HHHHHcCCCC
Q 044623 307 FDELYLYCYYVAGTVGLM---SVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDV-----------GEDAQRGRVY 372 (486)
Q Consensus 307 ~~DL~~Yc~~VAGtVG~L---ll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv-----------~EDl~rGRiY 372 (486)
++.|+.=.++-.|++..- +.-++|-. ++...+.++++++++|.++|+++=+-|+ +.|+..|-.-
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 LEYLEFKTLLKTASLLAKSCVAAAILGGG--SEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLKAGKLT 307 (384)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhhhcccc
Confidence 444544444444444433 33455533 2334567889999999999999766554 3366667665
Q ss_pred CCH----HhHHhcC----CChhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 044623 373 LPQ----DELAQAG----LSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEA 425 (486)
Q Consensus 373 LP~----d~L~k~G----vs~edL~~g~~~~~~r~li~~la~rAr~~l~~A~~~l~~Lp~~ 425 (486)
-|. +.-.+.. -...+-..+....++...+..-...|+.|-++|.+.+..+|+.
T Consensus 308 ~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~~v~~a~~la~~~~~~Al~~l~~~p~s 368 (384)
T KOG0776|consen 308 APVLFALEKSPELREKLEREFSEPLDGFDADKAVPGVALAKYLARRHNNKALEALQSLPRS 368 (384)
T ss_pred ccchhhhhhChHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 554 2111110 0000111222344555577777778899999999988877764
No 29
>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=35.71 E-value=1.3e+02 Score=32.05 Aligned_cols=161 Identities=13% Similarity=0.133 Sum_probs=89.2
Q ss_pred CCHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCCC-CCHHH----HHHHHHHHhCCCC-----h
Q 044623 216 MTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGRP-FDMLD----AALSDTVTKFPVD-----I 285 (486)
Q Consensus 216 LP~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~p-~~pv~----~aL~~~v~~~~Lp-----~ 285 (486)
.+++...++..-|...-.+||+.|++.. .|..|.+ ++..|.+ .||++ ..|.++.+.|+-= .
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 VSKECMADLSIHYTYTLVLDDSKDDPYP------TMVNYFD---DLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLI 151 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccch------HHHHHHH---HHhcCCCCCCcHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 6889999999999999999999998753 2443333 4567887 58854 5555666665411 0
Q ss_pred HHHHHHHHHHHhhc-cCCCCCCHHHHHHHHHhhhhHHHHHHHhhhCCCCCCccchhhHHHHHHHHHHHHHHHHHHHhHH-
Q 044623 286 QPFRDMIEGMRMDL-RKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVG- 363 (486)
Q Consensus 286 ~~l~~mIegm~~DL-~~~~~~T~~DL~~Yc~~VAGtVG~Lll~ilg~~~~~~a~~e~~~~~A~~LG~ALQLTNILRDv~- 363 (486)
.--.++++|.--.- ....++.-.++-.|.+...|.-.-...-+|-.+. - ...+...+...++...+...|.+-||-
T Consensus 152 kSTLdFv~g~~iEq~nf~~~p~A~~fP~ylR~ksGl~E~yA~FiFPk~~-F-pE~~~~~qi~~AIp~~~~~i~~~NDILS 229 (357)
T cd00686 152 RSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQ-F-NERSLFLEITSAIAQMENWMVWVNDLMS 229 (357)
T ss_pred HHHHHHHHHHHHhhhccCCCCCCcccchHHHhccCCcceeEEEecchhh-C-chHhhHHHhhHHHHHHHHHHHhhhhhhh
Confidence 11235555543331 2334666677888888888844333333442111 0 001112334446666666666666653
Q ss_pred ---HHH-HcCCCCCCHHhHHhcCCChhh
Q 044623 364 ---EDA-QRGRVYLPQDELAQAGLSDDD 387 (486)
Q Consensus 364 ---EDl-~rGRiYLP~d~L~k~Gvs~ed 387 (486)
|.. .+.|.=+=.....-+|+|..+
T Consensus 230 FYKEe~~~~E~~n~V~Nya~~~GiS~~e 257 (357)
T cd00686 230 FYKEFDDERDQISLVKNYVVSDEISLHE 257 (357)
T ss_pred eehhhcccccccchHHHhhhhcCCCHHH
Confidence 332 233343333344446776543
No 30
>PLN02279 ent-kaur-16-ene synthase
Probab=33.79 E-value=8.7e+02 Score=28.78 Aligned_cols=193 Identities=15% Similarity=0.156 Sum_probs=84.3
Q ss_pred hHHHHhcCCHHH---HHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHc----C-CCCC--HHHHHHHHHH
Q 044623 209 FYLGTLLMTSER---RRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFR----G-RPFD--MLDAALSDTV 278 (486)
Q Consensus 209 Fyla~llLP~e~---R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~----G-~p~~--pv~~aL~~~v 278 (486)
|+.+..+..|+. |..+.=.-++.-.+||+-|. .-+.+.|.-+-+.+++.-. + -|.+ .+..+|-+++
T Consensus 501 f~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~----yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~ 576 (784)
T PLN02279 501 FSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDV----GGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTI 576 (784)
T ss_pred HHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhc----cCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHH
Confidence 344444444443 44444444555666666663 2234445555555555321 1 1322 2445555554
Q ss_pred HhC--------CCC-----hHHHHHHHHHHHhhc---cCCCCCCHHHHHHHHHhhhhHHHHHHH---hhhCCCCC-Cccc
Q 044623 279 TKF--------PVD-----IQPFRDMIEGMRMDL---RKSRYKNFDELYLYCYYVAGTVGLMSV---PVMGIAPD-SQAT 338 (486)
Q Consensus 279 ~~~--------~Lp-----~~~l~~mIegm~~DL---~~~~~~T~~DL~~Yc~~VAGtVG~Lll---~ilg~~~~-~~a~ 338 (486)
.+. +.. ++.+.+++.+|-..+ .....+|++|+..=+.-+.| ++.+.+ ..+|..-. ....
