Query 015087
Match_columns 413
No_of_seqs 269 out of 1422
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 02:58:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015087.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015087hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01559 squal_synth farnesyl 100.0 1.3E-88 2.7E-93 677.4 35.9 329 36-367 1-336 (336)
2 KOG1459 Squalene synthetase [L 100.0 2E-87 4.2E-92 650.4 22.6 391 6-409 2-403 (413)
3 COG1562 ERG9 Phytoene/squalene 100.0 1.7E-52 3.8E-57 409.8 27.3 279 32-328 5-285 (288)
4 PLN02632 phytoene synthase 100.0 2.1E-51 4.5E-56 411.3 30.3 275 33-325 45-324 (334)
5 TIGR03465 HpnD squalene syntha 100.0 1.5E-51 3.3E-56 400.4 28.4 260 45-325 2-263 (266)
6 cd00683 Trans_IPPS_HH Trans-Is 100.0 1.4E-51 3E-56 400.1 27.3 262 38-318 1-265 (265)
7 TIGR03464 HpnC squalene syntha 100.0 5.3E-51 1.2E-55 396.7 28.5 261 45-325 2-264 (266)
8 PF00494 SQS_PSY: Squalene/phy 100.0 4.2E-49 9E-54 382.3 18.5 261 44-317 1-267 (267)
9 KOG4411 Phytoene/squalene synt 99.9 3.9E-24 8.5E-29 197.8 23.1 254 35-309 10-269 (292)
10 cd00867 Trans_IPPS Trans-Isopr 99.8 1.1E-17 2.4E-22 158.9 14.8 169 50-233 1-197 (236)
11 cd00385 Isoprenoid_Biosyn_C1 I 99.7 4.7E-16 1E-20 144.0 15.8 217 50-278 1-228 (243)
12 KOG1459 Squalene synthetase [L 98.5 5.7E-07 1.2E-11 89.3 11.3 208 42-271 134-345 (413)
13 cd00685 Trans_IPPS_HT Trans-Is 94.9 2.6 5.6E-05 40.8 17.9 193 62-281 44-244 (259)
14 TIGR02749 prenyl_cyano solanes 94.4 3.3 7.2E-05 41.7 17.7 93 135-230 133-243 (322)
15 PRK10888 octaprenyl diphosphat 93.7 8.7 0.00019 38.7 20.0 143 135-281 130-306 (323)
16 TIGR02748 GerC3_HepT heptapren 93.2 10 0.00022 38.1 18.7 94 135-231 129-240 (319)
17 PLN02890 geranyl diphosphate s 93.1 6.8 0.00015 41.1 17.8 143 135-280 227-398 (422)
18 CHL00151 preA prenyl transfera 92.0 11 0.00024 37.9 17.2 139 139-280 138-305 (323)
19 PLN02857 octaprenyl-diphosphat 90.5 4.8 0.0001 42.1 13.1 93 135-230 227-337 (416)
20 PRK10581 geranyltranstransfera 88.3 12 0.00025 37.4 13.6 121 146-280 153-280 (299)
21 PF06330 TRI5: Trichodiene syn 84.5 53 0.0012 33.9 18.2 169 53-242 76-257 (376)
22 PF00348 polyprenyl_synt: Poly 83.0 47 0.001 32.1 18.2 83 136-218 104-195 (260)
23 cd00687 Terpene_cyclase_nonpla 72.4 99 0.0021 30.1 19.8 209 53-276 46-270 (303)
24 cd00684 Terpene_cyclase_plant_ 70.8 1.6E+02 0.0035 31.8 20.7 267 9-309 235-526 (542)
25 cd00868 Terpene_cyclase_C1 Ter 64.1 1.4E+02 0.0029 28.5 16.8 192 60-271 46-258 (284)
26 PF03936 Terpene_synth_C: Terp 58.1 1.7E+02 0.0036 27.6 16.6 173 60-241 60-252 (270)
27 cd00686 Terpene_cyclase_cis_tr 58.0 1.3E+02 0.0029 30.7 11.3 102 58-176 81-188 (357)
28 COG0142 IspA Geranylgeranyl py 43.1 3.6E+02 0.0078 27.1 15.7 143 136-278 135-302 (322)
No 1
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=100.00 E-value=1.3e-88 Score=677.44 Aligned_cols=329 Identities=60% Similarity=1.015 Sum_probs=313.0
Q ss_pred hHHHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccC-CCc
Q 015087 36 HWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCG-TKE 114 (413)
Q Consensus 36 ~~~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G-~~~ 114 (413)
++++|+++++++|||||+++++||+++|++|+++|+|||++|||+|+++++.+.|++.|++|++.+.+.+|.|.++ .+.
T Consensus 1 ~~~~C~~~l~~~SrSF~~ai~~Lp~~lR~aV~~~Yl~cR~~DdIeDd~~~~~~~kl~~l~~~~~~l~~~~~~~~~~~~~~ 80 (336)
T TIGR01559 1 SLGFCYELLNLTSRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDMTISVDKKIPLLRDFHEKIYDPDWRFTESDNEK 80 (336)
T ss_pred ChHHHHHHHhhcCccHHHHHHHcCHHHHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHhccCcccCCCCChh
Confidence 4689999999999999999999999999999999999999999999999988899999999999999988988733 566
Q ss_pred chHHHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccC--CCHHHHHHHHHhhhhHHHHHHHHHhcccCCCC
Q 015087 115 YKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEV--ESIDDYDEYCYYVAGLVGLGLSKLFYASGTED 191 (413)
Q Consensus 115 ~~~ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~--~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~ 191 (413)
++.+++.|+.++.+|+.+++.++++|.+|+++|++||++|+. ..+ +|++||+.|||||||+||+|+++||+.+|..+
T Consensus 81 ~~~L~~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~ 160 (336)
T TIGR01559 81 DRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFED 160 (336)
T ss_pred hHHHHHhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCC
Confidence 778999999999999999999999999999999999999998 446 99999999999999999999999998754433
Q ss_pred C---ChhHHHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHH
Q 015087 192 L---APDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVE 268 (413)
Q Consensus 192 ~---~~~~~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~ 268 (413)
. ...++|++||+|||+||||||++||++ +||+|||+|+|++||++.+|+.+|++++++.+|+++|+.+|+.|+.
T Consensus 161 ~~~~~~~~~A~~lG~aLQlTNIlRDv~ED~~---~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~ 237 (336)
T TIGR01559 161 PSLGESEALSNSMGLFLQKTNIIRDYLEDIN---EGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHAT 237 (336)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHhHHh---CCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHH
Confidence 2 235899999999999999999999998 8999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCccCccccChhHHHHHHHHcCChhHHHHHHHHHHHHhcccCCC
Q 015087 269 DCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINK 348 (413)
Q Consensus 269 ~a~~yl~~L~~~~~~~f~aiP~~mAiatL~~~~~n~~vf~~~vki~k~~~~~l~~ra~~~~~v~~~~~~~~~~~~~k~~~ 348 (413)
+|+.|++.|+++++|+||+|||+||++||++|++|++||+++|||||++++.+|++|+|+++|+.+|++|+++|++|++|
T Consensus 238 ~al~yl~~l~~~~~~~fcaip~~mAi~TL~~~~~n~~~~~~~VKi~r~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 317 (336)
T TIGR01559 238 DCLTYLSRLRDQSIFNFCAIPQVMAIATLALCYNNPQVFQGNVKIRKGTTVKLILDSTNMPAVYDIFYRYARKIYHKIDP 317 (336)
T ss_pred HHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHhcChhhcCCCceecHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCChHHHHHHHHHHHHHh
Q 015087 349 NDPNATKTLSRVEAIQKAC 367 (413)
Q Consensus 349 ~dp~~~~~~~~~~~i~~~~ 367 (413)
+||||++|.++|++|+|+|
T Consensus 318 ~dp~~~~~~~~~~~~~~~~ 336 (336)
T TIGR01559 318 NDPNFSKTLIIISKIEQQC 336 (336)
T ss_pred CCCCHHHHHHHHHHHHHhC
Confidence 9999999999999999997
No 2
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=2e-87 Score=650.39 Aligned_cols=391 Identities=55% Similarity=0.874 Sum_probs=364.1
Q ss_pred hhhcChhhhHHHHHHHHhhccc---cCCCCCchhHHHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccC
Q 015087 6 AVLRHPDDLYPLLKLKMASRQA---EKQIPPEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDD 82 (413)
Q Consensus 6 ~~~~hp~e~~~~~~~~~~~~~~---~~~~~~~~~~~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd 82 (413)
.++.||+|+++++++| ..+. ..+.|+ +.+.+|++++..+||||+++|+.|+.++|++||+||+++|++||+|||
T Consensus 2 ~~l~~p~e~~~l~~~k--~~~l~~~~eq~~~-~~~~~Cy~~l~~tsrsfa~Vi~~l~~elRNav~ifylVlraLdtvedd 78 (413)
T KOG1459|consen 2 ALLWHPEESYNLLKMK--KLPLVRVLEQSPL-PLLSPCYNLLNLTSRSFAAVIQELSSELRNAVCIFYLVLRALDTVEDD 78 (413)
T ss_pred ccccChhhhcCchhhc--cCCcchhhhcCCc-hHHHHHHHHHHhhcchHHHHHHhhCHHHhhhhheeeeehhhhccCCCC
Confidence 4688999999999997 3333 234444 799999999999999999999999999999999999999999999999
Q ss_pred CCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhhccCCCH
Q 015087 83 TSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESI 162 (413)
Q Consensus 83 ~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~~~~~T~ 162 (413)
|++|.+.|++.|+.||+.++..+|.|.+|.+++++++.+|+.+..+|.+|.++||++|+||+++||.||+.++.++++|+
T Consensus 79 ~sI~~d~kvpil~~fhk~i~~~~w~f~~s~~k~r~~l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~~v~ti 158 (413)
T KOG1459|consen 79 MSIPLDKKVPILRVFHKQIYLVDWQFRESSPKDRQLLPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPEEVETI 158 (413)
T ss_pred CcccccccccHHHHHHHHHhhcCceecCCChhhhhhccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHHHHhHH
Confidence 99999999999999999999999999988899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhHHHHHHHHHhcccCCCCC--ChhHHHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCCh
Q 015087 163 DDYDEYCYYVAGLVGLGLSKLFYASGTEDL--APDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKL 240 (413)
Q Consensus 163 ~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~--~~~~~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~ 240 (413)
.|++.|||||||+||.+++++|.+++.++. ...+++++||+|||+|||||||.||.. .||.|||+|+|++|..+.
