Query 041926
Match_columns 483
No_of_seqs 217 out of 881
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 12:10:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041926.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041926hhsearch_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 1E-141 2E-146 1149.2 43.8 472 5-480 50-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 2E-135 5E-140 1121.6 42.5 468 5-483 267-778 (784)
3 PLN02592 ent-copalyl diphospha 100.0 3E-110 6E-115 918.6 40.8 449 6-482 308-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 2.6E-50 5.6E-55 376.6 12.2 138 6-146 44-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 3.1E-44 6.8E-49 355.0 18.1 252 176-428 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 5.3E-42 1.2E-46 341.5 27.1 266 190-456 1-284 (284)
7 PLN02150 terpene synthase/cycl 100.0 9.4E-32 2E-36 226.3 10.4 95 389-483 1-96 (96)
8 cd00687 Terpene_cyclase_nonpla 100.0 5.8E-30 1.3E-34 258.4 17.2 234 196-432 17-266 (303)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.7 1E-17 2.2E-22 159.6 10.1 217 225-450 2-243 (243)
10 cd00686 Terpene_cyclase_cis_tr 96.8 0.018 3.9E-07 58.8 12.7 205 233-451 79-294 (357)
11 PF06330 TRI5: Trichodiene syn 96.7 0.0087 1.9E-07 61.9 9.6 192 224-431 71-277 (376)
12 PF00494 SQS_PSY: Squalene/phy 85.0 25 0.00054 34.6 14.0 196 236-444 17-233 (267)
13 cd00867 Trans_IPPS Trans-Isopr 82.9 21 0.00046 34.2 12.2 93 322-429 111-214 (236)
14 TIGR03465 HpnD squalene syntha 81.5 58 0.0013 32.2 15.2 201 222-448 7-226 (266)
15 TIGR03464 HpnC squalene syntha 81.3 50 0.0011 32.8 14.5 199 222-448 7-227 (266)
16 cd00683 Trans_IPPS_HH Trans-Is 76.1 72 0.0016 31.5 13.8 193 236-451 23-238 (265)
17 KOG1719 Dual specificity phosp 66.0 5 0.00011 36.9 2.6 29 390-418 119-148 (183)
18 COG3707 AmiR Response regulato 53.4 12 0.00025 35.7 2.8 44 377-420 129-173 (194)
19 PF03861 ANTAR: ANTAR domain; 51.5 15 0.00032 27.5 2.7 28 394-421 15-42 (56)
20 PLN02632 phytoene synthase 46.3 3.5E+02 0.0076 27.9 15.1 188 238-442 74-281 (334)
21 PF12368 DUF3650: Protein of u 40.7 22 0.00048 23.1 1.7 18 400-417 9-26 (28)
22 TIGR02749 prenyl_cyano solanes 36.1 3.1E+02 0.0068 28.1 10.4 62 322-386 159-220 (322)
23 PF10776 DUF2600: Protein of u 31.4 6.1E+02 0.013 26.3 12.7 138 321-477 174-311 (330)
24 COG1308 EGD2 Transcription fac 29.0 55 0.0012 28.9 2.9 21 398-418 88-108 (122)
25 KOG3951 Uncharacterized conser 28.5 89 0.0019 31.1 4.5 57 82-147 264-320 (321)
26 smart00463 SMR Small MutS-rela 28.0 67 0.0015 25.5 3.1 24 405-428 7-30 (80)
27 PLN02857 octaprenyl-diphosphat 27.5 2.5E+02 0.0054 30.1 8.2 62 321-387 252-315 (416)
28 COG1093 SUI2 Translation initi 25.1 1.1E+02 0.0023 30.7 4.5 65 384-451 96-170 (269)
29 PF01713 Smr: Smr domain; Int 24.5 77 0.0017 25.3 2.9 27 405-431 4-30 (83)
30 KOG3887 Predicted small GTPase 24.5 1.5E+02 0.0033 29.6 5.3 172 230-410 88-314 (347)
31 PF13798 PCYCGC: Protein of un 24.0 86 0.0019 28.9 3.3 34 400-440 125-158 (158)
32 smart00400 ZnF_CHCC zinc finge 23.8 88 0.0019 23.1 2.9 23 394-416 32-54 (55)
33 PF03701 UPF0181: Uncharacteri 23.3 1.2E+02 0.0025 22.6 3.3 45 379-425 2-46 (51)
34 PF11848 DUF3368: Domain of un 23.1 45 0.00098 24.2 1.1 21 61-81 24-44 (48)
35 COG3140 Uncharacterized protei 23.0 60 0.0013 24.5 1.7 48 380-429 3-50 (60)
36 cd00685 Trans_IPPS_HT Trans-Is 22.7 2.8E+02 0.0062 27.1 7.2 95 322-429 134-239 (259)
37 PLN02890 geranyl diphosphate s 22.1 4.7E+02 0.01 28.1 9.0 65 321-388 252-316 (422)
38 PF00348 polyprenyl_synt: Poly 21.2 3E+02 0.0066 27.0 7.0 65 321-388 130-194 (260)
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=1.1e-141 Score=1149.18 Aligned_cols=472 Identities=53% Similarity=0.905 Sum_probs=452.6
Q ss_pred CCCccchhhhhHHHHHhCCccccHHHHHHHHHHHHhhcCCCccccCCCCChhHHHHHHHHhhcCCccccccccccccccc
Q 041926 5 DNKPSRTLELIDAIQRLGVSYHFESEIDEILGRVHQAYQDSDLCVNENDGLYYISLQFRLLRGNGYRISADVFNKFRDID 84 (483)
Q Consensus 5 ~~d~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~i~~~~~~~dl~~~al~FRLLR~hGy~vs~dvf~~F~d~~ 84 (483)
+.|++++|++||+||||||+|||++||+++|++||++|.+.. . ....||++|||+|||||||||+||||||++|+|++
T Consensus 50 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~~-~-~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~ 127 (542)
T cd00684 50 PVDLFERLWLIDRLQRLGISYHFEDEIKEILDYIYRYWTERG-E-SNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDED 127 (542)
T ss_pred CCCHHHHHHHHHHHHHcCchhhhHHHHHHHHHHHHHhhcccc-c-ccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCC
Confidence 568999999999999999999999999999999999984410 1 13579999999999999999999999999999999
Q ss_pred cccccccccchhhHhhHHhhhccCCCCchHHHHHHHHHHHHHHhHhhh---cCCCchHHHHHHhcCCCccCCchhhHHhh
Q 041926 85 GNFKPSLAKDVRGMLSLYEATHLRVHEENILDEAHAFATSHLESIATH---QISSPLAEQVKHALFQPIHKGVQRLEARH 161 (483)
Q Consensus 85 g~F~~~~~~dv~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~---~~~~~l~~~V~~aL~~P~~~~~~r~e~r~ 161 (483)
|+|++++.+||+||||||||||+++|||+|||||++||++||++++++ + +++|+++|++||++|||+++||+|||+
T Consensus 128 g~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLdeA~~ft~~~L~~~~~~~~~~-~~~l~~~V~~aL~~P~~~~~~rlear~ 206 (542)
T cd00684 128 GKFKESLTQDVKGMLSLYEASHLSFPGEDILDEALSFTTKHLEEKLESNWII-DPDLSGEIEYALEIPLHASLPRLEARW 206 (542)
T ss_pred CCcCchhhhhhHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHHhhccCCC-CchHHHHHHHHccCchhcCCchHHHHH
Confidence 999999999999999999999999999999999999999999999986 5 889999999999999999999999999
Q ss_pred hhhhcCCCCcCcHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHhhhccCCCcchhHHH
Q 041926 162 YISIYPEESSHNEALLTFAKLDFNKLQKLHQKELSDISKWWKELDFAHNLPFTIRDRIAECYFWAVAVYFEPQYSLGRRL 241 (483)
Q Consensus 162 yI~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~l~rWwk~~~l~~~l~f~aRdr~ve~yfw~~a~~feP~~s~~Ri~ 241 (483)
||++|++++++|++||||||+|||+||++||+||+++++||+++||.+++|| +|+|+++||||++|++|+|++|.+|++
T Consensus 207 yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~gL~~~l~~-aRdr~ve~yf~~~a~~feP~~s~~Rl~ 285 (542)
T cd00684 207 YIEFYEQEDDHNETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPF-ARDRLVECYFWAAGTYFEPQYSLARIA 285 (542)
T ss_pred HHHHhCCCccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhcCCcccCCc-ccchhHHHHHHHHhcccCccchHHHHH
Confidence 9999999999999999999999999999999999999999999999988899 999999999999999999999999999
Q ss_pred HHhhhhhhhhccccccccCCHHHHHHHHHhcccccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHh-
Q 041926 242 LAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDICAIDELPEYMKLCYRALLDVYSEAEKDLASQGKLYHLHYAKEA- 320 (483)
Q Consensus 242 ~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~~~~~~~~~~~l~e~- 320 (483)
+||+++|+|++||+||.|||.+|++.||+||+|||.++++++|+|||+||.+|++++++++..+.++++.+.+.+++++
T Consensus 286 ~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~ 365 (542)
T cd00684 286 LAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAW 365 (542)
T ss_pred HHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999888877776666655554
Q ss_pred ----------------CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccc
Q 041926 321 ----------------NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVS 384 (483)
Q Consensus 321 ----------------g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S 384 (483)
||+||++|||++|.+|+|++++++++++++|+.+|+++++|+..+|+|+++++.++||+|||+|
T Consensus 366 ~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S 445 (542)
T cd00684 366 KDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLMNDIAT 445 (542)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhh
Confidence 9999999999999999999999999999999999999999977779999999999999999999
Q ss_pred hhhhhhcCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHHHhhhhhhcccCCCCC
Q 041926 385 HKFEQSRGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNEECLRP-TVVPMPLLMRILNLTRFLDVVYRFEDGYT 463 (483)
Q Consensus 385 ~~~E~~~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~e~l~~-~~~p~~~~~~~~n~aR~~~~~Y~~~D~~t 463 (483)
+++|+++|+++|+|.|||+|+|+|+|+|++++++||+++||++|++++++ +++|++|+++++|+||+++++|+++||||
T Consensus 446 ~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t 525 (542)
T cd00684 446 YEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKPSSDVPRPIKQRFLNLARVIDVFYKEGDGFT 525 (542)
T ss_pred hHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 99999999999999999999999999999999999999999999999987 78999999999999999999999999999
Q ss_pred CCchhHHHHHHhhhccc
Q 041926 464 HSAVVLKDFVASLLINP 480 (483)
Q Consensus 464 ~~~~~~k~~i~~ll~~p 480 (483)
.|+..+|++|++||++|
T Consensus 526 ~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 526 HPEGEIKDHITSLLFEP 542 (542)
T ss_pred CccHHHHHHHHHHhcCC
Confidence 99878999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=2.4e-135 Score=1121.65 Aligned_cols=468 Identities=28% Similarity=0.434 Sum_probs=439.8
Q ss_pred CCCccchhhhhHHHHHhCCccccHHHHHHHHHHHHhhcCCCccccCCCCChhHHHHHHHHhhcCCccccccccccccccc
Q 041926 5 DNKPSRTLELIDAIQRLGVSYHFESEIDEILGRVHQAYQDSDLCVNENDGLYYISLQFRLLRGNGYRISADVFNKFRDID 84 (483)
Q Consensus 5 ~~d~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~i~~~~~~~dl~~~al~FRLLR~hGy~vs~dvf~~F~d~~ 84 (483)
