Query 044890
Match_columns 557
No_of_seqs 236 out of 909
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:47:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044890.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044890hhsearch_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 4E-148 9E-153 1226.0 52.7 524 20-552 1-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 1E-134 3E-139 1140.6 46.8 495 48-556 245-779 (784)
3 PLN02592 ent-copalyl diphospha 100.0 3E-106 7E-111 906.1 43.5 456 48-554 285-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 6.2E-51 1.3E-55 389.6 14.7 165 30-195 1-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 1.6E-48 3.4E-53 393.8 22.5 269 225-501 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 9E-46 1.9E-50 376.4 29.8 282 239-529 1-284 (284)
7 cd00687 Terpene_cyclase_nonpla 100.0 1.6E-33 3.6E-38 290.5 21.3 244 247-504 19-265 (303)
8 PLN02150 terpene synthase/cycl 100.0 7.4E-31 1.6E-35 226.2 10.3 94 462-555 1-96 (96)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.8 1.4E-20 3.1E-25 182.9 13.3 229 273-523 2-243 (243)
10 PF06330 TRI5: Trichodiene syn 97.8 0.00028 6E-09 74.5 12.6 195 280-504 78-277 (376)
11 cd00686 Terpene_cyclase_cis_tr 97.6 0.00052 1.1E-08 71.5 10.8 192 283-504 81-277 (357)
12 PF00494 SQS_PSY: Squalene/phy 92.3 3 6.4E-05 42.2 13.7 202 269-510 6-225 (267)
13 cd00867 Trans_IPPS Trans-Isopr 90.5 6.6 0.00014 38.7 13.8 118 362-502 86-214 (236)
14 TIGR03464 HpnC squalene syntha 86.3 36 0.00077 34.7 16.2 119 269-414 6-129 (266)
15 TIGR03465 HpnD squalene syntha 86.1 30 0.00065 35.2 15.5 202 270-518 7-223 (266)
16 cd00683 Trans_IPPS_HH Trans-Is 83.0 38 0.00082 34.3 14.7 209 270-523 13-237 (265)
17 PLN02890 geranyl diphosphate s 81.0 42 0.00092 36.9 14.8 91 360-461 226-316 (422)
18 TIGR02749 prenyl_cyano solanes 79.9 85 0.0018 33.1 16.4 88 361-459 133-220 (322)
19 cd00685 Trans_IPPS_HT Trans-Is 79.2 44 0.00095 33.8 13.5 121 361-502 108-239 (259)
20 PLN02857 octaprenyl-diphosphat 78.0 39 0.00086 37.0 13.4 89 361-460 227-315 (416)
21 TIGR02748 GerC3_HepT heptapren 66.0 1.8E+02 0.0039 30.6 15.7 88 361-459 129-216 (319)
22 CHL00151 preA prenyl transfera 65.0 1.9E+02 0.0041 30.5 14.9 88 362-460 135-222 (323)
23 PLN02632 phytoene synthase 63.2 2.1E+02 0.0045 30.4 16.8 193 286-515 74-281 (334)
24 PF10776 DUF2600: Protein of u 59.7 1.6E+02 0.0034 31.4 12.6 108 421-549 203-311 (330)
25 COG0142 IspA Geranylgeranyl py 59.5 2.3E+02 0.0051 29.8 15.8 109 360-480 133-251 (322)
26 KOG1719 Dual specificity phosp 54.7 11 0.00023 35.7 2.7 30 463-492 119-149 (183)
27 PRK10888 octaprenyl diphosphat 54.1 2.9E+02 0.0062 29.1 16.2 89 361-460 130-218 (323)
28 PF03861 ANTAR: ANTAR domain; 48.7 19 0.00042 27.6 3.0 29 466-494 14-42 (56)
29 COG3707 AmiR Response regulato 44.6 18 0.0004 35.3 2.7 45 450-494 129-174 (194)
30 COG5123 TOA2 Transcription ini 43.7 9.2 0.0002 33.2 0.5 43 143-196 1-43 (113)
31 PRK10581 geranyltranstransfera 33.5 5.1E+02 0.011 27.0 11.6 114 371-502 152-276 (299)
32 smart00400 ZnF_CHCC zinc finge 32.2 53 0.0011 25.0 3.1 25 465-489 30-54 (55)
33 PF12368 DUF3650: Protein of u 29.8 43 0.00093 22.5 1.8 18 473-490 9-26 (28)
34 COG1308 EGD2 Transcription fac 28.5 58 0.0013 29.5 3.0 23 469-491 86-108 (122)
35 COG1191 FliA DNA-directed RNA 28.0 5.3E+02 0.011 26.3 10.2 125 240-394 7-131 (247)
36 PF00348 polyprenyl_synt: Poly 26.7 6.6E+02 0.014 25.2 11.2 65 387-461 130-194 (260)
37 COG1093 SUI2 Translation initi 25.7 1.1E+02 0.0024 31.4 4.8 63 458-523 97-169 (269)
38 KOG3463 Transcription initiati 24.9 34 0.00074 30.1 0.9 39 146-195 3-41 (109)
39 smart00027 EH Eps15 homology d 24.6 2.9E+02 0.0063 23.1 6.7 76 50-129 8-86 (96)
40 smart00463 SMR Small MutS-rela 24.4 88 0.0019 25.5 3.3 23 478-500 7-29 (80)
41 PF01713 Smr: Smr domain; Int 21.5 93 0.002 25.5 2.9 24 478-501 4-27 (83)
42 PF13798 PCYCGC: Protein of un 20.7 1.1E+02 0.0023 29.1 3.3 34 473-513 125-158 (158)
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=4e-148 Score=1226.03 Aligned_cols=524 Identities=42% Similarity=0.752 Sum_probs=499.9
Q ss_pred CCCCCCCCCCCCccccccCCCccc-HHHHHHHHHHHHHHHHHHhhh---cchhhhhhhhHHHHHHHhCcccccHHHHHHH
Q 044890 20 RRSANYHASIWNPELIESFTTPYT-YELYANRLDELKQKAKDLFAS---AKESTSELLKLTDSVQKLGVAYHFEEEIKEA 95 (557)
Q Consensus 20 r~~~~~~ps~W~~~f~~~~~~~~~-~~~~~~~~~~lk~~v~~~l~~---~~d~~~~~l~liD~lqrLGi~~hF~~EI~~~ 95 (557)
|++++||||+|||+|+++++.++. .+.+.+++++||++||+|+.. +.| ++++|+|||+||||||+|||++||+++
T Consensus 1 r~~~~~~~~~w~~~~~~s~~~~~~~~~~~~~~~~~lk~~v~~~~~~~~~~~~-~~~~l~liD~lqrLGi~~hF~~EI~~~ 79 (542)
T cd00684 1 RPSANFPPSLWGDDHFLSLSSDYSEEDELEEEIEELKEEVRKMLEDSEYPVD-LFERLWLIDRLQRLGISYHFEDEIKEI 79 (542)
T ss_pred CCCCCCCCCcCCCcceeecCCCcchhHHHHHHHHHHHHHHHHHHHhcccCCC-HHHHHHHHHHHHHcCchhhhHHHHHHH
Confidence 789999999999944444444443 336889999999999999976 568 999999999999999999999999999
Q ss_pred HHhh-hcCC-----CCCchhhHHHHHHHhhhcCccccccc-----cCCCCcccccchhhHHHHHHHhhcCCCCCCchHHH
Q 044890 96 MNIL-KGDA-----TIKDLNATSLHFRLLREHGHPVSTGT-----KRDGRFHDNLREDIEGLLNLFEASFLGIEGEDVLE 164 (557)
Q Consensus 96 L~~i-~~~~-----~~~dl~~~al~FRlLR~~Gy~vS~dv-----~~~g~F~~~l~~dv~gll~LyeAs~l~~~gE~iLd 164 (557)
|++| +... ...||++|||+|||||||||+||||| |++|+|++++.+||+|||||||||||+||||+|||
T Consensus 80 L~~i~~~~~~~~~~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLd 159 (542)
T cd00684 80 LDYIYRYWTERGESNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLYEASHLSFPGEDILD 159 (542)
T ss_pred HHHHHHhhcccccccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHHHHhhcCCCCcHHHH
Confidence 9999 4321 25799999999999999999999999 77899999999999999999999999999999999
Q ss_pred HHHHHhHHHHHHHhcCC-CCCcchHHHhhhhcCCcccCCchhhHHHHhhhhcCCCCCCCHHHHHHHHhhhHHHHHhhHHH
Q 044890 165 EANIFCTEHLKESLGTL-GSKIILAEQVQQSLDIPSYWRIPRIEAQNFIKLYPTDDESGPILLTLAKLDYNLVQSIHQQE 243 (557)
Q Consensus 165 ea~~ft~~~L~~~~~~~-~~~~~l~~~V~~aL~~P~~~~~~rlear~yI~~y~~~~~~n~~lLelAkldFn~~Q~~hq~E 243 (557)
||++||++||++.++++ .++++|+++|++||++|||+++||||||+||++|++++++|++||||||+|||+||++||+|
T Consensus 160 eA~~ft~~~L~~~~~~~~~~~~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~E 239 (542)
T cd00684 160 EALSFTTKHLEEKLESNWIIDPDLSGEIEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALHQEE 239 (542)
T ss_pred HHHHHHHHHHHHHhhccCCCCchHHHHHHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhHHHH
Confidence 99999999999998763 46889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHHHHHhh
Q 044890 244 LKELARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTEAVKRW 323 (557)
Q Consensus 244 l~~lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~rW 323 (557)
|+++++||+++||.+++||+|+|+++||||++|++|+|++|.+|+++||+++|+|++||+||.|||.+|++.||+||+||
T Consensus 240 l~~~~rWwk~~gL~~~l~~aRdr~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rw 319 (542)
T cd00684 240 LKILSRWWKDLDLASKLPFARDRLVECYFWAAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERW 319 (542)
T ss_pred HHHHhHHHHhcCCcccCCcccchhHHHHHHHHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhc
Confidence 99999999999998888999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhccccc
Q 044890 324 EIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSV 403 (557)
Q Consensus 324 d~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~Ss 403 (557)
|+++ ++++|+|||+||.+|++++++++.++.+.+|++++.|++++|++++++|++||+|+++||+||++|||++|++|+
T Consensus 320 d~~~-~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~ 398 (542)
T cd00684 320 DISA-IDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSI 398 (542)
T ss_pred cccc-hhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHh
Confidence 9999 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCCchHHHHHHHhcCCCHH
Q 044890 404 GSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDVAKSIQCYMIEEGISEE 483 (557)
Q Consensus 404 G~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v~n~V~cyMke~gvS~E 483 (557)
|+++++++++++| |..+|+++++|+. .+|+|+++++.++||+|||+|+++|+++|+++|+|.|||+|+|+|+|
T Consensus 399 g~~~~~~~~~~~~----g~~l~~e~~e~~~---~~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~e 471 (542)
T cd00684 399 GLGPLLLTSFLGM----GDILTEEAFEWLE---SRPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEE 471 (542)
T ss_pred hHHHHHHHHHHhc----CCCCCHHHHHHHh---ccHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHH
Confidence 9999999999999 9999999999996 66999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccC-CCCcHHHHHHHHHHhhhhhhhcc-cCCCCCCchhHHHHHHhhhhcC
Q 044890 484 EARDRIKSLIIYSWKKLNGKNLYK-SDFPESMAKMCLDMSRTAHCIFH-GDGIGTSTGVSRDRLVSLILEP 552 (557)
Q Consensus 484 eA~~~i~~~i~~~wk~ln~e~l~~-~~~p~~~~~~~ln~aR~~~~~Y~-~D~~t~~~~~~k~~i~~l~~~p 552 (557)
+|+++++++|+++||++|++++++ +++|++|+++++|++|+++++|+ +||||.|++.+|++|++||++|
T Consensus 472 eA~~~i~~~ie~~wk~ln~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 472 EAREEIKKMIEDAWKELNEEFLKPSSDVPRPIKQRFLNLARVIDVFYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 999999999999999999999998 78999999999999999999999 9999999888999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=1.4e-134 Score=1140.59 Aligned_cols=495 Identities=29% Similarity=0.448 Sum_probs=464.4
Q ss_pred HHHHHHHHHHHHHHhhh-----cchhhhhhhhHHHHHHHhCcccccHHHHHHHHHhh-hcC-----CCCCchhhHHHHHH
Q 044890 48 ANRLDELKQKAKDLFAS-----AKESTSELLKLTDSVQKLGVAYHFEEEIKEAMNIL-KGD-----ATIKDLNATSLHFR 116 (557)
