Query 014206
Match_columns 429
No_of_seqs 196 out of 865
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 02:52:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014206.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014206hhsearch_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-120 1E-124 956.3 42.6 417 1-426 124-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 3E-119 7E-124 968.9 41.3 415 7-428 345-777 (784)
3 PLN02592 ent-copalyl diphospha 100.0 5.6E-92 1.2E-96 754.4 36.9 381 3-428 387-800 (800)
4 PF03936 Terpene_synth_C: Terp 100.0 1.3E-50 2.7E-55 392.4 21.3 268 103-370 1-270 (270)
5 cd00868 Terpene_cyclase_C1 Ter 100.0 5.9E-47 1.3E-51 369.3 29.3 282 117-403 1-284 (284)
6 cd00687 Terpene_cyclase_nonpla 100.0 2.2E-35 4.9E-40 291.4 19.9 247 120-372 13-264 (303)
7 PLN02150 terpene synthase/cycl 100.0 4.5E-31 9.7E-36 215.9 10.1 94 331-429 1-96 (96)
8 cd00385 Isoprenoid_Biosyn_C1 I 99.9 4.3E-21 9.3E-26 179.6 12.3 229 150-397 2-243 (243)
9 PF01397 Terpene_synth: Terpen 99.7 1.6E-18 3.5E-23 158.1 6.4 68 1-73 116-183 (183)
10 PF06330 TRI5: Trichodiene syn 97.8 0.00032 6.9E-09 70.4 12.6 199 149-372 71-276 (376)
11 cd00686 Terpene_cyclase_cis_tr 97.8 0.00039 8.4E-09 68.7 13.0 195 160-377 81-280 (357)
12 PF00494 SQS_PSY: Squalene/phy 91.1 6.8 0.00015 37.7 14.2 183 161-371 17-217 (267)
13 cd00867 Trans_IPPS Trans-Isopr 91.0 4.1 8.9E-05 38.3 12.3 118 238-371 86-214 (236)
14 TIGR03465 HpnD squalene syntha 87.8 27 0.00059 33.7 17.1 176 162-372 18-208 (266)
15 cd00683 Trans_IPPS_HH Trans-Is 84.4 40 0.00087 32.4 16.5 198 162-397 24-237 (265)
16 TIGR03464 HpnC squalene syntha 80.9 56 0.0012 31.6 17.4 105 163-290 19-129 (266)
17 cd00685 Trans_IPPS_HT Trans-Is 78.9 34 0.00073 32.9 12.0 121 237-371 108-239 (259)
18 PLN02857 octaprenyl-diphosphat 75.0 49 0.0011 34.4 12.6 88 238-329 228-315 (416)
19 PLN02890 geranyl diphosphate s 74.8 73 0.0016 33.2 13.7 90 237-330 227-316 (422)
20 TIGR02749 prenyl_cyano solanes 71.4 1.1E+02 0.0025 30.4 16.3 88 238-329 134-221 (322)
21 COG0142 IspA Geranylgeranyl py 63.7 1.1E+02 0.0025 30.4 12.1 108 238-350 135-252 (322)
22 KOG1719 Dual specificity phosp 60.7 6.6 0.00014 35.0 2.3 30 332-361 119-149 (183)
23 COG3707 AmiR Response regulato 57.1 8.3 0.00018 35.6 2.4 43 320-362 130-173 (194)
24 PF03861 ANTAR: ANTAR domain; 56.7 8.7 0.00019 27.9 2.1 27 337-363 16-42 (56)
25 PF10776 DUF2600: Protein of u 56.4 2.3E+02 0.0049 28.6 15.6 98 263-371 174-273 (330)
26 TIGR02748 GerC3_HepT heptapren 52.6 2.5E+02 0.0054 27.9 15.9 86 238-329 130-217 (319)
27 PF12368 DUF3650: Protein of u 51.5 11 0.00023 23.6 1.5 18 342-359 9-26 (28)
28 PLN02632 phytoene synthase 51.1 2.7E+02 0.0059 27.9 18.0 177 163-371 74-268 (334)
29 CHL00151 preA prenyl transfera 45.0 3.3E+02 0.0071 27.1 13.8 87 238-329 135-222 (323)
30 COG5123 TOA2 Transcription ini 43.0 30 0.00066 28.3 3.3 43 15-74 1-43 (113)
31 KOG3463 Transcription initiati 36.8 43 0.00093 27.8 3.3 21 18-39 3-23 (109)
32 smart00463 SMR Small MutS-rela 36.1 45 0.00097 25.7 3.3 57 347-404 7-67 (80)
33 COG1308 EGD2 Transcription fac 35.9 31 0.00066 29.4 2.4 22 339-360 87-108 (122)
34 PRK10581 geranyltranstransfera 35.5 4.2E+02 0.0092 26.1 10.9 113 247-371 152-276 (299)
35 PF01713 Smr: Smr domain; Int 32.1 55 0.0012 25.4 3.3 27 347-373 4-30 (83)
36 smart00400 ZnF_CHCC zinc finge 30.2 49 0.0011 23.7 2.5 23 336-358 32-54 (55)
37 PF03000 NPH3: NPH3 family; I 28.4 66 0.0014 31.2 3.7 26 336-362 222-248 (258)
38 PF06603 UpxZ: UpxZ family of 27.9 79 0.0017 26.2 3.5 62 308-371 25-90 (106)
39 KOG1720 Protein tyrosine phosp 26.4 48 0.001 31.2 2.2 25 336-360 161-186 (225)
40 PRK10888 octaprenyl diphosphat 26.3 6.6E+02 0.014 25.0 15.9 88 238-330 131-219 (323)
41 PF10397 ADSL_C: Adenylosuccin 24.0 84 0.0018 24.4 3.0 28 340-367 9-36 (81)
42 PRK06369 nac nascent polypepti 23.6 63 0.0014 27.4 2.2 24 337-360 77-100 (115)
43 PF03701 UPF0181: Uncharacteri 23.4 99 0.0021 22.2 2.8 44 322-367 3-46 (51)
44 PF00348 polyprenyl_synt: Poly 22.0 6.9E+02 0.015 23.7 11.2 65 263-330 130-194 (260)
45 TIGR00264 alpha-NAC-related pr 21.9 72 0.0016 27.0 2.2 24 337-360 79-102 (116)
46 COG3140 Uncharacterized protei 21.9 45 0.00098 24.2 0.9 48 322-371 3-50 (60)
47 PF13798 PCYCGC: Protein of un 21.6 87 0.0019 28.0 2.8 33 343-387 126-158 (158)
48 COG1093 SUI2 Translation initi 20.2 1E+02 0.0022 29.9 3.1 64 326-397 96-169 (269)
49 PF08673 RsbU_N: Phosphoserine 20.2 80 0.0017 24.7 2.1 23 27-50 12-34 (77)
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=6.5e-120 Score=956.27 Aligned_cols=417 Identities=48% Similarity=0.797 Sum_probs=406.1
Q ss_pred CCCCCCCccccccChHHHHHHHHhcccCCcccHHHHHHHHHHhHHHHHHHHhcCCCCCCCCCCchHHHHHHHccCccccc
Q 014206 1 MDEKGKFKSCLGDDIKGILALYEAAYLLGEEESTIFHEAINFTTTHLEEYVKKHNDDDDDDGGYFSALVKHALELPLHWR 80 (429)
Q Consensus 1 ~~~~g~F~~~~~~dv~~~l~Ly~As~l~~~gE~~iL~eA~~ft~~~L~~~~~~~~~~d~~~~~~l~~~V~~aL~~P~~~~ 80 (429)
||++|+|++++.+||+||||||||||++|||| +|||||++||++||++++++| ++++++|+++|++||++|||++
T Consensus 124 ~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE-~iLdeA~~ft~~~L~~~~~~~----~~~~~~l~~~V~~aL~~P~~~~ 198 (542)
T cd00684 124 KDEDGKFKESLTQDVKGMLSLYEASHLSFPGE-DILDEALSFTTKHLEEKLESN----WIIDPDLSGEIEYALEIPLHAS 198 (542)
T ss_pred cCCCCCcCchhhhhhHHHHHHHHHhhcCCCCc-HHHHHHHHHHHHHHHHHhhcc----CCCCchHHHHHHHHccCchhcC
Confidence 68899999999999999999999999999999 999999999999999999864 3468899999999999999999
Q ss_pred cchhHHHHhHHHhccCCCCChHHHHHHhhhhHHHhhhhHHHHhhHhHHHhhcCCCC-chhhhhhhhhhhhhhhccccCCC
Q 014206 81 MVRLEARWFIDVYERGTDMNPVLVELAKLDFNSVQAAHQDELKYVSWWWRKTGLGE-LHFARDRIVENFFWALGEIWEPQ 159 (429)
Q Consensus 81 ~~r~ear~yi~~Y~~~~~~n~~lLelAkldFn~~Q~~hq~El~~l~rW~~~~~l~~-l~~aRdr~~e~yf~~~a~~feP~ 159 (429)
+||||||+||++|++++++|++||||||+|||+||++||+||++++|||+++||.+ +||+|+|+++||||++|++|||+
T Consensus 199 ~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~gL~~~l~~aRdr~ve~yf~~~a~~feP~ 278 (542)
T cd00684 199 LPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPFARDRLVECYFWAAGTYFEPQ 278 (542)
T ss_pred CchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhcCCcccCCcccchhHHHHHHHHhcccCcc
Confidence 99999999999999999999999999999999999999999999999999999998 79999999999999999999999
Q ss_pred ccchhHhhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCcch
Q 014206 160 FGYCRRMSTKVNALITTVDDVYDVYGTLDELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVHVV 239 (429)
Q Consensus 160 ~s~~Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~~~ 239 (429)
+|.+|+++||+++|+|++||+||.|||.+|++.||+||+|||+++++++|+|||+||.++++++++++.++.+.+|++++
T Consensus 279 ~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~ 358 (542)
T cd00684 279 YSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVV 358 (542)
T ss_pred chHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHHHH
Q 014206 240 PYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMIFR 319 (429)
Q Consensus 240 ~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~R 319 (429)
+|++++|++++++|++||+|+++|++||++||+++|++|+|++++++++++++|..+|+++++|+..+|+++++++.++|
T Consensus 359 ~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~r 438 (542)
T cd00684 359 PYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGR 438 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998766999999999999
Q ss_pred HhcccccchhHhhcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHHhhhh
Q 014206 320 LANDLATSSDEVKRGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNNKREGDENPDHLLLPNNFVQFAMNLARMA 399 (429)
Q Consensus 320 L~NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p~~~~~~~~n~~r~~ 399 (429)
|+|||.|+++|+++|+++|+|.|||+|+|+|+|||+++++++|+++||++|+++++++++ +|++|++.++|++|++
T Consensus 439 L~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~~----~p~~~~~~~~n~~r~~ 514 (542)
T cd00684 439 LMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKPSSD----VPRPIKQRFLNLARVI 514 (542)
T ss_pred HhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCC----CCHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999987314 9999999999999999
Q ss_pred hhhcccCCCCCCChh-HHHHHhhhcccc
Q 014206 400 QCTYQNGDGHTVQDN-SKNRVLPLLIHP 426 (429)
Q Consensus 400 ~~~Y~~~D~~t~~~~-~k~~i~~ll~~p 426 (429)
+++|+++||||+|++ ||++|++||++|
T Consensus 515 ~~~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 515 DVFYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 999999999999977 999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=3.2e-119 Score=968.88 Aligned_cols=415 Identities=28% Similarity=0.417 Sum_probs=399.8
Q ss_pred Ccccc---ccChHHHHHHHHhcccCCcccHHHHHHHHHHhHHHHHHHHhcCCCCCCCCCCchHHHHHHHccCccccccch
Q 014206 7 FKSCL---GDDIKGILALYEAAYLLGEEESTIFHEAINFTTTHLEEYVKKHNDDDDDDGGYFSALVKHALELPLHWRMVR 83 (429)
Q Consensus 7 F~~~~---~~dv~~~l~Ly~As~l~~~gE~~iL~eA~~ft~~~L~~~~~~~~~~d~~~~~~l~~~V~~aL~~P~~~~~~r 83 (429)
|++++ .+||+||||||||||++|||| +|||||++||++||+++++++.+.||.++++|++||+|||++|||+++||
T Consensus 345 F~~~l~~~~~dv~gmL~LY~AS~l~~~gE-~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~~~L~~eV~~AL~~P~~~~l~R 423 (784)
