Query 009479
Match_columns 533
No_of_seqs 197 out of 895
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 13:37:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00684 Terpene_cyclase_plant_ 100.0 7E-148 2E-152 1215.4 52.7 512 7-530 21-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 1E-136 3E-141 1148.0 46.4 481 38-533 269-778 (784)
3 PLN02592 ent-copalyl diphospha 100.0 4E-108 1E-112 914.1 43.0 448 38-532 309-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 2E-53 4.4E-58 403.3 17.9 159 11-178 21-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 6.5E-49 1.4E-53 394.3 21.0 269 209-478 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 8.6E-46 1.9E-50 374.4 29.9 282 223-506 1-284 (284)
7 cd00687 Terpene_cyclase_nonpla 100.0 9.1E-35 2E-39 297.9 22.0 250 226-482 13-266 (303)
8 PLN02150 terpene synthase/cycl 100.0 1.7E-31 3.6E-36 228.1 10.2 95 439-533 1-96 (96)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.8 7.3E-21 1.6E-25 184.1 13.1 229 257-500 2-243 (243)
10 PF06330 TRI5: Trichodiene syn 97.9 0.00012 2.6E-09 76.6 12.5 196 262-480 76-276 (376)
11 cd00686 Terpene_cyclase_cis_tr 97.7 0.00074 1.6E-08 69.7 14.0 201 257-480 69-276 (357)
12 PF00494 SQS_PSY: Squalene/phy 94.0 2.8 6.1E-05 42.1 16.5 198 269-494 18-233 (267)
13 cd00867 Trans_IPPS Trans-Isopr 93.1 1.6 3.5E-05 42.8 12.7 118 345-479 86-214 (236)
14 TIGR03465 HpnD squalene syntha 89.6 25 0.00054 35.5 18.4 196 270-498 19-226 (266)
15 cd00683 Trans_IPPS_HH Trans-Is 85.9 41 0.00088 33.8 18.1 197 270-500 25-237 (265)
16 TIGR03464 HpnC squalene syntha 85.5 43 0.00094 33.8 18.1 108 270-398 19-130 (266)
17 TIGR02749 prenyl_cyano solanes 83.5 34 0.00073 35.8 14.8 89 344-437 133-221 (322)
18 PLN02857 octaprenyl-diphosphat 79.6 40 0.00086 36.7 13.9 89 344-437 227-315 (416)
19 PLN02890 geranyl diphosphate s 79.1 42 0.0009 36.6 13.9 90 344-438 227-316 (422)
20 cd00685 Trans_IPPS_HT Trans-Is 77.4 27 0.00059 35.0 11.3 120 345-479 109-239 (259)
21 TIGR02748 GerC3_HepT heptapren 76.6 65 0.0014 33.5 14.2 87 344-437 129-217 (319)
22 COG0142 IspA Geranylgeranyl py 74.5 66 0.0014 33.6 13.6 109 344-458 134-252 (322)
23 PLN02632 phytoene synthase 72.8 1.3E+02 0.0028 31.6 18.4 192 271-492 75-281 (334)
24 PRK10888 octaprenyl diphosphat 62.1 2.1E+02 0.0045 29.9 15.8 88 344-437 130-218 (323)
25 CHL00151 preA prenyl transfera 62.0 2E+02 0.0044 29.9 14.1 87 345-437 135-222 (323)
26 KOG1719 Dual specificity phosp 50.9 13 0.00028 34.8 2.6 30 439-468 118-148 (183)
27 PF03861 ANTAR: ANTAR domain; 50.7 16 0.00035 27.8 2.8 28 444-471 15-42 (56)
28 COG3707 AmiR Response regulato 48.6 15 0.00033 35.5 2.8 45 427-471 129-174 (194)
29 PF12368 DUF3650: Protein of u 37.8 26 0.00057 23.2 1.8 18 450-467 9-26 (28)
30 PF00348 polyprenyl_synt: Poly 35.8 4E+02 0.0087 26.5 11.0 65 369-438 129-194 (260)
31 PRK10581 geranyltranstransfera 33.8 2.8E+02 0.0061 28.6 9.7 113 354-479 152-276 (299)
32 smart00400 ZnF_CHCC zinc finge 30.9 57 0.0012 24.6 3.0 25 442-466 30-54 (55)
33 COG4738 Predicted transcriptio 29.4 1.6E+02 0.0035 26.1 5.8 84 43-136 14-102 (124)
34 COG5123 TOA2 Transcription ini 28.9 20 0.00044 30.8 0.2 41 128-177 1-41 (113)
35 PF13798 PCYCGC: Protein of un 28.9 68 0.0015 30.1 3.7 34 450-490 125-158 (158)
36 PF11848 DUF3368: Domain of un 28.6 42 0.00092 24.8 1.9 21 94-114 24-44 (48)
37 smart00463 SMR Small MutS-rela 28.3 65 0.0014 26.0 3.2 23 455-477 7-29 (80)
38 PF01713 Smr: Smr domain; Int 26.9 68 0.0015 26.0 3.1 25 455-479 4-28 (83)
39 cd07604 BAR_ASAPs The Bin/Amph 26.5 1.5E+02 0.0033 29.1 5.9 86 12-116 12-100 (215)
40 PF14077 WD40_alt: Alternative 25.9 54 0.0012 24.2 1.9 30 1-30 1-32 (48)
41 COG1093 SUI2 Translation initi 25.1 1E+02 0.0022 31.3 4.4 66 433-501 95-170 (269)
42 COG1308 EGD2 Transcription fac 21.8 90 0.002 28.0 2.9 21 448-468 88-108 (122)
43 KOG2077 JNK/SAPK-associated pr 21.7 1.5E+02 0.0032 33.4 5.1 100 396-502 296-405 (832)
44 KOG1720 Protein tyrosine phosp 21.5 84 0.0018 31.0 2.9 27 442-468 159-186 (225)
No 1
>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=100.00 E-value=7.4e-148 Score=1215.38 Aligned_cols=512 Identities=53% Similarity=0.906 Sum_probs=493.7
Q ss_pred CCCChh-HHHHHHHHHHHHHHHHHhh---ccCCccChhhHHHHHHHHHHhCcccCcHHHHHHHHHHHHhhc-CCCCCCCC
Q 009479 7 RYYTNT-EVEKRFETLKAEIEKLLVS---NNTAWKTLEEIVAIVNQLQRLGVAYHFENEIKEALQTIYDSH-VNGNCDVN 81 (533)
Q Consensus 7 ~~~~~~-~~~~~~~~lk~~v~~~l~~---~~~~~~d~~~~l~liD~lqrLGi~~hFe~EI~~~L~~~~~~~-~~~~~~~~ 81 (533)
.++++. .+.+++++||++||+||.. .. |++++|++||+||||||+|||++||+++|+++|++| +.+.. .
T Consensus 21 ~~~~~~~~~~~~~~~lk~~v~~~~~~~~~~~----~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~~~~--~ 94 (542)
T cd00684 21 SDYSEEDELEEEIEELKEEVRKMLEDSEYPV----DLFERLWLIDRLQRLGISYHFEDEIKEILDYIYRYWTERGES--N 94 (542)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHHHhcccCC----CHHHHHHHHHHHHHcCchhhhHHHHHHHHHHHHHhhcccccc--c
Confidence 345444 7899999999999999985 45 999999999999999999999999999999999998 43311 1
Q ss_pred CCCCCchHHHHHHHHHhhhcCcceehhhhhcccccccccccccccchHHHHhHhhhccCCCCCchHHHHHHHHHHHHHHH
Q 009479 82 YDHNNDLYIVALRFRLLRQHGYKVSADIFKKFRDEKGEFKAMLTNDAKGLLCLYEASYLRVQGENILEEACEFSRKHLKS 161 (533)
Q Consensus 82 ~~~~~dl~~~al~FrlLR~~Gy~vS~dvf~~F~d~~g~F~~~l~~d~~glL~Ly~As~l~~~gE~iL~ea~~ft~~~L~~ 161 (533)
..||++|||+|||||||||+||||||++|+|++|+|++++.+||+||||||||||+++|||+|||||++||++||++
T Consensus 95 ---~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLdeA~~ft~~~L~~ 171 (542)
T cd00684 95 ---EDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLYEASHLSFPGEDILDEALSFTTKHLEE 171 (542)
T ss_pred ---CCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhc---CCCchHHHHHHHccCCccCCcchHHHhhhHHhhhcCCccccHHHHHHHHhhhHHHHHhhHHHHHHHHHHHHHh
Q 009479 162 LLSH---LSTPLVDQVEHSLEIPLHRGMPRLEARQYISIYEADNSTRNELILELAKLDFNLLQALHRIELSEISRWWKDI 238 (533)
Q Consensus 162 ~~~~---~~~~l~~~V~~aL~~P~~~~~~r~e~r~yi~~Y~~~~~~~n~~lLelAkldFn~~Q~~hq~El~~lsrWw~~~ 238 (533)
++++ ++++|+++|++||++|||+++||+|||+||++|+++ +++|++||||||||||+||++||+||+++++||+++
T Consensus 172 ~~~~~~~~~~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~-~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~ 250 (542)
T cd00684 172 KLESNWIIDPDLSGEIEYALEIPLHASLPRLEARWYIEFYEQE-DDHNETLLELAKLDFNILQALHQEELKILSRWWKDL 250 (542)
T ss_pred HhhccCCCCchHHHHHHHHccCchhcCCchHHHHHHHHHhCCC-ccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhc
Confidence 9986 789999999999999999999999999999999999 999999999999999999999999999999999999
Q ss_pred CCCCCChhhhhhhhhhhhhhhccccCCCcchhhHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhhhhccCChh
Q 009479 239 DFATKLPFARDRLVECYFWILGVYFEPKYSTTRKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVVAANELPKY 318 (533)
Q Consensus 239 ~l~~~l~faRdR~~e~yf~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~~~~~lPe~ 318 (533)
||.+++||+|+|+++||||++|++|+|++|.+|+++||+++|+|++||+||.|||.+|++.||+|++|||+++++.+|+|
T Consensus 251 gL~~~l~~aRdr~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~ 330 (542)
T cd00684 251 DLASKLPFARDRLVECYFWAAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEY 330 (542)
T ss_pred CCcccCCcccchhHHHHHHHHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHH
Confidence 99888899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHH
Q 009479 319 MQVCYFALLDVVKEMEDKLVN-KEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALV 397 (533)
Q Consensus 319 mk~~~~al~~~~~e~~~~~~~-~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~ 397 (533)
||++|.++++++++++.++.+ +++ +++.+++++|+++++||++||+|+++|++||++|||++|++|+|++++++++++
T Consensus 331 mk~~~~al~~~~~ei~~~~~~~~~~-~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~ 409 (542)
T cd00684 331 MKIVFKALLNTVNEIEEELLKEGGS-YVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFL 409 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCc-chHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHH
Confidence 999999999999999999988 777 899999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Q 009479 398 GLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVEQERGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNI 477 (533)
Q Consensus 398 ~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~l 477 (533)
+||.. +|+++++|+..+|+|+++++.++||+|||+||++|+++|+++|+|.|||+|+|+|+|+|+++++++|+++||++
T Consensus 410 ~~g~~-l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~l 488 (542)
T cd00684 410 GMGDI-LTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKEL 488 (542)
T ss_pred hcCCC-CCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999 99999999877899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCC-CCCChhHHHHHHHHhhhhchhcccCCCCCCCChhHHHHHHhhhccc
Q 009479 478 NEEIQDP-NHPPLQWLLPSLNLARMMVVLYQNGDGYTNSTGKTKDRIASLLVDP 530 (533)
Q Consensus 478 n~e~l~~-~~~p~~~~~~~lN~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll~~p 530 (533)
|++++++ +++|++|+++++|+||+++++|+++||||.|++.||++|++||++|
T Consensus 489 n~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 489 NEEFLKPSSDVPRPIKQRFLNLARVIDVFYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 9999998 7899999999999999999999999999999878999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=1.4e-136 Score=1147.95 Aligned_cols=481 Identities=28% Similarity=0.447 Sum_probs=457.8
Q ss_pred ChhhHHHHHHHHHHhCcccCcHHHHHHHHHHHHhhc-CCCCCCCCCCCCCchHHHHHHHHHhhhcCcceehhhhhccccc
Q 009479 38 TLEEIVAIVNQLQRLGVAYHFENEIKEALQTIYDSH-VNGNCDVNYDHNNDLYIVALRFRLLRQHGYKVSADIFKKFRDE 116 (533)
Q Consensus 38 d~~~~l~liD~lqrLGi~~hFe~EI~~~L~~~~~~~-~~~~~~~~~~~~~dl~~~al~FrlLR~~Gy~vS~dvf~~F~d~ 116 (533)
++++++|+||+||||||+|||++||+++|+++|++| +.+.+ . ..|+++|||+|||||||||+||||||++|+|+
T Consensus 269 ~~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~~~~~~--~---~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~ 343 (784)
T PLN02279 269 DQYARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWLQGEEE--I---FLDLATCALAFRILRLNGYDVSSDPLKQFAED 343 (784)
T ss_pred cHHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhcccccC--C---CCCHHHHHHHHHHHHHcCCCCChhHHhhcCCC