Q Consensus 48 ~~~~~~lk~~v~~~l~~-----~~d~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i-~~~-----~~~~dl~~~al~FR 116 (557)
.++..+|..-+++.-++ +.+ .++++|+||+||||||+|||++||+++|+++ +.. +...|+++|||+||
T Consensus 245 ~~~~~yL~~~~~~~~g~vP~~yp~~-~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~~~~~~~~~Dl~~tAl~FR 323 (784)
T PLN02279 245 AGCLRYLRSLLQKFGNAVPTVYPLD-QYARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWLQGEEEIFLDLATCALAFR 323 (784)
T ss_pred hHHHHHHHHHHHhcCCCCCCCCccc-HHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhcccccCCCCCHHHHHHHHH
Confidence 46667777777765443 267 9999999999999999999999999999999 421 12579999999999
Q ss_pred HhhhcCccccccc----cCCCCccccc---chhhHHHHHHHhhcCCCCCCchHHHHHHHHhHHHHHHHhcCC-----CCC
Q 044890 117 LLREHGHPVSTGT----KRDGRFHDNL---REDIEGLLNLFEASFLGIEGEDVLEEANIFCTEHLKESLGTL-----GSK 184 (557)
Q Consensus 117 lLR~~Gy~vS~dv----~~~g~F~~~l---~~dv~gll~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~-----~~~ 184 (557)
|||||||+||||| .+++ |++++ .+||+||||||||||++||||+|||||+.||++||++.++++ .++
T Consensus 324 LLR~hGy~VS~dvf~~F~~~~-F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~ 402 (784)
T PLN02279 324 ILRLNGYDVSSDPLKQFAEDH-FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLR 402 (784)
T ss_pred HHHHcCCCCChhHHhhcCCCc-ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccC
Confidence 9999999999999 4445 99988 599999999999999999999999999999999999988753 257
Q ss_pred cchHHHhhhhcCCcccCCchhhHHHHhhhhcCCCCC------------CCHHHHHHHHhhhHHHHHhhHHHHHHHHHHHh
Q 044890 185 IILAEQVQQSLDIPSYWRIPRIEAQNFIKLYPTDDE------------SGPILLTLAKLDYNLVQSIHQQELKELARWWS 252 (557)
Q Consensus 185 ~~l~~~V~~aL~~P~~~~~~rlear~yI~~y~~~~~------------~n~~lLelAkldFn~~Q~~hq~El~~lsrWwk 252 (557)
++|+++|+|||++|||+++||||||+||++|++++. +|++||||||+|||+||++||+||++++|||+
T Consensus 403 ~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwk 482 (784)
T PLN02279 403 KYIKKEVEDALNFPYYANLERLANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIV 482 (784)
T ss_pred ccHHHHHHHHhcCchhcCccHHHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHH
Confidence 889999999999999999999999999999998885 89999999999999999999999999999999
Q ss_pred hhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHHHHHhhccccccccC
Q 044890 253 NLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTEAVKRWEIGAVLEEL 332 (557)
Q Consensus 253 ~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~rWd~~~~~~~L 332 (557)
++|| .++||||||++|||||++|++|||++|.+|++|||.+++++++||+||+|||.||++.||+||+|||+++.++.+
T Consensus 483 e~~L-~~L~faRdr~ve~Yf~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~l 561 (784)
T PLN02279 483 ENRL-DKLKFARQKLAYCYFSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFC 561 (784)
T ss_pred hcCC-ccCCchhhHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhC
Confidence 9999 699999999999999999999999999999999999999999999999999999999999999999998537899
Q ss_pred ChhHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHH
Q 044890 333 PEYMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHA 412 (557)
Q Consensus 333 Peymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~ 412 (557)
|+|||+||.+|+++++|++.++.+.+|+++++|++++|++++++|++||+|+.+||+||++|||+|+.+|+|++++++++
T Consensus 562 peymki~f~aL~~t~nei~~~~~~~qGr~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~ 641 (784)
T PLN02279 562 SEQVEIIFSALRSTISEIGDKAFTWQGRNVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPA 641 (784)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998877877
Q ss_pred HHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCCchHHHHHHHhc--CCCHHHHHHHHH
Q 044890 413 YILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDVAKSIQCYMIEE--GISEEEARDRIK 490 (557)
Q Consensus 413 ~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v~n~V~cyMke~--gvS~EeA~~~i~ 490 (557)
++++ |..+|+++++|+ .+|+|+++++.|+||+|||+||++|++||++ |+|+|||+|+ |+|+|||+++++
T Consensus 642 ~~~~----G~~l~eev~e~~----~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~ 712 (784)
T PLN02279 642 LYLV----GPKLSEEVVDSP----ELHKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMK 712 (784)
T ss_pred HHHh----CCCCCHHHHhCc----chhHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHH
Confidence 8878 999999999997 7999999999999999999999999999998 9999999997 899999999999
Q ss_pred HHHHHHHHHHHhhcccC--CCCcHHHHHHHHHHhhhhhhhcc-cCCCCCCchhHHHHHHhhhhcCccCC
Q 044890 491 SLIIYSWKKLNGKNLYK--SDFPESMAKMCLDMSRTAHCIFH-GDGIGTSTGVSRDRLVSLILEPIPVE 556 (557)
Q Consensus 491 ~~i~~~wk~ln~e~l~~--~~~p~~~~~~~ln~aR~~~~~Y~-~D~~t~~~~~~k~~i~~l~~~pi~~~ 556 (557)
++|+++||+||++++++ +++|++|++++||++|++++||+ +||||.+ .||++|++||++||++.
T Consensus 713 ~~Ie~~wKeLn~~~l~~~~~~vp~~~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l~ 779 (784)
T PLN02279 713 GLIESQRRELLRLVLQEKGSNVPRECKDLFWKMSKVLHLFYRKDDGFTSN--DMMSLVKSVIYEPVSLQ 779 (784)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHhhhhheeCCCCCChH--HHHHHHHHHhccCCcCC
Confidence 99999999999999964 57999999999999999999999 9999974 69999999999999863
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=3.2e-106 Score=906.13 Aligned_cols=456 Identities=23% Similarity=0.370 Sum_probs=411.2
Q ss_pred HHHHHHHHHHHHHHhhh-----cchhhhhhhhHHHHHHHhCcccccHHHHHHHHHhh-h---cCC-------CCCchhhH
Q 044890 48 ANRLDELKQKAKDLFAS-----AKESTSELLKLTDSVQKLGVAYHFEEEIKEAMNIL-K---GDA-------TIKDLNAT 111 (557)
Q Consensus 48 ~~~~~~lk~~v~~~l~~-----~~d~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i-~---~~~-------~~~dl~~~ 111 (557)
.++.++|...|++.-++ +.+ ++++||+||+||||||+|||++||+++|+++ . ..+ ...|+++|
T Consensus 285 ~~cl~YL~~~~~k~~GgVP~vyP~d-~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~T 363 (800)
T PLN02592 285 ENCLEYLNKAVQRFNGGVPNVYPVD-LFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDT 363 (800)
T ss_pred hHHHHHHHHHHHHcCCCCCCCCCCc-HHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHH
Confidence 46777888888776443 257 9999999999999999999999999999999 4 211 14799999
Q ss_pred HHHHHHhhhcCccccccc----cCCCCccccc---chhhHHHHHHHhhcCCCCCCchHHHHHHHHhHHHHHHHhcCC---
Q 044890 112 SLHFRLLREHGHPVSTGT----KRDGRFHDNL---REDIEGLLNLFEASFLGIEGEDVLEEANIFCTEHLKESLGTL--- 181 (557)
Q Consensus 112 al~FRlLR~~Gy~vS~dv----~~~g~F~~~l---~~dv~gll~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~--- 181 (557)
||+|||||||||+||||| .++|+|++.+ .+|++|||||||||||++|||.|||+|+.||++||++.+..+
T Consensus 364 ALaFRLLRqhGy~VS~DvF~~F~~~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~ 443 (800)
T PLN02592 364 AMGFRLLRLHGHQVSADVFKHFEKGGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELL 443 (800)
T ss_pred HHHHHHHHHcCCCCChHHHHhhcCCCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccc
Confidence 999999999999999999 5689998665 799999999999999999999999999999999999986421
Q ss_pred ---CCCcchHHHhhhhcCCcccCCchhhHHHHhhhhcCCCCCC-------------CHHHHHHHHhhhHHHHHhhHHHHH
Q 044890 182 ---GSKIILAEQVQQSLDIPSYWRIPRIEAQNFIKLYPTDDES-------------GPILLTLAKLDYNLVQSIHQQELK 245 (557)
Q Consensus 182 ---~~~~~l~~~V~~aL~~P~~~~~~rlear~yI~~y~~~~~~-------------n~~lLelAkldFn~~Q~~hq~El~ 245 (557)
.++++|+++|+|||++|||+++||||||+||++|++++++ |+.||||||+|||+||++||+||+
T Consensus 444 d~~~~~~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~ 523 (800)
T PLN02592 444 DKWIIMKDLPGEVGFALEIPWYASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWD 523 (800)
T ss_pred cccccCccHHHHHHHhccChhhcCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHH
Confidence 2467899999999999999999999999999999987764 999999999999999999999999
Q ss_pred HHHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHHHHH----
Q 044890 246 ELARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTEAVK---- 321 (557)
Q Consensus 246 ~lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~---- 321 (557)
+++||||++|| .++||||||++|||||++|++|||+||.+|++|||.+++++++||+||+|||+||++.||++|+
T Consensus 524 ~lsrWwke~~L-~~L~faRdr~ve~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~ 602 (800)
T PLN02592 524 NFQKWYEECNL-GEFGVSRSELLLAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYK 602 (800)
T ss_pred HHhHHHHhcCC-CcCCcchhHHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhccc
Confidence 99999999999 5999999999999999999999999999999999999999999999999999999999999996
Q ss_pred ----hhccccccccCCh------hHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 044890 322 ----RWEIGAVLEELPE------YMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPT 391 (557)
Q Consensus 322 ----rWd~~~~~~~LPe------ymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt 391 (557)
|||.+. +++||+ |||+||.||+|++|+++.++.+.||+++.+|++++|.++++ +|..+|+
T Consensus 603 ~~~~rWd~~~-~~~lp~~~~~~~~mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~--- 672 (800)
T PLN02592 603 INGRRSDHHF-NDRNMRRSGSVKTGEELVGLLLGTLNQLSLDALEAHGRDISHLLRHAWEMWLL------KWLLEGD--- 672 (800)
T ss_pred ccccccCchh-hhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc---
Confidence 899999 999988 99999999999999999999999999999999999999998 6666665
Q ss_pred HHHHhhhcccccchhHHHHHHHH-HHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCCchH
Q 044890 392 AKEYIENAWVSVGSPAAIVHAYI-LLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDVAKS 470 (557)
Q Consensus 392 ~eEYl~~~~~SsG~~~~~~~~~~-~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v~n~ 470 (557)
+|+|++.+++++++ .+ |..+|+++++ +|++.++++.+.||+||++|+++|...
