Query 012005
Match_columns 473
No_of_seqs 195 out of 888
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:36:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012005.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012005hhsearch_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 8E-142 2E-146 1147.3 43.7 460 6-470 50-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 7E-134 2E-138 1108.0 43.1 458 6-473 267-778 (784)
3 PLN02592 ent-copalyl diphospha 100.0 3E-105 7E-110 877.2 39.1 421 6-472 307-800 (800)
4 PF01397 Terpene_synth: Terpen 100.0 2.6E-50 5.6E-55 376.2 12.1 136 6-142 43-183 (183)
5 PF03936 Terpene_synth_C: Terp 100.0 3.5E-47 7.5E-52 374.8 18.1 245 172-417 1-270 (270)
6 cd00868 Terpene_cyclase_C1 Ter 100.0 3.7E-44 8.1E-49 355.7 26.6 259 186-446 1-284 (284)
7 cd00687 Terpene_cyclase_nonpla 100.0 8.8E-34 1.9E-38 285.4 20.5 226 190-419 14-264 (303)
8 PLN02150 terpene synthase/cycl 100.0 7.2E-31 1.6E-35 220.8 10.5 94 378-473 1-96 (96)
9 cd00385 Isoprenoid_Biosyn_C1 I 99.8 8.1E-20 1.8E-24 173.4 9.9 207 223-440 4-243 (243)
10 cd00686 Terpene_cyclase_cis_tr 97.7 0.00081 1.7E-08 68.4 13.6 203 220-440 69-293 (357)
11 PF06330 TRI5: Trichodiene syn 97.5 0.0019 4E-08 66.7 14.0 181 225-419 75-276 (376)
12 PF00494 SQS_PSY: Squalene/phy 90.7 8.7 0.00019 37.8 14.8 173 233-419 18-218 (267)
13 cd00867 Trans_IPPS Trans-Isopr 89.2 6.5 0.00014 37.7 12.4 111 293-419 94-215 (236)
14 TIGR03465 HpnD squalene syntha 85.7 39 0.00084 33.4 15.7 176 234-433 19-221 (266)
15 TIGR03464 HpnC squalene syntha 82.8 52 0.0011 32.6 16.2 96 234-339 19-131 (266)
16 cd00683 Trans_IPPS_HH Trans-Is 81.0 60 0.0013 32.0 15.0 183 234-440 25-237 (265)
17 cd00685 Trans_IPPS_HT Trans-Is 70.9 47 0.001 32.7 11.0 113 293-419 117-240 (259)
18 TIGR02749 prenyl_cyano solanes 65.4 1.2E+02 0.0025 31.2 12.8 79 293-375 142-220 (322)
19 COG0142 IspA Geranylgeranyl py 63.5 84 0.0018 32.2 11.4 100 293-397 143-252 (322)
20 PLN02632 phytoene synthase 62.5 1.9E+02 0.0042 29.8 16.1 180 235-432 75-281 (334)
21 KOG1719 Dual specificity phosp 61.6 6.4 0.00014 36.3 2.4 30 379-408 119-149 (183)
22 PLN02857 octaprenyl-diphosphat 57.3 1.2E+02 0.0026 32.5 11.4 80 293-376 236-315 (416)
23 TIGR02748 GerC3_HepT heptapren 48.8 2.5E+02 0.0055 28.6 12.1 79 293-376 138-217 (319)
24 COG3707 AmiR Response regulato 48.5 14 0.00031 35.1 2.5 44 367-410 130-174 (194)
25 PF03861 ANTAR: ANTAR domain; 48.0 15 0.00032 27.5 2.1 28 383-410 15-42 (56)
26 PLN02890 geranyl diphosphate s 41.6 3.6E+02 0.0079 28.9 12.1 81 293-377 236-316 (422)
27 PF12368 DUF3650: Protein of u 33.1 31 0.00068 22.5 1.5 18 389-406 9-26 (28)
28 PF13798 PCYCGC: Protein of un 31.8 50 0.0011 30.4 3.3 33 390-430 126-158 (158)
29 smart00463 SMR Small MutS-rela 31.7 57 0.0012 25.8 3.3 24 394-417 7-30 (80)
30 PRK10581 geranyltranstransfera 31.4 5.2E+02 0.011 26.2 11.0 113 294-419 152-277 (299)
31 PF01713 Smr: Smr domain; Int 31.1 50 0.0011 26.4 2.9 26 394-419 4-29 (83)
32 COG4738 Predicted transcriptio 29.9 2.1E+02 0.0045 25.1 6.4 79 13-98 14-102 (124)
33 CHL00151 preA prenyl transfera 29.8 6.2E+02 0.013 25.8 11.8 80 293-376 143-222 (323)
34 smart00400 ZnF_CHCC zinc finge 28.2 57 0.0012 24.1 2.6 25 381-405 30-54 (55)
35 PF14164 YqzH: YqzH-like prote 27.6 30 0.00064 27.0 0.9 20 56-75 10-29 (64)
36 PF11848 DUF3368: Domain of un 27.5 40 0.00086 24.5 1.5 20 57-76 25-44 (48)
37 KOG3951 Uncharacterized conser 25.0 1.2E+02 0.0026 30.2 4.7 43 77-122 264-307 (321)
38 PRK10888 octaprenyl diphosphat 24.7 7.6E+02 0.017 25.2 12.5 79 293-376 139-218 (323)
39 COG1308 EGD2 Transcription fac 22.0 79 0.0017 27.9 2.6 21 387-407 88-108 (122)
40 PF00348 polyprenyl_synt: Poly 21.1 7.8E+02 0.017 24.0 10.0 66 309-377 129-194 (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=8.4e-142 Score=1147.34 Aligned_cols=460 Identities=48% Similarity=0.878 Sum_probs=447.6
Q ss_pred CCCcccchhhhHHHhhcCCccCcHHHHHHHHHHhhcCCCC-----CCCChHHHHHHHHHHHhcCcccchhhhcccccccc
Q 012005 6 ADKPAQKLCLIDVVQRLGVAYHFIKEIDDALEKISHDPFD-----DKDDIYIVSLCFRLLRQHGIKMSCDVFEKFKDDDG 80 (473)
Q Consensus 6 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~-----~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~d~~g 80 (473)
+.|++++|++||+||||||+|||++||+++|++||++ |. ...||++|||+|||||||||+||||||++|+|++|
T Consensus 50 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~i~~~-~~~~~~~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g 128 (542)
T cd00684 50 PVDLFERLWLIDRLQRLGISYHFEDEIKEILDYIYRY-WTERGESNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDG 128 (542)
T ss_pred CCCHHHHHHHHHHHHHcCchhhhHHHHHHHHHHHHHh-hcccccccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCC
Confidence 5789999999999999999999999999999999986 42 24699999999999999999999999999999999
Q ss_pred cccccccccHHHHHHHHhhhcCCCCCCcHHHHHHHHHHHHHHhHhhcC--CCCCchHHHHHHhcCCCcccccchhhHHHH
Q 012005 81 KFKASLTNDVEGMLSLYEVAHLAIPGEDILDEAIVFTTTHLKSMVTNS--QVNSTFAEQIRHSLRVPLRRAVSRLESRYF 158 (473)
Q Consensus 81 ~f~~~~~~d~~~lL~LY~As~l~~~gE~iL~ea~~ft~~~L~~~~~~~--~~~~~l~~~V~~aL~~P~~~~~~rlear~y 158 (473)
+|+|++.+||+||||||||||+++|||+|||||++||++||+++++++ + +++|+++|++||+.|+|+++||+|||+|
T Consensus 129 ~f~~~~~~d~~g~l~Ly~As~l~~~gE~iLdeA~~ft~~~L~~~~~~~~~~-~~~l~~~V~~aL~~P~~~~~~rlear~y 207 (542)
T cd00684 129 KFKESLTQDVKGMLSLYEASHLSFPGEDILDEALSFTTKHLEEKLESNWII-DPDLSGEIEYALEIPLHASLPRLEARWY 207 (542)
T ss_pred CcCchhhhhhHHHHHHHHHhhcCCCCcHHHHHHHHHHHHHHHHHhhccCCC-CchHHHHHHHHccCchhcCCchHHHHHH
Confidence 999999999999999999999999999999999999999999999842 5 7889999999999999999999999999
Q ss_pred HHHhcCCCCCCHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHhhcccCCChhHHHhHHHHHHHhhhhcccCCCCcchhHHH
Q 012005 159 LDIYSRDDLHDKTLLNFAKLDFNILQAMHQKEASEITRWWRDLDFLKKLPYIRERVVELYFWMLVGVSYEPNFSTGRIFL 238 (473)
Q Consensus 159 i~~y~~~~~~n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~faRdr~~e~yf~~~~~~~~eP~~s~~Rl~~ 238 (473)
|++|++++.+|++||||||+|||+||++||+||+++++||+++||.+++||+|+|+++||||+ +|++|||++|.+|+++
T Consensus 208 i~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~gL~~~l~~aRdr~ve~yf~~-~a~~feP~~s~~Rl~~ 286 (542)
T cd00684 208 IEFYEQEDDHNETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPFARDRLVECYFWA-AGTYFEPQYSLARIAL 286 (542)
T ss_pred HHHhCCCccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhcCCcccCCcccchhHHHHHHH-HhcccCccchHHHHHH
Confidence 999999999999999999999999999999999999999999999888899999999999999 9999999999999999
Q ss_pred HhHhhhhhhhhhhcccCCCHHHHHHHHHHHhcccccccccCChhHHHHHHHHHH------------------------HH
Q 012005 239 SKIICLETLVDDTFDAYGTFEELKIFTEAVARWDIGHIDALPEYMKFIFKTLID------------------------FQ 294 (473)
Q Consensus 239 ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~------------------------w~ 294 (473)
||+++|+|++||+||.|||.+|++.||+||+|||+++++.+|+|||++|.++++ |+
T Consensus 287 aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~ 366 (542)
T cd00684 287 AKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAWK 366 (542)
T ss_pred HHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999996 99
Q ss_pred HHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccch
Q 012005 295 ELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGH 374 (473)
Q Consensus 295 ~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~ 374 (473)
+++++|++||+|+++||+||++|||++|++|+|+++++++++++||+.+|+++++|+...|+|+++++.++||+|||+|+
T Consensus 367 ~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~ 446 (542)
T cd00684 367 DLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLMNDIATY 446 (542)
T ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhh
Confidence 99999999999999999999999999999999999999999999999999999999777799999999999999999999
Q ss_pred hhhhccCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccCC-CCCCHhHHHHHHHHhhhhhhhcCcCCCCC
Q 012005 375 KFEQKREHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEELLLNP-TAIPLPLLQVIFDLSCSADFMYGDAQDRL 453 (473)
Q Consensus 375 ~kE~~~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~~~l~~-~~~p~~~~~~~ln~aR~~~~~Y~~~~D~~ 453 (473)
++|+++|+++|+|.|||+|+|+|+|+|+++++++|+++||++|++ ++++ +++|++|++.++|++|+++++|+++ |||
T Consensus 447 ~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e-~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~-D~~ 524 (542)