Confidence 789999999999999999999999999999999998 42211 1 57999999999999999999999999999965
Q ss_pred cccccccc---ccchHHHHhHhhhccCCCCCchHHHHHHHHHHHHHHHHhhc-------CCCchHHHHHHHccCCccCCc
Q 009479 117 KGEFKAML---TNDAKGLLCLYEASYLRVQGENILEEACEFSRKHLKSLLSH-------LSTPLVDQVEHSLEIPLHRGM 186 (533)
Q Consensus 117 ~g~F~~~l---~~d~~glL~Ly~As~l~~~gE~iL~ea~~ft~~~L~~~~~~-------~~~~l~~~V~~aL~~P~~~~~ 186 (533)
+ |++++ .+||+||||||||||+++|||+|||||++||++||++.++. ++++|++||+|||++|||+++
T Consensus 344 -~-F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~~~L~~eV~~AL~~P~~~~l 421 (784)
T PLN02279 344 -H-FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLRKYIKKEVEDALNFPYYANL 421 (784)
T ss_pred -c-ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccCccHHHHHHHHhcCchhcCc
Confidence 4 99988 69999999999999999999999999999999999998874 578899999999999999999
Q ss_pred chHHHhhhHHhhhcCCcc------------ccHHHHHHHHhhhHHHHHhhHHHHHHHHHHHHHhCCCCCChhhhhhhhhh
Q 009479 187 PRLEARQYISIYEADNST------------RNELILELAKLDFNLLQALHRIELSEISRWWKDIDFATKLPFARDRLVEC 254 (533)
Q Consensus 187 ~r~e~r~yi~~Y~~~~~~------------~n~~lLelAkldFn~~Q~~hq~El~~lsrWw~~~~l~~~l~faRdR~~e~ 254 (533)
||+|||+||++|+++ +. +|++||||||+|||+||++||+||++++|||+++|| +++||||||+++|
T Consensus 422 ~RlEaR~yI~~Y~~~-~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L-~~L~faRdr~ve~ 499 (784)
T PLN02279 422 ERLANRRSIENYAVD-DTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRL-DKLKFARQKLAYC 499 (784)
T ss_pred cHHHHHHHHHHhccc-cchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCC-ccCCchhhHHHHH
Confidence 999999999999988 75 899999999999999999999999999999999999 6999999999999
Q ss_pred hhhhhccccCCCcchhhHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhh-hhccCChhHHHHHHHHHHHHHHH
Q 009479 255 YFWILGVYFEPKYSTTRKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVV-AANELPKYMQVCYFALLDVVKEM 333 (533)
Q Consensus 255 yf~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~-~~~~lPe~mk~~~~al~~~~~e~ 333 (533)
|||++|++|||++|.+|++|||.+++++++||+||+|||.||++.||+||+|||.+ .++.+|+|||+||.+|+++++++
T Consensus 500 Yf~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei 579 (784)
T PLN02279 500 YFSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEI 579 (784)
T ss_pred HHHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999998 56899999999999999999999
Q ss_pred HHHHhc-CCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhh
Q 009479 334 EDKLVN-KEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWA 412 (533)
Q Consensus 334 ~~~~~~-~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~ 412 (533)
+.++.+ +|. ++.++++++|++++++|++||+|+.+||+||++|||+|+.+|+|+++++..+++++|.. +|+++++|
T Consensus 580 ~~~~~~~qGr-~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~-l~eev~e~- 656 (784)
T PLN02279 580 GDKAFTWQGR-NVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPK-LSEEVVDS- 656 (784)
T ss_pred HHHHHHHcCc-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCC-CCHHHHhC-
Confidence 998765 555 79999999999999999999999999999999999999999999999888889999998 99999999
Q ss_pred cchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchHHHHHHhc--CCCHHHHHHHHHHHHHHHHHHHHHhhcCC--CCCC
Q 009479 413 ISVPKIIRSSSLIARLDDDVHTYKVEQERGDAPSSVECYVQQY--GVSEEEACNKIKGMVEIEWMNINEEIQDP--NHPP 488 (533)
Q Consensus 413 ~~~p~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~--gvs~eeA~~~i~~~i~~~wk~ln~e~l~~--~~~p 488 (533)
+++|+|+++++.++||+|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+||++++++ +++|
T Consensus 657 ~~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~~~~vp 735 (784)
T PLN02279 657 PELHKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEKGSNVP 735 (784)
T ss_pred cchhHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCC
Confidence 69999999999999999999999999999998 9999999996 89999999999999999999999999964 5799
Q ss_pred hhHHHHHHHHhhhhchhcccCCCCCCCChhHHHHHHhhhcccCCC
Q 009479 489 LQWLLPSLNLARMMVVLYQNGDGYTNSTGKTKDRIASLLVDPLPM 533 (533)
Q Consensus 489 ~~~~~~~lN~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll~~pi~~ 533 (533)
++|+++++|+||++++||+++||||.+ .||++|+++|++|||+
T Consensus 736 ~~~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 736 RECKDLFWKMSKVLHLFYRKDDGFTSN--DMMSLVKSVIYEPVSL 778 (784)
T ss_pred HHHHHHHHHHHHhhhhheeCCCCCChH--HHHHHHHHHhccCCcC
Confidence 999999999999999999999999975 5999999999999985
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=4.5e-108 Score=914.07 Aligned_cols=448 Identities=27% Similarity=0.390 Sum_probs=405.3
Q ss_pred ChhhHHHHHHHHHHhCcccCcHHHHHHHHHHHHhhc-CCCCCCCCCCCCCchHHHHHHHHHhhhcCcceehhhhhccccc
Q 009479 38 TLEEIVAIVNQLQRLGVAYHFENEIKEALQTIYDSH-VNGNCDVNYDHNNDLYIVALRFRLLRQHGYKVSADIFKKFRDE 116 (533)
Q Consensus 38 d~~~~l~liD~lqrLGi~~hFe~EI~~~L~~~~~~~-~~~~~~~~~~~~~dl~~~al~FrlLR~~Gy~vS~dvf~~F~d~ 116 (533)
|++++||+||+||||||+|||++||+++|+++|++| +.+++++......|+++|||+|||||||||+||||||++|++
T Consensus 309 d~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F~~- 387 (800)
T PLN02592 309 DLFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHFEK- 387 (800)
T ss_pred cHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhhcC-
Confidence 899999999999999999999999999999999999 545433211114799999999999999999999999999986
Q ss_pred cccccccc---ccchHHHHhHhhhccCCCCCchHHHHHHHHHHHHHHHHhh--c------CCCchHHHHHHHccCCccCC
Q 009479 117 KGEFKAML---TNDAKGLLCLYEASYLRVQGENILEEACEFSRKHLKSLLS--H------LSTPLVDQVEHSLEIPLHRG 185 (533)
Q Consensus 117 ~g~F~~~l---~~d~~glL~Ly~As~l~~~gE~iL~ea~~ft~~~L~~~~~--~------~~~~l~~~V~~aL~~P~~~~ 185 (533)
+|+|++.+ .+|++|||+||||||+++|||.|||+|++||++||++.++ + ++++|+++|+|||++|||++
T Consensus 388 ~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~~~L~~eV~~AL~~P~~~~ 467 (800)
T PLN02592 388 GGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWYAS 467 (800)
T ss_pred CCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhhcC
Confidence 89998665 8999999999999999999999999999999999999864 2 35789999999999999999
Q ss_pred cchHHHhhhHHhhhcCCcc-------------ccHHHHHHHHhhhHHHHHhhHHHHHHHHHHHHHhCCCCCChhhhhhhh
Q 009479 186 MPRLEARQYISIYEADNST-------------RNELILELAKLDFNLLQALHRIELSEISRWWKDIDFATKLPFARDRLV 252 (533)
Q Consensus 186 ~~r~e~r~yi~~Y~~~~~~-------------~n~~lLelAkldFn~~Q~~hq~El~~lsrWw~~~~l~~~l~faRdR~~ 252 (533)
+||+|||+||++|+++ ++ +|++||||||+|||+||++||+||++++|||+++|| .++||||||++
T Consensus 468 l~RlEaR~yI~~Y~~~-~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsrWwke~~L-~~L~faRdr~v 545 (800)
T PLN02592 468 LPRVETRFYIEQYGGE-DDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQKWYEECNL-GEFGVSRSELL 545 (800)
T ss_pred cchHHHHHHHHHhcCC-cccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHhcCC-CcCCcchhHHH
Confidence 9999999999999987 65 499999999999999999999999999999999999 59999999999
Q ss_pred hhhhhhhccccCCCcchhhHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHH--------hhhhhhhccCCh------h
Q 009479 253 ECYFWILGVYFEPKYSTTRKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIE--------RWEVVAANELPK------Y 318 (533)
Q Consensus 253 e~yf~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~--------rWd~~~~~~lPe------~ 318 (533)
+||||++|++|||++|.+|+++||.+++++++||+||+|||.||++.||++|+ |||.+.++++|+ |
T Consensus 546 e~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~~~ 625 (800)
T PLN02592 546 LAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSVKT 625 (800)
T ss_pred HHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccchhH
Confidence 99999999999999999999999999999999999999999999999999996 899999999988 9
Q ss_pred HHHHHHHHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHH
Q 009479 319 MQVCYFALLDVVKEMEDKLVN-KEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALV 397 (533)
Q Consensus 319 mk~~~~al~~~~~e~~~~~~~-~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~ 397 (533)
||+||.||++++|+++.++.+ .|. ++.++++++|.++++ +|..+|+ .|+|+..+++++++
T Consensus 626 mki~f~aLy~tineia~~a~~~qGr-~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~~ 686 (800)
T PLN02592 626 GEELVGLLLGTLNQLSLDALEAHGR-DISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTIN 686 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHHH
Confidence 999999999999999999888 555 699999999999998 6666666 44566666677776
Q ss_pred -hcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchHHHHHHhcC-CCHHHHHHHHHHHHHHHHH
Q 009479 398 -GLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVEQERGDAPSSVECYVQQYG-VSEEEACNKIKGMVEIEWM 475 (533)
Q Consensus 398 -~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~g-vs~eeA~~~i~~~i~~~wk 475 (533)
.+|.. +|+++++ +|++.++++.+.||+||++|+++|+.. .| +++ +|.+++.+.|+.+++
T Consensus 687 l~~g~~-lsee~l~----~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~ 747 (800)
T PLN02592 687 LTAGRS-LSEELLA----HPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQ 747 (800)
T ss_pred HhcCCC-CCHHHcc----chhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHH
Confidence 56998 9999764 699999999999999999999998841 23 445 899999999999999
Q ss_pred HHHHhhcC-C-CCCChhHHHHHHHHhhhhchhcccCCCCCCCChhHHHHHHhhhcccCC
Q 009479 476 NINEEIQD-P-NHPPLQWLLPSLNLARMMVVLYQNGDGYTNSTGKTKDRIASLLVDPLP 532 (533)
Q Consensus 476 ~ln~e~l~-~-~~~p~~~~~~~lN~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll~~pi~ 532 (533)
++.+.+++ . +.+|++|++.|||++| +||.. ||+.| ..|+.+|+.++++||+
T Consensus 748 eL~~lvl~~~~~~vp~~cK~~f~~~~k---~fy~~--~~~~~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 748 ELVQLVLQNSSDDIDPVIKQTFLMVAK---SFYYA--AYCDP-GTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHHHhhcCCCCCCHHHHHHHHHHHH---HHHHh--hcCCH-HHHHHHHHHHhCCCCC
Confidence 99999997 3 5699999999999999 45555 99999 5699999999999985
No 4
>PF01397 Terpene_synth: Terpene synthase, N-terminal domain; InterPro: IPR001906 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: 0016829 lyase activity, 0008152 metabolic process; PDB: 2ONH_A 2ONG_B 3P5R_A 3P5P_A 3N0F_A 3N0G_B 3PYB_A 3PYA_A 3G4F_A 3G4D_B ....