T Consensus 673 ---------~s~~~~~ilv~~~~l~~----g~~lsee~l~-------~~~~~~l~~li~Rl~nDl~t~~~e~~~------ 726 (800)
T PLN02592 673 ---------GRQGEAELLVKTINLTA----GRSLSEELLA-------HPQYEQLAQLTNRICYQLGHYKKNKVH------ 726 (800)
T ss_pred ---------eeccchhhHHHHHHHhc----CCCCCHHHcc-------chhHHHHHHHHHHHHHhhhHHhhhccc------
Confidence 55677777777777 45 8899999875 578888999999999999999998841
Q ss_pred HHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHhhccc-C-CCCcHHHHHHHHHHhhhhhhhcccCCCCCCchhHHHHHHh
Q 044890 471 IQCYMIEEG-ISEEEARDRIKSLIIYSWKKLNGKNLY-K-SDFPESMAKMCLDMSRTAHCIFHGDGIGTSTGVSRDRLVS 547 (557)
Q Consensus 471 V~cyMke~g-vS~EeA~~~i~~~i~~~wk~ln~e~l~-~-~~~p~~~~~~~ln~aR~~~~~Y~~D~~t~~~~~~k~~i~~ 547 (557)
.| +++ +|.+++.+.|+..++++.+.+++ . +.+|++|++++||++| +||.. ||+.| +.|+.+|++
T Consensus 727 -------~~~~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~vp~~cK~~f~~~~k---~fy~~-~~~~~-~~~~~~i~~ 793 (800)
T PLN02592 727 -------INTYNP-EEKSKTTPSIESDMQELVQLVLQNSSDDIDPVIKQTFLMVAK---SFYYA-AYCDP-GTINYHIAK 793 (800)
T ss_pred -------CCcccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH---HHHHh-hcCCH-HHHHHHHHH
Confidence 23 455 89999999999999999999996 3 4699999999999999 45554 99998 689999999
Q ss_pred hhhcCcc
Q 044890 548 LILEPIP 554 (557)
Q Consensus 548 l~~~pi~ 554 (557)
++++||+
T Consensus 794 vl~epv~ 800 (800)
T PLN02592 794 VLFERVA 800 (800)
T ss_pred HhCCCCC
Confidence 9999985
No 4
>PF01397 Terpene_synth: Terpene synthase, N-terminal domain; InterPro: IPR001906 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 2ONH_A 2ONG_B 3P5R_A 3P5P_A 3N0F_A 3N0G_B 3PYB_A 3PYA_A 3G4F_A 3G4D_B ....
Probab=100.00 E-value=6.2e-51 Score=389.60 Aligned_cols=165 Identities=41% Similarity=0.724 Sum_probs=140.2
Q ss_pred CCccccccCCCccc------HHHHHHHHHHHHHHHHHHhhhcc-hhhhhhhhHHHHHHHhCcccccHHHHHHHHHhh-hc
Q 044890 30 WNPELIESFTTPYT------YELYANRLDELKQKAKDLFASAK-ESTSELLKLTDSVQKLGVAYHFEEEIKEAMNIL-KG 101 (557)
Q Consensus 30 W~~~f~~~~~~~~~------~~~~~~~~~~lk~~v~~~l~~~~-d~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i-~~ 101 (557)
|||+||+++++.+. .+.+.+++++||++||.|+.... | +.++|+|||+||||||+|||++||+++|+++ +.
T Consensus 1 W~d~fl~s~s~~~~~~~~~~~~~~~~~~~~Lk~~v~~~l~~~~~d-~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~ 79 (183)
T PF01397_consen 1 WGDDFLQSLSPSYTACMQSEDEKCKERAEELKEEVRNMLPASYPD-PLEKLELIDTLQRLGISYHFEDEIKEILDSIYRS 79 (183)
T ss_dssp TTHHHHHHTBHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHSSSSH-HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHT
T ss_pred CCCceecCCCCcchhccchhHHHHHHHHHHHHHHHHHHHhhcCCC-HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhh
Confidence 99999976544332 37889999999999999998754 7 9999999999999999999999999999999 42
Q ss_pred CC----CCCchhhHHHHHHHhhhcCccccccc-----cCCCCcccccchhhHHHHHHHhhcCCCCCCchHHHHHHHHhHH
Q 044890 102 DA----TIKDLNATSLHFRLLREHGHPVSTGT-----KRDGRFHDNLREDIEGLLNLFEASFLGIEGEDVLEEANIFCTE 172 (557)
Q Consensus 102 ~~----~~~dl~~~al~FRlLR~~Gy~vS~dv-----~~~g~F~~~l~~dv~gll~LyeAs~l~~~gE~iLdea~~ft~~ 172 (557)
.. ...||++|||+|||||||||+||||| |++|+|+.++.+||+|||+|||||||++|||+|||||+.||++
T Consensus 80 ~~~~~~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~ 159 (183)
T PF01397_consen 80 WDEDNEEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTK 159 (183)
T ss_dssp TTTTSHTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHH
T ss_pred ccccccccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHH
Confidence 21 13599999999999999999999999 8899999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCC-CcchHHHhhhhc
Q 044890 173 HLKESLGTLGS-KIILAEQVQQSL 195 (557)
Q Consensus 173 ~L~~~~~~~~~-~~~l~~~V~~aL 195 (557)
||++.++++.. +++|+++|+|||
T Consensus 160 ~L~~~~~~~~~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 160 HLKSLLSNLSIPDPHLAKEVKHAL 183 (183)
T ss_dssp HHHHHHTTTCTTSCHHHHHHHHHH
T ss_pred HHHHHhccCCCCcHHHHHHHHHhC
Confidence 99999986323 245999999997
No 5
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=100.00 E-value=1.6e-48 Score=393.80 Aligned_cols=269 Identities=29% Similarity=0.429 Sum_probs=248.3
Q ss_pred HHHHHHhhhHHHHHhhHHHHHHHHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhccc
Q 044890 225 LLTLAKLDYNLVQSIHQQELKELARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIY 304 (557)
Q Consensus 225 lLelAkldFn~~Q~~hq~El~~lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~f 304 (557)
||+|||+|||+||++||+|++++++||+++|+..+.+.+|+|++.++|+.++++++|+.+..|+++||+++|+|++||+|
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 68999999999999999999999999999999778887899999999999999999996666779999999999999999
Q ss_pred ccCCCHHHHHHHHHHHHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHHHHHH
Q 044890 305 DVYGSIDELELFTEAVKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGL-NTLSYIKKEWENLCTSYLVEARW 383 (557)
Q Consensus 305 D~ygt~eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~-~~~~~lk~~w~~~~~a~l~EAkW 383 (557)
|..|+.++++.|++++.||++.. ...+|+++++++.++.++++++...+.+.++. ++.++++++|.+|++++++|++|
T Consensus 81 D~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 159 (270)
T PF03936_consen 81 DDGGSAEELEALTDAVERWDPNS-GDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARW 159 (270)
T ss_dssp HTTSHHHHHHHHHHHHHHTSSGG-GGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchHHHHHHHHHHhcccccc-cccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999998866 77899999999999999999998888877554 37788999999999999999999
Q ss_pred hhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhh
Q 044890 384 FSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELK 463 (557)
Q Consensus 384 ~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~ 463 (557)
+..|++||++||++.|+.|+|+++++.+..+++ |..++++..+++. ..+.+.++++.+++|+|||.||+||++
T Consensus 160 ~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~----~~~~~~~~~~~~~---~~~~l~~~~~~~~~l~NDl~S~~KE~~ 232 (270)
T PF03936_consen 160 RERGRIPSLEEYLEMRRHTSGVYPCLALIEFAL----EFALGELPPEVLE---HPPMLRRLAADIIRLVNDLYSYKKEIA 232 (270)
T ss_dssp HHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHC----SSCHTHHHHHHHH---TTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hccCCCCCHHHHHHhccccccccHHHHHHHHhC----CCccccccHHHHH---hchHHHHHHHHHHHHhcccchhhcchh
Confidence 999999999999999999999999999988888 7767766666665 567799999999999999999999999
Q ss_pred cCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Q 044890 464 RGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLN 501 (557)
Q Consensus 464 rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln 501 (557)
+|+++|.|.|+|+++|+|.|+|++++.+|+++++++||
T Consensus 233 ~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 233 RGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp TTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999998
No 6
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=100.00 E-value=9e-46 Score=376.40 Aligned_cols=282 Identities=44% Similarity=0.799 Sum_probs=265.8
Q ss_pred hhHHHHHHHHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHH
Q 044890 239 IHQQELKELARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTE 318 (557)
Q Consensus 239 ~hq~El~~lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ 318 (557)
.||+|++++++||+++||....+++|.+...+|+|+++++|+|+.+..|+++||+++|+|++||+||.+|+.+++..+++
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 49999999999999999976655999999999999999999999899999999999999999999999999999999999
Q ss_pred HHHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhh
Q 044890 319 AVKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIEN 398 (557)
Q Consensus 319 ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~ 398 (557)
+++||+... .+.+|+++++++.++.++++++...+.+.+|+.+..++++.|.+++.++.+|++|+..|++||++||+.+
T Consensus 81 ~~~~~~~~~-~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 81 AVERWDISA-IDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHhcChhh-hhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 999999887 8889999999999999999999999998889899999999999999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHhcCCCCCCh-hHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCCchHHHHHHHh
Q 044890 399 AWVSVGSPAAIVHAYILLQLQGSNDLTE-NSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDVAKSIQCYMIE 477 (557)
Q Consensus 399 ~~~SsG~~~~~~~~~~~~~~~~g~~l~~-ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v~n~V~cyMke 477 (557)
|+.|+|+++++....+++ |..+|+ ++.+.+ .++++++.++.+++|+||++||+||+.+|+.+|+|.|||++
T Consensus 160 R~~~~g~~~~~~l~~~~~----g~~l~~~~~~~~~----~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~ 231 (284)
T cd00868 160 RRVSIGYPPLLALSFLGM----GDILPEEAFEWLP----SYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKE 231 (284)
T ss_pred ceehhhHHHHHHHHHHHc----CCCCCHHHHHHhh----hhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhc
Confidence 999999999999888888 999999 556655 79999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHhhcccC-CCCcHHHHHHHHHHhhhhhhhc
Q 044890 478 EGISEEEARDRIKSLIIYSWKKLNGKNLYK-SDFPESMAKMCLDMSRTAHCIF 529 (557)
Q Consensus 478 ~gvS~EeA~~~i~~~i~~~wk~ln~e~l~~-~~~p~~~~~~~ln~aR~~~~~Y 529 (557)
+|+|.++|++++.++++++|++|++.+... ++.|..+++.+.|.+|.....|
T Consensus 232 ~~~~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 232 YGVSEEEALEELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 999999999999999999999999999864 3678999999999999887655
No 7
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=100.00 E-value=1.6e-33 Score=290.45 Aligned_cols=244 Identities=15% Similarity=0.125 Sum_probs=215.5
Q ss_pred HHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhh-hhhhHHHHHhhhhcccccC-CCHHHHHHHHHHHHhhc
Q 044890 247 LARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRI-GLTKFVCILTAIDDIYDVY-GSIDELELFTEAVKRWE 324 (557)
Q Consensus 247 lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl-~~aK~~~l~~iiDD~fD~y-gt~eEl~~ft~ai~rWd 324 (557)
...|.++.|+.. -+.+|+++..++|+.++.++.|+++.+|+ ..|+++.|+|++||+||.. +++++++.+++.+.++.