T cd00684 447 EDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEE-FLKPSSDVPRPIKQRFLNLARVIDVFYKEG-DGF 524 (542)
T ss_pred HHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH-HhcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CCC
Confidence 999999999999999999999999999999999999999999999 9987 7899999999999999999999999 999
Q ss_pred CCc-hhHHHHHHHHhcCc
Q 012005 454 THS-TMMKDQVELVLRDP 470 (473)
Q Consensus 454 t~~-~~~k~~i~sll~~P 470 (473)
|.| +.||++|++||++|
T Consensus 525 t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 525 THPEGEIKDHITSLLFEP 542 (542)
T ss_pred CCccHHHHHHHHHHhcCC
Confidence 999 78999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=7.2e-134 Score=1108.02 Aligned_cols=458 Identities=26% Similarity=0.446 Sum_probs=436.6
Q ss_pred CCCcccchhhhHHHhhcCCccCcHHHHHHHHHHhhcCCCC-----CCCChHHHHHHHHHHHhcCcccchhhhcccccccc
Q 012005 6 ADKPAQKLCLIDVVQRLGVAYHFIKEIDDALEKISHDPFD-----DKDDIYIVSLCFRLLRQHGIKMSCDVFEKFKDDDG 80 (473)
Q Consensus 6 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~-----~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~d~~g 80 (473)
+.+.++++++||+||||||+|||++||+++|+++|++ |. ...|+++|||+|||||||||+||||||++|+|+ +
T Consensus 267 p~~~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~-~~~~~~~~~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~-~ 344 (784)
T PLN02279 267 PLDQYARLSMVDTLERLGIDRHFRKEIKSVLDETYRY-WLQGEEEIFLDLATCALAFRILRLNGYDVSSDPLKQFAED-H 344 (784)
T ss_pred cccHHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHh-hcccccCCCCCHHHHHHHHHHHHHcCCCCChhHHhhcCCC-c
Confidence 4578999999999999999999999999999999986 32 125999999999999999999999999999965 4
Q ss_pred cccccc---cccHHHHHHHHhhhcCCCCCCcHHHHHHHHHHHHHHhHhhcC-----CCCCchHHHHHHhcCCCcccccch
Q 012005 81 KFKASL---TNDVEGMLSLYEVAHLAIPGEDILDEAIVFTTTHLKSMVTNS-----QVNSTFAEQIRHSLRVPLRRAVSR 152 (473)
Q Consensus 81 ~f~~~~---~~d~~~lL~LY~As~l~~~gE~iL~ea~~ft~~~L~~~~~~~-----~~~~~l~~~V~~aL~~P~~~~~~r 152 (473)
|++++ .+||+||||||||||+++|||+|||||+.||++||++.+.+. ..+++|++||+|||+.|||+++||
T Consensus 345 -F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~~~L~~eV~~AL~~P~~~~l~R 423 (784)
T PLN02279 345 -FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLRKYIKKEVEDALNFPYYANLER 423 (784)
T ss_pred -ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccCccHHHHHHHHhcCchhcCccH
Confidence 99988 599999999999999999999999999999999999988731 126789999999999999999999
Q ss_pred hhHHHHHHHhcCCCC------------CCHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHhhcccCCChhHHHhHHHHHHH
Q 012005 153 LESRYFLDIYSRDDL------------HDKTLLNFAKLDFNILQAMHQKEASEITRWWRDLDFLKKLPYIRERVVELYFW 220 (473)
Q Consensus 153 lear~yi~~y~~~~~------------~n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~faRdr~~e~yf~ 220 (473)
+|||+||++|++++. +|++||||||+|||+||++||+||++++|||+++|| .++||||||++|||||
T Consensus 424 lEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L-~~L~faRdr~ve~Yf~ 502 (784)
T PLN02279 424 LANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRL-DKLKFARQKLAYCYFS 502 (784)
T ss_pred HHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCC-ccCCchhhHHHHHHHH
Confidence 999999999999885 899999999999999999999999999999999999 6999999999999999
Q ss_pred hhhhcccCCCCcchhHHHHhHhhhhhhhhhhcccCCCHHHHHHHHHHHhccccc-ccccCChhHHHHHHHHHH-------
Q 012005 221 MLVGVSYEPNFSTGRIFLSKIICLETLVDDTFDAYGTFEELKIFTEAVARWDIG-HIDALPEYMKFIFKTLID------- 292 (473)
Q Consensus 221 ~~~~~~~eP~~s~~Rl~~ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~rWd~~-~~~~lpe~mk~~f~al~~------- 292 (473)
+ +|++|||++|.+|+++||.+++++++||+||+|||.||++.||+||+|||.+ .++.+|+|||++|.+|++
T Consensus 503 a-aa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~ 581 (784)
T PLN02279 503 A-AATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGD 581 (784)
T ss_pred H-HHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHH
Confidence 9 9999999999999999999999999999999999999999999999999998 568999999999999999
Q ss_pred -----------------HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccch
Q 012005 293 -----------------FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNP 355 (473)
Q Consensus 293 -----------------w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~ 355 (473)
|++++++|++||+|+.+||+||+||||+|+.+|+|+++++..+++++|..+|+++++| +++|
T Consensus 582 ~~~~~qGr~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~-~~~~ 660 (784)
T PLN02279 582 KAFTWQGRNVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDS-PELH 660 (784)
T ss_pred HHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhC-cchh
Confidence 9999999999999999999999999999999999999999999999999999999999 7999
Q ss_pred HHHHHHHHHHHHhcCccchhhhhccCCCcchhhHHhhcC--CCCHHHHHHHHHHHHHHHHHHHHHhcccCC--CCCCHhH
Q 012005 356 DIIIAAETIIRFLDDIAGHKFEQKREHNPSAVECYKNQH--GVSEEEAVKALSLAVANSWKVINEELLLNP--TAIPLPL 431 (473)
Q Consensus 356 ~l~~~~~~i~RL~NDI~S~~kE~~~G~~~n~V~cyM~e~--g~s~eeA~~~i~~~i~~~wk~ln~~~~l~~--~~~p~~~ 431 (473)
+|+++++.++||+|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+||++ ++++ +++|++|
T Consensus 661 ~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~-~l~~~~~~vp~~~ 738 (784)
T PLN02279 661 KLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRL-VLQEKGSNVPREC 738 (784)
T ss_pred HHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHH-HhccCCCCCCHHH
Confidence 9999999999999999999999999998 9999999986 8999999999999999999999999 9964 5799999
Q ss_pred HHHHHHHhhhhhhhcCcCCCCCCCchhHHHHHHHHhcCccCC
Q 012005 432 LQVIFDLSCSADFMYGDAQDRLTHSTMMKDQVELVLRDPIKL 473 (473)
Q Consensus 432 ~~~~ln~aR~~~~~Y~~~~D~~t~~~~~k~~i~sll~~Pi~i 473 (473)
++.++|++|++++||+++ ||||.+ .||++|++||++|||+
T Consensus 739 ~~~~ln~aR~~~~~Y~~~-Dgyt~~-~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 739 KDLFWKMSKVLHLFYRKD-DGFTSN-DMMSLVKSVIYEPVSL 778 (784)
T ss_pred HHHHHHHHHhhhhheeCC-CCCChH-HHHHHHHHHhccCCcC
Confidence 999999999999999999 999975 7999999999999985
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=3.1e-105 Score=877.19 Aligned_cols=421 Identities=22% Similarity=0.354 Sum_probs=381.9
Q ss_pred CCCcccchhhhHHHhhcCCccCcHHHHHHHHHHhhcC--CCC-------CCCChHHHHHHHHHHHhcCcccchhhhcccc
Q 012005 6 ADKPAQKLCLIDVVQRLGVAYHFIKEIDDALEKISHD--PFD-------DKDDIYIVSLCFRLLRQHGIKMSCDVFEKFK 76 (473)
Q Consensus 6 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~--~~~-------~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~ 76 (473)
+.+++++|++||+||||||+|||++||+++|+++|++ ... ...|+++|||+|||||||||+||||||++|+
T Consensus 307 P~d~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F~ 386 (800)
T PLN02592 307 PVDLFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHFE 386 (800)
T ss_pred CCcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhhc
Confidence 4578999999999999999999999999999999984 111 1269999999999999999999999999998
Q ss_pred cccccccccc---cccHHHHHHHHhhhcCCCCCCcHHHHHHHHHHHHHHhHhh-cCC-----CCCchHHHHHHhcCCCcc
Q 012005 77 DDDGKFKASL---TNDVEGMLSLYEVAHLAIPGEDILDEAIVFTTTHLKSMVT-NSQ-----VNSTFAEQIRHSLRVPLR 147 (473)
Q Consensus 77 d~~g~f~~~~---~~d~~~lL~LY~As~l~~~gE~iL~ea~~ft~~~L~~~~~-~~~-----~~~~l~~~V~~aL~~P~~ 147 (473)
+ +|+|++.+ .+|++||||||||||+++|||.|||||+.||++||++.++ +++ .+++|+++|+|||+.|||
T Consensus 387 ~-~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~~~L~~eV~~AL~~P~~ 465 (800)
T PLN02592 387 K-GGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWY 465 (800)
T ss_pred C-CCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhh
Confidence 6 89999766 7999999999999999999999999999999999999864 122 256899999999999999
Q ss_pred cccchhhHHHHHHHhcCCCCC-------------CHHHHHHHhhhhHHHHHhhHHHHHHHHHHHHhhcccCCChhHHHhH
Q 012005 148 RAVSRLESRYFLDIYSRDDLH-------------DKTLLNFAKLDFNILQAMHQKEASEITRWWRDLDFLKKLPYIRERV 214 (473)
Q Consensus 148 ~~~~rlear~yi~~y~~~~~~-------------n~~lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~faRdr~ 214 (473)
+++||+|||+||++|++++++ |+.||||||+|||+||++||+||++++|||+++|| .++||||||+
T Consensus 466 ~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsrWwke~~L-~~L~faRdr~ 544 (800)
T PLN02592 466 ASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQKWYEECNL-GEFGVSRSEL 544 (800)
T ss_pred cCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHhcCC-CcCCcchhHH
Confidence 999999999999999977664 99999999999999999999999999999999999 4999999999
Q ss_pred HHHHHHhhhhcccCCCCcchhHHHHhHhhhhhhhhhhcccCCCHHHHHHHHHHHh--------cccccccccCCh-----
