Query 008767
Match_columns 554
No_of_seqs 232 out of 910
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 16:19:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008767.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008767hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00684 Terpene_cyclase_plant_ 100.0 7E-153 1E-157 1262.7 53.2 531 17-551 1-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 7E-137 1E-141 1157.5 46.0 481 64-554 267-778 (784)
3 PLN02592 ent-copalyl diphospha 100.0 7E-109 2E-113 926.1 42.7 444 64-553 307-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 1.5E-55 3.2E-60 420.5 13.5 173 27-199 1-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 7.9E-49 1.7E-53 395.9 19.8 269 229-498 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 2.8E-46 6.1E-51 380.0 30.5 283 243-527 1-284 (284)
7 cd00687 Terpene_cyclase_nonpla 100.0 5.3E-34 1.1E-38 293.9 20.7 243 251-502 19-265 (303)
8 PLN02150 terpene synthase/cycl 100.0 1.3E-30 2.9E-35 224.0 10.1 94 459-554 1-96 (96)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.8 5.9E-21 1.3E-25 185.7 11.6 226 281-521 5-243 (243)
10 PF06330 TRI5: Trichodiene syn 97.5 0.0018 3.9E-08 68.3 14.7 194 283-498 76-274 (376)
11 cd00686 Terpene_cyclase_cis_tr 97.5 0.0024 5.3E-08 66.4 14.4 196 287-506 80-280 (357)
12 PF00494 SQS_PSY: Squalene/phy 92.3 3 6.5E-05 42.1 13.8 201 289-517 17-235 (267)
13 cd00867 Trans_IPPS Trans-Isopr 92.1 2.6 5.5E-05 41.6 12.7 117 366-498 86-213 (236)
14 TIGR03464 HpnC squalene syntha 88.0 33 0.00072 34.9 17.8 119 274-420 7-131 (266)
15 cd00685 Trans_IPPS_HT Trans-Is 86.8 20 0.00043 36.2 14.6 120 365-498 108-238 (259)
16 TIGR03465 HpnD squalene syntha 84.9 47 0.001 33.7 18.6 195 291-519 19-226 (266)
17 cd00683 Trans_IPPS_HH Trans-Is 78.7 78 0.0017 31.9 17.2 199 290-522 24-238 (265)
18 TIGR02749 prenyl_cyano solanes 77.9 86 0.0019 33.0 15.6 89 365-457 133-221 (322)
19 PLN02632 phytoene synthase 77.3 1E+02 0.0022 32.6 18.0 193 292-513 75-281 (334)
20 PLN02890 geranyl diphosphate s 76.7 77 0.0017 34.8 15.2 91 364-458 226-316 (422)
21 PLN02857 octaprenyl-diphosphat 69.2 82 0.0018 34.5 13.2 88 365-457 227-315 (416)
22 COG0142 IspA Geranylgeranyl py 66.1 1.3E+02 0.0027 31.7 13.6 110 364-478 133-252 (322)
23 KOG1719 Dual specificity phosp 57.0 8.6 0.00019 36.2 2.5 29 460-488 119-148 (183)
24 TIGR02748 GerC3_HepT heptapren 51.6 3.1E+02 0.0067 28.7 16.3 87 365-457 129-217 (319)
25 COG3707 AmiR Response regulato 50.5 13 0.00027 36.3 2.6 45 447-491 129-174 (194)
26 PF03861 ANTAR: ANTAR domain; 47.6 16 0.00034 28.1 2.3 28 464-491 15-42 (56)
27 KOG3887 Predicted small GTPase 47.3 16 0.00034 37.1 2.7 191 281-481 86-315 (347)
28 COG3063 PilF Tfp pilus assembl 45.6 1.3E+02 0.0028 30.4 8.8 149 51-232 53-212 (250)
29 CHL00151 preA prenyl transfera 45.5 3.8E+02 0.0083 28.1 15.6 87 365-457 134-222 (323)
30 PRK10888 octaprenyl diphosphat 44.5 4E+02 0.0087 28.0 16.5 89 365-458 130-219 (323)
31 COG4738 Predicted transcriptio 34.0 1.1E+02 0.0024 27.3 5.6 57 71-132 14-78 (124)
32 KOG3906 Tryptophan 2,3-dioxyge 29.4 1.6E+02 0.0035 30.2 6.6 114 45-164 78-209 (399)
33 PF05772 NinB: NinB protein; 28.8 29 0.00062 31.6 1.2 58 347-408 43-101 (127)
34 PF12368 DUF3650: Protein of u 28.1 44 0.00094 22.4 1.6 18 470-487 9-26 (28)
35 PF10776 DUF2600: Protein of u 27.8 7.6E+02 0.017 26.3 14.8 101 412-530 194-294 (330)
36 smart00463 SMR Small MutS-rela 26.2 75 0.0016 25.8 3.2 23 475-497 7-29 (80)
37 PRK10581 geranyltranstransfera 25.8 6.3E+02 0.014 26.2 10.7 110 375-498 152-275 (299)
38 PF01713 Smr: Smr domain; Int 25.4 76 0.0016 26.0 3.1 24 475-498 4-27 (83)
39 smart00400 ZnF_CHCC zinc finge 25.0 73 0.0016 24.2 2.7 25 462-486 30-54 (55)
40 PF00348 polyprenyl_synt: Poly 25.0 6.2E+02 0.013 25.4 10.3 78 376-458 114-194 (260)
41 COG1308 EGD2 Transcription fac 21.8 82 0.0018 28.5 2.7 22 467-488 87-108 (122)
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=6.8e-153 Score=1262.66 Aligned_cols=531 Identities=50% Similarity=0.884 Sum_probs=507.2
Q ss_pred CCCCCCCCCCCcc-ccccccCCccccchhhHHHHHHHHHHHHHHHhhc--hhchhhhhhHHHHHHHhCcccccHHHHHHH
Q 008767 17 RPIAGFHPNLWGH-HFLKSSFDFQTIDTTTQEQYDALKQEVRRMITSA--VDEISHKLHLIDAVQRLGVAYQFEKEIEDE 93 (554)
Q Consensus 17 r~~~~~~ps~W~~-~f~~~~~~~~~~~~~~~~~~~~lk~~v~~~l~~~--~~~~~~~l~liD~lqrLGi~~hF~~EI~~~ 93 (554)
||+++||||+||| +|++++++. .....+.+++++||++||+||... +.|++++|++||+||||||+|||++||+++
T Consensus 1 r~~~~~~~~~w~~~~~~s~~~~~-~~~~~~~~~~~~lk~~v~~~~~~~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~ 79 (542)
T cd00684 1 RPSANFPPSLWGDDHFLSLSSDY-SEEDELEEEIEELKEEVRKMLEDSEYPVDLFERLWLIDRLQRLGISYHFEDEIKEI 79 (542)
T ss_pred CCCCCCCCCcCCCcceeecCCCc-chhHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHcCchhhhHHHHHHH
Confidence 7899999999999 566554332 212257899999999999999865 679999999999999999999999999999
Q ss_pred HHHHHhc-cC---CCCCChhhHHHHHHHhhhcCcccchhhhhccccccccccccccccchhhhhHHHhhcccccCchHHH
Q 008767 94 LQKLAND-LG---SDSDNLYTVSLRFRLLRQQRVKISCDVFEKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGEVILD 169 (554)
Q Consensus 94 L~~i~~~-~~---~~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~d~~g~F~~~~~~d~~~lL~LyeAs~l~~~gE~iLd 169 (554)
|++||++ .. ....||++|||+|||||||||+||||||++|+|++|+|++++.+||+||||||||||+++|||+|||
T Consensus 80 L~~i~~~~~~~~~~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLd 159 (542)
T cd00684 80 LDYIYRYWTERGESNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLYEASHLSFPGEDILD 159 (542)
T ss_pred HHHHHHhhcccccccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHHHHhhcCCCCcHHHH
Confidence 9999986 11 2357999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhHhhh--cCCccHHHHHHHHccCcccccchhHHHHHhHHhhcCCCcCcHHHHHHHhhchHHHHHhhHHH
Q 008767 170 EAIVFTTTHLKSMISR--VISNNLAEQIQHALRLPLRKALPRLEARYYLNMYSRDDLHDETLLKFAKLDFNLLQAAHQKE 247 (554)
Q Consensus 170 ea~~ft~~~L~~~~~~--~~~~~l~~~V~~aL~~P~~~~~~rlear~yi~~y~~~~~~n~~lLelAkldFn~~Q~~hq~E 247 (554)
||++||++||++.+.+ ..+++|+++|++||++|||+++||||||+||++|++++++|++||||||+|||+||++||+|
T Consensus 160 eA~~ft~~~L~~~~~~~~~~~~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~E 239 (542)
T cd00684 160 EALSFTTKHLEEKLESNWIIDPDLSGEIEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALHQEE 239 (542)
T ss_pred HHHHHHHHHHHHHhhccCCCCchHHHHHHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhHHHH
Confidence 9999999999999986 13789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhh
Q 008767 248 LSDMTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKR 327 (554)
Q Consensus 248 l~~lsrWwk~~~l~~~l~faRdr~ve~yf~~~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~r 327 (554)
|+++++||+++||.++|||+|+|+++||||++ |++|+|++|.+|+++||+++|+|++||+||.|||.+|++.||+||+|
T Consensus 240 l~~~~rWwk~~gL~~~l~~aRdr~ve~yf~~~-a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~r 318 (542)
T cd00684 240 LKILSRWWKDLDLASKLPFARDRLVECYFWAA-GTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVER 318 (542)
T ss_pred HHHHhHHHHhcCCcccCCcccchhHHHHHHHH-hcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHh
Confidence 99999999999999888999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred cCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhcc
Q 008767 328 WDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSI 407 (554)
Q Consensus 328 Wd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~ 407 (554)
||+++++++|+|||+||.++++++++++.++.+++++++++|++++|+++++||++||+|+++||+||++|||++|++|+
T Consensus 319 wd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~ 398 (542)
T cd00684 319 WDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSI 398 (542)
T ss_pred ccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHh
Confidence 99999999999999999999999999999988888889999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcCCCCHHHHHHHHH
Q 008767 408 AVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEAEKALW 487 (554)
Q Consensus 408 g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g~S~EeA~~~i~ 487 (554)
|+++++++++++||..+|+++++|+..+|+|+++++.++||+|||+||++|+++|+++|+|.|||+|+|+|+|+|+++++
T Consensus 399 g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~ 478 (542)
T cd00684 399 GLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIK 478 (542)
T ss_pred hHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHH
Confidence 99999999999999999999999987779999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhHHHhhcc-CCCChhHHHHHHHHhhhhhhccccCCCCCCCChh-HHHHHHhhhcCc
Q 008767 488 LEIANGWKDLNYEELLNL-IAMPLPLLGPVLNLARMSEFIYEDGVDRYTNSYK-MKDQVALVLKDP 551 (554)
Q Consensus 488 ~~i~~~wk~ln~~e~l~~-~~~p~~~~~~~~N~aR~~~~~Y~~~~D~~t~~~~-~k~~i~~ll~~p 551 (554)
++|+++||++| ++++++ +++|++|++++||+||+++++|+++ ||||.|++ ||++|++||++|
