Query 018980
Match_columns 348
No_of_seqs 201 out of 1548
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 05:41:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02890 geranyl diphosphate s 100.0 2.7E-75 5.9E-80 580.2 31.1 338 1-346 1-342 (422)
2 TIGR02748 GerC3_HepT heptapren 100.0 5.8E-60 1.3E-64 458.3 28.1 242 86-346 3-244 (319)
3 PRK10888 octaprenyl diphosphat 100.0 1.5E-59 3.3E-64 455.8 28.1 241 88-347 6-246 (323)
4 TIGR02749 prenyl_cyano solanes 100.0 2.2E-59 4.8E-64 454.6 28.8 243 88-346 6-248 (322)
5 COG0142 IspA Geranylgeranyl py 100.0 3.6E-59 7.8E-64 453.2 28.5 244 88-347 3-249 (322)
6 CHL00151 preA prenyl transfera 100.0 9.2E-59 2E-63 450.6 27.1 245 86-346 5-249 (323)
7 PLN02857 octaprenyl-diphosphat 100.0 6.4E-59 1.4E-63 462.9 25.9 249 85-346 94-342 (416)
8 PRK10581 geranyltranstransfera 100.0 1.5E-56 3.2E-61 430.7 26.7 238 90-347 5-258 (299)
9 KOG0776 Geranylgeranyl pyropho 100.0 2.9E-55 6.3E-60 425.4 24.5 245 84-347 63-316 (384)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 1.4E-53 3E-58 402.1 24.9 217 111-345 3-222 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 2.1E-53 4.6E-58 401.2 17.8 211 117-347 4-221 (260)
12 cd00867 Trans_IPPS Trans-Isopr 100.0 1.1E-41 2.4E-46 314.8 22.8 198 131-346 1-199 (236)
13 KOG0711 Polyprenyl synthetase 100.0 3.4E-35 7.4E-40 276.7 18.7 222 112-347 38-269 (347)
14 KOG0777 Geranylgeranyl pyropho 100.0 1.5E-33 3.2E-38 255.3 12.8 210 114-346 23-233 (322)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.9 2.1E-21 4.5E-26 174.9 20.6 169 169-346 14-185 (243)
16 PF07307 HEPPP_synt_1: Heptapr 97.8 0.00066 1.4E-08 62.6 13.4 96 166-269 34-129 (212)
17 cd00683 Trans_IPPS_HH Trans-Is 95.2 0.43 9.4E-06 45.0 13.2 85 238-341 93-177 (265)
18 TIGR01559 squal_synth farnesyl 95.1 0.9 1.9E-05 44.9 15.2 98 231-340 101-198 (336)
19 PF00494 SQS_PSY: Squalene/phy 93.8 0.28 6E-06 46.1 8.1 88 236-341 89-177 (267)
20 PLN02632 phytoene synthase 93.0 0.54 1.2E-05 46.3 8.9 88 238-341 140-229 (334)
21 TIGR03465 HpnD squalene syntha 92.9 0.74 1.6E-05 43.6 9.6 84 238-341 85-168 (266)
22 TIGR03464 HpnC squalene syntha 91.4 1.3 2.8E-05 42.0 9.2 82 239-340 87-168 (266)
23 PRK12884 ubiA prenyltransferas 88.6 22 0.00048 33.6 16.4 154 168-346 40-198 (279)
24 PRK12882 ubiA prenyltransferas 87.7 25 0.00054 33.3 15.0 55 169-223 42-99 (276)
25 cd00687 Terpene_cyclase_nonpla 82.3 17 0.00037 34.5 11.2 88 229-318 127-219 (303)
26 PRK09573 (S)-2,3-di-O-geranylg 76.7 70 0.0015 30.4 15.1 54 169-222 41-97 (279)
27 PRK07566 bacteriochlorophyll/c 64.8 1.4E+02 0.0031 29.0 14.0 50 172-221 72-124 (314)
28 PF01040 UbiA: UbiA prenyltran 58.8 1.4E+02 0.0031 27.0 17.9 148 176-346 34-189 (257)
29 cd00868 Terpene_cyclase_C1 Ter 58.8 1.5E+02 0.0033 27.3 14.8 86 231-318 122-213 (284)
30 PRK12872 ubiA prenyltransferas 57.2 1.7E+02 0.0038 27.5 12.2 33 303-346 172-204 (285)
31 TIGR01476 chlor_syn_BchG bacte 54.8 1.9E+02 0.0041 27.4 11.5 50 172-221 45-97 (283)
32 COG1562 ERG9 Phytoene/squalene 54.4 80 0.0017 30.6 8.8 85 237-340 102-186 (288)
33 TIGR02056 ChlG chlorophyll syn 53.5 2.2E+02 0.0047 27.5 14.9 51 171-221 60-113 (306)
34 PRK12871 ubiA prenyltransferas 52.8 2.2E+02 0.0049 27.5 14.8 46 177-223 54-113 (297)
35 TIGR01474 ubiA_proteo 4-hydrox 51.1 2.3E+02 0.0049 27.0 15.7 55 169-223 44-103 (281)
36 PRK10581 geranyltranstransfera 49.5 95 0.0021 30.1 8.5 61 168-228 206-278 (299)
37 KOG3330 Transport protein part 48.2 36 0.00078 30.1 4.8 58 267-334 12-75 (183)
38 PRK10888 octaprenyl diphosphat 46.7 1E+02 0.0023 30.1 8.5 42 284-327 56-97 (323)
39 PF06783 UPF0239: Uncharacteri 44.8 29 0.00063 27.5 3.4 25 291-315 15-39 (85)
40 PRK12878 ubiA 4-hydroxybenzoat 44.3 3.1E+02 0.0067 26.7 14.5 56 169-224 76-136 (314)
41 PRK12883 ubiA prenyltransferas 43.2 2.9E+02 0.0063 26.0 12.3 51 171-221 43-96 (277)
42 PRK12848 ubiA 4-hydroxybenzoat 38.7 3.5E+02 0.0076 25.7 13.9 52 171-222 48-104 (282)
43 PLN00012 chlorophyll synthetas 37.1 61 0.0013 32.6 5.2 49 168-216 126-177 (375)
44 TIGR01475 ubiA_other putative 36.6 3.7E+02 0.0081 25.4 13.2 49 169-217 40-93 (282)
45 cd00685 Trans_IPPS_HT Trans-Is 35.9 91 0.002 29.1 6.0 40 287-328 33-73 (259)
46 PRK12870 ubiA 4-hydroxybenzoat 35.0 4.1E+02 0.0089 25.4 15.8 53 170-222 51-108 (290)
47 PF00348 polyprenyl_synt: Poly 34.9 71 0.0015 29.9 5.0 37 280-316 21-57 (260)
48 PRK06080 1,4-dihydroxy-2-napht 34.4 3.3E+02 0.0071 25.8 9.7 82 260-343 2-90 (293)
49 COG0382 UbiA 4-hydroxybenzoate 32.9 4.3E+02 0.0094 25.0 16.4 154 167-345 49-209 (289)
50 PRK13105 ubiA prenyltransferas 30.0 1.5E+02 0.0032 28.6 6.4 32 304-346 172-203 (282)
51 TIGR01568 A_thal_3678 uncharac 29.9 1.8E+02 0.004 21.9 5.5 53 85-142 7-60 (66)
52 TIGR02748 GerC3_HepT heptapren 28.8 1E+02 0.0023 30.0 5.2 42 285-328 56-97 (319)
53 PRK13591 ubiA prenyltransferas 28.7 5.7E+02 0.012 25.1 15.1 30 170-199 63-92 (307)
54 COG0142 IspA Geranylgeranyl py 23.9 3.5E+02 0.0077 26.3 7.9 23 167-189 196-218 (322)
55 cd00867 Trans_IPPS Trans-Isopr 23.7 2.3E+02 0.005 25.5 6.3 47 280-328 6-52 (236)
56 PRK12878 ubiA 4-hydroxybenzoat 23.4 2.5E+02 0.0054 27.4 6.7 78 260-341 29-120 (314)
57 TIGR01476 chlor_syn_BchG bacte 22.1 1.7E+02 0.0038 27.7 5.3 49 170-218 166-215 (283)
58 PF03936 Terpene_synth_C: Terp 22.0 4.3E+02 0.0092 24.1 7.8 86 232-318 138-228 (270)
59 CHL00151 preA prenyl transfera 21.5 3.6E+02 0.0077 26.3 7.4 22 168-189 198-219 (323)
60 KOG1166 Mitotic checkpoint ser 20.9 57 0.0012 36.9 1.9 36 166-201 799-835 (974)
61 PRK13105 ubiA prenyltransferas 20.2 1.7E+02 0.0036 28.3 4.7 58 167-224 162-220 (282)
62 PRK07566 bacteriochlorophyll/c 20.2 1.8E+02 0.0039 28.2 5.0 53 169-221 193-246 (314)
No 1
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=2.7e-75 Score=580.19 Aligned_cols=338 Identities=73% Similarity=1.022 Sum_probs=308.4
Q ss_pred ChhhhhhhhhhcccccCccccccccCCCCccc----cccchhhhccCCCccccccccccccccccccccccccccCCCCc
Q 018980 1 MLIYRGLSRISRISKKTSFGRRWLPSHPLLSG----ASHSAAAAAADSSVKVLGCREAYSWSLPALHGIRHQIHHQSSSV 76 (348)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~ 76 (348)
|+|+|+++||+ +.+.+++||+.+.+.+.+ ..+.+.++++.+++|+.+||.++.|++..+|.+++++++++.+.
T Consensus 1 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (422)
T PLN02890 1 MLLSRRVARIS---ATSGGGRGAYGCSQSLASSRAALLGRHGHPLSQSTSKVVGCRGTYSVSSRWLHGFQYQVRHQSSSL 77 (422)
T ss_pred CCcchHHHHHh---ccccccccchhhhhhhcccccccCCCCcccccCCCccccccccceeechhhhhhhhhhchhcccch
Confidence 89999999888 778889999999664333 33556778889999999999999999999999999999999988
Q ss_pred cccccccccCCchhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCch
Q 018980 77 IEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVE 156 (348)
Q Consensus 77 ~~~~~~~~~~d~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~ 156 (348)
+++ +.|+|+++.++|+.++++|++.+....|.+.+++.|++..|.+|||+||+|++++++++|...+.+.++...
T Consensus 78 ~~~-----~~~~~~~i~~~L~~v~~~L~~~v~~~~~~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~ 152 (422)
T PLN02890 78 VEE-----QLDPFSLVADELSLLANKLRSMVVAEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVL 152 (422)
T ss_pred hhh-----HHHHHHHHHHHHHHHHHHHHHHHccCChHHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccc
Confidence 988 999999999999999999999999999999999999998656699999999999999998754322111111
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHH
Q 018980 157 DALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLL 236 (348)
Q Consensus 157 ~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~l 236 (348)
++.+.+++++++.+|+++||||+||||||||||++++|||+||+|.+||++.||++||||+++|+..++...+.++++.+
T Consensus 153 ~~~~~~~~~~~~~~AaavEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~ 232 (422)
T PLN02890 153 DIVASELRTRQQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLL 232 (422)
T ss_pred hhhccchhhhHHHHHHHHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence 23345567789999999999999999999999999999999999999999999999999999999999988899999999
Q ss_pred HHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018980 237 ATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 316 (348)
Q Consensus 237 a~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD 316 (348)
++++..+++||++|+.+..+...++++|++++++|||+||+++|++|++++|++++..+.+++||+++|+||||+||++|
T Consensus 233 s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD 312 (422)
T PLN02890 233 ATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLD 312 (422)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999988777788999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccccCCCchhHHhcCcchHHHHHHHh
Q 018980 317 FTGTSASLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 317 ~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
|+|+++.+||+.++||++||+|+|+++|++
T Consensus 313 ~~g~~~~~GK~~g~DL~eGk~TlPvl~al~ 342 (422)
T PLN02890 313 FTGTSASLGKGSLSDIRHGVITAPILFAME 342 (422)
T ss_pred hcCChhhhCCCchhhHhcCCccHHHHHHHh
Confidence 999999999999999999999999999986
No 2
>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=100.00 E-value=5.8e-60 Score=458.31 Aligned_cols=242 Identities=30% Similarity=0.493 Sum_probs=227.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHH
Q 018980 86 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 165 (348)
Q Consensus 86 ~d~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~ 165 (348)
.+.+..+.++++.+++.+.+.+....|.+.+++.|++.. +|||+||.|++++++++|.+. +
T Consensus 3 ~~~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~--gGKriRp~L~ll~~~~~~~~~-----------------~ 63 (319)
T TIGR02748 3 ADIYSFLQKDIDSIEKELEKAVQAEHPVLSEASLHLLEA--GGKRIRPVFVLLAGKFGDYDL-----------------D 63 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCCH-----------------H
Confidence 346788999999999999999988888999999999984 599999999999999876542 2
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Q 018980 166 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 245 (348)
Q Consensus 166 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~ 245 (348)
.+..+|+++||||+||||||||+|+|++|||+||+|.+||++.||++||||+++++..+++.++.++++.+++++.++++
T Consensus 64 ~~~~~A~aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~ 143 (319)
T TIGR02748 64 AIKHVAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCR 143 (319)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence 67889999999999999999999999999999999999999999999999999999999988888999999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccC
Q 018980 246 GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325 (348)
Q Consensus 246 GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~G 325 (348)
||++|+....+...++++|++++++|||+||+++|.+|++++|.+++..+.+++||+++|+||||+||++||+++++.+|
T Consensus 144 Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~G 223 (319)
T TIGR02748 144 GEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELG 223 (319)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhC
Confidence 99999987766678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhHHhcCcchHHHHHHHh
Q 018980 326 KGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 326 K~~~~Dl~~gk~T~pvl~ale 346 (348)
||.++||++||.|+|++++++
T Consensus 224 K~~~~Dl~~gk~Tlp~l~al~ 244 (319)
T TIGR02748 224 KPAGGDLLQGNVTLPVLYAME 244 (319)
T ss_pred CChhhHHhCCCchHHHHHHhc
Confidence 999999999999999999986
No 3
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=1.5e-59 Score=455.82 Aligned_cols=241 Identities=32% Similarity=0.487 Sum_probs=227.3
Q ss_pred chhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHH
Q 018980 88 PFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 167 (348)
Q Consensus 88 ~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~ 167 (348)
.+..+.+++..+++.|.+.+....|.+.++..|.+.. +|||+||.|++++++++|++.. ..