Q 012005 215 VELYFWMLVGVSYEPNFSTGRIFLSKIICLETLVDDTFDAYGTFEELKIFTEAVA--------RWDIGHIDALPE----- 281 (473)
Q Consensus 215 ~e~yf~~~~~~~~eP~~s~~Rl~~ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~--------rWd~~~~~~lpe----- 281 (473)
+|||||+ +|++|||++|.+|+++||.+++++++||+||+|||.||+++||++|+ |||.+++++||+
T Consensus 545 ve~Yfwa-~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~ 623 (800)
T PLN02592 545 LLAYFLA-AASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSV 623 (800)
T ss_pred HHHHHHH-HHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccch
Confidence 9999999 99999999999999999999999999999999999999999999996 899999999988
Q ss_pred -hHHHHHHHHHH------------------------HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHH
Q 012005 282 -YMKFIFKTLID------------------------FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASF 336 (473)
Q Consensus 282 -~mk~~f~al~~------------------------w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~ 336 (473)
|||+||.||++ |.++++ +|..+|+ .|+|...+++.++
T Consensus 624 ~~mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~ 685 (800)
T PLN02592 624 KTGEELVGLLLGTLNQLSLDALEAHGRDISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTI 685 (800)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHH
Confidence 99999999999 888887 6777776 4456677777777
Q ss_pred H-HcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhhhccCCCcchhhHHhhcCC-CCHHHHHHHHHHHHHHHHH
Q 012005 337 I-FMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFEQKREHNPSAVECYKNQHG-VSEEEAVKALSLAVANSWK 414 (473)
Q Consensus 337 ~-~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE~~~G~~~n~V~cyM~e~g-~s~eeA~~~i~~~i~~~wk 414 (473)
+ .+|..+|+++++ +|++.++++.+.||+||+.|+++|+.. .| +++ +|.+++.+.|+.+++
T Consensus 686 ~l~~g~~lsee~l~----~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~ 747 (800)
T PLN02592 686 NLTAGRSLSEELLA----HPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQ 747 (800)
T ss_pred HHhcCCCCCHHHcc----chhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHH
Confidence 7 569999999986 589999999999999999999998741 23 455 899999999999999
Q ss_pred HHHHhcccC-C-CCCCHhHHHHHHHHhhhhhhhcCcCCCCCCCchhHHHHHHHHhcCccC
Q 012005 415 VINEELLLN-P-TAIPLPLLQVIFDLSCSADFMYGDAQDRLTHSTMMKDQVELVLRDPIK 472 (473)
Q Consensus 415 ~ln~~~~l~-~-~~~p~~~~~~~ln~aR~~~~~Y~~~~D~~t~~~~~k~~i~sll~~Pi~ 472 (473)
++.+. +++ + +.+|++|++.|||++| +||. .||+.|++|+.+|..+|++||+
T Consensus 748 eL~~l-vl~~~~~~vp~~cK~~f~~~~k---~fy~---~~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 748 ELVQL-VLQNSSDDIDPVIKQTFLMVAK---SFYY---AAYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHH-HhhcCCCCCCHHHHHHHHHHHH---HHHH---hhcCCHHHHHHHHHHHhCCCCC
Confidence 99999 886 3 5699999999999999 5666 3899999999999999999985
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=376.17 Aligned_cols=136 Identities=54% Similarity=0.902 Sum_probs=118.0
Q ss_pred CCCcccchhhhHHHhhcCCccCcHHHHHHHHHHhhcCCCCC----CCChHHHHHHHHHHHhcCcccchhhhccccccccc
Q 012005 6 ADKPAQKLCLIDVVQRLGVAYHFIKEIDDALEKISHDPFDD----KDDIYIVSLCFRLLRQHGIKMSCDVFEKFKDDDGK 81 (473)
Q Consensus 6 ~~~~~~~l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~~----~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~d~~g~ 81 (473)
..|++++|+|||+||||||+|||++||+++|+++|+. +.. ..||++|||+|||||||||+||||||++|+|++|+
T Consensus 43 ~~d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~-~~~~~~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~ 121 (183)
T PF01397_consen 43 YPDPLEKLELIDTLQRLGISYHFEDEIKEILDSIYRS-WDEDNEEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKGN 121 (183)
T ss_dssp SSHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHT-TTTTSHTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTSS
T ss_pred CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhh-ccccccccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCCc
Confidence 3479999999999999999999999999999999987 332 24999999999999999999999999999999999
Q ss_pred ccccccccHHHHHHHHhhhcCCCCCCcHHHHHHHHHHHHHHhHhhc-CCCCCchHHHHHHhc
Q 012005 82 FKASLTNDVEGMLSLYEVAHLAIPGEDILDEAIVFTTTHLKSMVTN-SQVNSTFAEQIRHSL 142 (473)
Q Consensus 82 f~~~~~~d~~~lL~LY~As~l~~~gE~iL~ea~~ft~~~L~~~~~~-~~~~~~l~~~V~~aL 142 (473)
|++++++||+||||||||||+++|||+|||||+.||++||++++++ ...+++|+++|+|||
T Consensus 122 F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Ft~~~L~~~~~~~~~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 122 FKESLSNDVKGLLSLYEASHLRFHGEDILDEARAFTTKHLKSLLSNLSIPDPHLAKEVKHAL 183 (183)
T ss_dssp BSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHHHHHHHHHHHTTTCTTSCHHHHHHHHHH
T ss_pred cchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHhC
Confidence 9999999999999999999999999999999999999999999974 221235999999997
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=3.5e-47 Score=374.79 Aligned_cols=245 Identities=29% Similarity=0.429 Sum_probs=225.9
Q ss_pred HHHHHhhhhHHHHHhhHHHHHHHHHHHHhhcccCCChhHHHhHHHHHHHhhhhcccCCCCcchhHHHHhHhhhhhhhhhh
Q 012005 172 LLNFAKLDFNILQAMHQKEASEITRWWRDLDFLKKLPYIRERVVELYFWMLVGVSYEPNFSTGRIFLSKIICLETLVDDT 251 (473)
Q Consensus 172 lL~lAkldFn~~Q~~hq~El~~lsrW~~~~~l~~~l~faRdr~~e~yf~~~~~~~~eP~~s~~Rl~~ak~~~l~~~~DD~ 251 (473)
+|+|||+|||.||++||+|++++++||+++|+..+.+.+|+|+..++|+. ++++++|+.+..|+++||+++|+|++||+
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~~~~~~~~~~~~~-~aa~~~P~~~~~l~~~a~~~~w~f~~DD~ 79 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKAARQRFRQAYFGL-LAARFYPDSSDELLAAADWMAWLFIFDDF 79 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTTSHHHHHHHHHHH-HHHHHSGCGHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCccccccchhhhhHhHHhh-hhheeCCCcHHHHHHHHhhchheeeeeec
Confidence 68999999999999999999999999999999667776799999999999 88888899666667999999999999999
Q ss_pred cccCCCHHHHHHHHHHHhcccccccccCChhHHHHHHHHHH-------------------------HHHHHHHHHHHHHH
Q 012005 252 FDAYGTFEELKIFTEAVARWDIGHIDALPEYMKFIFKTLID-------------------------FQELVMKYFCEAKW 306 (473)
Q Consensus 252 fD~~gt~eEl~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~-------------------------w~~~~~a~l~EA~W 306 (473)
||.+|+.++++.+++++.+|++.....+|+++++++.++.+ |.++++++++|++|
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 99999999999999999999987778889999999888877 77889999999999
Q ss_pred hhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhhhccCCCcch
Q 012005 307 LNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFEQKREHNPSA 386 (473)
Q Consensus 307 ~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE~~~G~~~n~ 386 (473)
+..|++||++||+++|+.|+|+++++.++.+++|..++++..+++.+.|.+.++++.+++|+|||+||+||+++|+.+|+
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 99999999999999999999999999999999987667666666556677999999999999999999999999999999
Q ss_pred hhHHhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 012005 387 VECYKNQHGVSEEEAVKALSLAVANSWKVIN 417 (473)
Q Consensus 387 V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln 417 (473)
|.|+|+++|+|.|+|++++.+|+++++++||
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=3.7e-44 Score=355.73 Aligned_cols=259 Identities=47% Similarity=0.860 Sum_probs=242.9
Q ss_pred hhHHHHHHHHHHHHhhcccCCChhHHHhHHHHHHHhhhhcccCCCCcchhHHHHhHhhhhhhhhhhcccCCCHHHHHHHH
Q 012005 186 MHQKEASEITRWWRDLDFLKKLPYIRERVVELYFWMLVGVSYEPNFSTGRIFLSKIICLETLVDDTFDAYGTFEELKIFT 265 (473)
Q Consensus 186 ~hq~El~~lsrW~~~~~l~~~l~faRdr~~e~yf~~~~~~~~eP~~s~~Rl~~ak~~~l~~~~DD~fD~~gt~eEl~~ft 265 (473)
.||+|++++++||+++||....+++|.+...+|+|+ ++++|+|+.+..|+++||+++|+|++||+||.+++.+++..++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~~r~~~~~~~~~~-a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~ 79 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPFARDRLVECYFWA-AGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFT 79 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCchhhHhHHHHHHH-HHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHH
Confidence 499999999999999999755559999999999999 9999999999999999999999999999999999999999999
Q ss_pred HHHhcccccccccCChhHHHHHHHHHH------------------------HHHHHHHHHHHHHHhhcCCCCChhhhhhh
Q 012005 266 EAVARWDIGHIDALPEYMKFIFKTLID------------------------FQELVMKYFCEAKWLNEGYVPSMDEYKSV 321 (473)
Q Consensus 266 ~ai~rWd~~~~~~lpe~mk~~f~al~~------------------------w~~~~~a~l~EA~W~~~g~iPtleEYl~~ 321 (473)