Probab=100.00 E-value=2e-53 Score=403.28 Aligned_cols=159 Identities=54% Similarity=0.867 Sum_probs=139.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccCCccChhhHHHHHHHHHHhCcccCcHHHHHHHHHHHHhhc-CCCCCCCCCCCCCchH
Q 009479 11 NTEVEKRFETLKAEIEKLLVSNNTAWKTLEEIVAIVNQLQRLGVAYHFENEIKEALQTIYDSH-VNGNCDVNYDHNNDLY 89 (533)
Q Consensus 11 ~~~~~~~~~~lk~~v~~~l~~~~~~~~d~~~~l~liD~lqrLGi~~hFe~EI~~~L~~~~~~~-~~~~~~~~~~~~~dl~ 89 (533)
.+++.+++++||++||.||..... |++++|+|||+||||||+|||++||+++|+++|+.| ..+. . ..||+
T Consensus 21 ~~~~~~~~~~Lk~~v~~~l~~~~~---d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~~~~~~~---~---~~dL~ 91 (183)
T PF01397_consen 21 DEKCKERAEELKEEVRNMLPASYP---DPLEKLELIDTLQRLGISYHFEDEIKEILDSIYRSWDEDNE---E---IDDLY 91 (183)
T ss_dssp CHHHHHHHHHHHHHHHHHHHSSSS---HHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHTTTTTSH---T---SSCHH
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCC---CHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhhcccccc---c---cCchh
Confidence 378999999999999999986542 899999999999999999999999999999999998 3321 1 35999
Q ss_pred HHHHHHHHhhhcCcceehhhhhcccccccccccccccchHHHHhHhhhccCCCCCchHHHHHHHHHHHHHHHHhhcCC--
Q 009479 90 IVALRFRLLRQHGYKVSADIFKKFRDEKGEFKAMLTNDAKGLLCLYEASYLRVQGENILEEACEFSRKHLKSLLSHLS-- 167 (533)
Q Consensus 90 ~~al~FrlLR~~Gy~vS~dvf~~F~d~~g~F~~~l~~d~~glL~Ly~As~l~~~gE~iL~ea~~ft~~~L~~~~~~~~-- 167 (533)
+|||+|||||||||+||||||++|+|++|+|+.++++||+||||||||||+++|||+|||||++||++||++++++..
T Consensus 92 ~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~~L~~~~~~~~~~ 171 (183)
T PF01397_consen 92 TTALRFRLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTKHLKSLLSNLSIP 171 (183)
T ss_dssp HHHHHHHHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHHHHHHHHTTTCTT
T ss_pred HHHHHHHHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhccCCCC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999998553
Q ss_pred -CchHHHHHHHc
Q 009479 168 -TPLVDQVEHSL 178 (533)
Q Consensus 168 -~~l~~~V~~aL 178 (533)
++|+++|++||
T Consensus 172 ~~~L~~~V~~AL 183 (183)
T PF01397_consen 172 DPHLAKEVKHAL 183 (183)
T ss_dssp SCHHHHHHHHHH
T ss_pred cHHHHHHHHHhC
Confidence 34999999998
No 5
>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=100.00 E-value=6.5e-49 Score=394.31 Aligned_cols=269 Identities=29% Similarity=0.391 Sum_probs=246.7
Q ss_pred HHHHHHhhhHHHHHhhHHHHHHHHHHHHHhCCCCCChhhhhhhhhhhhhhhccccCCCcchhhHHHHHHHHHHhhhhhhc
Q 009479 209 ILELAKLDFNLLQALHRIELSEISRWWKDIDFATKLPFARDRLVECYFWILGVYFEPKYSTTRKFMTKIIAIASVIDDIY 288 (533)
Q Consensus 209 lLelAkldFn~~Q~~hq~El~~lsrWw~~~~l~~~l~faRdR~~e~yf~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~f 288 (533)
||+|||+|||+||++||+|++++++||+++|+..+.+.+|+|+..++|+.++++++|+.+..|+++||+++|+|++||+|
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~~~~~~~~~~~~~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~ 80 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKAARQRFRQAYFGLLAARFYPDSSDELLAAADWMAWLFIFDDFF 80 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTTSHHHHHHHHHHHHHHHHSGCGHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCccccccchhhhhHhHHhhhhheeCCCcHHHHHHHHhhchheeeeeecc
Confidence 68999999999999999999999999999999767777799999999999999999996666779999999999999999
Q ss_pred cccCCHHHHHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHHHHHHHHHHHh
Q 009479 289 DVYGTLEELKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVN-KEPLCCMYYAKEAIKGLVKAYFVEAKWF 367 (533)
Q Consensus 289 D~~gt~eEl~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~-~~~~~~~~~~~~~~~~~~~a~l~EAkW~ 367 (533)
|.+|+.++++.+++++.+|++.....+|++.++++.++.++++++...+.+ .+......+|+++|.+|+.++.+|++|+
T Consensus 81 D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 160 (270)
T PF03936_consen 81 DDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARWR 160 (270)
T ss_dssp HTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999998778889999999999999999999988777 1110245679999999999999999999
Q ss_pred hCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhhhhcCCCCch
Q 009479 368 HAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVEQERGDAPSS 447 (533)
Q Consensus 368 ~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~ 447 (533)
..|++||++||+++|+.|+|++++++++++++|.. +++...+++.++|.+.++++.+++|+|||+||+||.++|+.+|+
T Consensus 161 ~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~ 239 (270)
T PF03936_consen 161 ERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFA-LGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNL 239 (270)
T ss_dssp HTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSC-HTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSH
T ss_pred ccCCCCCHHHHHHhccccccccHHHHHHHHhCCCc-cccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccH
Confidence 99999999999999999999999999999999766 77666677667788999999999999999999999999999999
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Q 009479 448 VECYVQQYGVSEEEACNKIKGMVEIEWMNIN 478 (533)
Q Consensus 448 V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln 478 (533)
|.|+|+++|+|.|+|++++.+|+++++++||
T Consensus 240 v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 240 VVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999998
No 6
>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=100.00 E-value=8.6e-46 Score=374.37 Aligned_cols=282 Identities=50% Similarity=0.901 Sum_probs=264.0
Q ss_pred hhHHHHHHHHHHHHHhCCCCCChhhhhhhhhhhhhhhccccCCCcchhhHHHHHHHHHHhhhhhhccccCCHHHHHHHHH
Q 009479 223 LHRIELSEISRWWKDIDFATKLPFARDRLVECYFWILGVYFEPKYSTTRKFMTKIIAIASVIDDIYDVYGTLEELKLFTH 302 (533)
Q Consensus 223 ~hq~El~~lsrWw~~~~l~~~l~faRdR~~e~yf~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~ 302 (533)
+||+|++++++||+++||....+++|.+...+|+|+++++++|+.+..|+++||+++|+|++||+||.+|+.+++..+++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~~r~~~~~~~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~ 80 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPFARDRLVECYFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFTE 80 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCchhhHhHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHH
Confidence 59999999999999999976666999999999999999999999899999999999999999999999999999999999
Q ss_pred HHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhh
Q 009479 303 AIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVN-KEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVEN 381 (533)
Q Consensus 303 av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~-~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~ 381 (533)
++.+|+....+.+|+++++++.++.++++++...+.+ ++. ....++++.|.+++.++.+|++|+..|++||++||+.+
T Consensus 81 ~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~-~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 81 AVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGS-ESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 9999999888899999999999999999999988887 554 57999999999999999999999999999999999999
Q ss_pred hccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchHHHHHHhcCCCHHH
Q 009479 382 STMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVEQERGDAPSSVECYVQQYGVSEEE 461 (533)
Q Consensus 382 ~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~gvs~ee 461 (533)
|+.|+|++++++++++++|.. +|++.+.+.+...++++.++.+++|+||++||+||+.+|+.+|+|.|||+++|+|.++
T Consensus 160 R~~~~g~~~~~~l~~~~~g~~-l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~e 238 (284)
T cd00868 160 RRVSIGYPPLLALSFLGMGDI-LPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEE 238 (284)
T ss_pred ceehhhHHHHHHHHHHHcCCC-CCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHH
Confidence 999999999999999999999 9994444558889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCC-CCCChhHHHHHHHHhhhhchhc
Q 009479 462 ACNKIKGMVEIEWMNINEEIQDP-NHPPLQWLLPSLNLARMMVVLY 506 (533)
Q Consensus 462 A~~~i~~~i~~~wk~ln~e~l~~-~~~p~~~~~~~lN~aR~~~~~Y 506 (533)
|++++.++++++|+++++.+.+. ++.|+++++.+.|.+|.....|
T Consensus 239 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 239 ALEELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 99999999999999999999873 4678999999999999876654
No 7
>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=100.00 E-value=9.1e-35 Score=297.90 Aligned_cols=250 Identities=17% Similarity=0.101 Sum_probs=217.2
Q ss_pred HHHHH-HHHHHHHhCCCCCChhhhhhhhhhhhhhhccccCCCcchhhH-HHHHHHHHHhhhhhhcccc-CCHHHHHHHHH
Q 009479 226 IELSE-ISRWWKDIDFATKLPFARDRLVECYFWILGVYFEPKYSTTRK-FMTKIIAIASVIDDIYDVY-GTLEELKLFTH 302 (533)
Q Consensus 226 ~El~~-lsrWw~~~~l~~~l~faRdR~~e~yf~~~a~~~eP~~s~~Rl-~~ak~~~l~~viDD~fD~~-gt~eEl~~ft~ 302 (533)
.+++. ...|..+.|+.. -+.+|+++..++|+.+++++.|+++..|+ ++|+++.|+|++||+||.. +++++++.+++
T Consensus 13 ~~~~~~~~~w~~~~~l~~-~~~~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~ 91 (303)
T cd00687 13 KEAQDEYLEWVLEEMLIP-SEKAEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVT 91 (303)
T ss_pred HHHHHHHHHHHHHcCCCC-cchhHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHH
Confidence 34444 457999997743 34699999999998888888899999999 7789999999999999987 58999999998
Q ss_pred HHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhh
Q 009479 303 AIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVNKEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENS 382 (533)
Q Consensus 303 av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~ 382 (533)
.+.++.......-|....++..++.+++.++...+.. ....+|++.|.+|+.++++|++|+.+|++||++||+++|
T Consensus 92 ~~~~~~~~~~~~~~~~~~p~~~~~~d~~~r~~~~~~~----~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R 167 (303)
T cd00687 92 RLLDILRGDGLDSPDDATPLEFGLADLWRRTLARMSA----EWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMR 167 (303)
T ss_pred HHHhccCCCCCCCCCCCCHHHHHHHHHHHHhccCCCH----HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHh
Confidence 8887544322111467788899999999888654432 458999999999999999999999999999999999999
Q ss_pred ccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhhh-hcCCCCchHHHHHHhcCCCHHH
