Query 009848
Match_columns 524
No_of_seqs 196 out of 901
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 18:03:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009848hhsearch_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 3E-147 6E-152 1207.8 53.1 504 14-521 28-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 7E-137 2E-141 1147.8 46.7 481 34-524 267-778 (784)
3 PLN02592 ent-copalyl diphospha 100.0 5E-108 1E-112 911.7 43.3 443 34-523 307-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 8.1E-53 1.8E-57 398.3 15.3 161 9-169 18-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 1.7E-49 3.6E-54 397.6 20.1 269 199-468 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 1E-46 2.3E-51 380.0 30.7 283 213-497 1-284 (284)
7 cd00687 Terpene_cyclase_nonpla 100.0 1.3E-34 2.8E-39 296.0 22.1 247 217-472 14-265 (303)
8 PLN02150 terpene synthase/cycl 100.0 9.8E-31 2.1E-35 222.8 10.2 94 429-524 1-96 (96)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.8 3.3E-21 7.2E-26 186.0 11.2 226 251-491 5-243 (243)
10 PF06330 TRI5: Trichodiene syn 97.8 0.0004 8.7E-09 72.5 14.5 195 252-468 75-274 (376)
11 cd00686 Terpene_cyclase_cis_tr 97.7 0.00077 1.7E-08 69.4 13.8 218 247-491 69-293 (357)
12 cd00867 Trans_IPPS Trans-Isopr 92.7 2.1 4.6E-05 41.8 12.9 117 336-468 86-213 (236)
13 PF00494 SQS_PSY: Squalene/phy 92.6 6.7 0.00014 39.2 16.6 211 243-485 6-233 (267)
14 cd00685 Trans_IPPS_HT Trans-Is 88.6 24 0.00051 35.3 16.3 120 335-468 108-238 (259)
15 TIGR03465 HpnD squalene syntha 87.6 33 0.00072 34.5 16.8 193 261-487 19-224 (266)
16 TIGR03464 HpnC squalene syntha 84.1 49 0.0011 33.3 18.5 119 244-390 7-131 (266)
17 CHL00151 preA prenyl transfera 83.8 41 0.00088 35.0 15.5 89 335-427 134-222 (323)
18 TIGR02749 prenyl_cyano solanes 83.0 54 0.0012 34.2 16.0 89 335-427 133-221 (322)
19 PLN02890 geranyl diphosphate s 79.7 55 0.0012 35.5 15.0 91 334-428 226-316 (422)
20 PLN02857 octaprenyl-diphosphat 76.4 54 0.0012 35.5 13.8 89 335-427 227-315 (416)
21 COG0142 IspA Geranylgeranyl py 74.3 71 0.0015 33.3 13.7 110 334-448 133-252 (322)
22 PLN02632 phytoene synthase 69.6 1.5E+02 0.0033 31.0 19.0 193 262-483 75-281 (334)
23 cd00683 Trans_IPPS_HH Trans-Is 69.3 1.3E+02 0.0028 30.1 18.3 198 260-491 24-237 (265)
24 TIGR02748 GerC3_HepT heptapren 68.3 1.5E+02 0.0033 30.7 16.2 88 335-427 129-217 (319)
25 KOG1719 Dual specificity phosp 60.8 6.7 0.00014 36.6 2.4 29 430-458 119-148 (183)
26 PRK10888 octaprenyl diphosphat 57.8 2.4E+02 0.0052 29.4 16.3 89 335-428 130-219 (323)
27 KOG3887 Predicted small GTPase 48.2 31 0.00067 34.7 4.9 186 251-453 86-317 (347)
28 COG3707 AmiR Response regulato 46.5 16 0.00035 35.3 2.6 45 417-461 129-174 (194)
29 PF03861 ANTAR: ANTAR domain; 46.1 17 0.00037 27.6 2.2 28 434-461 15-42 (56)
30 COG4738 Predicted transcriptio 36.4 1.1E+02 0.0023 27.2 5.8 78 41-125 14-101 (124)
31 PF05772 NinB: NinB protein; 34.7 21 0.00045 32.2 1.3 58 317-378 43-101 (127)
32 PRK10581 geranyltranstransfera 32.0 4.3E+02 0.0092 27.2 10.6 111 345-468 152-275 (299)
33 PF12368 DUF3650: Protein of u 31.0 36 0.00079 22.5 1.6 18 440-457 9-26 (28)
34 PF14164 YqzH: YqzH-like prote 30.8 22 0.00047 28.2 0.7 21 83-103 9-29 (64)
35 smart00400 ZnF_CHCC zinc finge 30.0 52 0.0011 24.7 2.7 25 432-456 30-54 (55)
36 smart00463 SMR Small MutS-rela 28.3 66 0.0014 25.9 3.2 23 445-467 7-29 (80)
37 PF01713 Smr: Smr domain; Int 27.1 69 0.0015 26.0 3.1 27 445-472 4-30 (83)
38 COG3063 PilF Tfp pilus assembl 27.0 6.5E+02 0.014 25.3 10.2 148 22-202 54-212 (250)
39 PF00348 polyprenyl_synt: Poly 26.6 6.4E+02 0.014 25.0 12.4 81 345-428 113-194 (260)
40 COG1308 EGD2 Transcription fac 24.2 68 0.0015 28.7 2.7 22 437-458 87-108 (122)
41 PF05384 DegS: Sensor protein 23.7 1.7E+02 0.0036 27.5 5.3 53 15-69 32-88 (159)
42 PRK07122 RNA polymerase sigma 23.3 7.6E+02 0.016 24.7 12.8 108 236-368 40-148 (264)
43 KOG3951 Uncharacterized conser 22.9 1.1E+02 0.0023 30.9 4.0 57 105-170 264-320 (321)
44 COG1093 SUI2 Translation initi 22.6 1E+02 0.0023 31.1 3.9 65 424-491 96-169 (269)
45 cd07604 BAR_ASAPs The Bin/Amph 21.9 1.9E+02 0.0041 28.5 5.5 86 13-106 12-100 (215)
46 COG2443 Sss1 Preprotein transl 21.6 2.1E+02 0.0045 22.8 4.6 22 362-383 26-47 (65)
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=2.8e-147 Score=1207.82 Aligned_cols=504 Identities=50% Similarity=0.876 Sum_probs=489.8
Q ss_pred hHHHHHHHHHHHHHHHHhhc--hhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc-cC---CCCCChhhhHHHHHH
Q 009848 14 TTQEQYDALKQEVRRMITSA--VDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND-LG---SDSDNLYTVSLRFRL 87 (524)
Q Consensus 14 ~~~~~~~~lk~~v~~~l~~~--~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~-~~---~~~~dl~~~al~FRl 87 (524)
.+.+++++||++||+||... +.|++++|++||+||||||+|||++||+++|+++|++ .. ....||++|||+|||
T Consensus 28 ~~~~~~~~lk~~v~~~~~~~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~~~~~~~dl~~~al~FRl 107 (542)
T cd00684 28 ELEEEIEELKEEVRKMLEDSEYPVDLFERLWLIDRLQRLGISYHFEDEIKEILDYIYRYWTERGESNEDDLYTTALGFRL 107 (542)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHcCchhhhHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHH
Confidence 68999999999999999865 6899999999999999999999999999999999996 11 235799999999999
Q ss_pred hhhcCcccchhhhhccccccccccccccccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhhh---cCCCcHHHH
Q 009848 88 LRQQRVKISCDVFEKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMISR---VISNNLAEQ 164 (524)
Q Consensus 88 LR~~Gy~vS~dvf~~F~d~~g~F~~~~~~d~~glL~Ly~As~l~~~gE~iL~ea~~fs~~~L~~~~~~---~~~~~l~~~ 164 (524)
||||||+||||||++|+|++|+|++++.+||+||||||||||+++|||+|||||++||++||++++++ + +++|+++
T Consensus 108 LR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLdeA~~ft~~~L~~~~~~~~~~-~~~l~~~ 186 (542)
T cd00684 108 LRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLYEASHLSFPGEDILDEALSFTTKHLEEKLESNWII-DPDLSGE 186 (542)
T ss_pred HHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHHhhccCCC-CchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999986 5 7899999
Q ss_pred HHHHccCCccCCcchhHHHhhHHhhcCCCcCcHHHHHHHHhchHHHHHhhHHHHHHHHHHHHHcCCCCCChhHHHHHHHH
Q 009848 165 IQHALRLPLRKALPRLEARYYLNMYSRDDLHDETLLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRMVEV 244 (524)
Q Consensus 165 V~~aL~~P~~~~~~rlear~yi~~y~~~~~~n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~~aRdr~ve~ 244 (524)
|++||++|||+++||+|||+||++|++++++|++||||||+|||+||++||+||+++++||+++||.++|||+|+|+++|
T Consensus 187 V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~gL~~~l~~aRdr~ve~ 266 (542)
T cd00684 187 IEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPFARDRLVEC 266 (542)
T ss_pred HHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhcCCcccCCcccchhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999998889999999999
Q ss_pred HHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHH
Q 009848 245 YFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEA 324 (524)
Q Consensus 245 yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei 324 (524)
|||++ |++|||++|.+|+++||+++|+|++||+||.|||++|++.||+||+|||+++++++|+|||+||.+++++++++
T Consensus 267 yf~~~-a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei 345 (542)
T cd00684 267 YFWAA-GTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEI 345 (542)
T ss_pred HHHHH-hcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHH
Confidence 99999 99999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhc
Q 009848 325 EEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLK 404 (524)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~ 404 (524)
+.++.+++++++++|++++|++++++|++||+|+++||+||++|||++|++|+|++++++++++++|+.+|+++++|+..
T Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~ 425 (542)
T cd00684 346 EEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLES 425 (542)
T ss_pred HHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhc
Confidence 99988888889999999999999999999999999999999999999999999999999999999999999999999877
Q ss_pred hhHHHHHHHHHHHHhcCccchhhhhhcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhHHHhhcc-CCCChhHH
Q 009848 405 VPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNYEELLNL-IAMPLPLL 483 (524)
Q Consensus 405 ~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln~~e~l~~-~~~p~~~~ 483 (524)
+|+|+++++.++||+|||+||++|+++|+++|+|.|||+|+|+|+|+|+++++++|+++||++| ++++++ +++|++|+
T Consensus 426 ~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln-~e~l~~~~~~p~~~~ 504 (542)
T cd00684 426 RPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELN-EEFLKPSSDVPRPIK 504 (542)
T ss_pred cHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH-HHHhcCCCCCCHHHH
Confidence 7999999999999999999999999999999999999999999999999999999999999999 999998 78999999
Q ss_pred HHHHHHhhhhhhhcccCCCCCCCChh-HHHHHHHhhcCC
Q 009848 484 GPVLNLARMSEFIYEDGVDRYTNSYK-MKDQVALVLKDP 521 (524)
Q Consensus 484 ~~~~N~aR~~~~~Y~~~~Dg~t~~~~-~k~~I~~ll~~P 521 (524)
++++|+||+++++|+++ ||||.|+. ||++|++||++|
T Consensus 505 ~~~~n~~r~~~~~Y~~~-D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 505 QRFLNLARVIDVFYKEG-DGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHHHHHHHHHHHhcCC-CCCCCccHHHHHHHHHHhcCC
Confidence 99999999999999999 99999966 999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=7e-137 Score=1147.78 Aligned_cols=481 Identities=26% Similarity=0.415 Sum_probs=457.9
Q ss_pred hhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc--c--CCCCCChhhhHHHHHHhhhcCcccchhhhhcccccccc
Q 009848 34 VDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND--L--GSDSDNLYTVSLRFRLLRQQRVKISCDVFEKFKDDEGK 109 (524)
Q Consensus 34 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~--~--~~~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~d~~g~ 109 (524)
|.+.++++|+||+||||||+|||++||+++|+++|++ . .....|+++|||+|||||||||+||||||++|+|+ +
T Consensus 267 p~~~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~~~~~~~~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~-~- 344 (784)
T PLN02279 267 PLDQYARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWLQGEEEIFLDLATCALAFRILRLNGYDVSSDPLKQFAED-H- 344 (784)
T ss_pred cccHHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHHHcCCCCChhHHhhcCCC-c-
Confidence 5789999999999999999999999999999999995 1 11247999999999999999999999999999965 4
Q ss_pred ccccc---cccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhhh------cCCCcHHHHHHHHccCCccCCcchh
Q 009848 110 FKASM---INNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMISR------VISNNLAEQIQHALRLPLRKALPRL 180 (524)
Q Consensus 110 F~~~~---~~d~~glL~Ly~As~l~~~gE~iL~ea~~fs~~~L~~~~~~------~~~~~l~~~V~~aL~~P~~~~~~rl 180 (524)
|++++ .+||+||||||||||+++|||+|||||+.||++||++.+++ ..+++|+++|+|||++|||+++||+
T Consensus 345 F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~~~L~~eV~~AL~~P~~~~l~Rl 424 (784)
T PLN02279 345 FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLRKYIKKEVEDALNFPYYANLERL 424 (784)
T ss_pred ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccCccHHHHHHHHhcCchhcCccHH
Confidence 99987 69999999999999999999999999999999999998874 1267899999999999999999999
Q ss_pred HHHhhHHhhcCCCc------------CcHHHHHHHHhchHHHHHhhHHHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHH
Q 009848 181 EARYYLNMYSRDDL------------HDETLLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWT 248 (524)
Q Consensus 181 ear~yi~~y~~~~~------------~n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~~aRdr~ve~yf~a 248 (524)
|||+||++|++++. +|++||||||+|||+||++||+||++++|||+++||. ++||+|+|++|||||+
T Consensus 425 EaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L~-~L~faRdr~ve~Yf~a 503 (784)
T PLN02279 425 ANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRLD-KLKFARQKLAYCYFSA 503 (784)
T ss_pred HHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCCc-cCCchhhHHHHHHHHH
Confidence 99999999999885 8999999999999999999999999999999999995 9999999999999999
Q ss_pred hhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCC-CcCCCChhHHHHHHHHHHHHHHHHHH
Q 009848 249 LVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTN-VTDTLPACMKFIYNKLLGVYNEAEEE 327 (524)
Q Consensus 249 ~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~-~~~~lPe~mk~~~~al~~~~~ei~~~ 327 (524)
+ |++|||++|.+|++|||.+++++++||+||+|||+||++.||+||+|||++ .++.+|+|||+||.+++++++|++.+
T Consensus 504 a-a~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~ 582 (784)
T PLN02279 504 A-ATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDK 582 (784)
T ss_pred H-HhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHH
Confidence 9 999999999999999999999999999999999999999999999999998 56899999999999999999999876
Q ss_pred -HHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchh
Q 009848 328 -LAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVP 406 (524)
Q Consensus 328 -~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p 406 (524)
+.++|+ ++.+|++++|++++++|++||+|+.+||+||++|||+|+.+|+|++++++.+.+++|..+|+++++| +++|
T Consensus 583 ~~~~qGr-~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~-~~~~ 660 (784)
T PLN02279 583 AFTWQGR-NVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDS-PELH 660 (784)
T ss_pred HHHHcCc-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhC-cchh
Confidence 567777 9999999999999999999999999999999999999999999999999999999999999999999 6999
Q ss_pred HHHHHHHHHHHHhcCccchhhhhhcCCCCchhhHHHhcC--CCCHHHHHHHHHHHHHHHHHHhhHHHhhcc--CCCChhH
Q 009848 407 KIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQH--VVSEEEAEKALWLEIANGWKDLNYEELLNL--IAMPLPL 482 (524)
Q Consensus 407 ~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyMke~--gvS~eeA~~~i~~~i~~~wk~ln~~e~l~~--~~~p~~~ 482 (524)
+|+++++.++||+|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+|| ++++++ +++|++|
T Consensus 661 ~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn-~~~l~~~~~~vp~~~ 738 (784)
T PLN02279 661 KLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELL-RLVLQEKGSNVPREC 738 (784)
T ss_pred HHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHH-HHHhccCCCCCCHHH
Confidence 9999999999999999999999999998 9999999997 89999999999999999999999 999974 5799999
Q ss_pred HHHHHHHhhhhhhhcccCCCCCCCChhHHHHHHHhhcCCcCC
Q 009848 483 LGPVLNLARMSEFIYEDGVDRYTNSYKMKDQVALVLKDPVTF 524 (524)
Q Consensus 483 ~~~~~N~aR~~~~~Y~~~~Dg~t~~~~~k~~I~~ll~~Pi~~ 524 (524)
++++||++|++++||+++ ||||.+ .||++|+++|++|||+
T Consensus 739 ~~~~ln~aR~~~~~Y~~~-Dgyt~~-~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 739 KDLFWKMSKVLHLFYRKD-DGFTSN-DMMSLVKSVIYEPVSL 778 (784)
T ss_pred HHHHHHHHHhhhhheeCC-CCCChH-HHHHHHHHHhccCCcC
Confidence 999999999999999999 999975 6999999999999985
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=4.9e-108 Score=911.67 Aligned_cols=443 Identities=23% Similarity=0.369 Sum_probs=401.6
Q ss_pred hhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc--cCC-------CCCChhhhHHHHHHhhhcCcccchhhhhccc
Q 009848 34 VDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND--LGS-------DSDNLYTVSLRFRLLRQQRVKISCDVFEKFK 104 (524)
Q Consensus 34 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~--~~~-------~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~ 104 (524)
|.+++++||+||+||||||+|||++||+++|+++|++ ... ...|+++|||+|||||||||+||||||++|+
T Consensus 307 P~d~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F~ 386 (800)
T PLN02592 307 PVDLFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHFE 386 (800)
T ss_pred CCcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhhc
Confidence 5789999999999999999999999999999999984 111 2479999999999999999999999999998
Q ss_pred cccccccccc---cccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhh--hc-----CCCcHHHHHHHHccCCcc
Q 009848 105 DDEGKFKASM---INNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMIS--RV-----ISNNLAEQIQHALRLPLR 174 (524)
Q Consensus 105 d~~g~F~~~~---~~d~~glL~Ly~As~l~~~gE~iL~ea~~fs~~~L~~~~~--~~-----~~~~l~~~V~~aL~~P~~ 174 (524)
+ +|+|++.. .+|++||||||||||+++|||.|||+|+.||+++|++.++ ++ .+++|+++|+|||++|||
T Consensus 387 ~-~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~~~L~~eV~~AL~~P~~ 465 (800)
T PLN02592 387 K-GGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWY 465 (800)
T ss_pred C-CCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhh
Confidence 6 79998654 8999999999999999999999999999999999999864 11 256899999999999999
Q ss_pred CCcchhHHHhhHHhhcCCCcC-------------cHHHHHHHHhchHHHHHhhHHHHHHHHHHHHHcCCCCCChhHHHHH
Q 009848 175 KALPRLEARYYLNMYSRDDLH-------------DETLLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRM 241 (524)
Q Consensus 175 ~~~~rlear~yi~~y~~~~~~-------------n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~~aRdr~ 241 (524)
+++||+|||+||++|++++++ |+.||||||+|||+||++||+||++++|||+++||. +|+|||+|+
T Consensus 466 ~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsrWwke~~L~-~L~faRdr~ 544 (800)
T PLN02592 466 ASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQKWYEECNLG-EFGVSRSEL 544 (800)
T ss_pred cCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHhcCCC-cCCcchhHH
Confidence 999999999999999977654 999999999999999999999999999999999996 899999999
Q ss_pred HHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhh--------hcCCCCcCCCCh-----
Q 009848 242 VEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVK--------RWDTNVTDTLPA----- 308 (524)
Q Consensus 242 ve~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~--------rWd~~~~~~lPe----- 308 (524)
+|||||++ |++|||+||.+|++|||.+++++++||+||+|||+||++.||++|+ |||.+.+++||+
T Consensus 545 ve~Yfwa~-~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~ 623 (800)
T PLN02592 545 LLAYFLAA-ASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSV 623 (800)
T ss_pred HHHHHHHH-HhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccch
Confidence 99999999 9999999999999999999999999999999999999999999996 899999999988
Q ss_pred -hHHHHHHHHHHHHHHHHHH-HHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHH
Q 009848 309 -CMKFIYNKLLGVYNEAEEE-LAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTAS 386 (524)
Q Consensus 309 -~mk~~~~al~~~~~ei~~~-~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~ 386 (524)
|||+||.|+++++|+++.+ +..||+ ++.++++++|.++++ +|..+|+ +|+|...+++.+
T Consensus 624 ~~mki~f~aLy~tineia~~a~~~qGr-~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~ 684 (800)
T PLN02592 624 KTGEELVGLLLGTLNQLSLDALEAHGR-DISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKT 684 (800)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHH
Confidence 9999999999999999866 555665 999999999999999 5666665 445666666666
Q ss_pred HH-hcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchhhHHHhcCC-CCHHHHHHHHHHHHHHHH
Q 009848 387 FL-DMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHV-VSEEEAEKALWLEIANGW 464 (524)
Q Consensus 387 ~~-~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyMke~g-vS~eeA~~~i~~~i~~~w 464 (524)
++ .+|..+|++++ .+|++.++++.+.||+||++||++|+.. .| +|+ +|.+++.+.|+.++
T Consensus 685 ~~l~~g~~lsee~l----~~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~ 746 (800)
T PLN02592 685 INLTAGRSLSEELL----AHPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDM 746 (800)
T ss_pred HHHhcCCCCCHHHc----cchhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHH
Confidence 66 56999999975 4799999999999999999999998841 23 455 89999999999999
Q ss_pred HHhhHHHhhcc--CCCChhHHHHHHHHhhhhhhhcccCCCCCCCChhHHHHHHHhhcCCcC
Q 009848 465 KDLNYEELLNL--IAMPLPLLGPVLNLARMSEFIYEDGVDRYTNSYKMKDQVALVLKDPVT 523 (524)
Q Consensus 465 k~ln~~e~l~~--~~~p~~~~~~~~N~aR~~~~~Y~~~~Dg~t~~~~~k~~I~~ll~~Pi~ 523 (524)
+++. +.+++. +.+|++||+.|||++| +||. .||+.|..|+++|.++|++||+
T Consensus 747 ~eL~-~lvl~~~~~~vp~~cK~~f~~~~k---~fy~---~~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 747 QELV-QLVLQNSSDDIDPVIKQTFLMVAK---SFYY---AAYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHHH-HHHhhcCCCCCCHHHHHHHHHHHH---HHHH---hhcCCHHHHHHHHHHHhCCCCC