++++||+....+.+|+++++++.++.+ |..+++++.+|++|+..|++||++||+.+
T Consensus 80 ~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~ 159 (284)
T cd00868 80 EAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLEN 159 (284)
T ss_pred HHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHh
Confidence 999999988888999999999999987 88999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhhhccCCCcchhhHHhhcCCCCHHHH
Q 012005 322 SLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFEQKREHNPSAVECYKNQHGVSEEEA 401 (473)
Q Consensus 322 r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE~~~G~~~n~V~cyM~e~g~s~eeA 401 (473)
|+.|+|++++++++++++|..+|++.+.+.+..+++++.++.+++|+||++||+||+.+|+.+|+|.|||+++|+|.++|
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 99999999999999999999999944444489999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcccCC-CCCCHhHHHHHHHHhhhhhhhc
Q 012005 402 VKALSLAVANSWKVINEELLLNP-TAIPLPLLQVIFDLSCSADFMY 446 (473)
Q Consensus 402 ~~~i~~~i~~~wk~ln~~~~l~~-~~~p~~~~~~~ln~aR~~~~~Y 446 (473)
++++.++++++|+++++. ..+. ++.|+.+++.+.|.+|.....|
T Consensus 240 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 240 LEELRKMIEEAWKELNEE-VLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHHHHHHH-HhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 999999999999999999 7753 4688999999999999887665
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=8.8e-34 Score=285.36 Aligned_cols=226 Identities=18% Similarity=0.157 Sum_probs=198.0
Q ss_pred HHHH-HHHHHHhhcccCCChhHHHhHHHHHHHhhhhcccCCCCcchhH-HHHhHhhhhhhhhhhcccC-CCHHHHHHHHH
Q 012005 190 EASE-ITRWWRDLDFLKKLPYIRERVVELYFWMLVGVSYEPNFSTGRI-FLSKIICLETLVDDTFDAY-GTFEELKIFTE 266 (473)
Q Consensus 190 El~~-lsrW~~~~~l~~~l~faRdr~~e~yf~~~~~~~~eP~~s~~Rl-~~ak~~~l~~~~DD~fD~~-gt~eEl~~ft~ 266 (473)
+++. ...|.++.|+. .-+.+|+++.+++|+. +++++.|+++..|+ ++|+++.|+|++||+||.. +++++.+.+++
T Consensus 14 ~~~~~~~~w~~~~~l~-~~~~~~~~~~~~~~~~-~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~ 91 (303)
T cd00687 14 EAQDEYLEWVLEEMLI-PSEKAEKRFLSADFGD-LAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVT 91 (303)
T ss_pred HHHHHHHHHHHHcCCC-CcchhHHHHhcCCHHH-HHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHH
Confidence 4444 44699999774 3456999999999988 77788899999999 7789999999999999987 58999999998
Q ss_pred HHhccccc-ccccCChhHHHHHHHHHH--------------------HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccc
Q 012005 267 AVARWDIG-HIDALPEYMKFIFKTLID--------------------FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRS 325 (473)
Q Consensus 267 ai~rWd~~-~~~~lpe~mk~~f~al~~--------------------w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S 325 (473)
.+.++... ..+. |....++..++.+ |.+++.++++|++|+.+|++||++||+++|+.|
T Consensus 92 ~~~~~~~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~ 170 (303)
T cd00687 92 RLLDILRGDGLDS-PDDATPLEFGLADLWRRTLARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFN 170 (303)
T ss_pred HHHhccCCCCCCC-CCCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhc
Confidence 88885443 2221 3444455555544 889999999999999999999999999999999
Q ss_pred cchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhhh-ccCCCcchhhHHhhcCCCCHHHHHHH
Q 012005 326 IDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFEQ-KREHNPSAVECYKNQHGVSEEEAVKA 404 (473)
Q Consensus 326 ~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE~-~~G~~~n~V~cyM~e~g~s~eeA~~~ 404 (473)
+|+++++.++++++|..+|+++.++ +...++.++++.+++|+|||+||+||+ +.|+.+|+|.|+|+++|+|.|+|+++
T Consensus 171 ~g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~ 249 (303)
T cd00687 171 IGADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISV 249 (303)
T ss_pred ccccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHH
Confidence 9999999999999999999999988 778889999999999999999999999 89999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHh
Q 012005 405 LSLAVANSWKVINEE 419 (473)
Q Consensus 405 i~~~i~~~wk~ln~~ 419 (473)
+.++++++++++.+.
T Consensus 250 ~~~~~~~~~~~f~~~ 264 (303)
T cd00687 250 VRDMHNERITQFEEL 264 (303)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999999876
No 8
>PLN02150 terpene synthase/cyclase family protein
Probab=99.97 E-value=7.2e-31 Score=220.78 Aligned_cols=94 Identities=31% Similarity=0.562 Sum_probs=91.3
Q ss_pred hccCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCHhHHHHHHHHhhhhhhh-cCcCCCCCCCc
Q 012005 378 QKREHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFM-YGDAQDRLTHS 456 (473)
Q Consensus 378 ~~~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~~~l~~~~~p~~~~~~~ln~aR~~~~~-Y~~~~D~~t~~ 456 (473)
++|||++|+|+|||||||+|+|||+++++++|+++||++|++ +++++++|++++++++|+||+++|+ |++| ||||.+
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e-~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~-Dg~t~~ 78 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEE-FLTIKDVPRPVLVRCLNLARLIDVYCYNEG-DGFTYP 78 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHH-HcCCCCCCHHHHHHHHHHHHHHHhheecCC-CCCCCC
Confidence 578999999999999999999999999999999999999999 9999999999999999999999999 9999 999987
Q ss_pred -hhHHHHHHHHhcCccCC
Q 012005 457 -TMMKDQVELVLRDPIKL 473 (473)
Q Consensus 457 -~~~k~~i~sll~~Pi~i 473 (473)
+.+|++|++||++||||
T Consensus 79 ~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 79 HGKLKDLITSLFFHPLPL 96 (96)
T ss_pred cHHHHHHHHHHhccCCCC
Confidence 78999999999999986
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=99.81 E-value=8.1e-20 Score=173.37 Aligned_cols=207 Identities=24% Similarity=0.249 Sum_probs=160.0
Q ss_pred hhcccCCCCcchhHHHHhHhhhhhhhhhhcccCCCHHHHHHHHHHHhcccccccccCChhHHHH----------------
Q 012005 223 VGVSYEPNFSTGRIFLSKIICLETLVDDTFDAYGTFEELKIFTEAVARWDIGHIDALPEYMKFI---------------- 286 (473)
Q Consensus 223 ~~~~~eP~~s~~Rl~~ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lpe~mk~~---------------- 286 (473)
+++++.|+.+..|..++++.+|++++||++|..++..........+..+ ..|..+...
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (243)
T cd00385 4 LAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAID------GLPEAILAGDLLLADAFEELAREGS 77 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhc------CchHHHHHHHHHHHHHHHHHHhCCC
Confidence 5567888888999999999999999999999877665544443322111 112222121
Q ss_pred ---HHHHHH-HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHH
Q 012005 287 ---FKTLID-FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAE 362 (473)
Q Consensus 287 ---f~al~~-w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~ 362 (473)
+..+.+ |.+++.++.+|+.|+.+ ..||++||+.++..++ +.++..++..+++...|+ ..+.+...++....+
T Consensus 78 ~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~g 153 (243)
T cd00385 78 PEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGE--AELLEALRKLGRALG 153 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHHH
Confidence 222222 88999999999999877 8899999999999998 555666677777766665 333366788999999
Q ss_pred HHHHHhcCccchhhhhccC-CCcchhhHHhhcCCC------------CHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCH
Q 012005 363 TIIRFLDDIAGHKFEQKRE-HNPSAVECYKNQHGV------------SEEEAVKALSLAVANSWKVINEELLLNPTAIPL 429 (473)
Q Consensus 363 ~i~RL~NDI~S~~kE~~~G-~~~n~V~cyM~e~g~------------s~eeA~~~i~~~i~~~wk~ln~~~~l~~~~~p~ 429 (473)
.+.+|.||+.|+.+|.++| +.+|++.++|+++|+ +.++|.+++..+++++|+++++. .......++
T Consensus 154 ~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 232 (243)
T cd00385 154 LAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNEL-ILSLPDVPR 232 (243)
T ss_pred HHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcC-CCCcHHHHH
Confidence 9999999999999999986 678999999999999 88999999999999999999998 544224567
Q ss_pred hHHHHHHHHhh
Q 012005 430 PLLQVIFDLSC 440 (473)
Q Consensus 430 ~~~~~~ln~aR 440 (473)
++++.+.++.|
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=97.66 E-value=0.00081 Score=68.38 Aligned_cols=203 Identities=17% Similarity=0.150 Sum_probs=122.3
Q ss_pred HhhhhcccCCC--CcchhH-HHHhHhhhhhhhhhhcccCCCHHHHHHHHHHHhcccccccccCC--hhHHHHHHHHHH--
Q 012005 220 WMLVGVSYEPN--FSTGRI-FLSKIICLETLVDDTFDAYGTFEELKIFTEAVARWDIGHIDALP--EYMKFIFKTLID-- 292 (473)
Q Consensus 220 ~~~~~~~~eP~--~s~~Rl-~~ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lp--e~mk~~f~al~~-- 292 (473)
.+ +++..+|- .|..=+ .++-..+.++++||.-|.. .+.+..|.+-+.. +.+-+ -| ..+...+..+..