T Consensus 479 ~~ie~~wk~ln-~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~-D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 479 KMIEDAWKELN-EEFLKPSSDVPRPIKQRFLNLARVIDVFYKEG-DGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CCCCCccHHHHHHHHHHhcCC
Confidence 99999999999 999998 7899999999999999999999999 99999976 999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=6.7e-137 Score=1157.55 Aligned_cols=481 Identities=26% Similarity=0.419 Sum_probs=457.1
Q ss_pred hhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc-c---CCCCCChhhHHHHHHHhhhcCcccchhhhhcccccccc
Q 008767 64 VDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND-L---GSDSDNLYTVSLRFRLLRQQRVKISCDVFEKFKDDEGK 139 (554)
Q Consensus 64 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~-~---~~~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~d~~g~ 139 (554)
|.+.++++|+||+||||||+|||++||+++|+++|+. . .....|+++|||+|||||||||+||||||++|+|+ +
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 4689999999999999999999999999999999985 1 12347999999999999999999999999999866 4
Q ss_pred ccccc---cccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhhh------cCCccHHHHHHHHccCcccccchhH
Q 008767 140 FKASM---INNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMISR------VISNNLAEQIQHALRLPLRKALPRL 210 (554)
Q Consensus 140 F~~~~---~~d~~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~------~~~~~l~~~V~~aL~~P~~~~~~rl 210 (554)
|++++ .+||+||||||||||+++|||.|||||+.||++||++.+.+ ..+++|+++|+|||++|||+++|||
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 99887 69999999999999999999999999999999999998874 1267899999999999999999999
Q ss_pred HHHHhHHhhcCCCc------------CcHHHHHHHhhchHHHHHhhHHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHH
Q 008767 211 EARYYLNMYSRDDL------------HDETLLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWT 278 (554)
Q Consensus 211 ear~yi~~y~~~~~------------~n~~lLelAkldFn~~Q~~hq~El~~lsrWwk~~~l~~~l~faRdr~ve~yf~~ 278 (554)
|||+||++|++++. +|++||||||+|||+||++||+||++++|||+++||. +|||||||++|||||+
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 8999999999999999999999999999999999996 9999999999999999
Q ss_pred hhccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhhcCCC-CcCCCChhHHHHHHHHHHHHHHHHHH
Q 008767 279 LVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTN-VTDTLPACMKFIYNKLLGVYNEAEEE 357 (554)
Q Consensus 279 ~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~rWd~~-~~~~lPe~mk~~f~al~~~~~ei~~~ 357 (554)
+ |++|||++|.+|++|||.++|++++||+||+|||.||++.||+||+|||.+ .++.+|+|||+||.++++++++++.+
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 57899999999999999999999877
Q ss_pred -HHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchh
Q 008767 358 -LAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVP 436 (554)
Q Consensus 358 -~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p 436 (554)
+.++|+ ++++|++++|++++++|++||+|+.+||+||++|||+|+.+|+|+++++.++++++|..+|+++++| .++|
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 557776 9999999999999999999999999999999999999999999999999999999999999999999 6999
Q ss_pred HHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcC--CCCHHHHHHHHHHHHHHHHHHhhHHHhhcc--CCCChhH
Q 008767 437 KIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQH--VVSEEEAEKALWLEIANGWKDLNYEELLNL--IAMPLPL 512 (554)
Q Consensus 437 ~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~--g~S~EeA~~~i~~~i~~~wk~ln~~e~l~~--~~~p~~~ 512 (554)
+|+++++.|+||+|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+|| ++++++ +++|++|
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 HHHHHHHhhhhhhccccCCCCCCCChhHHHHHHhhhcCccCC
Q 008767 513 LGPVLNLARMSEFIYEDGVDRYTNSYKMKDQVALVLKDPVTF 554 (554)
Q Consensus 513 ~~~~~N~aR~~~~~Y~~~~D~~t~~~~~k~~i~~ll~~pi~~ 554 (554)
++++||+||++++||+++ ||||.+ .||++|++||++|||+
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=7.1e-109 Score=926.06 Aligned_cols=444 Identities=23% Similarity=0.359 Sum_probs=400.9
Q ss_pred hhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc--c-C------CCCCChhhHHHHHHHhhhcCcccchhhhhccc
Q 008767 64 VDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND--L-G------SDSDNLYTVSLRFRLLRQQRVKISCDVFEKFK 134 (554)
Q Consensus 64 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~--~-~------~~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~ 134 (554)
|.+++++||+||+||||||+|||++||+++|+++|++ . . ....|+++|||+|||||||||+||||||++|+
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 4689999999999999999999999999999999984 1 1 12479999999999999999999999999998
Q ss_pred cccccccccc---cccchhhhhHHHhhcccccCchHHHHHHHHHHHHHHhHhh--hc-----CCccHHHHHHHHccCccc
Q 008767 135 DDEGKFKASM---INNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTHLKSMIS--RV-----ISNNLAEQIQHALRLPLR 204 (554)
Q Consensus 135 d~~g~F~~~~---~~d~~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~--~~-----~~~~l~~~V~~aL~~P~~ 204 (554)
+ +|+|++.+ .+|++|||+||||||+++|||.|||+|+.||++||++.+. ++ .+++|+++|+|||++|||
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 89998654 8999999999999999999999999999999999999863 11 256899999999999999
Q ss_pred ccchhHHHHHhHHhhcCCCcC-------------cHHHHHHHhhchHHHHHhhHHHHHHHHHHHHhcCCCCCChhhHHHH
Q 008767 205 KALPRLEARYYLNMYSRDDLH-------------DETLLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRM 271 (554)
Q Consensus 205 ~~~~rlear~yi~~y~~~~~~-------------n~~lLelAkldFn~~Q~~hq~El~~lsrWwk~~~l~~~l~faRdr~ 271 (554)
+++||||||+||++|++++++ |++||||||+|||+||++||+||++++|||+++||. +|||||||+
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 999999999999999987764 999999999999999999999999999999999997 899999999
Q ss_pred HHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhh--------hcCCCCcCCCCh-----
Q 008767 272 VEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVK--------RWDTNVTDTLPA----- 338 (554)
Q Consensus 272 ve~yf~~~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~--------rWd~~~~~~lPe----- 338 (554)
+|||||++ |++|||++|.+|++|||+++|++++||+||+|||+||+++||++|+ |||.+.+++||+
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 -hHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHH
Q 008767 339 -CMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASF 417 (554)
Q Consensus 339 -~mk~~f~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~ 417 (554)
|||+||.||++++|+++.+..+.+|.++.+|++++|.++++ +|..+|+ +|+|++.++++++
T Consensus 624 ~~mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~ 685 (800)
T PLN02592 624 KTGEELVGLLLGTLNQLSLDALEAHGRDISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTI 685 (800)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHH
Confidence 99999999999999998764444445999999999999999 6666665 4456666666666
Q ss_pred h-hcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcCC-CCHHHHHHHHHHHHHHHHH
Q 008767 418 L-DMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHV-VSEEEAEKALWLEIANGWK 495 (554)
Q Consensus 418 ~-~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g-~S~EeA~~~i~~~i~~~wk 495 (554)
+ .+|..+|++++ .+|++.++++.+.||+||++|+++|+.. .| +++ +|.+++.+.|+.+++
T Consensus 686 ~l~~g~~lsee~l----~~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~ 747 (800)
T PLN02592 686 NLTAGRSLSEELL----AHPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQ 747 (800)
T ss_pred HHhcCCCCCHHHc----cchhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHH
Confidence 6 66999999975 4799999999999999999999998841 23 455 899999999999999
Q ss_pred HhhHHHhhcc--CCCChhHHHHHHHHhhhhhhccccCCCCCCCChhHHHHHHhhhcCccC
Q 008767 496 DLNYEELLNL--IAMPLPLLGPVLNLARMSEFIYEDGVDRYTNSYKMKDQVALVLKDPVT 553 (554)
Q Consensus 496 ~ln~~e~l~~--~~~p~~~~~~~~N~aR~~~~~Y~~~~D~~t~~~~~k~~i~~ll~~pi~ 553 (554)
+|. +.+++. +.||++||+.|||++| +||. .||+.|..|+++|..+++|||+
T Consensus 748 eL~-~lvl~~~~~~vp~~cK~~f~~~~k---~fy~---~~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 748 ELV-QLVLQNSSDDIDPVIKQTFLMVAK---SFYY---AAYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHH-HHHhhcCCCCCCHHHHHHHHHHHH---HHHH---hhcCCHHHHHHHHHHHhCCCCC
Confidence 999 999973 4699999999999999 4566 3899997799999999999985
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=1.5e-55 Score=420.54 Aligned_cols=173 Identities=49% Similarity=0.791 Sum_probs=146.5
Q ss_pred CccccccccCCc-----cccchhhHHHHHHHHHHHHHHHhhchhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhc-
Q 008767 27 WGHHFLKSSFDF-----QTIDTTTQEQYDALKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLAND- 100 (554)
Q Consensus 27 W~~~f~~~~~~~-----~~~~~~~~~~~~~lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~- 100 (554)
|||+||++++++ ....+.+.+++++||++||.||.....|++++|+|||+||||||+|||++||+++|+++|+.