..+.++++|+||+||||||+|||++||+++|+++|+.|.++ ..+...|+++|||+|||||||||+||||||++|+|+
T Consensus 267 p~~~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~~~--~~~~~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~- 343 (784)
T PLN02279 267 PLDQYARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWLQG--EEEIFLDLATCALAFRILRLNGYDVSSDPLKQFAED- 343 (784)
T ss_pred cccHHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhccc--ccCCCCCHHHHHHHHHHHHHcCCCCChhHHhhcCCC-
Confidence 35789999999999999999999999999999999998542 101246999999999999999999999999999965
Q ss_pred ccccccc---ccchhhHhhHHhhhccCCCCchHHHHHHHHHHHHHHhHhhh------cCCCchHHHHHHhcCCCccCCch
Q 041926 85 GNFKPSL---AKDVRGMLSLYEATHLRVHEENILDEAHAFATSHLESIATH------QISSPLAEQVKHALFQPIHKGVQ 155 (483)
Q Consensus 85 g~F~~~~---~~dv~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~------~~~~~l~~~V~~aL~~P~~~~~~ 155 (483)
+ |++++ .+||+||||||||||+++|||+|||||+.||++||++.+++ ...++|+++|+|||++|||+++|
T Consensus 344 ~-F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~~~L~~eV~~AL~~P~~~~l~ 422 (784)
T PLN02279 344 H-FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLRKYIKKEVEDALNFPYYANLE 422 (784)
T ss_pred c-ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccCccHHHHHHHHhcCchhcCcc
Confidence 4 99988 59999999999999999999999999999999999998874 12678999999999999999999
Q ss_pred hhHHhhhhhhcCCCCc------------CcHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHHhCCCCCCCchhHHHHHHHH
Q 041926 156 RLEARHYISIYPEESS------------HNEALLTFAKLDFNKLQKLHQKELSDISKWWKELDFAHNLPFTIRDRIAECY 223 (483)
Q Consensus 156 r~e~r~yI~~Y~~~~~------------~n~~lLelAkldfn~~Q~~hq~El~~l~rWwk~~~l~~~l~f~aRdr~ve~y 223 (483)
|+|||+||++|++++. +|++||||||+|||+||++||+||++++|||+++|| .++|| +|||++|||
T Consensus 423 RlEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L-~~L~f-aRdr~ve~Y 500 (784)
T PLN02279 423 RLANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRL-DKLKF-ARQKLAYCY 500 (784)
T ss_pred HHHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCC-ccCCc-hhhHHHHHH
Confidence 9999999999999885 899999999999999999999999999999999999 69999 999999999
Q ss_pred HHHhhhccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHHHhccccccc-ccccCchhHHHHHHHHHHHHHHHH
Q 041926 224 FWAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDIC-AIDELPEYMKLCYRALLDVYSEAE 302 (483)
Q Consensus 224 fw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~-~~~~lpeymk~~~~al~~~~~e~~ 302 (483)
||++|++|||+||.+|++|||.+++++++||+||+|||.|||++||+||+|||.+ .++.+|+|||+||.+|+++++|++
T Consensus 501 f~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~ 580 (784)
T PLN02279 501 FSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIG 580 (784)
T ss_pred HHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999998 569999999999999999999998
Q ss_pred HHHH-hcCCchHHHHHHHh-----------------CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccC
Q 041926 303 KDLA-SQGKLYHLHYAKEA-----------------NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLS 364 (483)
Q Consensus 303 ~~~~-~~~~~~~~~~l~e~-----------------g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~ 364 (483)
.++. +||+ ++++|++++ ||+||++|||+|+.+|+|++++++++++++|..+|+++++| +.
T Consensus 581 ~~~~~~qGr-~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~-~~ 658 (784)
T PLN02279 581 DKAFTWQGR-NVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDS-PE 658 (784)
T ss_pred HHHHHHcCc-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhC-cc
Confidence 8755 6666 778877766 99999999999999999999998999999999999999999 79
Q ss_pred chHHHHHHhhhhhhccCccchhhhhhcCCccchhhHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHhhcCC--CCCCHH
Q 041926 365 NPRVIRASSVAARLMNDMVSHKFEQSRGHVASCVECYMKQY--GATEEEACNEFRKQVSNAWKDVNEECLRP--TVVPMP 440 (483)
Q Consensus 365 ~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~--g~s~eeA~~~i~~~i~~~wk~ln~e~l~~--~~~p~~ 440 (483)
+|+|+++++.|+||+|||+|+++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+||++++++ +++|++
T Consensus 659 ~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~~~~vp~~ 737 (784)
T PLN02279 659 LHKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEKGSNVPRE 737 (784)
T ss_pred hhHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHH
Confidence 999999999999999999999999999998 9999999996 89999999999999999999999999964 579999
Q ss_pred HHHHHHHHHhhhhhhcccCCCCCCCchhHHHHHHhhhccccCC
Q 041926 441 LLMRILNLTRFLDVVYRFEDGYTHSAVVLKDFVASLLINPVSI 483 (483)
Q Consensus 441 ~~~~~~n~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll~~pi~i 483 (483)
|++.++|++|++++||+++||||.+ .||++|++||++||++
T Consensus 738 ~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 738 CKDLFWKMSKVLHLFYRKDDGFTSN--DMMSLVKSVIYEPVSL 778 (784)
T ss_pred HHHHHHHHHHhhhhheeCCCCCChH--HHHHHHHHHhccCCcC
Confidence 9999999999999999999999974 6999999999999985
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=2.7e-110 Score=918.57 Aligned_cols=449 Identities=23% Similarity=0.313 Sum_probs=404.1
Q ss_pred CCccchhhhhHHHHHhCCccccHHHHHHHHHHHHhhcCC-CccccCC--CCChhHHHHHHHHhhcCCccccccccccccc
Q 041926 6 NKPSRTLELIDAIQRLGVSYHFESEIDEILGRVHQAYQD-SDLCVNE--NDGLYYISLQFRLLRGNGYRISADVFNKFRD 82 (483)
Q Consensus 6 ~d~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~-~i~~~~~--~~dl~~~al~FRLLR~hGy~vs~dvf~~F~d 82 (483)
.|++++|++||+||||||+|||++||+++|+++|++|.+ ++++..+ ..|+++|||+|||||||||+||||||++|++
T Consensus 308 ~d~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F~~ 387 (800)
T PLN02592 308 VDLFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHFEK 387 (800)
T ss_pred CcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhhcC
Confidence 588999999999999999999999999999999999844 5544111 3699999999999999999999999999986
Q ss_pred ccccccccc---ccchhhHhhHHhhhccCCCCchHHHHHHHHHHHHHHhHhh--hc-----CCCchHHHHHHhcCCCccC
Q 041926 83 IDGNFKPSL---AKDVRGMLSLYEATHLRVHEENILDEAHAFATSHLESIAT--HQ-----ISSPLAEQVKHALFQPIHK 152 (483)
Q Consensus 83 ~~g~F~~~~---~~dv~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~--~~-----~~~~l~~~V~~aL~~P~~~ 152 (483)
+|+|++.+ .+|++|||+||||||+++|||+|||+|+.||++||++.++ ++ .+++|+++|+|||++|||+
T Consensus 388 -~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~~~L~~eV~~AL~~P~~~ 466 (800)
T PLN02592 388 -GGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWYA 466 (800)
T ss_pred -CCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhhc
Confidence 89998765 7999999999999999999999999999999999999864 11 2568999999999999999
Q ss_pred CchhhHHhhhhhhcCCCCcC-------------cHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHHhCCCCCCCchhHHHH
Q 041926 153 GVQRLEARHYISIYPEESSH-------------NEALLTFAKLDFNKLQKLHQKELSDISKWWKELDFAHNLPFTIRDRI 219 (483)
Q Consensus 153 ~~~r~e~r~yI~~Y~~~~~~-------------n~~lLelAkldfn~~Q~~hq~El~~l~rWwk~~~l~~~l~f~aRdr~ 219 (483)
++||+|||+||++|++++++ |++||||||+|||+||++||+||++++|||+++||. +|+| +|||+
T Consensus 467 ~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsrWwke~~L~-~L~f-aRdr~ 544 (800)
T PLN02592 467 SLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQKWYEECNLG-EFGV-SRSEL 544 (800)
T ss_pred CcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHhcCCC-cCCc-chhHH
Confidence 99999999999999987764 999999999999999999999999999999999995 8999 99999
Q ss_pred HHHHHHHhhhccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHHHhcc--------cccccccccCch------
Q 041926 220 AECYFWAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIE--------RWDICAIDELPE------ 285 (483)
Q Consensus 220 ve~yfw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~--------rWD~~~~~~lpe------ 285 (483)
+|||||++|++|||+||.+|+++||.+++++++||+||+|||+|||++||++|+ |||.+.+++||+
T Consensus 545 ve~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~~ 624 (800)
T PLN02592 545 LLAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSVK 624 (800)
T ss_pred HHHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccchh
Confidence 999999999999999999999999999999999999999999999999999996 999999999988
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHhCCCCCHHHHHHhhhccccchhHHHHHHH-hcCCCCchhhHhhccC
Q 041926 286 YMKLCYRALLDVYSEAEKDLASQGKLYHLHYAKEANYIPSVDEYMTVASVTSGYPMLSTTSFV-GMGDIVTKESFEWSLS 364 (483)
Q Consensus 286 ymk~~~~al~~~~~e~~~~~~~~~~~~~~~~l~e~g~vPT~eEYl~~~~vSsg~~~~~~~~~~-~~g~~l~~e~~e~~~~ 364 (483)
|||+||.||++++||++.++.+.+|.++++|++++ ..--+..++..+.+|+|+..+++++++ .+|..+|+|+++
T Consensus 625 ~mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~-W~~l~~~w~~~g~~s~~~~~ilv~~~~l~~g~~lsee~l~---- 699 (800)
T PLN02592 625 TGEELVGLLLGTLNQLSLDALEAHGRDISHLLRHA-WEMWLLKWLLEGDGRQGEAELLVKTINLTAGRSLSEELLA---- 699 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHH-HHHHHHHHHhcCceeccchhhHHHHHHHhcCCCCCHHHcc----
Confidence 99999999999999998877765555789999998 111123566777788899988888888 569999999986
Q ss_pred chHHHHHHhhhhhhccCccchhhhhhcCCccchhhHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHhhcC-C-CCCCHHH
Q 041926 365 NPRVIRASSVAARLMNDMVSHKFEQSRGHVASCVECYMKQYG-ATEEEACNEFRKQVSNAWKDVNEECLR-P-TVVPMPL 441 (483)
Q Consensus 365 ~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~g-~s~eeA~~~i~~~i~~~wk~ln~e~l~-~-~~~p~~~ 441 (483)