Q 009479 383 TMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVEQ-ERGDAPSSVECYVQQYGVSEEE 461 (533)
Q Consensus 383 ~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E~-~~G~~~n~V~cyMke~gvs~ee 461 (533)
+.|+|+++++.++++++|.. +|+++.+. +...+++++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|+
T Consensus 168 ~~~~g~~~~~~l~~~~~g~~-lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~e 245 (303)
T cd00687 168 RFNIGADPCLGLSEFIGGPE-VPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEE 245 (303)
T ss_pred hhcccccccHHHHHHhcCCC-CCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHH
Confidence 99999999999999999998 99998776 556679999999999999999999999 8999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 009479 462 ACNKIKGMVEIEWMNINEEIQ 482 (533)
Q Consensus 462 A~~~i~~~i~~~wk~ln~e~l 482 (533)
|++++.++++++++++.+..-
T Consensus 246 A~~~~~~~~~~~~~~f~~~~~ 266 (303)
T cd00687 246 AISVVRDMHNERITQFEELEA 266 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999998877553
No 8
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=1.7e-31 Score=228.07 Aligned_cols=95 Identities=40% Similarity=0.688 Sum_probs=92.3
Q ss_pred hhcCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChhHHHHHHHHhhhhchh-cccCCCCCCCCh
Q 009479 439 QERGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINEEIQDPNHPPLQWLLPSLNLARMMVVL-YQNGDGYTNSTG 517 (533)
Q Consensus 439 ~~~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~lN~aR~~~~~-Y~~~D~~t~~~~ 517 (533)
++|||++|+|+|||||||+|+|||+++++++|+++||++|+||++++++|++++++++|+||+++|+ |+++||||.+.+
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~t~~~~ 80 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIKDVPRPVLVRCLNLARLIDVYCYNEGDGFTYPHG 80 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHhheecCCCCCCCCcH
Confidence 5789999999999999999999999999999999999999999999999999999999999999999 999999998877
Q ss_pred hHHHHHHhhhcccCCC
Q 009479 518 KTKDRIASLLVDPLPM 533 (533)
Q Consensus 518 ~~k~~i~~ll~~pi~~ 533 (533)
.+|++|++||++||||
T Consensus 81 ~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 81 KLKDLITSLFFHPLPL 96 (96)
T ss_pred HHHHHHHHHhccCCCC
Confidence 8999999999999996
No 9
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=99.85 E-value=7.3e-21 Score=184.11 Aligned_cols=229 Identities=28% Similarity=0.346 Sum_probs=183.0
Q ss_pred hhhccccCCCcchhhHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHH
Q 009479 257 WILGVYFEPKYSTTRKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDK 336 (533)
Q Consensus 257 ~~~a~~~eP~~s~~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~ 336 (533)
+.++.++.|+++..|..++++.+|++++||++|..++..........+ .....|..+...+..+.+.++++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELARE 75 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhC
Confidence 455667788888999999999999999999999887665544433322 22345677777888888888887643
Q ss_pred HhcCCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchh
Q 009479 337 LVNKEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVP 416 (533)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p 416 (533)
.. . ....++.+.|.+++.|+.+|+.|+.. +.||++||+.++..++ +.++..+...+++.. .|+ ..+.+...
T Consensus 76 ~~---~-~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~-~~~--~~~~~~~~ 146 (243)
T cd00385 76 GS---P-EALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKT-AGLVGALCLLGAGLS-GGE--AELLEALR 146 (243)
T ss_pred CC---H-HHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHh-CCC--HHHHHHHH
Confidence 22 2 46899999999999999999999876 8899999999999998 555556666766665 555 33345667
Q ss_pred HHHHHHHHHHHHhcCccchhhhhhcC-CCCchHHHHHHhcCC------------CHHHHHHHHHHHHHHHHHHHHHhhcC
Q 009479 417 KIIRSSSLIARLDDDVHTYKVEQERG-DAPSSVECYVQQYGV------------SEEEACNKIKGMVEIEWMNINEEIQD 483 (533)
Q Consensus 417 ~l~~~~~~i~RL~NDi~S~~~E~~~G-~~~n~V~cyMke~gv------------s~eeA~~~i~~~i~~~wk~ln~e~l~ 483 (533)
++....+.+.+|.||+.|+.+|.++| +..|++.++|+++|+ +.++|.+++..+++++|+.+++....
T Consensus 147 ~~~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ 226 (243)
T cd00385 147 KLGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILS 226 (243)
T ss_pred HHHHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 88999999999999999999999986 678999999999999 88999999999999999999987765
Q ss_pred CCCCChhHHHHHHHHhh
Q 009479 484 PNHPPLQWLLPSLNLAR 500 (533)
Q Consensus 484 ~~~~p~~~~~~~lN~aR 500 (533)
....+.++++.+.+++|
T Consensus 227 ~~~~~~~~~~~~~~~~~ 243 (243)
T cd00385 227 LPDVPRALLALALNLYR 243 (243)
T ss_pred cHHHHHHHHHHHHHHhC
Confidence 33456677777777653
No 10
>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=97.91 E-value=0.00012 Score=76.56 Aligned_cols=196 Identities=13% Similarity=0.120 Sum_probs=116.0
Q ss_pred ccCCCcchh-hHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhcC
Q 009479 262 YFEPKYSTT-RKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVNK 340 (533)
Q Consensus 262 ~~eP~~s~~-Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~ 340 (533)
+-.|..+.. ++.++=+.++++++||.++.. .+++..|-+-+-. . ..... ++...+.+.+.++.+- =
T Consensus 76 ~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--G-q~Q~~-----p~L~~~~~~L~~~~~~---f 142 (376)
T PF06330_consen 76 YCYPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--G-QPQKH-----PLLDGFASLLREMWRH---F 142 (376)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T----SS-----HHHHHHHHHHHHHHTT---S
T ss_pred eecCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--C-CCCCC-----HHHHHHHHHHHHHHHH---c
Confidence 334776665 678899999999999998765 4666666654433 1 11112 2334444444444322 1
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhH---
Q 009479 341 EPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPK--- 417 (533)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~--- 417 (533)
++ ++..-..++--+++.+..-|.+.. +-.|.-..|-..-|.=+|+..+.+...|-. .. -|+. .....
T Consensus 143 gp-f~anmI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiFPk-~~-fpe~-----~~~~~y~~ 212 (376)
T PF06330_consen 143 GP-FCANMIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIFPK-AL-FPEV-----EYFIQYTP 212 (376)
T ss_dssp -H-HHHHHHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT--T-TT-S-TT-----TTHHHHHH
T ss_pred ch-HHHHHHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeeccc-cc-CChH-----HHHHHHHH
Confidence 23 566778888889999999997643 224555556666566666666665543321 21 2322 22233
Q ss_pred HHHHHHHHHHHhcCccchhhhhh-cCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHh
Q 009479 418 IIRSSSLIARLDDDVHTYKVEQE-RGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINEE 480 (533)
Q Consensus 418 l~~~~~~i~RL~NDi~S~~~E~~-~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~e 480 (533)
.+--....+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|...+.+-.-.+-+++.+-
T Consensus 213 AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~v 276 (376)
T PF06330_consen 213 AIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRV 276 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444568999999999976 7888999987777789999999998866666666665543
No 11
>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=97.69 E-value=0.00074 Score=69.70 Aligned_cols=201 Identities=14% Similarity=0.080 Sum_probs=121.3
Q ss_pred hhhccccCCC--cchhhH-HHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHH
Q 009479 257 WILGVYFEPK--YSTTRK-FMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEM 333 (533)
Q Consensus 257 ~~~a~~~eP~--~s~~Rl-~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~ 333 (533)
.++++.-+|- .|..=+ .++-..+.++++||.-|.. .+.+..|.+-+.. +.....| -...+...+-+....+
T Consensus 69 T~v~~~~Y~w~~~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~---G~~qkhP-~l~~v~~~l~~~lr~f 142 (357)
T cd00686 69 TIVGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA---GREQAHP-WWALVNEHFPNVLRHF 142 (357)
T ss_pred HhhceEEeeccCCCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc---CCCCCCc-HHHHHHHHHHHHHHHh
Confidence 4444422244 555533 5667778889999997754 3445556655543 1112223 1222222222332222
Q ss_pred HHHHhcCCCcchHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhc
Q 009479 334 EDKLVNKEPLCCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAI 413 (533)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~ 413 (533)
|+ ++..-+.++--+++.+..-|... -+..|.-.+|-...|.=+|.+-+.+++.+ |++.|.-..
T Consensus 143 -------Gp-F~s~~IikSTLdFv~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~FiF-------Pk~~FpE~~ 205 (357)
T cd00686 143 -------GP-FCSLNLIRSTLDFFEGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASLW-------PKEQFNERS 205 (357)
T ss_pred -------hh-hhHHHHHHHHHHHHHHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEec-------chhhCchHh
Confidence 23 45666777888999999988663 34467777888887777776655554333 333322112
Q ss_pred chhHHHHHHH---HHHHHhcCccchhhhhhc-CCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHh
Q 009479 414 SVPKIIRSSS---LIARLDDDVHTYKVEQER-GDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINEE 480 (533)
Q Consensus 414 ~~p~l~~~~~---~i~RL~NDi~S~~~E~~~-G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~e 480 (533)
.+..+.-+.. ..+-++|||.||=||.-. ++-.|.|.-|-+-+|+|..+|...+..-.-.+-+++.+-
T Consensus 206 ~~~qi~~AIp~~~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~V 276 (357)
T cd00686 206 LFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAV 276 (357)
T ss_pred hHHHhhHHHHHHHHHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 2233333333 344589999999999854 455788888888899999999998877766666666543
No 12
>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=93.99 E-value=2.8 Score=42.10 Aligned_cols=198 Identities=19% Similarity=0.217 Sum_probs=104.7
Q ss_pred hhhHHHHHHHHHHhhhhhhccccCCHHH----HHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhcCCCcc
Q 009479 269 TTRKFMTKIIAIASVIDDIYDVYGTLEE----LKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVNKEPLC 344 (533)
Q Consensus 269 ~~Rl~~ak~~~l~~viDD~fD~~gt~eE----l~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~ 344 (533)
..|-.+.-+-.+.-.+||+-|....+.+ ++-+-+++...-.+..+..|....++..++..+.+..