Confidence 9999 999973 4699999999999999 5676 3899997899999999999985
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=8.1e-53 Score=398.27 Aligned_cols=161 Identities=50% Similarity=0.800 Sum_probs=139.8
Q ss_pred cccchhHHHHHHHHHHHHHHHHhhchhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhcc--CC-CCCChhhhHHHH
Q 009848 9 QTIDTTTQEQYDALKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLANDL--GS-DSDNLYTVSLRF 85 (524)
Q Consensus 9 ~~~~~~~~~~~~~lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~--~~-~~~dl~~~al~F 85 (524)
+...+.+.+++++||++||+||.....|+.++|+|||+||||||+|||++||+++|+++|+.. .. ...||++|||+|
T Consensus 18 ~~~~~~~~~~~~~Lk~~v~~~l~~~~~d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~~~~~~~~~~dL~~~AL~F 97 (183)
T PF01397_consen 18 QSEDEKCKERAEELKEEVRNMLPASYPDPLEKLELIDTLQRLGISYHFEDEIKEILDSIYRSWDEDNEEIDDLYTTALRF 97 (183)
T ss_dssp HHHCHHHHHHHHHHHHHHHHHHHSSSSHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHTTTTTSHTSSCHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhhccccccccCchhHHHHHH
Confidence 345678999999999999999987545899999999999999999999999999999999961 11 235999999999
Q ss_pred HHhhhcCcccchhhhhccccccccccccccccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhhhcCC--CcHHH
Q 009848 86 RLLRQQRVKISCDVFEKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMISRVIS--NNLAE 163 (524)
Q Consensus 86 RlLR~~Gy~vS~dvf~~F~d~~g~F~~~~~~d~~glL~Ly~As~l~~~gE~iL~ea~~fs~~~L~~~~~~~~~--~~l~~ 163 (524)
||||||||+||||||++|+|++|+|+.++.+||+||||||||||+++|||+|||||+.||++||++++++... ++|++
T Consensus 98 RLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~~L~~~~~~~~~~~~~L~~ 177 (183)
T PF01397_consen 98 RLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTKHLKSLLSNLSIPDPHLAK 177 (183)
T ss_dssp HHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHHHHHHHHTTTCTTSCHHHH
T ss_pred HHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhccCCCCcHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999986522 34999
Q ss_pred HHHHHc
Q 009848 164 QIQHAL 169 (524)
Q Consensus 164 ~V~~aL 169 (524)
+|+|||
T Consensus 178 ~V~~AL 183 (183)
T PF01397_consen 178 EVKHAL 183 (183)
T ss_dssp HHHHHH
T ss_pred HHHHhC
Confidence 999997
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=1.7e-49 Score=397.57 Aligned_cols=269 Identities=29% Similarity=0.407 Sum_probs=246.6
Q ss_pred HHHHHHhchHHHHHhhHHHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhh
Q 009848 199 LLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDT 278 (524)
Q Consensus 199 lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~~aRdr~ve~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~ 278 (524)
+|+|||+|||+||++||+|++++++||+++|+..+.+.+|+|++.++|+.+ +++++|+.+..|+++||+++|+|++||+
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~~~~~~~~~~~~~~-aa~~~P~~~~~l~~~a~~~~w~f~~DD~ 79 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKAARQRFRQAYFGLL-AARFYPDSSDELLAAADWMAWLFIFDDF 79 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTTSHHHHHHHHHHHH-HHHHSGCGHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCccccccchhhhhHhHHhhh-hheeCCCcHHHHHHHHhhchheeeeeec
Confidence 689999999999999999999999999999994466778999999999999 8888899666777999999999999999
Q ss_pred cccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHh-CCCcchHHHHHHHHHHHHHHHHHHHH
Q 009848 279 FDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQ-GRSYGIPYAKQTMQEVILMYFTEAKW 357 (524)
Q Consensus 279 fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~-~~~~~~~~~~~~w~~~~~a~l~EA~W 357 (524)
||.+|+.++++.++++++||++.....+|+++++++.++.++++++...+.+. ++..+.++|+++|.+|++++++|++|
T Consensus 80 ~D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 159 (270)
T PF03936_consen 80 FDDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARW 159 (270)
T ss_dssp HHTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999987777899999999999999999997665443 33236778999999999999999999
Q ss_pred hhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCccchhhhhhcCCCCch
Q 009848 358 LKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSA 437 (524)
Q Consensus 358 ~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~ 437 (524)
+..|++||++||+++|+.|+|+++++.++++++|..+++...+++.++|.+.++++.+++|+|||+||+||.++|+.+|+
T Consensus 160 ~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~ 239 (270)
T PF03936_consen 160 RERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNL 239 (270)
T ss_dssp HHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSH
T ss_pred hccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccH
Confidence 99999999999999999999999999999999987788777777777788999999999999999999999999999999
Q ss_pred hhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 009848 438 VECYMKQHVVSEEEAEKALWLEIANGWKDLN 468 (524)
Q Consensus 438 V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln 468 (524)
|.|+|+++|+|.|+|++++.+|+++++++||
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 9999999999999999999999999999997
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=1e-46 Score=380.05 Aligned_cols=283 Identities=50% Similarity=0.865 Sum_probs=264.9
Q ss_pred hhHHHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHH
Q 009848 213 AHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFT 292 (524)
Q Consensus 213 ~hq~El~~lsrW~~~~~l~~~l~~aRdr~ve~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft 292 (524)
.||+|++++++||+++||....+++|.+...+|+|++ +++|+|+.+..|+++||+++|+|++||+||.+|+.+++..++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~~r~~~~~~~~~~a-~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~ 79 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPFARDRLVECYFWAA-GSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFT 79 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCchhhHhHHHHHHHH-HhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHH
Confidence 4999999999999999997654599999999999999 999999999999999999999999999999999999999999
Q ss_pred HHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhh
Q 009848 293 EAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSV 372 (524)
Q Consensus 293 ~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~ 372 (524)
++++||+....+.+|+++++++.++.++++++.....+++++...+++++.|.+|+.++.+|++|+..|++||++||+.+
T Consensus 80 ~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 80 EAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 99999998888889999999999999999999877777667789999999999999999999999999999999999999
Q ss_pred hhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchhhHHHhcCCCCHHHH
Q 009848 373 ALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEA 452 (524)
Q Consensus 373 ~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyMke~gvS~eeA 452 (524)
|+.|+|+++++.++++++|..+|++.+.+.+..+++++.++.+++|+||++||+||+.+|+.+|+|.|||+++|+|.++|
T Consensus 160 R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA 239 (284)
T cd00868 160 RRVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEEA 239 (284)
T ss_pred ceehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHHH
Confidence 99999999999999999999999955555588899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhHHHhhcc-CCCChhHHHHHHHHhhhhhhhc
Q 009848 453 EKALWLEIANGWKDLNYEELLNL-IAMPLPLLGPVLNLARMSEFIY 497 (524)
Q Consensus 453 ~~~i~~~i~~~wk~ln~~e~l~~-~~~p~~~~~~~~N~aR~~~~~Y 497 (524)
++++.++++++|++++ +.+.+. .+.|+.+++.+.|.+|.....|
T Consensus 240 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 240 LEELRKMIEEAWKELN-EEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 9999999999999999 999864 3678999999999999876654
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=1.3e-34 Score=296.02 Aligned_cols=247 Identities=17% Similarity=0.124 Sum_probs=214.9
Q ss_pred HHHH-HHHHHHHcCCCCCChhHHHHHHHHHHHHhhccccCCCccchhH-HHHHHHHHHHhhhhhcccC-CCHHHHHHHHH
Q 009848 217 ELSD-MTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRI-LVSKIICLISLIDDTFDAY-GTFEELTLFTE 293 (524)
Q Consensus 217 El~~-lsrW~~~~~l~~~l~~aRdr~ve~yf~a~~a~~feP~~s~~Rl-~~ak~~~l~~v~DD~fD~~-gt~eEl~~ft~ 293 (524)
+++. ...|..+.|+.. -+.+|+++..++|+.+ +.++.|+++..|+ ++++++.|+|++||+||.. +++++++.+++
T Consensus 14 ~~~~~~~~w~~~~~l~~-~~~~~~~~~~~~~~~~-~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~ 91 (303)
T cd00687 14 EAQDEYLEWVLEEMLIP-SEKAEKRFLSADFGDL-AALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVT 91 (303)
T ss_pred HHHHHHHHHHHHcCCCC-cchhHHHHhcCCHHHH-HhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHH
Confidence 4344 456999997753 3689999999999887 7778899999999 7789999999999999987 58999999999
Q ss_pred HhhhcCCC-CcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhh
Q 009848 294 AVKRWDTN-VTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSV 372 (524)
Q Consensus 294 ai~rWd~~-~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~ 372 (524)
.+.++... ..+. |....++..++.+++.++.... ++...++|++.|.+|+.|+++|++|+.+|++||++||+++
T Consensus 92 ~~~~~~~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~----~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~ 166 (303)
T cd00687 92 RLLDILRGDGLDS-PDDATPLEFGLADLWRRTLARM----SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEM 166 (303)
T ss_pred HHHhccCCCCCCC-CCCCCHHHHHHHHHHHHhccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHH
Confidence 88885443 2222 5677889999999999886432 2345679999999999999999999999999999999999
Q ss_pred hhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCccchhhhh-hcCCCCchhhHHHhcCCCCHHH
Q 009848 373 ALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQ-KRGHIPSAVECYMKQHVVSEEE 451 (524)
Q Consensus 373 ~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~-~rG~~~n~V~cyMke~gvS~ee 451 (524)
|+.|+|+.+++.++++++|..+|+++.+. +...++.++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|+
T Consensus 167 R~~~~g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~e 245 (303)
T cd00687 167 RRFNIGADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEE 245 (303)
T ss_pred hhhcccccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHH
Confidence 99999999999999999999999998665 555679999999999999999999999 8999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhHHHh
Q 009848 452 AEKALWLEIANGWKDLNYEEL 472 (524)
Q Consensus 452 A~~~i~~~i~~~wk~ln~~e~ 472 (524)
|++++.++++++++++. +..
T Consensus 246 A~~~~~~~~~~~~~~f~-~~~ 265 (303)
T cd00687 246 AISVVRDMHNERITQFE-ELE 265 (303)
T ss_pred HHHHHHHHHHHHHHHHH-HHH
Confidence 99999999999999987 544
No 8
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=9.8e-31 Score=222.82 Aligned_cols=94 Identities=36% Similarity=0.619 Sum_probs=91.0
Q ss_pred hhcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhHHHhhccCCCChhHHHHHHHHhhhhhhh-cccCCCCCCCC
Q 009848 429 QKRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNYEELLNLIAMPLPLLGPVLNLARMSEFI-YEDGVDRYTNS 507 (524)
Q Consensus 429 ~~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~~~~~N~aR~~~~~-Y~~~~Dg~t~~ 507 (524)
++|||++|+|+|||||||+|+|||++++++||+++||++| +|+++++++|.+++++++|+||+++++ |++| ||||.+
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN-~e~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~-Dg~t~~ 78 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVM-EEFLTIKDVPRPVLVRCLNLARLIDVYCYNEG-DGFTYP 78 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHH-HHHcCCCCCCHHHHHHHHHHHHHHHhheecCC-CCCCCC
Confidence 5799999999999999999999999999999999999999 999999999999999999999999999 9999 999988
Q ss_pred hh-HHHHHHHhhcCCcCC
Q 009848 508 YK-MKDQVALVLKDPVTF 524 (524)
Q Consensus 508 ~~-~k~~I~~ll~~Pi~~ 524 (524)
.. +|++|++||++|||+
T Consensus 79 ~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 79 HGKLKDLITSLFFHPLPL 96 (96)
T ss_pred cHHHHHHHHHHhccCCCC
Confidence 65 999999999999986
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=3.3e-21 Score=186.00 Aligned_cols=226 Identities=26% Similarity=0.241 Sum_probs=182.5
Q ss_pred ccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 009848 251 GVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAK 330 (524)
Q Consensus 251 a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~ 330 (524)
++++.|+++..|..++++.+|++++||++|..++..........+ .....|..+...+..+...+.++....