T Consensus 69 T~-v~~~~Y~w~~~skev~~~isi~~tY~~~lDD~~~e~--~~~m~~f~~dL~~--G~~qk-hP~l~~v~~~l~~~lr~f 142 (357)
T cd00686 69 TI-VGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDP--YPTMVNYFDDLQA--GREQA-HPWWALVNEHFPNVLRHF 142 (357)
T ss_pred Hh-hceEEeeccCCCHHHHHHHHHHHheeeEeccccccc--chHHHHHHHHHhc--CCCCC-CcHHHHHHHHHHHHHHHh
Confidence 44 55533354 665544 6677778899999997754 3456666655543 11111 11 122222222222
Q ss_pred -----------HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHH
Q 012005 293 -----------FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAA 361 (473)
Q Consensus 293 -----------w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~ 361 (473)
--+++.+.+-|.. +-+..|.-.+|-...|.=+|.+-+.+.+. .|++.|.-..-+..+..+.
T Consensus 143 GpF~s~~IikSTLdFv~g~~iEq~--nf~~~p~A~~fP~ylR~ksGl~E~yA~Fi------FPk~~FpE~~~~~qi~~AI 214 (357)
T cd00686 143 GPFCSLNLIRSTLDFFEGCWIEQY--NFGGFPGSHDYPQFLRRMNGLGHCVGASL------WPKEQFNERSLFLEITSAI 214 (357)
T ss_pred hhhhHHHHHHHHHHHHHHHHHhhh--ccCCCCCCcccchHHHhccCCcceeEEEe------cchhhCchHhhHHHhhHHH
Confidence 4577778887855 33447777788888777777766654432 2444433222233333344
Q ss_pred H---HHHHHhcCccchhhhhcc-CCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCHhHHHHHHH
Q 012005 362 E---TIIRFLDDIAGHKFEQKR-EHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFD 437 (473)
Q Consensus 362 ~---~i~RL~NDI~S~~kE~~~-G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~~~l~~~~~p~~~~~~~ln 437 (473)
. ..+-++|||.||=||... ++..|.|.-|.+.+|+|..+|.+.+.+-.-.+-+++.+ +|.+.. | .++..+=+
T Consensus 215 p~~~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~--VLse~d-p-~l~~av~~ 290 (357)
T cd00686 215 AQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA--VFSDKD-P-QVMDTIEC 290 (357)
T ss_pred HHHHHHHHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH--HhcCCC-h-HHHHHHHH
Confidence 4 345589999999999754 45578888888889999999999887777777777766 455432 3 23344444
Q ss_pred Hhh
Q 012005 438 LSC 440 (473)
Q Consensus 438 ~aR 440 (473)
+++
T Consensus 291 Fi~ 293 (357)
T cd00686 291 FMH 293 (357)
T ss_pred HHH
Confidence 444
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=97.51 E-value=0.0019 Score=66.72 Aligned_cols=181 Identities=13% Similarity=0.105 Sum_probs=105.6
Q ss_pred cccCCCCcch-hHHHHhHhhhhhhhhhhcccCCCHHHHHHHHHHHhcccccccccCChhHHHHHHHHHH-----------
Q 012005 225 VSYEPNFSTG-RIFLSKIICLETLVDDTFDAYGTFEELKIFTEAVARWDIGHIDALPEYMKFIFKTLID----------- 292 (473)
Q Consensus 225 ~~~eP~~s~~-Rl~~ak~~~l~~~~DD~fD~~gt~eEl~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~----------- 292 (473)
++..|..+.. ++.++=+.++++.+||.++.. .+++..|-+-+-. ...-+ - ..+.-+...|-+
T Consensus 75 ~~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~Q~-~-p~L~~~~~~L~~~~~~fgpf~an 148 (376)
T PF06330_consen 75 VYCYPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQPQK-H-PLLDGFASLLREMWRHFGPFCAN 148 (376)
T ss_dssp HHHSTTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH--T---S-S-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred EeecCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc--CCCCC-C-HHHHHHHHHHHHHHHHcchHHHH
Confidence 3445777765 458889999999999998765 4666666654443 11111 1 122222222222
Q ss_pred -----HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchH---HHHHHHHH
Q 012005 293 -----FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPD---IIIAAETI 364 (473)
Q Consensus 293 -----w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~---l~~~~~~i 364 (473)
--+++.+..-|.+.. +-.|.-..|-...|.=+|...+.+...+- ...-|+. ..+.. .+--....
T Consensus 149 mI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiFP-k~~fpe~-----~~~~~y~~AIpdl~~f 220 (376)
T PF06330_consen 149 MIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIFP-KALFPEV-----EYFIQYTPAIPDLMRF 220 (376)
T ss_dssp HHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT---TTTS-TT-----TTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeecc-cccCChH-----HHHHHHHHHHHHHHHH
Confidence 447777888786532 33465556666666667777776654332 1222322 22233 33344445
Q ss_pred HHHhcCccchhhhhc-cCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 012005 365 IRFLDDIAGHKFEQK-REHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEE 419 (473)
Q Consensus 365 ~RL~NDI~S~~kE~~-~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~ 419 (473)
+-++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|.+.+..-.-.+-+++.+.
T Consensus 221 i~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~v 276 (376)
T PF06330_consen 221 INYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRV 276 (376)
T ss_dssp HHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 569999999999977 7888999988887789999999999866666666776664
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=90.66 E-value=8.7 Score=37.77 Aligned_cols=173 Identities=14% Similarity=0.113 Sum_probs=94.7
Q ss_pred chhHHHHhHhhhhhhhhhhcccCCCHH----HHHHHHHHHhcccccccccCChhHHHHHHHHHH-----------HHHHH
Q 012005 233 TGRIFLSKIICLETLVDDTFDAYGTFE----ELKIFTEAVARWDIGHIDALPEYMKFIFKTLID-----------FQELV 297 (473)
Q Consensus 233 ~~Rl~~ak~~~l~~~~DD~fD~~gt~e----El~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~-----------w~~~~ 297 (473)
..|-.+.-+-.+.-.+||+-|...... .++-+-+++...-.+..+..+....++..++.+ +.+++
T Consensus 18 ~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~~l~~~~l~~li 97 (267)
T PF00494_consen 18 EKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRYGLPREPLLELI 97 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 355555667777888999999766432 244555555543211222334455677777766 56666
Q ss_pred HHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhh
Q 012005 298 MKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFE 377 (473)
Q Consensus 298 ~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE 377 (473)
.++-+. .....++|++|+......+.|....+++..++..... .+..+. ....+..+-+.|=+......
T Consensus 98 ~~~~~d---l~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~~-~~~~~~-------a~~lG~alql~nilRd~~~D 166 (267)
T PF00494_consen 98 DGMEMD---LEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHDPD-EAARDA-------ARALGRALQLTNILRDIPED 166 (267)
T ss_dssp HHHHHC---TT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSSTSH-HHHHHH-------HHHHHHHHHHHHHHHTHHHH
T ss_pred HHhccc---ccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccch-hhHHHH-------HHHHHHHHHHHHHHHHhHHH
Confidence 666433 3335578999999999988888777776666653111 123332 23333333333333334444
Q ss_pred -hccCCC--cchhhHHhhcCCCCHHHHHHH----------HHHHHHHHHHHHHHh
Q 012005 378 -QKREHN--PSAVECYKNQHGVSEEEAVKA----------LSLAVANSWKVINEE 419 (473)
Q Consensus 378 -~~~G~~--~n~V~cyM~e~g~s~eeA~~~----------i~~~i~~~wk~ln~~ 419 (473)
..+|-+ +. =.|.++|+|.++-... +..++..+...+.+.
T Consensus 167 ~~~~gR~ylP~---d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a 218 (267)
T PF00494_consen 167 ALRRGRIYLPL---DDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEA 218 (267)
T ss_dssp -HHTT---S-H---HHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhcccccCCc---hhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 445543 22 2567889988765432 455555555555544
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=89.25 E-value=6.5 Score=37.72 Aligned_cols=111 Identities=11% Similarity=0.032 Sum_probs=73.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhccc-ccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLR-SIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDI 371 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~-S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI 371 (473)
...++.+...+..|..+ ..||.++|.+.... |+++.-..+......+. -+++..+. ..++.+..+...-+.||+
T Consensus 94 ~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~lG~a~Qi~dd~ 168 (236)
T cd00867 94 LRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAEA---LKDYGRALGLAFQLTDDL 168 (236)
T ss_pred HHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHHH---HHHHHHHHHHHHHHHHHh
Confidence 67888888888888654 57899999999988 66654443332222222 23333332 367778888888999999
Q ss_pred cchhhhh----------ccCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 012005 372 AGHKFEQ----------KREHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEE 419 (473)
Q Consensus 372 ~S~~kE~----------~~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~ 419 (473)
..+.... ++|.. +...+++ .+.+.+..+++++.+.+.
T Consensus 169 ~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~~ 215 (236)
T cd00867 169 LDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEAL 215 (236)
T ss_pred ccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHhC
Confidence 9876644 45544 5555555 666667777777766654
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=85.66 E-value=39 Score=33.43 Aligned_cols=176 Identities=15% Similarity=0.112 Sum_probs=87.9
Q ss_pred hhHHHHhHhhhhhhhhhhcccCCCHHH----HHHHHHHHhcccccccccCChhHHHHHHHHHH-----------HHHHHH
Q 012005 234 GRIFLSKIICLETLVDDTFDAYGTFEE----LKIFTEAVARWDIGHIDALPEYMKFIFKTLID-----------FQELVM 298 (473)
Q Consensus 234 ~Rl~~ak~~~l~~~~DD~fD~~gt~eE----l~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~-----------w~~~~~ 298 (473)
.|-.++-+-.+.-.+||+-|..+++++ ++-+-+++..-... . |. .++..++.+ +.+++.
T Consensus 19 ~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~g---~-~~--~pv~~al~~~~~~~~l~~~~~~~li~ 92 (266)
T TIGR03465 19 RRRAMTALYAFCREVDDIVDEDSDPEVAQAKLAWWRAEIDRLYAG---A-PS--HPVARALADPARRFDLPQEDFLEVID 92 (266)
T ss_pred HHHHHHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHhCC---C-CC--ChHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 444445566666778999997544332 22222222221111 1 21 234444433 666666
Q ss_pred HHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHH---HHHHhcCccchh
Q 012005 299 KYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAET---IIRFLDDIAGHK 375 (473)
Q Consensus 299 a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~---i~RL~NDI~S~~ 375 (473)
++-+.. ....++|++|+......+.|+-..+++-.++.. ++..... ....+. ++.++-|+.