T Consensus 18 ~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~----------- 86 (267)
T PF00494_consen 18 EKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRY----------- 86 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCS-----------
T ss_pred HHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHH-----------
Confidence 4455555777788889999997764332 3444444444221111122333556666666553222
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHH
Q 009479 345 CMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSL 424 (533)
Q Consensus 345 ~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~ 424 (533)
.--++.+.++++|+.+. .....++|++|+......++|....+.+-.++.... .++..+ .....+.
T Consensus 87 --~l~~~~l~~li~~~~~d---l~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~--~~~~~~-------~a~~lG~ 152 (267)
T PF00494_consen 87 --GLPREPLLELIDGMEMD---LEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHDP--DEAARD-------AARALGR 152 (267)
T ss_dssp --HHHHHHHHHHHHHHHHC---TT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSSTS--HHHHHH-------HHHHHHH
T ss_pred --hhhHHHHHHHHHHhccc---ccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc--hhhHHH-------HHHHHHH
Confidence 13445567777777533 333558899999999999888877766666654322 112222 3334444
Q ss_pred HHHHhcCccchhhh-hhcCCC--CchHHHHHHhcCCCHHHHHHH----------HHHHHHHHHHHHHHhhcCCCCC-Chh
Q 009479 425 IARLDDDVHTYKVE-QERGDA--PSSVECYVQQYGVSEEEACNK----------IKGMVEIEWMNINEEIQDPNHP-PLQ 490 (533)
Q Consensus 425 i~RL~NDi~S~~~E-~~~G~~--~n~V~cyMke~gvs~eeA~~~----------i~~~i~~~wk~ln~e~l~~~~~-p~~ 490 (533)
.+-+.|=+...... ..+|-+ +. =.|+++|+|.++-... +..++..+...+.+..--...+ |..
T Consensus 153 alql~nilRd~~~D~~~~gR~ylP~---d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~ 229 (267)
T PF00494_consen 153 ALQLTNILRDIPEDALRRGRIYLPL---DDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPPPR 229 (267)
T ss_dssp HHHHHHHHHTHHHH-HHTT---S-H---HHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TT
T ss_pred HHHHHHHHHHhHHHHHhcccccCCc---hhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHh
Confidence 44444444444555 556653 32 2567899988865432 3455555554444433222346 443
Q ss_pred HHHH
Q 009479 491 WLLP 494 (533)
Q Consensus 491 ~~~~ 494 (533)
+.-.
T Consensus 230 ~~~~ 233 (267)
T PF00494_consen 230 ARPA 233 (267)
T ss_dssp HHHH
T ss_pred hhHH
Confidence 4433
No 13
>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=93.06 E-value=1.6 Score=42.76 Aligned_cols=118 Identities=14% Similarity=0.151 Sum_probs=78.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhcc-ccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHH
Q 009479 345 CMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTM-SSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 345 ~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~-Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
....+.+....++.|...+..|... ..||.++|+..... |+++....+......+.. +++.. ....++.+..+
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~lG 159 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGA--DDEQA---EALKDYGRALG 159 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCc--CHHHH---HHHHHHHHHHH
Confidence 4566778889999999999988644 57999999999988 666654433333322322 33322 23356778888
Q ss_pred HHHHHhcCccchhhhh----------hcCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Q 009479 424 LIARLDDDVHTYKVEQ----------ERGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINE 479 (533)
Q Consensus 424 ~i~RL~NDi~S~~~E~----------~~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~ 479 (533)
...-+.||+..+.... ++|.. +...+++ .+.+.+..+.+++.+..
T Consensus 160 ~a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 160 LAFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 8889999999886654 45554 5555555 55566666666655544
No 14
>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=89.57 E-value=25 Score=35.45 Aligned_cols=196 Identities=15% Similarity=0.115 Sum_probs=98.0
Q ss_pred hhHHHHHHHHHHhhhhhhccccCCHHHHHHHHHHHHhhhhh--h-hccCChhHHHHHHHHHHHHHHHHHHHhcCCCcchH
Q 009479 270 TRKFMTKIIAIASVIDDIYDVYGTLEELKLFTHAIERWEVV--A-ANELPKYMQVCYFALLDVVKEMEDKLVNKEPLCCM 346 (533)
Q Consensus 270 ~Rl~~ak~~~l~~viDD~fD~~gt~eEl~~ft~av~rWd~~--~-~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~~~ 346 (533)
.|-.++-+-.+.-.+||+-|..+++++-+. .++.|... . ...-| -.++..++..++... +-+
T Consensus 19 ~R~~~~alYaf~r~~d~i~D~~~~~~~~~~---~L~~w~~~l~~~~~g~~--~~pv~~al~~~~~~~------~l~---- 83 (266)
T TIGR03465 19 RRRAMTALYAFCREVDDIVDEDSDPEVAQA---KLAWWRAEIDRLYAGAP--SHPVARALADPARRF------DLP---- 83 (266)
T ss_pred HHHHHHHHHHHHHHHHhhhcCCCCchHHHH---HHHHHHHHHHHHhCCCC--CChHHHHHHHHHHHc------CCC----
Confidence 344445667777779999998555443222 13334321 1 11112 235566665554332 111
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHHHH
Q 009479 347 YYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSLIA 426 (533)
Q Consensus 347 ~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~ 426 (533)
++.+.++++++.+.. .....+|++|+......++|+-..+.+-.+ |.. ++.... .....+...
T Consensus 84 ---~~~~~~li~g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~ll--g~~--~~~~~~-------~a~~lG~Al 146 (266)
T TIGR03465 84 ---QEDFLEVIDGMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIF--GAT--DARTLE-------YAHHLGRAL 146 (266)
T ss_pred ---HHHHHHHHHHHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCC--ChhHHH-------HHHHHHHHH
Confidence 234666777765333 344678999999888887776666555444 322 222222 222233333
Q ss_pred HHhcCccchhhhhhcCCCCchHHHHHHhcCCCHH---------HHHHHHHHHHHHHHHHHHHhhcCCCCCChhHHHHHHH
Q 009479 427 RLDDDVHTYKVEQERGDAPSSVECYVQQYGVSEE---------EACNKIKGMVEIEWMNINEEIQDPNHPPLQWLLPSLN 497 (533)
Q Consensus 427 RL~NDi~S~~~E~~~G~~~n~V~cyMke~gvs~e---------eA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~lN 497 (533)
-|.|=+.......++|-+- .=.=.|.++|+|.+ ...+-+..+++.+..-+.+..--...+|......++-
T Consensus 147 qltnilRdv~eD~~~gR~y-lP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~~~~~~ 225 (266)
T TIGR03465 147 QLTNILRDVGEDARRGRIY-LPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQRAARA 225 (266)
T ss_pred HHHHHHHHhHHHHhCCCee-cCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhhHHHHH
Confidence 3333222223445566541 11124577899876 3345556666666655544432224477544433333
Q ss_pred H
Q 009479 498 L 498 (533)
Q Consensus 498 ~ 498 (533)
.
T Consensus 226 ~ 226 (266)
T TIGR03465 226 M 226 (266)
T ss_pred H
Confidence 3
No 15
>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=85.89 E-value=41 Score=33.78 Aligned_cols=197 Identities=18% Similarity=0.218 Sum_probs=98.5
Q ss_pred hhHHHHHHHHHHhhhhhhccccCCH-HH----HHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhcCCCcc
Q 009479 270 TRKFMTKIIAIASVIDDIYDVYGTL-EE----LKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVNKEPLC 344 (533)
Q Consensus 270 ~Rl~~ak~~~l~~viDD~fD~~gt~-eE----l~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~ 344 (533)
.|-.+.-+-.+.-.+||+-|..... .+ ++-+-+++..-.. +..|. .++..++..+..+. +-
T Consensus 25 ~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~---~~~~~--~pv~~al~~~~~~~------~l--- 90 (265)
T cd00683 25 LRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYW---GGAPT--HPVLRALADLARRY------GI--- 90 (265)
T ss_pred HHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHc---CCCCC--ChHHHHHHHHHHHc------CC---
Confidence 4444446666777789999976533 22 2223333322111 11121 25666776665422 11
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHH
Q 009479 345 CMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSL 424 (533)
Q Consensus 345 ~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~ 424 (533)
-++.+.++++++..... ....||++|.......++|+-..+.+-.++.+ . +++.. +.....+.
T Consensus 91 ----~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~-~--~~~~~-------~~A~~lG~ 153 (265)
T cd00683 91 ----PREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS-S--DEAAL-------ERARALGL 153 (265)
T ss_pred ----CHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC-C--ChHHH-------HHHHHHHH
Confidence 12445667777754433 45678999888888887776666555444321 1 22222 22223333
Q ss_pred HHHHhcCccchhhhhhcCCC--CchHHHHHHhcCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCChhHHH
Q 009479 425 IARLDDDVHTYKVEQERGDA--PSSVECYVQQYGVSEEEA---------CNKIKGMVEIEWMNINEEIQDPNHPPLQWLL 493 (533)
Q Consensus 425 i~RL~NDi~S~~~E~~~G~~--~n~V~cyMke~gvs~eeA---------~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~ 493 (533)
..-|.|=+.......++|-+ +.- -|.++|+|.++- ..-+..+++.+.+-+....-....+|....-
T Consensus 154 AlqltnilRdv~eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~ 230 (265)
T cd00683 154 ALQLTNILRDVGEDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSRF 230 (265)
T ss_pred HHHHHHHHHHHHHHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHH
Confidence 33333322223344455643 322 367789887653 2445555555555554443223447755444
Q ss_pred HHHHHhh
Q 009479 494 PSLNLAR 500 (533)
Q Consensus 494 ~~lN~aR 500 (533)
.++-++.
T Consensus 231 ~~~~~~~ 237 (265)
T cd00683 231 CVRAAAM 237 (265)
T ss_pred HHHHHHH
Confidence 4444443
No 16
>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=85.53 E-value=43 Score=33.77 Aligned_cols=108 Identities=21% Similarity=0.197 Sum_probs=58.7
Q ss_pred hhHHHHHHHHHHhhhhhhcccc-CCHHHHHHHHHHHHhhhh---hhhccCChhHHHHHHHHHHHHHHHHHHHhcCCCcch
Q 009479 270 TRKFMTKIIAIASVIDDIYDVY-GTLEELKLFTHAIERWEV---VAANELPKYMQVCYFALLDVVKEMEDKLVNKEPLCC 345 (533)
Q Consensus 270 ~Rl~~ak~~~l~~viDD~fD~~-gt~eEl~~ft~av~rWd~---~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~~ 345 (533)
.|-.+.-+-.|.=.+||+-|.. +++++-.. .++.|.. +....-| -.++..++.+++.+.. - .