T PLN02279 345 FSDSLGGYLKDTGAVLELFRASQISYPDE-SLLEKQNSWTSHFLEQGLSNWSKTADRLRKYIKKEVEDALNFPYYANLER 423 (784)
T ss_pred ccchhcccchhhHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHHHHHHHhcccccccccCccHHHHHHHHhcCchhcCccH
Confidence 99988 599999999999999999999 99999999999999999998887788788999999999999999999999
Q ss_pred hHHHHhHHHhccCCC------------CChHHHHHHhhhhHHHhhhhHHHHhhHhHHHhhcCCCCchhhhhhhhhhhhhh
Q 014206 84 LEARWFIDVYERGTD------------MNPVLVELAKLDFNSVQAAHQDELKYVSWWWRKTGLGELHFARDRIVENFFWA 151 (429)
Q Consensus 84 ~ear~yi~~Y~~~~~------------~n~~lLelAkldFn~~Q~~hq~El~~l~rW~~~~~l~~l~~aRdr~~e~yf~~ 151 (429)
||||+||++|++++. +|++||||||+|||+||++||+||++++|||+++||.++||+|||++|||||+
T Consensus 424 lEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L~~L~faRdr~ve~Yf~a 503 (784)
T PLN02279 424 LANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRLDKLKFARQKLAYCYFSA 503 (784)
T ss_pred HHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCCccCCchhhHHHHHHHHH
Confidence 999999999998885 89999999999999999999999999999999999977999999999999999
Q ss_pred hccccCCCccchhHhhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHhhcccc-ccccCchhhHHHHHHHhhhHHHHHHHH
Q 014206 152 LGEIWEPQFGYCRRMSTKVNALITTVDDVYDVYGTLDELEQFTNAVERWDVN-AMDQLPYYMKMCFHVLHSSTNEMAFDA 230 (429)
Q Consensus 152 ~a~~feP~~s~~Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~rWd~~-~~~~lpe~mk~~~~al~~~~~e~~~~~ 230 (429)
+|++|||++|.+|++|||.+++++++||+||+|||.||++.||+||+|||++ .++.+|+|||+||.+++++++|++.++
T Consensus 504 aa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~~ 583 (784)
T PLN02279 504 AATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDKA 583 (784)
T ss_pred HHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999998 568999999999999999999999999
Q ss_pred HhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHH
Q 014206 231 LKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHI 310 (429)
Q Consensus 231 ~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l 310 (429)
.+.+|+++++|++++|++++++|++||+|+.+|++||++|||+|+.+|+|++++++.+++++|..+|+++++| +++|+|
T Consensus 584 ~~~qGr~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~-~~~~~L 662 (784)
T PLN02279 584 FTWQGRNVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDS-PELHKL 662 (784)
T ss_pred HHHcCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhC-cchhHH
Confidence 9999999999999999999999999999999999999999999999999999988888999999999999999 589999
Q ss_pred HHHHHHHHHHhcccccchhHhhcCCCCchhhhhhhcC--CCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHH
Q 014206 311 IRWPSMIFRLANDLATSSDEVKRGDVPKAIQCYMHET--GASESDARLHIRDLITAAWMKMNNKREGDENPDHLLLPNNF 388 (429)
Q Consensus 311 ~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~~yM~e~--g~s~eeA~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p~~~ 388 (429)
+++++.++||+|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+||+++++++ ++.+|++|
T Consensus 663 ~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~---~~~vp~~~ 738 (784)
T PLN02279 663 YKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEK---GSNVPREC 738 (784)
T ss_pred HHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccC---CCCCCHHH
Confidence 99999999999999999999999998 9999999987 899999999999999999999999999753 12399999
Q ss_pred HHHHHHHhhhhhhhcccCCCCCCChhHHHHHhhhccccCC
Q 014206 389 VQFAMNLARMAQCTYQNGDGHTVQDNSKNRVLPLLIHPIK 428 (429)
Q Consensus 389 ~~~~~n~~r~~~~~Y~~~D~~t~~~~~k~~i~~ll~~pi~ 428 (429)
+++++|++|++++||+++||||.+ .||++|++||++||+
T Consensus 739 ~~~~ln~aR~~~~~Y~~~Dgyt~~-~~k~~i~~ll~ePi~ 777 (784)
T PLN02279 739 KDLFWKMSKVLHLFYRKDDGFTSN-DMMSLVKSVIYEPVS 777 (784)
T ss_pred HHHHHHHHHhhhhheeCCCCCChH-HHHHHHHHHhccCCc
Confidence 999999999999999999999975 699999999999997
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=5.6e-92 Score=754.35 Aligned_cols=381 Identities=21% Similarity=0.281 Sum_probs=348.6
Q ss_pred CCCCCcccc---ccChHHHHHHHHhcccCCcccHHHHHHHHHHhHHHHHHHHhcCCCCCC-CCCCchHHHHHHHccCccc
Q 014206 3 EKGKFKSCL---GDDIKGILALYEAAYLLGEEESTIFHEAINFTTTHLEEYVKKHNDDDD-DDGGYFSALVKHALELPLH 78 (429)
Q Consensus 3 ~~g~F~~~~---~~dv~~~l~Ly~As~l~~~gE~~iL~eA~~ft~~~L~~~~~~~~~~d~-~~~~~l~~~V~~aL~~P~~ 78 (429)
++|+|++.+ .+||+||||||||||++|||| +|||||+.||++||++.++.+.+.|| +++++|++||+|||++|||
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 KGGEFFCFAGQSTQAVTGMFNLYRASQVLFPGE-KILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWY 465 (800)
T ss_pred CCCCccccccccccchHHHHHHHHHHhcCCCcc-hHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhh
Confidence 379998666 899999999999999999999 99999999999999999876667777 5688999999999999999
Q ss_pred cccchhHHHHhHHHhccCCC-------------CChHHHHHHhhhhHHHhhhhHHHHhhHhHHHhhcCCCCchhhhhhhh
Q 014206 79 WRMVRLEARWFIDVYERGTD-------------MNPVLVELAKLDFNSVQAAHQDELKYVSWWWRKTGLGELHFARDRIV 145 (429)
Q Consensus 79 ~~~~r~ear~yi~~Y~~~~~-------------~n~~lLelAkldFn~~Q~~hq~El~~l~rW~~~~~l~~l~~aRdr~~ 145 (429)
++|||||||+||++|+++++ +|++||||||+|||+||++||+||++++|||+++||.+|||+|||++
T Consensus 466 ~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsrWwke~~L~~L~faRdr~v 545 (800)
T PLN02592 466 ASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQKWYEECNLGEFGVSRSELL 545 (800)
T ss_pred cCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHhcCCCcCCcchhHHH
Confidence 99999999999999998775 49999999999999999999999999999999999988999999999
Q ss_pred hhhhhhhccccCCCccchhHhhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHh--------hccccccccCch------h
Q 014206 146 ENFFWALGEIWEPQFGYCRRMSTKVNALITTVDDVYDVYGTLDELEQFTNAVE--------RWDVNAMDQLPY------Y 211 (429)
Q Consensus 146 e~yf~~~a~~feP~~s~~Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~--------rWd~~~~~~lpe------~ 211 (429)
|||||++|++|||++|.+|++|||.+++++++||+||+|||+||++.||++|+ |||.+.+++||+ |
T Consensus 546 e~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~~~ 625 (800)
T PLN02592 546 LAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSVKT 625 (800)
T ss_pred HHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccchhH
Confidence 99999999999999999999999999999999999999999999999999996 899999999988 9
Q ss_pred hHHHHHHHhhhHHHHHHHHHhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHH-
Q 014206 212 MKMCFHVLHSSTNEMAFDALKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYS- 290 (429)
Q Consensus 212 mk~~~~al~~~~~e~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~- 290 (429)
||+||.+|++++||++.++.+.||+++.++++++|.++++ +|..+|+ .|+|++.+++++++
T Consensus 626 mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~~l 687 (800)
T PLN02592 626 GEELVGLLLGTLNQLSLDALEAHGRDISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTINL 687 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHHHH
Confidence 9999999999999999999999999999999999999998 5666654 45577777788888
Q ss_pred HhCCCccHHHHHhhhcchHHHHHHHHHHHHhcccccchhHhhcCCCCchhhhhhhcCC-CCHHHHHHHHHHHHHHHHHHH
Q 014206 291 LIANPAKEEALQFLQEYPHIIRWPSMIFRLANDLATSSDEVKRGDVPKAIQCYMHETG-ASESDARLHIRDLITAAWMKM 369 (429)
Q Consensus 291 ~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~~yM~e~g-~s~eeA~~~i~~li~~~~k~l 369 (429)
.+|..+|+++++ +|++.++++.+.||+||++|+++|+.. .| +++ +|.+++++.|+.++++|
T Consensus 688 ~~g~~lsee~l~----~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~eL 749 (800)
T PLN02592 688 TAGRSLSEELLA----HPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQEL 749 (800)
T ss_pred hcCCCCCHHHcc----chhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHHHH
Confidence 459999999885 689999999999999999999998841 23 455 89999999999999999
Q ss_pred HHHhcCCCCCCCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCChhHHHHHhhhccccCC
Q 014206 370 NNKREGDENPDHLLLPNNFVQFAMNLARMAQCTYQNGDGHTVQDNSKNRVLPLLIHPIK 428 (429)
Q Consensus 370 n~~~l~~~~~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t~~~~~k~~i~~ll~~pi~ 428 (429)
.+.+++.. ++++|++|+++||+++| +||.. ||++|.+|++||.+||++||+
T Consensus 750 ~~lvl~~~---~~~vp~~cK~~f~~~~k---~fy~~--~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 750 VQLVLQNS---SDDIDPVIKQTFLMVAK---SFYYA--AYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHhhcC---CCCCCHHHHHHHHHHHH---HHHHh--hcCCHHHHHHHHHHHhCCCCC
Confidence 99999743 13499999999999999 45554 999997799999999999985
No 4
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=100.00 E-value=1.3e-50 Score=392.40 Aligned_cols=268 Identities=31% Similarity=0.418 Sum_probs=246.7
Q ss_pred HHHHHhhhhHHHhhhhHHHHhhHhHHHhhcCC-CCchhhhhhhhhhhhhhhccccCCCccchhHhhhhHHHHHHHhhhhh
Q 014206 103 LVELAKLDFNSVQAAHQDELKYVSWWWRKTGL-GELHFARDRIVENFFWALGEIWEPQFGYCRRMSTKVNALITTVDDVY 181 (429)
Q Consensus 103 lLelAkldFn~~Q~~hq~El~~l~rW~~~~~l-~~l~~aRdr~~e~yf~~~a~~feP~~s~~Rl~~ak~~~l~~~iDD~~ 181 (429)
||+|||+|||+||++||+|++++++||+++|+ .+.+.+|+|++.++|+.++++++|+.+..|+++||+++|+|++||+|