T Consensus 1 W~d~fl~s~s~~~~~~~~~~~~~~~~~~~~Lk~~v~~~l~~~~~d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~~ 80 (183)
T PF01397_consen 1 WGDDFLQSLSPSYTACMQSEDEKCKERAEELKEEVRNMLPASYPDPLEKLELIDTLQRLGISYHFEDEIKEILDSIYRSW 80 (183)
T ss_dssp TTHHHHHHTBHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHSSSSHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHTT
T ss_pred CCCceecCCCCcchhccchhHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhhc
Confidence 999999543322 12246778999999999999998754589999999999999999999999999999999996
Q ss_pred c--CCCCCChhhHHHHHHHhhhcCcccchhhhhccccccccccccccccchhhhhHHHhhcccccCchHHHHHHHHHHHH
Q 008767 101 L--GSDSDNLYTVSLRFRLLRQQRVKISCDVFEKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGEVILDEAIVFTTTH 178 (554)
Q Consensus 101 ~--~~~~~dl~~~al~FRlLR~~Gy~vS~dvf~~F~d~~g~F~~~~~~d~~~lL~LyeAs~l~~~gE~iLdea~~ft~~~ 178 (554)
. .....||++|||+|||||||||+||||||++|+|++|+|+.++++||+||||||||||+++|||+|||||+.||++|
T Consensus 81 ~~~~~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~~ 160 (183)
T PF01397_consen 81 DEDNEEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTKH 160 (183)
T ss_dssp TTTSHTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHHH
T ss_pred cccccccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHHH
Confidence 1 11234999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHhhhcCC--ccHHHHHHHHc
Q 008767 179 LKSMISRVIS--NNLAEQIQHAL 199 (554)
Q Consensus 179 L~~~~~~~~~--~~l~~~V~~aL 199 (554)
|++.+++... ++|+++|+|||
T Consensus 161 L~~~~~~~~~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 161 LKSLLSNLSIPDPHLAKEVKHAL 183 (183)
T ss_dssp HHHHHTTTCTTSCHHHHHHHHHH
T ss_pred HHHHhccCCCCcHHHHHHHHHhC
Confidence 9999985422 35999999997
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=7.9e-49 Score=395.91 Aligned_cols=269 Identities=29% Similarity=0.407 Sum_probs=246.8
Q ss_pred HHHHHhhchHHHHHhhHHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhc
Q 008767 229 LLKFAKLDFNLLQAAHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDT 308 (554)
Q Consensus 229 lLelAkldFn~~Q~~hq~El~~lsrWwk~~~l~~~l~faRdr~ve~yf~~~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~ 308 (554)
+|+|||+|||+||++||+|++++++||+++||..+.+.+|+|++.++|+.+ +++++|+.+..|+++||+++|+|++||+
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 8888899777777999999999999999
Q ss_pred cccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHh-CCCcchhHHHHHHHHHHHHHHHHHHH
Q 008767 309 FDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQ-GRSYGIPYAKQTMQEVILMYFTEAKW 387 (554)
Q Consensus 309 fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~-~~~~~~~~~~~~w~~~~~a~l~EA~W 387 (554)
||.+|+.++++.|+++++||++.....+|+++++++.++.++++++...+.+. ++..+.++|+++|.+|++++++|++|
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 33246778999999999999999999
Q ss_pred hhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcch
Q 008767 388 LKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSA 467 (554)
Q Consensus 388 ~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~ 467 (554)
+..|++||++||+++|+.|+|+++++.++++++|..+++...+++..+|.+.++++.+++|+|||+||+||+++|+.+|+
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 99999999999999999999999999999999987778777777777788999999999999999999999999999999
Q ss_pred hhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 468 VECYMKQHVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 468 V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
|.|+|+++|+|.|+|++++.+|+++++++||
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=2.8e-46 Score=380.00 Aligned_cols=283 Identities=50% Similarity=0.865 Sum_probs=265.2
Q ss_pred hhHHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHH
Q 008767 243 AHQKELSDMTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFT 322 (554)
Q Consensus 243 ~hq~El~~lsrWwk~~~l~~~l~faRdr~ve~yf~~~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft 322 (554)
.||+|++++++||+++||....+++|.+...+|+|++ +++|+|+.+..|+++||+++|+|++||+||.+|+.+++..++
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 4999999999999999997554499999999999999 999999999999999999999999999999999999999999
Q ss_pred HHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhh
Q 008767 323 EAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSV 402 (554)
Q Consensus 323 ~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~ 402 (554)
++++||+....+.+|+++++++.++.++++++.....+++++....++++.|.++++++.+||+|+..|++||++||+.+
T Consensus 80 ~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 80 EAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 99999998888889999999999999999999887777667788999999999999999999999999999999999999
Q ss_pred hhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcCCCCHHHH
Q 008767 403 ALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEA 482 (554)
Q Consensus 403 ~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g~S~EeA 482 (554)
|+.|+|++++++++++++|..+|++.+.+.+....+++.++.+++|+||++||+||+.+|+.+|+|.|||+++|+|.++|
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 99999999999999999999999855555578899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhHHHhhcc-CCCChhHHHHHHHHhhhhhhcc
Q 008767 483 EKALWLEIANGWKDLNYEELLNL-IAMPLPLLGPVLNLARMSEFIY 527 (554)
Q Consensus 483 ~~~i~~~i~~~wk~ln~~e~l~~-~~~p~~~~~~~~N~aR~~~~~Y 527 (554)
++++.++++++|++++ +.+.+. ++.|+.+++.+.|.+|.....|
T Consensus 240 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 240 LEELRKMIEEAWKELN-EEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 9999999999999999 998864 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=5.3e-34 Score=293.93 Aligned_cols=243 Identities=17% Similarity=0.115 Sum_probs=212.7
Q ss_pred HHHHHHhcCCCCCChhhHHHHHHHHHHHhhccccCCCccchhH-HHHHHHHHHHhhhhccccC-CCHHHHHHHHHHhhhc
Q 008767 251 MTRWWKDLDIPTKLPYARDRMVEVYFWTLVGVYCEPKYTFGRI-LVSKIICLISLIDDTFDAY-GTFEELTLFTEAVKRW 328 (554)
Q Consensus 251 lsrWwk~~~l~~~l~faRdr~ve~yf~~~~a~~~eP~~s~~Rl-~~aK~~~l~~iiDD~fD~~-gt~eEl~~ft~ai~rW 328 (554)
...|.++.|+. .-+.+|+++..++|+.+ +.++.|+++..|+ +.|++++|+|++||+||.. +++++++.+++.+.++
T Consensus 19 ~~~w~~~~~l~-~~~~~~~~~~~~~~~~~-~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~ 96 (303)
T cd00687 19 YLEWVLEEMLI-PSEKAEKRFLSADFGDL-AALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDI 96 (303)
T ss_pred HHHHHHHcCCC-CcchhHHHHhcCCHHHH-HhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhc
Confidence 56799999775 23689999999888888 7778899999999 7779999999999999987 5899999999888885
Q ss_pred CCC-CcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhcc
Q 008767 329 DTN-VTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSI 407 (554)
Q Consensus 329 d~~-~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~ 407 (554)
... .... |+...++..++.+++.++.... ++...+++++.|.+++.|+++|++|+.+|++||++||+++|+.|+
T Consensus 97 ~~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~----~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~ 171 (303)
T cd00687 97 LRGDGLDS-PDDATPLEFGLADLWRRTLARM----SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNI 171 (303)
T ss_pred cCCCCCCC-CCCCCHHHHHHHHHHHHhccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcc
Confidence 443 2222 5677788999999998886432 234567999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhh-ccCCCcchhhHHHhcCCCCHHHHHHHH
Q 008767 408 AVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQ-KRGHIPSAVECYMKQHVVSEEEAEKAL 486 (554)
Q Consensus 408 g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~-~rG~~~n~V~cyM~e~g~S~EeA~~~i 486 (554)
|+.+++.++++++|..+|+++.+. +...++.++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|+|++++
T Consensus 172 g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~ 250 (303)
T cd00687 172 GADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVV 250 (303)
T ss_pred cccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHH
Confidence 999999999999999999997665 445669999999999999999999999 899999999999999999999999999
Q ss_pred HHHHHHHHHHhhHHHh
Q 008767 487 WLEIANGWKDLNYEEL 502 (554)
Q Consensus 487 ~~~i~~~wk~ln~~e~ 502 (554)
.++++++++++. +..
T Consensus 251 ~~~~~~~~~~f~-~~~ 265 (303)
T cd00687 251 RDMHNERITQFE-ELE 265 (303)
T ss_pred HHHHHHHHHHHH-HHH
Confidence 999999999987 543
No 8
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=1.3e-30 Score=224.00 Aligned_cols=94 Identities=36% Similarity=0.619 Sum_probs=91.2
Q ss_pred hccCCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhHHHhhccCCCChhHHHHHHHHhhhhhhc-cccCCCCCCCC
Q 008767 459 QKRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNYEELLNLIAMPLPLLGPVLNLARMSEFI-YEDGVDRYTNS 537 (554)
Q Consensus 459 ~~rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~~~~~N~aR~~~~~-Y~~~~D~~t~~ 537 (554)
++|||++|+|+|||||||+|+|||+++++++|+++||++| +|+|+++++|++++++++|+||+++++ |++| ||||.+
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 008767 538 YK-MKDQVALVLKDPVTF 554 (554)
Q Consensus 538 ~~-~k~~i~~ll~~pi~~ 554 (554)
.. +|++|++||++|||+
T Consensus 79 ~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 79 HGKLKDLITSLFFHPLPL 96 (96)
T ss_pred cHHHHHHHHHHhccCCCC
Confidence 76 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=99.84 E-value=5.9e-21 Score=185.73 Aligned_cols=226 Identities=26% Similarity=0.241 Sum_probs=181.7
Q ss_pred ccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 008767 281 GVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAK 360 (554)
Q Consensus 281 a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~ 360 (554)
++++.|+.+..|..++++.+|++++||++|..++..........+ .....|..+...+..+...+.++....