+|++.++++.+.||+||++|+++|+.. .| +++ +|.+++++.|+..+++|.+.+++ . +.+|++|
T Consensus 700 ~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~vp~~c 765 (800)
T PLN02592 700 HPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQELVQLVLQNSSDDIDPVI 765 (800)
T ss_pred chhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHH
Confidence 589999999999999999999998741 23 445 89999999999999999999996 3 5699999
Q ss_pred HHHHHHHHhhhhhhcccCCCCCCCchhHHHHHHhhhccccC
Q 041926 442 LMRILNLTRFLDVVYRFEDGYTHSAVVLKDFVASLLINPVS 482 (483)
Q Consensus 442 ~~~~~n~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll~~pi~ 482 (483)
|+.+|+++| +||.. ||+.| .+|+.+|+.++++||+
T Consensus 766 K~~f~~~~k---~fy~~--~~~~~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 766 KQTFLMVAK---SFYYA--AYCDP-GTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHHHHHH---HHHHh--hcCCH-HHHHHHHHHHhCCCCC
Confidence 999999999 45554 99998 5799999999999985
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=2.6e-50 Score=376.55 Aligned_cols=138 Identities=57% Similarity=0.915 Sum_probs=119.7
Q ss_pred CCccchhhhhHHHHHhCCccccHHHHHHHHHHHHhhcCCCccccCCCCChhHHHHHHHHhhcCCcccccccccccccccc
Q 041926 6 NKPSRTLELIDAIQRLGVSYHFESEIDEILGRVHQAYQDSDLCVNENDGLYYISLQFRLLRGNGYRISADVFNKFRDIDG 85 (483)
Q Consensus 6 ~d~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~~~~~i~~~~~~~dl~~~al~FRLLR~hGy~vs~dvf~~F~d~~g 85 (483)
.|+.++|+|||+||||||+|||++||+++|++||+.|... . ....||++|||+|||||||||+||||||++|+|++|
T Consensus 44 ~d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~~~~~--~-~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g 120 (183)
T PF01397_consen 44 PDPLEKLELIDTLQRLGISYHFEDEIKEILDSIYRSWDED--N-EEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKG 120 (183)
T ss_dssp SHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHTTTTT--S-HTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTS
T ss_pred CCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhhcccc--c-cccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCC
Confidence 3799999999999999999999999999999999998441 1 123499999999999999999999999999999999
Q ss_pred ccccccccchhhHhhHHhhhccCCCCchHHHHHHHHHHHHHHhHhhhcCC--CchHHHHHHhc
Q 041926 86 NFKPSLAKDVRGMLSLYEATHLRVHEENILDEAHAFATSHLESIATHQIS--SPLAEQVKHAL 146 (483)
Q Consensus 86 ~F~~~~~~dv~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~~~--~~l~~~V~~aL 146 (483)
+|+.++.+||+||||||||||++++||+|||||+.||++||++++++... ++|+++|+|||
T Consensus 121 ~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~~L~~~~~~~~~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 121 NFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTKHLKSLLSNLSIPDPHLAKEVKHAL 183 (183)
T ss_dssp SBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHHHHHHHHTTTCTTSCHHHHHHHHHH
T ss_pred ccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999986522 34999999997
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=3.1e-44 Score=354.98 Aligned_cols=252 Identities=32% Similarity=0.405 Sum_probs=224.8
Q ss_pred HHHHHhhhhHHHHHhhHHHHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHhhhccCCCcchhHHHHHhhhhhhhhcccc
Q 041926 176 LLTFAKLDFNKLQKLHQKELSDISKWWKELDFAHNLPFTIRDRIAECYFWAVAVYFEPQYSLGRRLLAKVFPMTSILDDI 255 (483)
Q Consensus 176 lLelAkldfn~~Q~~hq~El~~l~rWwk~~~l~~~l~f~aRdr~ve~yfw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~ 255 (483)
+|+|||+|||+||++||+|++++++||+++|+..+.+. +|+|++.++|+.++.++.|+.+..|+++||+++|+|++||+
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~-~~~~~~~~~~~~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~ 79 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKA-ARQRFRQAYFGLLAARFYPDSSDELLAAADWMAWLFIFDDF 79 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTT-SHHHHHHHHHHHHHHHHSGCGHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCcccccc-chhhhhHhHHhhhhheeCCCcHHHHHHHHhhchheeeeeec
Confidence 68999999999999999999999999999999667786 79999999999999999999777777999999999999999
Q ss_pred ccccCCHHHHHHHHHhcccccccccccCchhHHHHHHHHHHHHHHHHHHHHhc-CCc------------hHHHHHHHh--
Q 041926 256 YDVYGKFEELELFTSAIERWDICAIDELPEYMKLCYRALLDVYSEAEKDLASQ-GKL------------YHLHYAKEA-- 320 (483)
Q Consensus 256 yD~~gt~eEl~~ft~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~~~-~~~------------~~~~~l~e~-- 320 (483)
||..|+.++++.|+++++||++......|+++++++.++.++++++.....+. ++. ++..+++|+
T Consensus 80 ~D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 159 (270)
T PF03936_consen 80 FDDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARW 159 (270)
T ss_dssp HHTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999988888899999999999999999996554432 222 122233333
Q ss_pred ---CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhhhcCCccch
Q 041926 321 ---NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQSRGHVASC 397 (483)
Q Consensus 321 ---g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~ 397 (483)
|++||++||+++|..|+|+++++.++.+++|..++++..+++...+.+.++++.+++|+|||.|++||+++|+..|.
T Consensus 160 ~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~ 239 (270)
T PF03936_consen 160 RERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNL 239 (270)
T ss_dssp HHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSH
T ss_pred hccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccH
Confidence 99999999999999999999999999999987777666666666777999999999999999999999999999999
Q ss_pred hhHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Q 041926 398 VECYMKQYGATEEEACNEFRKQVSNAWKDVN 428 (483)
Q Consensus 398 V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln 428 (483)
|.|+|+++|+|.|+|++++.+|+++++++||
T Consensus 240 v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 240 VVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999998
No 6
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=100.00 E-value=5.3e-42 Score=341.47 Aligned_cols=266 Identities=53% Similarity=0.943 Sum_probs=241.0
Q ss_pred hhHHHHHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHhhhccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHH
Q 041926 190 LHQKELSDISKWWKELDFAHNLPFTIRDRIAECYFWAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFT 269 (483)
Q Consensus 190 ~hq~El~~l~rWwk~~~l~~~l~f~aRdr~ve~yfw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft 269 (483)
.||+|++++++||+++||....++ +|.+...+|+|+++++|+|+.+..|+++||+++|+|++||.||.+|+.+++..++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~-~r~~~~~~~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~ 79 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPF-ARDRLVECYFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFT 79 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCc-hhhHhHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHH
Confidence 499999999999999999776668 9999999999999999999999999999999999999999999999999999999
Q ss_pred HhcccccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCc------------hHHHHHHHh-----CCCCCHHHHHHh
Q 041926 270 SAIERWDICAIDELPEYMKLCYRALLDVYSEAEKDLASQGKL------------YHLHYAKEA-----NYIPSVDEYMTV 332 (483)
Q Consensus 270 ~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~~~~~~------------~~~~~l~e~-----g~vPT~eEYl~~ 332 (483)
++++||+....+.+|+++++++.++.++++++......+++. ++..+++|+ |++||++||+.+
T Consensus 80 ~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 80 EAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 999999998899999999999999999999997665543231 222334444 889999999999
Q ss_pred hhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhhhcCCccchhhHHHHhCCCCHHHH
Q 041926 333 ASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQSRGHVASCVECYMKQYGATEEEA 412 (483)
Q Consensus 333 ~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~g~s~eeA 412 (483)
|..|+|+++++.++++++|..+|++.+.+.+..+++.+.++.+++|+||++|++||+.+|+.+|+|.|||+++|+|.++|
T Consensus 160 R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA 239 (284)
T cd00868 160 RRVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEEA 239 (284)
T ss_pred ceehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHHH
Confidence 99999999999999999999999944444499999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHHHhhhhhhc
Q 041926 413 CNEFRKQVSNAWKDVNEECLRP-TVVPMPLLMRILNLTRFLDVVY 456 (483)
Q Consensus 413 ~~~i~~~i~~~wk~ln~e~l~~-~~~p~~~~~~~~n~aR~~~~~Y 456 (483)
++++.++++++|+++++.+.+. ++.|+++++.+.|.+|.....|
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 240 LEELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 9999999999999999999863 3678999999999999987655
No 7
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=9.4e-32 Score=226.27 Aligned_cols=95 Identities=45% Similarity=0.718 Sum_probs=92.2
Q ss_pred hhcCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhhhhh-cccCCCCCCCch
Q 041926 389 QSRGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNEECLRPTVVPMPLLMRILNLTRFLDVV-YRFEDGYTHSAV 467 (483)
Q Consensus 389 ~~~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~~n~aR~~~~~-Y~~~D~~t~~~~ 467 (483)
++|||++|+|+|||||||+|+|||++++++||+++||++|+|+++++++|.+++++++|+||+++|+ |+++||||.++.