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~~~~~~~~~~~~~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~ 80 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKAARQRFRQAYFGLLAARFYPDSSDELLAAADWMAWLFIFDDFF 80 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTTSHHHHHHHHHHHHHHHHSGCGHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCccccccchhhhhHhHHhhhhheeCCCcHHHHHHHHhhchheeeeeecc
Confidence 79999999999999999999999999999999 44776799999999999999999996666679999999999999999
Q ss_pred ccCCCHHHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCC-cchhHHHHHHHHHHHHHHHHHHHh
Q 014206 182 DVYGTLDELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGV-HVVPYLKKAWADMCKSFLLEAKWY 260 (429)
Q Consensus 182 D~~gt~eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~-~~~~~~~~~w~~~~~~~~~Ea~W~ 260 (429)
|.+|+.++++.|++++.||++.....+|+++++++.++.++++++...+.+.+++ ++.++|+++|.+|++++++|++|+
T Consensus 81 D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 160 (270)
T PF03936_consen 81 DDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARWR 160 (270)
T ss_dssp HTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999987777899999999999999999998887777553 477889999999999999999999
Q ss_pred hCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHHHHHhcccccchhHhhcCCCCchh
Q 014206 261 SSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMIFRLANDLATSSDEVKRGDVPKAI 340 (429)
Q Consensus 261 ~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V 340 (429)
..|++||++||+++|+.|+|+++++.++.+++|..+++...+++...+.+.++++.+++|+|||.||+||+++|+.+|.|
T Consensus 161 ~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~v 240 (270)
T PF03936_consen 161 ERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNLV 240 (270)
T ss_dssp HTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSHH
T ss_pred ccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccHH
Confidence 99999999999999999999999999999988766666666665556779999999999999999999999999999999
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 014206 341 QCYMHETGASESDARLHIRDLITAAWMKMN 370 (429)
Q Consensus 341 ~~yM~e~g~s~eeA~~~i~~li~~~~k~ln 370 (429)
.|+|+++|+|.|+|++++.+++++++++||
T Consensus 241 ~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 241 VVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999998
No 5
>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=5.9e-47 Score=369.34 Aligned_cols=282 Identities=43% Similarity=0.763 Sum_probs=264.9
Q ss_pred hhHHHHhhHhHHHhhcCCCC-chhhhhhhhhhhhhhhccccCCCccchhHhhhhHHHHHHHhhhhhccCCCHHHHHHHHH
Q 014206 117 AHQDELKYVSWWWRKTGLGE-LHFARDRIVENFFWALGEIWEPQFGYCRRMSTKVNALITTVDDVYDVYGTLDELEQFTN 195 (429)
Q Consensus 117 ~hq~El~~l~rW~~~~~l~~-l~~aRdr~~e~yf~~~a~~feP~~s~~Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ 195 (429)
.||+|++++++||+++||.. .+++|.+...+|+|+++++|+|+.+..|+++||+++|+|++||+||.+|+.+++..+++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~~r~~~~~~~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~ 80 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPFARDRLVECYFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFTE 80 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCchhhHhHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHH
Confidence 49999999999999999988 44999999999999999999999899999999999999999999999999999999999
Q ss_pred HHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhc
Q 014206 196 AVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENA 275 (429)
Q Consensus 196 ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~ 275 (429)
+++||+....+.+|+++++++.++.++++++...+.+.+|+....++++.|.+++.++.+|++|+..|++||++||+.+|
T Consensus 81 ~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R 160 (284)
T cd00868 81 AVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENR 160 (284)
T ss_pred HHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhc
Confidence 99999988888899999999999999999999898888888899999999999999999999999999999999999999
Q ss_pred cccchhhHHHHHHHHHhCCCccH-HHHHhhhcchHHHHHHHHHHHHhcccccchhHhhcCCCCchhhhhhhcCCCCHHHH
Q 014206 276 WVSVSGPVILLHAYSLIANPAKE-EALQFLQEYPHIIRWPSMIFRLANDLATSSDEVKRGDVPKAIQCYMHETGASESDA 354 (429)
Q Consensus 276 ~~S~g~~~l~~~~~~~~g~~l~~-e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA 354 (429)
+.|+|+++++..+++++|..+|+ ++.+. +..+++++.++.+++|+||++||+||+.+|+.+|+|.|||+++|+|.++|
T Consensus 161 ~~~~g~~~~~~l~~~~~g~~l~~~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA 239 (284)
T cd00868 161 RVSIGYPPLLALSFLGMGDILPEEAFEWL-PSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEEA 239 (284)
T ss_pred eehhhHHHHHHHHHHHcCCCCCHHHHHHh-hhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHHH
Confidence 99999999999999999999999 45544 78999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHHhhhhhhhc
Q 014206 355 RLHIRDLITAAWMKMNNKREGDENPDHLLLPNNFVQFAMNLARMAQCTY 403 (429)
Q Consensus 355 ~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p~~~~~~~~n~~r~~~~~Y 403 (429)
++++.++++++|++|++.+.+..++ .|+.+++.+.+..|..+..|
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 240 LEELRKMIEEAWKELNEEVLKLSSD----VPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCC----CCHHHHHHHHHHHHhhhhcC
Confidence 9999999999999999998853213 68999999999999887654
No 6
>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=2.2e-35 Score=291.35 Aligned_cols=247 Identities=16% Similarity=0.114 Sum_probs=217.5
Q ss_pred HHHhh-HhHHHhhcCCCCchhhhhhhhhhhhhhhccccCCCccchhH-hhhhHHHHHHHhhhhhccC-CCHHHHHHHHHH
Q 014206 120 DELKY-VSWWWRKTGLGELHFARDRIVENFFWALGEIWEPQFGYCRR-MSTKVNALITTVDDVYDVY-GTLDELEQFTNA 196 (429)
Q Consensus 120 ~El~~-l~rW~~~~~l~~l~~aRdr~~e~yf~~~a~~feP~~s~~Rl-~~ak~~~l~~~iDD~~D~~-gt~eel~~~t~a 196 (429)
.+++. ...|.++.|+..-+.+|+++..++|+.++.++.|+++.+|+ +.++++.|+|++||+||.. +++++++.+++.
T Consensus 13 ~~~~~~~~~w~~~~~l~~~~~~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~ 92 (303)
T cd00687 13 KEAQDEYLEWVLEEMLIPSEKAEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTR 92 (303)
T ss_pred HHHHHHHHHHHHHcCCCCcchhHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHH
Confidence 34444 45699999776555799999999998888888899999999 7789999999999999987 599999999998
Q ss_pred Hhhcccc-ccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhc
Q 014206 197 VERWDVN-AMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENA 275 (429)
Q Consensus 197 i~rWd~~-~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~ 275 (429)
+.++... ..+. |....++..++.+++.++...+ +....+++++.|.+|+.++++|++|+..|++||++||+++|
T Consensus 93 ~~~~~~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~----~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R 167 (303)
T cd00687 93 LLDILRGDGLDS-PDDATPLEFGLADLWRRTLARM----SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMR 167 (303)
T ss_pred HHhccCCCCCCC-CCCCCHHHHHHHHHHHHhccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHh
Confidence 8885433 2221 4677888899999998876443 24456799999999999999999999999999999999999
Q ss_pred cccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHHHHHhcccccchhHh-hcCCCCchhhhhhhcCCCCHHHH
Q 014206 276 WVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMIFRLANDLATSSDEV-KRGDVPKAIQCYMHETGASESDA 354 (429)
Q Consensus 276 ~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E~-~~G~~~n~V~~yM~e~g~s~eeA 354 (429)
+.|+|+.+++.++.+++|..+|+++.++ +...+++++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|+|
T Consensus 168 ~~~~g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA 246 (303)
T cd00687 168 RFNIGADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEA 246 (303)
T ss_pred hhcccccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHH
Confidence 9999999999999999999999999988 667899999999999999999999999 88999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014206 355 RLHIRDLITAAWMKMNNK 372 (429)
Q Consensus 355 ~~~i~~li~~~~k~ln~~ 372 (429)
++++.++++++++++.+.
T Consensus 247 ~~~~~~~~~~~~~~f~~~ 264 (303)
T cd00687 247 ISVVRDMHNERITQFEEL 264 (303)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999999988875
No 7
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=4.5e-31 Score=215.92 Aligned_cols=94 Identities=24% Similarity=0.518 Sum_probs=90.2
Q ss_pred hhcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHHhhhhhhh-cccCCCC
Q 014206 331 VKRGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNNKREGDENPDHLLLPNNFVQFAMNLARMAQCT-YQNGDGH 409 (429)
Q Consensus 331 ~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p~~~~~~~~n~~r~~~~~-Y~~~D~~ 409 (429)
++|||++|+|+|||||||+|+|||+++++++|+++||+||+++++++ + +|.+++++++|+||+++|+ |++||||
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~-~----~p~~~~~~~~NlaR~~~~~~Y~~~Dg~ 75 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIK-D----VPRPVLVRCLNLARLIDVYCYNEGDGF 75 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCC-C----CCHHHHHHHHHHHHHHHhheecCCCCC
Confidence 47899999999999999999999999999999999999999999987 5 9999999999999999999 9999999
Q ss_pred CCChh-HHHHHhhhccccCCC
Q 014206 410 TVQDN-SKNRVLPLLIHPIKS 429 (429)
Q Consensus 410 t~~~~-~k~~i~~ll~~pi~~ 429 (429)
|.++. +|++|++||++|||.