T Consensus 577 nei~~~~~~~qGr~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~-l~~i~l~~~~~~G~~l~eev~e 655 (784)
T PLN02279 577 SEIGDKAFTWQGRNVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFA-LGPIVLPALYLVGPKLSEEVVD 655 (784)
T ss_pred HHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhh-hHHHHHHHHHHhCCCCCHHHHh
Confidence 432 222 123445666654433 23345798888766554333 333222 33442110 0000
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhHHHHHHcCCCCCCHHhHHhc--CCChhhhhccCCCHHHHHHHHHHHHHHHHHHHHH
Q 044623 339 TESVYNAALALGIANQLTNILRDVGEDAQRGRVYLPQDELAQA--GLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMA 415 (486)
Q Consensus 339 ~e~~~~~A~~LG~ALQLTNILRDv~EDl~rGRiYLP~d~L~k~--Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~A 415 (486)
.....+.....+....+.|=|........+|-+-.=.=.|.++ |++.++ ..+-+..+++.+.+.+.+-
T Consensus 656 ~~~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~nsV~cYMke~~~gvSeEE---------Ai~~i~~~Ie~~wKeLn~~ 725 (784)
T PLN02279 656 SPELHKLYKLMSTCGRLLNDIRGFKRESKEGKLNAVSLHMIHGNGNSTEEE---------AIESMKGLIESQRRELLRL 725 (784)
T ss_pred CcchhHHHHHHHHHHHHHHhccccHhHHhCCCcceehhhhccCCCCCCHHH---------HHHHHHHHHHHHHHHHHHH
Confidence 0011123333333333344444444444455431111123333 555443 4455677777776666654
No 31
>KOG3426 consensus NADH:ubiquinone oxidoreductase, NDUFA6/B14 subunit [Energy production and conversion]
Probab=26.66 E-value=1.5e+02 Score=26.71 Aligned_cols=50 Identities=26% Similarity=0.428 Sum_probs=35.7
Q ss_pred CHHHHHHHHHHHHHHHHhhhhcCCCCCCCCcHHHHHHHHHHHHHHHcCC--CCCH
Q 044623 217 TSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRWESRLEDLFRGR--PFDM 269 (486)
Q Consensus 217 P~e~R~ai~ALYAF~R~lDdIvDd~~~~~i~~~~L~~Wrd~Le~~f~G~--p~~p 269 (486)
.+.+|+.+-+..+|||.+-.|+|+-+.-.++ +...++.+..-|..+ ..||
T Consensus 20 ~EARrrvl~~yra~~R~iP~~~~dy~L~dm~---~~~~R~~ir~qf~kn~hvTD~ 71 (124)
T KOG3426|consen 20 TEARRRVLDLYRAWYRSIPTIVDDYNLQDMT---VSQLRDKIREQFRKNAHVTDP 71 (124)
T ss_pred HHHHHHHHHHHHHHHHhcChHHHhcCCcccC---HHHHHHHHHHHHHhcCCcCCc
Confidence 4555666667779999999999998765444 566788888877443 3454
No 32
>PRK02899 adaptor protein; Provisional
Probab=26.46 E-value=67 Score=31.23 Aligned_cols=43 Identities=19% Similarity=0.493 Sum_probs=37.4
Q ss_pred CCCCCHHhHHhcCCChhhhhccCCCHHHHHHHHHHHHHHHHHHHH
Q 044623 370 RVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDM 414 (486)
Q Consensus 370 RiYLP~d~L~k~Gvs~edL~~g~~~~~~r~li~~la~rAr~~l~~ 414 (486)
||+|-.+.|...|++.+||+. +.+++..++.+|...|..-+.=
T Consensus 12 rv~it~~DL~eRgi~~~dL~~--n~~k~e~lF~~mm~Ea~~e~~F 54 (197)
T PRK02899 12 KIFLTFDDLSERGLTKEDLWR--DAPKVHQLFRDMMQEANKELGF 54 (197)
T ss_pred EEEEeHHHHHHcCCCHHHHhc--CcHHHHHHHHHHHHHhhhccCc
Confidence 789999999999999999996 5589999999999998765543
No 33
>PHA01083 hypothetical protein
Probab=24.74 E-value=2e+02 Score=27.07 Aligned_cols=60 Identities=18% Similarity=0.287 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHcC-CCCCCHHhH----HhcCCChhhhhc-----cCCCHHHHHHHHHHHHHH
Q 044623 342 VYNAALALGIANQLTNILRDVGEDAQRG-RVYLPQDEL----AQAGLSDDDIFA-----GEVTNKWRNFMKNQIKRA 408 (486)
Q Consensus 342 ~~~~A~~LG~ALQLTNILRDv~EDl~rG-RiYLP~d~L----~k~Gvs~edL~~-----g~~~~~~r~li~~la~rA 408 (486)
..+.|..||+--|. --+++.| |.|+|.+.. +..|++++...- ...+++.+.++..++.+.