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 4789999999999999999999999999999999999999999999899999999999999999999 999999998888
Q ss_pred hHHHHHHhhhccccCC
Q 041926 468 VLKDFVASLLINPVSI 483 (483)
Q Consensus 468 ~~k~~i~~ll~~pi~i 483 (483)
.+|++|++||++|||+
T Consensus 81 ~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 81 KLKDLITSLFFHPLPL 96 (96)
T ss_pred HHHHHHHHHhccCCCC
Confidence 8999999999999986
No 8
>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=99.97 E-value=5.8e-30 Score=258.42 Aligned_cols=234 Identities=19% Similarity=0.109 Sum_probs=195.9
Q ss_pred HHHHHHHHHhCCCCCCCchhHHHHHHHHHHHhhhccCCCcchhHH-HHHhhhhhhhhcccccccc-CCHHHHHHHHHhcc
Q 041926 196 SDISKWWKELDFAHNLPFTIRDRIAECYFWAVAVYFEPQYSLGRR-LLAKVFPMTSILDDIYDVY-GKFEELELFTSAIE 273 (483)
Q Consensus 196 ~~l~rWwk~~~l~~~l~f~aRdr~ve~yfw~~a~~feP~~s~~Ri-~~aK~~~li~~iDD~yD~~-gt~eEl~~ft~ai~ 273 (483)
++...|.++.|+... +. +|+++..+.++.++.++.|+++..|+ +.++++.|+|++||+||.. +++++++.+++.+.
T Consensus 17 ~~~~~w~~~~~l~~~-~~-~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~ 94 (303)
T cd00687 17 DEYLEWVLEEMLIPS-EK-AEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLL 94 (303)
T ss_pred HHHHHHHHHcCCCCc-ch-hHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHH
Confidence 346789999977433 35 89999998888777777899999999 7779999999999999987 49999999998888
Q ss_pred cccccccccCchhHHHHHHHHHHHHHHHHHHHH--hc------CCchHHHHHHHh-----CCCCCHHHHHHhhhccccch
Q 041926 274 RWDICAIDELPEYMKLCYRALLDVYSEAEKDLA--SQ------GKLYHLHYAKEA-----NYIPSVDEYMTVASVTSGYP 340 (483)
Q Consensus 274 rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~--~~------~~~~~~~~l~e~-----g~vPT~eEYl~~~~vSsg~~ 340 (483)
++.......-|....++..++.+++.++..... +. -+.++..+++|+ |++||++||+++|..|+|++
T Consensus 95 ~~~~~~~~~~~~~~~p~~~~~~d~~~r~~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~ 174 (303)
T cd00687 95 DILRGDGLDSPDDATPLEFGLADLWRRTLARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGAD 174 (303)
T ss_pred hccCCCCCCCCCCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhccccc
Confidence 774432211146667888899999888844321 11 112334455554 99999999999999999999
Q ss_pred hHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhh-hcCCccchhhHHHHhCCCCHHHHHHHHHHH
Q 041926 341 MLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQ-SRGHVASCVECYMKQYGATEEEACNEFRKQ 419 (483)
Q Consensus 341 ~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~-~~G~~~n~V~cyMke~g~s~eeA~~~i~~~ 419 (483)
+++.++.+++|..+|+++.++ +...++.++++.+++|+|||+||+||. +.|+.+|+|.|+|+++|+|.|+|++++.++
T Consensus 175 ~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~ 253 (303)
T cd00687 175 PCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDM 253 (303)
T ss_pred ccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHH
Confidence 999999999999999999988 778889999999999999999999999 899999999999999999999999999999
Q ss_pred HHHHHHHHHHhhc
Q 041926 420 VSNAWKDVNEECL 432 (483)
Q Consensus 420 i~~~wk~ln~e~l 432 (483)
+++.++++.+..-
T Consensus 254 ~~~~~~~f~~~~~ 266 (303)
T cd00687 254 HNERITQFEELEA 266 (303)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999987543
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=99.73 E-value=1e-17 Score=159.59 Aligned_cols=217 Identities=27% Similarity=0.304 Sum_probs=162.1
Q ss_pred HHhhhccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHHHhcccccccccccCchhHHHHHHHHHHHHHHHHHH
Q 041926 225 WAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDICAIDELPEYMKLCYRALLDVYSEAEKD 304 (483)
Q Consensus 225 w~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~ 304 (483)
|++++++.|+++..|..++++..|++++||++|..++..+.......+ .....|..+...+..+.+.++++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELARE 75 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhC
Confidence 456778889999999999999999999999999888776655544332 12345666666777777777776433
Q ss_pred HH--------hcCCchHHHHHHHh----CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHH
Q 041926 305 LA--------SQGKLYHLHYAKEA----NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRAS 372 (483)
Q Consensus 305 ~~--------~~~~~~~~~~l~e~----g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~ 372 (483)
.. +.-...+..+..+. +..||++||+..+..++ +.++...+..+++...++ ..+.+...++...+
T Consensus 76 ~~~~~~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 152 (243)
T cd00385 76 GSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGE--AELLEALRKLGRAL 152 (243)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHH
Confidence 10 00011223333343 34899999999999998 455555566666666665 33446678899999
Q ss_pred hhhhhhccCccchhhhhhcC-CccchhhHHHHhCCC------------CHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCH
Q 041926 373 SVAARLMNDMVSHKFEQSRG-HVASCVECYMKQYGA------------TEEEACNEFRKQVSNAWKDVNEECLRPTVVPM 439 (483)
Q Consensus 373 ~~i~RL~NDi~S~~~E~~~G-~~~n~V~cyMke~g~------------s~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~ 439 (483)
+.+.+|.||+.|+.+|.++| +..|++.++|+++|+ +.++|.+++..+++++|+++++........+.
T Consensus 153 g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (243)
T cd00385 153 GLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLPDVPR 232 (243)
T ss_pred HHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence 99999999999999999986 677999999999998 88999999999999999999987764323566
Q ss_pred HHHHHHHHHHh
Q 041926 440 PLLMRILNLTR 450 (483)
Q Consensus 440 ~~~~~~~n~aR 450 (483)
.+++.+.++.|
T Consensus 233 ~~~~~~~~~~~ 243 (243)
T cd00385 233 ALLALALNLYR 243 (243)
T ss_pred HHHHHHHHHhC
Confidence 77777777653
No 10
>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=96.82 E-value=0.018 Score=58.84 Aligned_cols=205 Identities=15% Similarity=0.087 Sum_probs=110.6
Q ss_pred CCcchhHH-HHHhhhhhhhhccccccccCCHHHHHHHHHhcccccccccccCch--hHHHHHHHHHHHHHHHH-HHHHhc
Q 041926 233 PQYSLGRR-LLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDICAIDELPE--YMKLCYRALLDVYSEAE-KDLASQ 308 (483)
Q Consensus 233 P~~s~~Ri-~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~~~~~lpe--ymk~~~~al~~~~~e~~-~~~~~~ 308 (483)
++.|..=+ .++-..+.++++||.-|.. .+.+..|.+-+.. .....-|- .+...+.-+...+..+. ..+.+.
T Consensus 79 ~~~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~---G~~qkhP~l~~v~~~l~~~lr~fGpF~s~~IikS 153 (357)
T cd00686 79 AKVSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA---GREQAHPWWALVNEHFPNVLRHFGPFCSLNLIRS 153 (357)
T ss_pred cCCCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc---CCCCCCcHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence 34565544 6777778899999997643 2344445443332 11222332 34444444444455542 222222
Q ss_pred CCchHHHHHHHh---CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHh---hhhhhccCc
Q 041926 309 GKLYHLHYAKEA---NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASS---VAARLMNDM 382 (483)
Q Consensus 309 ~~~~~~~~l~e~---g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~---~i~RL~NDi 382 (483)
.=.++.....|. +.-|.-.+|-...+.=+|..-+.+++. -|++.+.-...+..+.-+.. ...-++|||
T Consensus 154 TLdFv~g~~iEq~nf~~~p~A~~fP~ylR~ksGl~E~yA~Fi------FPk~~FpE~~~~~qi~~AIp~~~~~i~~~NDI 227 (357)
T cd00686 154 TLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASL------WPKEQFNERSLFLEITSAIAQMENWMVWVNDL 227 (357)
T ss_pred HHHHHHHHHHhhhccCCCCCCcccchHHHhccCCcceeEEEe------cchhhCchHhhHHHhhHHHHHHHHHHHhhhhh
Confidence 111222233332 445665666666555566554444322 24444332222333333433 344589999
Q ss_pred cchhhhhhc-CCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhh
Q 041926 383 VSHKFEQSR-GHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNEECLRPTVVPMPLLMRILNLTRF 451 (483)
Q Consensus 383 ~S~~~E~~~-G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~~n~aR~ 451 (483)
.||=||--. ++-.|.|.-|.+.+|+|..+|++.+..-.-.+-+++.+- +.+.. | .+++.+-+.++.
T Consensus 228 LSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~V-Lse~d-p-~l~~av~~Fi~G 294 (357)
T cd00686 228 MSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAV-FSDKD-P-QVMDTIECFMHG 294 (357)
T ss_pred hheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHHH-hcCCC-h-HHHHHHHHHHHH
Confidence 999998743 556788888888899999999998766666666666543 43321 2 334444444444
No 11
>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=96.70 E-value=0.0087 Score=61.94 Aligned_cols=192 Identities=14% Similarity=0.080 Sum_probs=92.0
Q ss_pred HHHhhhccCCCcch-hHHHHHhhhhhhhhccccccccCCHHHHHHHHHhcccccccccccCchhHHHHH---HHHHHHHH
Q 041926 224 FWAVAVYFEPQYSL-GRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDICAIDELPEYMKLCY---RALLDVYS 299 (483)
Q Consensus 224 fw~~a~~feP~~s~-~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~~~~~lpeymk~~~---~al~~~~~ 299 (483)
-+++...| |..+. .++.++=..++++.+||.++.. .+++..|-+-+-. .. ....| .+..+. ..++..+.