T Consensus 76 t~~~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 76 TYPHGKLKDLITSLFFHPLPL 96 (96)
T ss_pred CCCcHHHHHHHHHHhccCCCC
Confidence 98876 999999999999984
No 8
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=99.85 E-value=4.3e-21 Score=179.63 Aligned_cols=229 Identities=25% Similarity=0.294 Sum_probs=180.4
Q ss_pred hhhccccCCCccchhHhhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHH
Q 014206 150 WALGEIWEPQFGYCRRMSTKVNALITTVDDVYDVYGTLDELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFD 229 (429)
Q Consensus 150 ~~~a~~feP~~s~~Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~ 229 (429)
+.+++++.|+.+..|..++++..|++++||++|..++..........+. ....|..+...+..+...+.++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVA------IDGLPEAILAGDLLLADAFEELARE 75 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHH------hcCchHHHHHHHHHHHHHHHHHHhC
Confidence 4566788898889999999999999999999998766555555443331 2235666667777788888877543
Q ss_pred HHhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchH
Q 014206 230 ALKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPH 309 (429)
Q Consensus 230 ~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~ 309 (429)
.. +.+..++.+.|.+++.|+.+|+.|+.. ..||++||+.++..++ +.++...+..+++...++ ..+.+....
T Consensus 76 ~~----~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~--~~~~~~~~~ 147 (243)
T cd00385 76 GS----PEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGE--AELLEALRK 147 (243)
T ss_pred CC----HHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCC--HHHHHHHHH
Confidence 22 345789999999999999999999866 8899999999999998 444555566666666565 333355788
Q ss_pred HHHHHHHHHHHhcccccchhHhhcC-CCCchhhhhhhcCCC------------CHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 014206 310 IIRWPSMIFRLANDLATSSDEVKRG-DVPKAIQCYMHETGA------------SESDARLHIRDLITAAWMKMNNKREGD 376 (429)
Q Consensus 310 l~~~~~~i~RL~NDi~S~~~E~~~G-~~~n~V~~yM~e~g~------------s~eeA~~~i~~li~~~~k~ln~~~l~~ 376 (429)
+....+.+.+|.||+.|+.+|.+.| +..|++.++|+++|+ +.++|.+++..+++++++++++.....
T Consensus 148 ~~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ 227 (243)
T cd00385 148 LGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSL 227 (243)
T ss_pred HHHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 9999999999999999999999996 678999999999999 889999999999999999999875532
Q ss_pred CCCCCCCCCHHHHHHHHHHhh
Q 014206 377 ENPDHLLLPNNFVQFAMNLAR 397 (429)
Q Consensus 377 ~~~~~~~~p~~~~~~~~n~~r 397 (429)
. . .++.++..+.+++|
T Consensus 228 ~-~----~~~~~~~~~~~~~~ 243 (243)
T cd00385 228 P-D----VPRALLALALNLYR 243 (243)
T ss_pred H-H----HHHHHHHHHHHHhC
Confidence 2 1 46677777777653
No 9
>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=99.74 E-value=1.6e-18 Score=158.11 Aligned_cols=68 Identities=44% Similarity=0.599 Sum_probs=58.4
Q ss_pred CCCCCCCccccccChHHHHHHHHhcccCCcccHHHHHHHHHHhHHHHHHHHhcCCCCCCCCCCchHHHHHHHc
Q 014206 1 MDEKGKFKSCLGDDIKGILALYEAAYLLGEEESTIFHEAINFTTTHLEEYVKKHNDDDDDDGGYFSALVKHAL 73 (429)
Q Consensus 1 ~~~~g~F~~~~~~dv~~~l~Ly~As~l~~~gE~~iL~eA~~ft~~~L~~~~~~~~~~d~~~~~~l~~~V~~aL 73 (429)
||++|+|+.++.+||+||||||||||+++||| +|||||+.||++||++.++++. ..+++|+++|+|||
T Consensus 116 ~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE-~iLdeA~~Ft~~~L~~~~~~~~----~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 116 KDEKGNFKESLSNDVKGLLSLYEASHLRFHGE-DILDEARAFTTKHLKSLLSNLS----IPDPHLAKEVKHAL 183 (183)
T ss_dssp BETTSSBSGGGGGHHHHHHHHHHHHTT--TT--HHHHHHHHHHHHHHHHHHTTTC----TTSCHHHHHHHHHH
T ss_pred ccCCCccchhhhHhHHHHHHHHHHHHccCCCh-HHHHHHHHHHHHHHHHHhccCC----CCcHHHHHHHHHhC
Confidence 68999999999999999999999999999999 9999999999999999998642 11235999999998
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=97.78 E-value=0.00032 Score=70.37 Aligned_cols=199 Identities=14% Similarity=0.070 Sum_probs=115.9
Q ss_pred hhhhccccCCCccch-hHhhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHH
Q 014206 149 FWALGEIWEPQFGYC-RRMSTKVNALITTVDDVYDVYGTLDELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMA 227 (429)
Q Consensus 149 f~~~a~~feP~~s~~-Rl~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~ 227 (429)
-+++...| |..+.. ++.++-...+++++||.++.. .+++..|-+-+-. +.. .|. ++...+.+.+.
T Consensus 71 v~~~~~~y-~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~---Q~~---p~L~~~~~~L~--- 136 (376)
T PF06330_consen 71 VNMAVYCY-PHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQP---QKH---PLLDGFASLLR--- 136 (376)
T ss_dssp HHHHHHHS-TTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T------SS---HHHHHHHHHHH---
T ss_pred hheeEeec-CCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CCC---CCC---HHHHHHHHHHH---
Confidence 34433334 655554 558899999999999998765 3666666655543 111 111 23344433333
Q ss_pred HHHHhhcCCcchhHHHHHHHHHHHHHHHHHHHhhCCC--CCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhh
Q 014206 228 FDALKDQGVHVVPYLKKAWADMCKSFLLEAKWYSSGY--IPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQ 305 (429)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~W~~~~~--iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~ 305 (429)
++.+.-|+.+.+-+.++--+++.+..-|.+..+ +. .|.+-+|+ |.=+|...+.+...+ -....|+..
T Consensus 137 -~~~~~fgpf~anmI~~STLdFi~g~~LE~~~f~-~~p~A~~FP~fL---R~ktGlsEaYA~FiF-Pk~~fpe~~----- 205 (376)
T PF06330_consen 137 -EMWRHFGPFCANMIVKSTLDFINGCWLEQKNFH-GSPGAPDFPDFL---RRKTGLSEAYAFFIF-PKALFPEVE----- 205 (376)
T ss_dssp -HHHTTS-HHHHHHHHHHHHHHHHHHHHHTTT-----TT-TTHHHHH---HHHHH-HHHHHHHT---TTTS-TTT-----
T ss_pred -HHHHHcchHHHHHHHHHHHHHHHHHHhhcccCC-CCCCCccccHHH---HhccCcchhheeeec-ccccCChHH-----
Confidence 455555667778889999999999999976432 21 23455555 444566555544333 222233321
Q ss_pred cchHH---HHHHHHHHHHhcccccchhHhh-cCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 014206 306 EYPHI---IRWPSMIFRLANDLATSSDEVK-RGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNNK 372 (429)
Q Consensus 306 ~~~~l---~~~~~~i~RL~NDi~S~~~E~~-~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~~ 372 (429)
.+..+ +--....+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|...+..-.-++-+++.+-
T Consensus 206 ~~~~y~~AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~v 276 (376)
T PF06330_consen 206 YFIQYTPAIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRV 276 (376)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 12333 3333444468999999999977 7888999987777789999999998866666666665554
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=97.78 E-value=0.00039 Score=68.72 Aligned_cols=195 Identities=12% Similarity=0.009 Sum_probs=118.5
Q ss_pred ccchhH-hhhhHHHHHHHhhhhhccCCCHHHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCcc
Q 014206 160 FGYCRR-MSTKVNALITTVDDVYDVYGTLDELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVHV 238 (429)
Q Consensus 160 ~s~~Rl-~~ak~~~l~~~iDD~~D~~gt~eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~~ 238 (429)
.|.+=+ .++-..+.++++||.-|... +.++.|.+-+.. +.+ ..- ++...+.+.+. .....-|+.+
T Consensus 81 ~skev~~~isi~~tY~~~lDD~~~e~~--~~m~~f~~dL~~--G~~-qkh-----P~l~~v~~~l~----~~lr~fGpF~ 146 (357)
T cd00686 81 VSKECMADLSIHYTYTLVLDDSKDDPY--PTMVNYFDDLQA--GRE-QAH-----PWWALVNEHFP----NVLRHFGPFC 146 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccc--hHHHHHHHHHhc--CCC-CCC-----cHHHHHHHHHH----HHHHHhhhhh
Confidence 444433 56667778889999977642 456666655543 111 111 23333333333 2333446666
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHH---
Q 014206 239 VPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPS--- 315 (429)
Q Consensus 239 ~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~--- 315 (429)
..-+.++--+++.+.+-|... .+.-|.-.+|-...|.=+|.+-+.+...+ |++.+.-..-+..+..+..
T Consensus 147 s~~IikSTLdFv~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~FiF------Pk~~FpE~~~~~qi~~AIp~~~ 218 (357)
T cd00686 147 SLNLIRSTLDFFEGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASLW------PKEQFNERSLFLEITSAIAQME 218 (357)
T ss_pred HHHHHHHHHHHHHHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEec------chhhCchHhhHHHhhHHHHHHH
Confidence 677888888999999999663 34466655666666666666555433222 3333321111223223333
Q ss_pred HHHHHhcccccchhHhhc-CCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 014206 316 MIFRLANDLATSSDEVKR-GDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNNKREGDE 377 (429)
Q Consensus 316 ~i~RL~NDi~S~~~E~~~-G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~~~l~~~ 377 (429)
...-++|||.||=||.-. ++..|.|.-|-+-+|+|..+|.+.+..-.-.+.+++.+ .|.+.
T Consensus 219 ~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~-VLse~ 280 (357)
T cd00686 219 NWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA-VFSDK 280 (357)
T ss_pred HHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH-HhcCC
Confidence 344588999999999854 45568888888889999999999877766666666655 45544
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=91.13 E-value=6.8 Score=37.69 Aligned_cols=183 Identities=15% Similarity=0.171 Sum_probs=96.6
Q ss_pred cchhHhhhhHHHHHHHhhhhhccCCCHH----HHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCC
Q 014206 161 GYCRRMSTKVNALITTVDDVYDVYGTLD----ELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGV 236 (429)
Q Consensus 161 s~~Rl~~ak~~~l~~~iDD~~D~~gt~e----el~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~ 236 (429)
...|-.+.-+-.+.-.+||+-|...... .++-+-+++...-....+..+....++..++..+.....