T Consensus 159 ~d~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~l~ns~glfLqktnIirdy~ed~~---d~r~Fwp~eIwg~y~d~L 235 (413)
T KOG1459|consen 159 WDYDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQLSNSMGLFLQKTNIIRDYLEDPV---DGRPFWPREIWGKYMDKL 235 (413)
T ss_pred HHHHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHHHhcccchHHHHhHHHHHHHhccc---cCCccChHHHHHHHHHHH
Confidence 999999999999999999999998776652 334899999999999999999999999 799999999999999999
Q ss_pred hhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCccCccccChhHHHH
Q 015087 241 EDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAK 320 (413)
Q Consensus 241 ~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~~~~~~f~aiP~~mAiatL~~~~~n~~vf~~~vki~k~~~~~ 320 (413)
+|+..|+|++.+++|+++|+++|+.|.++++.|++.++.+++|+||||||+||++||++||+|.+||+++||||||.++.
T Consensus 236 ~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvfnfcaipqimai~Tlal~~nn~dvfrG~VklrkGl~~~ 315 (413)
T KOG1459|consen 236 KDFRYPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVFNFCAIPQIMAIATLALCYNNEDVFRGNVKLRKGLAVE 315 (413)
T ss_pred HhhhCccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCHhHhccceeecCCchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCChhHHHHHHHHHHHHhcccCCCCCCC-----hHHHHHHHHHHHHHhhhcccccccc-cchhcccchhhhhHHHH
Q 015087 321 VIDRTNNMTDVYLAFYDFSNILKPKINKNDPN-----ATKTLSRVEAIQKACMDSGVLNKRK-SYIIQSELRYSSTMIVI 394 (413)
Q Consensus 321 l~~ra~~~~~v~~~~~~~~~~~~~k~~~~dp~-----~~~~~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 394 (413)
+|++++|+.+|+.+|..|++.|+.|.+++||| ..||.+..++|.+.|.+.+.++++. +|. . +..+.+
T Consensus 316 ~I~~~k~~~~v~~~f~~y~~~i~~k~d~~dpnflklsask~~qv~esl~~~~~~~~il~n~~~~f~---k----~~~v~~ 388 (413)
T KOG1459|consen 316 LILASKTMDKVRNIFYMYLRDIRMKFDEADPNFLKLSASKTEQVWESLLLYRRPDEILANRYNNFT---K----RIYVGF 388 (413)
T ss_pred HHHhcccHHHHHHHHHHHHHHHHhhCCccCCCchhhhhhhHHHHHHHHHHhhcccccccccccccc---c----hhHHHH
Confidence 99999999999999999999999999999999 6677778888888999999999884 443 2 444557
Q ss_pred HHHHHHHHHHHHhhc
Q 015087 395 FFIILAIIFSYLSST 409 (413)
Q Consensus 395 ~~~~~~~~~~~~~~~ 409 (413)
++.++|+.|+|+...
T Consensus 389 V~~i~al~~ay~~~v 403 (413)
T KOG1459|consen 389 VKKIAALPLAYAKSV 403 (413)
T ss_pred HHHHHHHHHHHHHHH
Confidence 799999999998654
No 3
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=1.7e-52 Score=409.76 Aligned_cols=279 Identities=24% Similarity=0.309 Sum_probs=247.8
Q ss_pred CCchhHHHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccC
Q 015087 32 PPEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCG 111 (413)
Q Consensus 32 ~~~~~~~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G 111 (413)
+...++++|.++++.+|||||+++++||+++|++|+++|+|||++|||+|+++.| +.....+.+|+..+... +. |
T Consensus 5 ~~~~~~~~c~~i~~~~srtf~la~~~lp~~~R~av~alYa~~R~~Ddv~D~~~~~-~~~~e~~~~~~~~~~~~---~~-~ 79 (288)
T COG1562 5 EIMEALDYCLDILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDGVSDP-DLPAEILLAWRRELDGD---FS-G 79 (288)
T ss_pred chhHHHHHHHHHHHHhCcchHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhcccch-hhHHHHHHHHHHHHhcc---cc-C
Confidence 3567889999999999999999999999999999999999999999999999876 33344555555555441 23 4
Q ss_pred C-CcchHHHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCC
Q 015087 112 T-KEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGT 189 (413)
Q Consensus 112 ~-~~~~~ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~ 189 (413)
. ..++++..+|.+++.+|..+.+.+.++|+ ||++|+. .++.|++||+.|||+|||+||.|+++|++..+
T Consensus 80 ~~~~~~pv~~al~~~~~~~~~~~~~~~~~~d--------a~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~- 150 (288)
T COG1562 80 QPASDHPVLAALVEVARRFGLPREAFPALID--------AMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDK- 150 (288)
T ss_pred CCcccCHHHHHHHHHHHHcCCCHHHHHHHHH--------HHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCccc-
Confidence 4 35678899999999999888877777777 9999997 78999999999999999999999999998642
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHH
Q 015087 190 EDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVED 269 (413)
Q Consensus 190 ~~~~~~~~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~ 269 (413)
+....+.|..+|.|+|+||||||++||.. +||+|||+|+|++||++.+|+.++++.++++.|++.++.+|+.|+.+
T Consensus 151 -~~~~~~~a~~lG~A~QlvNilRdv~eD~~---~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~ 226 (288)
T COG1562 151 -DAATRAYARGLGLALQLVNILRDVGEDRR---RGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAE 226 (288)
T ss_pred -chhhHHHHHHHHHHHHHHHHHHHhHHHHh---CCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHH
Confidence 22234667789999999999999999999 89999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCccCccccChhHHHHHHHHcCCh
Q 015087 270 CLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNM 328 (413)
Q Consensus 270 a~~yl~~L~~~~~~~f~aiP~~mAiatL~~~~~n~~vf~~~vki~k~~~~~l~~ra~~~ 328 (413)
++.++..+|.++.+.||++|++++..+.+...++.+||++++++++++++++++++...
T Consensus 227 a~~~~~~lp~~~~~~~~~~~~~~~~~~~~i~a~~~~vl~~~~~l~~~~~~~~~~~~~~~ 285 (288)
T COG1562 227 ARRGLPALPGRAQLAVLAAALLYAYLLDAIEADPADVLSQRAVLPKLRKLWLLLKAWLR 285 (288)
T ss_pred HHHhhhhCCccccchhhHHHHHHHHHHHHHHccchhhhccCcccCcchHHHHHHHHHHh
Confidence 99999999999988999999999999988888999999999999999999999987543
No 4
>PLN02632 phytoene synthase
Probab=100.00 E-value=2.1e-51 Score=411.28 Aligned_cols=275 Identities=20% Similarity=0.229 Sum_probs=242.2
Q ss_pred CchhHHHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCC
Q 015087 33 PEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGT 112 (413)
Q Consensus 33 ~~~~~~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~ 112 (413)
.++++.+|.++++++|+|||+++++||++.|++++++|+|||++|||+|+.+.+. .+..+|+||++.+.. .|. |+
T Consensus 45 l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~ai~alYAf~R~~DdI~D~~~~~~-~~~~~L~~w~~~l~~---~~~-g~ 119 (334)
T PLN02632 45 LEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWCRRTDELVDGPNASH-ITPAALDRWEARLED---LFD-GR 119 (334)
T ss_pred chHHHHHHHHHHhhcCchHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCCCCCh-hhHHHHHHHHHHHHH---HhC-CC
Confidence 4678999999999999999999999999999999999999999999999887553 445689999999987 465 66
Q ss_pred CcchHHHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCC
Q 015087 113 KEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED 191 (413)
Q Consensus 113 ~~~~~ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~ 191 (413)
+. +++..++..++..|..+.+.+.++|+ ||.+|+. .+++|++||+.|||+|||+||+|++++++......
T Consensus 120 ~~-~pv~~aL~~~~~~~~L~~~~~~~li~--------g~~~Dl~~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~ 190 (334)
T PLN02632 120 PY-DMLDAALADTVSKFPLDIQPFRDMIE--------GMRMDLVKSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESK 190 (334)
T ss_pred CC-ChHHHHHHHHHHHCCCChHHHHHHHH--------HHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccc
Confidence 54 46778899999999887778888887 9999997 78999999999999999999999999998632111
Q ss_pred ---CChhHHHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHH
Q 015087 192 ---LAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVE 268 (413)
Q Consensus 192 ---~~~~~~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~ 268 (413)
....+.|.++|.|+|+|||+||++||++ +||+|||.|+|.+||++.+|+..+.+++++..++.+++.+|+.||.
T Consensus 191 ~~~~~~~~~A~~lG~AlQltNILRDv~eD~~---~GRvYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~ 267 (334)
T PLN02632 191 ASTESVYNAALALGIANQLTNILRDVGEDAR---RGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFA 267 (334)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHh---CCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHH
Confidence 1235789999999999999999999998 9999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhchhhhhhhhhhhhHHHHHHHHHHH-hcCCCCccCccccChhHHHHHHHHc
Q 015087 269 DCLKYMSALRDHAIFRFCAIPQIMAIGTLALC-YNNIEVFRGVVKMRRGLTAKVIDRT 325 (413)
Q Consensus 269 ~a~~yl~~L~~~~~~~f~aiP~~mAiatL~~~-~~n~~vf~~~vki~k~~~~~l~~ra 325 (413)
+|+.++..+|..+ ...+.++..+..+.|..+ .+|++||++++.+++++++|++.++
T Consensus 268 ~a~~~l~~lp~~~-r~~v~~a~~~y~~iL~~i~~~~~~v~~~R~~l~~~~Kl~~~~~~ 324 (334)
T PLN02632 268 EAEEGVSELDPAS-RWPVWASLLLYRQILDAIEANDYDNFTKRAYVGKWKKLLALPLA 324 (334)
T ss_pred HHHHhHhhCCHHh-HHHHHHHHHHHHHHHHHHHHcCCCcCCCCCccCHHHHHHHHHHH
Confidence 9999999999876 224566666777777766 4899999999999999999998765
No 5
>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=100.00 E-value=1.5e-51 Score=400.43 Aligned_cols=260 Identities=21% Similarity=0.232 Sum_probs=235.1
Q ss_pred hhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHH
Q 015087 45 HKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHH 124 (413)
Q Consensus 45 ~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~ 124 (413)
+++|||||+++++||++.|++++++|+|||++|||+|+.. +++.+..+|+||++.+.+ .+. |.+ .++++.++..