T Consensus 6 ~~~~i~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~--~GKrlRp~l~ll~~~~~g~~~~-----------------~~ 66 (323)
T PRK10888 6 INELTAQDMAGVNAAILEQLNSDVQLINQLGYYIISG--GGKRIRPMIAVLAARAVGYQGN-----------------AH 66 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCChH-----------------HH
Confidence 4678899999999999999998889999999999984 5999999999999999986532 56
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHH
Q 018980 168 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGE 247 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~GQ 247 (348)
..+|+++||||+||||||||||+|++|||+||+|.+||++.|||+||||++.|+..+++.++.+++..+++++..+++||
T Consensus 67 ~~~A~avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq 146 (323)
T PRK10888 67 VTIAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGE 146 (323)
T ss_pred HHHHHHHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999998888999999999999999999
Q ss_pred HHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCC
Q 018980 248 TMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 327 (348)
Q Consensus 248 ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~ 327 (348)
.+|+....+...++++|++++.+|||+||++||.+|++++|.+++..+.+++||+++|+||||+||++||+++++.+|||
T Consensus 147 ~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~ 226 (323)
T PRK10888 147 VLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKN 226 (323)
T ss_pred HHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCC
Confidence 99998766667899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHhcCcchHHHHHHHhh
Q 018980 328 SLSDIRHVIYLSLLFIASEI 347 (348)
Q Consensus 328 ~~~Dl~~gk~T~pvl~ale~ 347 (348)
.++||++||+|+|++++++.
T Consensus 227 ~g~Dl~~gk~Tlp~l~al~~ 246 (323)
T PRK10888 227 VGDDLNEGKPTLPLLHAMHH 246 (323)
T ss_pred chhhhhcCCchHHHHHHHHh
Confidence 99999999999999999874
No 4
>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=100.00 E-value=2.2e-59 Score=454.63 Aligned_cols=243 Identities=44% Similarity=0.683 Sum_probs=227.3
Q ss_pred chhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHH
Q 018980 88 PFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 167 (348)
Q Consensus 88 ~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~ 167 (348)
.+..+.+++..+++++.+.+....|.+.++..|++.. +|||+||.|++++++++|.... ..+.+
T Consensus 6 ~~~~~~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~--gGKrlRp~l~ll~~~~~~~~~~--------------~~~~~ 69 (322)
T TIGR02749 6 LFAPVEDDLYLLTDNLKSLVGARHPILYAAAEHLFSA--GGKRLRPAIVLLVSRATAEQQE--------------LTPRH 69 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCCcc--------------ccHHH
Confidence 3567899999999999999999999999999999984 5999999999999999876432 11367
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHH
Q 018980 168 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGE 247 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~GQ 247 (348)
..+|+++||||+||||||||||+|++|||+||+|.+||++.|||+||||+++|+..++..++.++++.+++++.++++||
T Consensus 70 ~~~A~avEliH~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq 149 (322)
T TIGR02749 70 RRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGE 149 (322)
T ss_pred HHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCcHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999998888999999999999999999
Q ss_pred HHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCC
Q 018980 248 TMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 327 (348)
Q Consensus 248 ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~ 327 (348)
++|+....+...++++|++++.+|||+||+++|++|++++|.+++..+.+++||.++|+||||+||++||+++++.+|||
T Consensus 150 ~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~ 229 (322)
T TIGR02749 150 IKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKP 229 (322)
T ss_pred HHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCC
Confidence 99987766667899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHhcCcchHHHHHHHh
Q 018980 328 SLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 328 ~~~Dl~~gk~T~pvl~ale 346 (348)
.++||++||+|+|++++++
T Consensus 230 ~g~Dl~~Gk~Tlp~l~al~ 248 (322)
T TIGR02749 230 AGSDLMKGNLTAPVLFALE 248 (322)
T ss_pred hhHHHhCCCchHHHHHHHh
Confidence 9999999999999999985
No 5
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=3.6e-59 Score=453.16 Aligned_cols=244 Identities=33% Similarity=0.497 Sum_probs=228.3
Q ss_pred chhHHHHHHHHHHHHHHHHhh-hcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHH
Q 018980 88 PFSLVADELSILAKRLRSMVV-AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 166 (348)
Q Consensus 88 ~~~~l~~eL~~v~~~l~~~~~-~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~ 166 (348)
++..+.++++.+++.|.+.+. ..++.+.++..|.+..| |||+||++++++++++|..... ..+.
T Consensus 3 ~~~~~~~~~~~i~~~l~~~l~~~~~~~l~~a~~~~~~aG--GKrlRP~l~l~~~~~~~~~~~~-------------~~~~ 67 (322)
T COG0142 3 LLALLLKRLARIEELLSELLSGSDPELLLEAMRYLLLAG--GKRLRPLLVLLAAEALGIDLET-------------GGND 67 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHhcC--CccHhHHHHHHHHHHcCCCccc-------------chhh
Confidence 456788999999999999999 78889999999999855 9999999999999999933220 0236
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCC--HHHHHHHHHHHHHHH
Q 018980 167 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN--TEVVTLLATVVEHLV 244 (348)
Q Consensus 167 ~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~--~~v~~~la~~i~~l~ 244 (348)
+..+|+++||||++|||||||||+|++|||+||.|.+||+..|||+||+|++.|+..+++..+ ..++..+++++..++
T Consensus 68 ~~~~aaavEliH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~ 147 (322)
T COG0142 68 ALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLC 147 (322)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccCCCccCCCCCchhHhccHHHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHH
Confidence 889999999999999999999999999999999999999999999999999999999999887 889999999999999
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCcccc
Q 018980 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (348)
Q Consensus 245 ~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~ 324 (348)
.||.+|+.+..+. .++++|++++++|||+||+++|++|++++|++++..+.++.||+++|+||||+||++|++|+.+.+
T Consensus 148 ~GQ~lDl~~~~~~-~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~l 226 (322)
T COG0142 148 GGQALDLAFENKP-VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEEL 226 (322)
T ss_pred HhHHHHHHccCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHh
Confidence 9999999987765 899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhHHhcCcchHHHHHHHhh
Q 018980 325 GKGSLSDIRHVIYLSLLFIASEI 347 (348)
Q Consensus 325 GK~~~~Dl~~gk~T~pvl~ale~ 347 (348)
||++|+|+++||+|+|++++++.
T Consensus 227 GK~~g~Dl~~gK~T~p~l~~l~~ 249 (322)
T COG0142 227 GKPVGSDLKEGKPTLPVLLALEK 249 (322)
T ss_pred CCCcchHHHcCCchHHHHHHHHc
Confidence 99999999999999999999984
No 6
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=9.2e-59 Score=450.60 Aligned_cols=245 Identities=42% Similarity=0.618 Sum_probs=227.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHH
Q 018980 86 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 165 (348)
Q Consensus 86 ~d~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~ 165 (348)
.+.+..+.+++..+++.|.+.+....|.+.++..|++.. +|||+||.|++++++++|++.+. ..
T Consensus 5 ~~~~~~~~~~l~~i~~~l~~~~~~~~~~l~~~~~~~~~~--gGKr~Rp~L~ll~~~~~~~~~~~--------------~~ 68 (323)
T CHL00151 5 SNLLTPIEEELLILEDNLKKLIGSGHPILYAAAKHLFSA--GGKRIRPAIVLLVAKATGGNMEI--------------KT 68 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHhc--CCccHHHHHHHHHHHHcCCCccc--------------cH
Confidence 456778899999999999999988889999999999984 59999999999999999875321 12
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Q 018980 166 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 245 (348)
Q Consensus 166 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~ 245 (348)
.+..+|+++|+||+||||||||||+|++|||+||+|.+||++.|||+||||+++|+..++...+..+++.+++++..+++
T Consensus 69 ~~~~~A~aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~ 148 (323)
T CHL00151 69 SQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAE 148 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCCcchhhhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHH
Confidence 46679999999999999999999999999999999999999999999999999999999988888899999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccC
Q 018980 246 GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325 (348)
Q Consensus 246 GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~G 325 (348)
||.+|.....+...++++|++++.+|||+||++||.+|++++|.+++..+.+++||.++|+||||+||++|++|+++.+|
T Consensus 149 G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~G 228 (323)
T CHL00151 149 GEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLG 228 (323)
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhC
Confidence 99999776655668999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhHHhcCcchHHHHHHHh
Q 018980 326 KGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 326 K~~~~Dl~~gk~T~pvl~ale 346 (348)
||.++||++||+|+|++++++
T Consensus 229 K~~g~Dl~eGk~Tlp~l~al~ 249 (323)
T CHL00151 229 KPIGSDLKNGNLTAPVLFALT 249 (323)
T ss_pred CCchhhHhcCchHHHHHHHHh
Confidence 999999999999999999986
No 7
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=6.4e-59 Score=462.94 Aligned_cols=249 Identities=43% Similarity=0.645 Sum_probs=229.0
Q ss_pred cCCchhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHH
Q 018980 85 QLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELR 164 (348)
Q Consensus 85 ~~d~~~~l~~eL~~v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~ 164 (348)
..+.+..+.++++.+++.|.+.+....|.+.+++.|++.. +|||+||+|+++++++++.....+ +..
T Consensus 94 ~~~~~~~v~~~l~~v~~~l~~~~~~~~~~l~~~~~~~~~~--gGKriRP~Lvll~a~a~g~~~g~~-----------~~~ 160 (416)
T PLN02857 94 LSELFEPVADDLQQLNDNLQSIVGAENPVLMSAAEQIFGA--GGKRMRPALVFLVSRATAELAGLK-----------ELT 160 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHhC--CCccHhHHHHHHHHHHhccccCCC-----------cch
Confidence 3445677899999999999999999999999999999985 599999999999999986421100 112
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHH
Q 018980 165 TRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244 (348)
Q Consensus 165 ~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~ 244 (348)
++++.+|+++||||+||||||||||+|++|||+||+|.+||++.|||+||||+++|+..++..++.++++.+++++..++
T Consensus 161 ~~~~~lAaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~ 240 (416)
T PLN02857 161 TEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFA 240 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHCccccCCcccCCCCCccccCCcceeeeHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence 36788999999999999999999999999999999999999999999999999999999999888999999999999999
Q ss_pred HHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCcccc
Q 018980 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324 (348)
Q Consensus 245 ~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~ 324 (348)
+||++|+....+...++++|++++++|||+||+.+|++|++++|++++..+.+++||+++|+||||+||++||+++++.+
T Consensus 241 ~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~ 320 (416)
T PLN02857 241 SGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQL 320 (416)
T ss_pred hhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHh
Confidence 99999987766667899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhHHhcCcchHHHHHHHh
Q 018980 325 GKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 325 GK~~~~Dl~~gk~T~pvl~ale 346 (348)
||+.++||++||.|+|+++|++
T Consensus 321 GK~~g~DL~eGK~TlPli~al~ 342 (416)
T PLN02857 321 GKPAGSDLAKGNLTAPVIFALE 342 (416)
T ss_pred CCCcchhhhcCCccHHHHHHHh
Confidence 9999999999999999999986
No 8
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=1.5e-56 Score=430.68 Aligned_cols=238 Identities=26% Similarity=0.363 Sum_probs=210.3
Q ss_pred hHHHHHHHHHHHHHHHHhhhc---chhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHH
Q 018980 90 SLVADELSILAKRLRSMVVAE---VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 166 (348)
Q Consensus 90 ~~l~~eL~~v~~~l~~~~~~~---~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~ 166 (348)
..+..++..+++.|.+.+... .+.+.++..|++.. ||||+||.|++++++++|.+.+ .