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 3455566667788888999999754322 244455555542211111223333456655544433211
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccH-HHHHhhhcchHHHHHHH
Q 014206 237 HVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKE-EALQFLQEYPHIIRWPS 315 (429)
Q Consensus 237 ~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~-e~~e~~~~~~~l~~~~~ 315 (429)
.-++.+.+++.|+.+... ...++|++|+......+.|....+++-.++... ++ +..+ .....+
T Consensus 88 ----l~~~~l~~li~~~~~dl~---~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~--~~~~~~~-------~a~~lG 151 (267)
T PF00494_consen 88 ----LPREPLLELIDGMEMDLE---FTPYETFADLERYCYYVAGSVGLLLLQLLGAHD--PDEAARD-------AARALG 151 (267)
T ss_dssp ----HHHHHHHHHHHHHHHCTT----S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST--SHHHHHH-------HHHHHH
T ss_pred ----hhHHHHHHHHHHhccccc---CCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc--chhhHHH-------HHHHHH
Confidence 334556677777664433 345789999998888888876665555554321 22 2232 233334
Q ss_pred HHHHHhcccccchhH-hhcCCC--CchhhhhhhcCCCCHHHHHHH----------HHHHHHHHHHHHHH
Q 014206 316 MIFRLANDLATSSDE-VKRGDV--PKAIQCYMHETGASESDARLH----------IRDLITAAWMKMNN 371 (429)
Q Consensus 316 ~i~RL~NDi~S~~~E-~~~G~~--~n~V~~yM~e~g~s~eeA~~~----------i~~li~~~~k~ln~ 371 (429)
..+-+.|=+...... ..+|-+ +.- .|.++|+|.++-... +..++..+...+.+
T Consensus 152 ~alql~nilRd~~~D~~~~gR~ylP~d---~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~ 217 (267)
T PF00494_consen 152 RALQLTNILRDIPEDALRRGRIYLPLD---DLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDE 217 (267)
T ss_dssp HHHHHHHHHHTHHHH-HHTT---S-HH---HHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHhcccccCCch---hHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHH
Confidence 444444444445555 556643 322 467889988865432 45555555555544
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=91.01 E-value=4.1 Score=38.27 Aligned_cols=118 Identities=15% Similarity=0.197 Sum_probs=76.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccc-cchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWV-SVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~-S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
....+.+...+++.|...+..|... ..||+++|++.... |.+.....+.....++.. +++..+. ..++-+..+.
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~lG~ 160 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGA-DDEQAEA---LKDYGRALGL 160 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCc-CHHHHHH---HHHHHHHHHH
Confidence 3456778889999999999888643 57999999999988 666543333332222322 3333322 3567788888
Q ss_pred HHHHhcccccchhHh----------hcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 014206 317 IFRLANDLATSSDEV----------KRGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 317 i~RL~NDi~S~~~E~----------~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~ 371 (429)
...+.||+..+.... .+|.. +...+++ .+.+.+..+.+.+.+..
T Consensus 161 a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 161 AFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 889999999886654 44543 4444444 55666666666655544
No 14
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=87.79 E-value=27 Score=33.69 Aligned_cols=176 Identities=14% Similarity=0.147 Sum_probs=87.8
Q ss_pred chhHhhhhHHHHHHHhhhhhccCCCHHHH----HHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCc
Q 014206 162 YCRRMSTKVNALITTVDDVYDVYGTLDEL----EQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVH 237 (429)
Q Consensus 162 ~~Rl~~ak~~~l~~~iDD~~D~~gt~eel----~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~ 237 (429)
..|-.+.-+-.+.-.+||+-|..++.++- +-+-+++..-. ..-|. .++..++.+++... +
T Consensus 18 ~~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~----~g~~~--~pv~~al~~~~~~~--------~-- 81 (266)
T TIGR03465 18 ERRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLY----AGAPS--HPVARALADPARRF--------D-- 81 (266)
T ss_pred HHHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHh----CCCCC--ChHHHHHHHHHHHc--------C--
Confidence 34555556667777799999975444332 22222332211 01121 24555555444331 1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMI 317 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i 317 (429)
--+..+.+++.++.+... ....+|++|+......+.|+-..+++-.+ |.. ++..... ....+..
T Consensus 82 ---l~~~~~~~li~g~~~Dl~---~~~~~t~~dL~~Y~~~vAg~vg~l~~~ll--g~~-~~~~~~~-------a~~lG~A 145 (266)
T TIGR03465 82 ---LPQEDFLEVIDGMEMDLE---QTRYPDFAELDLYCDRVAGAVGRLSARIF--GAT-DARTLEY-------AHHLGRA 145 (266)
T ss_pred ---CCHHHHHHHHHHHHHHcC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCC-ChhHHHH-------HHHHHHH
Confidence 113446777777664443 34578999888877777775544444333 321 2222222 2222333
Q ss_pred HHHhcccccchhHhhcCCC--CchhhhhhhcCCCCHH---------HHHHHHHHHHHHHHHHHHHH
Q 014206 318 FRLANDLATSSDEVKRGDV--PKAIQCYMHETGASES---------DARLHIRDLITAAWMKMNNK 372 (429)
Q Consensus 318 ~RL~NDi~S~~~E~~~G~~--~n~V~~yM~e~g~s~e---------eA~~~i~~li~~~~k~ln~~ 372 (429)
.-+.|=+........+|-+ +-. .|.++|+|.+ ...+.+..+++.+..-+.+.
T Consensus 146 lqltnilRdv~eD~~~gR~ylP~~---~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a 208 (266)
T TIGR03465 146 LQLTNILRDVGEDARRGRIYLPAE---ELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEA 208 (266)
T ss_pred HHHHHHHHHhHHHHhCCCeecCHH---HHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333344556643 221 3567888876 44556666777666555543
No 15
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=84.36 E-value=40 Score=32.40 Aligned_cols=198 Identities=20% Similarity=0.231 Sum_probs=95.8
Q ss_pred chhHhhhhHHHHHHHhhhhhccCCCH-----HHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCC
Q 014206 162 YCRRMSTKVNALITTVDDVYDVYGTL-----DELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGV 236 (429)
Q Consensus 162 ~~Rl~~ak~~~l~~~iDD~~D~~gt~-----eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~ 236 (429)
..|-.+.-+-.+.-.+||+-|..... ..|+-+-+++..-... ..|. .++..++..+..+ .+
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 34555555666777799999975322 2334444444431110 1111 2456666554432 11
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHH
Q 014206 237 HVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 237 ~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
.-++.+.+++.|+.+... ....||++|.......+.|+...+++-.+ |..-+++.... ....+.
T Consensus 90 ----l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~--~~~~~~~~~~~-------A~~lG~ 153 (265)
T cd00683 90 ----IPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVF--GASSDEAALER-------ARALGL 153 (265)
T ss_pred ----CCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCCCChHHHHH-------HHHHHH
Confidence 223556777777765544 45678988877777776665544444333 32112222222 222222
Q ss_pred HHHHhcccccchhHhhcCC--CCchhhhhhhcCCCCHHHH---------HHHHHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 014206 317 IFRLANDLATSSDEVKRGD--VPKAIQCYMHETGASESDA---------RLHIRDLITAAWMKMNNKREGDENPDHLLLP 385 (429)
Q Consensus 317 i~RL~NDi~S~~~E~~~G~--~~n~V~~yM~e~g~s~eeA---------~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p 385 (429)
..-|.|=+.......++|- ++.- .|.++|+|.++- ...+..+++.+.+-+....-... . +|
T Consensus 154 AlqltnilRdv~eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~----lp 225 (265)
T cd00683 154 ALQLTNILRDVGEDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLA-A----LP 225 (265)
T ss_pred HHHHHHHHHHHHHHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHH-h----CC
Confidence 2222222222233345553 2322 267788887653 24455666666554444322112 2 67
Q ss_pred HHHHHHHHHHhh
Q 014206 386 NNFVQFAMNLAR 397 (429)
Q Consensus 386 ~~~~~~~~n~~r 397 (429)
....-.++-++.
T Consensus 226 ~~~~~~~~~~~~ 237 (265)
T cd00683 226 RRSRFCVRAAAM 237 (265)
T ss_pred HhhHHHHHHHHH
Confidence 554444444433
No 16
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=80.91 E-value=56 Score=31.58 Aligned_cols=105 Identities=20% Similarity=0.245 Sum_probs=56.4
Q ss_pred hhHhhhhHHHHHHHhhhhhccC-CCHHH----HHHHHHHHhh-ccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCC
Q 014206 163 CRRMSTKVNALITTVDDVYDVY-GTLDE----LEQFTNAVER-WDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGV 236 (429)
Q Consensus 163 ~Rl~~ak~~~l~~~iDD~~D~~-gt~ee----l~~~t~ai~r-Wd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~ 236 (429)
.|-.+.-+-.+.=.+||+-|.. ++.++ ++.+-+.+.. ..+ -|+ .++..++.+++.+. +.
T Consensus 19 ~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g-----~~~--~pv~~aL~~~~~~~--------~l 83 (266)
T TIGR03464 19 LRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSG-----EPA--APVFVALARTVQRH--------GL 83 (266)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCC-----CCC--ChHHHHHHHHHHHc--------CC
Confidence 3444445556667899999975 44443 3333333332 111 121 24566665555532 21
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHH
Q 014206 237 HVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYS 290 (429)
Q Consensus 237 ~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~ 290 (429)
. ++.+.+++.++.... .....+|++|.......+.|+...+++-.+
T Consensus 84 ~-----~~~~~~li~~~~~Dl---~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~ 129 (266)
T TIGR03464 84 P-----IEPFLDLLDAFRQDV---VVTRYATWAELLDYCRYSANPVGRLVLDLY 129 (266)
T ss_pred C-----hHHHHHHHHHHHHhc---cCCCCCCHHHHHHHHHHhHHHHHHHHHHHc
Confidence 1 234556666654332 234567998888888777776555544444
No 17
>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=78.88 E-value=34 Score=32.88 Aligned_cols=121 Identities=13% Similarity=0.100 Sum_probs=74.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHH
Q 014206 237 HVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 237 ~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
.+...+.+.....+.|-..+..|... ..||.++|++....-+|.....+....++--..+++..+. ..++-+..+.
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG~ 183 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLGL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 35567777888889999889888643 5799999999887766655433322211111123444433 3577788888
Q ss_pred HHHHhcccccchhHhh-----------cCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 014206 317 IFRLANDLATSSDEVK-----------RGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 317 i~RL~NDi~S~~~E~~-----------~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~ 371 (429)
..-+.||+..+....+ .|.. +.+.+|.. .+.++..++++++.+..
T Consensus 184 afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~~ 239 (259)
T cd00685 184 AFQIQDDILDLFGDPETLGKPVGSDLREGKC-TLPVLLAL---------RELAREYEEKALEALKA 239 (259)
T ss_pred HHHHHHHhhcccCChHHHCCCcchHHHcCCc-hHHHHHHH---------HHHHHHHHHHHHHHHHc
Confidence 8889999887754322 2222 34433333 55666677777666554
No 18
>PLN02857 octaprenyl-diphosphate synthase
Probab=75.00 E-value=49 Score=34.41 Aligned_cols=88 Identities=13% Similarity=0.139 Sum_probs=57.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMI 317 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i 317 (429)
+...+.++..+++.|-+.+..+.. ...+|.++|+.....=+|.....+...-+.--..+++..+. ..++-+..++.
T Consensus 228 ~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~---l~~fG~~LGiA 303 (416)
T PLN02857 228 VIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQ---MYEYGKNLGLA 303 (416)
T ss_pred HHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHH
Confidence 456777778888888877877753 44579999998776555543322211111111235555544 35777888888
Q ss_pred HHHhcccccchh
Q 014206 318 FRLANDLATSSD 329 (429)
Q Consensus 318 ~RL~NDi~S~~~ 329 (429)
.-+.||+..+..