T Consensus 93 g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~~-------a~~lG~AlqltnilRdv~--- 156 (266)
T TIGR03465 93 GMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLEY-------AHHLGRALQLTNILRDVG--- 156 (266)
T ss_pred HHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHHH-------HHHHHHHHHHHHHHHHhH---
Confidence 664333 334578999988888877776665555444321 1222222 222222 333344553
Q ss_pred hhhccCCCcchhhHHhhcCCCCHH---------HHHHHHHHHHHHHHHHHHHhcccCCCCCCHhHHH
Q 012005 376 FEQKREHNPSAVECYKNQHGVSEE---------EAVKALSLAVANSWKVINEELLLNPTAIPLPLLQ 433 (473)
Q Consensus 376 kE~~~G~~~n~V~cyM~e~g~s~e---------eA~~~i~~~i~~~wk~ln~~~~l~~~~~p~~~~~ 433 (473)
...++|-+ -+=.=.|.++|+|.+ ...+-+..+++.+..-+.+. .--...+|.....
T Consensus 157 eD~~~gR~-ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a-~~~~~~~p~~~~~ 221 (266)
T TIGR03465 157 EDARRGRI-YLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEA-DALLPACDRRAQR 221 (266)
T ss_pred HHHhCCCe-ecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHH-HHhhhhCCHhhhH
Confidence 33446653 111124567888766 34455666666666655554 2212457754443
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=82.80 E-value=52 Score=32.56 Aligned_cols=96 Identities=18% Similarity=0.145 Sum_probs=52.4
Q ss_pred hhHHHHhHhhhhhhhhhhcccC-CCHHH----HHHHHHHHhc-ccccccccCChhHHHHHHHHHH-----------HHHH
Q 012005 234 GRIFLSKIICLETLVDDTFDAY-GTFEE----LKIFTEAVAR-WDIGHIDALPEYMKFIFKTLID-----------FQEL 296 (473)
Q Consensus 234 ~Rl~~ak~~~l~~~~DD~fD~~-gt~eE----l~~ft~ai~r-Wd~~~~~~lpe~mk~~f~al~~-----------w~~~ 296 (473)
.|-.+.-+-.+.=.+||+-|.. .+.++ ++.+-+.+.. .... |+ .++..++.+ +.++
T Consensus 19 ~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~~~g~-----~~--~pv~~aL~~~~~~~~l~~~~~~~l 91 (266)
T TIGR03464 19 LRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDAIYSGE-----PA--APVFVALARTVQRHGLPIEPFLDL 91 (266)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHHHhCCC-----CC--ChHHHHHHHHHHHcCCChHHHHHH
Confidence 3443344555557899999975 34433 3333333332 1111 11 134444444 5566
Q ss_pred HHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHc
Q 012005 297 VMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFM 339 (473)
Q Consensus 297 ~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~ 339 (473)
+.++.... .....+|++|.......+.|+--.+++..++.
T Consensus 92 i~~~~~Dl---~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~ 131 (266)
T TIGR03464 92 LDAFRQDV---VVTRYATWAELLDYCRYSANPVGRLVLDLYGA 131 (266)
T ss_pred HHHHHHhc---cCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCC
Confidence 66653222 23456799998888888877766666555443
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=80.99 E-value=60 Score=31.97 Aligned_cols=183 Identities=16% Similarity=0.157 Sum_probs=91.2
Q ss_pred hhHHHHhHhhhhhhhhhhcccCCCH-----HHHHHHHHHHhcccccccccCChhHHHHHHHHHH-----------HHHHH
Q 012005 234 GRIFLSKIICLETLVDDTFDAYGTF-----EELKIFTEAVARWDIGHIDALPEYMKFIFKTLID-----------FQELV 297 (473)
Q Consensus 234 ~Rl~~ak~~~l~~~~DD~fD~~gt~-----eEl~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~-----------w~~~~ 297 (473)
.|-.+.-+-.+--.+||+-|..... ..++-+.+++..-... ..-+. ++..++.+ +.+++
T Consensus 25 ~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~--~~~~~---pv~~al~~~~~~~~l~~~~~~~li 99 (265)
T cd00683 25 LRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYWG--GAPTH---PVLRALADLARRYGIPREPFRDLL 99 (265)
T ss_pred HHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcC--CCCCC---hHHHHHHHHHHHcCCCHHHHHHHH
Confidence 4444445556666789999965432 2333444444431111 11111 33444433 67777
Q ss_pred HHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHH---HHHHhcCccch
Q 012005 298 MKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAET---IIRFLDDIAGH 374 (473)
Q Consensus 298 ~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~---i~RL~NDI~S~ 374 (473)
.++-.... ....||++|.......+.|+--.+++..++.+ -+++... .....+. ++.++-|+.
T Consensus 100 ~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~-------~A~~lG~AlqltnilRdv~-- 165 (265)
T cd00683 100 AGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALE-------RARALGLALQLTNILRDVG-- 165 (265)
T ss_pred HHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHH-------HHHHHHHHHHHHHHHHHHH--
Confidence 77754444 45678998888888777776655555444431 1222222 2222222 333334444
Q ss_pred hhhhccCCC--cchhhHHhhcCCCCHHHH---------HHHHHHHHHHHHHHHHHhcccCCCCCCHhHHHHHHHHhh
Q 012005 375 KFEQKREHN--PSAVECYKNQHGVSEEEA---------VKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSC 440 (473)
Q Consensus 375 ~kE~~~G~~--~n~V~cyM~e~g~s~eeA---------~~~i~~~i~~~wk~ln~~~~l~~~~~p~~~~~~~ln~aR 440 (473)
...++|-+ +.- -|.++|+|.++- ..-+..+++.+.+-+... .-....+|....-.++-++.
T Consensus 166 -eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a-~~~~~~lp~~~~~~~~~~~~ 237 (265)
T cd00683 166 -EDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREA-LAGLAALPRRSRFCVRAAAM 237 (265)
T ss_pred -HHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHH-HHhHHhCCHhhHHHHHHHHH
Confidence 23345542 221 367788877552 244555666665555544 22223477554444444433
No 17
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=70.88 E-value=47 Score=32.68 Aligned_cols=113 Identities=12% Similarity=-0.092 Sum_probs=70.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
....+.+...+..|... ..||.++|++....-+|.....+....++--..+++..+- ..++-+..+...-+.||+.
T Consensus 117 ~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG~afQi~DD~l 192 (259)
T cd00685 117 ILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLGLAFQIQDDIL 192 (259)
T ss_pred HHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHHHHHHHHhh
Confidence 66788888888888654 5799999999987777766443332222111123444333 3677778888888899988
Q ss_pred chhhhh-----------ccCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 012005 373 GHKFEQ-----------KREHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEE 419 (473)
Q Consensus 373 S~~kE~-----------~~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~ 419 (473)
.+.... .+|.. |...++.. .+.+...++++++.+...
T Consensus 193 d~~~~~~~~gK~~~~Di~~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~~~ 240 (259)
T cd00685 193 DLFGDPETLGKPVGSDLREGKC-TLPVLLAL---------RELAREYEEKALEALKAL 240 (259)
T ss_pred cccCChHHHCCCcchHHHcCCc-hHHHHHHH---------HHHHHHHHHHHHHHHHcC
Confidence 765432 12222 44444433 556677777777766654
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=65.36 E-value=1.2e+02 Score=31.19 Aligned_cols=79 Identities=10% Similarity=-0.035 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
...++.+-+.+..|... ..+|.++|+..-..=+|.....++..-++--..+++..+. ..++-+..+...-+.||+.
T Consensus 142 ~~~~~~Gq~~~~~~~~~-~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~---l~~~G~~lG~aFQi~DDil 217 (322)
T TIGR02749 142 ITDFAEGEIKQGLNQFD-SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAND---LYEYGKHLGLAFQVVDDIL 217 (322)
T ss_pred HHHHHHHHHHHHHcccC-CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHHHHHHHHHhc
Confidence 45677777777766433 3479999999766555554333221111112345555554 3677788888899999998
Q ss_pred chh
Q 012005 373 GHK 375 (473)
Q Consensus 373 S~~ 375 (473)
.+.
T Consensus 218 d~~ 220 (322)
T TIGR02749 218 DFT 220 (322)
T ss_pred cCC
Confidence 875
No 19
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=63.49 E-value=84 Score=32.21 Aligned_cols=100 Identities=16% Similarity=0.036 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
...++.+...+..+.... +|.|+|+.+-..=+|.....+...-++--..+++..+.+ ...-+..+...-+.|||.
T Consensus 143 ~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l---~~~g~~lGlaFQi~DDiL 217 (322)
T COG0142 143 INGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEAL---EDYGRNLGLAFQIQDDIL 217 (322)
T ss_pred HHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHhhHHHHHHHHhh
Confidence 778888888888887655 999999999776666554443322221112335655554 677888888999999999
Q ss_pred chhhh-hccCCC---------cchhhHHhhcCCCC
Q 012005 373 GHKFE-QKREHN---------PSAVECYKNQHGVS 397 (473)
Q Consensus 373 S~~kE-~~~G~~---------~n~V~cyM~e~g~s 397 (473)
.+.-+ ..-|.. .+...++.-+.+-.