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 76 (243)
T cd00385 5 AVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELAREG-- 76 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhCC--
Confidence 667888888999999999999999999999888766655544333 123467777778888888888875421
Q ss_pred hCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHH
Q 008767 361 QGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIIT 440 (554)
Q Consensus 361 ~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~ 440 (554)
.+....++++.|.+++.|+..|+.|... ++||++||+.++..++ +.++.....++++...++ ..+......+..
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 1356789999999999999999999877 8999999999999998 555666667766666665 334455678899
Q ss_pred HHHHHHHHhcCcCcchhhhccC-CCcchhhHHHhcCCC------------CHHHHHHHHHHHHHHHHHHhhHHHhhccCC
Q 008767 441 ASENICRLLDDVASHKFEQKRG-HIPSAVECYMKQHVV------------SEEEAEKALWLEIANGWKDLNYEELLNLIA 507 (554)
Q Consensus 441 ~~~~i~RL~NDI~S~~kE~~rG-~~~n~V~cyM~e~g~------------S~EeA~~~i~~~i~~~wk~ln~~e~l~~~~ 507 (554)
..+.+++|.||+.|+.+|.++| +..|++.++|+++|+ +.++|.+++..+++++|++++ +.......
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 889999999999999999998 76554223
Q ss_pred CChhHHHHHHHHhh
Q 008767 508 MPLPLLGPVLNLAR 521 (554)
Q Consensus 508 ~p~~~~~~~~N~aR 521 (554)
.+..+++.+.+++|
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=97.54 E-value=0.0018 Score=68.32 Aligned_cols=194 Identities=13% Similarity=0.122 Sum_probs=112.9
Q ss_pred ccCCCccc-hhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHh
Q 008767 283 YCEPKYTF-GRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQ 361 (554)
Q Consensus 283 ~~eP~~s~-~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~ 361 (554)
+..|..+. .++.+|=+.++++++||.++.. .+++..|-+-+-. ..+- |. ++...+.+.+.++ .+.
T Consensus 76 ~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~Q---~~---p~L~~~~~~L~~~----~~~ 141 (376)
T PF06330_consen 76 YCYPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQPQ---KH---PLLDGFASLLREM----WRH 141 (376)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T------SS---HHHHHHHHHHHHH----HTT
T ss_pred eecCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CCCC---CC---HHHHHHHHHHHHH----HHH
Confidence 33466654 5568888999999999998765 4677777665544 1111 11 2344444444443 333
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHH---
Q 008767 362 GRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKI--- 438 (554)
Q Consensus 362 ~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l--- 438 (554)
=++.+-+-+.++--+++.+...|.+.. +-.|.-..|-..-+.=+|...+.+...+ -...-|+. .....+
T Consensus 142 fgpf~anmI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiF-Pk~~fpe~-----~~~~~y~~A 213 (376)
T PF06330_consen 142 FGPFCANMIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIF-PKALFPEV-----EYFIQYTPA 213 (376)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT---TTTS-TT-----TTHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeec-ccccCChH-----HHHHHHHHH
Confidence 344666778888899999999997643 2234433444444555565555553333 12222322 222332
Q ss_pred HHHHHHHHHHhcCcCcchhhhc-cCCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 439 ITASENICRLLDDVASHKFEQK-RGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 439 ~~~~~~i~RL~NDI~S~~kE~~-rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
+--....+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|...+.+-.-++-+++.
T Consensus 214 Ipdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~ 274 (376)
T PF06330_consen 214 IPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVR 274 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 2333344458999999999977 78889999888888899999999988666666666654
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=97.47 E-value=0.0024 Score=66.41 Aligned_cols=196 Identities=15% Similarity=0.093 Sum_probs=117.0
Q ss_pred CccchhH-HHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCc
Q 008767 287 KYTFGRI-LVSKIICLISLIDDTFDAYGTFEELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSY 365 (554)
Q Consensus 287 ~~s~~Rl-~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~ 365 (554)
+.|..=+ .++-..+.++++||.-|.. .+.++.|.+-+.. +.+ ..-| +...+.+.+..+- ..=|+.
T Consensus 80 ~~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~--G~~-qkhP-----~l~~v~~~l~~~l----r~fGpF 145 (357)
T cd00686 80 KVSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA--GRE-QAHP-----WWALVNEHFPNVL----RHFGPF 145 (357)
T ss_pred CCCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc--CCC-CCCc-----HHHHHHHHHHHHH----HHhhhh
Confidence 3555544 6666777888999997754 3456666665544 211 1122 2222222222221 122345
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHH-
Q 008767 366 GIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN- 444 (554)
Q Consensus 366 ~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~- 444 (554)
+-.-+.+.--+++.+.+-|... .+.-|.-.+|-...+.=+|.+=+.+...+ |++.|.-...+..+..+...
T Consensus 146 ~s~~IikSTLdFv~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~FiF------Pk~~FpE~~~~~qi~~AIp~~ 217 (357)
T cd00686 146 CSLNLIRSTLDFFEGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASLW------PKEQFNERSLFLEITSAIAQM 217 (357)
T ss_pred hHHHHHHHHHHHHHHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEec------chhhCchHhhHHHhhHHHHHH
Confidence 5566778888899999999663 34467666677666666665554443222 33332211222233333333
Q ss_pred --HHHHhcCcCcchhhhcc-CCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhhHHHhhccC
Q 008767 445 --ICRLLDDVASHKFEQKR-GHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLNYEELLNLI 506 (554)
Q Consensus 445 --i~RL~NDI~S~~kE~~r-G~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln~~e~l~~~ 506 (554)
.+-++|||.||=||.-. ++-.|.|.-|-+.+|+|..+|.+.+..-.-.+-+++. .+|.+.
T Consensus 218 ~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~--~VLse~ 280 (357)
T cd00686 218 ENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMV--AVFSDK 280 (357)
T ss_pred HHHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHH--HHhcCC
Confidence 34588999999999854 4557888888888999999999988766666666654 455543
No 12
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=92.33 E-value=3 Score=42.15 Aligned_cols=201 Identities=15% Similarity=0.104 Sum_probs=104.5
Q ss_pred cchhHHHHHHHHHHHhhhhccccCCCHH----HHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCC
Q 008767 289 TFGRILVSKIICLISLIDDTFDAYGTFE----ELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRS 364 (554)
Q Consensus 289 s~~Rl~~aK~~~l~~iiDD~fD~~gt~e----El~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~ 364 (554)
...|-.+.-+-.+.-.+||+-|...... -++-+-++++..-.+..+..|....++..++..+.....
T Consensus 17 ~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~~--------- 87 (267)
T PF00494_consen 17 KEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRYG--------- 87 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCSH---------
T ss_pred HHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHHh---------
Confidence 3455555557778888999999766432 244455555542211111223334456665554432211
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCH-HHHHHhhchhHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATK-EVFEWVLKVPKIITASE 443 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~-e~~e~~~~~p~l~~~~~ 443 (554)
--++.+.+++.|+. .+.....++|++|+......+.|....+++..++... ++ +..+ .....+
T Consensus 88 ----l~~~~l~~li~~~~---~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~--~~~~~~~-------~a~~lG 151 (267)
T PF00494_consen 88 ----LPREPLLELIDGME---MDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHD--PDEAARD-------AARALG 151 (267)
T ss_dssp ----HHHHHHHHHHHHHH---HCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST--SHHHHHH-------HHHHHH
T ss_pred ----hhHHHHHHHHHHhc---ccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc--chhhHHH-------HHHHHH
Confidence 23455677777776 3344456889999999999988887777766665531 22 2222 233344
Q ss_pred HHHHHhcCcCcchhh-hccCCCcchh-hHHHhcCCCCHHHHHHH----------HHHHHHHHHHHhhHHHhhccCCC-Ch
Q 008767 444 NICRLLDDVASHKFE-QKRGHIPSAV-ECYMKQHVVSEEEAEKA----------LWLEIANGWKDLNYEELLNLIAM-PL 510 (554)
Q Consensus 444 ~i~RL~NDI~S~~kE-~~rG~~~n~V-~cyM~e~g~S~EeA~~~----------i~~~i~~~wk~ln~~e~l~~~~~-p~ 510 (554)
..+-+.|=|...... ..+|-+ .+ .=.|.++|+|.++-... +..++..+...+. +..--...+ |.
T Consensus 152 ~alql~nilRd~~~D~~~~gR~--ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~-~a~~~~~~l~~~ 228 (267)
T PF00494_consen 152 RALQLTNILRDIPEDALRRGRI--YLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLD-EARAGLSALPPP 228 (267)
T ss_dssp HHHHHHHHHHTHHHH-HHTT-----S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHH-HHHHGGGGS--T
T ss_pred HHHHHHHHHHHhHHHHHhcccc--cCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHcCCH
Confidence 444444444444555 556654 12 23578899988865432 3455555554443 322112346 44
Q ss_pred hHHHHHH
Q 008767 511 PLLGPVL 517 (554)
Q Consensus 511 ~~~~~~~ 517 (554)
.+.-.+.
T Consensus 229 ~~~~~~~ 235 (267)
T PF00494_consen 229 RARPAVA 235 (267)
T ss_dssp THHHHHH
T ss_pred hhhHHHH
Confidence 4444333
No 13
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=92.05 E-value=2.6 Score=41.62 Aligned_cols=117 Identities=10% Similarity=0.075 Sum_probs=77.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhh-ccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHH
Q 008767 366 GIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALR-SIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 444 (554)
Q Consensus 366 ~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~-S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~ 444 (554)
....+.+...+++.|...+..|..+ ..||.++|++.... |++..-..+..-...+. -+++.. ....++.+..++
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~---~~~~~~~~~lG~ 160 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQA---EALKDYGRALGL 160 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHH---HHHHHHHHHHHH
Confidence 4556788889999999999988654 57999999999888 66554333332222222 223322 223567778888
Q ss_pred HHHHhcCcCcchhhh----------ccCCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 445 ICRLLDDVASHKFEQ----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 445 i~RL~NDI~S~~kE~----------~rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
..-+.||+..+.... ++|.. +...+++ .+.+.+.++.+++.+.