T Consensus 19 ~~~w~~~~~l~~-~~~~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~ 97 (303)
T cd00687 19 YLEWVLEEMLIP-SEKAEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDIL 97 (303)
T ss_pred HHHHHHHcCCCC-cchhHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhcc
Confidence 456999997743 35699999999888888888999999999 6679999999999999987 59999999999888855
Q ss_pred cccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccc
Q 044890 325 IGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVG 404 (557)
Q Consensus 325 ~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG 404 (557)
.....+. |+...++..++.+++.++...+ +.....++++.|.+|+.++++|++|+.+|++||++||+++|+.|+|
T Consensus 98 ~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~----~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g 172 (303)
T cd00687 98 RGDGLDS-PDDATPLEFGLADLWRRTLARM----SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIG 172 (303)
T ss_pred CCCCCCC-CCCCCHHHHHHHHHHHHhccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhccc
Confidence 4331222 4677889999999999886443 3456789999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhh-hcCCCchHHHHHHHhcCCCHH
Q 044890 405 SPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVEL-KRGDVAKSIQCYMIEEGISEE 483 (557)
Q Consensus 405 ~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~-~rG~v~n~V~cyMke~gvS~E 483 (557)
+++++..+.+++ |..+|+++.+++ .+.+++++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|
T Consensus 173 ~~~~~~l~~~~~----g~~lp~~~~~~~----~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~ 244 (303)
T cd00687 173 ADPCLGLSEFIG----GPEVPAAVRLDP----VMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLE 244 (303)
T ss_pred ccccHHHHHHhc----CCCCCHHHHhCh----HHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHH
Confidence 999888888888 999999998876 58999999999999999999999999 899999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 044890 484 EARDRIKSLIIYSWKKLNGKN 504 (557)
Q Consensus 484 eA~~~i~~~i~~~wk~ln~e~ 504 (557)
+|++++.++++++++++.+..
T Consensus 245 eA~~~~~~~~~~~~~~f~~~~ 265 (303)
T cd00687 245 EAISVVRDMHNERITQFEELE 265 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999987754
No 8
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=7.4e-31 Score=226.17 Aligned_cols=94 Identities=31% Similarity=0.646 Sum_probs=91.3
Q ss_pred hhcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCcHHHHHHHHHHhhhhhhh-cc-cCCCCCCch
Q 044890 462 LKRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNGKNLYKSDFPESMAKMCLDMSRTAHCI-FH-GDGIGTSTG 539 (557)
Q Consensus 462 ~~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~ln~aR~~~~~-Y~-~D~~t~~~~ 539 (557)
++|||++|+|+|||||||+|+|||+++++++|+++||+||+|+++++++|.+++++++|+||+++|+ |+ +||||.++.
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~t~~~~ 80 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIKDVPRPVLVRCLNLARLIDVYCYNEGDGFTYPHG 80 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHhheecCCCCCCCCcH
Confidence 5799999999999999999999999999999999999999999999999999999999999999999 99 999998888
Q ss_pred hHHHHHHhhhhcCccC
Q 044890 540 VSRDRLVSLILEPIPV 555 (557)
Q Consensus 540 ~~k~~i~~l~~~pi~~ 555 (557)
.+|++|++||++|||+
T Consensus 81 ~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 81 KLKDLITSLFFHPLPL 96 (96)
T ss_pred HHHHHHHHHhccCCCC
Confidence 9999999999999986
No 9
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=99.84 E-value=1.4e-20 Score=182.94 Aligned_cols=229 Identities=24% Similarity=0.267 Sum_probs=182.6
Q ss_pred HHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHHHHHhhccccccccCChhHHHHHHHHHHhHHHHHH
Q 044890 273 LVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTEAVKRWEIGAVLEELPEYMQICYLAMFNFGNELAY 352 (557)
Q Consensus 273 ~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~ 352 (557)
+.+++++.|+++..|..++++.+|++++||++|..++..+.......+ . ....|..+...+..+.+.++++..
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~~ 74 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------A-IDGLPEAILAGDLLLADAFEELAR 74 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------H-hcCchHHHHHHHHHHHHHHHHHHh
Confidence 456667889888999999999999999999999888766655544333 1 234677777888888888888764
Q ss_pred HHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhh
Q 044890 353 DVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCL 432 (557)
Q Consensus 353 ~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~ 432 (557)
... +.+..++.+.|.+++.++..|+.|... ..||++||+..+..++|..+. .....++ +...++ ..+.
T Consensus 75 ~~~----~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t~~~~~-~~~~~~~----~~~~~~--~~~~ 142 (243)
T cd00385 75 EGS----PEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKTAGLVG-ALCLLGA----GLSGGE--AELL 142 (243)
T ss_pred CCC----HHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHHHH-HHHHHHH----HHhCCC--HHHH
Confidence 322 456789999999999999999999887 899999999999999855544 3344444 444454 2222
Q ss_pred hhccChhHHHHHHHHHHHHhcCccchhhhhhcC-CCchHHHHHHHhcCC------------CHHHHHHHHHHHHHHHHHH
Q 044890 433 KVEHGYDEMIYWSSLISRLSNDLGNSAVELKRG-DVAKSIQCYMIEEGI------------SEEEARDRIKSLIIYSWKK 499 (557)
Q Consensus 433 ~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG-~v~n~V~cyMke~gv------------S~EeA~~~i~~~i~~~wk~ 499 (557)
. ...++...++.+.+|.||+.|+.+|.++| +..|++.++|+++|+ +.++|++++.++++++|++
T Consensus 143 ~---~~~~~~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 219 (243)
T cd00385 143 E---ALRKLGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKE 219 (243)
T ss_pred H---HHHHHHHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHH
Confidence 2 57889999999999999999999999996 678999999999999 8899999999999999999
Q ss_pred HHhhcccCCCCcHHHHHHHHHHhh
Q 044890 500 LNGKNLYKSDFPESMAKMCLDMSR 523 (557)
Q Consensus 500 ln~e~l~~~~~p~~~~~~~ln~aR 523 (557)
+++.....+..+..+++.+.++.|
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~ 243 (243)
T cd00385 220 LNELILSLPDVPRALLALALNLYR 243 (243)
T ss_pred HhcCCCCcHHHHHHHHHHHHHHhC
Confidence 999876533456677777777654
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=97.77 E-value=0.00028 Score=74.53 Aligned_cols=195 Identities=13% Similarity=0.078 Sum_probs=116.3
Q ss_pred CCCcchh-hhhhhhHHHHHhhhhcccccCCCHHHHHHHHHHHHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHc
Q 044890 280 KAQFSKC-RIGLTKFVCILTAIDDIYDVYGSIDELELFTEAVKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIH 358 (557)
Q Consensus 280 eP~~s~~-Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~ 358 (557)
.|..+.. ++.++-..++++++||.++.. .+++..|-+-+-. ... .|. ++...+.+.+. ++.+.-
T Consensus 78 y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~----Q~~---p~L~~~~~~L~----~~~~~f 142 (376)
T PF06330_consen 78 YPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQP----QKH---PLLDGFASLLR----EMWRHF 142 (376)
T ss_dssp STTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T-------SS---HHHHHHHHHHH----HHHTTS
T ss_pred cCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CCC----CCC---HHHHHHHHHHH----HHHHHc
Confidence 3655554 668899999999999998765 4677767665543 111 111 23333333333 445556
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccCh
Q 044890 359 GLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGY 438 (557)
Q Consensus 359 ~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~ 438 (557)
|+.+-.-+.++--+++.+..-|.+.. +-.|.-..|-..-+.=+|..-..+... .|++.+.-.. .+
T Consensus 143 gpf~anmI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~Fi----------FPk~~fpe~~---~~ 207 (376)
T PF06330_consen 143 GPFCANMIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFI----------FPKALFPEVE---YF 207 (376)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT------------TTTS-TTT---TH
T ss_pred chHHHHHHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeee----------cccccCChHH---HH
Confidence 66777788888899999999898643 234544445555455555433333221 2333322121 24
Q ss_pred hHHHHHH---HHHHHHhcCccchhhhhh-cCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhhc
Q 044890 439 DEMIYWS---SLISRLSNDLGNSAVELK-RGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNGKN 504 (557)
Q Consensus 439 p~i~~~~---~~i~RL~NDI~S~~~E~~-rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~e~ 504 (557)
..++.+. ...+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|...+.+..-.+-+++.+-.
T Consensus 208 ~~y~~AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~vL 277 (376)
T PF06330_consen 208 IQYTPAIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRVL 277 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4433333 444568999999999977 78889999888888999999999998777777766665544
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=97.56 E-value=0.00052 Score=71.48 Aligned_cols=192 Identities=14% Similarity=0.082 Sum_probs=121.6
Q ss_pred cchhhh-hhhhHHHHHhhhhcccccCCCHHHHHHHHHHHHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccc
Q 044890 283 FSKCRI-GLTKFVCILTAIDDIYDVYGSIDELELFTEAVKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLN 361 (557)
Q Consensus 283 ~s~~Rl-~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~ 361 (557)
.|..=+ .++-..+.++++||.-|.. .+.++.|.+-+.. +.+ ..-| +...+.+.+..+ ..--|+.