T Consensus 19 ~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~---~L~~wr~~l~~~~~g~~--~~pv~~aL~~~~~~~~-------l--~ 84 (266)
T TIGR03464 19 LRAPIHAVYAFARTADDIADEGDGSAEERLA---LLDDFRAELDAIYSGEP--AAPVFVALARTVQRHG-------L--P 84 (266)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCChHHHHH---HHHHHHHHHHHHhCCCC--CChHHHHHHHHHHHcC-------C--C
Confidence 3444445666667889999975 44443221 1233322 1111112 1246667766655431 1 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHh
Q 009479 346 MYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVG 398 (533)
Q Consensus 346 ~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~ 398 (533)
++.+.++++++... ......+|++|.......++|+-..+.+-.++
T Consensus 85 ----~~~~~~li~~~~~D---l~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g 130 (266)
T TIGR03464 85 ----IEPFLDLLDAFRQD---VVVTRYATWAELLDYCRYSANPVGRLVLDLYG 130 (266)
T ss_pred ----hHHHHHHHHHHHHh---ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcC
Confidence 23445566665422 22445789999999988888877666655554
No 17
>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=83.50 E-value=34 Score=35.78 Aligned_cols=89 Identities=9% Similarity=0.038 Sum_probs=57.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
.....+.+....++.+-+.+..|.. ...+|.++|+.....=+|.....++..-++-.. .|++..+. ..++-....
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag-~~~~~~~~---l~~~G~~lG 207 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQF-DSDLSLEDYLEKSFYKTASLVAASSKAAAVLSD-VPSQVAND---LYEYGKHLG 207 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccc-CCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcC-cCHHHHHH---HHHHHHHHH
Confidence 3566677778888888887777643 335799999997665555443332211111112 45554433 356777888
Q ss_pred HHHHHhcCccchhh
Q 009479 424 LIARLDDDVHTYKV 437 (533)
Q Consensus 424 ~i~RL~NDi~S~~~ 437 (533)
...-+.||+..+.-
T Consensus 208 ~aFQi~DDild~~~ 221 (322)
T TIGR02749 208 LAFQVVDDILDFTG 221 (322)
T ss_pred HHHHHHHHhccCCC
Confidence 88899999988753
No 18
>PLN02857 octaprenyl-diphosphate synthase
Probab=79.61 E-value=40 Score=36.67 Aligned_cols=89 Identities=11% Similarity=0.081 Sum_probs=57.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
.....+.+...+++.+-+.+..+.. +.-+|.++|+.....=+|.....++..-++--. .+++..+. ..++-+...
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallag-a~~~~~~~---l~~fG~~LG 301 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSG-VDSSVKEQ---MYEYGKNLG 301 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcC-CCHHHHHH---HHHHHHHHH
Confidence 3566677778888888777777754 445799999998766555443333211111112 45554433 356777788
Q ss_pred HHHHHhcCccchhh
Q 009479 424 LIARLDDDVHTYKV 437 (533)
Q Consensus 424 ~i~RL~NDi~S~~~ 437 (533)
...-+.||+..+..
T Consensus 302 iAFQI~DDiLD~~~ 315 (416)
T PLN02857 302 LAFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHHHhhcC
Confidence 88899999998763
No 19
>PLN02890 geranyl diphosphate synthase
Probab=79.05 E-value=42 Score=36.57 Aligned_cols=90 Identities=13% Similarity=0.022 Sum_probs=60.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
.+...+.++...++.+-..+..|.. ...+|.++|+.....-+|.....++..-++--. .+++..+.+ -.+-+...
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilag-a~~~~~~~l---~~fG~~lG 301 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAG-QTAEVAVLA---FEYGRNLG 301 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcC-cCHHHHHHH---HHHHHHHH
Confidence 4577888889999999999998864 456899999987665555443332222111112 455554443 46777788
Q ss_pred HHHHHhcCccchhhh
Q 009479 424 LIARLDDDVHTYKVE 438 (533)
Q Consensus 424 ~i~RL~NDi~S~~~E 438 (533)
...-+.||+..|.-.
T Consensus 302 lAFQI~DDiLD~~g~ 316 (422)
T PLN02890 302 LAFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHHhhcCC
Confidence 888999999988643
No 20
>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=77.42 E-value=27 Score=35.00 Aligned_cols=120 Identities=14% Similarity=0.063 Sum_probs=75.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHH
Q 009479 345 CMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSL 424 (533)
Q Consensus 345 ~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~ 424 (533)
....+.+.+...+.+-..+..|... ..||.++|++....-+|.....+....++-.. .+++..+ ...++-+....
T Consensus 109 ~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~-~~~~~~~---~l~~~g~~lG~ 183 (259)
T cd00685 109 ALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAG-ADEEEAE---ALKRFGRNLGL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcC-CCHHHHH---HHHHHHHHHHH
Confidence 5666777888889998888888643 57999999999877776664443322222111 2333332 23567777788
Q ss_pred HHHHhcCccchhhhh-----------hcCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Q 009479 425 IARLDDDVHTYKVEQ-----------ERGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINE 479 (533)
Q Consensus 425 i~RL~NDi~S~~~E~-----------~~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~ 479 (533)
..-+.||+..+.... ..|.. |.+.+|.. .+.+..+++++++.+..
T Consensus 184 afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~~ 239 (259)
T cd00685 184 AFQIQDDILDLFGDPETLGKPVGSDLREGKC-TLPVLLAL---------RELAREYEEKALEALKA 239 (259)
T ss_pred HHHHHHHhhcccCChHHHCCCcchHHHcCCc-hHHHHHHH---------HHHHHHHHHHHHHHHHc
Confidence 888899988775432 22332 45444443 55666777777766654
No 21
>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=76.55 E-value=65 Score=33.55 Aligned_cols=87 Identities=7% Similarity=-0.012 Sum_probs=57.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhc--CCCcCcHHHHHhhcchhHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGL--EDMAITKRALDWAISVPKIIRS 421 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~--g~~~lp~e~~e~~~~~p~l~~~ 421 (533)
.....+.++....+.+-..+..|.. +.-+|.++|++....-+|..+..++ ..|. + . .+++..+. ..++-+.
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~a-g-~~~~~~~~---l~~~g~~ 201 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIAS-G-ANEAIVKK---LYWFGYY 201 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHc-C-CCHHHHHH---HHHHHHH
Confidence 3466778888889999888887743 3457999999987766665433322 2221 2 1 34443333 2556677
Q ss_pred HHHHHHHhcCccchhh
Q 009479 422 SSLIARLDDDVHTYKV 437 (533)
Q Consensus 422 ~~~i~RL~NDi~S~~~ 437 (533)
.....-+.||+..+..
T Consensus 202 lG~aFQI~DDilD~~~ 217 (319)
T TIGR02748 202 VGMSYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHHHHccC
Confidence 8888899999987753
No 22
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=74.46 E-value=66 Score=33.60 Aligned_cols=109 Identities=17% Similarity=0.145 Sum_probs=71.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
.....+.+....++.+-..+..+.... +|.++|+.+-..=+|.....+...-++--. .+++..+.+ ..+-+...
T Consensus 134 ~~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~-~~~~~~~~l---~~~g~~lG 207 (322)
T COG0142 134 EAIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAG-ADEELLEAL---EDYGRNLG 207 (322)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcC-CCHHHHHHH---HHHHHHhh
Confidence 356778888899999998888886544 999999999776555444433322222112 344554443 66778888
Q ss_pred HHHHHhcCccchhhhh-hcCCC---------CchHHHHHHhcCCC
Q 009479 424 LIARLDDDVHTYKVEQ-ERGDA---------PSSVECYVQQYGVS 458 (533)
Q Consensus 424 ~i~RL~NDi~S~~~E~-~~G~~---------~n~V~cyMke~gvs 458 (533)
...-+.||+..+.-+. .-|.. .+...++.-+.+-.
T Consensus 208 laFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~ 252 (322)
T COG0142 208 LAFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANE 252 (322)
T ss_pred HHHHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCch
Confidence 8889999999887642 23332 36666666655443
No 23
>PLN02632 phytoene synthase
Probab=72.84 E-value=1.3e+02 Score=31.62 Aligned_cols=192 Identities=14% Similarity=0.130 Sum_probs=93.1
Q ss_pred hHHHHHHHHHHhhhhhhccccCCHH----HHHHHHHHHHhhhhhhhccCChhHHHHHHHHHHHHHHHHHHHhcCCCcchH
Q 009479 271 RKFMTKIIAIASVIDDIYDVYGTLE----ELKLFTHAIERWEVVAANELPKYMQVCYFALLDVVKEMEDKLVNKEPLCCM 346 (533)
Q Consensus 271 Rl~~ak~~~l~~viDD~fD~~gt~e----El~~ft~av~rWd~~~~~~lPe~mk~~~~al~~~~~e~~~~~~~~~~~~~~ 346 (533)
|-.+.-+-.|.-.+||+=|....+. .++..-+.+.. ....-|. .++..++.++..+.. - .
T Consensus 75 R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~----~~~g~~~--~pv~~aL~~~~~~~~------L---~- 138 (334)
T PLN02632 75 RKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLED----LFDGRPY--DMLDAALADTVSKFP------L---D- 138 (334)
T ss_pred HHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHH----HhCCCCC--ChHHHHHHHHHHHCC------C---C-
Confidence 3334456666677899999654322 22222222222 1111122 245667766654432 1 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhcCCCcCcHHHHHhhcchhHHHHHHHHHH
Q 009479 347 YYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGLEDMAITKRALDWAISVPKIIRSSSLIA 426 (533)
Q Consensus 347 ~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~ 426 (533)
++.+.+++.++..... ....+|++|+......++|+-..+.+..++.... .+.. .+++ .+.....+...
T Consensus 139 ---~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~-~~~~-~~~~---~~~A~~lG~Al 207 (334)
T PLN02632 139 ---IQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPE-SKAS-TESV---YNAALALGIAN 207 (334)
T ss_pred ---hHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCc-cccc-hHHH---HHHHHHHHHHH
Confidence 2334666777653322 3457899999999887777766655555543221 1110 0011 11222233333
Q ss_pred HHhcCccchhhhhhcCCC--CchHHHHHHhcCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCChhHH
Q 009479 427 RLDDDVHTYKVEQERGDA--PSSVECYVQQYGVSEEEA---------CNKIKGMVEIEWMNINEEIQDPNHPPLQWL 492 (533)
Q Consensus 427 RL~NDi~S~~~E~~~G~~--~n~V~cyMke~gvs~eeA---------~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~ 492 (533)
-|.|=+........+|-+ +- =.|.++|+|.++- ..-+..+++.+..-+.+..---..+|..+.
T Consensus 208 QltNILRDv~eD~~~GRvYLP~---e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r 281 (334)
T PLN02632 208 QLTNILRDVGEDARRGRVYLPQ---DELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASR 281 (334)
T ss_pred HHHHHHHHHHHHHhCCceeCCH---HHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhH
Confidence 333323333344566653 21 2467899998873 233445555555444333211234776544
No 24
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=62.08 E-value=2.1e+02 Score=29.94 Aligned_cols=88 Identities=13% Similarity=-0.049 Sum_probs=57.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhc-CCCcCcHHHHHhhcchhHHHHHH
Q 009479 344 CCMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGL-EDMAITKRALDWAISVPKIIRSS 422 (533)
Q Consensus 344 ~~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~-g~~~lp~e~~e~~~~~p~l~~~~ 422 (533)
.....+.++...++.+-..+..|.. +.-+|.++|+.....-+|.....++ ..|. --. .+++..+. ...+-+..