T Consensus 71 v~~~~~~y-~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq-~Q~~p-~L~~~~~~L~~~~~~fg 143 (376)
T PF06330_consen 71 VNMAVYCY-PHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQ-PQKHP-LLDGFASLLREMWRHFG 143 (376)
T ss_dssp HHHHHHHS-TTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T----SSH-HHHHHHHHHHHHHTTS-
T ss_pred hheeEeec-CCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CC-CCCCH-HHHHHHHHHHHHHHHcc
Confidence 44444455 65554 5669999999999999998654 3555444432211 00 11111 111111 11111111
Q ss_pred HH-HHHHHhcCCchHHHHHHHh---CC---CCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchH---HH
Q 041926 300 EA-EKDLASQGKLYHLHYAKEA---NY---IPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPR---VI 369 (483)
Q Consensus 300 e~-~~~~~~~~~~~~~~~l~e~---g~---vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~---i~ 369 (483)
.+ +..+.+..=.++.....|. +- -|.+-+|+.. =+|+....+...+ |++.+.-...+.. ++
T Consensus 144 pf~anmI~~STLdFi~g~~LE~~~f~~~p~A~~FP~fLR~---ktGlsEaYA~FiF------Pk~~fpe~~~~~~y~~AI 214 (376)
T PF06330_consen 144 PFCANMIVKSTLDFINGCWLEQKNFHGSPGAPDFPDFLRR---KTGLSEAYAFFIF------PKALFPEVEYFIQYTPAI 214 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTT----TT-TTHHHHHHH---HHH-HHHHHHHT--------TTTS-TTTTHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhhcccCCCCCCCccccHHHHh---ccCcchhheeeec------ccccCChHHHHHHHHHHH
Confidence 11 1111111000111112222 11 2455555543 3444444443222 2322221122333 33
Q ss_pred HHHhhhhhhccCccchhhhhh-cCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 041926 370 RASSVAARLMNDMVSHKFEQS-RGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNEEC 431 (483)
Q Consensus 370 ~~~~~i~RL~NDi~S~~~E~~-~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~e~ 431 (483)
--.....-++|||.||=||.- .|+..|.|.-+..-+|+|.-+|.+.+..-.-.+-+++.+..
T Consensus 215 pdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~vL 277 (376)
T PF06330_consen 215 PDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRVL 277 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455569999999999976 78899999888888899999999987666666666655443
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=84.95 E-value=25 Score=34.59 Aligned_cols=196 Identities=19% Similarity=0.146 Sum_probs=96.2
Q ss_pred chhHHHHHhhhhhhhhccccccccCCHHH----HHHHHHhcccccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCc
Q 041926 236 SLGRRLLAKVFPMTSILDDIYDVYGKFEE----LELFTSAIERWDICAIDELPEYMKLCYRALLDVYSEAEKDLASQGKL 311 (483)
Q Consensus 236 s~~Ri~~aK~~~li~~iDD~yD~~gt~eE----l~~ft~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~~~~~~ 311 (483)
...|-.+.-+-.|.-.+||+-|......+ |+-+-+++...-.+..+..|....++..++..+.....-....- .
T Consensus 17 ~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~~l~~~~l--~ 94 (267)
T PF00494_consen 17 KEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRYGLPREPL--L 94 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCSHHHHHHH--H
T ss_pred HHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHHhhhHHHH--H
Confidence 45666666777888899999997664332 33333333332111111233334566777766654432110000 0
Q ss_pred hHHHHHHHh---CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhh
Q 041926 312 YHLHYAKEA---NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFE 388 (483)
Q Consensus 312 ~~~~~l~e~---g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E 388 (483)
.++.-.... ...||++|+......+.|....+++..++..... .+..+. ....+..+-+.|=+......
T Consensus 95 ~li~~~~~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~~-~~~~~~-------a~~lG~alql~nilRd~~~D 166 (267)
T PF00494_consen 95 ELIDGMEMDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHDPD-EAARDA-------ARALGRALQLTNILRDIPED 166 (267)
T ss_dssp HHHHHHHHCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSSTSH-HHHHHH-------HHHHHHHHHHHHHHHTHHHH
T ss_pred HHHHHhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccch-hhHHHH-------HHHHHHHHHHHHHHHHhHHH
Confidence 011111111 3578999999999888888777776666553211 123332 23333333333333344455
Q ss_pred -hhcCC--ccchhhHHHHhCCCCHHHHHHH----------HHHHHHHHHHHHHHhhcCCCCC-CHHHHHH
Q 041926 389 -QSRGH--VASCVECYMKQYGATEEEACNE----------FRKQVSNAWKDVNEECLRPTVV-PMPLLMR 444 (483)
Q Consensus 389 -~~~G~--~~n~V~cyMke~g~s~eeA~~~----------i~~~i~~~wk~ln~e~l~~~~~-p~~~~~~ 444 (483)
..+|. ++.- .|.++|+|.++-.+. +..++..+...+.+..---..+ |..+.-.
T Consensus 167 ~~~~gR~ylP~d---~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~~~~~ 233 (267)
T PF00494_consen 167 ALRRGRIYLPLD---DLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPPPRARPA 233 (267)
T ss_dssp -HHTT---S-HH---HHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TTHHHH
T ss_pred HHhcccccCCch---hHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhhhHH
Confidence 45564 3322 468889988765432 4555555555555433222345 4434433
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=82.86 E-value=21 Score=34.23 Aligned_cols=93 Identities=17% Similarity=0.176 Sum_probs=57.9
Q ss_pred CCCCHHHHHHhhhc-cccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhh----------h
Q 041926 322 YIPSVDEYMTVASV-TSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQ----------S 390 (483)
Q Consensus 322 ~vPT~eEYl~~~~v-Ssg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~----------~ 390 (483)
..||.++|++...- |+++....+......+. -+++..+ ...++.+..++..-+.||+..+.... +
T Consensus 111 ~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~ 186 (236)
T cd00867 111 TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAE---ALKDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLR 186 (236)
T ss_pred CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHH---HHHHHHHHHHHHHHHHHHhccccCChHHHCccHHHHH
Confidence 37899999999988 66665443332222222 2222332 34677788899999999999876644 4
Q ss_pred cCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Q 041926 391 RGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNE 429 (483)
Q Consensus 391 ~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~ 429 (483)
+|.. +....++ .+.+.+.++.+++.+..
T Consensus 187 ~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 187 EGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred cCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 5554 5555555 55566666666665543
No 14
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=81.51 E-value=58 Score=32.22 Aligned_cols=201 Identities=13% Similarity=0.153 Sum_probs=93.7
Q ss_pred HHHHHhhhccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHHHhccccccc---ccccCchhHHHHHHHHHHHH
Q 041926 222 CYFWAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDIC---AIDELPEYMKLCYRALLDVY 298 (483)
Q Consensus 222 ~yfw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~~---~~~~lpeymk~~~~al~~~~ 298 (483)
+|++++-.. | ...|-.+.-+-.+.-.+||+=|..++.++-+. .++.|... ....-|. .++..++..++
T Consensus 7 sF~~a~~~l--p--~~~R~~~~alYaf~r~~d~i~D~~~~~~~~~~---~L~~w~~~l~~~~~g~~~--~pv~~al~~~~ 77 (266)
T TIGR03465 7 SFYYGMRLL--P--PERRRAMTALYAFCREVDDIVDEDSDPEVAQA---KLAWWRAEIDRLYAGAPS--HPVARALADPA 77 (266)
T ss_pred cHHHHHHHC--C--HHHHHHHHHHHHHHHHHHhhhcCCCCchHHHH---HHHHHHHHHHHHhCCCCC--ChHHHHHHHHH
Confidence 445544433 3 34455556667777789999997554433221 12334211 1111122 24555665554
Q ss_pred HHHHHHHHhcCCchHHHHHHHh-------CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHH
Q 041926 299 SEAEKDLASQGKLYHLHYAKEA-------NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRA 371 (483)
Q Consensus 299 ~e~~~~~~~~~~~~~~~~l~e~-------g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~ 371 (483)
....-. ... ..-+.++ ...+|++|+......+.|.-..+++..++.. ++...... ..+- .
T Consensus 78 ~~~~l~-----~~~-~~~li~g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~~a---~~lG-~ 144 (266)
T TIGR03465 78 RRFDLP-----QED-FLEVIDGMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLEYA---HHLG-R 144 (266)
T ss_pred HHcCCC-----HHH-HHHHHHHHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHHHH---HHHH-H
Confidence 432100 001 1111111 3457999988887777766655555444322 12222221 1111 1
Q ss_pred HhhhhhhccCccchhhhhhcCCccchhhHHHHhCCCCHH---------HHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHH
Q 041926 372 SSVAARLMNDMVSHKFEQSRGHVASCVECYMKQYGATEE---------EACNEFRKQVSNAWKDVNEECLRPTVVPMPLL 442 (483)
Q Consensus 372 ~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~g~s~e---------eA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~ 442 (483)
+.-++.++-|+. ...++|-+ -.=.=-|.++|+|.+ ...+-+..+++.+..-+.+..--...+|....
T Consensus 145 AlqltnilRdv~---eD~~~gR~-ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~ 220 (266)
T TIGR03465 145 ALQLTNILRDVG---EDARRGRI-YLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQ 220 (266)
T ss_pred HHHHHHHHHHhH---HHHhCCCe-ecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhh
Confidence 122223333443 33456653 111123577898876 34455666777666665554322245776444
Q ss_pred HHHHHH
Q 041926 443 MRILNL 448 (483)
Q Consensus 443 ~~~~n~ 448 (483)
..+.-.