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 76 (243)
T cd00385 5 AVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELAREG-- 76 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhCC--
Confidence 567789888999999999999999999999888766655554333 123456777777888888888875321
Q ss_pred hCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHH
Q 009848 331 QGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIIT 410 (524)
Q Consensus 331 ~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~ 410 (524)
.+....++.+.|.+++.|+.+|+.|+.. .+||++||+.++..++ +.++..+..++++...|+ ..+......+..
T Consensus 77 --~~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 150 (243)
T cd00385 77 --SPEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGE--AELLEALRKLGR 150 (243)
T ss_pred --CHHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCC--HHHHHHHHHHHH
Confidence 1356779999999999999999999877 8899999999999998 566666777777766665 344456678889
Q ss_pred HHHHHHHHhcCccchhhhhhcC-CCCchhhHHHhcCCC------------CHHHHHHHHHHHHHHHHHHhhHHHhhccCC
Q 009848 411 ASENICRLLDDVASHKFEQKRG-HIPSAVECYMKQHVV------------SEEEAEKALWLEIANGWKDLNYEELLNLIA 477 (524)
Q Consensus 411 ~~~~i~RL~NDI~S~~kE~~rG-~~~n~V~cyMke~gv------------S~eeA~~~i~~~i~~~wk~ln~~e~l~~~~ 477 (524)
..+.+.+|.||+.|+.+|.++| +.+|++.++|+++|+ +.++|.+++..+++++|++++ +.......
T Consensus 151 ~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~ 229 (243)
T cd00385 151 ALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELN-ELILSLPD 229 (243)
T ss_pred HHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHh-cCCCCcHH
Confidence 9999999999999999999996 678999999999998 889999999999999999999 77654323
Q ss_pred CChhHHHHHHHHhh
Q 009848 478 MPLPLLGPVLNLAR 491 (524)
Q Consensus 478 ~p~~~~~~~~N~aR 491 (524)
.+..++..+.|++|
T Consensus 230 ~~~~~~~~~~~~~~ 243 (243)
T cd00385 230 VPRALLALALNLYR 243 (243)
T ss_pred HHHHHHHHHHHHhC
Confidence 56677777777653
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=97.81 E-value=0.0004 Score=72.50 Aligned_cols=195 Identities=14% Similarity=0.125 Sum_probs=116.3
Q ss_pred cccCCCccc-hhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 009848 252 VYCEPKYTF-GRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAK 330 (524)
Q Consensus 252 ~~feP~~s~-~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~ 330 (524)
++..|..+. .++.++-+.++++.+||.++.. .+++..|-.-+-. +..- | . ++..++.+.+.++. +
T Consensus 75 ~~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~Q---~-~--p~L~~~~~~L~~~~----~ 140 (376)
T PF06330_consen 75 VYCYPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQPQ---K-H--PLLDGFASLLREMW----R 140 (376)
T ss_dssp HHHSTTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T------S-S--HHHHHHHHHHHHHH----T
T ss_pred EeecCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CCCC---C-C--HHHHHHHHHHHHHH----H
Confidence 344576664 4668899999999999998765 4666666665544 2111 1 1 34445544444443 2
Q ss_pred hCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHH
Q 009848 331 QGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIIT 410 (524)
Q Consensus 331 ~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~ 410 (524)
.=++.+..-+.++--+++.+..-|.+.. +-.|.-..|-..-|.=+|...+.+...+- ....|+. .....++.
T Consensus 141 ~fgpf~anmI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiFP-k~~fpe~-----~~~~~y~~ 212 (376)
T PF06330_consen 141 HFGPFCANMIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIFP-KALFPEV-----EYFIQYTP 212 (376)
T ss_dssp TS-HHHHHHHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT---TTTS-TT-----TTHHHHHH
T ss_pred HcchHHHHHHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeecc-cccCChH-----HHHHHHHH
Confidence 2234566678888899999999997643 22354444555445656666665544431 2223322 22333333
Q ss_pred H---HHHHHHHhcCccchhhhhh-cCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 009848 411 A---SENICRLLDDVASHKFEQK-RGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 468 (524)
Q Consensus 411 ~---~~~i~RL~NDI~S~~kE~~-rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln 468 (524)
+ ....+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|.+.+..-.-.+-+++.
T Consensus 213 AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~ 274 (376)
T PF06330_consen 213 AIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVR 274 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3 3344459999999999977 78889999888888899999999998766666666654
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=97.67 E-value=0.00077 Score=69.42 Aligned_cols=218 Identities=14% Similarity=0.103 Sum_probs=128.8
Q ss_pred HHhhccccCCC--ccchhH-HHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHH
Q 009848 247 WTLVGVYCEPK--YTFGRI-LVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNE 323 (524)
Q Consensus 247 ~a~~a~~feP~--~s~~Rl-~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~e 323 (524)
.++ ++..+|. .|..=+ .++-..+.++++||.-|.. .+.++.|.+-+.. +.+ ..-| +...+.+.+..
T Consensus 69 T~v-~~~~Y~w~~~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~--G~~-qkhP-----~l~~v~~~l~~ 137 (357)
T cd00686 69 TIV-GMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA--GRE-QAHP-----WWALVNEHFPN 137 (357)
T ss_pred Hhh-ceEEeeccCCCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc--CCC-CCCc-----HHHHHHHHHHH
Confidence 444 5533355 555544 6666777888999997754 3456666655554 211 1112 22222222222
Q ss_pred HHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhh
Q 009848 324 AEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVL 403 (524)
Q Consensus 324 i~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~ 403 (524)
+- ..=||.+..-+.++--+++.+.+-|.. +.+.-|.-.+|-...|.=+|.+-+.+...+ |++.|.-..
T Consensus 138 ~l----r~fGpF~s~~IikSTLdFv~g~~iEq~--nf~~~p~A~~fP~ylR~ksGl~E~yA~FiF------Pk~~FpE~~ 205 (357)
T cd00686 138 VL----RHFGPFCSLNLIRSTLDFFEGCWIEQY--NFGGFPGSHDYPQFLRRMNGLGHCVGASLW------PKEQFNERS 205 (357)
T ss_pred HH----HHhhhhhHHHHHHHHHHHHHHHHHhhh--ccCCCCCCcccchHHHhccCCcceeEEEec------chhhCchHh
Confidence 21 122345666677888889999999965 334467666777766666666654443322 444332222
Q ss_pred chhHHHHHHHH---HHHHhcCccchhhhhhc-CCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhHHHhhccCCCC
Q 009848 404 KVPKIITASEN---ICRLLDDVASHKFEQKR-GHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNYEELLNLIAMP 479 (524)
Q Consensus 404 ~~p~l~~~~~~---i~RL~NDI~S~~kE~~r-G~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln~~e~l~~~~~p 479 (524)
.+..+..+... .+-++|||.||=||.-. ++..|.|.-|-+.+|+|..+|.+.+..-.-.+-+++. .+|.+.. |
T Consensus 206 ~~~qi~~AIp~~~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~--~VLse~d-p 282 (357)
T cd00686 206 LFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMV--AVFSDKD-P 282 (357)
T ss_pred hHHHhhHHHHHHHHHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHH--HHhcCCC-h
Confidence 23333334443 34589999999999854 4567999999999999999999988777766777754 4455432 2
Q ss_pred hhHHHHHHHHhh
Q 009848 480 LPLLGPVLNLAR 491 (524)
Q Consensus 480 ~~~~~~~~N~aR 491 (524)
.++..+=++++
T Consensus 283 -~l~~av~~Fi~ 293 (357)
T cd00686 283 -QVMDTIECFMH 293 (357)
T ss_pred -HHHHHHHHHHH
Confidence 23344444444
No 12
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=92.70 E-value=2.1 Score=41.82 Aligned_cols=117 Identities=11% Similarity=0.094 Sum_probs=78.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhh-ccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 336 GIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALR-SIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 336 ~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~-S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
....+.+....++.|...+..|... ..||.++|+..... |++..-..+..-...+. -+++..+ ...++.+..+.
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~lG~ 160 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAE---ALKDYGRALGL 160 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHH---HHHHHHHHHHH
Confidence 4556778889999999999988654 57999999999888 66554443333332222 2333322 23567778888
Q ss_pred HHHHhcCccchhhhh----------hcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 009848 415 ICRLLDDVASHKFEQ----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 468 (524)
Q Consensus 415 i~RL~NDI~S~~kE~----------~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln 468 (524)
..-+.||+..+.... ++|.. +...+++ .+.+.+.++.+++.+.
T Consensus 161 a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~ 213 (236)
T cd00867 161 AFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALE 213 (236)
T ss_pred HHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHH
Confidence 889999999886655 55655 5665666 5556666666666655
No 13
>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=92.61 E-value=6.7 Score=39.24 Aligned_cols=211 Identities=14% Similarity=0.116 Sum_probs=109.4
Q ss_pred HHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHH----HHHHHHHHhhhcCCCCcCCCChhHHHHHHHHH
Q 009848 243 EVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFE----ELTLFTEAVKRWDTNVTDTLPACMKFIYNKLL 318 (524)
Q Consensus 243 e~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~e----El~~ft~ai~rWd~~~~~~lPe~mk~~~~al~ 318 (524)
..+|+++ .+. | ...|-.+.-+-.+.-.+||+-|...... -++-+-+++...-.+..+..|....++..++.
T Consensus 6 ~sf~~a~--~~l-P--~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~ 80 (267)
T PF00494_consen 6 RSFYLAS--LLL-P--KEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALA 80 (267)
T ss_dssp HHHHHHH--TTS----HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHH
T ss_pred ccHHHHH--HHC-C--HHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHH
Confidence 3444444 333 6 3455555567888888999999766422 24455555554221111122334445666665
Q ss_pred HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCH-H
Q 009848 319 GVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATK-E 397 (524)
Q Consensus 319 ~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~-e 397 (524)
.+..+.. --.+.+.++++|+.+.. ....++|++|+......++|....+++..++... ++ +
T Consensus 81 ~~~~~~~-------------l~~~~l~~li~~~~~dl---~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~--~~~~ 142 (267)
T PF00494_consen 81 DLVRRYG-------------LPREPLLELIDGMEMDL---EFTPYETFADLERYCYYVAGSVGLLLLQLLGAHD--PDEA 142 (267)
T ss_dssp HHHCCSH-------------HHHHHHHHHHHHHHHCT---T-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST--SHHH
T ss_pred HHHHHHh-------------hhHHHHHHHHHHhcccc---cCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc--chhh
Confidence 4432221 34455677777776443 3355889999999998888887777776665531 22 2
Q ss_pred HHHHhhchhHHHHHHHHHHHHhcCccchhhh-hhcCCCCchhhHHHhcCCCCHHHHHHH----------HHHHHHHHHHH
Q 009848 398 VFEWVLKVPKIITASENICRLLDDVASHKFE-QKRGHIPSAVECYMKQHVVSEEEAEKA----------LWLEIANGWKD 466 (524)
Q Consensus 398 ~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE-~~rG~~~n~V~cyMke~gvS~eeA~~~----------i~~~i~~~wk~ 466 (524)
..+ .....+..+-+.|=+...... ..+|-+- .=.=.|.++|+|.++-... +..+++.+...