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~~-~~ga~lag-~~~~~~~~---l~~~g~~l 203 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAAA-QCSGILAG-CTPEQEKG---LQDYGRYL 203 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcC-CCHHHHHH---HHHHHHHH
Confidence 3466777888888888888887753 3458999999987765555533322 2221 111 34443322 35677788
Q ss_pred HHHHHHhcCccchhh
Q 009479 423 SLIARLDDDVHTYKV 437 (533)
Q Consensus 423 ~~i~RL~NDi~S~~~ 437 (533)
....-+.||+..+..
T Consensus 204 G~aFQi~DD~ld~~~ 218 (323)
T PRK10888 204 GTAFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHHHhhcccC
Confidence 888899999998854
No 25
>CHL00151 preA prenyl transferase; Reviewed
Probab=62.05 E-value=2e+02 Score=29.93 Aligned_cols=87 Identities=11% Similarity=0.031 Sum_probs=54.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHhc-CCCcCcHHHHHhhcchhHHHHHHH
Q 009479 345 CMYYAKEAIKGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVGL-EDMAITKRALDWAISVPKIIRSSS 423 (533)
Q Consensus 345 ~~~~~~~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~-g~~~lp~e~~e~~~~~p~l~~~~~ 423 (533)
....+.+....++.+-..+..|.. ..-+|.++|+.....=+|.....++..-++ +. .+++..+. ...+-....
T Consensus 135 ~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag--~~~~~~~~---l~~~G~~lG 208 (323)
T CHL00151 135 VVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSD--ADEKDHND---FYLYGKHLG 208 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcC--CCHHHHHH---HHHHHHHHH
Confidence 456677888888888777766642 345799999998555444443332222111 22 34444333 356777888
Q ss_pred HHHHHhcCccchhh
Q 009479 424 LIARLDDDVHTYKV 437 (533)
Q Consensus 424 ~i~RL~NDi~S~~~ 437 (533)
...-+.||+..+.-
T Consensus 209 ~aFQi~DDilD~~~ 222 (323)
T CHL00151 209 LAFQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHHHhhccc
Confidence 88899999998754
No 26
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=50.92 E-value=13 Score=34.79 Aligned_cols=30 Identities=23% Similarity=0.437 Sum_probs=25.5
Q ss_pred hhcCCCCchHHHHHHhc-CCCHHHHHHHHHH
Q 009479 439 QERGDAPSSVECYVQQY-GVSEEEACNKIKG 468 (533)
Q Consensus 439 ~~~G~~~n~V~cyMke~-gvs~eeA~~~i~~ 468 (533)
-.||-.+..|.||+-++ +.|.++|.+++++
T Consensus 118 AGRtRSaTvV~cYLmq~~~wtpe~A~~~vr~ 148 (183)
T KOG1719|consen 118 AGRTRSATVVACYLMQHKNWTPEAAVEHVRK 148 (183)
T ss_pred CCCccchhhhhhhhhhhcCCCHHHHHHHHHh
Confidence 34566789999998885 9999999999987
No 27
>PF03861 ANTAR: ANTAR domain; InterPro: IPR005561 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins []. This domain has been detected in various response regulators of two-component systems, which are structured around two proteins, a histidine kinase and a response regulator. This domain is also found in one-component sensory regulators from a variety of bacteria. Most response regulators interact with DNA, however ANTAR-containing regulators interact with RNA. The majority of the domain consists of a coiled-coil.; PDB: 4AKK_A 1SD5_A 1S8N_A 1QO0_E.
Probab=50.73 E-value=16 Score=27.78 Aligned_cols=28 Identities=21% Similarity=0.350 Sum_probs=21.4
Q ss_pred CCchHHHHHHhcCCCHHHHHHHHHHHHH
Q 009479 444 APSSVECYVQQYGVSEEEACNKIKGMVE 471 (533)
Q Consensus 444 ~~n~V~cyMke~gvs~eeA~~~i~~~i~ 471 (533)
+.-++.+.|..+|+|+++|.+.++..-.
T Consensus 15 I~~AkgiLm~~~g~~e~~A~~~Lr~~Am 42 (56)
T PF03861_consen 15 IEQAKGILMARYGLSEDEAYRLLRRQAM 42 (56)
T ss_dssp HHHHHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 3456778999999999999999988654
No 28
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=48.59 E-value=15 Score=35.46 Aligned_cols=45 Identities=20% Similarity=0.236 Sum_probs=31.5
Q ss_pred HHhcCccchhhhhhcCC-CCchHHHHHHhcCCCHHHHHHHHHHHHH
Q 009479 427 RLDDDVHTYKVEQERGD-APSSVECYVQQYGVSEEEACNKIKGMVE 471 (533)
Q Consensus 427 RL~NDi~S~~~E~~~G~-~~n~V~cyMke~gvs~eeA~~~i~~~i~ 471 (533)
.|--++..+++..+.-. +.-+=.+.|+++|+|++||+++++++--
T Consensus 129 ~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM 174 (194)
T COG3707 129 ALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAM 174 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 45556666666544332 2344457999999999999999998643
No 29
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=37.81 E-value=26 Score=23.18 Aligned_cols=18 Identities=39% Similarity=0.704 Sum_probs=14.6
Q ss_pred HHHHhcCCCHHHHHHHHH
Q 009479 450 CYVQQYGVSEEEACNKIK 467 (533)
Q Consensus 450 cyMke~gvs~eeA~~~i~ 467 (533)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 488999999999766554
No 30
>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=35.78 E-value=4e+02 Score=26.55 Aligned_cols=65 Identities=15% Similarity=0.151 Sum_probs=42.9
Q ss_pred CCCCCChHHHHhhhccccchhhHHHHHHHhc-CCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCccchhhh
Q 009479 369 AKYVPTFEECVENSTMSSGYPMLAVEALVGL-EDMAITKRALDWAISVPKIIRSSSLIARLDDDVHTYKVE 438 (533)
Q Consensus 369 ~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~~-g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~S~~~E 438 (533)
.+..+|.++|+++...-+|.....++..-++ +. .+++..+. ..++-.......-+.||+..+...
T Consensus 129 ~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag--~~~~~~~~---l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 129 EDKDPTEEEYLEIIRLKTGSLFALACQLGAILAG--ADEEQIEA---LREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTT--SGHHHHHH---HHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred ccccccHHHHHHHHhhcchHHHHHHHHHHHHhcc--chhHHHHH---HHHHHHHHHHHHhhhhhhhhccCc
Confidence 3348899999999887776664433322222 22 45444433 366778888888999999888753
No 31
>PRK10581 geranyltranstransferase; Provisional
Probab=33.85 E-value=2.8e+02 Score=28.62 Aligned_cols=113 Identities=13% Similarity=0.113 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHhhCCCCCChHHHHhhhccccchhhHHHHHHHh--cCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcC
Q 009479 354 KGLVKAYFVEAKWFHAKYVPTFEECVENSTMSSGYPMLAVEALVG--LEDMAITKRALDWAISVPKIIRSSSLIARLDDD 431 (533)
Q Consensus 354 ~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~Ssg~~~~~~~~~~~--~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~ND 431 (533)
..++.+-..+..|. +..+|.++|++....=+|.....++ ..| ++.. -+++..+. ..++-+......-+.||
T Consensus 152 ~~l~~GQ~ld~~~~--~~~~~~~~y~~i~~~KTa~L~~~~~-~~gailag~-~~~~~~~~---l~~~g~~lG~aFQI~DD 224 (299)
T PRK10581 152 AGMCGGQALDLEAE--GKQVPLDALERIHRHKTGALIRAAV-RLGALSAGD-KGRRALPV---LDRYAESIGLAFQVQDD 224 (299)
T ss_pred chhhHhhHHHHhcc--CCCCCHHHHHHHHHHhhHHHHHHHH-HHHHHHcCC-CcHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 34667766677774 3468999999886544443332222 222 1221 12333333 35677888888899999
Q ss_pred ccchhhh-hhcCC-----C----CchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Q 009479 432 VHTYKVE-QERGD-----A----PSSVECYVQQYGVSEEEACNKIKGMVEIEWMNINE 479 (533)
Q Consensus 432 i~S~~~E-~~~G~-----~----~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~ln~ 479 (533)
+..+.-. ...|. . .|.+.++- .+.|.+.+++.++.+.+.+..
T Consensus 225 ilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~------~e~a~~~a~~~~~~A~~~l~~ 276 (299)
T PRK10581 225 ILDVVGDTATLGKRQGADQQLGKSTYPALLG------LEQARKKARDLIDDARQSLDQ 276 (299)
T ss_pred HccccCChHHHCCCcchhhhcCCCCHHHHHH------HHHHHHHHHHHHHHHHHHHHh
Confidence 9987432 22222 1 24444432 478888899999888877665
No 32
>smart00400 ZnF_CHCC zinc finger.
Probab=30.91 E-value=57 Score=24.55 Aligned_cols=25 Identities=20% Similarity=0.216 Sum_probs=20.9
Q ss_pred CCCCchHHHHHHhcCCCHHHHHHHH
Q 009479 442 GDAPSSVECYVQQYGVSEEEACNKI 466 (533)
Q Consensus 442 G~~~n~V~cyMke~gvs~eeA~~~i 466 (533)
|.-.+.|..+|+-+|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 4445889999998899999999875
No 33
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=29.39 E-value=1.6e+02 Score=26.13 Aligned_cols=84 Identities=21% Similarity=0.226 Sum_probs=45.1
Q ss_pred HHHHHHHHHhCcccCcHHHHHHHHHHHHhhc---CCCCCCCCCCCCCchHHHHHHHHHhhhcCcceehhhhhcccccccc
Q 009479 43 VAIVNQLQRLGVAYHFENEIKEALQTIYDSH---VNGNCDVNYDHNNDLYIVALRFRLLRQHGYKVSADIFKKFRDEKGE 119 (533)
Q Consensus 43 l~liD~lqrLGi~~hFe~EI~~~L~~~~~~~---~~~~~~~~~~~~~dl~~~al~FrlLR~~Gy~vS~dvf~~F~d~~g~ 119 (533)
-.+|+.|++|||++-- -..|-.+-+.- +..|+. .+ .--=-.+|++-|.||.+| +|-----+| +++ |.
T Consensus 14 ~~~ie~L~~lgi~R~v----A~tlv~L~~~~E~sS~~IE~--~s-gLRQPEVSiAMr~Lre~g-WV~~R~eKK-kGK-GR 83 (124)
T COG4738 14 YEIIELLRILGIPRNV----ATTLVCLAKGDEASSREIER--VS-GLRQPEVSIAMRYLRENG-WVDEREEKK-KGK-GR 83 (124)
T ss_pred HHHHHHHHHcCCCchH----HHHHHHHhcCcchhhhhhHH--hh-cCCCchhHHHHHHHHHcc-ccchHHhcc-cCC-CC
Confidence 4689999999999863 22232222110 001100 00 111226899999999999 665544555 433 43
Q ss_pred -ccc-ccccchHHHHhHhh
Q 009479 120 -FKA-MLTNDAKGLLCLYE 136 (533)
Q Consensus 120 -F~~-~l~~d~~glL~Ly~ 136 (533)
.+. .|+.+...+++-++
T Consensus 84 Pik~Y~Lt~~~~eIvs~ie 102 (124)
T COG4738 84 PIKLYRLTVPFDEIVSEIE 102 (124)
T ss_pred CceEEEecCcHHHHHHHHH
Confidence 221 44566666655443
No 34
>COG5123 TOA2 Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=28.88 E-value=20 Score=30.77 Aligned_cols=41 Identities=24% Similarity=0.248 Sum_probs=27.8
Q ss_pred hHHHHhHhhhccCCCCCchHHHHHHHHHHHHHHHHhhcCCCchHHHHHHH
Q 009479 128 AKGLLCLYEASYLRVQGENILEEACEFSRKHLKSLLSHLSTPLVDQVEHS 177 (533)
Q Consensus 128 ~~glL~Ly~As~l~~~gE~iL~ea~~ft~~~L~~~~~~~~~~l~~~V~~a 177 (533)
+.|+.+|||-|-++--=|++||+-++ ...++|+|+.+|-..