T Consensus 221 ~~~~~~ 226 (266)
T TIGR03465 221 RAARAM 226 (266)
T ss_pred HHHHHH
Confidence 333333
No 15
>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=81.31 E-value=50 Score=32.77 Aligned_cols=199 Identities=16% Similarity=0.139 Sum_probs=92.1
Q ss_pred HHHHHhhhccCCCcchhHHHHHhhhhhhhhcccccccc-CCHHHHHHHHHhcccccc---cccccCchhHHHHHHHHHHH
Q 041926 222 CYFWAVAVYFEPQYSLGRRLLAKVFPMTSILDDIYDVY-GKFEELELFTSAIERWDI---CAIDELPEYMKLCYRALLDV 297 (483)
Q Consensus 222 ~yfw~~a~~feP~~s~~Ri~~aK~~~li~~iDD~yD~~-gt~eEl~~ft~ai~rWD~---~~~~~lpeymk~~~~al~~~ 297 (483)
+|+|+.-.. | ...|..+.-+-.|.=.+||+-|.. ++.++-. ..++.|.. +....-|. .++..++..+
T Consensus 7 sf~~a~~~l--p--~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~---~~L~~wr~~l~~~~~g~~~--~pv~~aL~~~ 77 (266)
T TIGR03464 7 NFPVASLLL--P--ARLRAPIHAVYAFARTADDIADEGDGSAEERL---ALLDDFRAELDAIYSGEPA--APVFVALART 77 (266)
T ss_pred cHHHHHHhC--C--HHHHHHHHHHHHHHHHHHHhccCCCCChHHHH---HHHHHHHHHHHHHhCCCCC--ChHHHHHHHH
Confidence 455555433 3 234555555666667899999975 4544321 11233421 11111121 2456677666
Q ss_pred HHHHHHHHHhcCCchHHHHHHHh-------CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHH
Q 041926 298 YSEAEKDLASQGKLYHLHYAKEA-------NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIR 370 (483)
Q Consensus 298 ~~e~~~~~~~~~~~~~~~~l~e~-------g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~ 370 (483)
+.+..-.. .. ..-+.++ ...+|++|+......+.|+-..+++..++.+. .+..... ..+-.
T Consensus 78 ~~~~~l~~-----~~-~~~li~~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~---~~~~~~A---~~lG~ 145 (266)
T TIGR03464 78 VQRHGLPI-----EP-FLDLLDAFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGASD---PENVALS---DAICT 145 (266)
T ss_pred HHHcCCCh-----HH-HHHHHHHHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCCC---hhHHHHH---HHHHH
Confidence 65431110 01 1111111 34679999888888777776666655554332 1122211 11221
Q ss_pred HHhhhhhhccCccchhhhhhcCCc--cchhhHHHHhCCCCHHHHH---------HHHHHHHHHHHHHHHHhhcCCCCCCH
Q 041926 371 ASSVAARLMNDMVSHKFEQSRGHV--ASCVECYMKQYGATEEEAC---------NEFRKQVSNAWKDVNEECLRPTVVPM 439 (483)
Q Consensus 371 ~~~~i~RL~NDi~S~~~E~~~G~~--~n~V~cyMke~g~s~eeA~---------~~i~~~i~~~wk~ln~e~l~~~~~p~ 439 (483)
+ --++.++-|+. ...++|-+ +- =.|.++|+|.|+-. .-+..++..+..-+.+..---..+|.
T Consensus 146 A-lQltniLRDl~---eD~~~gR~YLP~---~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~ 218 (266)
T TIGR03464 146 A-LQLINFWQDVG---VDYRKGRVYLPR---DDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDG 218 (266)
T ss_pred H-HHHHHHHHhhH---HHHhcCCccCCH---HHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCH
Confidence 1 12222334443 22345642 21 23678899876543 33444444444444332211234676
Q ss_pred HHHHHHHHH
Q 041926 440 PLLMRILNL 448 (483)
Q Consensus 440 ~~~~~~~n~ 448 (483)
.+.-.+.-.
T Consensus 219 ~~~~~~~~~ 227 (266)
T TIGR03464 219 RLGLELALI 227 (266)
T ss_pred hhhHHHHHH
Confidence 544443333
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=76.10 E-value=72 Score=31.45 Aligned_cols=193 Identities=17% Similarity=0.154 Sum_probs=91.0
Q ss_pred chhHHHHHhhhhhhhhccccccccCCH-H----HHHHHHHhcccccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCC
Q 041926 236 SLGRRLLAKVFPMTSILDDIYDVYGKF-E----ELELFTSAIERWDICAIDELPEYMKLCYRALLDVYSEAEKDLASQGK 310 (483)
Q Consensus 236 s~~Ri~~aK~~~li~~iDD~yD~~gt~-e----El~~ft~ai~rWD~~~~~~lpeymk~~~~al~~~~~e~~~~~~~~~~ 310 (483)
...|-.+.-+-.|.-.+||+=|..... . .|.-+-+++..-.. +..|. .++..+|..+..+..-..
T Consensus 23 ~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~---~~~~~--~pv~~al~~~~~~~~l~~----- 92 (265)
T cd00683 23 PELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYW---GGAPT--HPVLRALADLARRYGIPR----- 92 (265)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHc---CCCCC--ChHHHHHHHHHHHcCCCH-----
Confidence 345555556667777789999965532 2 22223333222111 11122 245666666554321000
Q ss_pred chHHHHHHHh-------CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCcc
Q 041926 311 LYHLHYAKEA-------NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMV 383 (483)
Q Consensus 311 ~~~~~~l~e~-------g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~ 383 (483)
.. ..-+.++ ...||++|.......+.|.-..+++..++.+ -+++... .....+.-.-|.|=+.
T Consensus 93 ~~-~~~li~g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~-------~A~~lG~AlqltnilR 162 (265)
T cd00683 93 EP-FRDLLAGMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALE-------RARALGLALQLTNILR 162 (265)
T ss_pred HH-HHHHHHHHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHH-------HHHHHHHHHHHHHHHH
Confidence 00 1111111 4568998888887777776655555454431 1222222 2222233233333222
Q ss_pred chhhhhhcCC--ccchhhHHHHhCCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhh
Q 041926 384 SHKFEQSRGH--VASCVECYMKQYGATEEEA---------CNEFRKQVSNAWKDVNEECLRPTVVPMPLLMRILNLTRF 451 (483)
Q Consensus 384 S~~~E~~~G~--~~n~V~cyMke~g~s~eeA---------~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~~n~aR~ 451 (483)
......++|- ++.- -|.++|+|.++- ..-+..+++.+.+-+....-....+|....-.++-++.+
T Consensus 163 dv~eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~~~~ 238 (265)
T cd00683 163 DVGEDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSRFCVRAAAML 238 (265)
T ss_pred HHHHHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHHHHHHHHHH
Confidence 2233345554 2222 267889887653 244556666666555554332345776555444444433
No 17
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=66.01 E-value=5 Score=36.92 Aligned_cols=29 Identities=38% Similarity=0.532 Sum_probs=25.9
Q ss_pred hcCCccchhhHHHHhC-CCCHHHHHHHHHH
Q 041926 390 SRGHVASCVECYMKQY-GATEEEACNEFRK 418 (483)
Q Consensus 390 ~~G~~~n~V~cyMke~-g~s~eeA~~~i~~ 418 (483)
.||-.+..|.||+-++ |.|.++|.+++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~ 148 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRK 148 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHh
Confidence 5777889999998876 9999999999987
No 18
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=53.43 E-value=12 Score=35.71 Aligned_cols=44 Identities=23% Similarity=0.264 Sum_probs=29.6
Q ss_pred hhccCccchhhhhhcC-CccchhhHHHHhCCCCHHHHHHHHHHHH
Q 041926 377 RLMNDMVSHKFEQSRG-HVASCVECYMKQYGATEEEACNEFRKQV 420 (483)
Q Consensus 377 RL~NDi~S~~~E~~~G-~~~n~V~cyMke~g~s~eeA~~~i~~~i 420 (483)
+|--++...|+..+.- -+.-+=.+.|+++|+|++||+++++++.
T Consensus 129 ~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~A 173 (194)
T COG3707 129 ALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTA 173 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3444555555544322 2334445799999999999999999864
No 19
>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=51.48 E-value=15 Score=27.51 Aligned_cols=28 Identities=29% Similarity=0.482 Sum_probs=21.5
Q ss_pred ccchhhHHHHhCCCCHHHHHHHHHHHHH
Q 041926 394 VASCVECYMKQYGATEEEACNEFRKQVS 421 (483)
Q Consensus 394 ~~n~V~cyMke~g~s~eeA~~~i~~~i~ 421 (483)
+.-++.+.|..+|+|+++|.+.+++.--
T Consensus 15 I~~AkgiLm~~~g~~e~~A~~~Lr~~Am 42 (56)
T PF03861_consen 15 IEQAKGILMARYGLSEDEAYRLLRRQAM 42 (56)
T ss_dssp HHHHHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 4567788999999999999999887544
No 20
>PLN02632 phytoene synthase
Probab=46.35 E-value=3.5e+02 Score=27.88 Aligned_cols=188 Identities=18% Similarity=0.160 Sum_probs=84.1
Q ss_pred hHHHHHhhhhhhhhccccccccCCHHHHHHHHHhcccccc---cccccCchhHHHHHHHHHHHHHHHHHHHHhcCCchHH
Q 041926 238 GRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERWDI---CAIDELPEYMKLCYRALLDVYSEAEKDLASQGKLYHL 314 (483)
Q Consensus 238 ~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rWD~---~~~~~lpeymk~~~~al~~~~~e~~~~~~~~~~~~~~ 314 (483)
.|..+.-+-.|.-.+||+=|.......-. ..++.|.. ...+.-|. .++..++.++.....-....- ...+
T Consensus 74 ~R~ai~alYAf~R~~DdI~D~~~~~~~~~---~~L~~w~~~l~~~~~g~~~--~pv~~aL~~~~~~~~L~~~~~--~~li 146 (334)
T PLN02632 74 RRKAIWAIYVWCRRTDELVDGPNASHITP---AALDRWEARLEDLFDGRPY--DMLDAALADTVSKFPLDIQPF--RDMI 146 (334)
T ss_pred HHHHHHHHHHHHHHHhHHhcCCCCChhhH---HHHHHHHHHHHHHhCCCCC--ChHHHHHHHHHHHCCCChHHH--HHHH
Confidence 34444455666677899988654321111 01333421 11111122 145666666655432110000 0001
Q ss_pred HHHH-Hh--CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhh---hhhccCccchhhh
Q 041926 315 HYAK-EA--NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVA---ARLMNDMVSHKFE 388 (483)
Q Consensus 315 ~~l~-e~--g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i---~RL~NDi~S~~~E 388 (483)
+-.. .. ...+|++|+......+.|.-..+++..++.....+. ..++ ..+.....+.- ..++-|+. ..