T Consensus 143 ~~~-------~a~~lG~alql~nilRd~~~D~~~~gR~y-lP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~ 214 (267)
T PF00494_consen 143 ARD-------AARALGRALQLTNILRDIPEDALRRGRIY-LPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAH 214 (267)
T ss_dssp HHH-------HHHHHHHHHHHHHHHHTHHHH-HHTT----S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHH
T ss_pred HHH-------HHHHHHHHHHHHHHHHHhHHHHHhccccc-CCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHH
Confidence 222 223334444444444444555 5666541 1123578899988875432 45555555555
Q ss_pred hhHHHhhccCCC-ChhHHHH
Q 009848 467 LNYEELLNLIAM-PLPLLGP 485 (524)
Q Consensus 467 ln~~e~l~~~~~-p~~~~~~ 485 (524)
+. +..--...+ |..+...
T Consensus 215 l~-~a~~~~~~l~~~~~~~~ 233 (267)
T PF00494_consen 215 LD-EARAGLSALPPPRARPA 233 (267)
T ss_dssp HH-HHHHGGGGS--TTHHHH
T ss_pred HH-HHHHHHHHcCCHhhhHH
Confidence 44 333222446 4444433
No 14
>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=88.58 E-value=24 Score=35.34 Aligned_cols=120 Identities=11% Similarity=-0.020 Sum_probs=76.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
.....+.+.+...+.+-..+..|... ..||.++|++....-+|.....+....++--..+++..+- ..++-+..+.
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG~ 183 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLGL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 45566778888888998889888654 5799999999987777766444332222211123443322 3567777788
Q ss_pred HHHHhcCccchhhhh-----------hcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 009848 415 ICRLLDDVASHKFEQ-----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 468 (524)
Q Consensus 415 i~RL~NDI~S~~kE~-----------~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln 468 (524)
..-+.||+..+.... .+|.. |...+|.- .+.+...++++++.+.
T Consensus 184 afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~ 238 (259)
T cd00685 184 AFQIQDDILDLFGDPETLGKPVGSDLREGKC-TLPVLLAL---------RELAREYEEKALEALK 238 (259)
T ss_pred HHHHHHHhhcccCChHHHCCCcchHHHcCCc-hHHHHHHH---------HHHHHHHHHHHHHHHH
Confidence 888999988775432 22333 45444443 5566677777777666
No 15
>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=87.64 E-value=33 Score=34.47 Aligned_cols=193 Identities=13% Similarity=0.079 Sum_probs=95.9
Q ss_pred hhHHHHHHHHHHHhhhhhcccCCCHHH----HHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcc
Q 009848 261 GRILVSKIICLISLIDDTFDAYGTFEE----LTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYG 336 (524)
Q Consensus 261 ~Rl~~ak~~~l~~v~DD~fD~~gt~eE----l~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~ 336 (524)
.|-.+.-+-.+.-.+||+-|..++.++ |+-+-+++..-... -|. .++..++..++.+. + -
T Consensus 19 ~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g----~~~--~pv~~al~~~~~~~--------~-l- 82 (266)
T TIGR03465 19 RRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAG----APS--HPVARALADPARRF--------D-L- 82 (266)
T ss_pred HHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCC----CCC--ChHHHHHHHHHHHc--------C-C-
Confidence 344444567777789999997554433 33333333331111 121 24555554443321 1 0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHH
Q 009848 337 IPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENIC 416 (524)
Q Consensus 337 ~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~ 416 (524)
-++.+.++++++.+... ...++|++|+......+.|.-..+++-.++.. ++.... .....+...
T Consensus 83 ---~~~~~~~li~g~~~Dl~---~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~-------~a~~lG~Al 146 (266)
T TIGR03465 83 ---PQEDFLEVIDGMEMDLE---QTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLE-------YAHHLGRAL 146 (266)
T ss_pred ---CHHHHHHHHHHHHHHcC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHH-------HHHHHHHHH
Confidence 13456777777764433 44678999988888777776666555555322 122211 122222222
Q ss_pred HHhcCccchhhhhhcCCCCchhhHHHhcCCCCHH---------HHHHHHHHHHHHHHHHhhHHHhhccCCCChhHHHHHH
Q 009848 417 RLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEE---------EAEKALWLEIANGWKDLNYEELLNLIAMPLPLLGPVL 487 (524)
Q Consensus 417 RL~NDI~S~~kE~~rG~~~n~V~cyMke~gvS~e---------eA~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~~~~~ 487 (524)
-|.|=+.......++|-+ -+=.=.|.++|+|.+ ...+-+..+++.+..-+. +..--...+|......++
T Consensus 147 qltnilRdv~eD~~~gR~-ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~-~a~~~~~~~p~~~~~~~~ 224 (266)
T TIGR03465 147 QLTNILRDVGEDARRGRI-YLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYA-EADALLPACDRRAQRAAR 224 (266)
T ss_pred HHHHHHHHhHHHHhCCCe-ecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHH-HHHHhhhhCCHhhhHHHH
Confidence 233322222334556654 111224678898876 334556666666665554 332222457754443333
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=84.13 E-value=49 Score=33.26 Aligned_cols=119 Identities=13% Similarity=0.091 Sum_probs=64.8
Q ss_pred HHHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccC-CCHHH----HHHHHHHhhh-cCCCCcCCCChhHHHHHHHH
Q 009848 244 VYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAY-GTFEE----LTLFTEAVKR-WDTNVTDTLPACMKFIYNKL 317 (524)
Q Consensus 244 ~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~-gt~eE----l~~ft~ai~r-Wd~~~~~~lPe~mk~~~~al 317 (524)
+|+|+. - +. |. ..|-.+.-+-.|.=.+||+-|.. ++.++ ++-+-+.++. ..+. |. .++..++
T Consensus 7 sf~~a~-~-~l-p~--~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g~-----~~--~pv~~aL 74 (266)
T TIGR03464 7 NFPVAS-L-LL-PA--RLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSGE-----PA--APVFVAL 74 (266)
T ss_pred cHHHHH-H-hC-CH--HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCCC-----CC--ChHHHHH
Confidence 455555 3 33 33 23443344666667899999975 44443 3334444433 1111 21 2456666
Q ss_pred HHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhc
Q 009848 318 LGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM 390 (524)
Q Consensus 318 ~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~ 390 (524)
..++.+. +.. ++.+.+++.++... ......+|++|.......++|+-..+++..++.
T Consensus 75 ~~~~~~~--------~l~-----~~~~~~li~~~~~D---l~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~ 131 (266)
T TIGR03464 75 ARTVQRH--------GLP-----IEPFLDLLDAFRQD---VVVTRYATWAELLDYCRYSANPVGRLVLDLYGA 131 (266)
T ss_pred HHHHHHc--------CCC-----hHHHHHHHHHHHHh---ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCC
Confidence 5554432 101 24455566666433 234457899998888888887776666665543
No 17
>CHL00151 preA prenyl transferase; Reviewed
Probab=83.81 E-value=41 Score=35.05 Aligned_cols=89 Identities=9% Similarity=-0.071 Sum_probs=54.8
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
.....+.++...++.+-+.+..|.. ..-+|.++|+.....=+|.....++..-++=-..+++..+. .-.+-+..+.
T Consensus 134 ~~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~---l~~~G~~lG~ 209 (323)
T CHL00151 134 EVVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHND---FYLYGKHLGL 209 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 3456778888888888877776643 33479999999754444443322221111101234444333 3567778888
Q ss_pred HHHHhcCccchhh
Q 009848 415 ICRLLDDVASHKF 427 (524)
Q Consensus 415 i~RL~NDI~S~~k 427 (524)
..-+.||+..+.-
T Consensus 210 aFQi~DDilD~~~ 222 (323)
T CHL00151 210 AFQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHHhhccc
Confidence 8899999998764
No 18
>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=83.01 E-value=54 Score=34.17 Aligned_cols=89 Identities=9% Similarity=-0.035 Sum_probs=56.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
.....+.++..+.+.+-+.+..|... .-+|.++|+..-..=+|.....++..-++--..|++..+. .-++-+..++
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~~-~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~---l~~~G~~lG~ 208 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQFD-SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAND---LYEYGKHLGL 208 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccC-CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHH
Confidence 45667778888889998888776543 3479999998766555544332221111111335554333 3567778888
Q ss_pred HHHHhcCccchhh
Q 009848 415 ICRLLDDVASHKF 427 (524)
Q Consensus 415 i~RL~NDI~S~~k 427 (524)
..-+.||+..+.-
T Consensus 209 aFQi~DDild~~~ 221 (322)
T TIGR02749 209 AFQVVDDILDFTG 221 (322)
T ss_pred HHHHHHHhccCCC
Confidence 8899999998763
No 19
>PLN02890 geranyl diphosphate synthase
Probab=79.69 E-value=55 Score=35.55 Aligned_cols=91 Identities=12% Similarity=-0.020 Sum_probs=61.0
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHH
Q 009848 334 SYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASE 413 (524)
Q Consensus 334 ~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~ 413 (524)
+.+...+.++...++.+-+.+..|.. ...+|.++|+.....-+|.....++..-++=-..+++..+.+ -.+-+..+
T Consensus 226 ~~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lG 301 (422)
T PLN02890 226 TEVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLG 301 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHH
Confidence 34667888999999999999998865 345899999987655555543322221111113355654443 46777788
Q ss_pred HHHHHhcCccchhhh
Q 009848 414 NICRLLDDVASHKFE 428 (524)
Q Consensus 414 ~i~RL~NDI~S~~kE 428 (524)
+..-+.||+..|.-.
T Consensus 302 lAFQI~DDiLD~~g~ 316 (422)
T PLN02890 302 LAFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHHhhcCC
Confidence 888999999988644
No 20
>PLN02857 octaprenyl-diphosphate synthase
Probab=76.36 E-value=54 Score=35.52 Aligned_cols=89 Identities=13% Similarity=0.009 Sum_probs=57.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
.....+.++..+++.+-+.+..+.. +.-+|.++|+.....=+|.....++..-++=-..+++..+.+ .++-+..++
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l---~~fG~~LGi 302 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQM---YEYGKNLGL 302 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHHHH
Confidence 4556777888888888887877764 345799999997666555443322211111113455544333 567777888
Q ss_pred HHHHhcCccchhh
Q 009848 415 ICRLLDDVASHKF 427 (524)
Q Consensus 415 i~RL~NDI~S~~k 427 (524)
..-+.||+..+..
T Consensus 303 AFQI~DDiLD~~~ 315 (416)
T PLN02857 303 AFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHHhhcC
Confidence 8889999998864
No 21
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=74.31 E-value=71 Score=33.26 Aligned_cols=110 Identities=14% Similarity=0.038 Sum_probs=73.1
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHH
Q 009848 334 SYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASE 413 (524)
Q Consensus 334 ~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~ 413 (524)
+.....+.+.....+.+-+.+..|.... +|.++|+.+-..=+|.....+...-++--..+++..+.+ ..+-+..+
T Consensus 133 ~~~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l---~~~g~~lG 207 (322)
T COG0142 133 LEAIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEAL---EDYGRNLG 207 (322)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHhh
Confidence 3456678888999999999888886655 999999998766555554433322221112235554444 56778888
Q ss_pred HHHHHhcCccchhhhh-hcCCC---------CchhhHHHhcCCCC
Q 009848 414 NICRLLDDVASHKFEQ-KRGHI---------PSAVECYMKQHVVS 448 (524)
Q Consensus 414 ~i~RL~NDI~S~~kE~-~rG~~---------~n~V~cyMke~gvS 448 (524)
++.-+.||+..+.-+. .-|.. .++..++.-+.+-.