T Consensus 304 FQI~DDiLD~~~ 315 (416)
T PLN02857 304 FQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHhhcC
Confidence 899999998763
No 19
>PLN02890 geranyl diphosphate synthase
Probab=74.77 E-value=73 Score=33.24 Aligned_cols=90 Identities=13% Similarity=0.104 Sum_probs=59.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHH
Q 014206 237 HVVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 237 ~~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
.+...+.++...++.|-+.+..|.. ...+|+++|+.....-+|.....+...-+.--..+++..+.+ -.+-+..++
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lGl 302 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLGL 302 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHH
Confidence 3566888889999999999988864 456899999987655444432222111111012355655443 477888888
Q ss_pred HHHHhcccccchhH
Q 014206 317 IFRLANDLATSSDE 330 (429)
Q Consensus 317 i~RL~NDi~S~~~E 330 (429)
..-+.||+..|.-.
T Consensus 303 AFQI~DDiLD~~g~ 316 (422)
T PLN02890 303 AFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHhhcCC
Confidence 99999999887544
No 20
>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=71.38 E-value=1.1e+02 Score=30.43 Aligned_cols=88 Identities=11% Similarity=0.139 Sum_probs=56.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMI 317 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i 317 (429)
+...+.+....++.|-+.+..|.. ...+|+++|+..-..=+|.....+...-++-...+++..+. ..++-...++.
T Consensus 134 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~---l~~~G~~lG~a 209 (322)
T TIGR02749 134 VVKLISKVITDFAEGEIKQGLNQF-DSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAND---LYEYGKHLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccc-CCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHHH
Confidence 456777778888888887877643 34579999998766544543222211111111235555544 35777888999
Q ss_pred HHHhcccccchh
Q 014206 318 FRLANDLATSSD 329 (429)
Q Consensus 318 ~RL~NDi~S~~~ 329 (429)
.-+.||+..+.-
T Consensus 210 FQi~DDild~~~ 221 (322)
T TIGR02749 210 FQVVDDILDFTG 221 (322)
T ss_pred HHHHHHhccCCC
Confidence 999999988753
No 21
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=63.65 E-value=1.1e+02 Score=30.44 Aligned_cols=108 Identities=19% Similarity=0.225 Sum_probs=69.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMI 317 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i 317 (429)
....+.+....++.|-..+..+.... +|.++|+.+-..=+|.....+...-++--..+++..+.+ ..+-+..+++
T Consensus 135 ~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l---~~~g~~lGla 209 (322)
T COG0142 135 AIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEAL---EDYGRNLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHhhHH
Confidence 45677888899999998888876544 999999988776555433332222111111235555553 5788888999
Q ss_pred HHHhcccccchhHhh-cCC---------CCchhhhhhhcCCCC
Q 014206 318 FRLANDLATSSDEVK-RGD---------VPKAIQCYMHETGAS 350 (429)
Q Consensus 318 ~RL~NDi~S~~~E~~-~G~---------~~n~V~~yM~e~g~s 350 (429)
.-+.||+..+.-+.+ -|. -.+.+.++.-+.+-.
T Consensus 210 FQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~ 252 (322)
T COG0142 210 FQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANE 252 (322)
T ss_pred HHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCch
Confidence 999999988876532 232 135666666555433
No 22
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=60.68 E-value=6.6 Score=35.03 Aligned_cols=30 Identities=20% Similarity=0.437 Sum_probs=24.9
Q ss_pred hcCCCCchhhhhhhcC-CCCHHHHHHHHHHH
Q 014206 332 KRGDVPKAIQCYMHET-GASESDARLHIRDL 361 (429)
Q Consensus 332 ~~G~~~n~V~~yM~e~-g~s~eeA~~~i~~l 361 (429)
.||-.+..|.||+-++ ++|.++|.++++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~i 149 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKI 149 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhc
Confidence 3455678899998877 99999999999873
No 23
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=57.07 E-value=8.3 Score=35.57 Aligned_cols=43 Identities=26% Similarity=0.334 Sum_probs=27.9
Q ss_pred HhcccccchhHhhcCC-CCchhhhhhhcCCCCHHHHHHHHHHHH
Q 014206 320 LANDLATSSDEVKRGD-VPKAIQCYMHETGASESDARLHIRDLI 362 (429)
Q Consensus 320 L~NDi~S~~~E~~~G~-~~n~V~~yM~e~g~s~eeA~~~i~~li 362 (429)
|--++..+++..+.-. +.-+=.+.|+++|+|++||+.+++++-
T Consensus 130 L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~A 173 (194)
T COG3707 130 LRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTA 173 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 4444555555433221 223334699999999999999999854
No 24
>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=56.72 E-value=8.7 Score=27.87 Aligned_cols=27 Identities=26% Similarity=0.203 Sum_probs=20.4
Q ss_pred CchhhhhhhcCCCCHHHHHHHHHHHHH
Q 014206 337 PKAIQCYMHETGASESDARLHIRDLIT 363 (429)
Q Consensus 337 ~n~V~~yM~e~g~s~eeA~~~i~~li~ 363 (429)
.-++.+.|..+|+|+++|.+.+++.-.
T Consensus 16 ~~AkgiLm~~~g~~e~~A~~~Lr~~Am 42 (56)
T PF03861_consen 16 EQAKGILMARYGLSEDEAYRLLRRQAM 42 (56)
T ss_dssp HHHHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 456778999999999999999888544
No 25
>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=56.44 E-value=2.3e+02 Score=28.60 Aligned_cols=98 Identities=11% Similarity=0.161 Sum_probs=60.8
Q ss_pred CCCCCH--HHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHHHHHhcccccchhHhhcCCCCchh
Q 014206 263 GYIPTL--DEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMIFRLANDLATSSDEVKRGDVPKAI 340 (429)
Q Consensus 263 ~~iPt~--eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V 340 (429)
+..|.+ -|+-.....|.|...++ -+++.+.++++..+.+. ....-.++-+-.|++-....+.+...||. |.|
T Consensus 174 ~~~p~l~W~EfaAatGSTLgIF~L~---a~A~~p~~t~~~a~~i~--~aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv 247 (330)
T PF10776_consen 174 DKYPELEWWEFAAATGSTLGIFALF---AYAADPDLTPEDAEKIK--DAYFPWICGLHILLDYFIDQEEDREGGDL-NFV 247 (330)
T ss_pred hcCCCccHHHHHHHhccHHHHHHHH---HHHcCCCCCHHHHHHHH--HcccHHHHHHHHHHHHHhhhHhHhcCCCc-eee
Confidence 345543 35544443444444433 33355667777776653 33333445555666666666777777776 999
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 014206 341 QCYMHETGASESDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 341 ~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~ 371 (429)
..|- +.+++.+.+...++++-+...+
T Consensus 248 ~YY~-----~~~~~~~Rl~~f~~~A~~~~~~ 273 (330)
T PF10776_consen 248 FYYP-----DEEEMEERLKYFVEKALEQASR 273 (330)
T ss_pred eeCC-----CHHHHHHHHHHHHHHHHHHHHh
Confidence 6553 7888999999999988776554
No 26
>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=52.57 E-value=2.5e+02 Score=27.94 Aligned_cols=86 Identities=10% Similarity=0.090 Sum_probs=56.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHH--hCCCccHHHHHhhhcchHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSL--IANPAKEEALQFLQEYPHIIRWPS 315 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~--~g~~l~~e~~e~~~~~~~l~~~~~ 315 (429)
+...+.++...++.|-..+..|.. +..+|.++|++.-..-+|.....+ +..| ++ ..+++..+. ..++-+..+
T Consensus 130 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~-~~~ga~~a-g~~~~~~~~---l~~~g~~lG 203 (319)
T TIGR02748 130 AHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAAS-CQLGAIAS-GANEAIVKK---LYWFGYYVG 203 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHc-CCCHHHHHH---HHHHHHHHH
Confidence 456777888889999888887753 345799999987766555433222 2221 11 124444433 356778888
Q ss_pred HHHHHhcccccchh
Q 014206 316 MIFRLANDLATSSD 329 (429)
Q Consensus 316 ~i~RL~NDi~S~~~ 329 (429)
+..-+.||+..+..
T Consensus 204 ~aFQI~DDilD~~~ 217 (319)
T TIGR02748 204 MSYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHHccC
Confidence 88899999987753
No 27
>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=51.45 E-value=11 Score=23.62 Aligned_cols=18 Identities=28% Similarity=0.458 Sum_probs=14.6
Q ss_pred hhhhcCCCCHHHHHHHHH
Q 014206 342 CYMHETGASESDARLHIR 359 (429)
Q Consensus 342 ~yM~e~g~s~eeA~~~i~ 359 (429)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 488999999999776654
No 28
>PLN02632 phytoene synthase
Probab=51.13 E-value=2.7e+02 Score=27.94 Aligned_cols=177 Identities=18% Similarity=0.219 Sum_probs=85.6
Q ss_pred hhHhhhhHHHHHHHhhhhhccCCCH----HHHHHHHHHHhhccccccccCchhhHHHHHHHhhhHHHHHHHHHhhcCCcc
Q 014206 163 CRRMSTKVNALITTVDDVYDVYGTL----DELEQFTNAVERWDVNAMDQLPYYMKMCFHVLHSSTNEMAFDALKDQGVHV 238 (429)
Q Consensus 163 ~Rl~~ak~~~l~~~iDD~~D~~gt~----eel~~~t~ai~rWd~~~~~~lpe~mk~~~~al~~~~~e~~~~~~~~~~~~~ 238 (429)
.|-.+.-+-.|.-.+||+=|..... ..|+..-+.+..- ...-|. .++..++.+++.+..