T Consensus 2 ~~~s~sF~~a~~~lp~~~R~~~~alYaf~r~~d~i~D~~~-~~~~~~~~L~~w~~~l~~---~~~-g~~-~~pv~~al~~ 75 (266)
T TIGR03465 2 AASGSSFYYGMRLLPPERRRAMTALYAFCREVDDIVDEDS-DPEVAQAKLAWWRAEIDR---LYA-GAP-SHPVARALAD 75 (266)
T ss_pred CCCcCcHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCC-CchHHHHHHHHHHHHHHH---HhC-CCC-CChHHHHHHH
Confidence 5799999999999999999999999999999999999854 567889999999999987 344 655 4567788999
Q ss_pred HHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCCChhHHHHHHHH
Q 015087 125 VSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGL 203 (413)
Q Consensus 125 v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~~mG~ 203 (413)
++..|..+.+.+.++|+ ||++|+. ++++|++||+.|||+|||+||.|++++++.. +....+.|+++|.
T Consensus 76 ~~~~~~l~~~~~~~li~--------g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~~a~~lG~ 144 (266)
T TIGR03465 76 PARRFDLPQEDFLEVID--------GMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLEYAHHLGR 144 (266)
T ss_pred HHHHcCCCHHHHHHHHH--------HHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHHHHHHHHH
Confidence 99999877777777776 9999997 7899999999999999999999999999742 3345689999999
Q ss_pred HHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhh
Q 015087 204 FLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIF 283 (413)
Q Consensus 204 aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~~~~~ 283 (413)
|+|+||||||++||+. +||+|||.|+|.+||++.+|+.++++++++..++.+++..|+.||.+++.++..+|... .
T Consensus 145 AlqltnilRdv~eD~~---~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~-~ 220 (266)
T TIGR03465 145 ALQLTNILRDVGEDAR---RGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRA-Q 220 (266)
T ss_pred HHHHHHHHHHhHHHHh---CCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhh-h
Confidence 9999999999999999 99999999999999999999999999999999999999999999999999999999765 4
Q ss_pred hhhhhhHHHHHHHHHHH-hcCCCCccCccccChhHHHHHHHHc
Q 015087 284 RFCAIPQIMAIGTLALC-YNNIEVFRGVVKMRRGLTAKVIDRT 325 (413)
Q Consensus 284 ~f~aiP~~mAiatL~~~-~~n~~vf~~~vki~k~~~~~l~~ra 325 (413)
.++.++..++.++|..+ .+|++||++++++++.++.++++++
T Consensus 221 ~~~~~~~~~~~~iL~~i~~~~~~~~~~r~~~~~~~k~~~~~~~ 263 (266)
T TIGR03465 221 RAARAMAAIYRALLDEIEADGFQVLRQRVSLTPLRKLWIALRT 263 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCCcCCHHHHHHHHHHH
Confidence 57888889999999877 4789999999999999999999886
No 6
>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=100.00 E-value=1.4e-51 Score=400.14 Aligned_cols=262 Identities=34% Similarity=0.506 Sum_probs=233.6
Q ss_pred HHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchH
Q 015087 38 AFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKV 117 (413)
Q Consensus 38 ~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ 117 (413)
.+|.++++++|+|||+++++||++.|++++++|+|||++|||+|+.+.+...+..+|+||++.+.+ .+. |....++
T Consensus 1 ~~c~~~~~~~~~sf~~a~~~lp~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~---~~~-~~~~~~p 76 (265)
T cd00683 1 AYCRAILRKGSRSFYLASRLLPPELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDA---AYW-GGAPTHP 76 (265)
T ss_pred CHHHHHHHHhCCcHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHH---HHc-CCCCCCh
Confidence 379999999999999999999999999999999999999999999987767889999999999987 355 4445567
Q ss_pred HHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCCChhH
Q 015087 118 LMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDS 196 (413)
Q Consensus 118 ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~~~~~ 196 (413)
++.+|..++..+..+.+.+.++|+ ||.+|+. .+++|++||+.||++|||+||+|++++++.. ......+
T Consensus 77 v~~al~~~~~~~~l~~~~~~~li~--------g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~ 146 (265)
T cd00683 77 VLRALADLARRYGIPREPFRDLLA--------GMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALE 146 (265)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHH--------HHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHH
Confidence 888899999988877778888887 9999998 6899999999999999999999999999852 2234568
Q ss_pred HHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 015087 197 LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 276 (413)
Q Consensus 197 ~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~ 276 (413)
.|.++|.|+|+||||||++||++ +||+|||.|+|.+||++.+|+..++.++++++++.+++..|+.||..|+.++..
T Consensus 147 ~A~~lG~AlqltnilRdv~eD~~---~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~ 223 (265)
T cd00683 147 RARALGLALQLTNILRDVGEDAR---RGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAA 223 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc---cCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHh
Confidence 99999999999999999999998 999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhhhhhhhHHHHHHH-HHHH-hcCCCCccCccccChhHH
Q 015087 277 LRDHAIFRFCAIPQIMAIGT-LALC-YNNIEVFRGVVKMRRGLT 318 (413)
Q Consensus 277 L~~~~~~~f~aiP~~mAiat-L~~~-~~n~~vf~~~vki~k~~~ 318 (413)
+|... ++|++|.+.+..+ +..+ .+|+++|++++++++.+|
T Consensus 224 lp~~~--~~~~~~~~~~y~~il~~i~~~~~~~~~~r~~~~~~~k 265 (265)
T cd00683 224 LPRRS--RFCVRAAAMLYRTILDEIEARGYDVLSVRVRVPKARK 265 (265)
T ss_pred CCHhh--HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Confidence 99765 7888998777444 4444 478999999999887653
No 7
>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=100.00 E-value=5.3e-51 Score=396.73 Aligned_cols=261 Identities=17% Similarity=0.167 Sum_probs=233.8
Q ss_pred hhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHH
Q 015087 45 HKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHH 124 (413)
Q Consensus 45 ~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~ 124 (413)
+++++|||+++++||++.|++++++|+|||.+|||+|+.+.+++++..+|+||++.+.+ .+. |++ .+|+..++..
T Consensus 2 ~~~~~sf~~a~~~lp~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~---~~~-g~~-~~pv~~aL~~ 76 (266)
T TIGR03464 2 VAHYENFPVASLLLPARLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDA---IYS-GEP-AAPVFVALAR 76 (266)
T ss_pred CCccCcHHHHHHhCCHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHH---HhC-CCC-CChHHHHHHH
Confidence 57899999999999999999999999999999999999766777888999999999986 355 655 4567888999
Q ss_pred HHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCCChhHHHHHHHH
Q 015087 125 VSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGL 203 (413)
Q Consensus 125 v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~~mG~ 203 (413)
++..+..+.+.+.++|+ ||.+|+. .++.|++||+.|||+|||+||+|++++++.. +....+.|.++|.
T Consensus 77 ~~~~~~l~~~~~~~li~--------~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~---~~~~~~~A~~lG~ 145 (266)
T TIGR03464 77 TVQRHGLPIEPFLDLLD--------AFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGAS---DPENVALSDAICT 145 (266)
T ss_pred HHHHcCCChHHHHHHHH--------HHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCC---ChhHHHHHHHHHH
Confidence 99999888888888887 9999997 6899999999999999999999999999853 2234578999999
Q ss_pred HHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhh
Q 015087 204 FLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIF 283 (413)
Q Consensus 204 aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~~~~~ 283 (413)
|+|+|||+||++||++ +||+|||.|+|.+||++.+|+.+++.++++.+++.+++.+|+.||.+++.++..+|... .
T Consensus 146 AlQltniLRDl~eD~~---~gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~-~ 221 (266)
T TIGR03464 146 ALQLINFWQDVGVDYR---KGRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRL-G 221 (266)
T ss_pred HHHHHHHHHhhHHHHh---cCCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhh-h
Confidence 9999999999999999 89999999999999999999999999999999999999999999999999999998764 3
Q ss_pred hhhhhhHHHHHHHHHHH-hcCCCCccCccccChhHHHHHHHHc
Q 015087 284 RFCAIPQIMAIGTLALC-YNNIEVFRGVVKMRRGLTAKVIDRT 325 (413)
Q Consensus 284 ~f~aiP~~mAiatL~~~-~~n~~vf~~~vki~k~~~~~l~~ra 325 (413)
.++..+..+..++|..+ .++++||++++++++.++.++++++
T Consensus 222 ~~~~~~~~~y~~iL~~l~~~~~~~~~~r~~~~~~~kl~~~~~a 264 (266)
T TIGR03464 222 LELALIVRGGLRILEKIERQGYDVLRERPKLGKFDWAGLLLRA 264 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCCCCcCCHHHHHHHHHHH
Confidence 34466666777778776 4789999999999999999999886
No 8
>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=100.00 E-value=4.2e-49 Score=382.26 Aligned_cols=261 Identities=25% Similarity=0.299 Sum_probs=211.7
Q ss_pred HhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccc-cCCCcchHHHhhH
Q 015087 44 LHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFS-CGTKEYKVLMDQF 122 (413)
Q Consensus 44 l~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~-~G~~~~~~ll~~~ 122 (413)
|+++|+|||+++++||++.|++++++|+|||++|||+|+.+. +..+..+|+||++.+.+..+... .+.+..++++..|
T Consensus 1 lr~~~~sf~~a~~~lP~~~R~~~~alyaf~r~~d~i~D~~~~-~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l 79 (267)
T PF00494_consen 1 LRKHSRSFYLASLLLPKEKRPAVFALYAFCRELDDIVDEPSD-PEEARARLQWWRDALNSIFASYEDSLPEPSHPVARAL 79 (267)
T ss_dssp -HHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHHHCTSS--HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHH
T ss_pred CCCCCccHHHHHHHCCHHHHHHHHHHHHHHHHHhhccccchh-hHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHH
Confidence 689999999999999999999999999999999999999985 45677799999999987321111 0234557788888
Q ss_pred HHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCCChhHHHHHH
Q 015087 123 HHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSM 201 (413)
Q Consensus 123 ~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~~m 201 (413)
..+++.+..+...+.++|+ ||++|+. ++++|++||+.||++|||+||.+++++++... .+....+.|+++
T Consensus 80 ~~~~~~~~l~~~~l~~li~--------~~~~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~-~~~~~~~~a~~l 150 (267)
T PF00494_consen 80 ADLVRRYGLPREPLLELID--------GMEMDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHD-PDEAARDAARAL 150 (267)
T ss_dssp HHHHCCSHHHHHHHHHHHH--------HHHHCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST-SHHHHHHHHHHH