T Consensus 19 dkqLA~~LGVs~q~-------IS~~R~G~r~~i~de~A~~LAe~aGiDp~eall~i~aDraetp~~kalWesIaKKl 88 (149)
T PHA01083 19 YKQIAHDLGVSPQK-------ISKMRTGVRTYISDEEAIFLAESAGIDPEIALLGCHADRNENPRAKAIWESIAKKQ 88 (149)
T ss_pred HHHHHHHhCCCHHH-------HHHHHcCCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 35677788877776 4578899 999999953 347888876543 345667777776665553
No 34
>PRK05255 hypothetical protein; Provisional
Probab=24.63 E-value=2.3e+02 Score=27.17 Aligned_cols=61 Identities=31% Similarity=0.605 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhCC-CChHHHHHHHHHHHhhccC-CCCCCHHHHHHHHHhh
Q 044623 249 TALDRWESRLEDLFRGRPFDMLDAALSDTVTKFP-VDIQPFRDMIEGMRMDLRK-SRYKNFDELYLYCYYV 317 (486)
Q Consensus 249 ~~L~~Wrd~Le~~f~G~p~~pv~~aL~~~v~~~~-Lp~~~l~~mIegm~~DL~~-~~~~T~~DL~~Yc~~V 317 (486)
-.|..|++.|-. .| +.++.+++..|+ .+.+.++.+|..-..+... .+..+.-+|-.|+...
T Consensus 107 h~lE~wRdrLi~--~~------d~al~e~~~~~P~~DrQ~LRqLiR~A~kE~~~~kppk~~R~LF~~Lr~~ 169 (171)
T PRK05255 107 HKLERWRDRLLA--EG------DDALTEFLEEYPDADRQQLRQLIRNAKKEKAQNKPPKSFRELFQYLREL 169 (171)
T ss_pred HHHHHHHHHHHh--CC------HHHHHHHHHHCchhhHHHHHHHHHHHHHHHHcCCCchhHHHHHHHHHHH
Confidence 367888887642 12 246778888886 8899999999988887544 4668899999998764
No 35
>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=23.24 E-value=35 Score=24.02 Aligned_cols=21 Identities=24% Similarity=0.675 Sum_probs=18.0
Q ss_pred HcCCCCCCHHhHHhcCCChhh
Q 044623 367 QRGRVYLPQDELAQAGLSDDD 387 (486)
Q Consensus 367 ~rGRiYLP~d~L~k~Gvs~ed 387 (486)
..||+.||.++.++.|+...|
T Consensus 5 ~kgri~iP~~~r~~l~~~~gd 25 (43)
T TIGR01439 5 KKGQIVIPKEIREKLGLKEGD 25 (43)
T ss_pred cCCeEEecHHHHHHcCcCCCC
Confidence 479999999999999988643
No 36
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=20.22 E-value=55 Score=28.58 Aligned_cols=17 Identities=53% Similarity=0.919 Sum_probs=14.4
Q ss_pred HhHHHHH-HcCCCCCCHH
Q 044623 360 RDVGEDA-QRGRVYLPQD 376 (486)
Q Consensus 360 RDv~EDl-~rGRiYLP~d 376 (486)
-|+.||+ ++||+|-|++
T Consensus 90 edvve~L~~~g~~Y~pR~ 107 (112)
T COG5204 90 EDVVEDLEQHGRIYYPRT 107 (112)
T ss_pred HHHHHHHHHhCccccCCC
Confidence 4788888 6999999986
Done!