T Consensus 5 ~~~~~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~--gGKrlRp~L~l~~~~~~g~~~~-----------------~ 65 (299)
T PRK10581 5 QQLQACVQQANQALSRFIAPLPFQNTPVVEAMQYGALL--GGKRLRPFLVYATGQMFGVSTN-----------------T 65 (299)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhc--CcccHHHHHHHHHHHHhCCCHH-----------------H
Confidence 456778888999998887642 46789999999984 5999999999999999986432 5
Q ss_pred HHHHHHHHHHHHHHHHhhccc--CCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCH--------HHHHHH
Q 018980 167 QQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT--------EVVTLL 236 (348)
Q Consensus 167 ~~~lA~avEliH~AsLIHDDI--iD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~--------~v~~~l 236 (348)
...+|+++||||+|||||||| ||+|++|||+||+|.+||++.|||+||+|++.|+..++..... ++++.+
T Consensus 66 ~~~~A~avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~ 145 (299)
T PRK10581 66 LDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISEL 145 (299)
T ss_pred HHHHHHHHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHH
Confidence 678999999999999999999 9999999999999999999999999999999999998865321 345555
Q ss_pred HHH--HHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHHHHHHHHHHHHh
Q 018980 237 ATV--VEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTA-EVAILAFDYGKNLGLAYQLIDD 313 (348)
Q Consensus 237 a~~--i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~-e~~~~l~~~G~~lGiAFQI~DD 313 (348)
+++ +..++.||.+|+.+... ..+.++|++|+++|||+||++||.+|++++|.++ +..+.+++||+++|+||||+||
T Consensus 146 ~~~~~~~~l~~GQ~ld~~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DD 224 (299)
T PRK10581 146 ASASGIAGMCGGQALDLEAEGK-QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDD 224 (299)
T ss_pred HHhcccchhhHhhHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 654 56899999999987654 6789999999999999999999999999999864 5788999999999999999999
Q ss_pred hhhccCCccccCCCchhHHhcCcchHHHHHHHhh
Q 018980 314 VLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEI 347 (348)
Q Consensus 314 llD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale~ 347 (348)
++|++|+++.+||+.++|+++||+|+|++++++.
T Consensus 225 ilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~ 258 (299)
T PRK10581 225 ILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 258 (299)
T ss_pred HccccCChHHHCCCcchhhhcCCCCHHHHHHHHH
Confidence 9999999999999999999999999999999863
No 9
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=2.9e-55 Score=425.37 Aligned_cols=245 Identities=42% Similarity=0.579 Sum_probs=228.0
Q ss_pred ccCCchhHHHHHHHHHHHHHHHHhhhc--chhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcC-CCCCCCCCCCchhhHh
Q 018980 84 EQLDPFSLVADELSILAKRLRSMVVAE--VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALN-VRVPEPLHDGVEDALA 160 (348)
Q Consensus 84 ~~~d~~~~l~~eL~~v~~~l~~~~~~~--~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg-~~~~~~~~~~~~~~~~ 160 (348)
..+|..+.+..+++.+++.+...+... ++.+..+.+|.+..+ ||++||.+|++++++++ +..
T Consensus 63 ~~~d~~~~~~~~~~~ln~~l~~~~~~~~~~~~i~~a~ry~~la~--gKr~rP~l~~~~~e~~~~g~~------------- 127 (384)
T KOG0776|consen 63 LLFDELSYMARKARSLNGALHYAVPLANEPLLISEAMRYLLLAG--GKRVRPLLCLAACELVGSGDE------------- 127 (384)
T ss_pred hhhhHHHHHHHHHHHHhhhhhhhcccccccchhHHHHHHHHHhc--ccccCchhhhhHHHhcccccc-------------
Confidence 378999999999999999999988765 445677777999865 89999999999999999 432
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc--CCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHH
Q 018980 161 TELRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLAT 238 (348)
Q Consensus 161 ~~~~~~~~~lA~avEliH~AsLIHDDI--iD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~ 238 (348)
..++.+|+++||||++||||||| ||++++|||+||.|..||+++|||+|||||++|+..|+.+.|+.+++++++
T Consensus 128 ----~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~ 203 (384)
T KOG0776|consen 128 ----SSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMAS 203 (384)
T ss_pred ----HHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHH
Confidence 27899999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhccccC---C-CCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 018980 239 VVEHLVTGETMQMTTSS---D-QRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDV 314 (348)
Q Consensus 239 ~i~~l~~GQ~ldl~~~~---~-~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDl 314 (348)
++.++++|++++....+ + ....+++|..++.+|||+|++.+|++|++++|.++++++.+++||++||++||+.||+
T Consensus 204 aI~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDi 283 (384)
T KOG0776|consen 204 AIADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDI 283 (384)
T ss_pred HHHHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999987763 2 2358999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCccccCCCchhHHhcCcchHHHHHHHhh
Q 018980 315 LDFTGTSASLGKGSLSDIRHVIYLSLLFIASEI 347 (348)
Q Consensus 315 lD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale~ 347 (348)
+||+...+.+||+++.|+..|+.|+|+++++|.
T Consensus 284 ldftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~ 316 (384)
T KOG0776|consen 284 LDFTKSSEELGKTAGKDLKAGKLTAPVLFALEK 316 (384)
T ss_pred cCcccchhhcCcchhhhhhhccccccchhhhhh
Confidence 999999999999999999999999999999984
No 10
>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=100.00 E-value=1.4e-53 Score=402.13 Aligned_cols=217 Identities=37% Similarity=0.528 Sum_probs=203.5
Q ss_pred chhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 018980 111 VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDD 190 (348)
Q Consensus 111 ~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~ 190 (348)
.+.+.++..|.+. .+||++||.+++++++++|++.. +.+..+|+++|++|+||||||||+|+
T Consensus 3 ~~~l~~~~~~~~~--~~GK~~Rp~l~~~~~~~~g~~~~----------------~~~~~la~aiEllh~asLIhDDI~D~ 64 (259)
T cd00685 3 VELLREALRYLLL--AGGKRLRPLLVLLAARALGGPEL----------------EAALRLAAAIELLHTASLVHDDVMDN 64 (259)
T ss_pred chHHHHHHHHHHH--cCCccHhHHHHHHHHHHhCCCch----------------HHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 3567888899887 45999999999999999987541 26788999999999999999999999
Q ss_pred CCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCC---HHHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHH
Q 018980 191 ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN---TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 267 (348)
Q Consensus 191 s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~---~~v~~~la~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i 267 (348)
|++|||+||+|.+||+..|||+||+|++.++..+++..+ .++++.+++++..++.||++|+.+......++++|+++
T Consensus 65 s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~ 144 (259)
T cd00685 65 SDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRI 144 (259)
T ss_pred CcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHH
Confidence 999999999999999999999999999999999998877 78999999999999999999998876667899999999
Q ss_pred HHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHH
Q 018980 268 TYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIAS 345 (348)
Q Consensus 268 ~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~al 345 (348)
+.+|||+||+.+|.+|++++|++++..+.+++||+++|++|||+||++|++++++.+||+.++||++||+|||+++++
T Consensus 145 ~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l 222 (259)
T cd00685 145 IRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL 222 (259)
T ss_pred HHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999987
No 11
>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=100.00 E-value=2.1e-53 Score=401.23 Aligned_cols=211 Identities=33% Similarity=0.504 Sum_probs=189.0
Q ss_pred HHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCC
Q 018980 117 AAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRG 196 (348)
Q Consensus 117 ~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG 196 (348)
++.|+.. .+|||+||.|++++++++|++. +.+..+|+++||||+||||||||+|+|++|||
T Consensus 4 ~~~~~~~--~~GK~~Rp~l~~~~~~~~~~~~-----------------~~~~~~a~avEliH~asLIhDDI~D~s~~RRG 64 (260)
T PF00348_consen 4 PARYYIL--RGGKRIRPLLVLLAAEALGGDP-----------------EKAIPLAAAVELIHAASLIHDDIIDNSDLRRG 64 (260)
T ss_dssp HHHHHHH--SSSCHHHHHHHHHHHHHTTCHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHTTCSEETT
T ss_pred HHHHHhh--CCCccHHHHHHHHHHHHhCCCH-----------------HHHHHHHHHHHHHHHHHHHhhhhhcccccCCC
Confidence 4455555 4599999999999999999542 37889999999999999999999999999999
Q ss_pred CCCcccccCHHHHHHHHHHHHHHHHHHHHccC----CHH---HHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHH
Q 018980 197 IGSLNFVMGNKLAVLAGDFLLSRACVALASLK----NTE---VVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTY 269 (348)
Q Consensus 197 ~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~----~~~---v~~~la~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~ 269 (348)
+||+|.+||++.|||+||+|++.|+..++... +.. +.+.+...+.....||..|+..... ..++++|+++++
T Consensus 65 ~pt~~~~~G~~~Ail~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~-~~~~~~y~~i~~ 143 (260)
T PF00348_consen 65 KPTVHKKFGNAIAILAGDYLLALAFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDK-DPTEEEYLEIIR 143 (260)
T ss_dssp EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS-STSHHHHHHHHH
T ss_pred CccccccccccchhhhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhccccccc-cccHHHHHHHHh
Confidence 99999999999999999999999999998876 222 3444555556666778888877644 789999999999
Q ss_pred hhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHHhh
Q 018980 270 YKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEI 347 (348)
Q Consensus 270 ~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale~ 347 (348)
+|||+||++||++|++++|.+++..+.+++||+++|+||||+||++|++++++.+||+.++||++||+|+|+++++|.
T Consensus 144 ~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~ 221 (260)
T PF00348_consen 144 LKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALER 221 (260)
T ss_dssp HHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHH
T ss_pred hcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999984
No 12
>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=100.00 E-value=1.1e-41 Score=314.83 Aligned_cols=198 Identities=39% Similarity=0.571 Sum_probs=186.6
Q ss_pred chHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccc-cCHHHH
Q 018980 131 FRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV-MGNKLA 209 (348)
Q Consensus 131 ~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~-~G~~~A 209 (348)
+||.+++++++++|+..+ .+..+++++|+||++++|||||+|++..|||+|++|.+ ||...|
T Consensus 1 ~r~~~~~~~~~~~~~~~~-----------------~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~a 63 (236)
T cd00867 1 SRPLLVLLLARALGGDLE-----------------AALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALA 63 (236)
T ss_pred CcHHHHHHHHHHcCCCHH-----------------HHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHH
Confidence 599999999999987532 67889999999999999999999999999999999999 999999
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCC
Q 018980 210 VLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ 289 (348)
Q Consensus 210 VlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~ 289 (348)
+++||++++.++..++.....++.+.+++.+..+++||.+|+....+...++++|++++++|||++|..+|.++++++|.
T Consensus 64 i~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~ 143 (236)
T cd00867 64 ILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGA 143 (236)
T ss_pred HHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCc
Confidence 99999999999999988777889999999999999999999988765578999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHHh
Q 018980 290 TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 290 ~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
+++..+.+++||+++|+||||.||++|+.++.+.+|| .++||++||+|+|++++.+
T Consensus 144 ~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~~~ 199 (236)
T cd00867 144 DDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILARE 199 (236)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHHHH
Confidence 9989999999999999999999999999999999999 9999999999999998743
No 13
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=3.4e-35 Score=276.74 Aligned_cols=222 Identities=23% Similarity=0.168 Sum_probs=188.7
Q ss_pred hhHHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 018980 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDA 191 (348)
Q Consensus 112 ~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s 191 (348)
+++.....|.. .|||..|+..++...+++..+.. ..++....+..++|++|+++++.||-|||||+|
T Consensus 38 ~~~~~~L~yN~---~GGK~nRgl~vv~s~~~L~~~~~----------l~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS 104 (347)
T KOG0711|consen 38 EWLKEVLDYNV---IGGKLNRGLSVVDSFKALVEPRK----------LDEEELQLALILGWCVELLQAFFLVADDIMDNS 104 (347)
T ss_pred HHHHHHHhccC---cccccccchhHHHHHHHhcCccC----------CCHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 45666667764 57999999999999999987643 345677788999999999999999999999999
Q ss_pred CCCCCCCCcccccCHH-HHHHHHHHHHHHHHHHHHcc----C-CHHHHHHHHHHHHHHHHHHHHhccccC--CCCCCHHH
Q 018980 192 DTRRGIGSLNFVMGNK-LAVLAGDFLLSRACVALASL----K-NTEVVTLLATVVEHLVTGETMQMTTSS--DQRCSMDY 263 (348)
Q Consensus 192 ~~RRG~pt~h~~~G~~-~AVlaGD~Lla~a~~~La~l----~-~~~v~~~la~~i~~l~~GQ~ldl~~~~--~~~~s~~~ 263 (348)
.+|||+|||+.+-|++ .|||.+-+|-+....+|... . ..+++++|.++...+..|+.++..... ....|++.