T Consensus 81 ~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~--G~~--qkhP-----~l~~v~~~l~~~----lr~fGpF 145 (357)
T cd00686 81 VSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA--GRE--QAHP-----WWALVNEHFPNV----LRHFGPF 145 (357)
T ss_pred CCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc--CCC--CCCc-----HHHHHHHHHHHH----HHHhhhh
Confidence 555533 5677778889999997654 3466667666643 111 1122 333333333322 3344666
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHH
Q 044890 362 TLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEM 441 (557)
Q Consensus 362 ~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i 441 (557)
+..-+.++--+++.+.+-|.. ..+.-|.-.+|-...+.=+|.+-..+. ...|++.|.-.. -+..+
T Consensus 146 ~s~~IikSTLdFv~g~~iEq~--nf~~~p~A~~fP~ylR~ksGl~E~yA~----------FiFPk~~FpE~~---~~~qi 210 (357)
T cd00686 146 CSLNLIRSTLDFFEGCWIEQY--NFGGFPGSHDYPQFLRRMNGLGHCVGA----------SLWPKEQFNERS---LFLEI 210 (357)
T ss_pred hHHHHHHHHHHHHHHHHHhhh--ccCCCCCCcccchHHHhccCCcceeEE----------EecchhhCchHh---hHHHh
Confidence 667777888899999999966 344467766777766666665333221 224555443322 23444
Q ss_pred HHHHHHH---HHHhcCccchhhhhhc-CCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhhc
Q 044890 442 IYWSSLI---SRLSNDLGNSAVELKR-GDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNGKN 504 (557)
Q Consensus 442 ~~~~~~i---~RL~NDI~S~~~E~~r-G~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~e~ 504 (557)
..+...+ .-++|||.||=||.-. ++-.|.|.-|.+.+|+|..+|.+.+.+-.-.+-+++.+-+
T Consensus 211 ~~AIp~~~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~VL 277 (357)
T cd00686 211 TSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAVF 277 (357)
T ss_pred hHHHHHHHHHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444433 4588999999999854 5567889889999999999999988777777777766543
No 12
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=92.28 E-value=3 Score=42.24 Aligned_cols=202 Identities=14% Similarity=0.107 Sum_probs=107.5
Q ss_pred HHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHH----HHHHHHHHHHhhccccccccCChhHHHHHHHHH
Q 044890 269 ENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSID----ELELFTEAVKRWEIGAVLEELPEYMQICYLAMF 344 (557)
Q Consensus 269 e~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~e----El~~ft~ai~rWd~~~~~~~LPeymk~~~~al~ 344 (557)
.+|++++- +-| ...|-.+.-+-.|.-.+||+-|...... -++-+-+++...-.+. .+..|....++..++.
T Consensus 6 ~sf~~a~~--~lP--~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~-~~~~~~~~~pv~~~l~ 80 (267)
T PF00494_consen 6 RSFYLASL--LLP--KEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASY-EDSLPEPSHPVARALA 80 (267)
T ss_dssp HHHHHHHT--TS---HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-T-STHHHSSHHHHHHHHH
T ss_pred ccHHHHHH--HCC--HHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhh-hhccCCCcCHHHHHHH
Confidence 34444433 335 4455566677788888999999766433 2444555555422111 1223344456676666
Q ss_pred HhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCC
Q 044890 345 NFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDL 424 (557)
Q Consensus 345 ~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l 424 (557)
.+..... --++.+.+++.++. .+.....++|++|+......+.|....++...++. . -
T Consensus 81 ~~~~~~~-------------l~~~~l~~li~~~~---~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~----~--~ 138 (267)
T PF00494_consen 81 DLVRRYG-------------LPREPLLELIDGME---MDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGA----H--D 138 (267)
T ss_dssp HHHCCSH-------------HHHHHHHHHHHHHH---HCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHS----S--T
T ss_pred HHHHHHh-------------hhHHHHHHHHHHhc---ccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcc----c--c
Confidence 5544321 23345667777774 33444568899999999999999866666555533 2 1
Q ss_pred Ch-hHHhhhhhccChhHHHHHHHHHHHHhcCccchhhh-hhcCCC--chHHHHHHHhcCCCHHHHHHH----------HH
Q 044890 425 TE-NSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVE-LKRGDV--AKSIQCYMIEEGISEEEARDR----------IK 490 (557)
Q Consensus 425 ~~-ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E-~~rG~v--~n~V~cyMke~gvS~EeA~~~----------i~ 490 (557)
++ ++. ......+..+-+.|=+...... ..+|.+ +.- .|.++|+|.++-... +.
T Consensus 139 ~~~~~~----------~~a~~lG~alql~nilRd~~~D~~~~gR~ylP~d---~l~~~gv~~~dl~~~~~~~~~~~~~~~ 205 (267)
T PF00494_consen 139 PDEAAR----------DAARALGRALQLTNILRDIPEDALRRGRIYLPLD---DLRRFGVTPEDLLAGRPRSERLRALIR 205 (267)
T ss_dssp SHHHHH----------HHHHHHHHHHHHHHHHHTHHHH-HHTT---S-HH---HHHHTTSSHHHHHHHG-GGHHHHHHHH
T ss_pred chhhHH----------HHHHHHHHHHHHHHHHHHhHHHHHhcccccCCch---hHHHcCCCHHHHHhcccCCHHHHHHHH
Confidence 22 222 2333444444444444444555 455653 332 578899988865432 45
Q ss_pred HHHHHHHHHHHhhcccCCCC
Q 044890 491 SLIIYSWKKLNGKNLYKSDF 510 (557)
Q Consensus 491 ~~i~~~wk~ln~e~l~~~~~ 510 (557)
.+++.+...+.+..-....+
T Consensus 206 ~~~~~A~~~l~~a~~~~~~l 225 (267)
T PF00494_consen 206 ELAARARAHLDEARAGLSAL 225 (267)
T ss_dssp HHHHHHHHHHHHHHHGGGGS
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 55555555555443222345
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=90.45 E-value=6.6 Score=38.73 Aligned_cols=118 Identities=14% Similarity=0.135 Sum_probs=78.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhccc-ccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 362 TLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWV-SVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 362 ~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~-SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
....+.+....++.+...+..|... ..||.++|++.... |.+.....+....+. +. -+++..+ ...+
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~----~~-~~~~~~~------~~~~ 153 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGL----SG-ADDEQAE------ALKD 153 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHH----cC-cCHHHHH------HHHH
Confidence 4456778889999999999988654 57999999999888 655543333322222 21 2233333 3457
Q ss_pred HHHHHHHHHHHhcCccchhhhh----------hcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHh
Q 044890 441 MIYWSSLISRLSNDLGNSAVEL----------KRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNG 502 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~~E~----------~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~ 502 (557)
+.+..++..-+.||+..+.... ++|.. +...+++ .+.+.+..+.+++.+..
T Consensus 154 ~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 154 YGRALGLAFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHHHHHHHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 7788899999999998876654 45554 5555555 55666666666666544
No 14
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=86.31 E-value=36 Score=34.69 Aligned_cols=119 Identities=18% Similarity=0.207 Sum_probs=64.8
Q ss_pred HHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccC-CCHHH----HHHHHHHHHhhccccccccCChhHHHHHHHH
Q 044890 269 ENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVY-GSIDE----LELFTEAVKRWEIGAVLEELPEYMQICYLAM 343 (557)
Q Consensus 269 e~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~y-gt~eE----l~~ft~ai~rWd~~~~~~~LPeymk~~~~al 343 (557)
++|+|+.-.. | ...|-.+.-+-.|.=++||+-|.. ++.++ |+-+-+++..- ...-| -.++..+|
T Consensus 6 ~sf~~a~~~l--p--~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~-----~~g~~--~~pv~~aL 74 (266)
T TIGR03464 6 ENFPVASLLL--P--ARLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAI-----YSGEP--AAPVFVAL 74 (266)
T ss_pred CcHHHHHHhC--C--HHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHH-----hCCCC--CChHHHHH
Confidence 3455555433 3 234455555666777899999975 45443 33333333320 00011 12466677
Q ss_pred HHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHH
Q 044890 344 FNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYI 414 (557)
Q Consensus 344 ~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~ 414 (557)
..++.+. +.. ++.+.+++.++... ......+|++|+......+.|+...+++..+
T Consensus 75 ~~~~~~~--------~l~-----~~~~~~li~~~~~D---l~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~ 129 (266)
T TIGR03464 75 ARTVQRH--------GLP-----IEPFLDLLDAFRQD---VVVTRYATWAELLDYCRYSANPVGRLVLDLY 129 (266)
T ss_pred HHHHHHc--------CCC-----hHHHHHHHHHHHHh---ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHc
Confidence 6655543 211 23455666666422 2345578999999998888887555554444
No 15
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=86.06 E-value=30 Score=35.16 Aligned_cols=202 Identities=11% Similarity=0.109 Sum_probs=101.6
Q ss_pred HHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHH----HHHHHHHhhccccccccCChhHHHHHHHHHH
Q 044890 270 NYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELE----LFTEAVKRWEIGAVLEELPEYMQICYLAMFN 345 (557)
Q Consensus 270 ~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~----~ft~ai~rWd~~~~~~~LPeymk~~~~al~~ 345 (557)
+|+++.-.. | ...|-.++-+-.+.-.+||+-|..++.++-+ -+-+++..-..+ -| -.++..++.+
T Consensus 7 sF~~a~~~l--p--~~~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g-----~~--~~pv~~al~~ 75 (266)
T TIGR03465 7 SFYYGMRLL--P--PERRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAG-----AP--SHPVARALAD 75 (266)
T ss_pred cHHHHHHHC--C--HHHHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCC-----CC--CChHHHHHHH
Confidence 455554433 3 3345555667777778999999755444322 222233221101 12 1245566655
Q ss_pred hHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCC
Q 044890 346 FGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLT 425 (557)
Q Consensus 346 ~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~ 425 (557)
++... +. -++.+.+++.++.... .....+|++|+......+.|.-..+++..+ |.. +
T Consensus 76 ~~~~~--------~l-----~~~~~~~li~g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~ll------g~~-~ 132 (266)
T TIGR03465 76 PARRF--------DL-----PQEDFLEVIDGMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIF------GAT-D 132 (266)
T ss_pred HHHHc--------CC-----CHHHHHHHHHHHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHh------CCC-C
Confidence 54332 11 1244677777775333 345678999999988888886555444333 421 2
Q ss_pred hhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCC--chHHHHHHHhcCCCHH---------HHHHHHHHHHH
Q 044890 426 ENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDV--AKSIQCYMIEEGISEE---------EARDRIKSLII 494 (557)
Q Consensus 426 ~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v--~n~V~cyMke~gvS~E---------eA~~~i~~~i~ 494 (557)
+.... .....+...-|.|=+.......++|.+ +- =-|.++|+|.+ ...+-+..+++
T Consensus 133 ~~~~~----------~a~~lG~AlqltnilRdv~eD~~~gR~ylP~---~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~ 199 (266)
T TIGR03465 133 ARTLE----------YAHHLGRALQLTNILRDVGEDARRGRIYLPA---EELQRFGVPAADILEGRYSPALAALCRFQAE 199 (266)
T ss_pred hhHHH----------HHHHHHHHHHHHHHHHHhHHHHhCCCeecCH---HHHHHcCCCHHHhcCCCCCHHHHHHHHHHHH
Confidence 22222 222233333333322222333456654 22 14678898876 34455666666
Q ss_pred HHHHHHHhhcccCCCCcHHHHHHH
Q 044890 495 YSWKKLNGKNLYKSDFPESMAKMC 518 (557)
Q Consensus 495 ~~wk~ln~e~l~~~~~p~~~~~~~ 518 (557)
.+..-+.+..-....+|......+
T Consensus 200 ~A~~~l~~a~~~~~~~p~~~~~~~ 223 (266)
T TIGR03465 200 RARAHYAEADALLPACDRRAQRAA 223 (266)
T ss_pred HHHHHHHHHHHhhhhCCHhhhHHH
Confidence 666555554322245775443333
No 16
>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=83.01 E-value=38 Score=34.29 Aligned_cols=209 Identities=17% Similarity=0.197 Sum_probs=105.2
Q ss_pred HHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCH-----HHHHHHHHHHHhhccccccccCChhHHHHHHHHH
Q 044890 270 NYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSI-----DELELFTEAVKRWEIGAVLEELPEYMQICYLAMF 344 (557)
Q Consensus 270 ~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~-----eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~ 344 (557)
+|+++.-. . | ...|-.+.-+-.|.-.+||+-|..... ..|+-+-+++..-.... -|. .++..+|.