T ss_pred HHHHHHHhhhHHHHHHHHH--------HhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc-chhhHHHHHHHH
Confidence 8888888766666777776 9999998 78999999999999999999999999998631 112346899999
Q ss_pred HHHHHHHHHHHhcHhh-hhhCCCCCccccHHHHHHcCCChhhhhccc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHhchh
Q 015087 202 GLFLQKTNIIRDYLED-INEIPKCRMFWPREIWSKYVNKLEDLKYEE-NSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 279 (413)
Q Consensus 202 G~aLQltNILRD~~ED-~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~-~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~ 279 (413)
|.|+|+||||||++|| .. +||+|||.|+|.+||++++|+.++. .+++++.++.+++..|+.|+.+++.++..+|+
T Consensus 151 G~alql~nilRd~~~D~~~---~gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~ 227 (267)
T PF00494_consen 151 GRALQLTNILRDIPEDALR---RGRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPP 227 (267)
T ss_dssp HHHHHHHHHHHTHHHH-HH---TT---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--
T ss_pred HHHHHHHHHHHHhHHHHHh---cccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 9999999999999999 78 8999999999999999999999876 78889999999999999999999999999966
Q ss_pred hhhhhhhhhhHHHHHHHHHHHh-cCCC-CccCccccChhH
Q 015087 280 HAIFRFCAIPQIMAIGTLALCY-NNIE-VFRGVVKMRRGL 317 (413)
Q Consensus 280 ~~~~~f~aiP~~mAiatL~~~~-~n~~-vf~~~vki~k~~ 317 (413)
.....+|++|..++.++|..+. +|++ ||+++++++|++
T Consensus 228 ~~~~~~~~~~~~~~~~~l~~l~~~~~~~v~~~r~~~~~~r 267 (267)
T PF00494_consen 228 PRARPAVAAAAALYRAILDKLERNGYDPVFQRRVKVSKWR 267 (267)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHTTT--GSSS-----HH-
T ss_pred HhhhHHHHHHHHHHHHHHHHHHcCCCcccCCCCCcCCCCC
Confidence 6667788999999999998875 7788 889999999985
No 9
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=99.93 E-value=3.9e-24 Score=197.81 Aligned_cols=254 Identities=15% Similarity=0.150 Sum_probs=200.9
Q ss_pred hhHHHHHHHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCC-
Q 015087 35 PHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTK- 113 (413)
Q Consensus 35 ~~~~~C~~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~- 113 (413)
.++. |.+.++..+..-|++...+|.++|.+++++-||+.++..|.-|....+.+...+|+||++.++. +|. -.+
T Consensus 10 ~A~s-c~~~vr~ydy~~ylc~l~lp~e~r~aafaLrAfNVE~ar~~~d~~~~p~ia~mRL~fW~daIdk---~y~-~~p~ 84 (292)
T KOG4411|consen 10 SALS-CVQQVRNYDYHHYLCLLELPTEMRKAAFALRAFNVELARIKVDTRKGPAIAMMRLQFWKDAIDK---IYG-ISPL 84 (292)
T ss_pred hHHH-HHHHHHhhhHHHHHHHHhCcHHHHHHHHHHHHhhHHHHHHhhccccCcHHHHHHHHHHHHHHHH---HcC-CCCC
Confidence 3455 9999999999999999999999999999999999999997766666677889999999999987 454 122
Q ss_pred --cchHHHhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCC
Q 015087 114 --EYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTE 190 (413)
Q Consensus 114 --~~~~ll~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~ 190 (413)
.+.|++.++-..+...+.-+ +++.|.+++.+.+.. +.++++.||++|... |+|.+++-.+.+.|..
T Consensus 85 ~v~~qPva~aL~~~~~~~~~nk--------~~L~rlV~aR~r~~~d~~fesI~eLeeY~e~---TissLL~l~l~agg~~ 153 (292)
T KOG4411|consen 85 PVPRQPVAIALCSFAAGHNANK--------DMLLRLVEARQRTIGDRQFESINELEEYGES---TISSLLCLQLDAGGKV 153 (292)
T ss_pred CCCCcHHHHHHHHHHhccccCH--------HHHHHHHHHhhcCCcccchHHHHHHHHHHHh---HHHHHHHHHHHhcCcc
Confidence 45566777777766643333 334444558888875 669999999998887 5555666666655556
Q ss_pred CCChhHHHHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhh-hcccCCHHHHHHHHHHHHHHHHHHHH
Q 015087 191 DLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDL-KYEENSDKAVQCLNDMVTNALMHVED 269 (413)
Q Consensus 191 ~~~~~~~A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl-~~~~~~~~~~~~l~~lv~~A~~hl~~ 269 (413)
.+.+++.|.|+|.|.+++|.||.++-... +|-.|+|.|++..||++..|+ .+....++...|+.+++..|..|+.+
T Consensus 154 ~~~AdhaAshlGkA~gia~llrs~p~~~~---r~~~~iPadv~~lhGvtq~~il~~k~~~~g~~~~~fd~as~an~hL~~ 230 (292)
T KOG4411|consen 154 LPMADHAASHLGKAYGIANLLRSTPPLLA---RGIVLIPADVMSLHGVTQLDILYKKKKLDGMVGMTFDLASEANRHLID 230 (292)
T ss_pred ccchHHHHHHHhHHHHHHHHHHhccHHHh---CCCccccHHHHHHcCCCHHHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence 67778999999999999999999999999 899999999999999999665 45667788999999999999999999
Q ss_pred HHHHHHhchhhhhhhhhhhhHHHHHHHHHHH-hcCCCCccC
Q 015087 270 CLKYMSALRDHAIFRFCAIPQIMAIGTLALC-YNNIEVFRG 309 (413)
Q Consensus 270 a~~yl~~L~~~~~~~f~aiP~~mAiatL~~~-~~n~~vf~~ 309 (413)
|+..+..+|++. +...+-.+-.-..|+.+ .+||++|++
T Consensus 231 AR~l~~kVP~~v--rp~ll~tv~td~~l~~l~k~nfdi~~p 269 (292)
T KOG4411|consen 231 ARSLIEKVPKAV--RPALLATVTTDYILKTLEKNNFDIYSP 269 (292)
T ss_pred HHhHhhhCCHHH--HHHHHHhhhHHHHHHHHHHccccccCH
Confidence 999999999875 32222222222223333 499999986
No 10
>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=99.76 E-value=1.1e-17 Score=158.88 Aligned_cols=169 Identities=24% Similarity=0.248 Sum_probs=124.5
Q ss_pred CHHHHHHhcCh----------hhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHH-HHHHHcccccccccCCCcchHH
Q 015087 50 SFALVIQQLGT----------DLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIA-FHRHVYDREWHFSCGTKEYKVL 118 (413)
Q Consensus 50 SF~~ai~~Lp~----------~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~-~~~~l~~~~w~f~~G~~~~~~l 118 (413)
+|++.+.++|+ +++.++.++|++++..|||.|+.+.+. .+.....+ |.+.... ...+.++
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rr-g~~~~~~~~~g~~~ai--------~~gd~l~ 71 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRR-GKPTAHLRRFGNALAI--------LAGDYLL 71 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccCC-CCccHhHHhhCHhHHH--------HHHHHHH
Confidence 57888889999 999999999999999999999986543 23334444 5443321 1123444
Q ss_pred HhhHHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhhhh-cc--CCCHHHHHHHHHh-hhhHHHHHHHHHhcccCCCC---
Q 015087 119 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KE--VESIDDYDEYCYY-VAGLVGLGLSKLFYASGTED--- 191 (413)
Q Consensus 119 l~~~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~dl~-~~--~~T~~dl~~YC~~-VAG~VG~ll~~l~~~~~~~~--- 191 (413)
...|..+... . .....+++.+....|..|+..|+. .. ..|+++|..||++ |||++|.++..+...++.+.
T Consensus 72 ~~a~~~l~~~-~--~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~ 148 (236)
T cd00867 72 ARAFQLLARL-G--YPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQA 148 (236)
T ss_pred HHHHHHHHhC-C--hHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHH
Confidence 4445554431 0 122344555667778889999997 33 8999999999999 99999998888776543221
Q ss_pred CChhHHHHHHHHHHHHHHHHHhcHhhh----------hhCCCCCccccHHHH
Q 015087 192 LAPDSLSNSMGLFLQKTNIIRDYLEDI----------NEIPKCRMFWPREIW 233 (413)
Q Consensus 192 ~~~~~~A~~mG~aLQltNILRD~~ED~----------~~~~~GR~ylP~e~l 233 (413)
......+.++|.|+|++|+++|+.+|. . .||+|||.+.+
T Consensus 149 ~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~---~gr~tlp~~~~ 197 (236)
T cd00867 149 EALKDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLR---EGRITLPVILA 197 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCChHHHCccHHHHH---cCCchHHHHHH
Confidence 123478999999999999999999888 6 79999999876
No 11
>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=99.69 E-value=4.7e-16 Score=144.03 Aligned_cols=217 Identities=22% Similarity=0.159 Sum_probs=159.8
Q ss_pred CHHHHHHhcCh--hhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHHHHH
Q 015087 50 SFALVIQQLGT--DLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVST 127 (413)
Q Consensus 50 SF~~ai~~Lp~--~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~v~~ 127 (413)
+|++++.++|+ +.|.++..+|++++.+|||.|+.+.+. .+.....+| + ..+. ... ....+.++...+..+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~-~~~~~~~~~-~-~~~~--~~~-~~~~~~~~~~~~~~~~~ 74 (243)
T cd00385 1 FRPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRR-GLPTAHLAV-A-IDGL--PEA-ILAGDLLLADAFEELAR 74 (243)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC-CchhhhhhH-H-hcCc--hHH-HHHHHHHHHHHHHHHHh
Confidence 57888999999 999999999999999999999887543 333344444 1 1110 000 11122333333333322
Q ss_pred HHhhccHHHHHHHHHHHHhhHhHHHhhhhc-c--CCCHHHHHHHHHhh-hhHHHHHHHHHhcccCCC---CCChhHHHHH
Q 015087 128 AFLELGKGYQDAIEDITKRMGAGMAKFICK-E--VESIDDYDEYCYYV-AGLVGLGLSKLFYASGTE---DLAPDSLSNS 200 (413)
Q Consensus 128 ~f~~l~~~~~~lI~di~~~m~~gm~~dl~~-~--~~T~~dl~~YC~~V-AG~VG~ll~~l~~~~~~~---~~~~~~~A~~ 200 (413)
. ......+.+.+.+.++..|+..|+.. . ++|++||..||+++ ++++|.++....+..+.+ ......++.+
T Consensus 75 ~---~~~~~~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (243)
T cd00385 75 E---GSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRA 151 (243)
T ss_pred C---CCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 2 11234555556777788899999973 3 89999999999999 888998887776653221 1223478999
Q ss_pred HHHHHHHHHHHHhcHhhhhhCCC--CCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Q 015087 201 MGLFLQKTNIIRDYLEDINEIPK--CRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALR 278 (413)
Q Consensus 201 mG~aLQltNILRD~~ED~~~~~~--GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~ 278 (413)
+|.++|++|.++|+..|.. . ||+++|...+.++|++.+++..+...+...++++.+...+..++.+.......++
T Consensus 152 ~g~~~ql~nDl~~~~~e~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 152 LGLAFQLTNDLLDYEGDAE---RGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHHHHHHHHHHhccCCHH---HhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 9999999999999999998 5 8999999999999999999988888888888888888888888888777666654
No 12
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=98.55 E-value=5.7e-07 Score=89.33 Aligned_cols=208 Identities=10% Similarity=-0.039 Sum_probs=138.2
Q ss_pred HHHhhcCCCHHHHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhh
Q 015087 42 SMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQ 121 (413)
Q Consensus 42 ~il~~~srSF~~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~ 121 (413)
++....-+.|+......-++.+.+++.+|-+||.+|-++|..-. .-.-...|..|....++ .++ |.+ +.-.