T Consensus 218 D~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~ 252 (322)
T COG0142 218 DITGDEEELGKPVGSDLKEGKPTLPVLLALEKANE 252 (322)
T ss_pred cCCCChHHhCCCcchHHHcCCchHHHHHHHHcCch
Confidence 88764 223332 36666666655443
No 20
>PLN02632 phytoene synthase
Probab=62.49 E-value=1.9e+02 Score=29.75 Aligned_cols=180 Identities=12% Similarity=0.080 Sum_probs=85.3
Q ss_pred hHHHHhHhhhhhhhhhhcccCCCH----HHHHHHHHHHhcccccccccCChhHHHHHHHHHH-----------HHHHHHH
Q 012005 235 RIFLSKIICLETLVDDTFDAYGTF----EELKIFTEAVARWDIGHIDALPEYMKFIFKTLID-----------FQELVMK 299 (473)
Q Consensus 235 Rl~~ak~~~l~~~~DD~fD~~gt~----eEl~~ft~ai~rWd~~~~~~lpe~mk~~f~al~~-----------w~~~~~a 299 (473)
|..+.-+-.|.-.+||+-|..... ..++..-+.+..-- ..-|.. ++..++.+ +.+++.+
T Consensus 75 R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~----~g~~~~--pv~~aL~~~~~~~~L~~~~~~~li~g 148 (334)
T PLN02632 75 RKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLF----DGRPYD--MLDAALADTVSKFPLDIQPFRDMIEG 148 (334)
T ss_pred HHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHHHh----CCCCCC--hHHHHHHHHHHHCCCChHHHHHHHHH
Confidence 333334555556788888864422 22333333333210 011111 34455544 5667777
Q ss_pred HHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHH---HHHHhcCccchhh
Q 012005 300 YFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAET---IIRFLDDIAGHKF 376 (473)
Q Consensus 300 ~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~---i~RL~NDI~S~~k 376 (473)
+..... ....+|++|+......+.|+--.+++..++.....+. ..+++ .+.....+. ++.++-||. .
T Consensus 149 ~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~-~~~~~---~~~A~~lG~AlQltNILRDv~---e 218 (334)
T PLN02632 149 MRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKA-STESV---YNAALALGIANQLTNILRDVG---E 218 (334)
T ss_pred HHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCcccc-chHHH---HHHHHHHHHHHHHHHHHHHHH---H
Confidence 654332 3457798888888877776665555555443221110 00110 111222232 333444553 3
Q ss_pred hhccCCCcchhhHHhhcCCCCHHHH---------HHHHHHHHHHHHHHHHHhcccCCCCCCHhHH
Q 012005 377 EQKREHNPSAVECYKNQHGVSEEEA---------VKALSLAVANSWKVINEELLLNPTAIPLPLL 432 (473)
Q Consensus 377 E~~~G~~~n~V~cyM~e~g~s~eeA---------~~~i~~~i~~~wk~ln~~~~l~~~~~p~~~~ 432 (473)
...+|-+ =+=.=.|.++|+|.++- ..-+..+++.+..-+.+. .---..+|..+.
T Consensus 219 D~~~GRv-YLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a-~~~l~~lp~~~r 281 (334)
T PLN02632 219 DARRGRV-YLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEA-EEGVSELDPASR 281 (334)
T ss_pred HHhCCce-eCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH-HHhHhhCCHHhH
Confidence 3455643 00012367889998772 333455555555544443 211134676544
No 21
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=61.63 E-value=6.4 Score=36.25 Aligned_cols=30 Identities=30% Similarity=0.460 Sum_probs=26.0
Q ss_pred ccCCCcchhhHHhhcC-CCCHHHHHHHHHHH
Q 012005 379 KREHNPSAVECYKNQH-GVSEEEAVKALSLA 408 (473)
Q Consensus 379 ~~G~~~n~V~cyM~e~-g~s~eeA~~~i~~~ 408 (473)
.||-.+..|.||+-++ |.|.++|.+++++.
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~i 149 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKI 149 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhc
Confidence 4667789999998887 99999999999873
No 22
>PLN02857 octaprenyl-diphosphate synthase
Probab=57.26 E-value=1.2e+02 Score=32.48 Aligned_cols=80 Identities=15% Similarity=0.000 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
..+++.+-+.++.+.. +.-+|.++|+.....=+|.....+...-++=-..+++..+. ..++-+..+...-+.||+.
T Consensus 236 ~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~---l~~fG~~LGiAFQI~DDiL 311 (416)
T PLN02857 236 IKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQ---MYEYGKNLGLAFQVVDDIL 311 (416)
T ss_pred HHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 4556666666777654 34579999999876655555433221111111345555544 3677778888888899999
Q ss_pred chhh
Q 012005 373 GHKF 376 (473)
Q Consensus 373 S~~k 376 (473)
.+..
T Consensus 312 D~~~ 315 (416)
T PLN02857 312 DFTQ 315 (416)
T ss_pred hhcC
Confidence 8753
No 23
>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=48.85 E-value=2.5e+02 Score=28.61 Aligned_cols=79 Identities=14% Similarity=-0.070 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcC-CCCchHHHhhcccchHHHHHHHHHHHHhcCc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMG-DIASREIFEWEMSNPDIIIAAETIIRFLDDI 371 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g-~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI 371 (473)
....+.+-..+..|.. +..+|.++|++.-..-+|..+..++ ..|.- -..+++..+. ..++-+..+...-+.||+
T Consensus 138 ~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~ag~~~~~~~~---l~~~g~~lG~aFQI~DDi 212 (319)
T TIGR02748 138 IVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIASGANEAIVKK---LYWFGYYVGMSYQITDDI 212 (319)
T ss_pred HHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 5567778777777753 3457999999887666665433322 22210 1234444443 356777888888889999
Q ss_pred cchhh
Q 012005 372 AGHKF 376 (473)
Q Consensus 372 ~S~~k 376 (473)
..+.-
T Consensus 213 lD~~~ 217 (319)
T TIGR02748 213 LDFVG 217 (319)
T ss_pred HHccC
Confidence 87743
No 24
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=48.53 E-value=14 Score=35.14 Aligned_cols=44 Identities=25% Similarity=0.208 Sum_probs=28.9
Q ss_pred HhcCccchhhhhccCC-CcchhhHHhhcCCCCHHHHHHHHHHHHH
Q 012005 367 FLDDIAGHKFEQKREH-NPSAVECYKNQHGVSEEEAVKALSLAVA 410 (473)
Q Consensus 367 L~NDI~S~~kE~~~G~-~~n~V~cyM~e~g~s~eeA~~~i~~~i~ 410 (473)
|--++...|+..+.-. ..-+=.+.|+++|+|++||.++++++--
T Consensus 130 L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM 174 (194)
T COG3707 130 LRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAM 174 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 3344455555433222 2334457999999999999999998643
No 25
>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=48.04 E-value=15 Score=27.53 Aligned_cols=28 Identities=25% Similarity=0.209 Sum_probs=21.4
Q ss_pred CcchhhHHhhcCCCCHHHHHHHHHHHHH
Q 012005 383 NPSAVECYKNQHGVSEEEAVKALSLAVA 410 (473)
Q Consensus 383 ~~n~V~cyM~e~g~s~eeA~~~i~~~i~ 410 (473)
+.-++.+.|..+|+|+++|.+.++..-.
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 3456778999999999999999988644
No 26
>PLN02890 geranyl diphosphate synthase
Probab=41.59 E-value=3.6e+02 Score=28.89 Aligned_cols=81 Identities=14% Similarity=0.002 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
...++.+-+.+..|..+ ..+|+++|++....-+|.....+...-++--..+++..+.+ -++-+..+...-+.||+.
T Consensus 236 ~~~l~~Gq~ld~~~~~~-~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lGlAFQI~DDiL 311 (422)
T PLN02890 236 VEHLVTGETMQITSSRE-QRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLGLAFQLIDDVL 311 (422)
T ss_pred HHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 56778888888888643 45899999987665555543333211111112456655543 567778888888899998
Q ss_pred chhhh
Q 012005 373 GHKFE 377 (473)
Q Consensus 373 S~~kE 377 (473)
.|.-.
T Consensus 312 D~~g~ 316 (422)
T PLN02890 312 DFTGT 316 (422)
T ss_pred hhcCC
Confidence 87543
No 27
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=33.13 E-value=31 Score=22.48 Aligned_cols=18 Identities=44% Similarity=0.735 Sum_probs=14.3
Q ss_pred HHhhcCCCCHHHHHHHHH
Q 012005 389 CYKNQHGVSEEEAVKALS 406 (473)
Q Consensus 389 cyM~e~g~s~eeA~~~i~ 406 (473)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 489999999998766553
No 28
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=31.81 E-value=50 Score=30.43 Aligned_cols=33 Identities=30% Similarity=0.491 Sum_probs=23.1
Q ss_pred HhhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCHh
Q 012005 390 YKNQHGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLP 430 (473)
Q Consensus 390 yM~e~g~s~eeA~~~i~~~i~~~wk~ln~~~~l~~~~~p~~ 430 (473)
-|++.|.|. ++|+..|++.|| +. +.+|++-|+|
T Consensus 126 ~~~~~Gks~----~eIR~~ID~kYk---~g-~~~pTpTp~P 158 (158)
T PF13798_consen 126 QMYQEGKSP----KEIRQYIDEKYK---EG-YAKPTPTPMP 158 (158)
T ss_pred HHHHcCCCH----HHHHHHHHHHHH---hC-CCCCCCCCCC
Confidence 355556664 458999999998 55 7777766654
No 29
>smart00463 SMR Small MutS-related domain.
Probab=31.73 E-value=57 Score=25.84 Aligned_cols=24 Identities=33% Similarity=0.300 Sum_probs=21.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 012005 394 HGVSEEEAVKALSLAVANSWKVIN 417 (473)
Q Consensus 394 ~g~s~eeA~~~i~~~i~~~wk~ln 417 (473)
||++.++|+..+...++++++.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999998654
No 30
>PRK10581 geranyltranstransferase; Provisional
Probab=31.38 E-value=5.2e+02 Score=26.17 Aligned_cols=113 Identities=11% Similarity=0.016 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHH--HHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCc
Q 012005 294 QELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVA--SFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDI 371 (473)
Q Consensus 294 ~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~--~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI 371 (473)
..++.+-..+..|.. ..+|.++|++.-..=+|.....+. .-+..|. -+++..+. ..++-+..+...-+.|||
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~-~~~~~~~~---l~~~g~~lG~aFQI~DDi 225 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAAVRLGALSAGD-KGRRALPV---LDRYAESIGLAFQVQDDI 225 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCC-CcHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 456777777777753 468999999876544444433222 1111221 12333443 366778888888889999
Q ss_pred cchhhh-h----------ccCCCcchhhHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 012005 372 AGHKFE-Q----------KREHNPSAVECYKNQHGVSEEEAVKALSLAVANSWKVINEE 419 (473)
Q Consensus 372 ~S~~kE-~----------~~G~~~n~V~cyM~e~g~s~eeA~~~i~~~i~~~wk~ln~~ 419 (473)
..+.-. . .+|.. +.+.++ ..+.|.+.+++.++++.+.+...