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 8889999999988743 22332 46777777665444
No 22
>PLN02632 phytoene synthase
Probab=69.60 E-value=1.5e+02 Score=31.04 Aligned_cols=193 Identities=11% Similarity=0.078 Sum_probs=92.9
Q ss_pred hHHHHHHHHHHHhhhhhcccCCCH----HHHHHHHHHhhh-cCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcc
Q 009848 262 RILVSKIICLISLIDDTFDAYGTF----EELTLFTEAVKR-WDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYG 336 (524)
Q Consensus 262 Rl~~ak~~~l~~v~DD~fD~~gt~----eEl~~ft~ai~r-Wd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~ 336 (524)
|-.+.-+-.|.-.+||+=|..... ..|+-.-+.+++ .+.. |. .++..++.++..+.. -
T Consensus 75 R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g~-----~~--~pv~~aL~~~~~~~~---------L- 137 (334)
T PLN02632 75 RKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLFDGR-----PY--DMLDAALADTVSKFP---------L- 137 (334)
T ss_pred HHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCCC-----CC--ChHHHHHHHHHHHCC---------C-
Confidence 333334666677799999964422 234444444433 1111 21 145556655543321 1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHH
Q 009848 337 IPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENIC 416 (524)
Q Consensus 337 ~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~ 416 (524)
-++.+.+++.++..... ....+|++|+......+.|.--.+++..++.....+.. .+++ .......+...
T Consensus 138 ---~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~-~~~~---~~~A~~lG~Al 207 (334)
T PLN02632 138 ---DIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKAS-TESV---YNAALALGIAN 207 (334)
T ss_pred ---ChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccc-hHHH---HHHHHHHHHHH
Confidence 13445667777664432 34577988888887777776666565555543311110 0111 11122223322
Q ss_pred HHhcCccchhhhhhcCCCCchhhHHHhcCCCCHHHH---------HHHHHHHHHHHHHHhhHHHhhccCCCChhHH
Q 009848 417 RLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEA---------EKALWLEIANGWKDLNYEELLNLIAMPLPLL 483 (524)
Q Consensus 417 RL~NDI~S~~kE~~rG~~~n~V~cyMke~gvS~eeA---------~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~ 483 (524)
-|.|=+.......++|-+ -+=.=.|.++|+|.++- ..-+..+++.+..-+. +..---..+|..+.
T Consensus 208 QltNILRDv~eD~~~GRv-YLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~-~a~~~l~~lp~~~r 281 (334)
T PLN02632 208 QLTNILRDVGEDARRGRV-YLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFA-EAEEGVSELDPASR 281 (334)
T ss_pred HHHHHHHHHHHHHhCCce-eCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHH-HHHHhHhhCCHHhH
Confidence 333322222344566654 01012467899998872 2334455555554443 32211134776544
No 23
>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=69.25 E-value=1.3e+02 Score=30.09 Aligned_cols=198 Identities=15% Similarity=0.110 Sum_probs=99.5
Q ss_pred chhHHHHHHHHHHHhhhhhcccCCCH-----HHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCC
Q 009848 260 FGRILVSKIICLISLIDDTFDAYGTF-----EELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRS 334 (524)
Q Consensus 260 ~~Rl~~ak~~~l~~v~DD~fD~~gt~-----eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~ 334 (524)
..|-.+.-+-.+.-.+||+-|..... ..|+-+-+++..-... .-|. .++..++..+..+. +
T Consensus 24 ~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~---~~~~--~pv~~al~~~~~~~--------~- 89 (265)
T cd00683 24 ELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWG---GAPT--HPVLRALADLARRY--------G- 89 (265)
T ss_pred HHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcC---CCCC--ChHHHHHHHHHHHc--------C-
Confidence 34444445667777799999975432 2344444444442111 1111 14566665554321 1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 414 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~ 414 (524)
--++.+.+++.++.+... ....||++|.......+.|.-..+++..++.+ -+++... .....+.
T Consensus 90 ----l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~-------~A~~lG~ 153 (265)
T cd00683 90 ----IPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALE-------RARALGL 153 (265)
T ss_pred ----CCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHH-------HHHHHHH
Confidence 123566777777775544 45678998888887777776655555555432 1222221 2222222
Q ss_pred HHHHhcCccchhhhhhcCCC--CchhhHHHhcCCCCHHHH---------HHHHHHHHHHHHHHhhHHHhhccCCCChhHH
Q 009848 415 ICRLLDDVASHKFEQKRGHI--PSAVECYMKQHVVSEEEA---------EKALWLEIANGWKDLNYEELLNLIAMPLPLL 483 (524)
Q Consensus 415 i~RL~NDI~S~~kE~~rG~~--~n~V~cyMke~gvS~eeA---------~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~ 483 (524)
..-|.|=+.......++|-+ +. =.|.++|+|.++- ..-+..+++.+.+-+. ...-....+|....
T Consensus 154 AlqltnilRdv~eD~~~gR~YlP~---d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~-~a~~~~~~lp~~~~ 229 (265)
T cd00683 154 ALQLTNILRDVGEDARRGRIYLPR---EELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYR-EALAGLAALPRRSR 229 (265)
T ss_pred HHHHHHHHHHHHHHHccCCCcCCH---HHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHH-HHHHhHHhCCHhhH
Confidence 22233322222233455543 22 2367888887652 2345556666655554 33322245775544
Q ss_pred HHHHHHhh
Q 009848 484 GPVLNLAR 491 (524)
Q Consensus 484 ~~~~N~aR 491 (524)
-.++-++.
T Consensus 230 ~~~~~~~~ 237 (265)
T cd00683 230 FCVRAAAM 237 (265)
T ss_pred HHHHHHHH
Confidence 44444433
No 24
>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=68.33 E-value=1.5e+02 Score=30.68 Aligned_cols=88 Identities=14% Similarity=0.009 Sum_probs=56.5
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhc-CCCCCHHHHHHhhchhHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM-GDIATKEVFEWVLKVPKIITASE 413 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~-g~~lp~e~~e~~~~~p~l~~~~~ 413 (524)
.....+.++....+.|-..+..|.. +.-+|.++|++.-..-+|.....++ ..|. =-..+++..+. .-++-+..+
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~ag~~~~~~~~---l~~~g~~lG 203 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIASGANEAIVKK---LYWFGYYVG 203 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHH
Confidence 4556778888889999888888743 3457999999887666655433222 2211 01224443333 245667778
Q ss_pred HHHHHhcCccchhh
Q 009848 414 NICRLLDDVASHKF 427 (524)
Q Consensus 414 ~i~RL~NDI~S~~k 427 (524)
+..-+.||+..+..
T Consensus 204 ~aFQI~DDilD~~~ 217 (319)
T TIGR02748 204 MSYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHHccC
Confidence 88889999988754
No 25
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=60.76 E-value=6.7 Score=36.58 Aligned_cols=29 Identities=28% Similarity=0.401 Sum_probs=25.4
Q ss_pred hcCCCCchhhHHHhcC-CCCHHHHHHHHHH
Q 009848 430 KRGHIPSAVECYMKQH-VVSEEEAEKALWL 458 (524)
Q Consensus 430 ~rG~~~n~V~cyMke~-gvS~eeA~~~i~~ 458 (524)
.||-.+..|.||+-++ |.|.++|.+++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~ 148 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRK 148 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHh
Confidence 5566788999998888 8999999999987
No 26
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=57.77 E-value=2.4e+02 Score=29.35 Aligned_cols=89 Identities=12% Similarity=-0.052 Sum_probs=57.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHHhc-CCCCCHHHHHHhhchhHHHHHHH
Q 009848 335 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM-GDIATKEVFEWVLKVPKIITASE 413 (524)
Q Consensus 335 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~-g~~lp~e~~e~~~~~p~l~~~~~ 413 (524)
.....+.++....+.+-..+..|... .-+|.++|+.....-+|.....++ ..|. =-..+++..+. ...+-+..+
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~~-~~~s~~~y~~~i~~KTa~lf~~~~-~~ga~lag~~~~~~~~---l~~~g~~lG 204 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVND-PDITEENYMRVIYSKTARLFEAAA-QCSGILAGCTPEQEKG---LQDYGRYLG 204 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHH
Confidence 45667788888899988888877543 357999999987765555533222 2221 01234443332 356777788
Q ss_pred HHHHHhcCccchhhh
Q 009848 414 NICRLLDDVASHKFE 428 (524)
Q Consensus 414 ~i~RL~NDI~S~~kE 428 (524)
...-+.||+..+...
T Consensus 205 ~aFQi~DD~ld~~~~ 219 (323)
T PRK10888 205 TAFQLIDDLLDYSAD 219 (323)
T ss_pred HHHHHHHHhhcccCC
Confidence 888899999988543
No 27
>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.19 E-value=31 Score=34.73 Aligned_cols=186 Identities=16% Similarity=0.180 Sum_probs=101.5
Q ss_pred ccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhh-c--C--------CCCcCCCChhHHHHHHHHHH
Q 009848 251 GVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKR-W--D--------TNVTDTLPACMKFIYNKLLG 319 (524)
Q Consensus 251 a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~r-W--d--------~~~~~~lPe~mk~~~~al~~ 319 (524)
..+|+|.|...++ +.++.+++|++|-+=|- .+.+..+..-+.| . + ...+++|++..|+= +=.+
T Consensus 86 ~~~Fd~s~D~e~i-F~~~gALifvIDaQddy---~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kie--tqrd 159 (347)
T KOG3887|consen 86 MDFFDPSFDYEMI-FRGVGALIFVIDAQDDY---MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIE--TQRD 159 (347)
T ss_pred cccCCCccCHHHH-HhccCeEEEEEechHHH---HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhh--hHHH
Confidence 4688999999977 57899999999866442 3333334334444 2 2 24577898877642 2223
Q ss_pred HHHHHHHHHHHhCCC----------cchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHH--
Q 009848 320 VYNEAEEELAKQGRS----------YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASF-- 387 (524)
Q Consensus 320 ~~~ei~~~~~~~~~~----------~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~~~-- 387 (524)
+..+...++.-.|-- -.-+-.-+++.+.++-.. ..+||+|--|.+=..+|+..-.+..--
T Consensus 160 I~qr~~d~l~d~gle~v~vsf~LTSIyDHSIfEAFSkvVQkLi--------pqLptLEnlLnif~s~S~ieKafLFDv~S 231 (347)
T KOG3887|consen 160 IHQRTNDELADAGLEKVQVSFYLTSIYDHSIFEAFSKVVQKLI--------PQLPTLENLLNIFISNSKIEKAFLFDVLS 231 (347)
T ss_pred HHHHhhHHHHhhhhccceEEEEEeeecchHHHHHHHHHHHHHh--------hhchhHHHHHHHHhhccchhhhhhhhhhh
Confidence 444443333322211 111222333333332222 457899888887666665543221100
Q ss_pred --HhcCCCCCHH--HHHHh-------------------hchhHHHHHHHHHHHHhcCccchhhhhhcCCCCchhhHHHhc
Q 009848 388 --LDMGDIATKE--VFEWV-------------------LKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQ 444 (524)
Q Consensus 388 --~~~g~~lp~e--~~e~~-------------------~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyMke 444 (524)
|...+.-|-+ .+|-+ .+-+..-+-++.+.||.|+..=|-+|..++- ++-|.|++
T Consensus 232 KIYiaTDS~PVdmq~YElC~d~IDV~iDl~~iYg~~~~~~~s~~d~~s~svirL~n~~vlyLrev~k~L---ALV~i~re 308 (347)
T KOG3887|consen 232 KIYIATDSSPVDMQSYELCCDMIDVTIDLSSIYGLKEDGKGSDYDKESSSVIRLNNTTVLYLREVNKFL---ALVCIVRE 308 (347)
T ss_pred eeEEecCCCcchhHHHHHHHhhhheeeehHHhhCCCCCCCCCchhhhhhhhhhhcCceEEeHHHhhhhe---EEEEEEcc
Confidence 1111111111 11100 1224456677788899999999999988763 34589999
Q ss_pred CCCCHHHHH
Q 009848 445 HVVSEEEAE 453 (524)
Q Consensus 445 ~gvS~eeA~ 453 (524)
.|...+.-+
T Consensus 309 ~~~e~~g~i 317 (347)
T KOG3887|consen 309 DGFEKKGLI 317 (347)
T ss_pred CCcccccce
Confidence 887665433
No 28
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=46.46 E-value=16 Score=35.26 Aligned_cols=45 Identities=31% Similarity=0.208 Sum_probs=32.2
Q ss_pred HHhcCccchhhhhhcCC-CCchhhHHHhcCCCCHHHHHHHHHHHHH
Q 009848 417 RLLDDVASHKFEQKRGH-IPSAVECYMKQHVVSEEEAEKALWLEIA 461 (524)
Q Consensus 417 RL~NDI~S~~kE~~rG~-~~n~V~cyMke~gvS~eeA~~~i~~~i~ 461 (524)
.|--++..+++..+.-. +.-+=.+.|+++|+|++||+++++++--
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 45566666666654433 2344457999999999999999998654
No 29
>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=46.12 E-value=17 Score=27.59 Aligned_cols=28 Identities=29% Similarity=0.215 Sum_probs=21.4
Q ss_pred CCchhhHHHhcCCCCHHHHHHHHHHHHH
Q 009848 434 IPSAVECYMKQHVVSEEEAEKALWLEIA 461 (524)
Q Consensus 434 ~~n~V~cyMke~gvS~eeA~~~i~~~i~ 461 (524)
+.-++.+.|..+|+|+++|.+.+++.-.