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 888999999887655 55655 5555555 5556666666665554
No 14
>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=87.99 E-value=33 Score=34.87 Aligned_cols=119 Identities=13% Similarity=0.082 Sum_probs=65.0
Q ss_pred HHHHHhhccccCCCccchhHHHHHHHHHHHhhhhccccC-CCHHH----HHHHHHHhhh-cCCCCcCCCChhHHHHHHHH
Q 008767 274 VYFWTLVGVYCEPKYTFGRILVSKIICLISLIDDTFDAY-GTFEE----LTLFTEAVKR-WDTNVTDTLPACMKFIYNKL 347 (554)
Q Consensus 274 ~yf~~~~a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~-gt~eE----l~~ft~ai~r-Wd~~~~~~lPe~mk~~f~al 347 (554)
+|+|+. -.. |. ..|-.+.-+-.+.=++||+-|.. ++.++ ++-+-+.++. .... |+ .++..++
T Consensus 7 sf~~a~-~~l--p~--~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g~-----~~--~pv~~aL 74 (266)
T TIGR03464 7 NFPVAS-LLL--PA--RLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSGE-----PA--APVFVAL 74 (266)
T ss_pred cHHHHH-HhC--CH--HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCCC-----CC--ChHHHHH
Confidence 455555 323 32 33443344556667889999975 44443 3344444433 1111 21 2455666
Q ss_pred HHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhc
Q 008767 348 LGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM 420 (554)
Q Consensus 348 ~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~ 420 (554)
..++.+. +.. ++.+.+++.++. ........+|++|.......++|+...+++..++.
T Consensus 75 ~~~~~~~--------~l~-----~~~~~~li~~~~---~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~ 131 (266)
T TIGR03464 75 ARTVQRH--------GLP-----IEPFLDLLDAFR---QDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGA 131 (266)
T ss_pred HHHHHHc--------CCC-----hHHHHHHHHHHH---HhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCC
Confidence 6554432 111 244556666664 22334567899999998888888777766666544
No 15
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=86.81 E-value=20 Score=36.23 Aligned_cols=120 Identities=11% Similarity=-0.011 Sum_probs=75.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 444 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~ 444 (554)
.....+.+.....+.|-..+..|... ..||.++|++...--+|.....+....++--..+++..+ ...++-+..++
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~---~l~~~g~~lG~ 183 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAE---ALKRFGRNLGL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHH---HHHHHHHHHHH
Confidence 45667778888899999989988654 579999999988777776644332222110112344322 23566777777
Q ss_pred HHHHhcCcCcchhhh-----------ccCCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 445 ICRLLDDVASHKFEQ-----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 445 i~RL~NDI~S~~kE~-----------~rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
..-+.||+..+.... ..|.. |.+.+|.- .+.+...++++++.+.
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 778899988775432 22333 45444443 5566677777776665
No 16
>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=84.91 E-value=47 Score=33.67 Aligned_cols=195 Identities=13% Similarity=0.077 Sum_probs=96.9
Q ss_pred hhHHHHHHHHHHHhhhhccccCCCHHH----HHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcc
Q 008767 291 GRILVSKIICLISLIDDTFDAYGTFEE----LTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYG 366 (554)
Q Consensus 291 ~Rl~~aK~~~l~~iiDD~fD~~gt~eE----l~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~~ 366 (554)
.|-.+.-+-.+.-.+||+-|..++.++ |+-+-+++..-... -|. .++..++..++... +.
T Consensus 19 ~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g----~~~--~pv~~al~~~~~~~--------~l-- 82 (266)
T TIGR03465 19 RRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAG----APS--HPVARALADPARRF--------DL-- 82 (266)
T ss_pred HHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCC----CCC--ChHHHHHHHHHHHc--------CC--
Confidence 444444566777779999997554433 33333333321111 121 24555555443321 10
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHH
Q 008767 367 IPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENIC 446 (554)
Q Consensus 367 ~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~ 446 (554)
-++.+.+++.++.+.. ....++|++|+......+.|.-..+++-.++.. ++.... .....+...
T Consensus 83 ---~~~~~~~li~g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~-------~a~~lG~Al 146 (266)
T TIGR03465 83 ---PQEDFLEVIDGMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLE-------YAHHLGRAL 146 (266)
T ss_pred ---CHHHHHHHHHHHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHH-------HHHHHHHHH
Confidence 1345667777776433 345678999988888887776666555555322 122211 222223333
Q ss_pred HHhcCcCcchhhhccCCCcchhhHHHhcCCCCHH---------HHHHHHHHHHHHHHHHhhHHHhhccCCCChhHHHHHH
Q 008767 447 RLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEE---------EAEKALWLEIANGWKDLNYEELLNLIAMPLPLLGPVL 517 (554)
Q Consensus 447 RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g~S~E---------eA~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~~~~~ 517 (554)
-|.|=+.......++|-+. +=.=.|.++|+|.+ ...+-+..+++.+..-+. +..--...+|......++
T Consensus 147 qltnilRdv~eD~~~gR~y-lP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~-~a~~~~~~~p~~~~~~~~ 224 (266)
T TIGR03465 147 QLTNILRDVGEDARRGRIY-LPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYA-EADALLPACDRRAQRAAR 224 (266)
T ss_pred HHHHHHHHhHHHHhCCCee-cCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHH-HHHHhhhhCCHhhhHHHH
Confidence 3333222223345567641 11234678898876 334555666666665544 332112457764444433
Q ss_pred HH
Q 008767 518 NL 519 (554)
Q Consensus 518 N~ 519 (554)
-.
T Consensus 225 ~~ 226 (266)
T TIGR03465 225 AM 226 (266)
T ss_pred HH
Confidence 33
No 17
>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=78.66 E-value=78 Score=31.95 Aligned_cols=199 Identities=15% Similarity=0.107 Sum_probs=101.1
Q ss_pred chhHHHHHHHHHHHhhhhccccCCCH-----HHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCC
Q 008767 290 FGRILVSKIICLISLIDDTFDAYGTF-----EELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRS 364 (554)
Q Consensus 290 ~~Rl~~aK~~~l~~iiDD~fD~~gt~-----eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~ 364 (554)
..|-.+.-+-.+.-.+||+-|..... ..|+-+-++++.-... .-|. .++..+|..+..+ .+
T Consensus 24 ~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~---~~~~--~pv~~al~~~~~~--------~~- 89 (265)
T cd00683 24 ELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWG---GAPT--HPVLRALADLARR--------YG- 89 (265)
T ss_pred HHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcC---CCCC--ChHHHHHHHHHHH--------cC-
Confidence 34444444666777789999965432 2344444444442111 1111 1456666654431 11
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 444 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~ 444 (554)
--++.+.+++.|+..... ....||++|.......+.|+...+++..++.+ -+++.. ......+.
T Consensus 90 ----l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~-------~~A~~lG~ 153 (265)
T cd00683 90 ----IPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAAL-------ERARALGL 153 (265)
T ss_pred ----CCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHH-------HHHHHHHH
Confidence 123556777777774443 45678998888888887776666565555432 122221 22222333
Q ss_pred HHHHhcCcCcchhhhccCCC--cchhhHHHhcCCCCHHHH---------HHHHHHHHHHHHHHhhHHHhhccCCCChhHH
Q 008767 445 ICRLLDDVASHKFEQKRGHI--PSAVECYMKQHVVSEEEA---------EKALWLEIANGWKDLNYEELLNLIAMPLPLL 513 (554)
Q Consensus 445 i~RL~NDI~S~~kE~~rG~~--~n~V~cyM~e~g~S~EeA---------~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~ 513 (554)
..-|.|=+.......++|-+ +. =.|.++|+|.++- ..-+..+++.+.+-+. ...-....+|....
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 33333322222334456643 22 2367888887552 2445556665555544 33222245776555
Q ss_pred HHHHHHhhh
Q 008767 514 GPVLNLARM 522 (554)
Q Consensus 514 ~~~~N~aR~ 522 (554)
-.++-++.+
T Consensus 230 ~~~~~~~~~ 238 (265)
T cd00683 230 FCVRAAAML 238 (265)
T ss_pred HHHHHHHHH
Confidence 444444433
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=77.86 E-value=86 Score=32.98 Aligned_cols=89 Identities=9% Similarity=-0.035 Sum_probs=56.3
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASEN 444 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~ 444 (554)
.+...+.++...++.|-+.+..|... .-+|.++|++.-..=+|.....+...-++--..+++..+. .-++-+..++
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 45667788888899998888777433 3479999999766545544322211111111235554333 2556777888
Q ss_pred HHHHhcCcCcchh
Q 008767 445 ICRLLDDVASHKF 457 (554)
Q Consensus 445 i~RL~NDI~S~~k 457 (554)
..-+.||+..+.-
T Consensus 209 aFQi~DDild~~~ 221 (322)
T TIGR02749 209 AFQVVDDILDFTG 221 (322)
T ss_pred HHHHHHHhccCCC
Confidence 8889999988763
No 19
>PLN02632 phytoene synthase
Probab=77.33 E-value=1e+02 Score=32.60 Aligned_cols=193 Identities=10% Similarity=0.054 Sum_probs=93.7
Q ss_pred hHHHHHHHHHHHhhhhccccCCCH----HHHHHHHHHhhhcCCCCcCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcch
Q 008767 292 RILVSKIICLISLIDDTFDAYGTF----EELTLFTEAVKRWDTNVTDTLPACMKFIYNKLLGVYNEAEEELAKQGRSYGI 367 (554)
Q Consensus 292 Rl~~aK~~~l~~iiDD~fD~~gt~----eEl~~ft~ai~rWd~~~~~~lPe~mk~~f~al~~~~~ei~~~~~~~~~~~~~ 367 (554)
|..+.-+-.|.-.+||+=|..... ..|+..-+.++.--.. -|.. ++..++.++..+.. -
T Consensus 75 R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g----~~~~--pv~~aL~~~~~~~~---------L-- 137 (334)
T PLN02632 75 RKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLFDG----RPYD--MLDAALADTVSKFP---------L-- 137 (334)
T ss_pred HHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCC----CCCC--hHHHHHHHHHHHCC---------C--
Confidence 333334566677789999964432 2344444444331111 1211 35556555443221 1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHH
Q 008767 368 PYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASENICR 447 (554)
Q Consensus 368 ~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~R 447 (554)
-++.+.+++.|+.... .....+|++|+......+.|+--.+++..++.....+.. .+++ .......+...-
T Consensus 138 --~~~~~~~li~g~~~Dl---~~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~-~~~~---~~~A~~lG~AlQ 208 (334)
T PLN02632 138 --DIQPFRDMIEGMRMDL---VKSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKAS-TESV---YNAALALGIANQ 208 (334)
T ss_pred --ChHHHHHHHHHHHHHh---ccCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccc-hHHH---HHHHHHHHHHHH
Confidence 1344566777766433 345678999999888887777666666555543311100 0111 111222233333
Q ss_pred HhcCcCcchhhhccCCCcchh-hHHHhcCCCCHHHH---------HHHHHHHHHHHHHHhhHHHhhccCCCChhHH
Q 008767 448 LLDDVASHKFEQKRGHIPSAV-ECYMKQHVVSEEEA---------EKALWLEIANGWKDLNYEELLNLIAMPLPLL 513 (554)
Q Consensus 448 L~NDI~S~~kE~~rG~~~n~V-~cyM~e~g~S~EeA---------~~~i~~~i~~~wk~ln~~e~l~~~~~p~~~~ 513 (554)
|.|=+.......++|-+ .+ .=.|.++|+|.++- ..-+..++..+..-+. +..---..+|..+.