T Consensus 105 ~tRRGqpCWy~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~ 184 (347)
T KOG0711|consen 105 KTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVTFQTELGDLLTTPEGNKDLSKFSLEK 184 (347)
T ss_pred cccCCCcceeecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHHHHHhhhccccCcccchhHhhhhHHH
Confidence 9999999999999995 79997766665555555421 1 357899999999999999666543322 13578999
Q ss_pred HHHHHHhhHHHH-HHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHH
Q 018980 264 YMQKTYYKTASL-ISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLL 341 (348)
Q Consensus 264 yl~i~~~KTasL-f~~a~~~gailag~-~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pv 341 (348)
|..|+.+|||.+ |.+|..++.+++|. ..+.......+...+|..||++||++|++||++.+|| .|+||+++||||.+
T Consensus 185 y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgk-iGtDIqDnKCsWlv 263 (347)
T KOG0711|consen 185 YVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCSWLV 263 (347)
T ss_pred HHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCC-CCCccccCceeeeh
Confidence 999999999999 99999999999994 5667778899999999999999999999999999999 58999999999999
Q ss_pred HHHHhh
Q 018980 342 FIASEI 347 (348)
Q Consensus 342 l~ale~ 347 (348)
+.|+++
T Consensus 264 ~~al~~ 269 (347)
T KOG0711|consen 264 VKALQR 269 (347)
T ss_pred HHHHhh
Confidence 999986
No 14
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.5e-33 Score=255.31 Aligned_cols=210 Identities=20% Similarity=0.299 Sum_probs=190.8
Q ss_pred HHHHHHHHHhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCchhhHhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 018980 114 LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADT 193 (348)
Q Consensus 114 l~~~~~y~~~~g~~GKr~Rp~Lvll~~~alg~~~~~~~~~~~~~~~~~~~~~~~~~lA~avEliH~AsLIHDDIiD~s~~ 193 (348)
+.++-.|++. .+||.+|--|.+.+.+.++.+.. +...+..++||+|++||+.|||.|++..
T Consensus 23 ll~Py~yilq--~PGKqfR~~L~~afNhwl~~P~d-----------------kLaii~~ivemLHNsSLLIDDIEDNs~L 83 (322)
T KOG0777|consen 23 LLKPYNYILQ--KPGKQFRLNLIVAFNHWLNLPKD-----------------KLAIISQIVEMLHNSSLLIDDIEDNSPL 83 (322)
T ss_pred HhchHHHHHh--CchHHHHHHHHHHHHHHHhCCHH-----------------HHHHHHHHHHHHhccceeeccccccchh
Confidence 5566788887 67999999999999999887532 5667899999999999999999999999
Q ss_pred CCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHhccccCCC-CCCHHHHHHHHHhhH
Q 018980 194 RRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQ-RCSMDYYMQKTYYKT 272 (348)
Q Consensus 194 RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~GQ~ldl~~~~~~-~~s~~~yl~i~~~KT 272 (348)
|||.|+.|..||+...|++++|++.+|++.+..+..++.+.+|.+.+.+++.||.+|+.|+... +++++.|..|+-.||
T Consensus 84 RRG~pvaHsIyGvpStINtANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~tcPtee~Yk~Mv~~KT 163 (322)
T KOG0777|consen 84 RRGQPVAHSIYGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLTCPTEEMYKNMVMNKT 163 (322)
T ss_pred hcCCcchhhhccCcchhhhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCcCCCHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999998654 569999999999999
Q ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHHh
Q 018980 273 ASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 273 asLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
|-||.++.++.-.++...++. ..+-.-+|+.|||+||++++-..+..-.|..+.||.|||.+.|+++|+.
T Consensus 164 GGLF~La~rLMqlfS~~kedl----~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~ 233 (322)
T KOG0777|consen 164 GGLFRLALRLMQLFSHHKEDL----VPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALK 233 (322)
T ss_pred ccHHHHHHHHHHHHHhcchhH----HHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhh
Confidence 999999999999998766554 4556789999999999999988777889999999999999999999974
No 15
>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=99.89 E-value=2.1e-21 Score=174.86 Aligned_cols=169 Identities=33% Similarity=0.470 Sum_probs=154.3
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccc---cCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFV---MGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 245 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~---~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~ 245 (348)
.++.++|.+|+++++||||+|++..|++.++++.. +|...+++.|+.++..++..+.......+...+.+.+.+++.
T Consensus 14 ~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (243)
T cd00385 14 RLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLLE 93 (243)
T ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999988 999999999999999999998877777889999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccC
Q 018980 246 GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325 (348)
Q Consensus 246 GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~G 325 (348)
||..|+.+..+..++.++|+++.+.|||.++...|..++...+.+.+....+..++.++|++||+.||+.|+..+.+..
T Consensus 94 g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~- 172 (243)
T cd00385 94 GQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG- 172 (243)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh-
Confidence 9999998876556899999999999999999999999998888877778899999999999999999999998765421
Q ss_pred CCchhHHhcCcchHHHHHHHh
Q 018980 326 KGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 326 K~~~~Dl~~gk~T~pvl~ale 346 (348)
+|++|+|.+++.+
T Consensus 173 --------~~~~~l~~~~~~~ 185 (243)
T cd00385 173 --------EGKCTLPVLYALE 185 (243)
T ss_pred --------CCchHHHHHHHHH
Confidence 5799999999876
No 16
>PF07307 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; InterPro: IPR009920 This family contains subunit 1 of bacterial heptaprenyl diphosphate synthase (HEPPP synthase) (2.5.1.30 from EC) (approximately 230 residues long). The enzyme consists of two subunits, both of which are required for catalysis of heptaprenyl diphosphate synthesis, the precursor for the side chain of the isoprenoid quinone menaquinone-7 (MQ-7) [, ].
Probab=97.75 E-value=0.00066 Score=62.58 Aligned_cols=96 Identities=19% Similarity=0.226 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Q 018980 166 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVT 245 (348)
Q Consensus 166 ~~~~lA~avEliH~AsLIHDDIiD~s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~~la~~i~~l~~ 245 (348)
.....+.++-++|+|...||.|-+ ...+.+...- .-...||+|||.-+..+.+||..++..+++.+++++.++++
T Consensus 34 ~~~~~~~a~~LVq~aLDtHd~V~~-~~~~~~~~~k----~RQLtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE 108 (212)
T PF07307_consen 34 EAERYALATMLVQIALDTHDEVDN-AGDESEESSK----ERQLTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKEINE 108 (212)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc-ccccccHHHH----hhhhhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 567789999999999999999966 2222221111 12579999999999999999999999999999999999999
Q ss_pred HHHHhccccCCCCCCHHHHHHHHH
Q 018980 246 GETMQMTTSSDQRCSMDYYMQKTY 269 (348)
Q Consensus 246 GQ~ldl~~~~~~~~s~~~yl~i~~ 269 (348)
....=-... ..+.++|++.+.
T Consensus 109 ~K~~ly~~~---~~~~e~~~~~~~ 129 (212)
T PF07307_consen 109 LKMSLYQKK---KETAEEYLESVV 129 (212)
T ss_pred HHHHHHHhh---hCCHHHHHHHHH
Confidence 975432221 236677766543
No 17
>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=95.23 E-value=0.43 Score=45.00 Aligned_cols=85 Identities=19% Similarity=0.212 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 018980 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (348)
Q Consensus 238 ~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~ 317 (348)
+.+.++++|..+|+... ...|++++..-+++-.|+...+.+.+ ++.... +....++.++|.|+|+.|=+.|+
T Consensus 93 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i---~~~~~~---~~~~~~A~~lG~AlqltnilRdv 164 (265)
T cd00683 93 EPFRDLLAGMAMDLDKR--RYETLDELDEYCYYVAGVVGLMLLRV---FGASSD---EAALERARALGLALQLTNILRDV 164 (265)
T ss_pred HHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCC---hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999998753 34578888877777666665554433 332122 23568899999999999988886
Q ss_pred cCCccccCCCchhHHhcCcchHHH
Q 018980 318 TGTSASLGKGSLSDIRHVIYLSLL 341 (348)
Q Consensus 318 ~g~~~~~GK~~~~Dl~~gk~T~pv 341 (348)
- .|+..|++.+|.
T Consensus 165 ~-----------eD~~~gR~YlP~ 177 (265)
T cd00683 165 G-----------EDARRGRIYLPR 177 (265)
T ss_pred H-----------HHHccCCCcCCH
Confidence 3 455566665553
No 18
>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=95.05 E-value=0.9 Score=44.91 Aligned_cols=98 Identities=11% Similarity=0.086 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Q 018980 231 EVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQL 310 (348)
Q Consensus 231 ~v~~~la~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI 310 (348)
...+.+.+.+..|..|..+++........|.++|.+-+++=-|.-=.+.+.+-+. +|...+......+++..+|+|+|+
T Consensus 101 ~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQl 179 (336)
T TIGR01559 101 KYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQK 179 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHHH
Confidence 4556667777888899988876542212688888877666544433333333222 232222122346789999999999
Q ss_pred HHhhhhccCCccccCCCchhHHhcCcchHH
Q 018980 311 IDDVLDFTGTSASLGKGSLSDIRHVIYLSL 340 (348)
Q Consensus 311 ~DDllD~~g~~~~~GK~~~~Dl~~gk~T~p 340 (348)
.|=+.|+. .|+.+|++=||
T Consensus 180 TNIlRDv~-----------ED~~~GR~YlP 198 (336)
T TIGR01559 180 TNIIRDYL-----------EDINEGRMFWP 198 (336)
T ss_pred HHHHHHHH-----------hHHhCCCCCCC
Confidence 99888864 56666666665
No 19
>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=93.75 E-value=0.28 Score=46.13 Aligned_cols=88 Identities=19% Similarity=0.148 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018980 236 LATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVL 315 (348)
Q Consensus 236 la~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDll 315 (348)
-.+.+..++.|...|+.... ..|++++..-+++-+|++..+.+.+... ..+. ......+.++|.|+|+.|=+.
T Consensus 89 ~~~~l~~li~~~~~dl~~~~--~~t~~~L~~Y~~~vag~vg~l~~~~~~~--~~~~---~~~~~~a~~lG~alql~nilR 161 (267)
T PF00494_consen 89 PREPLLELIDGMEMDLEFTP--YETFADLERYCYYVAGSVGLLLLQLLGA--HDPD---EAARDAARALGRALQLTNILR 161 (267)
T ss_dssp HHHHHHHHHHHHHHCTT-S----SSHHHHHHHHHHHTHHHHHHHHHHHHS--STSH---HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhcccccCCC--CCCHHHHHHHHHHHHHHHHHHHHHHhcc--ccch---hhHHHHHHHHHHHHHHHHHHH
Confidence 34557889999999987643 4589999988888888887666554432 1222 356788899999999999888
Q ss_pred hccCCccccCCCchhH-HhcCcchHHH
Q 018980 316 DFTGTSASLGKGSLSD-IRHVIYLSLL 341 (348)
Q Consensus 316 D~~g~~~~~GK~~~~D-l~~gk~T~pv 341 (348)
|+ ..| +..|++-+|.
T Consensus 162 d~-----------~~D~~~~gR~ylP~ 177 (267)
T PF00494_consen 162 DI-----------PEDALRRGRIYLPL 177 (267)
T ss_dssp TH-----------HHH-HHTT---S-H
T ss_pred Hh-----------HHHHHhcccccCCc
Confidence 86 467 6777777764
No 20
>PLN02632 phytoene synthase
Probab=92.95 E-value=0.54 Score=46.34 Aligned_cols=88 Identities=17% Similarity=0.152 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHHHHHHHHHHhhh
Q 018980 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT--AEVAILAFDYGKNLGLAYQLIDDVL 315 (348)
Q Consensus 238 ~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~--~e~~~~l~~~G~~lGiAFQI~DDll 315 (348)
+.+.+++.|..+|+... ...|++++..-++.--|.+-.+.+.+ ++..+ ....+.+...+.++|+|+|+.|=+.