T Consensus 134 eviaeitk~mg~Gma~~~~~~v~ti~d~d~yChyvagLVg~gls-rlf~~s~le~~~~~~e~---l~n-s~g----lfLq 204 (413)
T KOG1459|consen 134 EVIAEITKRMGLGMALFIPEEVETIWDYDVYCHYVAGLVGIGLS-RLFTASKLEDLLARLEQ---LSN-SMG----LFLQ 204 (413)
T ss_pred HHHHHHHHHHhchHHHhhHHHHhHHHHHHHHHHHHHHhhCCchH-hhhhHHHHhhhhhhHHH---Hhc-ccc----hHHH
Confidence 44555556678887777777799999999999999999997632 11222334444443333 222 222 1111
Q ss_pred HHHHHHHHhhccHHHHHHHHHHHHhhHhHHHhh-hh-ccCCCHHHHHHHHHhhhhHHHHHHHHHhcc--cCCCCCChhHH
Q 015087 122 FHHVSTAFLELGKGYQDAIEDITKRMGAGMAKF-IC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYA--SGTEDLAPDSL 197 (413)
Q Consensus 122 ~~~v~~~f~~l~~~~~~lI~di~~~m~~gm~~d-l~-~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~--~~~~~~~~~~~ 197 (413)
=..+++.|..-+.. ++...-+|.-||-.| +. -.++..+|+-.||.++++++|.+-....-. ++..+...-..
T Consensus 205 ktnIirdy~ed~~d----~r~Fwp~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvfnf 280 (413)
T KOG1459|consen 205 KTNIIRDYLEDPVD----GRPFWPREIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVFNF 280 (413)
T ss_pred HhHHHHHHHhcccc----CCccChHHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHHHH
Confidence 12233444332221 111122344488888 54 469999999999999999999775443311 22222233366
Q ss_pred HHHHHHHHHHHHHHHhcHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHH
Q 015087 198 SNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCL 271 (413)
Q Consensus 198 A~~mG~aLQltNILRD~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~ 271 (413)
+--.|.+-|.||++++..||.- +|++++|+ |.+.+++.++.+.++++..+-....++...++++.
T Consensus 281 caipqimai~Tlal~~nn~dvf---rG~Vklrk------Gl~~~~I~~~k~~~~v~~~f~~y~~~i~~k~d~~d 345 (413)
T KOG1459|consen 281 CAIPQIMAIATLALCYNNEDVF---RGNVKLRK------GLAVELILASKTMDKVRNIFYMYLRDIRMKFDEAD 345 (413)
T ss_pred HHHHHHHHHHHHHHHhcCHhHh---ccceeecC------CchHHHHHhcccHHHHHHHHHHHHHHHHhhCCccC
Confidence 7788999999999999999999 99999998 89999999999999888887777666666555444
No 13
>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=94.90 E-value=2.6 Score=40.80 Aligned_cols=193 Identities=15% Similarity=0.095 Sum_probs=104.1
Q ss_pred hhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHHHHHHHhh-ccHHHHHHH
Q 015087 62 LRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLE-LGKGYQDAI 140 (413)
Q Consensus 62 lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~v~~~f~~-l~~~~~~lI 140 (413)
+-.++-.+.......|||.|+.+.... + + .|+...... .+ -...+-.+...+..+ ..... ......+.+
T Consensus 44 la~aiEllh~asLIhDDI~D~s~~RRG-~-p---~~~~~~G~~---~A-il~gd~l~~~a~~~l-~~~~~~~~~~~~~~~ 113 (259)
T cd00685 44 LAAAIELLHTASLVHDDVMDNSDLRRG-K-P---TVHKVFGNA---TA-ILAGDYLLARAFELL-ARLGNPYYPRALELF 113 (259)
T ss_pred HHHHHHHHHHHHHHHhhhccCCcccCC-C-C---cHHHHhCcc---cH-HHHHHHHHHHHHHHH-HhCCCccHHHHHHHH
Confidence 345677788888899999998654211 1 1 133322110 00 000011111111111 11111 012334445
Q ss_pred HHHHHhhHhHHHhhhhc---cCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCC---CChhHHHHHHHHHHHHHHHHHh
Q 015087 141 EDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTNIIRD 213 (413)
Q Consensus 141 ~di~~~m~~gm~~dl~~---~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~~mG~aLQltNILRD 213 (413)
.+....|..|-..|+.. ...|.++|..-+.+-.|....+++.+.+. ++... .....++.++|.++|+.|=+.|
T Consensus 114 ~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld 193 (259)
T cd00685 114 SEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILD 193 (259)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 55666777888888862 26789999988888777776666555432 12111 1233789999999999998777
Q ss_pred cHhhhhhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhh
Q 015087 214 YLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHA 281 (413)
Q Consensus 214 ~~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~~~ 281 (413)
+..|..+ .|+- ..+|+.++..+=.+.-++ -..+..+..++...++.++.+.
T Consensus 194 ~~~~~~~--~gK~------------~~~Di~~gk~T~~~~~~l---~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 194 LFGDPET--LGKP------------VGSDLREGKCTLPVLLAL---RELAREYEEKALEALKALPESP 244 (259)
T ss_pred ccCChHH--HCCC------------cchHHHcCCchHHHHHHH---HHHHHHHHHHHHHHHHcCCCcH
Confidence 7544321 1221 114555444332222222 5567777788888888887653
No 14
>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=94.38 E-value=3.3 Score=41.70 Aligned_cols=93 Identities=20% Similarity=0.169 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHhhHhHHHhhhhc---cCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCC---CChhHHHHHHHHHHHH
Q 015087 135 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 207 (413)
Q Consensus 135 ~~~~lI~di~~~m~~gm~~dl~~---~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~~mG~aLQl 207 (413)
...+.+.+....|..|...++.. .-.|.++|..-..+=.|......+.+-.. +|.++ .....++.++|.|+|+
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi 212 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQV 212 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666777787777642 23577777665555445544444433221 12221 1223788899999999
Q ss_pred HHHHHhc-----------HhhhhhCCCCCccccH
Q 015087 208 TNIIRDY-----------LEDINEIPKCRMFWPR 230 (413)
Q Consensus 208 tNILRD~-----------~ED~~~~~~GR~ylP~ 230 (413)
.+=+.|+ +.|+. .|.+=+|-
T Consensus 213 ~DDild~~~~~~~~GK~~g~Dl~---~Gk~Tlp~ 243 (322)
T TIGR02749 213 VDDILDFTGSTEQLGKPAGSDLM---KGNLTAPV 243 (322)
T ss_pred HHHhccCCCChHhhCCChhHHHh---CCCchHHH
Confidence 9888885 57777 58777775
No 15
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=93.70 E-value=8.7 Score=38.73 Aligned_cols=143 Identities=12% Similarity=0.062 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHhhHhHHHhhhh---ccCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCCC---ChhHHHHHHHHHHHH
Q 015087 135 GYQDAIEDITKRMGAGMAKFIC---KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQK 207 (413)
Q Consensus 135 ~~~~lI~di~~~m~~gm~~dl~---~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~~mG~aLQl 207 (413)
...+++.+....|..|-..|+. +.-.|.++|..-+.+=.|....+.+.+-.. +|.+.. ....++.++|.|+|+
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi 209 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQL 209 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666777778877774 234688888877777777776666554332 222211 123788999999999
Q ss_pred HHHHHhc-----------HhhhhhCCCCCccccHHHHHHcCCChh------hhhcccCC-HHHHHH---------HHHHH
Q 015087 208 TNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLE------DLKYEENS-DKAVQC---------LNDMV 260 (413)
Q Consensus 208 tNILRD~-----------~ED~~~~~~GR~ylP~e~l~~~g~~~~------dl~~~~~~-~~~~~~---------l~~lv 260 (413)
.+=+.|+ +.|+. .|..=||-=..-+. .+.+ .+...... +...++ +....