T Consensus 13 sf~~a~~~-l-p--~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~~----~~~--~pv~~al~ 82 (265)
T cd00683 13 SFYLASRL-L-P--PELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWGG----APT--HPVLRALA 82 (265)
T ss_pred cHHHHHHh-C-C--HHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcCC----CCC--ChHHHHHH
Confidence 45554432 2 4 344555556667777799999965432 23334444444311111 111 14666666
Q ss_pred HhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCC
Q 044890 345 NFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDL 424 (557)
Q Consensus 345 ~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l 424 (557)
.+..+. + --++.+.+++.++..... ....||++|.......+.|+...++...+ |..-
T Consensus 83 ~~~~~~--------~-----l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~------~~~~ 140 (265)
T cd00683 83 DLARRY--------G-----IPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVF------GASS 140 (265)
T ss_pred HHHHHc--------C-----CCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh------CCCC
Confidence 555422 1 123556777777764444 45788999888888888776544444333 3211
Q ss_pred ChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCC--chHHHHHHHhcCCCHHHH---------HHHHHHHH
Q 044890 425 TENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDV--AKSIQCYMIEEGISEEEA---------RDRIKSLI 493 (557)
Q Consensus 425 ~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v--~n~V~cyMke~gvS~EeA---------~~~i~~~i 493 (557)
+++.. ......+...-|.|=+.......++|-+ +.- -|.++|+|.++- ..-+..++
T Consensus 141 ~~~~~----------~~A~~lG~AlqltnilRdv~eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~ 207 (265)
T cd00683 141 DEAAL----------ERARALGLALQLTNILRDVGEDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLI 207 (265)
T ss_pred ChHHH----------HHHHHHHHHHHHHHHHHHHHHHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHH
Confidence 22222 2223333333333322222333455543 332 377889887653 24455566
Q ss_pred HHHHHHHHhhcccCCCCcHHHHHHHHHHhh
Q 044890 494 IYSWKKLNGKNLYKSDFPESMAKMCLDMSR 523 (557)
Q Consensus 494 ~~~wk~ln~e~l~~~~~p~~~~~~~ln~aR 523 (557)
+.+.+-+....-....+|....-.++-++.
T Consensus 208 ~~A~~~~~~a~~~~~~lp~~~~~~~~~~~~ 237 (265)
T cd00683 208 ARARAHYREALAGLAALPRRSRFCVRAAAM 237 (265)
T ss_pred HHHHHHHHHHHHhHHhCCHhhHHHHHHHHH
Confidence 666555554432224577544444444443
No 17
>PLN02890 geranyl diphosphate synthase
Probab=81.02 E-value=42 Score=36.85 Aligned_cols=91 Identities=12% Similarity=0.017 Sum_probs=62.3
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChh
Q 044890 360 LNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYD 439 (557)
Q Consensus 360 ~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p 439 (557)
..++..+.++...++.+-+.+..|.. ...+|+++|++....-+|..+..++..-++ .+| .+++..+.+ .
T Consensus 226 ~~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAi--lag--a~~~~~~~l------~ 294 (422)
T PLN02890 226 TEVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAI--LAG--QTAEVAVLA------F 294 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHH--HcC--cCHHHHHHH------H
Confidence 34667888889999999999998865 346899999997666666544333222112 112 355655533 4
Q ss_pred HHHHHHHHHHHHhcCccchhhh
Q 044890 440 EMIYWSSLISRLSNDLGNSAVE 461 (557)
Q Consensus 440 ~i~~~~~~i~RL~NDI~S~~~E 461 (557)
++-+..++..-+.||+..+.-.
T Consensus 295 ~fG~~lGlAFQI~DDiLD~~g~ 316 (422)
T PLN02890 295 EYGRNLGLAFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHHHHHHHHHhhcCC
Confidence 6778888889999999887543
No 18
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase. Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.
Probab=79.90 E-value=85 Score=33.08 Aligned_cols=88 Identities=11% Similarity=0.073 Sum_probs=58.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 361 NTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 361 ~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
.....+.+....++.+-+.+..|... ..+|.++|++.-..-+|..+..+. ..|. ..+ ..+++..+. ..+
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~~-~~~~~~~y~~~~~~KTa~L~~~~~-~~ga-~~a--g~~~~~~~~------l~~ 201 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQFD-SDLSLEDYLEKSFYKTASLVAASS-KAAA-VLS--DVPSQVAND------LYE 201 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccC-CCCCHHHHHHHHHccHHHHHHHHH-HHHH-HHc--CcCHHHHHH------HHH
Confidence 45567777888888888888776443 347999999976666665433332 2222 111 235554443 457
Q ss_pred HHHHHHHHHHHhcCccchh
Q 044890 441 MIYWSSLISRLSNDLGNSA 459 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~ 459 (557)
+-+..++..-+.||+..+.
T Consensus 202 ~G~~lG~aFQi~DDild~~ 220 (322)
T TIGR02749 202 YGKHLGLAFQVVDDILDFT 220 (322)
T ss_pred HHHHHHHHHHHHHHhccCC
Confidence 7788899999999998765
No 19
>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=79.22 E-value=44 Score=33.80 Aligned_cols=121 Identities=12% Similarity=0.054 Sum_probs=79.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 361 NTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 361 ~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
.....+.+.....+.+-..+..|... ..||.++|++....-+|.....+....++ .+| .+++..+ ...+
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~--l~~--~~~~~~~------~l~~ 176 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGAL--LAG--ADEEEAE------ALKR 176 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHH--HcC--CCHHHHH------HHHH
Confidence 45567777888899999889888654 57999999999888888765444332322 112 2344333 2467
Q ss_pred HHHHHHHHHHHhcCccchhhhh-----------hcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHh
Q 044890 441 MIYWSSLISRLSNDLGNSAVEL-----------KRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNG 502 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~~E~-----------~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~ 502 (557)
+-+..++..-+.||+..+.... +.|. .|..-+|.. .+.+...++++++.+..
T Consensus 177 ~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk-~T~~~~~~l---------~~~~~~~~~~a~~~l~~ 239 (259)
T cd00685 177 FGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGK-CTLPVLLAL---------RELAREYEEKALEALKA 239 (259)
T ss_pred HHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCC-chHHHHHHH---------HHHHHHHHHHHHHHHHc
Confidence 7788888899999987765432 2233 255545544 55677777777766654
No 20
>PLN02857 octaprenyl-diphosphate synthase
Probab=77.97 E-value=39 Score=37.01 Aligned_cols=89 Identities=12% Similarity=0.070 Sum_probs=59.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 361 NTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 361 ~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
.....+.+...+++.+-+.+..+.. +..+|.++|++....-+|..+..+.. .|. .. + ..+++..+. ..+
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~-~ga-ll-a-ga~~~~~~~------l~~ 295 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTK-SAA-IF-S-GVDSSVKEQ------MYE 295 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHH-HHH-HH-c-CCCHHHHHH------HHH
Confidence 3556777778888888877877764 44579999999877666654433322 221 01 1 245555443 457
Q ss_pred HHHHHHHHHHHhcCccchhh
Q 044890 441 MIYWSSLISRLSNDLGNSAV 460 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~~ 460 (557)
+-+..++..-+.||+..+..
T Consensus 296 fG~~LGiAFQI~DDiLD~~~ 315 (416)
T PLN02857 296 YGKNLGLAFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHHHHHHHHHhhcC
Confidence 77888888999999988753
No 21
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II. Members of this family are component II of the heterodimeric heptaprenyl diphosphate synthase. The trusted cutoff was set such that all members identified are encoded near to a recognizable gene for component I (in Pfam family pfam07307). This enzyme acts in menaquinone-7 isoprenoid side chain biosynthesis.
Probab=66.01 E-value=1.8e+02 Score=30.56 Aligned_cols=88 Identities=7% Similarity=0.088 Sum_probs=57.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 361 NTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 361 ~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
.....+.++...++.+-..+..|.. +.-+|.++|++.-..-+|..+..+ +.+|. ..+| .+++..+. ..+
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~-~~~ga-~~ag--~~~~~~~~------l~~ 197 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAAS-CQLGA-IASG--ANEAIVKK------LYW 197 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHH-HHcC--CCHHHHHH------HHH
Confidence 3456777888889999888888743 345799999998777776543332 22332 1112 24443432 356
Q ss_pred HHHHHHHHHHHhcCccchh
Q 044890 441 MIYWSSLISRLSNDLGNSA 459 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~ 459 (557)
+-+..++..-+.||+..+.
T Consensus 198 ~g~~lG~aFQI~DDilD~~ 216 (319)
T TIGR02748 198 FGYYVGMSYQITDDILDFV 216 (319)
T ss_pred HHHHHHHHHHHHHHHHHcc
Confidence 7778888899999997764
No 22
>CHL00151 preA prenyl transferase; Reviewed
Probab=65.02 E-value=1.9e+02 Score=30.46 Aligned_cols=88 Identities=14% Similarity=0.048 Sum_probs=56.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHH
Q 044890 362 TLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEM 441 (557)
Q Consensus 362 ~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i 441 (557)
....+.+....++.+-+.+..|.. ..-+|.++|+..-..-+|..+..+. .+|. ..+| .+++..+. ..++
T Consensus 135 ~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~-~~ga-~lag--~~~~~~~~------l~~~ 203 (323)
T CHL00151 135 VVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASC-KAAA-LLSD--ADEKDHND------FYLY 203 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHH-HHHH-HHcC--CCHHHHHH------HHHH
Confidence 456777888888888777766643 3457999999975555555443322 2332 1123 34444442 4577
Q ss_pred HHHHHHHHHHhcCccchhh
Q 044890 442 IYWSSLISRLSNDLGNSAV 460 (557)
Q Consensus 442 ~~~~~~i~RL~NDI~S~~~ 460 (557)
-+..++..-+.||+..+.-
T Consensus 204 G~~lG~aFQi~DDilD~~~ 222 (323)
T CHL00151 204 GKHLGLAFQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHHHHHHHHhhccc
Confidence 7888999999999988753
No 23
>PLN02632 phytoene synthase
Probab=63.25 E-value=2.1e+02 Score=30.36 Aligned_cols=193 Identities=11% Similarity=0.107 Sum_probs=93.9
Q ss_pred hhhhhhhHHHHHhhhhcccccCCCH----HHHHHHHHHHHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccc
Q 044890 286 CRIGLTKFVCILTAIDDIYDVYGSI----DELELFTEAVKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLN 361 (557)
Q Consensus 286 ~Rl~~aK~~~l~~iiDD~fD~ygt~----eEl~~ft~ai~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~ 361 (557)
.|..+.-+-.|.-.+||+=|..... ..|+.+-+++..- .+.-|. .++..++.++..+..
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 3444445666777789999965432 2233333333321 111111 145666666555432
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHH
Q 044890 362 TLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEM 441 (557)
Q Consensus 362 ~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i 441 (557)
--++.+.+++.++..... ....+|++|+......+.|.-..+++..+|. ....+ ...++ ....