T Consensus 74 ~R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~----~~g~~~--~pv~~aL~~~~~~~~----------- 136 (334)
T PLN02632 74 RRKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDL----FDGRPY--DMLDAALADTVSKFP----------- 136 (334)
T ss_pred HHHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHH----hCCCCC--ChHHHHHHHHHHHCC-----------
Confidence 3444445666777899999964322 2333333333331 011121 145566655554321
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHhCCCcc---HHHHHhhhcchHHHHHHH
Q 014206 239 VPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAK---EEALQFLQEYPHIIRWPS 315 (429)
Q Consensus 239 ~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~---~e~~e~~~~~~~l~~~~~ 315 (429)
--++.+.+++.|+..... ....+|++|+......+.|+--.+++-.++.....+ +++... -...+
T Consensus 137 --L~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~-------A~~lG 204 (334)
T PLN02632 137 --LDIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNA-------ALALG 204 (334)
T ss_pred --CChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHHHH-------HHHHH
Confidence 113445677777664432 345679888888877777755444444443222111 111211 11222
Q ss_pred HHHHHhcccccchhHhhcCCC--CchhhhhhhcCCCCHHHH---------HHHHHHHHHHHHHHHHH
Q 014206 316 MIFRLANDLATSSDEVKRGDV--PKAIQCYMHETGASESDA---------RLHIRDLITAAWMKMNN 371 (429)
Q Consensus 316 ~i~RL~NDi~S~~~E~~~G~~--~n~V~~yM~e~g~s~eeA---------~~~i~~li~~~~k~ln~ 371 (429)
...-|.|=+........+|-+ +.- .|.++|+|.++- ...+..++..+..-+.+
T Consensus 205 ~AlQltNILRDv~eD~~~GRvYLP~e---~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~ 268 (334)
T PLN02632 205 IANQLTNILRDVGEDARRGRVYLPQD---ELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAE 268 (334)
T ss_pred HHHHHHHHHHHHHHHHhCCceeCCHH---HHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 222233322222344566643 211 367889998872 34455555555544443
No 29
>CHL00151 preA prenyl transferase; Reviewed
Probab=44.95 E-value=3.3e+02 Score=27.13 Aligned_cols=87 Identities=13% Similarity=0.155 Sum_probs=53.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHH-hCCCccHHHHHhhhcchHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSL-IANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~-~g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
....+.+....++.+-..+..|. ...-+|.++|+..-..=+|.....+...-+ ++ ..+++..+. ..++-+..++
T Consensus 135 ~~~~~~~~~~~l~~G~~~~~~~~-~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~la-g~~~~~~~~---l~~~G~~lG~ 209 (323)
T CHL00151 135 VVKLISKVITDFAEGEIRQGLVQ-FDTTLSILNYIEKSFYKTASLIAASCKAAALLS-DADEKDHND---FYLYGKHLGL 209 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC-CCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHc-CCCHHHHHH---HHHHHHHHHH
Confidence 45567778888888877776664 234578999999754444433222111111 11 134554433 3577788888
Q ss_pred HHHHhcccccchh
Q 014206 317 IFRLANDLATSSD 329 (429)
Q Consensus 317 i~RL~NDi~S~~~ 329 (429)
..-+.||+..+.-
T Consensus 210 aFQi~DDilD~~~ 222 (323)
T CHL00151 210 AFQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHHhhccc
Confidence 9999999988754
No 30
>COG5123 TOA2 Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=43.01 E-value=30 Score=28.31 Aligned_cols=43 Identities=14% Similarity=0.162 Sum_probs=28.4
Q ss_pred hHHHHHHHHhcccCCcccHHHHHHHHHHhHHHHHHHHhcCCCCCCCCCCchHHHHHHHcc
Q 014206 15 IKGILALYEAAYLLGEEESTIFHEAINFTTTHLEEYVKKHNDDDDDDGGYFSALVKHALE 74 (429)
Q Consensus 15 v~~~l~Ly~As~l~~~gE~~iL~eA~~ft~~~L~~~~~~~~~~d~~~~~~l~~~V~~aL~ 74 (429)
|.|+++|||-|-++--=| ++||+- ++.| .|+++|+.+|-...+
T Consensus 1 v~~yYElYRrs~ig~~L~-dalD~l-----------is~g-----~isp~lam~vLetFD 43 (113)
T COG5123 1 VPGYYELYRRSMIGKVLE-DALDEL-----------ISAG-----VISPNLAMHVLETFD 43 (113)
T ss_pred CccHHHHHHHHHHHHHHH-HHHHHH-----------HhcC-----CcCHHHHHHHHHHhh
Confidence 468999999998874445 555543 3443 377878777755443
No 31
>KOG3463 consensus Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=36.83 E-value=43 Score=27.79 Aligned_cols=21 Identities=19% Similarity=0.205 Sum_probs=14.6
Q ss_pred HHHHHHhcccCCcccHHHHHHH
Q 014206 18 ILALYEAAYLLGEEESTIFHEA 39 (429)
Q Consensus 18 ~l~Ly~As~l~~~gE~~iL~eA 39 (429)
+++|||.+-++-.=+ ++|||-
T Consensus 3 ~YelYR~ttlG~~L~-~tLDe~ 23 (109)
T KOG3463|consen 3 YYELYRRTTLGNALQ-KTLDEL 23 (109)
T ss_pred HHHHHHHhhHHHHHH-HHHHHH
Confidence 689999998884444 455543
No 32
>smart00463 SMR Small MutS-related domain.
Probab=36.14 E-value=45 Score=25.68 Aligned_cols=57 Identities=14% Similarity=0.116 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH-HHhc--CCCCCCCCC-CCHHHHHHHHHHhhhhhhhcc
Q 014206 347 TGASESDARLHIRDLITAAWMKMN-NKRE--GDENPDHLL-LPNNFVQFAMNLARMAQCTYQ 404 (429)
Q Consensus 347 ~g~s~eeA~~~i~~li~~~~k~ln-~~~l--~~~~~~~~~-~p~~~~~~~~n~~r~~~~~Y~ 404 (429)
||++.+||+..+...++++++.-. +.+. .-.+. ||. -...++..+.....+..+-|.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~~~~~~II~G~G~-~s~~g~~~i~~~l~~~l~~~~~~~~ 67 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGLEQKLVIITGKGK-HSLGGKSGVKPALKEHLRVESFRFA 67 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCCCceEEEEEcccC-CCccchhhHHHHHHhchhhcccccC
Confidence 799999999999999999887543 2222 11111 222 133455555555555444443
No 33
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=35.88 E-value=31 Score=29.44 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=18.6
Q ss_pred hhhhhhhcCCCCHHHHHHHHHH
Q 014206 339 AIQCYMHETGASESDARLHIRD 360 (429)
Q Consensus 339 ~V~~yM~e~g~s~eeA~~~i~~ 360 (429)
=|.+.|.|.|+|.++|++.+..
T Consensus 87 DIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 87 DIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHhCCCHHHHHHHHHH
Confidence 3788999999999999987654
No 34
>PRK10581 geranyltranstransferase; Provisional
Probab=35.45 E-value=4.2e+02 Score=26.11 Aligned_cols=113 Identities=17% Similarity=0.124 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHH--hCCCccHHHHHhhhcchHHHHHHHHHHHHhccc
Q 014206 247 ADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSL--IANPAKEEALQFLQEYPHIIRWPSMIFRLANDL 324 (429)
Q Consensus 247 ~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~--~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi 324 (429)
..++.|-..+..|.. ..+|.++|++.-..=+|.....+ +..| ++..-+++..+. ..++-+..++..-+.||+
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~-~~~gailag~~~~~~~~~---l~~~g~~lG~aFQI~DDi 225 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAA-VRLGALSAGDKGRRALPV---LDRYAESIGLAFQVQDDI 225 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHH-HHHHHHHcCCCcHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 356677777777743 46899999987654444332221 1111 122112333433 357788888899999999
Q ss_pred ccchhHh-hcCC-----C----CchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 014206 325 ATSSDEV-KRGD-----V----PKAIQCYMHETGASESDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 325 ~S~~~E~-~~G~-----~----~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~ 371 (429)
..+.... .-|. + .+.+.++ ..+.|.+.+++.++++.+.+..
T Consensus 226 lD~~g~~~~~GK~~g~Dl~~gk~T~p~l~------~~e~a~~~a~~~~~~A~~~l~~ 276 (299)
T PRK10581 226 LDVVGDTATLGKRQGADQQLGKSTYPALL------GLEQARKKARDLIDDARQSLDQ 276 (299)
T ss_pred ccccCChHHHCCCcchhhhcCCCCHHHHH------HHHHHHHHHHHHHHHHHHHHHh
Confidence 9875332 1222 1 2333332 2478888889888888766655
No 35
>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=32.11 E-value=55 Score=25.36 Aligned_cols=27 Identities=11% Similarity=0.138 Sum_probs=21.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHh
Q 014206 347 TGASESDARLHIRDLITAAWMKMNNKR 373 (429)
Q Consensus 347 ~g~s~eeA~~~i~~li~~~~k~ln~~~ 373 (429)
||++.+||+..+...+.++++.-.+.+
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~ 30 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIREL 30 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEE
Confidence 799999999999999999986554443
No 36
>smart00400 ZnF_CHCC zinc finger.
Probab=30.19 E-value=49 Score=23.68 Aligned_cols=23 Identities=17% Similarity=0.017 Sum_probs=19.7
Q ss_pred CCchhhhhhhcCCCCHHHHHHHH
Q 014206 336 VPKAIQCYMHETGASESDARLHI 358 (429)
Q Consensus 336 ~~n~V~~yM~e~g~s~eeA~~~i 358 (429)
..+.|..+|+-.|+|-.||++.+
T Consensus 32 gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 32 GGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCHHHHHHHHHCcCHHHHHHHh
Confidence 34789999998899999999875
No 37
>PF03000 NPH3: NPH3 family; InterPro: IPR004249 The RPT2 protein is a signal transducer of the phototropic response in Arabidopsis thaliana. The RPT2 gene is light inducible; encodes a novel protein with putative phosphorylation sites, a nuclear localization signal, a BTB/POZ domain (IPR000210 from INTERPRO), and a coiled-coil domain. RPT2 belongs to a large gene family that includes the recently isolated NPH3 gene []. The NPH3 protein is a NPH1 photoreceptor-interacting protein that is essential for phototropism. Phototropism of A. thaliana seedlings in response to a blue light source is initiated by nonphototropic hypocotyl 1 (NPH1), a light-activated serine-threonine protein kinase []. NPH3 is a member of a large protein family, apparently specific to higher plants, and may function as an adapter or scaffold protein to bring together the enzymatic components of a NPH1-activated phosphorelay []. Many of the proteins in this group also contain the BTB/POZ domain (IPR000210 from INTERPRO) at the N-terminal.; GO: 0004871 signal transducer activity, 0009416 response to light stimulus
Probab=28.45 E-value=66 Score=31.22 Aligned_cols=26 Identities=31% Similarity=0.551 Sum_probs=20.0
Q ss_pred CCchhhhhhhcC-CCCHHHHHHHHHHHH
Q 014206 336 VPKAIQCYMHET-GASESDARLHIRDLI 362 (429)
Q Consensus 336 ~~n~V~~yM~e~-g~s~eeA~~~i~~li 362 (429)
+--+|..|+|.| ++|++| +..+-+++
T Consensus 222 LYrAID~YLk~Hp~ls~~E-r~~lC~~l 248 (258)
T PF03000_consen 222 LYRAIDIYLKAHPGLSEEE-RKRLCRLL 248 (258)
T ss_pred HHHHHHHHHHHcccCCHHH-HHHHHhhC
Confidence 457899999999 999999 44555544
No 38
>PF06603 UpxZ: UpxZ family of transcription anti-terminator antagonists; InterPro: IPR010570 This family consists of several hypothetical proteins of unknown function and seems to be specific to Bacteroides species.
Probab=27.92 E-value=79 Score=26.20 Aligned_cols=62 Identities=11% Similarity=0.274 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHHHhcccccchhHhhcCCCCch-hhhhhhcCCCCH---HHHHHHHHHHHHHHHHHHHH
Q 014206 308 PHIIRWPSMIFRLANDLATSSDEVKRGDVPKA-IQCYMHETGASE---SDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 308 ~~l~~~~~~i~RL~NDi~S~~~E~~~G~~~n~-V~~yM~e~g~s~---eeA~~~i~~li~~~~k~ln~ 371 (429)
..+.++-..+.+.+||+++.+-+-...+ +|. +.+.| -+++|. -|.-++++.+++++|..+..