T Consensus 210 ~DD~ld~~~~~~~~GK~~g~Dl~---~gk~Tlp~l~al~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~ 285 (323)
T PRK10888 210 IDDLLDYSADGETLGKNVGDDLN---EGKPTLPLLHAMHH-GTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTR 285 (323)
T ss_pred HHHhhcccCChHhhCCCchhhhh---cCCchHHHHHHHHh-CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHH
Confidence 9988887 57777 58888884222111 1111 11111111 222222 22333
Q ss_pred HHHHHHHHHHHHHHHhchhhh
Q 015087 261 TNALMHVEDCLKYMSALRDHA 281 (413)
Q Consensus 261 ~~A~~hl~~a~~yl~~L~~~~ 281 (413)
..|..|..+|.+.+..+|+.+
T Consensus 286 ~~a~~~~~~A~~~L~~lp~~~ 306 (323)
T PRK10888 286 QRAEEEADKAIAALQVLPDTP 306 (323)
T ss_pred HHHHHHHHHHHHHHhcCCCCH
Confidence 446678888888888887653
No 16
>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=93.16 E-value=10 Score=38.10 Aligned_cols=94 Identities=15% Similarity=0.085 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHhhHhHHHhhhhc---cCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCCC---ChhHHHHHHHHHHHH
Q 015087 135 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQK 207 (413)
Q Consensus 135 ~~~~lI~di~~~m~~gm~~dl~~---~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~~mG~aLQl 207 (413)
...+.+.+.+..|..|-..|+.. .-.|.++|..-.+.=.|......+.+-.. +|..+. ....++.++|.|+|+
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI 208 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQI 208 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34445566677787887777752 24578887777766666665554443221 122211 123688999999999
Q ss_pred HHHHHhcH-----------hhhhhCCCCCccccHH
Q 015087 208 TNIIRDYL-----------EDINEIPKCRMFWPRE 231 (413)
Q Consensus 208 tNILRD~~-----------ED~~~~~~GR~ylP~e 231 (413)
.|=+.|+. .|+. .|..=+|-=
T Consensus 209 ~DDilD~~~~~~~~GK~~~~Dl~---~gk~Tlp~l 240 (319)
T TIGR02748 209 TDDILDFVGTEEELGKPAGGDLL---QGNVTLPVL 240 (319)
T ss_pred HHHHHHccCCHHhhCCChhhHHh---CCCchHHHH
Confidence 99998874 6677 577777763
No 17
>PLN02890 geranyl diphosphate synthase
Probab=93.14 E-value=6.8 Score=41.06 Aligned_cols=143 Identities=15% Similarity=0.124 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHhhHhHHHhhhhc---cCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCCC---ChhHHHHHHHHHHHH
Q 015087 135 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQK 207 (413)
Q Consensus 135 ~~~~lI~di~~~m~~gm~~dl~~---~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~~mG~aLQl 207 (413)
...+++.+.+..|..|-..|+.. .-.|+++|..-.++=.|......+.+-+. +|..+. ....+..++|.|+|+
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI 306 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQL 306 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34445566677777788878752 24578888776666556555555443221 222111 123678999999999
Q ss_pred HHHHHhcH-----------hhhhhCCCCCccccHHHHHHcCCChhhhh-cccCCH----HHHH------HHHHHHHHHHH
Q 015087 208 TNIIRDYL-----------EDINEIPKCRMFWPREIWSKYVNKLEDLK-YEENSD----KAVQ------CLNDMVTNALM 265 (413)
Q Consensus 208 tNILRD~~-----------ED~~~~~~GR~ylP~e~l~~~g~~~~dl~-~~~~~~----~~~~------~l~~lv~~A~~ 265 (413)
.+=+-|+- .|+. .|..=+|-=..-+.......+. .+..++ .+.+ .+..-...|..
T Consensus 307 ~DDiLD~~g~~~~~GK~~g~DL~---eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~ 383 (422)
T PLN02890 307 IDDVLDFTGTSASLGKGSLSDIR---HGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELARE 383 (422)
T ss_pred HHHHHhhcCChhhhCCCchhhHh---cCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 99998874 6677 5777777532211111111111 111111 1222 22334445778
Q ss_pred HHHHHHHHHHhchhh
Q 015087 266 HVEDCLKYMSALRDH 280 (413)
Q Consensus 266 hl~~a~~yl~~L~~~ 280 (413)
|..+|...+..+|+.
T Consensus 384 ~~~~A~~~L~~lp~s 398 (422)
T PLN02890 384 HANLAAAAIESLPET 398 (422)
T ss_pred HHHHHHHHHHhCCCC
Confidence 888888888888765
No 18
>CHL00151 preA prenyl transferase; Reviewed
Probab=92.03 E-value=11 Score=37.89 Aligned_cols=139 Identities=17% Similarity=0.127 Sum_probs=69.5
Q ss_pred HHHHHHHhhHhHHHhhhh---ccCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCCC---ChhHHHHHHHHHHHHHHHH
Q 015087 139 AIEDITKRMGAGMAKFIC---KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQKTNII 211 (413)
Q Consensus 139 lI~di~~~m~~gm~~dl~---~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~~mG~aLQltNIL 211 (413)
.+.+....+..|-..+.. +.-.|.++|..=.++=.|......+.+-.. +|.... ....+..++|.|+|+.+=+
T Consensus 138 ~~~~~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDi 217 (323)
T CHL00151 138 LISKVITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDV 217 (323)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444455556544432 223455665553333333333333332211 122111 1237888999999999888
Q ss_pred Hhc-----------HhhhhhCCCCCccccHHHHHHcCCChhhhh-cccCC-HHHHHH---------HHHHHHHHHHHHHH
Q 015087 212 RDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLK-YEENS-DKAVQC---------LNDMVTNALMHVED 269 (413)
Q Consensus 212 RD~-----------~ED~~~~~~GR~ylP~e~l~~~g~~~~dl~-~~~~~-~~~~~~---------l~~lv~~A~~hl~~ 269 (413)
-|+ +.|+. .|..=||-=..-+.......+. .+..+ +...++ +.+....+..|..+
T Consensus 218 lD~~~~~~~~GK~~g~Dl~---eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~ 294 (323)
T CHL00151 218 LDITSSTESLGKPIGSDLK---NGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQA 294 (323)
T ss_pred hhcccChhhhCCCchhhHh---cCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHH
Confidence 885 56777 5888788422111111111111 11111 112222 34445567788888
Q ss_pred HHHHHHhchhh
Q 015087 270 CLKYMSALRDH 280 (413)
Q Consensus 270 a~~yl~~L~~~ 280 (413)
|.+.+..+|..
T Consensus 295 A~~~L~~lp~~ 305 (323)
T CHL00151 295 AIQCLKFLPPS 305 (323)
T ss_pred HHHHHHhCCCC
Confidence 88888888754
No 19
>PLN02857 octaprenyl-diphosphate synthase
Probab=90.50 E-value=4.8 Score=42.13 Aligned_cols=93 Identities=20% Similarity=0.213 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHhhHhHHHhhhh---ccCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCCC---ChhHHHHHHHHHHHH
Q 015087 135 GYQDAIEDITKRMGAGMAKFIC---KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQK 207 (413)
Q Consensus 135 ~~~~lI~di~~~m~~gm~~dl~---~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~~mG~aLQl 207 (413)
...+++.+....|..|...++. +.-.|.++|..-.++=.|......+.+-.. +|.... ....+..++|.|+|+
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI 306 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQV 306 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4555666777777778766554 223577887776666666555544443321 222111 123788999999999
Q ss_pred HHHHHhc-----------HhhhhhCCCCCccccH
Q 015087 208 TNIIRDY-----------LEDINEIPKCRMFWPR 230 (413)
Q Consensus 208 tNILRD~-----------~ED~~~~~~GR~ylP~ 230 (413)
.+=+.|+ +.|+. .|..=+|-
T Consensus 307 ~DDiLD~~~~~~~~GK~~g~DL~---eGK~TlPl 337 (416)
T PLN02857 307 VDDILDFTQSTEQLGKPAGSDLA---KGNLTAPV 337 (416)
T ss_pred HHHHHhhcCCHHHhCCCcchhhh---cCCccHHH
Confidence 9888885 46777 58887775
No 20
>PRK10581 geranyltranstransferase; Provisional
Probab=88.31 E-value=12 Score=37.39 Aligned_cols=121 Identities=18% Similarity=0.148 Sum_probs=72.4
Q ss_pred hhHhHHHhhhh--ccCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCCC----CChhHHHHHHHHHHHHHHHHHhcHhhh
Q 015087 146 RMGAGMAKFIC--KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED----LAPDSLSNSMGLFLQKTNIIRDYLEDI 218 (413)
Q Consensus 146 ~m~~gm~~dl~--~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~~----~~~~~~A~~mG~aLQltNILRD~~ED~ 218 (413)
.|..|-..|+. ....|.++|..-+++=.|......+.+-.. +|..+ ....+++.++|.|+|+.+=+.|+-.|.
T Consensus 153 ~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~ 232 (299)
T PRK10581 153 GMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDT 232 (299)
T ss_pred hhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCCh
Confidence 46667777775 234678888877765555554444433221 22211 112368899999999998888874333
Q ss_pred hhCCCCCccccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q 015087 219 NEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 280 (413)
Q Consensus 219 ~~~~~GR~ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~L~~~ 280 (413)
. .++|- .-+|+.++..+-.....+...-..+..++.+|.+.+..+|+.
T Consensus 233 ~------------~~GK~--~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~ 280 (299)
T PRK10581 233 A------------TLGKR--QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQ 280 (299)
T ss_pred H------------HHCCC--cchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 2 11111 013444444444444455566667888888888888888754
No 21
>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=84.46 E-value=53 Score=33.90 Aligned_cols=169 Identities=12% Similarity=0.092 Sum_probs=84.2
Q ss_pred HHHHhcChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHHHHHHHhhc
Q 015087 53 LVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLEL 132 (413)
Q Consensus 53 ~ai~~Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~v~~~f~~l 132 (413)
.+-..+|.+.+-.|.+++.+.-.+||+.++.+ .-++.|++.+.. |++..++++..|......+...
T Consensus 76 ~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~~-------~~l~~F~~~l~~-------Gq~Q~~p~L~~~~~~L~~~~~~ 141 (376)
T PF06330_consen 76 YCYPHLPKEVQVAIAIYTTYVIIIDDSSQEPS-------DDLRTFHQRLIL-------GQPQKHPLLDGFASLLREMWRH 141 (376)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHTT--S-SH-------HHHTTHHHHHHH-------T---SSHHHHHHHHHHHHHHTT
T ss_pred eecCCCCHHHHHHHHHHHHHHHhccccccccc-------HHHHHHHHHHhc-------CCCCCCHHHHHHHHHHHHHHHH
Confidence 33467899999999999999999999977653 255567777754 6666567888888888776655
Q ss_pred cHHH-HHHHHHHHHhhHhHHH--hhhhccCC---CHHHHHHHHHhhhhHHHHHHHHHhcccCCCC-CChhHHHHHHHHHH
Q 015087 133 GKGY-QDAIEDITKRMGAGMA--KFICKEVE---SIDDYDEYCYYVAGLVGLGLSKLFYASGTED-LAPDSLSNSMGLFL 205 (413)
Q Consensus 133 ~~~~-~~lI~di~~~m~~gm~--~dl~~~~~---T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~-~~~~~~A~~mG~aL 205 (413)
-++| -++|-.-+-+..+|.. ..-.+..+ .+.++.+=...++.+.+. -+|-.+..++ ....++...+....
