Query psy17022
Match_columns 287
No_of_seqs 222 out of 2126
Neff 7.8
Searched_HMMs 46136
Date Fri Aug 16 19:47:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17022.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17022hhsearch_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 5.2E-35 1.1E-39 275.4 17.7 178 1-287 207-384 (422)
2 TIGR02749 prenyl_cyano solanes 100.0 2.4E-34 5.2E-39 264.7 17.8 178 1-287 113-290 (322)
3 PLN02857 octaprenyl-diphosphat 100.0 2.3E-34 5E-39 271.1 18.0 178 1-287 207-384 (416)
4 CHL00151 preA prenyl transfera 100.0 1.3E-33 2.8E-38 260.2 18.6 178 1-287 114-291 (323)
5 TIGR02748 GerC3_HepT heptapren 100.0 4.3E-33 9.4E-38 256.3 18.0 177 1-287 109-287 (319)
6 PRK10888 octaprenyl diphosphat 100.0 1.2E-32 2.7E-37 253.4 17.9 178 1-287 110-291 (323)
7 COG0142 IspA Geranylgeranyl py 100.0 1.4E-32 3E-37 253.0 17.7 177 1-287 112-290 (322)
8 KOG0776|consensus 100.0 2.3E-31 5.1E-36 243.6 15.6 179 1-287 176-354 (384)
9 PF00348 polyprenyl_synt: Poly 100.0 3.2E-29 7E-34 224.7 12.1 178 1-285 79-260 (260)
10 PRK10581 geranyltranstransfera 99.9 3.5E-27 7.7E-32 214.9 15.9 147 1-183 112-260 (299)
11 cd00685 Trans_IPPS_HT Trans-Is 99.9 5E-25 1.1E-29 197.4 14.7 135 1-179 85-222 (259)
12 KOG0777|consensus 99.9 3.3E-21 7.2E-26 164.2 12.5 131 2-179 102-232 (322)
13 cd00867 Trans_IPPS Trans-Isopr 99.9 1.4E-20 3.1E-25 165.8 15.6 134 1-179 65-198 (236)
14 PRK10581 geranyltranstransfera 99.7 1.3E-17 2.9E-22 152.1 12.2 141 109-249 117-261 (299)
15 cd00685 Trans_IPPS_HT Trans-Is 99.6 7E-16 1.5E-20 138.3 8.3 86 160-245 138-223 (259)
16 KOG0711|consensus 99.5 1.3E-14 2.8E-19 129.5 8.4 114 67-181 152-269 (347)
17 cd00867 Trans_IPPS Trans-Isopr 99.4 2.1E-12 4.6E-17 113.7 11.3 85 161-246 116-200 (236)
18 cd00385 Isoprenoid_Biosyn_C1 I 99.3 3.1E-10 6.6E-15 98.0 16.3 80 76-155 90-169 (243)
19 COG0142 IspA Geranylgeranyl py 99.0 3.5E-09 7.6E-14 97.9 11.1 125 148-286 151-276 (322)
20 PLN02890 geranyl diphosphate s 98.8 8.9E-09 1.9E-13 97.9 6.9 55 162-216 259-313 (422)
21 PRK10888 octaprenyl diphosphat 98.7 1.8E-08 3.9E-13 93.2 6.5 57 161-217 161-217 (323)
22 TIGR02748 GerC3_HepT heptapren 98.7 2.4E-08 5.2E-13 92.2 6.9 55 163-217 162-216 (319)
23 PF00348 polyprenyl_synt: Poly 98.7 2.8E-07 6E-12 82.7 13.5 106 110-216 85-191 (260)
24 TIGR02749 prenyl_cyano solanes 98.7 2E-08 4.3E-13 92.8 6.1 58 160-217 163-220 (322)
25 PLN02857 octaprenyl-diphosphat 98.6 5.9E-08 1.3E-12 92.3 7.0 58 160-217 257-314 (416)
26 KOG0776|consensus 98.6 3.2E-07 6.9E-12 85.2 9.7 165 101-283 173-340 (384)
27 CHL00151 preA prenyl transfera 98.4 1.3E-06 2.8E-11 80.9 10.1 53 165-217 169-221 (323)
28 KOG0711|consensus 95.4 0.009 1.9E-07 54.4 2.2 116 162-278 184-304 (347)
29 PF07307 HEPPP_synt_1: Heptapr 94.3 0.25 5.4E-06 42.9 8.2 68 1-71 74-141 (212)
30 TIGR01559 squal_synth farnesyl 89.4 14 0.00031 34.4 14.0 160 66-246 102-265 (336)
31 PLN02632 phytoene synthase 84.7 3.3 7.1E-05 38.6 7.1 90 73-176 141-230 (334)
32 PF00494 SQS_PSY: Squalene/phy 84.2 11 0.00023 33.5 10.0 73 72-151 91-163 (267)
33 TIGR03465 HpnD squalene syntha 82.7 4.2 9E-05 36.4 6.7 86 72-177 85-170 (266)
34 cd00683 Trans_IPPS_HH Trans-Is 81.8 3.9 8.4E-05 36.5 6.1 86 72-176 93-178 (265)
35 cd00385 Isoprenoid_Biosyn_C1 I 81.2 2.5 5.4E-05 35.7 4.5 77 163-248 112-188 (243)
36 KOG0777|consensus 78.0 16 0.00035 32.3 8.3 21 52-72 153-173 (322)
37 TIGR03464 HpnC squalene syntha 75.5 13 0.00028 33.2 7.6 84 73-176 87-170 (266)
38 PF06783 UPF0239: Uncharacteri 50.5 20 0.00044 26.4 3.0 21 126-146 16-36 (85)
39 cd00687 Terpene_cyclase_nonpla 42.3 2.5E+02 0.0055 25.1 10.8 64 92-155 157-222 (303)
40 TIGR03465 HpnD squalene syntha 39.6 1.3E+02 0.0029 26.6 7.4 97 129-243 71-171 (266)
41 PLN02632 phytoene synthase 39.3 1.3E+02 0.0027 28.0 7.3 39 194-243 194-232 (334)
42 TIGR03464 HpnC squalene syntha 30.1 2.4E+02 0.0052 25.0 7.4 38 197-245 137-174 (266)
43 cd00683 Trans_IPPS_HH Trans-Is 27.6 56 0.0012 29.0 2.9 40 195-245 143-182 (265)
44 PF11676 DUF3272: Protein of u 22.2 92 0.002 21.5 2.4 30 1-30 24-55 (61)
45 COG1562 ERG9 Phytoene/squalene 21.6 6.2E+02 0.013 23.0 8.5 103 126-242 86-189 (288)
46 PF10776 DUF2600: Protein of u 20.2 3.9E+02 0.0085 24.9 6.9 46 177-226 35-80 (330)
47 TIGR01559 squal_synth farnesyl 20.1 2.3E+02 0.005 26.5 5.4 36 196-242 166-201 (336)
No 1
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=5.2e-35 Score=275.42 Aligned_cols=178 Identities=45% Similarity=0.791 Sum_probs=154.7
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||++||..+++.+++++++.+++++..+++||++|+.+..+
T Consensus 207 laGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~---------------------------------- 252 (422)
T PLN02890 207 LAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSSRE---------------------------------- 252 (422)
T ss_pred HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence 5899999999999999999999999999999999999998865433
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