T Consensus 137 ---L~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~----~~~~~-~~~~~------~~~~ 199 (334)
T PLN02632 137 ---LDIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGI----APESK-ASTES------VYNA 199 (334)
T ss_pred ---CChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCC----CCccc-cchHH------HHHH
Confidence 012345677777754332 3467899999998888888654444443432 12111 00011 1122
Q ss_pred HHHHHHHHHHhcCccchhhhhhcCCC--chHHHHHHHhcCCCHHHH---------HHHHHHHHHHHHHHHHhhcccCCCC
Q 044890 442 IYWSSLISRLSNDLGNSAVELKRGDV--AKSIQCYMIEEGISEEEA---------RDRIKSLIIYSWKKLNGKNLYKSDF 510 (557)
Q Consensus 442 ~~~~~~i~RL~NDI~S~~~E~~rG~v--~n~V~cyMke~gvS~EeA---------~~~i~~~i~~~wk~ln~e~l~~~~~ 510 (557)
....+...-|.|=+........+|-+ +- =.|.++|+|.++- ..-+..+++.+..-+.+..-.-..+
T Consensus 200 A~~lG~AlQltNILRDv~eD~~~GRvYLP~---e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~l 276 (334)
T PLN02632 200 ALALGIANQLTNILRDVGEDARRGRVYLPQ---DELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSEL 276 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCceeCCH---HHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhC
Confidence 22333333333322233344566653 22 1478899998872 2344555555554444432112346
Q ss_pred cHHHH
Q 044890 511 PESMA 515 (557)
Q Consensus 511 p~~~~ 515 (557)
|....
T Consensus 277 p~~~r 281 (334)
T PLN02632 277 DPASR 281 (334)
T ss_pred CHHhH
Confidence 66444
No 24
>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=59.67 E-value=1.6e+02 Score=31.36 Aligned_cols=108 Identities=16% Similarity=0.200 Sum_probs=61.8
Q ss_pred CCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhhhhcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Q 044890 421 SNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVELKRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKL 500 (557)
Q Consensus 421 g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E~~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~l 500 (557)
.+.++++..+.+. +--+|=| +-+-.|++=....+.....|+. |.|..|- +.+++.+.+.-.++++-+..
T Consensus 203 ~p~~t~~~a~~i~-~aYFPwI----~gLHILLDy~IDq~EDr~~GdL-NFv~YY~-----~~~~~~~Rl~~f~~~A~~~~ 271 (330)
T PF10776_consen 203 DPDLTPEDAEKIK-DAYFPWI----CGLHILLDYFIDQEEDREGGDL-NFVFYYP-----DEEEMEERLKYFVEKALEQA 271 (330)
T ss_pred CCCCCHHHHHHHH-HcccHHH----HHHHHHHHHHhhhHhHhcCCCc-eeeeeCC-----CHHHHHHHHHHHHHHHHHHH
Confidence 6678888777663 1113433 3344444444444555556665 9887443 88999999999999998776
Q ss_pred HhhcccCCCCcHHHHHHHHHHhhhhhhhcc-cCCCCCCchhHHHHHHhhh
Q 044890 501 NGKNLYKSDFPESMAKMCLDMSRTAHCIFH-GDGIGTSTGVSRDRLVSLI 549 (557)
Q Consensus 501 n~e~l~~~~~p~~~~~~~ln~aR~~~~~Y~-~D~~t~~~~~~k~~i~~l~ 549 (557)
.+ +|.+--.+. +.|.+--||- ++.-..+ ..++..-+.|+
T Consensus 272 ~~-------Lp~~~fHr~--iv~GLla~YLSD~K~~~~-~~~~~~ak~Ll 311 (330)
T PF10776_consen 272 SR-------LPYPKFHRM--IVRGLLAMYLSDPKVRSQ-PNVRPVAKRLL 311 (330)
T ss_pred Hh-------CCCchHHHH--HHHHHHHHHhCCHhhccc-hhhHHHHHHHH
Confidence 54 555322222 2344556787 4432222 23344444443
No 25
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=59.50 E-value=2.3e+02 Score=29.76 Aligned_cols=109 Identities=14% Similarity=0.135 Sum_probs=74.1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChh
Q 044890 360 LNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYD 439 (557)
Q Consensus 360 ~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p 439 (557)
......+.+....++.+-+.+..+.... +|.++|+++-..=+|..+..+...-++ .+| .+++..+.+ .
T Consensus 133 ~~~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~--la~--~~~~~~~~l------~ 200 (322)
T COG0142 133 LEAIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAI--LAG--ADEELLEAL------E 200 (322)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHH--HcC--CCHHHHHHH------H
Confidence 3456778888999999999888887666 999999999777777655444332222 012 235555543 5
Q ss_pred HHHHHHHHHHHHhcCccchhhhhh-cCCC---------chHHHHHHHhcCC
Q 044890 440 EMIYWSSLISRLSNDLGNSAVELK-RGDV---------AKSIQCYMIEEGI 480 (557)
Q Consensus 440 ~i~~~~~~i~RL~NDI~S~~~E~~-rG~v---------~n~V~cyMke~gv 480 (557)
.+-+..++..-+.|||..+.-+.+ -|.. .++..+|.-+.+-
T Consensus 201 ~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~ 251 (322)
T COG0142 201 DYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKAN 251 (322)
T ss_pred HHHHHhhHHHHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCc
Confidence 778888999999999988876422 2332 4677777766543
No 26
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=54.67 E-value=11 Score=35.74 Aligned_cols=30 Identities=20% Similarity=0.533 Sum_probs=26.1
Q ss_pred hcCCCchHHHHHHHhc-CCCHHHHHHHHHHH
Q 044890 463 KRGDVAKSIQCYMIEE-GISEEEARDRIKSL 492 (557)
Q Consensus 463 ~rG~v~n~V~cyMke~-gvS~EeA~~~i~~~ 492 (557)
.||..+..|.||+-++ |.|.++|.++++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~i 149 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKI 149 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhc
Confidence 4677789999998887 99999999999883
No 27
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=54.06 E-value=2.9e+02 Score=29.12 Aligned_cols=89 Identities=10% Similarity=0.064 Sum_probs=59.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhH
Q 044890 361 NTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDE 440 (557)
Q Consensus 361 ~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~ 440 (557)
.....+.++...++.+-..+..|.. +.-+|.++|++....-+|..+..+ +.+|. ..+| .+++..+ ....
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~-~~~ga-~lag--~~~~~~~------~l~~ 198 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAA-AQCSG-ILAG--CTPEQEK------GLQD 198 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHH-HHHHH-HHcC--CCHHHHH------HHHH
Confidence 4556777888888898888887754 345899999998777777654333 22332 1123 3444433 2457
Q ss_pred HHHHHHHHHHHhcCccchhh
Q 044890 441 MIYWSSLISRLSNDLGNSAV 460 (557)
Q Consensus 441 i~~~~~~i~RL~NDI~S~~~ 460 (557)
+-+..++..-+.||+..+..
T Consensus 199 ~g~~lG~aFQi~DD~ld~~~ 218 (323)
T PRK10888 199 YGRYLGTAFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHHHHHHHHhhcccC
Confidence 77888888999999988753
No 28
>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=48.67 E-value=19 Score=27.65 Aligned_cols=29 Identities=21% Similarity=0.287 Sum_probs=22.2
Q ss_pred CCchHHHHHHHhcCCCHHHHHHHHHHHHH
Q 044890 466 DVAKSIQCYMIEEGISEEEARDRIKSLII 494 (557)
Q Consensus 466 ~v~n~V~cyMke~gvS~EeA~~~i~~~i~ 494 (557)
-+.-++.+.|..+|+|+++|.+.+++.-.
T Consensus 14 ~I~~AkgiLm~~~g~~e~~A~~~Lr~~Am 42 (56)
T PF03861_consen 14 VIEQAKGILMARYGLSEDEAYRLLRRQAM 42 (56)
T ss_dssp HHHHHHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 34567888999999999999999988654
No 29
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=44.57 E-value=18 Score=35.31 Aligned_cols=45 Identities=22% Similarity=0.301 Sum_probs=30.0
Q ss_pred HHhcCccchhhhhhc-CCCchHHHHHHHhcCCCHHHHHHHHHHHHH
Q 044890 450 RLSNDLGNSAVELKR-GDVAKSIQCYMIEEGISEEEARDRIKSLII 494 (557)
Q Consensus 450 RL~NDI~S~~~E~~r-G~v~n~V~cyMke~gvS~EeA~~~i~~~i~ 494 (557)
.|--++..+++..+. .-+.-+=.+.|+.+|+|++||.++++++-=
T Consensus 129 ~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM 174 (194)
T COG3707 129 ALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAM 174 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 344455555555432 223444457999999999999999998643
No 30
>COG5123 TOA2 Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=43.73 E-value=9.2 Score=33.20 Aligned_cols=43 Identities=28% Similarity=0.370 Sum_probs=30.2
Q ss_pred hHHHHHHHhhcCCCCCCchHHHHHHHHhHHHHHHHhcCCCCCcchHHHhhhhcC
Q 044890 143 IEGLLNLFEASFLGIEGEDVLEEANIFCTEHLKESLGTLGSKIILAEQVQQSLD 196 (557)
Q Consensus 143 v~gll~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~~~~~~l~~~V~~aL~ 196 (557)
+.|+++|||-|-++--=|++||+- .+.|.++|+|+..|-...+
T Consensus 1 v~~yYElYRrs~ig~~L~dalD~l-----------is~g~isp~lam~vLetFD 43 (113)
T COG5123 1 VPGYYELYRRSMIGKVLEDALDEL-----------ISAGVISPNLAMHVLETFD 43 (113)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHH-----------HhcCCcCHHHHHHHHHHhh
Confidence 468999999998875555665554 3455688888877765544
No 31
>PRK10581 geranyltranstransferase; Provisional
Probab=33.53 E-value=5.1e+02 Score=26.97 Aligned_cols=114 Identities=12% Similarity=0.099 Sum_probs=70.2
Q ss_pred HHHHHHHHHHHHHhhcCCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHH
Q 044890 371 ENLCTSYLVEARWFSKGYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISR 450 (557)
Q Consensus 371 ~~~~~a~l~EAkW~~~g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~R 450 (557)
..++.+-..+..|.. ..+|.++|++.-..=+|..+..+ +.+|. ..+|. -+++..+. ..++-+..++..-
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~-~~~ga-ilag~-~~~~~~~~------l~~~g~~lG~aFQ 220 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAA-VRLGA-LSAGD-KGRRALPV------LDRYAESIGLAFQ 220 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHH-HHHHH-HHcCC-CcHHHHHH------HHHHHHHHHHHHH
Confidence 456777777777743 46899999987665555443322 22332 11232 12233443 4577888889999
Q ss_pred HhcCccchhhh-h----------hcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHh
Q 044890 451 LSNDLGNSAVE-L----------KRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKLNG 502 (557)
Q Consensus 451 L~NDI~S~~~E-~----------~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~ln~ 502 (557)
+.||+..+... . +.|. .+.+.+| ..|.|.+.+++.++.+.+.+..
T Consensus 221 I~DDilD~~g~~~~~GK~~g~Dl~~gk-~T~p~l~------~~e~a~~~a~~~~~~A~~~l~~ 276 (299)
T PRK10581 221 VQDDILDVVGDTATLGKRQGADQQLGK-STYPALL------GLEQARKKARDLIDDARQSLDQ 276 (299)
T ss_pred HHHHHccccCChHHHCCCcchhhhcCC-CCHHHHH------HHHHHHHHHHHHHHHHHHHHHh
Confidence 99999887432 1 2232 2554444 2478888889999988877665
No 32
>smart00400 ZnF_CHCC zinc finger.