T Consensus 142 fgpf~anmI~~STLdFi~g~~LE~~~f~~~p~A~~FP~fLR~ktGlsEaYA~---FiFPk~~fpe~~~~~~y~~AIpdl~ 218 (376)
T PF06330_consen 142 FGPFCANMIVKSTLDFINGCWLEQKNFHGSPGAPDFPDFLRRKTGLSEAYAF---FIFPKALFPEVEYFIQYTPAIPDLM 218 (376)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHTTT----TT-TTHHHHHHHHHH-HHHHHH---HT--TTTS-TTTTHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHHHHhhcccCCCCCCCccccHHHHhccCcchhhee---eecccccCChHHHHHHHHHHHHHHH
Confidence 4444 3333322223333332 11112233 344444444444444332 2343221111 11224444566666
Q ss_pred HHHHHHHhcH----hhh-hhCCCCC-ccccHHHHHHcCCChhh
Q 015087 206 QKTNIIRDYL----EDI-NEIPKCR-MFWPREIWSKYVNKLED 242 (413)
Q Consensus 206 QltNILRD~~----ED~-~~~~~GR-~ylP~e~l~~~g~~~~d 242 (413)
..+|++-|+. |-. . ..+ .|+ ...-.-+|++..+
T Consensus 219 ~fi~~~NDILSFYKE~l~a---~E~~NyI-~n~A~~~g~S~~e 257 (376)
T PF06330_consen 219 RFINYVNDILSFYKEELVA---GETGNYI-HNRARVHGVSILE 257 (376)
T ss_dssp HHHHHHHHHHHHHHHHTTS---SSSSSHH-HHHHHHHT--HHH
T ss_pred HHHHhhhhHHHHHHhhccc---ccccchh-hhhhhccCCCHHH
Confidence 6777777765 322 2 233 455 4444456665544
No 22
>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=82.95 E-value=47 Score=32.08 Aligned_cols=83 Identities=16% Similarity=0.116 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhhHhHHHh---hhhcc--CCCHHHHHHHHHhhhhHHHHHHHHHhccc-CCCC---CChhHHHHHHHHHHH
Q 015087 136 YQDAIEDITKRMGAGMAK---FICKE--VESIDDYDEYCYYVAGLVGLGLSKLFYAS-GTED---LAPDSLSNSMGLFLQ 206 (413)
Q Consensus 136 ~~~lI~di~~~m~~gm~~---dl~~~--~~T~~dl~~YC~~VAG~VG~ll~~l~~~~-~~~~---~~~~~~A~~mG~aLQ 206 (413)
...+++.+...+..|+.. |+... ..|+++|..-.++=.|+...+.+++-... |... .....++.++|.++|
T Consensus 104 ~~~i~~~~~~~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQ 183 (260)
T PF00348_consen 104 VLRILELFIEALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQ 183 (260)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHh
Confidence 444555555555545443 44333 77999999988888888877777665432 2221 112378899999999
Q ss_pred HHHHHHhcHhhh
Q 015087 207 KTNIIRDYLEDI 218 (413)
Q Consensus 207 ltNILRD~~ED~ 218 (413)
+.|=+.|+..|-
T Consensus 184 i~DD~~d~~~~~ 195 (260)
T PF00348_consen 184 IRDDLLDLFGDE 195 (260)
T ss_dssp HHHHHHHHHSHH
T ss_pred hhhhhhhccCcH
Confidence 999888776543
No 23
>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=72.42 E-value=99 Score=30.12 Aligned_cols=209 Identities=12% Similarity=0.028 Sum_probs=107.5
Q ss_pred HHHHhcC---hhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHHHhhHHHHHHHH
Q 015087 53 LVIQQLG---TDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAF 129 (413)
Q Consensus 53 ~ai~~Lp---~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~ll~~~~~v~~~f 129 (413)
++....| ++.-..++-+..+.-..||.-|+....++.-......+-+.+.+.. ..+.....++...+..+..++
T Consensus 46 ~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~p~~~~~~d~~~r~ 122 (303)
T cd00687 46 LAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILRGDG---LDSPDDATPLEFGLADLWRRT 122 (303)
T ss_pred HHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccCCCC---CCCCCCCCHHHHHHHHHHHHh
Confidence 4444444 4555556677888899999999873222222222222222222210 000122345555566666655
Q ss_pred hhcc-HHHHHHHHHHHHhhHhHHHhhhh----ccCCCHHHHHHHHHhhhhH-HHHHHHHHhcccCCCC-----CChhHHH
Q 015087 130 LELG-KGYQDAIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGL-VGLGLSKLFYASGTED-----LAPDSLS 198 (413)
Q Consensus 130 ~~l~-~~~~~lI~di~~~m~~gm~~dl~----~~~~T~~dl~~YC~~VAG~-VG~ll~~l~~~~~~~~-----~~~~~~A 198 (413)
.... +...+-+.+-+..+..|+..... ..++|+++|..+=....|. +...++.+.......+ +....+-
T Consensus 123 ~~~~~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~~l~ 202 (303)
T cd00687 123 LARMSAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMRALE 202 (303)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHHHHH
Confidence 4432 22222222233334445544432 2467877777666666443 2233333332111111 1122456
Q ss_pred HHHHHHHHHHHHHHhcHhhh-hhCCCCCcc-ccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 015087 199 NSMGLFLQKTNIIRDYLEDI-NEIPKCRMF-WPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 276 (413)
Q Consensus 199 ~~mG~aLQltNILRD~~ED~-~~~~~GR~y-lP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~ 276 (413)
...+...-++|=|=.+..+. + .|... +-.=++..+|++.+ ++.+.+.+++......+.+...-+..
T Consensus 203 ~~~~~~~~l~NDl~S~~KE~~~---~g~~~N~V~vl~~~~g~s~~---------eA~~~~~~~~~~~~~~f~~~~~~l~~ 270 (303)
T cd00687 203 ALASDAIALVNDIYSYEKEIKA---NGEVHNLVKVLAEEHGLSLE---------EAISVVRDMHNERITQFEELEASLIK 270 (303)
T ss_pred HHHHHHHHHHHHHHhhHHHHHh---CCccchHHHHHHHHcCCCHH---------HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 67777778888888888887 5 56632 22224455666554 46667777778777777777764433
No 24
>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=70.83 E-value=1.6e+02 Score=31.84 Aligned_cols=267 Identities=16% Similarity=0.123 Sum_probs=126.5
Q ss_pred cChhhhHHHHHHHHhhccccCCCC-CchhHHHHHHHHhhcCCCHHHHHHhcC--hhhhhHHHHHHHHHHHhhhhccCCCC
Q 015087 9 RHPDDLYPLLKLKMASRQAEKQIP-PEPHWAFCYSMLHKVSRSFALVIQQLG--TDLRNAVCIFYLVLRALDTVEDDTSI 85 (413)
Q Consensus 9 ~hp~e~~~~~~~~~~~~~~~~~~~-~~~~~~~C~~il~~~srSF~~ai~~Lp--~~lR~av~alYaf~R~lD~I~Dd~~~ 85 (413)
.|=.||..+.+|.--..-. ..++ .+.-+..|+ -..+++.+-| ...|-.++=+-.+.-.+||+=|.-..
T Consensus 235 ~hq~El~~~~rWwk~~gL~-~~l~~aRdr~ve~y--------f~~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt 305 (542)
T cd00684 235 LHQEELKILSRWWKDLDLA-SKLPFARDRLVECY--------FWAAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGT 305 (542)
T ss_pred hHHHHHHHHhHHHHhcCCc-ccCCcccchhHHHH--------HHHHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCC
Confidence 5889999998864432211 1112 122222232 1223334444 23344555566677778888885431
Q ss_pred CccchHHHHHHHHHHHcccccccc--cCCCc-chHHHhhHHHHHHHHhh----cc-HHHHHHHHHHHHhhHhHHHhhhh-
Q 015087 86 PTDVKVPILIAFHRHVYDREWHFS--CGTKE-YKVLMDQFHHVSTAFLE----LG-KGYQDAIEDITKRMGAGMAKFIC- 156 (413)
Q Consensus 86 ~~~~k~~~L~~~~~~l~~~~w~f~--~G~~~-~~~ll~~~~~v~~~f~~----l~-~~~~~lI~di~~~m~~gm~~dl~- 156 (413)
...|+.|-+.+.. |.-. .+-|. .+++..++..+..++.. -. ......+.+..++...|+.....
T Consensus 306 -----~eEl~~ft~ai~r--wd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w 378 (542)
T cd00684 306 -----LEELELFTEAVER--WDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKW 378 (542)
T ss_pred -----HHHHHHHHHHHHh--ccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHH
Confidence 2357777777763 4221 11121 23344444444332221 10 11122223344444456666554
Q ss_pred ---ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCC-Ch-------hHHHHHHHHHHHHHHHHHhcHhhhhhCCCCC
Q 015087 157 ---KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL-AP-------DSLSNSMGLFLQKTNIIRDYLEDINEIPKCR 225 (413)
Q Consensus 157 ---~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~-~~-------~~~A~~mG~aLQltNILRD~~ED~~~~~~GR 225 (413)
..++|++||......++|.--.+.+-.++. |...+ .. ..+-...+...-+.|=|-.+..... +|.
T Consensus 379 ~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~-g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~---rGd 454 (542)
T cd00684 379 AHEGYVPTFEEYMENALVSIGLGPLLLTSFLGM-GDILTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDEMK---RGD 454 (542)
T ss_pred HhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhc-CCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHHHh---cCC
Confidence 348999998888666655443333333332 21111 00 1223333444444444444444444 455
Q ss_pred c-cccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHH-HhchhhhhhhhhhhhHHHHHHHHHHHhcC
Q 015087 226 M-FWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYM-SALRDHAIFRFCAIPQIMAIGTLALCYNN 303 (413)
Q Consensus 226 ~-ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl-~~L~~~~~~~f~aiP~~mAiatL~~~~~n 303 (413)
+ =.-.=.+..+|++. +.+.+.+..++.++...+.+..--- ..+| +.|..+..=...++..+|.+
T Consensus 455 v~n~V~~ymke~g~s~---------eeA~~~i~~~ie~~wk~ln~e~l~~~~~~p-----~~~~~~~~n~~r~~~~~Y~~ 520 (542)
T cd00684 455 VASSIECYMKEYGVSE---------EEAREEIKKMIEDAWKELNEEFLKPSSDVP-----RPIKQRFLNLARVIDVFYKE 520 (542)
T ss_pred cccHHHHHHHhcCCCH---------HHHHHHHHHHHHHHHHHHHHHHhcCCCCCC-----HHHHHHHHHHHHHHHHHhcC
Confidence 3 12222455666654 4577788889988888776554211 1122 22222222223334556776
Q ss_pred CCCccC
Q 015087 304 IEVFRG 309 (413)
Q Consensus 304 ~~vf~~ 309 (413)
.|-|+.