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 3456788999999999999999988554
No 30
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=36.42 E-value=1.1e+02 Score=27.19 Aligned_cols=78 Identities=21% Similarity=0.218 Sum_probs=45.1
Q ss_pred hhHHHHHHHhCcccccHHHHHHHHHHHHhccCCC--------CCChhhhHHHHHHhhhcCcccchhhhhccccccccc-c
Q 009848 41 LHLIDAVQRLGVAYQFEKEIEDELQKLANDLGSD--------SDNLYTVSLRFRLLRQQRVKISCDVFEKFKDDEGKF-K 111 (524)
Q Consensus 41 l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~~--------~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~d~~g~F-~ 111 (524)
-.+|+.|++|||+|-- --+|-++-+.+... .--=-.+|++-|.||.+| +|-----+| + ++|.= +
T Consensus 14 ~~~ie~L~~lgi~R~v----A~tlv~L~~~~E~sS~~IE~~sgLRQPEVSiAMr~Lre~g-WV~~R~eKK-k-GKGRPik 86 (124)
T COG4738 14 YEIIELLRILGIPRNV----ATTLVCLAKGDEASSREIERVSGLRQPEVSIAMRYLRENG-WVDEREEKK-K-GKGRPIK 86 (124)
T ss_pred HHHHHHHHHcCCCchH----HHHHHHHhcCcchhhhhhHHhhcCCCchhHHHHHHHHHcc-ccchHHhcc-c-CCCCCce
Confidence 4689999999999864 33343333321000 112346899999999999 666555555 4 33532 2
Q ss_pred c-cccccchhhhhHH
Q 009848 112 A-SMINNVRGMLSLY 125 (524)
Q Consensus 112 ~-~~~~d~~glL~Ly 125 (524)
. .++.+...+++-+
T Consensus 87 ~Y~Lt~~~~eIvs~i 101 (124)
T COG4738 87 LYRLTVPFDEIVSEI 101 (124)
T ss_pred EEEecCcHHHHHHHH
Confidence 1 2445555444443
No 31
>PF05772 NinB: NinB protein; InterPro: IPR008711 The ninR region of Bacteriophage lambda contains two recombination genes, orf (ninB) and rap (ninG), that have roles when the RecF and RecBCD recombination pathways of Escherichia coli, respectively, operate on phage lambda []. Genetic recombination in phage lambda relies on DNA end processing by Exo to expose 3'-tailed strands for annealing and exchange by beta protein. Phage lambda encodes an additional recombinase, NinB (Orf), which participates in the early stages of recombination by supplying a function equivalent to the E. coli RecFOR complex. These host enzymes assist loading of the RecA strand exchange protein onto ssDNA coated with ssDNA-binding protein. NinB has two structural domains with unusual folds, and exists as an intertwined dimer [].; PDB: 1PC6_B.
Probab=34.66 E-value=21 Score=32.23 Aligned_cols=58 Identities=14% Similarity=0.225 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHhhCCCCCCHH-Hhhhhhhhccc
Q 009848 317 LLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVE-EYKSVALRSIA 378 (524)
Q Consensus 317 l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~iPt~e-EYl~~~~~S~g 378 (524)
++..+.+|++.+.+.|+ .+-.+.|++++.+.+.-+......-+|.++ ++...+..|+-
T Consensus 43 lwa~l~dIs~qv~~~G~----k~~~e~WK~~~~~~~~~~~~~~~~~~~gl~Gg~v~~g~sTsk 101 (127)
T PF05772_consen 43 LWAMLGDISRQVEWNGR----KLDPEDWKELFTAAFLIATGEEQRVVPGLDGGFVVLGESTSK 101 (127)
T ss_dssp HHHHHHHHHHH--BTTB-------HHHHHHHHHHHH-----S--EEEE-TTSSEEEE---TTT
T ss_pred HHHHHHHHHHHhHhcCc----cCCHHHHHHHHHHHHhhhccchhhhccCCCCCeEEEeeechh
Confidence 34467888888788774 567899999999999777776666678877 77666665553
No 32
>PRK10581 geranyltranstransferase; Provisional
Probab=32.02 E-value=4.3e+02 Score=27.21 Aligned_cols=111 Identities=11% Similarity=0.029 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHH--HHHhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCc
Q 009848 345 QEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTA--SFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDV 422 (524)
Q Consensus 345 ~~~~~a~l~EA~W~~~g~iPt~eEYl~~~~~S~g~~~~~~~--~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI 422 (524)
..++.+-..+..|.. ..+|.++|+..-..=+|.....++ .-+..|. -+++..+. ..++-+..++..-+.||+
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~-~~~~~~~~---l~~~g~~lG~aFQI~DDi 225 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAAVRLGALSAGD-KGRRALPV---LDRYAESIGLAFQVQDDI 225 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCC-CcHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 346677777777743 468999999876544444432221 1122222 12333333 356777888888999999
Q ss_pred cchhhh-h----------hcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 009848 423 ASHKFE-Q----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 468 (524)
Q Consensus 423 ~S~~kE-~----------~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln 468 (524)
..+... . .+|.. |.+.++- .+.|.+.+++.++.+.+.+.
T Consensus 226 lD~~g~~~~~GK~~g~Dl~~gk~-T~p~l~~------~e~a~~~a~~~~~~A~~~l~ 275 (299)
T PRK10581 226 LDVVGDTATLGKRQGADQQLGKS-TYPALLG------LEQARKKARDLIDDARQSLD 275 (299)
T ss_pred ccccCChHHHCCCcchhhhcCCC-CHHHHHH------HHHHHHHHHHHHHHHHHHHH
Confidence 998432 2 22332 4554442 47888888888888887776
No 33
>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=30.96 E-value=36 Score=22.47 Aligned_cols=18 Identities=44% Similarity=0.569 Sum_probs=14.2
Q ss_pred HHHhcCCCCHHHHHHHHH
Q 009848 440 CYMKQHVVSEEEAEKALW 457 (524)
Q Consensus 440 cyMke~gvS~eeA~~~i~ 457 (524)
-|.++||+|.|+-.+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 589999999999665543
No 34
>PF14164 YqzH: YqzH-like protein
Probab=30.79 E-value=22 Score=28.17 Aligned_cols=21 Identities=19% Similarity=0.273 Sum_probs=16.7
Q ss_pred HHHHHhhhcCcccchhhhhcc
Q 009848 83 LRFRLLRQQRVKISCDVFEKF 103 (524)
Q Consensus 83 l~FRlLR~~Gy~vS~dvf~~F 103 (524)
|.=+.|||+||+++++.+...
T Consensus 9 mi~~~l~QYg~d~~~~pls~~ 29 (64)
T PF14164_consen 9 MIINCLRQYGYDVECMPLSDE 29 (64)
T ss_pred HHHHHHHHhCCcccCCCCCHH
Confidence 344689999999999887754
No 35
>smart00400 ZnF_CHCC zinc finger.
Probab=29.97 E-value=52 Score=24.71 Aligned_cols=25 Identities=32% Similarity=0.226 Sum_probs=21.2
Q ss_pred CCCCchhhHHHhcCCCCHHHHHHHH
Q 009848 432 GHIPSAVECYMKQHVVSEEEAEKAL 456 (524)
Q Consensus 432 G~~~n~V~cyMke~gvS~eeA~~~i 456 (524)
|...++|..+|+-.|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 4445889999999999999999875
No 36
>smart00463 SMR Small MutS-related domain.