T Consensus 209 ltNILRDv~eD~~~GRv--YLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~-~a~~~l~~lp~~~r 281 (334)
T PLN02632 209 LTNILRDVGEDARRGRV--YLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFA-EAEEGVSELDPASR 281 (334)
T ss_pred HHHHHHHHHHHHhCCce--eCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHH-HHHHhHhhCCHHhH
Confidence 33322222344566654 11 12468899998772 3344555555554433 32111134776554
No 20
>PLN02890 geranyl diphosphate synthase
Probab=76.67 E-value=77 Score=34.78 Aligned_cols=91 Identities=12% Similarity=-0.020 Sum_probs=60.2
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHH
Q 008767 364 SYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASE 443 (554)
Q Consensus 364 ~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~ 443 (554)
..++..+.++...++.|-+.+..|.. ...+|.++|++....-+|.....+...-++=-..+++..+.+ -.+-+..+
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 34667788999999999999999864 456899999987665555443322211111012355554443 45677788
Q ss_pred HHHHHhcCcCcchhh
Q 008767 444 NICRLLDDVASHKFE 458 (554)
Q Consensus 444 ~i~RL~NDI~S~~kE 458 (554)
+..-+.||+..|.-.
T Consensus 302 lAFQI~DDiLD~~g~ 316 (422)
T PLN02890 302 LAFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHHhhcCC
Confidence 888899999988644
No 21
>PLN02857 octaprenyl-diphosphate synthase
Probab=69.19 E-value=82 Score=34.51 Aligned_cols=88 Identities=14% Similarity=0.003 Sum_probs=56.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhh-cCCCCCHHHHHHhhchhHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLD-MGDIATKEVFEWVLKVPKIITASE 443 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~-~g~~l~~e~~e~~~~~p~l~~~~~ 443 (554)
.+...+.++..+++.+-+.+..+.. +.-+|.++|++....=+|.....+. ..| +=-..+++..+.+ .++-+..+
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~-~~gallaga~~~~~~~l---~~fG~~LG 301 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAAST-KSAAIFSGVDSSVKEQM---YEYGKNLG 301 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHH-HHHHHHcCCCHHHHHHH---HHHHHHHH
Confidence 4566777888888888888887754 4457999999977665554433221 111 1012355544333 55667778
Q ss_pred HHHHHhcCcCcchh
Q 008767 444 NICRLLDDVASHKF 457 (554)
Q Consensus 444 ~i~RL~NDI~S~~k 457 (554)
+..-+.||+..+..
T Consensus 302 iAFQI~DDiLD~~~ 315 (416)
T PLN02857 302 LAFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHHHhhcC
Confidence 88889999998763
No 22
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=66.11 E-value=1.3e+02 Score=31.72 Aligned_cols=110 Identities=14% Similarity=0.038 Sum_probs=71.2
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhcCCCCCHHHHHHhhchhHHHHHHH
Q 008767 364 SYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDMGDIATKEVFEWVLKVPKIITASE 443 (554)
Q Consensus 364 ~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~ 443 (554)
......+.+....++.|-..+..|.... +|.++|+.+-..=+|.....+...-++--..+++..+.+ ..+-+..+
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 999999998776555544333222111111234544443 56777888
Q ss_pred HHHHHhcCcCcchhhh-ccCCC---------cchhhHHHhcCCCC
Q 008767 444 NICRLLDDVASHKFEQ-KRGHI---------PSAVECYMKQHVVS 478 (554)
Q Consensus 444 ~i~RL~NDI~S~~kE~-~rG~~---------~n~V~cyM~e~g~S 478 (554)
++.=+.||+..+.-+. .-|+. .+...++.-+.+..
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 8889999999888642 22332 36666676665443
No 23
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=57.00 E-value=8.6 Score=36.24 Aligned_cols=29 Identities=28% Similarity=0.401 Sum_probs=25.7
Q ss_pred ccCCCcchhhHHHhcC-CCCHHHHHHHHHH
Q 008767 460 KRGHIPSAVECYMKQH-VVSEEEAEKALWL 488 (554)
Q Consensus 460 ~rG~~~n~V~cyM~e~-g~S~EeA~~~i~~ 488 (554)
.||-.+..|.||+-++ |.|.++|.+++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~ 148 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRK 148 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHh
Confidence 5667789999998887 8999999999987
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=51.57 E-value=3.1e+02 Score=28.72 Aligned_cols=87 Identities=14% Similarity=0.005 Sum_probs=56.1
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhc--CCCCCHHHHHHhhchhHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM--GDIATKEVFEWVLKVPKIITAS 442 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~--g~~l~~e~~e~~~~~p~l~~~~ 442 (554)
.....+.++....+.|-..+..|.. +.-+|.++|++.-..-+|.....+ ...|. + ..+++..+. .-++-+..
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~-~~~ga~~a-g~~~~~~~~---l~~~g~~l 202 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAAS-CQLGAIAS-GANEAIVKK---LYWFGYYV 202 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHc-CCCHHHHHH---HHHHHHHH
Confidence 4556778888889999888888743 345799999987766665543322 22221 1 124443332 24566777
Q ss_pred HHHHHHhcCcCcchh
Q 008767 443 ENICRLLDDVASHKF 457 (554)
Q Consensus 443 ~~i~RL~NDI~S~~k 457 (554)
++..-+.||+..+.-
T Consensus 203 G~aFQI~DDilD~~~ 217 (319)
T TIGR02748 203 GMSYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHHHccC
Confidence 888889999987753
No 25
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=50.54 E-value=13 Score=36.28 Aligned_cols=45 Identities=31% Similarity=0.208 Sum_probs=30.8
Q ss_pred HHhcCcCcchhhhccCC-CcchhhHHHhcCCCCHHHHHHHHHHHHH
Q 008767 447 RLLDDVASHKFEQKRGH-IPSAVECYMKQHVVSEEEAEKALWLEIA 491 (554)
Q Consensus 447 RL~NDI~S~~kE~~rG~-~~n~V~cyM~e~g~S~EeA~~~i~~~i~ 491 (554)
.|--++..+++..+.-+ +.-+=.+.|+++|+|++||+.+++++--
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 35555556665543322 2334457999999999999999998654
No 26
>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=47.65 E-value=16 Score=28.07 Aligned_cols=28 Identities=29% Similarity=0.215 Sum_probs=21.4
Q ss_pred CcchhhHHHhcCCCCHHHHHHHHHHHHH
Q 008767 464 IPSAVECYMKQHVVSEEEAEKALWLEIA 491 (554)
Q Consensus 464 ~~n~V~cyM~e~g~S~EeA~~~i~~~i~ 491 (554)
+.-++.+.|..+|+|+++|.+.+++.-.
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 3456789999999999999999988554
No 27
>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.25 E-value=16 Score=37.14 Aligned_cols=191 Identities=16% Similarity=0.149 Sum_probs=99.1
Q ss_pred ccccCCCccchhHHHHHHHHHHHhhhhccccCCCHHHHHHHHHHhhh-c--C--------CCCcCCCChhHHHHHHHHHH
Q 008767 281 GVYCEPKYTFGRILVSKIICLISLIDDTFDAYGTFEELTLFTEAVKR-W--D--------TNVTDTLPACMKFIYNKLLG 349 (554)
Q Consensus 281 a~~~eP~~s~~Rl~~aK~~~l~~iiDD~fD~~gt~eEl~~ft~ai~r-W--d--------~~~~~~lPe~mk~~f~al~~ 349 (554)
..+|+|.|...++ +.++.+|++++|-+=|- .+.+..+..-+.| . + .+.+++|++..|+=- =.+
T Consensus 86 ~~~Fd~s~D~e~i-F~~~gALifvIDaQddy---~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kiet--qrd 159 (347)
T KOG3887|consen 86 MDFFDPSFDYEMI-FRGVGALIFVIDAQDDY---MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIET--QRD 159 (347)
T ss_pred cccCCCccCHHHH-HhccCeEEEEEechHHH---HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhh--HHH
Confidence 4688999999865 57899999999866542 2333333333443 1 2 245778998776522 123
Q ss_pred HHHHHHHHHHHhCC--CcchhHHHHHH-HHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHH------------
Q 008767 350 VYNEAEEELAKQGR--SYGIPYAKQTM-QEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVT------------ 414 (554)
Q Consensus 350 ~~~ei~~~~~~~~~--~~~~~~~~~~w-~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~------------ 414 (554)
+..+..+++.-.|- ..+.-|+.-.+ ...+.|+-+=.+-. -..+||+|.-|.+=..+++..-.+.