Probab=32.20 E-value=53 Score=25.03 Aligned_cols=25 Identities=24% Similarity=0.228 Sum_probs=20.8
Q ss_pred CCCchHHHHHHHhcCCCHHHHHHHH
Q 044890 465 GDVAKSIQCYMIEEGISEEEARDRI 489 (557)
Q Consensus 465 G~v~n~V~cyMke~gvS~EeA~~~i 489 (557)
|.-.+.|..||+-+|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 3445789999999999999999875
No 33
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=29.79 E-value=43 Score=22.52 Aligned_cols=18 Identities=44% Similarity=0.756 Sum_probs=14.6
Q ss_pred HHHHhcCCCHHHHHHHHH
Q 044890 473 CYMIEEGISEEEARDRIK 490 (557)
Q Consensus 473 cyMke~gvS~EeA~~~i~ 490 (557)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 599999999999766554
No 34
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=28.48 E-value=58 Score=29.51 Aligned_cols=23 Identities=30% Similarity=0.458 Sum_probs=19.4
Q ss_pred hHHHHHHHhcCCCHHHHHHHHHH
Q 044890 469 KSIQCYMIEEGISEEEARDRIKS 491 (557)
Q Consensus 469 n~V~cyMke~gvS~EeA~~~i~~ 491 (557)
-=|.+.|.|.|+|.|+|++.+.+
T Consensus 86 eDIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 86 EDIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHH
Confidence 34889999999999999987754
No 35
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=27.96 E-value=5.3e+02 Score=26.29 Aligned_cols=125 Identities=20% Similarity=0.211 Sum_probs=65.5
Q ss_pred hHHHHHHHHHHHhhhCCccchhHHHhhHHHHHHHHhccccCCCcchhhhhhhhHHHHHhhhhcccccCCCHHHHHHHHHH
Q 044890 240 HQQELKELARWWSNLGFKEKLSFARDRLMENYLLVMGLCFKAQFSKCRIGLTKFVCILTAIDDIYDVYGSIDELELFTEA 319 (557)
Q Consensus 240 hq~El~~lsrWwk~~~l~~~l~faRdR~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~iiDD~fD~ygt~eEl~~ft~a 319 (557)
-+.|+....+|+.+ |- .-+| ++++.|.-.+. +-++-+..+.-. -+||.+=.+ +..|..|
T Consensus 7 ~~~e~~~~~~~~~~-g~----~~~~-~Li~~ylpLV~-------~ia~k~~~r~~~---~~dDLiqiG-----~iGLi~A 65 (247)
T COG1191 7 SKEEEEKLLEYYAE-GD----EEAR-RLIERYLPLVK-------SIARKFENRGPS---EYDDLIQIG-----MIGLIKA 65 (247)
T ss_pred chHHHHHHHHHHHh-cC----HHHH-HHHHHHHHHHH-------HHHHHHHhcCCC---chhHHHHHH-----HHHHHHH
Confidence 35677777888887 33 2378 89999887665 222222211111 567766433 3458899
Q ss_pred HHhhccccccccCChhHHHHHHHHHHhHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHH
Q 044890 320 VKRWEIGAVLEELPEYMQICYLAMFNFGNELAYDVMKIHGLNTLSYIKKEWENLCTSYLVEARWFSKGYTPTAKE 394 (557)
Q Consensus 320 i~rWd~~~~~~~LPeymk~~~~al~~~~~ei~~~~~~~~~~~~~~~lk~~w~~~~~a~l~EAkW~~~g~vPt~eE 394 (557)
|+|.|++- -....-|..++ +-.+|-..+.+.. +-++++-...-..-......+-. ..-|.-||.+|
T Consensus 66 ieryd~~k-g~kF~tyA~~~------I~Gei~d~LR~~~-~v~vpR~~~~~~~~i~~~~~~l~-~el~r~pt~~E 131 (247)
T COG1191 66 IERYDPSK-GTKFSTYAVRR------IRGEILDYLRKND-SVKVPRSLRELGRRIEEAIDELE-QELGREPTDEE 131 (247)
T ss_pred HHHcCccc-CcchHHHHHHH------HHHHHHHHHHhCC-CccCcHHHHHHHHHHHHHHHHHH-HHhCCCCcHHH
Confidence 99999865 33344443333 3344433333333 22333333333333334444433 23467787665
No 36
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=26.69 E-value=6.6e+02 Score=25.20 Aligned_cols=65 Identities=18% Similarity=0.213 Sum_probs=43.5
Q ss_pred CCCCCHHHHhhhcccccchhHHHHHHHHHHHhcCCCCCChhHHhhhhhccChhHHHHHHHHHHHHhcCccchhhh
Q 044890 387 GYTPTAKEYIENAWVSVGSPAAIVHAYILLQLQGSNDLTENSLSCLKVEHGYDEMIYWSSLISRLSNDLGNSAVE 461 (557)
Q Consensus 387 g~vPt~eEYl~~~~~SsG~~~~~~~~~~~~~~~~g~~l~~ev~e~~~~~~~~p~i~~~~~~i~RL~NDI~S~~~E 461 (557)
+..+|.++|++.-..-+|..+.++.. +|. ..+| .+++..+. ..++-...++..-+.||+..+...
T Consensus 130 ~~~~~~~~y~~i~~~KTg~l~~~~~~-~ga-~lag--~~~~~~~~------l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 130 DKDPTEEEYLEIIRLKTGSLFALACQ-LGA-ILAG--ADEEQIEA------LREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TSSTSHHHHHHHHHHHTHHHHHHHHH-HHH-HHTT--SGHHHHHH------HHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred cccccHHHHHHHHhhcchHHHHHHHH-HHH-Hhcc--chhHHHHH------HHHHHHHHHHHHhhhhhhhhccCc
Confidence 34889999999988888876443332 322 1123 23444443 467888889999999999877653
No 37
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=25.68 E-value=1.1e+02 Score=31.38 Aligned_cols=63 Identities=21% Similarity=0.207 Sum_probs=48.5
Q ss_pred hhhhhhcCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH----------HhhcccCCCCcHHHHHHHHHHhh
Q 044890 458 SAVELKRGDVAKSIQCYMIEEGISEEEARDRIKSLIIYSWKKL----------NGKNLYKSDFPESMAKMCLDMSR 523 (557)
Q Consensus 458 ~~~E~~rG~v~n~V~cyMke~gvS~EeA~~~i~~~i~~~wk~l----------n~e~l~~~~~p~~~~~~~ln~aR 523 (557)
+++|++ .++.++..+...|.+.++|...++--+++.|-++ +.+.|.+.++|...+..+.++||
T Consensus 97 wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~a~ 169 (269)
T COG1093 97 WKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHHHH
Confidence 456665 4688999999999999999999988887766443 33445555788889999999887
No 38
>KOG3463 consensus Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=24.88 E-value=34 Score=30.13 Aligned_cols=39 Identities=21% Similarity=0.225 Sum_probs=25.6
Q ss_pred HHHHHhhcCCCCCCchHHHHHHHHhHHHHHHHhcCCCCCcchHHHhhhhc
Q 044890 146 LLNLFEASFLGIEGEDVLEEANIFCTEHLKESLGTLGSKIILAEQVQQSL 195 (557)
Q Consensus 146 ll~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~~~~~~l~~~V~~aL 195 (557)
+++|||.+-++-.=+++||| +.+.|.|+|+|+.+|-...
T Consensus 3 ~YelYR~ttlG~~L~~tLDe-----------~v~~g~itp~la~~VL~~F 41 (109)
T KOG3463|consen 3 YYELYRRTTLGNALQKTLDE-----------LVSDGVITPSLAKKVLEQF 41 (109)
T ss_pred HHHHHHHhhHHHHHHHHHHH-----------HHHcCCCCHHHHHHHHHHH
Confidence 58999999888554555554 4445557777777664433
No 39
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=24.57 E-value=2.9e+02 Score=23.13 Aligned_cols=76 Identities=14% Similarity=0.128 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHhhhcchhhhhhhhHHHHHHHhCcccccHHHHHHHHHhh-hcCCCCCch--hhHHHHHHHhhhcCcccc
Q 044890 50 RLDELKQKAKDLFASAKESTSELLKLTDSVQKLGVAYHFEEEIKEAMNIL-KGDATIKDL--NATSLHFRLLREHGHPVS 126 (557)
Q Consensus 50 ~~~~lk~~v~~~l~~~~d~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i-~~~~~~~dl--~~~al~FRlLR~~Gy~vS 126 (557)
+++.+++..+.+-..... ....-.+...+.++|++ ++|+++++..+ .+.+..-|+ .-..|..---.+.|++++
T Consensus 8 ~~~~l~~~F~~~D~d~~G-~Is~~el~~~l~~~~~~---~~ev~~i~~~~d~~~~g~I~~~eF~~~~~~~~~~~~g~~~~ 83 (96)
T smart00027 8 DKAKYEQIFRSLDKNQDG-TVTGAQAKPILLKSGLP---QTLLAKIWNLADIDNDGELDKDEFALAMHLIYRKLNGYPIP 83 (96)
T ss_pred HHHHHHHHHHHhCCCCCC-eEeHHHHHHHHHHcCCC---HHHHHHHHHHhcCCCCCCcCHHHHHHHHHHHHHHHcCCCCC
Confidence 444565555544332222 34445566667788875 57898888877 222212222 234455555567799999
Q ss_pred ccc
Q 044890 127 TGT 129 (557)
Q Consensus 127 ~dv 129 (557)
+..
T Consensus 84 ~~~ 86 (96)
T smart00027 84 ASL 86 (96)
T ss_pred ccC
Confidence 853
No 40
>smart00463 SMR Small MutS-related domain.
Probab=24.44 E-value=88 Score=25.45 Aligned_cols=23 Identities=22% Similarity=0.240 Sum_probs=20.7
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHH
Q 044890 478 EGISEEEARDRIKSLIIYSWKKL 500 (557)
Q Consensus 478 ~gvS~EeA~~~i~~~i~~~wk~l 500 (557)
||++.++|+..+...++++++.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 69999999999999999888753
No 41
>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=21.47 E-value=93 Score=25.51 Aligned_cols=24 Identities=17% Similarity=0.209 Sum_probs=20.2
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHH
Q 044890 478 EGISEEEARDRIKSLIIYSWKKLN 501 (557)
Q Consensus 478 ~gvS~EeA~~~i~~~i~~~wk~ln 501 (557)
||++.++|+..+...+..+++.-.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~ 27 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGI 27 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTH
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCC
Confidence 699999999999999999986544
No 42
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=20.66 E-value=1.1e+02 Score=29.13 Aligned_cols=34 Identities=26% Similarity=0.290 Sum_probs=25.0
Q ss_pred HHHHhcCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCcHH
Q 044890 473 CYMIEEGISEEEARDRIKSLIIYSWKKLNGKNLYKSDFPES 513 (557)
Q Consensus 473 cyMke~gvS~EeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~ 513 (557)
.-|++.|.|..+ |++.|++.||+ .+.+|++-|+|
T Consensus 125 ~~~~~~Gks~~e----IR~~ID~kYk~---g~~~pTpTp~P 158 (158)
T PF13798_consen 125 VQMYQEGKSPKE----IRQYIDEKYKE---GYAKPTPTPMP 158 (158)
T ss_pred HHHHHcCCCHHH----HHHHHHHHHHh---CCCCCCCCCCC
Confidence 457778887655 99999999974 47777766653
Done!