T Consensus 140 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Ycy~vAgtVG~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQltNILR 214 (334)
T PLN02632 140 QPFRDMIEGMRMDLVKS--RYENFDELYLYCYYVAGTVGLMSVPV---MGIAPESKASTESVYNAALALGIANQLTNILR 214 (334)
T ss_pred HHHHHHHHHHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999998753 24578888877777766666555543 33222 1222446778999999999999888
Q ss_pred hccCCccccCCCchhHHhcCcchHHH
Q 018980 316 DFTGTSASLGKGSLSDIRHVIYLSLL 341 (348)
Q Consensus 316 D~~g~~~~~GK~~~~Dl~~gk~T~pv 341 (348)
|+ +.|+..|++-+|.
T Consensus 215 Dv-----------~eD~~~GRvYLP~ 229 (334)
T PLN02632 215 DV-----------GEDARRGRVYLPQ 229 (334)
T ss_pred HH-----------HHHHhCCceeCCH
Confidence 86 3566666666663
No 21
>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=92.90 E-value=0.74 Score=43.58 Aligned_cols=84 Identities=15% Similarity=0.113 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 018980 238 TVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317 (348)
Q Consensus 238 ~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~ 317 (348)
+.+..+++|...|+... ...|++++..-++.-.|++..+.+.+ ++..++ .....+.++|.|+|+.|=+.|+
T Consensus 85 ~~~~~li~g~~~Dl~~~--~~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv 155 (266)
T TIGR03465 85 EDFLEVIDGMEMDLEQT--RYPDFAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred HHHHHHHHHHHHHcCCC--CCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh
Confidence 34678899999998754 35688888888887777776666554 333332 3467889999999999988886
Q ss_pred cCCccccCCCchhHHhcCcchHHH
Q 018980 318 TGTSASLGKGSLSDIRHVIYLSLL 341 (348)
Q Consensus 318 ~g~~~~~GK~~~~Dl~~gk~T~pv 341 (348)
..|+..|++.+|.
T Consensus 156 -----------~eD~~~gR~ylP~ 168 (266)
T TIGR03465 156 -----------GEDARRGRIYLPA 168 (266)
T ss_pred -----------HHHHhCCCeecCH
Confidence 3566677776664
No 22
>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=91.36 E-value=1.3 Score=41.98 Aligned_cols=82 Identities=13% Similarity=0.050 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 018980 239 VVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFT 318 (348)
Q Consensus 239 ~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~ 318 (348)
.+..++.|..+|+... ...|++++..-+++-.|+...+.+. +++..+++ ...++.++|.|+|+.|=+.|+
T Consensus 87 ~~~~li~~~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~---i~g~~~~~----~~~~A~~lG~AlQltniLRDl- 156 (266)
T TIGR03464 87 PFLDLLDAFRQDVVVT--RYATWAELLDYCRYSANPVGRLVLD---LYGASDPE----NVALSDAICTALQLINFWQDV- 156 (266)
T ss_pred HHHHHHHHHHHhccCC--CCCCHHHHHHHHHHhHHHHHHHHHH---HcCCCChh----HHHHHHHHHHHHHHHHHHHhh-
Confidence 4567889998998654 2457888777777766666665554 33333333 246789999999999988885
Q ss_pred CCccccCCCchhHHhcCcchHH
Q 018980 319 GTSASLGKGSLSDIRHVIYLSL 340 (348)
Q Consensus 319 g~~~~~GK~~~~Dl~~gk~T~p 340 (348)
+.|+..|++.+|
T Consensus 157 ----------~eD~~~gR~YLP 168 (266)
T TIGR03464 157 ----------GVDYRKGRVYLP 168 (266)
T ss_pred ----------HHHHhcCCccCC
Confidence 355556666655
No 23
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=88.65 E-value=22 Score=33.64 Aligned_cols=154 Identities=12% Similarity=0.021 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCC---CCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHHHH--HHHHHHHH
Q 018980 168 QCIAEITEMIHVASLLHDDVLDDADT---RRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVT--LLATVVEH 242 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD~s~~---RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v~~--~la~~i~~ 242 (348)
.-...++=++|.+..+.+|+.|-+.- |..+|-..-+...+.|...+-.+...+.....-+ +..+.- .+.- +..
T Consensus 40 ~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~-~~~ 117 (279)
T PRK12884 40 LLGFLTAFFASGSANALNDYFDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI-SPLAFLVVILVS-VLG 117 (279)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHH-HHH
Confidence 33456677899999999999775443 4555655555566777776665555444322222 222211 1111 001
Q ss_pred HHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCcc
Q 018980 243 LVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA 322 (348)
Q Consensus 243 l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~ 322 (348)
...- ...+. ..-..+.. .|..+..+...|....+......-.+.-+.--..+.+++..|+.|..
T Consensus 118 ~~Ys----~~lK~--~~~~~~~~------~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e---- 181 (279)
T PRK12884 118 ILYN----WKLKE--YGLIGNLY------VAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVE---- 181 (279)
T ss_pred HHHH----Hhhcc--ccchhHHH------HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhh----
Confidence 1110 11111 11011111 12233444445544444332222233334445556677888888864
Q ss_pred ccCCCchhHHhcCcchHHHHHHHh
Q 018980 323 SLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 323 ~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
.|-+.|+.|+|+.+.-+
T Consensus 182 -------~D~~~G~~Tl~v~~G~~ 198 (279)
T PRK12884 182 -------GDRLRGARTLAILYGEK 198 (279)
T ss_pred -------hHHHcCCeeechHhcHH
Confidence 57778899999887644
No 24
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=87.65 E-value=25 Score=33.31 Aligned_cols=55 Identities=11% Similarity=-0.054 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCC---CCCCCCCcccccCHHHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRACVA 223 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~---~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~ 223 (348)
-+..+.=++|.++.+.+|+.|-+. .|+.+|-..-+...+.|...+-.+...++..
T Consensus 42 l~~l~~~l~~~~~~~~Nd~~D~~iD~~~~~~Rpl~~G~is~~~a~~~~~~l~~~g~~~ 99 (276)
T PRK12882 42 LAFAAVFLATGAGNAINDYFDREIDRINRPDRPIPSGAVSPRGALAFSILLFAAGVAL 99 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccccccCCCCCcCCCCcCHHHHHHHHHHHHHHHHHH
Confidence 345566788999999999977543 3567777777778888888887777666543
No 25
>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=82.30 E-value=17 Score=34.53 Aligned_cols=88 Identities=11% Similarity=0.119 Sum_probs=56.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhccccC-CCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhC--CCHHHHH--HHHHHHHH
Q 018980 229 NTEVVTLLATVVEHLVTGETMQMTTSS-DQRCSMDYYMQKTYYKTASLISNSCKAIALLAG--QTAEVAI--LAFDYGKN 303 (348)
Q Consensus 229 ~~~v~~~la~~i~~l~~GQ~ldl~~~~-~~~~s~~~yl~i~~~KTasLf~~a~~~gailag--~~~e~~~--~l~~~G~~ 303 (348)
.......|.+.+...+.|...+..+.. ...++.++|+++=..-.|..+.+. ++-...| .++++.+ .+.++-..
T Consensus 127 ~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~--l~~~~~g~~lp~~~~~~~~~~~l~~~ 204 (303)
T cd00687 127 SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLG--LSEFIGGPEVPAAVRLDPVMRALEAL 204 (303)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHH--HHHHhcCCCCCHHHHhChHHHHHHHH
Confidence 356677788888888888887765433 235799999976443334433222 2222223 3344333 36778888
Q ss_pred HHHHHHHHHhhhhcc
Q 018980 304 LGLAYQLIDDVLDFT 318 (348)
Q Consensus 304 lGiAFQI~DDllD~~ 318 (348)
.+...-+.||+..|-
T Consensus 205 ~~~~~~l~NDl~S~~ 219 (303)
T cd00687 205 ASDAIALVNDIYSYE 219 (303)
T ss_pred HHHHHHHHHHHHhhH
Confidence 899999999999985
No 26
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=76.75 E-value=70 Score=30.36 Aligned_cols=54 Identities=11% Similarity=-0.043 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCC---CCCCCcccccCHHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRACV 222 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~Lla~a~~ 222 (348)
-...++=++|.+..+..|+.|-+.-| +.+|-..-+...+.|...+-.++..++.
T Consensus 41 l~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~ 97 (279)
T PRK09573 41 LAALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLI 97 (279)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHH
Confidence 34456668999999999998865544 5677777777888898888777766653
No 27
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=64.80 E-value=1.4e+02 Score=28.97 Aligned_cols=50 Identities=8% Similarity=-0.119 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhhcccCCCCCCC---CCCCCcccccCHHHHHHHHHHHHHHHH
Q 018980 172 EITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (348)
Q Consensus 172 ~avEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (348)
.+.=++|.++.+..|+.|.+.-| +.+|...-+...+.|...+-.++..++
T Consensus 72 l~~~l~~~~~~~~Nd~~D~~~D~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~ 124 (314)
T PRK07566 72 LAGPLLCGTSQTLNDYFDREVDAINEPYRPIPSGAISLRWVLYLIAVLTVLGL 124 (314)
T ss_pred HHHHHHHHHHHHHhhhhccCccccCCCCCCCCCceeCHHHHHHHHHHHHHHHH
Confidence 44567899999999999976655 345666666777888887766665554
No 28
>PF01040 UbiA: UbiA prenyltransferase family; InterPro: IPR000537 The UbiA family of prenyltransferases includes bacterial 4-hydroxybenzoate octaprenyltransferase (gene ubiA); yeast mitochondrial para-hydroxybenzoate--polyprenyltransferase (gene COQ2); and protohaem IX farnesyltransferase (haem O synthase) from yeast and mammals(gene COX10), and from bacteria (genes cyoE or ctaB) [, ]. These are integral membrane proteins, which probably contain seven transmembrane segments. The signature is also found in cytochrome C oxidase assembly factor. The complexity of cytochrome C oxidase requires assistance in building the complex, and this is carried out by the cytochrome C oxidase assembly factor.; GO: 0004659 prenyltransferase activity, 0016021 integral to membrane
Probab=58.78 E-value=1.4e+02 Score=27.05 Aligned_cols=148 Identities=15% Similarity=0.092 Sum_probs=73.1
Q ss_pred HHHHHHHhhcccCCCCCCCC--CC---CCcccccCHHHHHHHHHHHHHHHHHHHHccCCHHH--HHHHHHHHHHHHHHHH
Q 018980 176 MIHVASLLHDDVLDDADTRR--GI---GSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEV--VTLLATVVEHLVTGET 248 (348)
Q Consensus 176 liH~AsLIHDDIiD~s~~RR--G~---pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~v--~~~la~~i~~l~~GQ~ 248 (348)
++|.+.-+.||+.|-+.-|. ++ |-...+...+.+...+-.++..+..... ..++.+ +-.+.-.+. +..-.-
T Consensus 34 ~~~~~~~~~Nd~~D~~~D~~~~~~~~rPl~~g~i~~~~~~~~~~~~~~l~l~l~~-~~~~~~~~~~~~~~~~~-~~Ys~~ 111 (257)
T PF01040_consen 34 LLQLAVYLLNDYFDYEEDRIHPNKPNRPLPSGRISPRQALIFALILLLLGLLLAL-LLGPWFLLILLLGFLLG-LLYSPP 111 (257)
T ss_pred HHHHHHHHhhChhhhhcCcccccccCcchhHHHHhHHHHHHHHHHHHHHHHHHHH-hcCchhHHHHHHHHHHH-HHHhhh
Confidence 89999999999988766665 33 3334455555555555544444432211 112222 112222111 111110
Q ss_pred HhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCC
Q 018980 249 MQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT-AEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 327 (348)
Q Consensus 249 ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~-~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~ 327 (348)
..+...+- .++.. .+..+.....+|....+.+ +...-.+.-+.--++.+....+|+.|+.