T Consensus 147 ~g~~~Dl~~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~-~~~~---~~~~A~~lG~AlQltNILRDv~---eD 219 (334)
T PLN02632 147 EGMRMDLVKSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKA-STES---VYNAALALGIANQLTNILRDVG---ED 219 (334)
T ss_pred HHHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCcccc-chHH---HHHHHHHHHHHHHHHHHHHHHH---HH
Confidence 1111 11 446799988888777776665555555543321110 0011 01112222222 23334543 44
Q ss_pred hhcCCc--cchhhHHHHhCCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCCHHHH
Q 041926 389 QSRGHV--ASCVECYMKQYGATEEEA---------CNEFRKQVSNAWKDVNEECLRPTVVPMPLL 442 (483)
Q Consensus 389 ~~~G~~--~n~V~cyMke~g~s~eeA---------~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~ 442 (483)
.++|-+ +. =-|.++|+|.++- ..-+..+++.+..-+.+..---..+|....
T Consensus 220 ~~~GRvYLP~---e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r 281 (334)
T PLN02632 220 ARRGRVYLPQ---DELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASR 281 (334)
T ss_pred HhCCceeCCH---HHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhH
Confidence 566652 21 1367899998873 334455555555444443211234776544
No 21
>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=40.66 E-value=22 Score=23.11 Aligned_cols=18 Identities=33% Similarity=0.573 Sum_probs=14.6
Q ss_pred HHHHhCCCCHHHHHHHHH
Q 041926 400 CYMKQYGATEEEACNEFR 417 (483)
Q Consensus 400 cyMke~g~s~eeA~~~i~ 417 (483)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 489999999999766554
No 22
>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=36.12 E-value=3.1e+02 Score=28.08 Aligned_cols=62 Identities=8% Similarity=0.041 Sum_probs=38.6
Q ss_pred CCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchh
Q 041926 322 YIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHK 386 (483)
Q Consensus 322 ~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~ 386 (483)
..+|.++|++....=+|..+..++..-++--..+++..+. ..++-+..++..-+.||+..+.
T Consensus 159 ~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~---l~~~G~~lG~aFQi~DDild~~ 220 (322)
T TIGR02749 159 SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAND---LYEYGKHLGLAFQVVDDILDFT 220 (322)
T ss_pred CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHHHHHHHHHhccCC
Confidence 3579999999866555555432221111111234544443 4677788899999999998765
No 23
>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=31.40 E-value=6.1e+02 Score=26.32 Aligned_cols=138 Identities=16% Similarity=0.127 Sum_probs=78.6
Q ss_pred CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhhhcCCccchhhH
Q 041926 321 NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQSRGHVASCVEC 400 (483)
Q Consensus 321 g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~c 400 (483)
+..|.++=| +.+..|++.-.+.++.-++..+.++++..+.+. ..-.-+.+-+.-|++=....+.+.+.|+. |.|..
T Consensus 174 ~~~p~l~W~-EfaAatGSTLgIF~L~a~A~~p~~t~~~a~~i~--~aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv~Y 249 (330)
T PF10776_consen 174 DKYPELEWW-EFAAATGSTLGIFALFAYAADPDLTPEDAEKIK--DAYFPWICGLHILLDYFIDQEEDREGGDL-NFVFY 249 (330)
T ss_pred hcCCCccHH-HHHHHhccHHHHHHHHHHHcCCCCCHHHHHHHH--HcccHHHHHHHHHHHHHhhhHhHhcCCCc-eeeee
Confidence 556764333 344434433334444445556778887776642 11222445555566666666666777777 99975
Q ss_pred HHHhCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhhhhhcccCCCCCCCchhHHHHHHhhh
Q 041926 401 YMKQYGATEEEACNEFRKQVSNAWKDVNEECLRPTVVPMPLLMRILNLTRFLDVVYRFEDGYTHSAVVLKDFVASLL 477 (483)
Q Consensus 401 yMke~g~s~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~~~~~~~n~aR~~~~~Y~~~D~~t~~~~~~k~~i~~ll 477 (483)
| -+.+++.+.+.-.++++-+...+ +|.+- +.--+.|.+-=||-.++.=..+ ..++..-+.|+
T Consensus 250 Y-----~~~~~~~~Rl~~f~~~A~~~~~~-------Lp~~~--fHr~iv~GLla~YLSD~K~~~~-~~~~~~ak~Ll 311 (330)
T PF10776_consen 250 Y-----PDEEEMEERLKYFVEKALEQASR-------LPYPK--FHRMIVRGLLAMYLSDPKVRSQ-PNVRPVAKRLL 311 (330)
T ss_pred C-----CCHHHHHHHHHHHHHHHHHHHHh-------CCCch--HHHHHHHHHHHHHhCCHhhccc-hhhHHHHHHHH
Confidence 4 46789999999999988877653 55442 3333344555578655443322 22344444444
No 24
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=28.99 E-value=55 Score=28.88 Aligned_cols=21 Identities=29% Similarity=0.464 Sum_probs=18.3
Q ss_pred hhHHHHhCCCCHHHHHHHHHH
Q 041926 398 VECYMKQYGATEEEACNEFRK 418 (483)
Q Consensus 398 V~cyMke~g~s~eeA~~~i~~ 418 (483)
|.+.|.|.|+|.|+|++.+.+
T Consensus 88 IkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 88 IKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 788999999999999987654
No 25
>KOG3951 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.53 E-value=89 Score=31.10 Aligned_cols=57 Identities=25% Similarity=0.377 Sum_probs=40.9
Q ss_pred ccccccccccccchhhHhhHHhhhccCCCCchHHHHHHHHHHHHHHhHhhhcCCCchHHHHHHhcC
Q 041926 82 DIDGNFKPSLAKDVRGMLSLYEATHLRVHEENILDEAHAFATSHLESIATHQISSPLAEQVKHALF 147 (483)
Q Consensus 82 d~~g~F~~~~~~dv~~lL~LyeAs~l~~~gE~iLdea~~ft~~~L~~~~~~~~~~~l~~~V~~aL~ 147 (483)
+.+|-|.....-|+||-..|-++-- ....| -|=.|+.||++||. +.+-+++|++-|+
T Consensus 264 hp~GAFv~~s~iDmkgcvrllk~q~-p~~~e-~LLnaLRfTTKHlN-------desTpK~ir~ll~ 320 (321)
T KOG3951|consen 264 HPNGAFVSNSSIDMKGCVRLLKLQP-PEQSE-CLLNALRFTTKHLN-------DESTPKSIRHLLE 320 (321)
T ss_pred cccccccccCcCcHHHHHHHHHcCC-chhhH-HHHHHHHHHHhhcC-------CCCChHHHHHHhc
Confidence 5789998888899999999988742 22333 56679999999983 3345566666553
No 26
>smart00463 SMR Small MutS-related domain.
Probab=27.97 E-value=67 Score=25.45 Aligned_cols=24 Identities=33% Similarity=0.198 Sum_probs=21.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 041926 405 YGATEEEACNEFRKQVSNAWKDVN 428 (483)
Q Consensus 405 ~g~s~eeA~~~i~~~i~~~wk~ln 428 (483)
||++.++|+..+...++++++.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999998887643
No 27
>PLN02857 octaprenyl-diphosphate synthase
Probab=27.46 E-value=2.5e+02 Score=30.07 Aligned_cols=62 Identities=15% Similarity=0.142 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHhhhccccchhHHHH--HHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhh
Q 041926 321 NYIPSVDEYMTVASVTSGYPMLSTT--SFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKF 387 (483)
Q Consensus 321 g~vPT~eEYl~~~~vSsg~~~~~~~--~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~ 387 (483)
+.-+|.++|++....=+|..+..++ +-+..| .+++..+. ..++-+..++..-+.||+..+..
T Consensus 252 ~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallag--a~~~~~~~---l~~fG~~LGiAFQI~DDiLD~~~ 315 (416)
T PLN02857 252 DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSG--VDSSVKEQ---MYEYGKNLGLAFQVVDDILDFTQ 315 (416)
T ss_pred CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcC--CCHHHHHH---HHHHHHHHHHHHHHHHHHHhhcC
Confidence 4457999999987655555543322 112222 34554443 46777888889999999988753
No 28
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=25.10 E-value=1.1e+02 Score=30.66 Aligned_cols=65 Identities=22% Similarity=0.215 Sum_probs=48.8
Q ss_pred chhhhhhcCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH----------hhcCCCCCCHHHHHHHHHHHhh
Q 041926 384 SHKFEQSRGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNE----------ECLRPTVVPMPLLMRILNLTRF 451 (483)
Q Consensus 384 S~~~E~~~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~----------e~l~~~~~p~~~~~~~~n~aR~ 451 (483)
.|++|++ ..+.++..+...|.+.++|.+.+.--+.+.+-.+=. +++.+.++|...++.+.++||-
T Consensus 96 ~wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~a~e 170 (269)
T COG1093 96 EWKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEIARE 170 (269)
T ss_pred HHHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHHHHh
Confidence 3466653 457888889999999999999998878777654433 3444457888899999999874
No 29
>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=24.53 E-value=77 Score=25.31 Aligned_cols=27 Identities=26% Similarity=0.185 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 041926 405 YGATEEEACNEFRKQVSNAWKDVNEEC 431 (483)
Q Consensus 405 ~g~s~eeA~~~i~~~i~~~wk~ln~e~ 431 (483)
||++.++|+..+...+..+|+.-.+.+
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~ 30 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIREL 30 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEE
Confidence 799999999999999999987655443
No 30
>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.53 E-value=1.5e+02 Score=29.61 Aligned_cols=172 Identities=20% Similarity=0.246 Sum_probs=91.4
Q ss_pred ccCCCcchhHHHHHhhhhhhhhccccccccCCHHHHHHHHHhcccc---c--------ccccccCchhHHHHHHHHHHHH
Q 041926 230 YFEPQYSLGRRLLAKVFPMTSILDDIYDVYGKFEELELFTSAIERW---D--------ICAIDELPEYMKLCYRALLDVY 298 (483)
Q Consensus 230 ~feP~~s~~Ri~~aK~~~li~~iDD~yD~~gt~eEl~~ft~ai~rW---D--------~~~~~~lpeymk~~~~al~~~~ 298 (483)
+|+|.|...++ +.+..++++++|-+=|- .+-+..+..-+.|- + +.-++.|++..|+= +=.++.