T Consensus 160 I~qr~~d~l~d~gle~v~vsf~LTSIyDHSIfEAFSkvVQkL-ipqLptLEnlLnif~s~S~ieKafLFDv~SKIYiaTD 238 (347)
T KOG3887|consen 160 IHQRTNDELADAGLEKVQVSFYLTSIYDHSIFEAFSKVVQKL-IPQLPTLENLLNIFISNSKIEKAFLFDVLSKIYIATD 238 (347)
T ss_pred HHHHhhHHHHhhhhccceEEEEEeeecchHHHHHHHHHHHHH-hhhchhHHHHHHHHhhccchhhhhhhhhhheeEEecC
Confidence 33333222222221 01111222111 12223333222221 2457899988877666665442211
Q ss_pred -------HHHhhcC-CCCCHHHHHH-----hhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcCCCCHHH
Q 008767 415 -------ASFLDMG-DIATKEVFEW-----VLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEE 481 (554)
Q Consensus 415 -------~~~~~~g-~~l~~e~~e~-----~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g~S~Ee 481 (554)
.-++++. ..++-+...- --+.+..-+.++.+.||.|+..-|-+|..++- ++-|.|++.|...+.
T Consensus 239 S~PVdmq~YElC~d~IDV~iDl~~iYg~~~~~~~s~~d~~s~svirL~n~~vlyLrev~k~L---ALV~i~re~~~e~~g 315 (347)
T KOG3887|consen 239 SSPVDMQSYELCCDMIDVTIDLSSIYGLKEDGKGSDYDKESSSVIRLNNTTVLYLREVNKFL---ALVCIVREDGFEKKG 315 (347)
T ss_pred CCcchhHHHHHHHhhhheeeehHHhhCCCCCCCCCchhhhhhhhhhhcCceEEeHHHhhhhe---EEEEEEccCCccccc
Confidence 1111110 0000000000 01224456677788999999999999998864 344999998876554
No 28
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=45.57 E-value=1.3e+02 Score=30.44 Aligned_cols=149 Identities=18% Similarity=0.120 Sum_probs=93.3
Q ss_pred HHHHHHHHHHhhchhchhhhhhHHHHHHHhCcccccHHHHHHHHHHHHhccCCCCCChhhHHHHHHHhhhcCcccchhhh
Q 008767 51 ALKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKLANDLGSDSDNLYTVSLRFRLLRQQRVKISCDVF 130 (554)
Q Consensus 51 ~lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~~~dl~~~al~FRlLR~~Gy~vS~dvf 130 (554)
.-|..+++-|...++.....+-+--.-|++|---+=.++-..+|.---+ +| ||+
T Consensus 53 ~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~---------------------~G-----dVL 106 (250)
T COG3063 53 QAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN---------------------NG-----DVL 106 (250)
T ss_pred HHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC---------------------cc-----chh
Confidence 3456667778776777778888888888888766665555555522211 14 899
Q ss_pred hccccccccccccccccchhhhhHHHhhcccccCch--HHHHHHHH---------HHHHHHhHhhhcCCccHHHHHHHHc
Q 008767 131 EKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHGEV--ILDEAIVF---------TTTHLKSMISRVISNNLAEQIQHAL 199 (554)
Q Consensus 131 ~~F~d~~g~F~~~~~~d~~~lL~LyeAs~l~~~gE~--iLdea~~f---------t~~~L~~~~~~~~~~~l~~~V~~aL 199 (554)
|+| |.|-|+..+=..+|--+=+|..--.-|+. .++.+.-- ++.+|+..+......+. ..-.+
T Consensus 107 NNY----G~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~---~~l~~ 179 (250)
T COG3063 107 NNY----GAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPP---ALLEL 179 (250)
T ss_pred hhh----hHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCCh---HHHHH
Confidence 999 88988877777888888888776655552 45544322 23556555543211111 11122
Q ss_pred cCcccccchhHHHHHhHHhhcCCCcCcHHHHHH
Q 008767 200 RLPLRKALPRLEARYYLNMYSRDDLHDETLLKF 232 (554)
Q Consensus 200 ~~P~~~~~~rlear~yi~~y~~~~~~n~~lLel 232 (554)
-.+.+..=.+..||.|++.|.+...-+..-|.|
T Consensus 180 a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L 212 (250)
T COG3063 180 ARLHYKAGDYAPARLYLERYQQRGGAQAESLLL 212 (250)
T ss_pred HHHHHhcccchHHHHHHHHHHhcccccHHHHHH
Confidence 223345556789999999998887666554444
No 29
>CHL00151 preA prenyl transferase; Reviewed
Probab=45.51 E-value=3.8e+02 Score=28.06 Aligned_cols=87 Identities=10% Similarity=-0.054 Sum_probs=54.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHH--hhcCCCCCHHHHHHhhchhHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASF--LDMGDIATKEVFEWVLKVPKIITAS 442 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~--~~~g~~l~~e~~e~~~~~p~l~~~~ 442 (554)
.....+.++...++.+-+.+..|.. ..-+|.++|+..-..=+|.....+... +..| .+++..+. .-.+-+..
T Consensus 134 ~~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag--~~~~~~~~---l~~~G~~l 207 (323)
T CHL00151 134 EVVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSD--ADEKDHND---FYLYGKHL 207 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcC--CCHHHHHH---HHHHHHHH
Confidence 3456778888888888877776643 334789999997555444433222111 1123 34444333 35667778
Q ss_pred HHHHHHhcCcCcchh
Q 008767 443 ENICRLLDDVASHKF 457 (554)
Q Consensus 443 ~~i~RL~NDI~S~~k 457 (554)
++..-+.||+..+.-
T Consensus 208 G~aFQi~DDilD~~~ 222 (323)
T CHL00151 208 GLAFQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHHHHhhccc
Confidence 888889999988754
No 30
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=44.46 E-value=4e+02 Score=27.99 Aligned_cols=89 Identities=11% Similarity=-0.067 Sum_probs=57.3
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhhc-CCCCCHHHHHHhhchhHHHHHHH
Q 008767 365 YGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLDM-GDIATKEVFEWVLKVPKIITASE 443 (554)
Q Consensus 365 ~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~~-g~~l~~e~~e~~~~~p~l~~~~~ 443 (554)
.+...+.++...++.|-..+..|.. +.-+|.++|+.+...-+|.....+ ..+|. =-..+++..+. ...+-+..+
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~-~~~ga~lag~~~~~~~~---l~~~g~~lG 204 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAA-AQCSGILAGCTPEQEKG---LQDYGRYLG 204 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCCHHHHHH---HHHHHHHHH
Confidence 4566778888889999888888754 345899999998776555553322 22221 00234443332 355667777
Q ss_pred HHHHHhcCcCcchhh
Q 008767 444 NICRLLDDVASHKFE 458 (554)
Q Consensus 444 ~i~RL~NDI~S~~kE 458 (554)
+..=+.||+..+...
T Consensus 205 ~aFQi~DD~ld~~~~ 219 (323)
T PRK10888 205 TAFQLIDDLLDYSAD 219 (323)
T ss_pred HHHHHHHHhhcccCC
Confidence 888899999888543
No 31
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=33.97 E-value=1.1e+02 Score=27.34 Aligned_cols=57 Identities=21% Similarity=0.223 Sum_probs=35.7
Q ss_pred hhHHHHHHHhCcccccHHHHHHHHHHHHhccCCC--------CCChhhHHHHHHHhhhcCcccchhhhhc
Q 008767 71 LHLIDAVQRLGVAYQFEKEIEDELQKLANDLGSD--------SDNLYTVSLRFRLLRQQRVKISCDVFEK 132 (554)
Q Consensus 71 l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~--------~~dl~~~al~FRlLR~~Gy~vS~dvf~~ 132 (554)
-.+|+.|++|||+|-- -..|-++-...... .--=-.+|++-|.||.+| +|.--.-++
T Consensus 14 ~~~ie~L~~lgi~R~v----A~tlv~L~~~~E~sS~~IE~~sgLRQPEVSiAMr~Lre~g-WV~~R~eKK 78 (124)
T COG4738 14 YEIIELLRILGIPRNV----ATTLVCLAKGDEASSREIERVSGLRQPEVSIAMRYLRENG-WVDEREEKK 78 (124)
T ss_pred HHHHHHHHHcCCCchH----HHHHHHHhcCcchhhhhhHHhhcCCCchhHHHHHHHHHcc-ccchHHhcc
Confidence 4689999999999863 33333332221000 112246899999999999 665555555
No 32
>KOG3906 consensus Tryptophan 2,3-dioxygenase [Amino acid transport and metabolism]
Probab=29.44 E-value=1.6e+02 Score=30.23 Aligned_cols=114 Identities=21% Similarity=0.212 Sum_probs=59.5
Q ss_pred hHHHHHHHHHHHHHHHhhchhchhhhhhHHHHHHHhCcccccHHHHHHHHHHH-------HhccCCCCCChhhHHHHHHH
Q 008767 45 TQEQYDALKQEVRRMITSAVDEISHKLHLIDAVQRLGVAYQFEKEIEDELQKL-------ANDLGSDSDNLYTVSLRFRL 117 (554)
Q Consensus 45 ~~~~~~~lk~~v~~~l~~~~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i-------~~~~~~~~~dl~~~al~FRl 117 (554)
+-+|+-=--.-||+||.+...|-...|.+|-.|.|.-+=-..--|=-.+|+.+ ||. .-..--.--||.|||
T Consensus 78 WFKQIifelDsvR~~l~~~v~DEtktLkiVsrl~Rv~~ILkLLv~Q~~iLeTMtpLDF~DFRk--YL~PASGFQSLQFRl 155 (399)
T KOG3906|consen 78 WFKQIIFELDSVRKLLNNTVVDETKTLKIVSRLDRVTKILKLLVEQITILETMTPLDFVDFRK--YLTPASGFQSLQFRL 155 (399)
T ss_pred HHHHHHHhhHHHHHHhcchhhcchhHHHHHHhHHHHHHHHHHHHHHhhHHhhcCccchHHHHH--hcCccccchhhhHHH
Confidence 33444333467999998755566777888877777542111111111122222 111 000111234899999
Q ss_pred hhh---------cCccc--chhhhhccccccccccccccccchhhhhHHHhhcccccC
Q 008767 118 LRQ---------QRVKI--SCDVFEKFKDDEGKFKASMINNVRGMLSLYEAAHLAVHG 164 (554)