T Consensus 112 ~~lk~~~~----~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~--------- 172 (257)
T PF01040_consen 112 LRLKRRPL----WGELV------VALVFGLLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIE--------- 172 (257)
T ss_pred hhhcceec----cchhh------HHHhhhHhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHH---------
Confidence 01111000 00000 1111333333444334433 2222233444467788888888999875
Q ss_pred chhHHhcCcchHHHHHHHh
Q 018980 328 SLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 328 ~~~Dl~~gk~T~pvl~ale 346 (348)
+|.+.|+.|+|+.+..+
T Consensus 173 --~D~~~g~~Tl~v~~G~~ 189 (257)
T PF01040_consen 173 --GDRKAGRRTLPVLLGEK 189 (257)
T ss_pred --HHHHcCCcchHHHHHHH
Confidence 57778899999987544
No 29
>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=58.76 E-value=1.5e+02 Score=27.34 Aligned_cols=86 Identities=12% Similarity=0.040 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccc-CCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhC--CCH---HHHHHHHHHHHHH
Q 018980 231 EVVTLLATVVEHLVTGETMQMTTS-SDQRCSMDYYMQKTYYKTASLISNSCKAIALLAG--QTA---EVAILAFDYGKNL 304 (348)
Q Consensus 231 ~v~~~la~~i~~l~~GQ~ldl~~~-~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag--~~~---e~~~~l~~~G~~l 304 (348)
.....+.+.+...+.+...+..+. ....++.++|+.+-..-.|..+.+.+. -...| .++ .....+..+....
T Consensus 122 ~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~--~~~~g~~l~~~~~~~~~~~~~l~~~~ 199 (284)
T cd00868 122 ESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALS--FLGMGDILPEEAFEWLPSYPKLVRAS 199 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHH--HHHcCCCCCHHHHHHhhhhHHHHHHH
Confidence 566778888888888877776554 234679999998755544443322221 11122 233 3445677788888
Q ss_pred HHHHHHHHhhhhcc
Q 018980 305 GLAYQLIDDVLDFT 318 (348)
Q Consensus 305 GiAFQI~DDllD~~ 318 (348)
+..--+.||+..|-
T Consensus 200 ~~~~~l~NDl~S~~ 213 (284)
T cd00868 200 STIGRLLNDIASYE 213 (284)
T ss_pred HHHHHHhccchHHH
Confidence 88888999998884
No 30
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=57.18 E-value=1.7e+02 Score=27.51 Aligned_cols=33 Identities=12% Similarity=0.163 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHHh
Q 018980 303 NLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 303 ~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
-+-.+.++..|+.|.. .|-+.|+.|+|+.+..+
T Consensus 172 l~~~~~~~~~d~~D~e-----------~D~~~G~~Tlpv~lG~~ 204 (285)
T PRK12872 172 LKSFIREIVFDIKDIE-----------GDRKSGLKTLPIVLGKE 204 (285)
T ss_pred HHHHHHHHHHhcccch-----------hHHHcCCcccchhcchH
Confidence 3456788999988875 46778999999988655
No 31
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=54.76 E-value=1.9e+02 Score=27.40 Aligned_cols=50 Identities=8% Similarity=-0.195 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcccCCCCCCCCCC---CCcccccCHHHHHHHHHHHHHHHH
Q 018980 172 EITEMIHVASLLHDDVLDDADTRRGI---GSLNFVMGNKLAVLAGDFLLSRAC 221 (348)
Q Consensus 172 ~avEliH~AsLIHDDIiD~s~~RRG~---pt~h~~~G~~~AVlaGD~Lla~a~ 221 (348)
.+.=+++.++-+..|+.|.+.-|+++ |......-.+.+...+-.++..++
T Consensus 45 ~~~~l~~~~~n~~Nd~~D~~~D~~~~~~Rpi~~G~is~~~a~~~~~~~~~~~~ 97 (283)
T TIGR01476 45 MAGPLGTGFSQSINDYFDRDVDAINEPQRPIPSGIISLREVRWNWLVLTVAGL 97 (283)
T ss_pred HHHHHHHHHHHHHHhHhhhCcccCCCCCCCCCCCCcCHHHHHHHHHHHHHHHH
Confidence 46668999999999999987766654 334444555666666655544443
No 32
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=54.36 E-value=80 Score=30.57 Aligned_cols=85 Identities=18% Similarity=0.188 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018980 237 ATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 316 (348)
Q Consensus 237 a~~i~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD 316 (348)
.+.+.++..|..+|+.... ..++++...-+ +-||..... -+..+++-.+ ..........+|.|+|+.|=+.|
T Consensus 102 ~~~~~~~~da~~~Dl~~~~--y~~~~eL~~Yc-~~vAg~vG~--l~~~Il~~~~---~~~~~~~a~~lG~A~QlvNilRd 173 (288)
T COG1562 102 REAFPALIDAMRMDLDRTR--YLDFEELEEYC-YGVAGAVGL--LLARILGPDK---DAATRAYARGLGLALQLVNILRD 173 (288)
T ss_pred HHHHHHHHHHHHHHhhhcc--ccCHHHHHHHH-HHhHHHHHH--HHHHHhCccc---chhhHHHHHHHHHHHHHHHHHHH
Confidence 3456789999999987643 23455544433 344444322 2223443322 22344555669999999998888
Q ss_pred ccCCccccCCCchhHHhcCcchHH
Q 018980 317 FTGTSASLGKGSLSDIRHVIYLSL 340 (348)
Q Consensus 317 ~~g~~~~~GK~~~~Dl~~gk~T~p 340 (348)
+ +.|.++|++=+|
T Consensus 174 v-----------~eD~~~GrvylP 186 (288)
T COG1562 174 V-----------GEDRRRGRVYLP 186 (288)
T ss_pred h-----------HHHHhCCcccCC
Confidence 6 467777776666
No 33
>TIGR02056 ChlG chlorophyll synthase, ChlG. This model represents the strictly cyanobacterial and plant-specific chlorophyll synthase ChlG. ChlG is the enzyme (esterase) which attaches the side chain moiety onto chlorophyllide a. Both geranylgeranyl and phytyl pyrophosphates are substrates to varying degrees in enzymes from different sources. Thus, ChlG may act as the final or penultimate step in chlorophyll biosynthesis (along with the geranylgeranyl reductase, ChlP).
Probab=53.47 E-value=2.2e+02 Score=27.54 Aligned_cols=51 Identities=6% Similarity=-0.165 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCC---CCCCCcccccCHHHHHHHHHHHHHHHH
Q 018980 171 AEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (348)
Q Consensus 171 A~avEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (348)
..+.=++|.++-++.|+.|.+.-+ |.+|...-....+.+...+-.++..++
T Consensus 60 ll~~~l~~~~~n~~NDy~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~ 113 (306)
T TIGR02056 60 LLSGPCLTGYTQTINDFYDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI 113 (306)
T ss_pred HHHHHHHHHHHHHHHhHhhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 356678999999999998865434 345555556677778777765555443
No 34
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=52.76 E-value=2.2e+02 Score=27.47 Aligned_cols=46 Identities=11% Similarity=0.018 Sum_probs=28.8
Q ss_pred HHHHHHhhcccCCCCC-----CC---------CCCCCcccccCHHHHHHHHHHHHHHHHHH
Q 018980 177 IHVASLLHDDVLDDAD-----TR---------RGIGSLNFVMGNKLAVLAGDFLLSRACVA 223 (348)
Q Consensus 177 iH~AsLIHDDIiD~s~-----~R---------RG~pt~h~~~G~~~AVlaGD~Lla~a~~~ 223 (348)
.|.+ .+..|+.|-+. .| +.+|...-+...+.|...+-.+...++..
T Consensus 54 ~~ag-~~iND~~D~~~D~~~v~rtm~r~~~P~~~Rpl~sG~is~~~a~~~~i~l~~i~~~l 113 (297)
T PRK12871 54 FEAG-FVLNDYVDRKRDRLDVENTLTRYWRPFKERPIPSGKLSSKNAFALFILLAAVTSAL 113 (297)
T ss_pred HHHH-HHHhhHHHHhcCcchHhhhhhccccCCCCCccCCCCcCHHHHHHHHHHHHHHHHHH
Confidence 3555 58888855321 12 35676766777888888777666655443
No 35
>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase, proteobacterial. A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterized members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterized members.
Probab=51.08 E-value=2.3e+02 Score=27.01 Aligned_cols=55 Identities=15% Similarity=-0.021 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCC----C-CCCCCcccccCHHHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDADT----R-RGIGSLNFVMGNKLAVLAGDFLLSRACVA 223 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~~----R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~~ 223 (348)
-+..++=++|.+..+..|+.|.+-- | +.+|-..-+...+.|...+-.+...++..
T Consensus 44 ~~~~~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~~~~l 103 (281)
T TIGR01474 44 LFTVGAILMRGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVALGV 103 (281)
T ss_pred HHHHHHHHHHHHHHHHHhHhhhcccccCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHH
Confidence 3445566889999999999774332 3 35677777777888888877666655543
No 36
>PRK10581 geranyltranstransferase; Provisional
Probab=49.46 E-value=95 Score=30.06 Aligned_cols=61 Identities=26% Similarity=0.296 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHHhhcccCCC------------CCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHccC
Q 018980 168 QCIAEITEMIHVASLLHDDVLDD------------ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK 228 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD~------------s~~RRG~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~ 228 (348)
..+...-+.+=.|+-|.|||.|- .+.+.|++|+=..+|...|-...+-++..|...|..++
T Consensus 206 ~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~ 278 (299)
T PRK10581 206 PVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLA 278 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 34555667788899999999982 33556677766666666666555555666666666553
No 37
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.24 E-value=36 Score=30.14 Aligned_cols=58 Identities=24% Similarity=0.271 Sum_probs=38.9
Q ss_pred HHHhhHHHHHHHHHHHHHHHh----C--CCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCchhHHhc
Q 018980 267 KTYYKTASLISNSCKAIALLA----G--QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 334 (348)
Q Consensus 267 i~~~KTasLf~~a~~~gaila----g--~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~ 334 (348)
.+.+-.+.||-+- -|++.+ + ..+++-+.+.+.|.|+|+ .++||+|.- .+-|.|.|.++
T Consensus 12 ~~~k~naELFtLT--YGaiV~ql~kDyed~e~Vn~qLdkMGyNiG~--RLiedFLAk------s~vpRC~dfre 75 (183)
T KOG3330|consen 12 KSKKMNAELFTLT--YGAIVTQLCKDYEDPEDVNKQLDKMGYNIGI--RLIEDFLAK------SNVPRCVDFRE 75 (183)
T ss_pred HHHhhhhhhhhhh--HHHHHHHHHHhhcCHHHHHHHHHhccchhhH--HHHHHHHhh------cCCchhhhHHH
Confidence 3444456776442 344433 2 245677889999999997 689999874 35567888875
No 38
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=46.70 E-value=1e+02 Score=30.09 Aligned_cols=42 Identities=24% Similarity=0.177 Sum_probs=26.0
Q ss_pred HHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCC
Q 018980 284 ALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 327 (348)
Q Consensus 284 ailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~ 327 (348)
+.+.|.+.+....+...-+-+=.+..|.||+.|= ++.+-|+|
T Consensus 56 ~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D~--s~~RRG~p 97 (323)
T PRK10888 56 ARAVGYQGNAHVTIAALIEFIHTATLLHDDVVDE--SDMRRGKA 97 (323)
T ss_pred HHHcCCChHHHHHHHHHHHHHHHHHHHHcccccC--CcccCCCC
Confidence 3344555444445556667788889999999872 33334444
No 39
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=44.81 E-value=29 Score=27.47 Aligned_cols=25 Identities=24% Similarity=0.235 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 018980 291 AEVAILAFDYGKNLGLAYQLIDDVL 315 (348)
Q Consensus 291 ~e~~~~l~~~G~~lGiAFQI~DDll 315 (348)
+...+.+=+||..+|-.||++==+.