Probab=28.31 E-value=66 Score=25.86 Aligned_cols=23 Identities=30% Similarity=0.081 Sum_probs=20.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHh
Q 009848 445 HVVSEEEAEKALWLEIANGWKDL 467 (524)
Q Consensus 445 ~gvS~eeA~~~i~~~i~~~wk~l 467 (524)
||++.++|+..+...++++++.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 79999999999999999888764
No 37
>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=27.08 E-value=69 Score=25.96 Aligned_cols=27 Identities=30% Similarity=0.166 Sum_probs=21.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhhHHHh
Q 009848 445 HVVSEEEAEKALWLEIANGWKDLNYEEL 472 (524)
Q Consensus 445 ~gvS~eeA~~~i~~~i~~~wk~ln~~e~ 472 (524)
||++.++|+..+...++.+++.-. ..+
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~-~~~ 30 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGI-REL 30 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTH-SEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCC-CEE
Confidence 799999999999999999987654 443
No 38
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.99 E-value=6.5e+02 Score=25.34 Aligned_cols=148 Identities=19% Similarity=0.126 Sum_probs=87.2
Q ss_pred HHHHHHHHHhhchhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhccCCCCCChhhhHHHHHHhhhcCcccchhhhh
Q 009848 22 LKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLANDLGSDSDNLYTVSLRFRLLRQQRVKISCDVFE 101 (524)
Q Consensus 22 lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~~~~dl~~~al~FRlLR~~Gy~vS~dvf~ 101 (524)
-|..+++.|...|......+.+-..-|++|---+=.++-+.+|..--+ +| ||+|
T Consensus 54 A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~---------------------~G-----dVLN 107 (250)
T COG3063 54 AKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN---------------------NG-----DVLN 107 (250)
T ss_pred HHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC---------------------cc-----chhh
Confidence 346677778776777777888888888888666655555555432221 14 7888
Q ss_pred ccccccccccccccccchhhhhHHHhhcccccCc--hHHHHHHHH---------HHHHHHhHhhhcCCCcHHHHHHHHcc
Q 009848 102 KFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGE--VILDEAIVF---------TTTHLKSMISRVISNNLAEQIQHALR 170 (524)
Q Consensus 102 ~F~d~~g~F~~~~~~d~~glL~Ly~As~l~~~gE--~iL~ea~~f---------s~~~L~~~~~~~~~~~l~~~V~~aL~ 170 (524)
+| |.|-|+..+=..+|--+=+|..--.=|+ +.++++.-- ++.+|+..+......+.. .-.+-
T Consensus 108 NY----G~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~---~l~~a 180 (250)
T COG3063 108 NY----GAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPA---LLELA 180 (250)
T ss_pred hh----hHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChH---HHHHH
Confidence 88 7787766655666666666665444333 234443322 235566555432111111 11222
Q ss_pred CCccCCcchhHHHhhHHhhcCCCcCcHHHHHH
Q 009848 171 LPLRKALPRLEARYYLNMYSRDDLHDETLLKF 202 (524)
Q Consensus 171 ~P~~~~~~rlear~yi~~y~~~~~~n~~lL~l 202 (524)
.+....=.+.+||.|++.|.+...-+..-|.|
T Consensus 181 ~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L 212 (250)
T COG3063 181 RLHYKAGDYAPARLYLERYQQRGGAQAESLLL 212 (250)
T ss_pred HHHHhcccchHHHHHHHHHHhcccccHHHHHH
Confidence 23344556789999999999887666555544
No 39
>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=26.61 E-value=6.4e+02 Score=25.00 Aligned_cols=81 Identities=17% Similarity=0.051 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHh-hCCCCCCHHHhhhhhhhccchHHHHHHHHHhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcc
Q 009848 345 QEVILMYFTEAKWL-KEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVA 423 (524)
Q Consensus 345 ~~~~~a~l~EA~W~-~~g~iPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~lp~e~~e~~~~~p~l~~~~~~i~RL~NDI~ 423 (524)
...+.+..-|.... ..+..+|.++|+++-..-+|......+..-++=-..+++..+. ..++-+..+...-+.||+.
T Consensus 113 ~~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~---l~~~g~~lG~afQi~DD~~ 189 (260)
T PF00348_consen 113 EALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEA---LREFGRHLGIAFQIRDDLL 189 (260)
T ss_dssp HHHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred HhcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHH---HHHHHHHHHHHHhhhhhhh
Confidence 33444444444332 2334789999999988777766333322221111233444333 3667888888889999998
Q ss_pred chhhh
Q 009848 424 SHKFE 428 (524)
Q Consensus 424 S~~kE 428 (524)
.+...
T Consensus 190 d~~~~ 194 (260)
T PF00348_consen 190 DLFGD 194 (260)
T ss_dssp HHHSH
T ss_pred hccCc
Confidence 88754
No 40
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=24.20 E-value=68 Score=28.67 Aligned_cols=22 Identities=45% Similarity=0.318 Sum_probs=18.7
Q ss_pred hhhHHHhcCCCCHHHHHHHHHH
Q 009848 437 AVECYMKQHVVSEEEAEKALWL 458 (524)
Q Consensus 437 ~V~cyMke~gvS~eeA~~~i~~ 458 (524)
=|.+.|.|-|+|.++|++.+.+
T Consensus 87 DIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 87 DIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHhCCCHHHHHHHHHH
Confidence 3789999999999999887654
No 41
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=23.73 E-value=1.7e+02 Score=27.47 Aligned_cols=53 Identities=17% Similarity=0.261 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHhhchhchhhhhhHHHHHHHhCccccc----HHHHHHHHHHHHh
Q 009848 15 TQEQYDALKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQF----EKEIEDELQKLAN 69 (524)
Q Consensus 15 ~~~~~~~lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF----~~EI~~~L~~~~~ 69 (524)
..++.+++|.+|+..+.. +|.+++..---...-.-+|.+| ++||+++-+....
T Consensus 32 l~~EL~evk~~v~~~I~e--vD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~ 88 (159)
T PF05384_consen 32 LRKELEEVKEEVSEVIEE--VDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHE 88 (159)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHH
Confidence 456667777777776654 3433333333333333457777 8999987666654
No 42
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=23.26 E-value=7.6e+02 Score=24.68 Aligned_cols=108 Identities=17% Similarity=0.120 Sum_probs=53.8
Q ss_pred hHHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhhcccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHH
Q 009848 236 YARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYN 315 (524)
Q Consensus 236 ~aRdr~ve~yf~a~~a~~feP~~s~~Rl~~ak~~~l~~v~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~~~ 315 (524)
.+|++++..|...+ ... + .++..--.-+||++- +-.-.++.|+++.|++.-...+ -.
T Consensus 40 ~~r~~Lv~~~l~LV-~~i-------A----~~y~~~g~~~~DLiQ-----eG~iGLi~AierFDp~~G~~Fs------TY 96 (264)
T PRK07122 40 RQRDRIVTRCLPLA-DHI-------A----RRFDGRGEPRDDLVQ-----VARVGLVNAVNRFDVETGSDFV------SF 96 (264)
T ss_pred HHHHHHHHHhHHHH-HHH-------H----HHHHhCCCCHHHHHH-----HHHHHHHHHHHHcCCCCCCChH------HH
Confidence 48899999999776 211 1 111110112333331 1123589999999986422222 33
Q ss_pred HHHHHHHHHHHHHHHhCCCcchH-HHHHHHHHHHHHHHHHHHHhhCCCCCCHHH
Q 009848 316 KLLGVYNEAEEELAKQGRSYGIP-YAKQTMQEVILMYFTEAKWLKEGYVPSVEE 368 (524)
Q Consensus 316 al~~~~~ei~~~~~~~~~~~~~~-~~~~~w~~~~~a~l~EA~W~~~g~iPt~eE 368 (524)
|.+.+-.+|...+......-.++ +.++....+-+ ...+-.. ..|.-||.+|
T Consensus 97 A~~~Irg~I~~~lr~~~~~ir~Pr~~~~~~~~i~~-~~~~l~~-~lg~~pt~~e 148 (264)
T PRK07122 97 AVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGR-ATAELSQ-RLGRAPTASE 148 (264)
T ss_pred HHHHHHHHHHHHHHHcCCccccCHHHHHHHHHHHH-HHHHHHH-HhCCCCCHHH
Confidence 55566677766665544322222 33333332222 2222222 3478888665
No 43
>KOG3951 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.86 E-value=1.1e+02 Score=30.93 Aligned_cols=57 Identities=25% Similarity=0.373 Sum_probs=40.4
Q ss_pred cccccccccccccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhhhcCCCcHHHHHHHHcc
Q 009848 105 DDEGKFKASMINNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMISRVISNNLAEQIQHALR 170 (524)
Q Consensus 105 d~~g~F~~~~~~d~~glL~Ly~As~l~~~gE~iL~ea~~fs~~~L~~~~~~~~~~~l~~~V~~aL~ 170 (524)
+.+|-|.....-|+||-..|-++-- .. .-+-|=.|+.||++||. +.+-+++|++-|.
T Consensus 264 hp~GAFv~~s~iDmkgcvrllk~q~-p~-~~e~LLnaLRfTTKHlN-------desTpK~ir~ll~ 320 (321)
T KOG3951|consen 264 HPNGAFVSNSSIDMKGCVRLLKLQP-PE-QSECLLNALRFTTKHLN-------DESTPKSIRHLLE 320 (321)
T ss_pred cccccccccCcCcHHHHHHHHHcCC-ch-hhHHHHHHHHHHHhhcC-------CCCChHHHHHHhc
Confidence 5678888888899999999887732 11 22457789999999982 3445666776653
No 44
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=22.63 E-value=1e+02 Score=31.14 Aligned_cols=65 Identities=22% Similarity=0.149 Sum_probs=49.2
Q ss_pred chhhhhhcCCCCchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhH---------HHhhccCCCChhHHHHHHHHhh
Q 009848 424 SHKFEQKRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNY---------EELLNLIAMPLPLLGPVLNLAR 491 (524)
Q Consensus 424 S~~kE~~rG~~~n~V~cyMke~gvS~eeA~~~i~~~i~~~wk~ln~---------~e~l~~~~~p~~~~~~~~N~aR 491 (524)
.|++||.- +++++..+...|.+.++|.++++--+.+.|=.+-. .++|.+.++|...+..+.++||
T Consensus 96 ~wk~~qka---~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~a~ 169 (269)
T COG1093 96 EWKKEQKA---DKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHHHH---HHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHHHH
Confidence 45666654 67888999999999999999999888877655420 2334445788889999999997
No 45
>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=21.87 E-value=1.9e+02 Score=28.47 Aligned_cols=86 Identities=16% Similarity=0.184 Sum_probs=57.9
Q ss_pred hhHHHHHHHHHHHHHHHHhhchhc-hhhhhhHHHHHHHhCcccc--cHHHHHHHHHHHHhccCCCCCChhhhHHHHHHhh
Q 009848 13 TTTQEQYDALKQEVRRMITSAVDE-ISHKLHLIDAVQRLGVAYQ--FEKEIEDELQKLANDLGSDSDNLYTVSLRFRLLR 89 (524)
Q Consensus 13 ~~~~~~~~~lk~~v~~~l~~~~~~-~~~~l~liD~lqrLGi~~h--F~~EI~~~L~~~~~~~~~~~~dl~~~al~FRlLR 89 (524)
+..+.+.++++.-+|.|..+ ..+ .-....++++|+.||=..- .+.+|..+|...-.. +..++=.+-.|+
T Consensus 12 ~~~~~~l~Kl~K~~k~~~~~-g~~~~~~~~~F~~aL~~~g~~~~~~~~~~i~~~l~kF~~~-------l~El~~~~~~L~ 83 (215)
T cd07604 12 EGDRVGLQKLKKAVKAIHNS-GLAHVENELQFAEALEKLGSKALSREEEDLGAAFLKFSVF-------TKELAALFKNLM 83 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHhccccCcccHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence 44577888888888888865 344 3347889999999993221 334577777554332 445566677788
Q ss_pred hcCcccchhhhhccccc
Q 009848 90 QQRVKISCDVFEKFKDD 106 (524)
Q Consensus 90 ~~Gy~vS~dvf~~F~d~ 106 (524)
+|=-++-...+.+|..+
T Consensus 84 ~~~~~~i~~pL~~f~k~ 100 (215)
T cd07604 84 QNLNNIIMFPLDSLLKG 100 (215)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 87767777777888644
No 46
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=21.56 E-value=2.1e+02 Score=22.82 Aligned_cols=22 Identities=23% Similarity=0.246 Sum_probs=17.2
Q ss_pred CCCCHHHhhhhhhhccchHHHH
Q 009848 362 YVPSVEEYKSVALRSIAVLPVV 383 (524)
Q Consensus 362 ~iPt~eEYl~~~~~S~g~~~~~ 383 (524)
..||.|||...+.++...-.++
T Consensus 26 rKP~~eEy~~~aKi~~~Gi~li 47 (65)
T COG2443 26 RKPDWEEYSKIAKITGLGILLI 47 (65)
T ss_pred hCCCHHHHHHHHHHHHHHHHHH
Confidence 3699999999999887555443
Done!