Q Consensus 118 LR~---------~Gy~v--S~dvf~~F~d~~g~F~~~~~~d~~~lL~LyeAs~l~~~g 164 (554)
|-- -.|+- =.|||+ |++-+-- -.+..-+.||+|-++=--++||
T Consensus 156 lENKlGVlqe~Rv~YN~qhY~dvF~---dee~~~l-~~sE~eksLLeLve~WLERTPG 209 (399)
T KOG3906|consen 156 LENKLGVLQERRVKYNAQHYKDVFN---DEELKTL-NVSEEEKSLLELVESWLERTPG 209 (399)
T ss_pred HhhhhhhhhhhhccccHHHhhhccC---chhhHhh-hcccccchHHHHHHHHHhcCCC
Confidence 842 11221 134443 4432111 1256678999999998888887
No 33
>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=28.77 E-value=29 Score=31.64 Aligned_cols=58 Identities=14% Similarity=0.225 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHH-Hhhhhhhhccc
Q 008767 347 LLGVYNEAEEELAKQGRSYGIPYAKQTMQEVILMYFTEAKWLKEGYVPSVE-EYKSVALRSIA 408 (554)
Q Consensus 347 l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~a~l~EA~W~~~g~vPtle-EYl~~~~~S~g 408 (554)
++-.+.+|++.+.+.|+ .+-.+.|++++.+.+.-++.....-+|.++ ++...|..|+-
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 34467888888888775 467899999999998777766666678776 66666655553
No 34
>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=28.15 E-value=44 Score=22.36 Aligned_cols=18 Identities=44% Similarity=0.569 Sum_probs=14.2
Q ss_pred HHHhcCCCCHHHHHHHHH
Q 008767 470 CYMKQHVVSEEEAEKALW 487 (554)
Q Consensus 470 cyM~e~g~S~EeA~~~i~ 487 (554)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 589999999998665543
No 35
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=27.78 E-value=7.6e+02 Score=26.25 Aligned_cols=101 Identities=17% Similarity=0.143 Sum_probs=65.1
Q ss_pred HHHHHHhhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCcCcchhhhccCCCcchhhHHHhcCCCCHHHHHHHHHHHHH
Q 008767 412 VVTASFLDMGDIATKEVFEWVLKVPKIITASENICRLLDDVASHKFEQKRGHIPSAVECYMKQHVVSEEEAEKALWLEIA 491 (554)
Q Consensus 412 ~~~~~~~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI~S~~kE~~rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~ 491 (554)
++++.-++..+.++++..+.+.+ ...-+++-+-.|++=....+.+.+.|+. |.|..|- +.+++.+.+.-.++
T Consensus 194 IF~L~a~A~~p~~t~~~a~~i~~--aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv~YY~-----~~~~~~~Rl~~f~~ 265 (330)
T PF10776_consen 194 IFALFAYAADPDLTPEDAEKIKD--AYFPWICGLHILLDYFIDQEEDREGGDL-NFVFYYP-----DEEEMEERLKYFVE 265 (330)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHH--cccHHHHHHHHHHHHHhhhHhHhcCCCc-eeeeeCC-----CHHHHHHHHHHHHH
Confidence 33444455677788887776532 1222344445566666666666777776 9998776 57899999999999
Q ss_pred HHHHHhhHHHhhccCCCChhHHHHHHHHhhhhhhccccC
Q 008767 492 NGWKDLNYEELLNLIAMPLPLLGPVLNLARMSEFIYEDG 530 (554)
Q Consensus 492 ~~wk~ln~~e~l~~~~~p~~~~~~~~N~aR~~~~~Y~~~ 530 (554)
++-+... .+|.+--.+.++-. +--||-.+
T Consensus 266 ~A~~~~~--------~Lp~~~fHr~iv~G--Lla~YLSD 294 (330)
T PF10776_consen 266 KALEQAS--------RLPYPKFHRMIVRG--LLAMYLSD 294 (330)
T ss_pred HHHHHHH--------hCCCchHHHHHHHH--HHHHHhCC
Confidence 8887766 36655444444433 44468655
No 36
>smart00463 SMR Small MutS-related domain.
Probab=26.19 E-value=75 Score=25.79 Aligned_cols=23 Identities=30% Similarity=0.081 Sum_probs=20.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHh
Q 008767 475 HVVSEEEAEKALWLEIANGWKDL 497 (554)
Q Consensus 475 ~g~S~EeA~~~i~~~i~~~wk~l 497 (554)
||++.++|+..+...++++++.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 79999999999999999888653
No 37
>PRK10581 geranyltranstransferase; Provisional
Probab=25.78 E-value=6.3e+02 Score=26.22 Aligned_cols=110 Identities=11% Similarity=0.020 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHHHhhCCCCCCHHHhhhhhhhccchHHHHHHHHhh---cCCCCCHHHHHHhhchhHHHHHHHHHHHHhcC
Q 008767 375 QEVILMYFTEAKWLKEGYVPSVEEYKSVALRSIAVLPVVTASFLD---MGDIATKEVFEWVLKVPKIITASENICRLLDD 451 (554)
Q Consensus 375 ~~~~~a~l~EA~W~~~g~vPtleEYl~~~~~S~g~~~~~~~~~~~---~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~ND 451 (554)
..++.|-..+..|.. ..+|.++|++.-..=+|.....+ ...| .|. -+++..+. ..++-+..++..=+.||
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~-~~~gailag~-~~~~~~~~---l~~~g~~lG~aFQI~DD 224 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAA-VRLGALSAGD-KGRRALPV---LDRYAESIGLAFQVQDD 224 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHH-HHHHHHHcCC-CcHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 356677777777743 46899999987655444433222 2222 232 12233333 25667777888889999
Q ss_pred cCcchhh-h----------ccCCCcchhhHHHhcCCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 452 VASHKFE-Q----------KRGHIPSAVECYMKQHVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 452 I~S~~kE-~----------~rG~~~n~V~cyM~e~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
+..+... . .+|.. +.+.++- .|.|.+.+++.++++.+.+.
T Consensus 225 ilD~~g~~~~~GK~~g~Dl~~gk~-T~p~l~~------~e~a~~~a~~~~~~A~~~l~ 275 (299)
T PRK10581 225 ILDVVGDTATLGKRQGADQQLGKS-TYPALLG------LEQARKKARDLIDDARQSLD 275 (299)
T ss_pred HccccCChHHHCCCcchhhhcCCC-CHHHHHH------HHHHHHHHHHHHHHHHHHHH
Confidence 9987433 1 22332 4444442 47888888888888887766
No 38
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=25.44 E-value=76 Score=25.97 Aligned_cols=24 Identities=25% Similarity=0.076 Sum_probs=20.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhh
Q 008767 475 HVVSEEEAEKALWLEIANGWKDLN 498 (554)
Q Consensus 475 ~g~S~EeA~~~i~~~i~~~wk~ln 498 (554)
||++.+||+..+.+.+.++++.-.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~ 27 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGI 27 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTH
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999986644
No 39
>smart00400 ZnF_CHCC zinc finger.
Probab=25.04 E-value=73 Score=24.17 Aligned_cols=25 Identities=32% Similarity=0.226 Sum_probs=20.8
Q ss_pred CCCcchhhHHHhcCCCCHHHHHHHH
Q 008767 462 GHIPSAVECYMKQHVVSEEEAEKAL 486 (554)
Q Consensus 462 G~~~n~V~cyM~e~g~S~EeA~~~i 486 (554)
|.-.++|..+|+-.|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 3445789999999999999998875
No 40
>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=24.99 E-value=6.2e+02 Score=25.39 Aligned_cols=78 Identities=19% Similarity=0.114 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHh-hCCCCCCHHHhhhhhhhccchHHHHHHHH--hhcCCCCCHHHHHHhhchhHHHHHHHHHHHHhcCc
Q 008767 376 EVILMYFTEAKWL-KEGYVPSVEEYKSVALRSIAVLPVVTASF--LDMGDIATKEVFEWVLKVPKIITASENICRLLDDV 452 (554)
Q Consensus 376 ~~~~a~l~EA~W~-~~g~vPtleEYl~~~~~S~g~~~~~~~~~--~~~g~~l~~e~~e~~~~~p~l~~~~~~i~RL~NDI 452 (554)
..+.+..-+.... ..+..+|.++|+++-..-+|......... ...| .+++..+. ..++-+..++..-+.||+
T Consensus 114 ~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag--~~~~~~~~---l~~~g~~lG~afQi~DD~ 188 (260)
T PF00348_consen 114 ALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAG--ADEEQIEA---LREFGRHLGIAFQIRDDL 188 (260)
T ss_dssp HHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTT--SGHHHHHH---HHHHHHHHHHHHHHHHHH
T ss_pred hcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhcc--chhHHHHH---HHHHHHHHHHHHhhhhhh
Confidence 3444444443222 23347899999999888777653332222 1122 33444333 366777888888899998
Q ss_pred Ccchhh
Q 008767 453 ASHKFE 458 (554)
Q Consensus 453 ~S~~kE 458 (554)
..+...
T Consensus 189 ~d~~~~ 194 (260)
T PF00348_consen 189 LDLFGD 194 (260)
T ss_dssp HHHHSH
T ss_pred hhccCc
Confidence 887753
No 41
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=21.85 E-value=82 Score=28.49 Aligned_cols=22 Identities=45% Similarity=0.318 Sum_probs=18.6
Q ss_pred hhhHHHhcCCCCHHHHHHHHHH
Q 008767 467 AVECYMKQHVVSEEEAEKALWL 488 (554)
Q Consensus 467 ~V~cyM~e~g~S~EeA~~~i~~ 488 (554)
=|.+.|.|.|+|.++|++.+.+
T Consensus 87 DIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 87 DIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHhCCCHHHHHHHHHH
Confidence 3679999999999999887654
Done!