T Consensus 15 et~~e~llRYGLf~GAIFQliCilA 39 (85)
T PF06783_consen 15 ETFFENLLRYGLFVGAIFQLICILA 39 (85)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566788899999999999975433
No 40
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=44.28 E-value=3.1e+02 Score=26.68 Aligned_cols=56 Identities=13% Similarity=-0.067 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHhhcccCCCC---CCCC--CCCCcccccCHHHHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDA---DTRR--GIGSLNFVMGNKLAVLAGDFLLSRACVAL 224 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s---~~RR--G~pt~h~~~G~~~AVlaGD~Lla~a~~~L 224 (348)
-...+.=++|.++.+..|+.|.+ ..+| .+|...-+...+.|+..+-.+...++..+
T Consensus 76 l~~l~~~l~~~a~~~~Nd~~Dr~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~g~~l~ 136 (314)
T PRK12878 76 LFFVGAIAMRGAGCTYNDIVDRDIDAKVARTRSRPLPSGQVSRKQAKVFMVLQALVGLAVL 136 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 34556668999999999997743 2344 47877777888888777766655554443
No 41
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=43.24 E-value=2.9e+02 Score=26.03 Aligned_cols=51 Identities=14% Similarity=-0.033 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHhhcccCCCCC---CCCCCCCcccccCHHHHHHHHHHHHHHHH
Q 018980 171 AEITEMIHVASLLHDDVLDDAD---TRRGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (348)
Q Consensus 171 A~avEliH~AsLIHDDIiD~s~---~RRG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (348)
..++=+.|.+..+..|+.|-+. .|+.+|-..-+.-.+.|...+-.++..++
T Consensus 43 ~~~~~~~~~a~~~~Nd~~D~~~D~~n~~~Rpl~sG~is~~~a~~~~~~l~~~g~ 96 (277)
T PRK12883 43 FLVVYLGCSGGNTINDYFDYEIDKINRPNRPLPRGAMSRKAALYYSLLLFAVGL 96 (277)
T ss_pred HHHHHHHHHHHhHHHhhhhHhccccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 3455566788999999977443 34555666656677777777766655554
No 42
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=38.73 E-value=3.5e+02 Score=25.68 Aligned_cols=52 Identities=15% Similarity=-0.007 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhhcccCCCCCC----C-CCCCCcccccCHHHHHHHHHHHHHHHHH
Q 018980 171 AEITEMIHVASLLHDDVLDDADT----R-RGIGSLNFVMGNKLAVLAGDFLLSRACV 222 (348)
Q Consensus 171 A~avEliH~AsLIHDDIiD~s~~----R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~ 222 (348)
..++=++|.+..+..|+.|.+-- | +.+|-.--+-..+.|...+-.++..++.
T Consensus 48 ~~g~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~l~~~~~~ 104 (282)
T PRK12848 48 VLGVFLMRAAGCVINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFL 104 (282)
T ss_pred HHHHHHHHHHHHHHHhhHHhccCCCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHH
Confidence 34445889999999999774433 2 3577777777888888888777766654
No 43
>PLN00012 chlorophyll synthetase; Provisional
Probab=37.07 E-value=61 Score=32.57 Aligned_cols=49 Identities=8% Similarity=-0.093 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCCC---CCCCCcccccCHHHHHHHHHHH
Q 018980 168 QCIAEITEMIHVASLLHDDVLDDADTR---RGIGSLNFVMGNKLAVLAGDFL 216 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD~s~~R---RG~pt~h~~~G~~~AVlaGD~L 216 (348)
..+..+.=+++.++-+..|+.|.+.-+ +.+|..--....+.++..+-.+
T Consensus 126 l~~ll~~~L~~~~an~iNDy~D~~iD~~~~~~Rpi~sG~Is~~~al~~~~~l 177 (375)
T PLN00012 126 VCMLMSGPFLTGYTQTINDWYDREIDAINEPYRPIPSGAISENEVITQIWVL 177 (375)
T ss_pred HHHHHHHHHHHHHHHHHHCeecHhhhccCCCCCCcCCCccCHHHHHHHHHHH
Confidence 334455678889999999998865444 3455555566667776644333
No 44
>TIGR01475 ubiA_other putative 4-hydroxybenzoate polyprenyltransferase. A fairly deep split separates this polyprenyltransferase subfamily from the set of mitochondrial and proteobacterial 4-hydroxybenzoate polyprenyltransferases, described in TIGR01474. Protoheme IX farnesyltransferase (heme O synthase) (TIGR01473) is more distantly related. Because no species appears to have both this protein and a member of TIGR01474, it is likely that This model represents 4-hydroxybenzoate polyprenyltransferase, a critical enzyme of ubiquinone biosynthesis, in the Archaea, Gram-positive bacteria, Aquifex aeolicus, the Chlamydias, etc.
Probab=36.60 E-value=3.7e+02 Score=25.38 Aligned_cols=49 Identities=14% Similarity=0.033 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCC-----CCCCCcccccCHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDADTR-----RGIGSLNFVMGNKLAVLAGDFLL 217 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~~R-----RG~pt~h~~~G~~~AVlaGD~Ll 217 (348)
-...+.=+++.+..+..|+.|.+.-| +.+|-..-+...+.|...+-.+.
T Consensus 40 l~~l~~~l~~~a~~~~Nd~~D~~~D~~~~Rt~~RPl~sG~is~~~a~~~~~~~~ 93 (282)
T TIGR01475 40 LILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLISKKEARTMIILSL 93 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCCccCCCCCCCCCcCHHHHHHHHHHHH
Confidence 34456668899999999997744322 34666666677777777765443
No 45
>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=35.91 E-value=91 Score=29.13 Aligned_cols=40 Identities=28% Similarity=0.231 Sum_probs=25.5
Q ss_pred hCCCH-HHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCc
Q 018980 287 AGQTA-EVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 328 (348)
Q Consensus 287 ag~~~-e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~ 328 (348)
.|.++ +....+...-+-+=.++-|.||+.| ++..+-|||.
T Consensus 33 ~g~~~~~~~~~la~aiEllh~asLIhDDI~D--~s~~RRG~p~ 73 (259)
T cd00685 33 LGGPELEAALRLAAAIELLHTASLVHDDVMD--NSDLRRGKPT 73 (259)
T ss_pred hCCCchHHHHHHHHHHHHHHHHHHHHhhhcc--CCcccCCCCc
Confidence 34444 4445566667778889999999977 2333445553
No 46
>PRK12870 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=35.04 E-value=4.1e+02 Score=25.42 Aligned_cols=53 Identities=15% Similarity=-0.034 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCCC-----CCCCCcccccCHHHHHHHHHHHHHHHHH
Q 018980 170 IAEITEMIHVASLLHDDVLDDADTR-----RGIGSLNFVMGNKLAVLAGDFLLSRACV 222 (348)
Q Consensus 170 lA~avEliH~AsLIHDDIiD~s~~R-----RG~pt~h~~~G~~~AVlaGD~Lla~a~~ 222 (348)
...++=++|.+..+..|+.|.+--| +.+|-.--+-..+.|++.+-.++..++.
T Consensus 51 ~~lg~~~~~~a~~~~Nd~~D~~iD~~~~Rt~~RPL~sG~is~~~a~~~~~~~~~~~~~ 108 (290)
T PRK12870 51 IILGALATSAAGCVVNDLWDRDIDPQVERTRFRPLASRRLSVKVGIVIAIVALLCAAG 108 (290)
T ss_pred HHHHHHHHHHHHHHHHhHHHhccCCCCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHH
Confidence 4445567899999999997754333 3567777777888888888777666653
No 47
>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=34.90 E-value=71 Score=29.95 Aligned_cols=37 Identities=24% Similarity=0.125 Sum_probs=27.8
Q ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018980 280 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 316 (348)
Q Consensus 280 ~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD 316 (348)
|.+.+.+.|.+.+....+...-+-+=.++-|.||+.|
T Consensus 21 ~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D 57 (260)
T PF00348_consen 21 VLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIID 57 (260)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 3444455566666666777888889999999999977
No 48
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=34.36 E-value=3.3e+02 Score=25.82 Aligned_cols=82 Identities=16% Similarity=0.043 Sum_probs=47.7
Q ss_pred CHHHHHHHHHhhHHHHHHHHHHHHHHHhCC--CHHHHH-HHHHHHH-HHHHHHHHHHhhhhccC--Ccc-ccCCCchhHH
Q 018980 260 SMDYYMQKTYYKTASLISNSCKAIALLAGQ--TAEVAI-LAFDYGK-NLGLAYQLIDDVLDFTG--TSA-SLGKGSLSDI 332 (348)
Q Consensus 260 s~~~yl~i~~~KTasLf~~a~~~gailag~--~~e~~~-~l~~~G~-~lGiAFQI~DDllD~~g--~~~-~~GK~~~~Dl 332 (348)
+...|++..+-+|-..-..|+-+|..++.. ...... .+.-++- -+-.+-.+.||+-|+.. |.+ ..|+ ..=+
T Consensus 2 ~~~~~~~~~Rp~~~~~~~~p~l~G~~~a~~~~~~~~~~~ll~~l~~~l~~~~~n~~Ndy~D~~~g~D~~~~~~~--~r~l 79 (293)
T PRK06080 2 TFKAWLELARPKTLPAAFAPVLVGTALAYWLGSFHPLLALLALLAALLLQIATNLANDYGDYVKGTDTEDRVGP--LRAI 79 (293)
T ss_pred CHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHhHHHhccCCCcccccCC--cccc
Confidence 356799999999988888888888877621 111111 1111221 12234478999999952 322 1222 2446
Q ss_pred hcCcchHHHHH
Q 018980 333 RHVIYLSLLFI 343 (348)
Q Consensus 333 ~~gk~T~pvl~ 343 (348)
..|+.|..-+.
T Consensus 80 ~~G~is~~~~~ 90 (293)
T PRK06080 80 GRGGISPKQVK 90 (293)
T ss_pred cCCCCCHHHHH
Confidence 67777766543
No 49
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=32.90 E-value=4.3e+02 Score=25.03 Aligned_cols=154 Identities=17% Similarity=0.024 Sum_probs=85.6
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCCC-----CCCcccccCHHHHHHHHHHHHHHHHHHHHccCCHH-HHHHHHHHH
Q 018980 167 QQCIAEITEMIHVASLLHDDVLDDADTRRG-----IGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTE-VVTLLATVV 240 (348)
Q Consensus 167 ~~~lA~avEliH~AsLIHDDIiD~s~~RRG-----~pt~h~~~G~~~AVlaGD~Lla~a~~~La~l~~~~-v~~~la~~i 240 (348)
..-...++=+.-.+..+.+|+.|-+.-|.+ +|-..-+-..+.|....-.++..++....-+ |.. +.-.+.-.+
T Consensus 49 ~~l~~l~~~~~~~ag~~iND~~D~eiD~~n~rt~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l-~~~~~~l~~~~~~ 127 (289)
T COG0382 49 LLLAFLAFFLARSAGYVINDLADREIDRINPRTKNRPLPSGRVSVKEALLLAILLLLLGLALALLL-NPLAFLLSLAALV 127 (289)
T ss_pred HHHHHHHHHHHHHHhHHHHHHhhhhccCCCCCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHHH
Confidence 334555566778889999999886665544 4444445666667666655555444332222 222 111122222
Q ss_pred HHHHHHHHHhccccCCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHHHHHHHhhhhccC
Q 018980 241 EHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ-TAEVAILAFDYGKNLGLAYQLIDDVLDFTG 319 (348)
Q Consensus 241 ~~l~~GQ~ldl~~~~~~~~s~~~yl~i~~~KTasLf~~a~~~gailag~-~~e~~~~l~~~G~~lGiAFQI~DDllD~~g 319 (348)
..... .-+ +. ..-..++. -|..+..+.-.|+...+. .....-.+.-+..-..++|.+..|+.|.-+
T Consensus 128 l~~~Y---~~~--Kr--~~~~~~~~------lg~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~ 194 (289)
T COG0382 128 LALAY---PFL--KR--FTFLPQLV------LGLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEG 194 (289)
T ss_pred HHHHH---HHh--hc--CCchHHHH------HHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccc
Confidence 22222 111 10 11122221 155566666677655553 233444667777888899999999999865
Q ss_pred CccccCCCchhHHhcCcchHHHHHHH
Q 018980 320 TSASLGKGSLSDIRHVIYLSLLFIAS 345 (348)
Q Consensus 320 ~~~~~GK~~~~Dl~~gk~T~pvl~al 345 (348)
|-++|..|.|+.+..
T Consensus 195 -----------D~~~G~~s~~~~~G~ 209 (289)
T COG0382 195 -----------DRKAGLKSLPVLFGI 209 (289)
T ss_pred -----------hHhcCCcchHHHhCc
Confidence 445677777776653
No 50
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=29.95 E-value=1.5e+02 Score=28.62 Aligned_cols=32 Identities=19% Similarity=0.175 Sum_probs=26.0
Q ss_pred HHHHHHHHHhhhhccCCccccCCCchhHHhcCcchHHHHHHHh
Q 018980 304 LGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE 346 (348)
Q Consensus 304 lGiAFQI~DDllD~~g~~~~~GK~~~~Dl~~gk~T~pvl~ale 346 (348)
...++.+.+|+.|+. .|-++||.|.|+.+..+
T Consensus 172 ~~~a~~ii~~irDie-----------~Dr~~G~~Tlpv~lG~~ 203 (282)
T PRK13105 172 WGMASHAFGAVQDVV-----------ADREAGIASIATVLGAR 203 (282)
T ss_pred HHHHHHHHHhCcchH-----------hHHHcCCccchHHhcHH
Confidence 366899999999975 56778999999988754
No 51
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=29.86 E-value=1.8e+02 Score=21.93 Aligned_cols=53 Identities=11% Similarity=0.208 Sum_probs=36.8
Q ss_pred cCCchhHHHHHHHH-HHHHHHHHhhhcchhHHHHHHHHHhcCCCCCcchHHHHHHHHHH
Q 018980 85 QLDPFSLVADELSI-LAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATA 142 (348)
Q Consensus 85 ~~d~~~~l~~eL~~-v~~~l~~~~~~~~~~l~~~~~y~~~~g~~GKr~Rp~Lvll~~~a 142 (348)
..|||..+.+-+.+ |.+. -+......++++...++... +|...+.++-.....