T Consensus 88 ~Fd~s~D~e~i-F~~~gALifvIDaQddy---~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kie--tqrdI~ 161 (347)
T KOG3887|consen 88 FFDPSFDYEMI-FRGVGALIFVIDAQDDY---MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIE--TQRDIH 161 (347)
T ss_pred cCCCccCHHHH-HhccCeEEEEEechHHH---HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhh--hHHHHH
Confidence 57999999865 67999999999865331 23333333334332 1 14467788866642 222333
Q ss_pred HHHHHHHHhcCC-----c-h----HHHHHHHh---------CCCCCHHHHHHhhhccccchhHHHH----HHHhcCCCCc
Q 041926 299 SEAEKDLASQGK-----L-Y----HLHYAKEA---------NYIPSVDEYMTVASVTSGYPMLSTT----SFVGMGDIVT 355 (483)
Q Consensus 299 ~e~~~~~~~~~~-----~-~----~~~~l~e~---------g~vPT~eEYl~~~~vSsg~~~~~~~----~~~~~g~~l~ 355 (483)
.+...++.-+|- + | .-+..-|| ...||+|--+.+=.-+|+..-.... -.+...+.-|
T Consensus 162 qr~~d~l~d~gle~v~vsf~LTSIyDHSIfEAFSkvVQkLipqLptLEnlLnif~s~S~ieKafLFDv~SKIYiaTDS~P 241 (347)
T KOG3887|consen 162 QRTNDELADAGLEKVQVSFYLTSIYDHSIFEAFSKVVQKLIPQLPTLENLLNIFISNSKIEKAFLFDVLSKIYIATDSSP 241 (347)
T ss_pred HHhhHHHHhhhhccceEEEEEeeecchHHHHHHHHHHHHHhhhchhHHHHHHHHhhccchhhhhhhhhhheeEEecCCCc
Confidence 333333222221 0 0 01112222 6788999888877666664322110 0000111111
Q ss_pred hh--hHhh-------------------ccCchHHHHHHhhhhhhccCccchhhhhhcCCccchhhHHHHhCCCCHH
Q 041926 356 KE--SFEW-------------------SLSNPRVIRASSVAARLMNDMVSHKFEQSRGHVASCVECYMKQYGATEE 410 (483)
Q Consensus 356 ~e--~~e~-------------------~~~~~~i~~~~~~i~RL~NDi~S~~~E~~~G~~~n~V~cyMke~g~s~e 410 (483)
-+ ..|- -..-++.-+.++.+.||.|+..=|=+|..++- ++-|.|++.|...+
T Consensus 242 Vdmq~YElC~d~IDV~iDl~~iYg~~~~~~~s~~d~~s~svirL~n~~vlyLrev~k~L---ALV~i~re~~~e~~ 314 (347)
T KOG3887|consen 242 VDMQSYELCCDMIDVTIDLSSIYGLKEDGKGSDYDKESSSVIRLNNTTVLYLREVNKFL---ALVCIVREDGFEKK 314 (347)
T ss_pred chhHHHHHHHhhhheeeehHHhhCCCCCCCCCchhhhhhhhhhhcCceEEeHHHhhhhe---EEEEEEccCCcccc
Confidence 10 0000 01124455667788899999999999887763 34588888876443
No 31
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=23.96 E-value=86 Score=28.94 Aligned_cols=34 Identities=32% Similarity=0.590 Sum_probs=24.6
Q ss_pred HHHHhCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHH
Q 041926 400 CYMKQYGATEEEACNEFRKQVSNAWKDVNEECLRPTVVPMP 440 (483)
Q Consensus 400 cyMke~g~s~eeA~~~i~~~i~~~wk~ln~e~l~~~~~p~~ 440 (483)
.-|++.|.|..+ |+..|++.||+ -+.+|++-|+|
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 357788888655 88999999984 46677665543
No 32
>smart00400 ZnF_CHCC zinc finger.
Probab=23.76 E-value=88 Score=23.10 Aligned_cols=23 Identities=17% Similarity=0.104 Sum_probs=19.6
Q ss_pred ccchhhHHHHhCCCCHHHHHHHH
Q 041926 394 VASCVECYMKQYGATEEEACNEF 416 (483)
Q Consensus 394 ~~n~V~cyMke~g~s~eeA~~~i 416 (483)
-.+.|..+|+-.|+|-.||++.+
T Consensus 32 gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 32 GGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCHHHHHHHHHCcCHHHHHHHh
Confidence 34779999999999999998865
No 33
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=23.29 E-value=1.2e+02 Score=22.61 Aligned_cols=45 Identities=20% Similarity=0.282 Sum_probs=29.4
Q ss_pred ccCccchhhhhhcCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 041926 379 MNDMVSHKFEQSRGHVASCVECYMKQYGATEEEACNEFRKQVSNAWK 425 (483)
Q Consensus 379 ~NDi~S~~~E~~~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk 425 (483)
.||+-++..|+..--+ -=|.-.|. .|+|.-||+..+..-|.+..+
T Consensus 2 ~~~lp~LtHeeQQ~Av-E~Iq~LMa-qGmSsgEAI~~VA~~iRe~~~ 46 (51)
T PF03701_consen 2 FNDLPSLTHEEQQQAV-ERIQELMA-QGMSSGEAIAIVAQEIREEHQ 46 (51)
T ss_pred CCCCCCCCHHHHHHHH-HHHHHHHH-hcccHHHHHHHHHHHHHHHHH
Confidence 3666666666543222 22445565 489999999988888876554
No 34
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=23.11 E-value=45 Score=24.19 Aligned_cols=21 Identities=24% Similarity=0.464 Sum_probs=15.5
Q ss_pred HHHHhhcCCcccccccccccc
Q 041926 61 QFRLLRGNGYRISADVFNKFR 81 (483)
Q Consensus 61 ~FRLLR~hGy~vs~dvf~~F~ 81 (483)
.+.-|+++||++|+++++.+.
T Consensus 24 ~l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 24 LLDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred HHHHHHHcCcccCHHHHHHHH
Confidence 344558889999998887664
No 35
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.98 E-value=60 Score=24.51 Aligned_cols=48 Identities=21% Similarity=0.240 Sum_probs=32.1
Q ss_pred cCccchhhhhhcCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Q 041926 380 NDMVSHKFEQSRGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNE 429 (483)
Q Consensus 380 NDi~S~~~E~~~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~ 429 (483)
+++.|+..|+...-| --|.=+|.| |+|--||+..+...+.+.-|.-|+
T Consensus 3 ~~lp~LtHeqQQ~AV-E~Iq~lMae-GmSsGEAIa~VA~elRe~hk~~~~ 50 (60)
T COG3140 3 AGLPSLTHEQQQKAV-ERIQELMAE-GMSSGEAIALVAQELRENHKGENR 50 (60)
T ss_pred CccccccHHHHHHHH-HHHHHHHHc-cccchhHHHHHHHHHHHHhccccc
Confidence 556666666654333 224456654 899999999998888877666554
No 36
>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=22.74 E-value=2.8e+02 Score=27.14 Aligned_cols=95 Identities=12% Similarity=0.075 Sum_probs=55.3
Q ss_pred CCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhhh-----------h
Q 041926 322 YIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFEQ-----------S 390 (483)
Q Consensus 322 ~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E~-----------~ 390 (483)
..||.++|++...--+|.....+....++--..+++..+ ...++.+..++..-+.||+..+.... .
T Consensus 134 ~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~---~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~ 210 (259)
T cd00685 134 TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAE---ALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLR 210 (259)
T ss_pred CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHH---HHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHH
Confidence 369999999998777776644332222110112333333 24677788888889999987765432 2
Q ss_pred cCCccchhhHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Q 041926 391 RGHVASCVECYMKQYGATEEEACNEFRKQVSNAWKDVNE 429 (483)
Q Consensus 391 ~G~~~n~V~cyMke~g~s~eeA~~~i~~~i~~~wk~ln~ 429 (483)
.|.. |...+|.. .+.++..++++++.+..
T Consensus 211 ~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~~ 239 (259)
T cd00685 211 EGKC-TLPVLLAL---------RELAREYEEKALEALKA 239 (259)
T ss_pred cCCc-hHHHHHHH---------HHHHHHHHHHHHHHHHc
Confidence 2332 44444443 45566667777666553
No 37
>PLN02890 geranyl diphosphate synthase
Probab=22.08 E-value=4.7e+02 Score=28.07 Aligned_cols=65 Identities=17% Similarity=0.071 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhh
Q 041926 321 NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFE 388 (483)
Q Consensus 321 g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E 388 (483)
...+|.++|++....-+|..+..++..-++--..+++..+.+ .++-+..++..-+.||+..+...
T Consensus 252 ~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lGlAFQI~DDiLD~~g~ 316 (422)
T PLN02890 252 EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLGLAFQLIDDVLDFTGT 316 (422)
T ss_pred CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHHHHHHHHHHHhhcCC
Confidence 346899999987665555544333211111112355555543 57778889999999999887543
No 38
>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=21.18 E-value=3e+02 Score=26.97 Aligned_cols=65 Identities=14% Similarity=0.155 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHhhhccccchhHHHHHHHhcCCCCchhhHhhccCchHHHHHHhhhhhhccCccchhhh
Q 041926 321 NYIPSVDEYMTVASVTSGYPMLSTTSFVGMGDIVTKESFEWSLSNPRVIRASSVAARLMNDMVSHKFE 388 (483)
Q Consensus 321 g~vPT~eEYl~~~~vSsg~~~~~~~~~~~~g~~l~~e~~e~~~~~~~i~~~~~~i~RL~NDi~S~~~E 388 (483)
+..+|.++|++...--+|..+...+..-++=-..+++..+. ..++....++..-+.||+..+...
T Consensus 130 ~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~---l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 130 DKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEA---LREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHH---HHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred cccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHH---HHHHHHHHHHHHhhhhhhhhccCc
Confidence 34789999999988777766443322221111134444443 477888899999999999888753
Done!