T Consensus 1 v~~yYElYRrs~ig~~L~dalD~lis---------~g~isp~lam~vLet 41 (113)
T COG5123 1 VPGYYELYRRSMIGKVLEDALDELIS---------AGVISPNLAMHVLET 41 (113)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHh---------cCCcCHHHHHHHHHH
Confidence 35899999999888666666666542 114677777766443
No 35
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=28.88 E-value=68 Score=30.06 Aligned_cols=34 Identities=24% Similarity=0.411 Sum_probs=24.8
Q ss_pred HHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChh
Q 009479 450 CYVQQYGVSEEEACNKIKGMVEIEWMNINEEIQDPNHPPLQ 490 (533)
Q Consensus 450 cyMke~gvs~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~ 490 (533)
.-|.+.|.|..+ |+..|++.|| +.+.+|++-|+|
T Consensus 125 ~~~~~~Gks~~e----IR~~ID~kYk---~g~~~pTpTp~P 158 (158)
T PF13798_consen 125 VQMYQEGKSPKE----IRQYIDEKYK---EGYAKPTPTPMP 158 (158)
T ss_pred HHHHHcCCCHHH----HHHHHHHHHH---hCCCCCCCCCCC
Confidence 346667777554 8999999997 457778777765
No 36
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=28.61 E-value=42 Score=24.76 Aligned_cols=21 Identities=19% Similarity=0.480 Sum_probs=15.8
Q ss_pred HHHHhhhcCcceehhhhhccc
Q 009479 94 RFRLLRQHGYKVSADIFKKFR 114 (533)
Q Consensus 94 ~FrlLR~~Gy~vS~dvf~~F~ 114 (533)
.+.-|+++||++|+++++++.
T Consensus 24 ~l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 24 LLDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred HHHHHHHcCcccCHHHHHHHH
Confidence 344558889999999887764
No 37
>smart00463 SMR Small MutS-related domain.
Probab=28.35 E-value=65 Score=25.96 Aligned_cols=23 Identities=17% Similarity=0.222 Sum_probs=21.0
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHH
Q 009479 455 YGVSEEEACNKIKGMVEIEWMNI 477 (533)
Q Consensus 455 ~gvs~eeA~~~i~~~i~~~wk~l 477 (533)
||++.++|+..+...++++++.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 89999999999999999888764
No 38
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=26.93 E-value=68 Score=26.05 Aligned_cols=25 Identities=16% Similarity=0.151 Sum_probs=20.8
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHH
Q 009479 455 YGVSEEEACNKIKGMVEIEWMNINE 479 (533)
Q Consensus 455 ~gvs~eeA~~~i~~~i~~~wk~ln~ 479 (533)
||++.+||+..+...+.++++.-..
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~ 28 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIR 28 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHS
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCC
Confidence 7999999999999999999866443
No 39
>cd07604 BAR_ASAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ASAPs (ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) with similarity to ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins) in that they contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and ankyrin (ANK) repeats. However, ASAPs contain an additional C-terminal SH3 domain. ASAPs function in regulating cell growth, migration, and invasion. Vertebrates contain at least three members, ASAP1, ASAP2, and ASAP3. ASAP1 and ASAP2 shows GTPase activating protein (GAP) activity towards Arf1 and Arf5. They do not show GAP activity towards Arf6, but is able to mediate
Probab=26.49 E-value=1.5e+02 Score=29.14 Aligned_cols=86 Identities=15% Similarity=0.101 Sum_probs=53.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhccCCccC-hhhHHHHHHHHHHhCcccC--cHHHHHHHHHHHHhhcCCCCCCCCCCCCCch
Q 009479 12 TEVEKRFETLKAEIEKLLVSNNTAWKT-LEEIVAIVNQLQRLGVAYH--FENEIKEALQTIYDSHVNGNCDVNYDHNNDL 88 (533)
Q Consensus 12 ~~~~~~~~~lk~~v~~~l~~~~~~~~d-~~~~l~liD~lqrLGi~~h--Fe~EI~~~L~~~~~~~~~~~~~~~~~~~~dl 88 (533)
+.++.+.++++.-+|.|..++. + .-....++++|+.||=..- .+.+|..+|...-. -+
T Consensus 12 ~~~~~~l~Kl~K~~k~~~~~g~----~~~~~~~~F~~aL~~~g~~~~~~~~~~i~~~l~kF~~---------------~l 72 (215)
T cd07604 12 EGDRVGLQKLKKAVKAIHNSGL----AHVENELQFAEALEKLGSKALSREEEDLGAAFLKFSV---------------FT 72 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHhHH----HHHHHHHHHHHHHHHHhccccCcccHHHHHHHHHHHH---------------HH
Confidence 3455667777777777776443 3 4457889999999993221 33457777644321 24
Q ss_pred HHHHHHHHHhhhcCcceehhhhhccccc
Q 009479 89 YIVALRFRLLRQHGYKVSADIFKKFRDE 116 (533)
Q Consensus 89 ~~~al~FrlLR~~Gy~vS~dvf~~F~d~ 116 (533)
..++=.+-.|++|=-++-...+.+|..+
T Consensus 73 ~El~~~~~~L~~~~~~~i~~pL~~f~k~ 100 (215)
T cd07604 73 KELAALFKNLMQNLNNIIMFPLDSLLKG 100 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555556677776555555567777644
No 40
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=25.92 E-value=54 Score=24.25 Aligned_cols=30 Identities=23% Similarity=0.408 Sum_probs=21.7
Q ss_pred CCC-ccCCCCCh-hHHHHHHHHHHHHHHHHHh
Q 009479 1 MCH-QMKRYYTN-TEVEKRFETLKAEIEKLLV 30 (533)
Q Consensus 1 ~~~-~~~~~~~~-~~~~~~~~~lk~~v~~~l~ 30 (533)
||. -.|+-.+. ++.+-|+.+|++|||.+=+
T Consensus 1 m~~~~~Knv~G~~e~l~vrv~eLEeEV~~LrK 32 (48)
T PF14077_consen 1 MCSTTEKNVLGDQEQLRVRVSELEEEVRTLRK 32 (48)
T ss_pred CcchhhccccCCcchheeeHHHHHHHHHHHHH
Confidence 566 45666664 4677799999999987544
No 41
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=25.10 E-value=1e+02 Score=31.29 Aligned_cols=66 Identities=26% Similarity=0.327 Sum_probs=49.9
Q ss_pred cchhhhhhcCCCCchHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH----------HHhhcCCCCCChhHHHHHHHHhhh
Q 009479 433 HTYKVEQERGDAPSSVECYVQQYGVSEEEACNKIKGMVEIEWMNI----------NEEIQDPNHPPLQWLLPSLNLARM 501 (533)
Q Consensus 433 ~S~~~E~~~G~~~n~V~cyMke~gvs~eeA~~~i~~~i~~~wk~l----------n~e~l~~~~~p~~~~~~~lN~aR~ 501 (533)
..|++||. .++.++..+...|.+.++|..+++--+++.+=++ +.+++...++|.-.+..+.++||-
T Consensus 95 ~~wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~a~e 170 (269)
T COG1093 95 QEWKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEIARE 170 (269)
T ss_pred HHHHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHHHHh
Confidence 34566666 3578888898899999999999988887765433 334444557888999999999983
No 42
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=21.78 E-value=90 Score=27.99 Aligned_cols=21 Identities=33% Similarity=0.480 Sum_probs=18.3
Q ss_pred HHHHHHhcCCCHHHHHHHHHH
Q 009479 448 VECYVQQYGVSEEEACNKIKG 468 (533)
Q Consensus 448 V~cyMke~gvs~eeA~~~i~~ 468 (533)
|.+.|.|-|+|.++|++.+.+
T Consensus 88 IkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 88 IKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 789999999999999987654
No 43
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=21.70 E-value=1.5e+02 Score=33.42 Aligned_cols=100 Identities=14% Similarity=0.204 Sum_probs=57.6
Q ss_pred HHhcCCCcCcHHHHHhhcchhHHHHHHHHHHHHhcCcc------chhhhhhcCCCC--chHHHHHHhcCCCHHHHHHHHH
Q 009479 396 LVGLEDMAITKRALDWAISVPKIIRSSSLIARLDDDVH------TYKVEQERGDAP--SSVECYVQQYGVSEEEACNKIK 467 (533)
Q Consensus 396 ~~~~g~~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDi~------S~~~E~~~G~~~--n~V~cyMke~gvs~eeA~~~i~ 467 (533)
++|||.. + -.-+..+..|+..-+.+...-||+. +.+++.-||..- ..+..=|.+.---.||-++.++
T Consensus 296 llGMGrE-V----eNLilENsqLLetKNALNiVKNDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k 370 (832)
T KOG2077|consen 296 LLGMGRE-V----ENLILENSQLLETKNALNIVKNDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAK 370 (832)
T ss_pred hhcchHH-H----HHHHHhhHHHHhhhhHHHHHHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477765 3 3335566778877777777778775 445555666542 1122233333233344455555
Q ss_pred HHHHHHHHHHHHhhcCCCCCChhHHHHH--HHHhhhh
Q 009479 468 GMVEIEWMNINEEIQDPNHPPLQWLLPS--LNLARMM 502 (533)
Q Consensus 468 ~~i~~~wk~ln~e~l~~~~~p~~~~~~~--lN~aR~~ 502 (533)
....++.+.-| +-..+.+|++..++| +.|||++
T Consensus 371 ~ea~~ar~~~~--~~e~ddiPmAqRkRFTRvEMaRVL 405 (832)
T KOG2077|consen 371 AEAEDARQKAK--DDEDDDIPMAQRKRFTRVEMARVL 405 (832)
T ss_pred HHHHHHHHhhc--ccccccccHHHHhhhHHHHHHHHH
Confidence 55554443311 122467999999998 7889986
No 44
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=21.45 E-value=84 Score=30.98 Aligned_cols=27 Identities=26% Similarity=0.589 Sum_probs=21.7
Q ss_pred CCCCchHHHHH-HhcCCCHHHHHHHHHH
Q 009479 442 GDAPSSVECYV-QQYGVSEEEACNKIKG 468 (533)
Q Consensus 442 G~~~n~V~cyM-ke~gvs~eeA~~~i~~ 468 (533)
|-....|.||| +++|+|..||++.++.
T Consensus 159 GRTG~liAc~lmy~~g~ta~eaI~~lR~ 186 (225)
T KOG1720|consen 159 GRTGTLIACYLMYEYGMTAGEAIAWLRI 186 (225)
T ss_pred CchhHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 44567888986 5689999999998875
Done!