T Consensus 7 S~DPy~DFr~SM~EMI~~~---~i~~~w~~LeeLL~cYL~LN--~~~~H~~Iv~AF~dl 60 (66)
T TIGR01568 7 SDDPYEDFRRSMEEMIEER---ELEADWKELEELLACYLDLN--PKKSHRFIVRAFVDI 60 (66)
T ss_pred CCChHHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHhC--CchhhhHHHHHHHHH
Confidence 67898888777633 3322 23334478999999988855 999999988666544
No 52
>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=28.80 E-value=1e+02 Score=29.96 Aligned_cols=42 Identities=14% Similarity=0.060 Sum_probs=26.2
Q ss_pred HHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCc
Q 018980 285 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 328 (348)
Q Consensus 285 ilag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~ 328 (348)
.+.|.+.+....+...-+-+=.|.-|.||+.|= ++.+-|+|.
T Consensus 56 ~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~--s~~RRg~pt 97 (319)
T TIGR02748 56 KFGDYDLDAIKHVAVALELIHMASLVHDDVIDD--ADLRRGRPT 97 (319)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHhccccCC--CCCCCCCcC
Confidence 345555554445556667788888999999873 223335543
No 53
>PRK13591 ubiA prenyltransferase; Provisional
Probab=28.70 E-value=5.7e+02 Score=25.07 Aligned_cols=30 Identities=13% Similarity=0.083 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCCCCCCCC
Q 018980 170 IAEITEMIHVASLLHDDVLDDADTRRGIGS 199 (348)
Q Consensus 170 lA~avEliH~AsLIHDDIiD~s~~RRG~pt 199 (348)
...+.-++-.+.-+.||..|-+.-|-++|.
T Consensus 63 ~~~~~~L~~~s~~~iNd~~D~eiD~IN~P~ 92 (307)
T PRK13591 63 TCIAGGLIIYSVYTLDRALDSEEDAVNRSE 92 (307)
T ss_pred HHHHHHHHHHHHHHHhhhccchhhhccCcc
Confidence 445555667788899999887766666663
No 54
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=23.90 E-value=3.5e+02 Score=26.34 Aligned_cols=23 Identities=22% Similarity=0.420 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHhhcccCC
Q 018980 167 QQCIAEITEMIHVASLLHDDVLD 189 (348)
Q Consensus 167 ~~~lA~avEliH~AsLIHDDIiD 189 (348)
...+..--..+=.|+-|.|||+|
T Consensus 196 ~~~l~~~g~~lGlaFQi~DDiLD 218 (322)
T COG0142 196 LEALEDYGRNLGLAFQIQDDILD 218 (322)
T ss_pred HHHHHHHHHHhhHHHHHHHHhhc
Confidence 34455556667788999999988
No 55
>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=23.70 E-value=2.3e+02 Score=25.48 Aligned_cols=47 Identities=23% Similarity=0.142 Sum_probs=30.5
Q ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHhhhhccCCccccCCCc
Q 018980 280 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 328 (348)
Q Consensus 280 ~~~gailag~~~e~~~~l~~~G~~lGiAFQI~DDllD~~g~~~~~GK~~ 328 (348)
+...+.+.|.+.+....+...-+-+=.+.-+.||+.|= +....|++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~--~~~rrg~~~ 52 (236)
T cd00867 6 VLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDD--SDLRRGKPT 52 (236)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccC--CccCCCCcc
Confidence 33444445656665556667777788888999999883 344456654
No 56
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=23.37 E-value=2.5e+02 Score=27.36 Aligned_cols=78 Identities=13% Similarity=-0.070 Sum_probs=49.2
Q ss_pred CHHHHHHHH---HhhHHHHHHHHHHHHHHHhCCC------HHHHHHHHHHHHHHHHHH-----HHHHhhhhccCCccccC
Q 018980 260 SMDYYMQKT---YYKTASLISNSCKAIALLAGQT------AEVAILAFDYGKNLGLAY-----QLIDDVLDFTGTSASLG 325 (348)
Q Consensus 260 s~~~yl~i~---~~KTasLf~~a~~~gailag~~------~e~~~~l~~~G~~lGiAF-----QI~DDllD~~g~~~~~G 325 (348)
+...|.+.+ +.||-.+.-.++..|..++... ..... -+---+|..+ .+.||+.|.--|.. ..
T Consensus 29 ~~~~y~~L~R~~kP~~~~l~~~p~~~G~~lA~~~~~~~~~~~~~~---~~l~~l~~~l~~~a~~~~Nd~~Dr~iD~~-~~ 104 (314)
T PRK12878 29 WLRPYAQLARWDRPIGWWLLLWPCWWSAALAAGAAADLGLLLLWH---LFLFFVGAIAMRGAGCTYNDIVDRDIDAK-VA 104 (314)
T ss_pred hHHHHHHHHccccchhhHHHHHHHHHHHHHhcccccCCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHHhcccC-CC
Confidence 567899999 8889999999999999887542 11111 1122233333 78999999755543 22
Q ss_pred CCchhHHhcCcchHHH
Q 018980 326 KGSLSDIRHVIYLSLL 341 (348)
Q Consensus 326 K~~~~Dl~~gk~T~pv 341 (348)
++...=+..|+.|..-
T Consensus 105 Rt~~RPl~sG~is~~~ 120 (314)
T PRK12878 105 RTRSRPLPSGQVSRKQ 120 (314)
T ss_pred CCCCCCCCCCCcCHHH
Confidence 2223445567776443
No 57
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=22.14 E-value=1.7e+02 Score=27.65 Aligned_cols=49 Identities=20% Similarity=0.258 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhhcccCC-CCCCCCCCCCcccccCHHHHHHHHHHHHH
Q 018980 170 IAEITEMIHVASLLHDDVLD-DADTRRGIGSLNFVMGNKLAVLAGDFLLS 218 (348)
Q Consensus 170 lA~avEliH~AsLIHDDIiD-~s~~RRG~pt~h~~~G~~~AVlaGD~Lla 218 (348)
++..+-+.-.+.+..+|+.| ++|.+.|++|+=..+|.+.|...--.++.
T Consensus 166 ~~~~~~l~~~~i~~~nd~~D~~~D~~~G~~Tl~v~lG~~~a~~l~~~l~~ 215 (283)
T TIGR01476 166 VALIYSLGAHGIMTLNDFKSVEGDRQLGLRSLPVMIGVKRAAIVAVTTIN 215 (283)
T ss_pred HHHHHHHHHHHHHHHHhccchhhHHHcCCcCcceEEcHHHHHHHHHHHHH
Confidence 45555566667789999999 55556799999999999988765544443
No 58
>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=22.01 E-value=4.3e+02 Score=24.06 Aligned_cols=86 Identities=10% Similarity=0.070 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHhccccC-CCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHh---C-CCHHHHHHHHHHHHHHHH
Q 018980 232 VVTLLATVVEHLVTGETMQMTTSS-DQRCSMDYYMQKTYYKTASLISNSCKAIALLA---G-QTAEVAILAFDYGKNLGL 306 (348)
Q Consensus 232 v~~~la~~i~~l~~GQ~ldl~~~~-~~~~s~~~yl~i~~~KTasLf~~a~~~gaila---g-~~~e~~~~l~~~G~~lGi 306 (348)
+...|.+.+.....|...+..+.. ...+|.++|+++=..=+|..+...+..-++ . | ...+..+.-..+-+..+.
T Consensus 138 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~ 216 (270)
T PF03936_consen 138 QIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFAL-EFALGELPPEVLEHPPMLRRLAAD 216 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHC-SSCHTHHHHHHHHTTHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhC-CCccccccHHHHHhchHHHHHHHH
Confidence 445577888888888776655543 336789999976555554444333321111 2 1 111222221125566666
Q ss_pred HHHHHHhhhhcc
Q 018980 307 AYQLIDDVLDFT 318 (348)
Q Consensus 307 AFQI~DDllD~~ 318 (348)
.--+.||+..|-
T Consensus 217 ~~~l~NDl~S~~ 228 (270)
T PF03936_consen 217 IIRLVNDLYSYK 228 (270)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHhcccchhh
Confidence 666779999984
No 59
>CHL00151 preA prenyl transferase; Reviewed
Probab=21.49 E-value=3.6e+02 Score=26.28 Aligned_cols=22 Identities=27% Similarity=0.227 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHhhcccCC
Q 018980 168 QCIAEITEMIHVASLLHDDVLD 189 (348)
Q Consensus 168 ~~lA~avEliH~AsLIHDDIiD 189 (348)
..+...-+-+=.|+-|.|||+|
T Consensus 198 ~~l~~~G~~lG~aFQi~DDilD 219 (323)
T CHL00151 198 NDFYLYGKHLGLAFQIIDDVLD 219 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3455555667788899999988
No 60
>KOG1166 consensus Mitotic checkpoint serine/threonine protein kinase [Cell cycle control, cell division, chromosome partitioning]
Probab=20.88 E-value=57 Score=36.87 Aligned_cols=36 Identities=25% Similarity=0.315 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHhhccc-CCCCCCCCCCCCcc
Q 018980 166 RQQCIAEITEMIHVASLLHDDV-LDDADTRRGIGSLN 201 (348)
Q Consensus 166 ~~~~lA~avEliH~AsLIHDDI-iD~s~~RRG~pt~h 201 (348)
-...++-+||.+|..-.||-|| .|+--.||+...-+
T Consensus 799 ~~~qml~ive~lH~~~IIHgDiKPDNfll~~~~~~~~ 835 (974)
T KOG1166|consen 799 FSCQMLRIVEHLHAMGIIHGDIKPDNFLLRREICADS 835 (974)
T ss_pred HHHHHHHHHHHHHhcceecccCCcceeEeecccCCCC
Confidence 4567889999999999999999 99999998765443
No 61
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=20.17 E-value=1.7e+02 Score=28.25 Aligned_cols=58 Identities=24% Similarity=0.192 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCC-CCCCCcccccCHHHHHHHHHHHHHHHHHHH
Q 018980 167 QQCIAEITEMIHVASLLHDDVLDDADTR-RGIGSLNFVMGNKLAVLAGDFLLSRACVAL 224 (348)
Q Consensus 167 ~~~lA~avEliH~AsLIHDDIiD~s~~R-RG~pt~h~~~G~~~AVlaGD~Lla~a~~~L 224 (348)
..-++.++=+.-.+.++..++.|-+.-| .|+.|+=.++|.+.|....-.++..++..+
T Consensus 162 ~~l~~~~~~~~~~a~~ii~~irDie~Dr~~G~~Tlpv~lG~~~a~~~~~~l~~~a~~~~ 220 (282)
T PRK13105 162 LWAVLAAFFLWGMASHAFGAVQDVVADREAGIASIATVLGARRTVRLAVGLYAAAAVLM 220 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcchHhHHHcCCccchHHhcHHHHHHHHHHHHHHHHHHH
Confidence 3446677777788999999999965554 699999999999999988887777666444
No 62
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=20.16 E-value=1.8e+02 Score=28.24 Aligned_cols=53 Identities=17% Similarity=0.125 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCC-CCCCCCCcccccCHHHHHHHHHHHHHHHH
Q 018980 169 CIAEITEMIHVASLLHDDVLDDAD-TRRGIGSLNFVMGNKLAVLAGDFLLSRAC 221 (348)
Q Consensus 169 ~lA~avEliH~AsLIHDDIiD~s~-~RRG~pt~h~~~G~~~AVlaGD~Lla~a~ 221 (348)
-++...-+...+.++.+|+.|-+. .+.|++|+=..+|.+.+....-+++..++
T Consensus 193 l~~~~~~l~~~~~~~~~d~~D~e~D~~aG~~Tlpv~~G~~~a~~l~~~l~~~~~ 246 (314)
T PRK07566 193 ILALLYSLGAHGIMTLNDFKSVEGDRQLGLRSLPVVFGEKNAARIACVVIDLFQ 246 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHhHHHcCCcccceeEcHHHHHHHHHHHHHHHH
Confidence 344445555666678888887444 45699999999999988776655555443
Done!