T Consensus 226 lD~~g~~~~~GK~~g~Dl~~gk~-T~p~l~------~~e~a~~~a~~~~~~A~~~l~~l 277 (299)
T PRK10581 226 LDVVGDTATLGKRQGADQQLGKS-TYPALL------GLEQARKKARDLIDDARQSLDQL 277 (299)
T ss_pred ccccCChHHHCCCcchhhhcCCC-CHHHHH------HHHHHHHHHHHHHHHHHHHHHhC
Confidence 987432 1 12222 444443 25788888999999888776654
No 31
>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=31.11 E-value=50 Score=26.37 Aligned_cols=26 Identities=31% Similarity=0.357 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHh
Q 012005 394 HGVSEEEAVKALSLAVANSWKVINEE 419 (473)
Q Consensus 394 ~g~s~eeA~~~i~~~i~~~wk~ln~~ 419 (473)
||++.+||+..+...+.++++.-.+.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~ 29 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIRE 29 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCE
Confidence 79999999999999999999765554
No 32
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=29.87 E-value=2.1e+02 Score=25.11 Aligned_cols=79 Identities=23% Similarity=0.308 Sum_probs=45.2
Q ss_pred hhhhHHHhhcCCccCcHHHHHHHHHHhhcCCCCCC------CC--hHHHHHHHHHHHhcCcccchhhhccccccccc-cc
Q 012005 13 LCLIDVVQRLGVAYHFIKEIDDALEKISHDPFDDK------DD--IYIVSLCFRLLRQHGIKMSCDVFEKFKDDDGK-FK 83 (473)
Q Consensus 13 l~liD~lqrLGi~~hF~~EI~~~L~~~~~~~~~~~------~d--l~~~al~FRlLR~~Gy~vs~dvf~~F~d~~g~-f~ 83 (473)
-.+|+.|++|||.+-- -..|-.+-+..+..+ .. =-.+|++-|.||.+|. |.----++ + .+|. .+
T Consensus 14 ~~~ie~L~~lgi~R~v----A~tlv~L~~~~E~sS~~IE~~sgLRQPEVSiAMr~Lre~gW-V~~R~eKK-k-GKGRPik 86 (124)
T COG4738 14 YEIIELLRILGIPRNV----ATTLVCLAKGDEASSREIERVSGLRQPEVSIAMRYLRENGW-VDEREEKK-K-GKGRPIK 86 (124)
T ss_pred HHHHHHHHHcCCCchH----HHHHHHHhcCcchhhhhhHHhhcCCCchhHHHHHHHHHccc-cchHHhcc-c-CCCCCce
Confidence 4689999999999853 223333322211111 12 2468999999999994 43333333 3 2342 23
Q ss_pred c-cccccHHHHHHHHh
Q 012005 84 A-SLTNDVEGMLSLYE 98 (473)
Q Consensus 84 ~-~~~~d~~~lL~LY~ 98 (473)
+ .|+.+...+++-++
T Consensus 87 ~Y~Lt~~~~eIvs~ie 102 (124)
T COG4738 87 LYRLTVPFDEIVSEIE 102 (124)
T ss_pred EEEecCcHHHHHHHHH
Confidence 2 45667777766554
No 33
>CHL00151 preA prenyl transferase; Reviewed
Probab=29.78 E-value=6.2e+02 Score=25.83 Aligned_cols=80 Identities=10% Similarity=-0.117 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCcc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIA 372 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~ 372 (473)
...++.+-..+..|.. ..-+|.++|+.....=+|.....++..-++=-..+++..+. ..++-+..+...-+.||+.
T Consensus 143 ~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~---l~~~G~~lG~aFQi~DDil 218 (323)
T CHL00151 143 ITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHND---FYLYGKHLGLAFQIIDDVL 218 (323)
T ss_pred HHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHHHHHHHHHh
Confidence 4455556555555532 33478999999755444444332221111111234554443 3677778888888999998
Q ss_pred chhh
Q 012005 373 GHKF 376 (473)
Q Consensus 373 S~~k 376 (473)
.+.-
T Consensus 219 D~~~ 222 (323)
T CHL00151 219 DITS 222 (323)
T ss_pred hccc
Confidence 8753
No 34
>smart00400 ZnF_CHCC zinc finger.
Probab=28.22 E-value=57 Score=24.12 Aligned_cols=25 Identities=24% Similarity=0.163 Sum_probs=20.8
Q ss_pred CCCcchhhHHhhcCCCCHHHHHHHH
Q 012005 381 EHNPSAVECYKNQHGVSEEEAVKAL 405 (473)
Q Consensus 381 G~~~n~V~cyM~e~g~s~eeA~~~i 405 (473)
|...++|..+|+-.|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 3445889999998899999998875
No 35
>PF14164 YqzH: YqzH-like protein
Probab=27.62 E-value=30 Score=27.05 Aligned_cols=20 Identities=25% Similarity=0.361 Sum_probs=16.2
Q ss_pred HHHHHHhcCcccchhhhccc
Q 012005 56 CFRLLRQHGIKMSCDVFEKF 75 (473)
Q Consensus 56 ~FRlLR~~Gy~vs~dvf~~F 75 (473)
.=+-|||.||+++++.+...
T Consensus 10 i~~~l~QYg~d~~~~pls~~ 29 (64)
T PF14164_consen 10 IINCLRQYGYDVECMPLSDE 29 (64)
T ss_pred HHHHHHHhCCcccCCCCCHH
Confidence 34679999999999887765
No 36
>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=27.47 E-value=40 Score=24.48 Aligned_cols=20 Identities=25% Similarity=0.431 Sum_probs=15.9
Q ss_pred HHHHHhcCcccchhhhcccc
Q 012005 57 FRLLRQHGIKMSCDVFEKFK 76 (473)
Q Consensus 57 FRlLR~~Gy~vs~dvf~~F~ 76 (473)
+.-|+++||++|+++++++.
T Consensus 25 l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 25 LDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred HHHHHHcCcccCHHHHHHHH
Confidence 44458889999999988764
No 37
>KOG3951 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.00 E-value=1.2e+02 Score=30.24 Aligned_cols=43 Identities=30% Similarity=0.540 Sum_probs=33.8
Q ss_pred cccccccccccccHHHHHHHHhhhcCCCCCC-cHHHHHHHHHHHHHH
Q 012005 77 DDDGKFKASLTNDVEGMLSLYEVAHLAIPGE-DILDEAIVFTTTHLK 122 (473)
Q Consensus 77 d~~g~f~~~~~~d~~~lL~LY~As~l~~~gE-~iL~ea~~ft~~~L~ 122 (473)
+.+|-|...-.-|+||-..|-++-- |.- +-|=.|+.||++||.
T Consensus 264 hp~GAFv~~s~iDmkgcvrllk~q~---p~~~e~LLnaLRfTTKHlN 307 (321)
T KOG3951|consen 264 HPNGAFVSNSSIDMKGCVRLLKLQP---PEQSECLLNALRFTTKHLN 307 (321)
T ss_pred cccccccccCcCcHHHHHHHHHcCC---chhhHHHHHHHHHHHhhcC
Confidence 4678888888899999999988742 222 567789999999983
No 38
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=24.67 E-value=7.6e+02 Score=25.21 Aligned_cols=79 Identities=14% Similarity=-0.077 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhhhhhcccccchhHHHHHHHHHc-CCCCchHHHhhcccchHHHHHHHHHHHHhcCc
Q 012005 293 FQELVMKYFCEAKWLNEGYVPSMDEYKSVSLRSIDFLPIAVASFIFM-GDIASREIFEWEMSNPDIIIAAETIIRFLDDI 371 (473)
Q Consensus 293 w~~~~~a~l~EA~W~~~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~-g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI 371 (473)
....+.+-..+..|..+ .-+|.++|+.....-+|.....+. ..|. --..+++..+. ..++-+..+...-+.||+
T Consensus 139 ~~~~~~Gq~~d~~~~~~-~~~s~~~y~~~i~~KTa~lf~~~~-~~ga~lag~~~~~~~~---l~~~g~~lG~aFQi~DD~ 213 (323)
T PRK10888 139 VNVIAEGEVLQLMNVND-PDITEENYMRVIYSKTARLFEAAA-QCSGILAGCTPEQEKG---LQDYGRYLGTAFQLIDDL 213 (323)
T ss_pred HHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHHHHHHHHHHh
Confidence 45667777777777533 357999999987766665533322 2221 11234444443 366777888888889999
Q ss_pred cchhh
Q 012005 372 AGHKF 376 (473)
Q Consensus 372 ~S~~k 376 (473)
..+..
T Consensus 214 ld~~~ 218 (323)
T PRK10888 214 LDYSA 218 (323)
T ss_pred hcccC
Confidence 88853
No 39
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=21.99 E-value=79 Score=27.88 Aligned_cols=21 Identities=48% Similarity=0.563 Sum_probs=18.2
Q ss_pred hhHHhhcCCCCHHHHHHHHHH
Q 012005 387 VECYKNQHGVSEEEAVKALSL 407 (473)
Q Consensus 387 V~cyM~e~g~s~eeA~~~i~~ 407 (473)
|.+.|.|.|+|.++|++.+.+
T Consensus 88 IkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 88 IKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 779999999999999887654
No 40
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=21.06 E-value=7.8e+02 Score=23.99 Aligned_cols=66 Identities=15% Similarity=-0.005 Sum_probs=43.4
Q ss_pred cCCCCChhhhhhhcccccchhHHHHHHHHHcCCCCchHHHhhcccchHHHHHHHHHHHHhcCccchhhh
Q 012005 309 EGYVPSMDEYKSVSLRSIDFLPIAVASFIFMGDIASREIFEWEMSNPDIIIAAETIIRFLDDIAGHKFE 377 (473)
Q Consensus 309 ~g~iPtleEYl~~r~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~RL~NDI~S~~kE 377 (473)
.+..+|.++|++.-..-+|......+..-++=-..+++..+. ..++-+..+...-+.||+..+...
T Consensus 129 ~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~---l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 129 EDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEA---LREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHH---HHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred ccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHH---HHHHHHHHHHHHhhhhhhhhccCc
Confidence 344889999999988777766443322222111234555444 377888888899999999887753
Done!