T Consensus 521 ~D~~t~ 526 (542)
T cd00684 521 GDGFTH 526 (542)
T ss_pred CCCCCC
Confidence 666653
No 25
>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=64.08 E-value=1.4e+02 Score=28.51 Aligned_cols=192 Identities=16% Similarity=0.081 Sum_probs=96.6
Q ss_pred hhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHccccccc--ccCCC-cchHHHhhHHHHHHHHhhccH--
Q 015087 60 TDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHF--SCGTK-EYKVLMDQFHHVSTAFLELGK-- 134 (413)
Q Consensus 60 ~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f--~~G~~-~~~~ll~~~~~v~~~f~~l~~-- 134 (413)
.+.+..++-+.+++-.+||.-|+..... ..+.+.+.+.. |.. ..+.+ ...++...+..+..+......
T Consensus 46 ~~~l~~~a~~~~~~f~~DD~~D~~~~~~-----~~~~~~~~~~~--~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~ 118 (284)
T cd00868 46 SEARIALAKTIALLTVIDDTYDDYGTLE-----ELELFTEAVER--WDISAIDELPEYMKPVFKALYDLVNEIEEELAKE 118 (284)
T ss_pred hHHHHHHHHHHHHHHHHHhccccCCCHH-----HHHHHHHHHHh--cChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3577888889999999999999864321 22333333321 111 11222 234555566666554443221
Q ss_pred ---HHHHHHHHHHHhhHhHHHhhhh----ccCCCHHHHHHHHHhhhhHHHHHHHHHhcccCCCCC--------ChhHHHH
Q 015087 135 ---GYQDAIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL--------APDSLSN 199 (413)
Q Consensus 135 ---~~~~lI~di~~~m~~gm~~dl~----~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~~~~~~--------~~~~~A~ 199 (413)
....-+.+-+..+.+|+..... ..++|.+||..+=...+|.--.+.+--++. |..-+ ....+..
T Consensus 119 ~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~-g~~l~~~~~~~~~~~~~l~~ 197 (284)
T cd00868 119 GGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGM-GDILPEEAFEWLPSYPKLVR 197 (284)
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHc-CCCCCHHHHHHhhhhHHHHH
Confidence 2222222333344446655553 237888887776666655422222222221 11111 1124455
Q ss_pred HHHHHHHHHHHHHhcHhhhhhCCCCCc-cccHHHHHHcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHH
Q 015087 200 SMGLFLQKTNIIRDYLEDINEIPKCRM-FWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCL 271 (413)
Q Consensus 200 ~mG~aLQltNILRD~~ED~~~~~~GR~-ylP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~ 271 (413)
..+...-++|=+-.+..+.. .|.. =+..=++..+|++.+ ++.+-+.+++......+.+..
T Consensus 198 ~~~~~~~l~NDl~S~~kE~~---~g~~~N~v~vl~~~~~~~~~---------eA~~~~~~~~~~~~~~~~~~~ 258 (284)
T cd00868 198 ASSTIGRLLNDIASYEKEIA---RGEVANSVECYMKEYGVSEE---------EALEELRKMIEEAWKELNEEV 258 (284)
T ss_pred HHHHHHHHhccchHHHHHHc---cCCcccHHHHHHhccCCCHH---------HHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666655 5654 233334455555443 355556666666665555433
No 26
>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=58.10 E-value=1.7e+02 Score=27.63 Aligned_cols=173 Identities=14% Similarity=0.007 Sum_probs=87.2
Q ss_pred hhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccc-cccccCCCcchHHHhhHHHHHHHHhhcc-HH-H
Q 015087 60 TDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDRE-WHFSCGTKEYKVLMDQFHHVSTAFLELG-KG-Y 136 (413)
Q Consensus 60 ~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~-w~f~~G~~~~~~ll~~~~~v~~~f~~l~-~~-~ 136 (413)
++.+..++-+..+.-..||+-|+.+.. .. ++.+.+.+..-. .....+.+..+++...+..+..+..... +. .
T Consensus 60 ~~~l~~~a~~~~w~f~~DD~~D~~~~~--~~---~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~ 134 (270)
T PF03936_consen 60 SDELLAAADWMAWLFIFDDFFDDGGSA--EE---LEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQR 134 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSHH--HH---HHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhchheeeeeeccccccch--HH---HHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhc
Confidence 566778888999999999999987532 22 444555444100 0111122334456666666665554322 12 2
Q ss_pred HH-H---HHHHHHhhHhHHHhhhh----ccCCCHHHHHHHHHhhhhHHHHHHHHHhccc--CCCCC-----ChhHHHHHH
Q 015087 137 QD-A---IEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLVGLGLSKLFYAS--GTEDL-----APDSLSNSM 201 (413)
Q Consensus 137 ~~-l---I~di~~~m~~gm~~dl~----~~~~T~~dl~~YC~~VAG~VG~ll~~l~~~~--~~~~~-----~~~~~A~~m 201 (413)
+. . +.+-+.+..+|...... ..++|++||..+=..++|.--.+..-.++-. ..+.+ ....+....
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~ 214 (270)
T PF03936_consen 135 RRDQIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLA 214 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHH
T ss_pred ccHHhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHH
Confidence 22 1 11122222223333332 2488888888877777776443333322211 00100 011255566
Q ss_pred HHHHHHHHHHHhcHhhhhhCCCCCc--cccHHHHHHcCCChh
Q 015087 202 GLFLQKTNIIRDYLEDINEIPKCRM--FWPREIWSKYVNKLE 241 (413)
Q Consensus 202 G~aLQltNILRD~~ED~~~~~~GR~--ylP~e~l~~~g~~~~ 241 (413)
+...-++|=|-.+..+.. .|.. .++- ++..+|++.+
T Consensus 215 ~~~~~l~NDl~S~~KE~~---~g~~~N~v~~-l~~~~~~s~e 252 (270)
T PF03936_consen 215 ADIIRLVNDLYSYKKEIA---RGDVHNLVVV-LMNEHGLSLE 252 (270)
T ss_dssp HHHHHHHHHHHHHHHHHH---TTSCCSHHHH-HHHHHTHHHH
T ss_pred HHHHHHhcccchhhcchh---hcccccHHHH-hhhhcCCCHH
Confidence 777777777777777776 4554 3433 3444465544
No 27
>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=57.99 E-value=1.3e+02 Score=30.74 Aligned_cols=102 Identities=17% Similarity=0.190 Sum_probs=59.4
Q ss_pred cChhhhhHHHHHHHHHHHhhhhccCCCCCccchHHHHHHHHHHHcccccccccCCCcchHH----HhhHHHHHHHHhhcc
Q 015087 58 LGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVL----MDQFHHVSTAFLELG 133 (413)
Q Consensus 58 Lp~~lR~av~alYaf~R~lD~I~Dd~~~~~~~k~~~L~~~~~~l~~~~w~f~~G~~~~~~l----l~~~~~v~~~f~~l~ 133 (413)
.++++..++.+.|...-.+||+.|+++. -|+.|.+.|.. |++..+|+ ...|+.+.+.|+-..
T Consensus 81 ~skev~~~isi~~tY~~~lDD~~~e~~~-------~m~~f~~dL~~-------G~~qkhP~l~~v~~~l~~~lr~fGpF~ 146 (357)
T cd00686 81 VSKECMADLSIHYTYTLVLDDSKDDPYP-------TMVNYFDDLQA-------GREQAHPWWALVNEHFPNVLRHFGPFC 146 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccch-------HHHHHHHHHhc-------CCCCCCcHHHHHHHHHHHHHHHhhhhh
Confidence 7899999999999999999999998752 45667777754 66655553 344555555554322
Q ss_pred HHHHHHHHHHHHhhHhHHHhhhh--ccCCCHHHHHHHHHhhhhHH
Q 015087 134 KGYQDAIEDITKRMGAGMAKFIC--KEVESIDDYDEYCYYVAGLV 176 (413)
Q Consensus 134 ~~~~~lI~di~~~m~~gm~~dl~--~~~~T~~dl~~YC~~VAG~V 176 (413)
.. .+|+ -+-+..+|.--... ...+.-.++=.|-+...|+-
T Consensus 147 s~--~Iik-STLdFv~g~~iEq~nf~~~p~A~~fP~ylR~ksGl~ 188 (357)
T cd00686 147 SL--NLIR-STLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLG 188 (357)
T ss_pred HH--HHHH-HHHHHHHHHHHhhhccCCCCCCcccchHHHhccCCc
Confidence 11 1221 11112223222211 23555556666766666543
No 28
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=43.09 E-value=3.6e+02 Score=27.06 Aligned_cols=143 Identities=16% Similarity=0.126 Sum_probs=74.3
Q ss_pred HHHHHHHHHHhhHhHHHhhhhc--cCCCHHHHHHHHHhhhhHHHHHHHHHhcc-cCCC-C--CChhHHHHHHHHHHHHHH
Q 015087 136 YQDAIEDITKRMGAGMAKFICK--EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTE-D--LAPDSLSNSMGLFLQKTN 209 (413)
Q Consensus 136 ~~~lI~di~~~m~~gm~~dl~~--~~~T~~dl~~YC~~VAG~VG~ll~~l~~~-~~~~-~--~~~~~~A~~mG~aLQltN 209 (413)
....+.+-+..|..|-..|+.. ...|.++|..=-+.=-|..-...+.+-+. ++.. . .....++..+|+|+|+.+
T Consensus 135 ~~~~~~~~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~D 214 (322)
T COG0142 135 AIKALAEAINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQD 214 (322)
T ss_pred HHHHHHHHHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHH
Confidence 3445556777788899899862 23676666554444444443333333322 1211 1 122378999999999998
Q ss_pred HHHhcHhhhhhC--------CCCCccccHHHHHHcCCChhh-hh----cccCCHHHHHHHH------HHHHHHHHHHHHH
Q 015087 210 IIRDYLEDINEI--------PKCRMFWPREIWSKYVNKLED-LK----YEENSDKAVQCLN------DMVTNALMHVEDC 270 (413)
Q Consensus 210 ILRD~~ED~~~~--------~~GR~ylP~e~l~~~g~~~~d-l~----~~~~~~~~~~~l~------~lv~~A~~hl~~a 270 (413)
=+=|+.-|..+. ..|..=||.=..-+.+...+. +. .+..-+++.+.+. .-...+..+..+|
T Consensus 215 DiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a 294 (322)
T COG0142 215 DILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEKA 294 (322)
T ss_pred HhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHHH
Confidence 777776443320 035566665433333322110 00 0100011111111 1122377788888
Q ss_pred HHHHHhch
Q 015087 271 LKYMSALR 278 (413)
Q Consensus 271 ~~yl~~L~ 278 (413)
...++.+|
T Consensus 295 ~~~L~~l~ 302 (322)
T COG0142 295 KEALEKLP 302 (322)
T ss_pred HHHHHhCC
Confidence 88888887
Done!