T Consensus 25 D~~~rLN~ev~~~~~~Ly~~~G~t~Eee-A~lCLaLLm-GYnat~yd~geke~~~Q~vL~Rs~~vL~~ 90 (106)
T PF06603_consen 25 DDFSRLNKEVYEQSNDLYSQHGSTPEEE-ANLCLALLM-GYNATIYDNGEKEEKKQEVLDRSWEVLDK 90 (106)
T ss_pred HHHHHHhHHHHHHHHHHHhccCCCHHHH-HHHHHHHHH-hccchhhhCccHHHHHHHHHHHHHHHHHh
Confidence 4567777888889999987633211111 222 22233 244443 23345789999999977665
No 39
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=26.36 E-value=48 Score=31.16 Aligned_cols=25 Identities=28% Similarity=0.466 Sum_probs=20.4
Q ss_pred CCchhhhhh-hcCCCCHHHHHHHHHH
Q 014206 336 VPKAIQCYM-HETGASESDARLHIRD 360 (429)
Q Consensus 336 ~~n~V~~yM-~e~g~s~eeA~~~i~~ 360 (429)
....|.||| +++|+|..||++.++.
T Consensus 161 TG~liAc~lmy~~g~ta~eaI~~lR~ 186 (225)
T KOG1720|consen 161 TGTLIACYLMYEYGMTAGEAIAWLRI 186 (225)
T ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 456788986 5779999999998875
No 40
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=26.29 E-value=6.6e+02 Score=25.02 Aligned_cols=88 Identities=15% Similarity=0.064 Sum_probs=56.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHhccccchhhHHHHHHHHHh-CCCccHHHHHhhhcchHHHHHHHH
Q 014206 238 VVPYLKKAWADMCKSFLLEAKWYSSGYIPTLDEYIENAWVSVSGPVILLHAYSLI-ANPAKEEALQFLQEYPHIIRWPSM 316 (429)
Q Consensus 238 ~~~~~~~~w~~~~~~~~~Ea~W~~~~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~-g~~l~~e~~e~~~~~~~l~~~~~~ 316 (429)
+...+.++...++.|-..+..|.. +..+|.++|+.....-+|.....+ +..|. --..+++..+. ...+-+..++
T Consensus 131 ~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~-~~~ga~lag~~~~~~~~---l~~~g~~lG~ 205 (323)
T PRK10888 131 VLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAA-AQCSGILAGCTPEQEKG---LQDYGRYLGT 205 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 456777788888888888877753 345899999987776555442221 22221 01234444433 3577788888
Q ss_pred HHHHhcccccchhH
Q 014206 317 IFRLANDLATSSDE 330 (429)
Q Consensus 317 i~RL~NDi~S~~~E 330 (429)
..-+.||+..+...
T Consensus 206 aFQi~DD~ld~~~~ 219 (323)
T PRK10888 206 AFQLIDDLLDYSAD 219 (323)
T ss_pred HHHHHHHhhcccCC
Confidence 88999999888543
No 41
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=24.02 E-value=84 Score=24.44 Aligned_cols=28 Identities=18% Similarity=0.368 Sum_probs=23.4
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 014206 340 IQCYMHETGASESDARLHIRDLITAAWM 367 (429)
Q Consensus 340 V~~yM~e~g~s~eeA~~~i~~li~~~~k 367 (429)
|...+-+.|++.|+|.+.|++...++|+
T Consensus 9 v~~~L~~~G~gR~~Ah~lv~~~a~~a~~ 36 (81)
T PF10397_consen 9 VMLALAEKGLGRQEAHELVQEAAMEAWE 36 (81)
T ss_dssp HHHHHHHTTH-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence 4556667899999999999999999997
No 42
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=23.56 E-value=63 Score=27.35 Aligned_cols=24 Identities=29% Similarity=0.458 Sum_probs=20.3
Q ss_pred CchhhhhhhcCCCCHHHHHHHHHH
Q 014206 337 PKAIQCYMHETGASESDARLHIRD 360 (429)
Q Consensus 337 ~n~V~~yM~e~g~s~eeA~~~i~~ 360 (429)
..-|...|.+.|+|.++|++.+.+
T Consensus 77 ~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 77 EEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHH
Confidence 466889999999999999987754
No 43
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=23.38 E-value=99 Score=22.16 Aligned_cols=44 Identities=27% Similarity=0.299 Sum_probs=29.7
Q ss_pred cccccchhHhhcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 014206 322 NDLATSSDEVKRGDVPKAIQCYMHETGASESDARLHIRDLITAAWM 367 (429)
Q Consensus 322 NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k 367 (429)
||+-+...|+..--+ --|.-.|. .|+|--|||..|..-|.+.-+
T Consensus 3 ~~lp~LtHeeQQ~Av-E~Iq~LMa-qGmSsgEAI~~VA~~iRe~~~ 46 (51)
T PF03701_consen 3 NDLPSLTHEEQQQAV-ERIQELMA-QGMSSGEAIAIVAQEIREEHQ 46 (51)
T ss_pred CCCCCCCHHHHHHHH-HHHHHHHH-hcccHHHHHHHHHHHHHHHHH
Confidence 666666666544322 22555674 699999999999888876543
No 44
>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=22.04 E-value=6.9e+02 Score=23.74 Aligned_cols=65 Identities=22% Similarity=0.248 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHhccccchhhHHHHHHHHHhCCCccHHHHHhhhcchHHHHHHHHHHHHhcccccchhH
Q 014206 263 GYIPTLDEYIENAWVSVSGPVILLHAYSLIANPAKEEALQFLQEYPHIIRWPSMIFRLANDLATSSDE 330 (429)
Q Consensus 263 ~~iPt~eEYl~~~~~S~g~~~l~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDi~S~~~E 330 (429)
+..+|.++|++.-..-+|....+....-++=-..+++..+. ..++....++..-+.||+..+...
T Consensus 130 ~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~---l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 130 DKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEA---LREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHH---HHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred cccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHH---HHHHHHHHHHHHhhhhhhhhccCc
Confidence 34789999999988777654333222211111234555544 467888888999999999887754
No 45
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=21.94 E-value=72 Score=27.04 Aligned_cols=24 Identities=21% Similarity=0.358 Sum_probs=20.0
Q ss_pred CchhhhhhhcCCCCHHHHHHHHHH
Q 014206 337 PKAIQCYMHETGASESDARLHIRD 360 (429)
Q Consensus 337 ~n~V~~yM~e~g~s~eeA~~~i~~ 360 (429)
..-|.+.|.+.|+|.++|++.+.+
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHH
Confidence 356889999999999999987764
No 46
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.90 E-value=45 Score=24.24 Aligned_cols=48 Identities=21% Similarity=0.212 Sum_probs=31.1
Q ss_pred cccccchhHhhcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 014206 322 NDLATSSDEVKRGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMNN 371 (429)
Q Consensus 322 NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln~ 371 (429)
+++.|...|+...-+ --|+=+|. .|+|--|||..+..-+.+.-+.-|+
T Consensus 3 ~~lp~LtHeqQQ~AV-E~Iq~lMa-eGmSsGEAIa~VA~elRe~hk~~~~ 50 (60)
T COG3140 3 AGLPSLTHEQQQKAV-ERIQELMA-EGMSSGEAIALVAQELRENHKGENR 50 (60)
T ss_pred CccccccHHHHHHHH-HHHHHHHH-ccccchhHHHHHHHHHHHHhccccc
Confidence 455566666554333 22555675 4999999999998888766554443
No 47
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=21.59 E-value=87 Score=27.99 Aligned_cols=33 Identities=24% Similarity=0.340 Sum_probs=23.7
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHH
Q 014206 343 YMHETGASESDARLHIRDLITAAWMKMNNKREGDENPDHLLLPNN 387 (429)
Q Consensus 343 yM~e~g~s~eeA~~~i~~li~~~~k~ln~~~l~~~~~~~~~~p~~ 387 (429)
-|++.|.|.. +|++.|++.||+ .+.+|+ + .|+|
T Consensus 126 ~~~~~Gks~~----eIR~~ID~kYk~---g~~~pT-p----Tp~P 158 (158)
T PF13798_consen 126 QMYQEGKSPK----EIRQYIDEKYKE---GYAKPT-P----TPMP 158 (158)
T ss_pred HHHHcCCCHH----HHHHHHHHHHHh---CCCCCC-C----CCCC
Confidence 4667777744 588899999974 477888 5 6654
No 48
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=20.19 E-value=1e+02 Score=29.94 Aligned_cols=64 Identities=16% Similarity=0.185 Sum_probs=46.8
Q ss_pred cchhHhhcCCCCchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHH----------HHhcCCCCCCCCCCCHHHHHHHHHH
Q 014206 326 TSSDEVKRGDVPKAIQCYMHETGASESDARLHIRDLITAAWMKMN----------NKREGDENPDHLLLPNNFVQFAMNL 395 (429)
Q Consensus 326 S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~li~~~~k~ln----------~~~l~~~~~~~~~~p~~~~~~~~n~ 395 (429)
.+++||+ .++..+..+...|.+.++|.+.+.--+++.+-.+- .++|... + +|...+..+.++
T Consensus 96 ~wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~-~----~~~~~~~~l~e~ 167 (269)
T COG1093 96 EWKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDE-G----VPEEWKEVLKEI 167 (269)
T ss_pred HHHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccC-C----CCHHHHHHHHHH
Confidence 3456664 35778888888999999999999888877665332 3445444 3 888888999998
Q ss_pred hh
Q 014206 396 AR 397 (429)
Q Consensus 396 ~r 397 (429)
||
T Consensus 168 a~ 169 (269)
T COG1093 168 AR 169 (269)
T ss_pred HH
Confidence 87
No 49
>PF08673 RsbU_N: Phosphoserine phosphatase RsbU, N-terminal domain; InterPro: IPR014787 The phosphoserine phosphatase RsbU acts as a positive regulator of the general stress-response factor of Gram-positive organisms, sigma-B. RsbU dephosphorylates rsbV in response to environmental stress conveyed from the rsbXST module. The phosphatase activity of RsbU is stimulated during the stress response by associating with the RsbT kinase. This association leads to the induction of sigmaB activity. The N-terminal domain forms a helix-swapped dimer that is otherwise similar to the KaiA domain dimer. Deletions in the N-terminal domain are deleterious to the activity of RsbU. The C-terminal domain of RsbU is similar to the catalytic domains of PP2C-type phosphatases [].; PDB: 2J6Y_D 2J6Z_A 2J70_A 1W53_A.
Probab=20.18 E-value=80 Score=24.70 Aligned_cols=23 Identities=22% Similarity=0.258 Sum_probs=17.9
Q ss_pred cCCcccHHHHHHHHHHhHHHHHHH
Q 014206 27 LLGEEESTIFHEAINFTTTHLEEY 50 (429)
Q Consensus 27 l~~~gE~~iL~eA~~ft~~~L~~~ 50 (429)
+..++| ..|-+|..||+.-+++.
T Consensus 12 l~~~~E-~~L~~~~~~~r~~i~~~ 34 (77)
T PF08673_consen 12 LETQDE-QSLYQAQEFGRELIEKD 34 (77)
T ss_dssp HHH--H-HHHHHHHHHHHHHHHTT
T ss_pred HhCCCH-HHHHHHHHHHHHHHHcC
Confidence 667789 99999999999998764
Done!