..+++++|++|+.+|||+||+.||.+|++++|.+++..+.+++||+++|++|||+||++|++++
T Consensus 253 ----------~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~------ 316 (422)
T PLN02890 253 ----------QRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGT------ 316 (422)
T ss_pred ----------CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC------
Confidence 2467789999999999999999999999999998877777777777777777777777776655
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
++.+|||.++|+++||+|+|+
T Consensus 317 -----------------------------------------------------------~~~~GK~~g~DL~eGk~TlPv 337 (422)
T PLN02890 317 -----------------------------------------------------------SASLGKGSLSDIRHGVITAPI 337 (422)
T ss_pred -----------------------------------------------------------hhhhCCCchhhHhcCCccHHH
Confidence 456788889999999999999
Q ss_pred HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..+++.+++.+...++++++++.++|.++|++++|+++|++|
T Consensus 338 l~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~ 384 (422)
T PLN02890 338 LFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREH 384 (422)
T ss_pred HHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 99998777777888777778889999999999999999999999876
No 2
>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=2.4e-34 Score=264.72 Aligned_cols=178 Identities=40% Similarity=0.672 Sum_probs=157.3
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||++||+.+++.+++.+++.+++++.++++||++|+.+..+
T Consensus 113 l~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~---------------------------------- 158 (322)
T TIGR02749 113 LAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQGLNQFD---------------------------------- 158 (322)
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHcccC----------------------------------
Confidence 5899999999999999999999999999999999999998744322
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
..+++++|++|+.+|||+||++||.+|+++++.+++.++.+.+||.++|++|||+||++|+.+++
T Consensus 159 ----------~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~----- 223 (322)
T TIGR02749 159 ----------SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGST----- 223 (322)
T ss_pred ----------CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCh-----
Confidence 23577899999999999999999999999999998888888888888888888888888887654
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||.++|+++||+|+|+
T Consensus 224 ------------------------------------------------------------~~~GK~~g~Dl~~Gk~Tlp~ 243 (322)
T TIGR02749 224 ------------------------------------------------------------EQLGKPAGSDLMKGNLTAPV 243 (322)
T ss_pred ------------------------------------------------------------HhhCCChhHHHhCCCchHHH
Confidence 45788889999999999999
Q ss_pred HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..+++.+++.+...++++++++.++|.++|++++|++++++|
T Consensus 244 l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~ 290 (322)
T TIGR02749 244 LFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQ 290 (322)
T ss_pred HHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence 99998877777888777778889999999999999999999999875
No 3
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=2.3e-34 Score=271.15 Aligned_cols=178 Identities=42% Similarity=0.687 Sum_probs=156.8
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||++||+.+++++++++++.+++++.++++||++|+.+..+
T Consensus 207 laGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q~~~~~~---------------------------------- 252 (416)
T PLN02857 207 LAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQASSLFD---------------------------------- 252 (416)
T ss_pred eHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHHHhcccC----------------------------------
Confidence 6899999999999999999999999999999999999998754322
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
...++++|++|+++|||+||+.||.+|+++++.+++..+.+.+||+++|++|||+||++|+.+++
T Consensus 253 ----------~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~----- 317 (416)
T PLN02857 253 ----------CDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQST----- 317 (416)
T ss_pred ----------CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH-----
Confidence 23577899999999999999999999999999988888888888888888888888877776653
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||.++|+++||.|+|+
T Consensus 318 ------------------------------------------------------------~~~GK~~g~DL~eGK~TlPl 337 (416)
T PLN02857 318 ------------------------------------------------------------EQLGKPAGSDLAKGNLTAPV 337 (416)
T ss_pred ------------------------------------------------------------HHhCCCcchhhhcCCccHHH
Confidence 56788889999999999999
Q ss_pred HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..+++.+++.....+++++++++++|+++|++++|++++++|
T Consensus 338 i~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~ 384 (416)
T PLN02857 338 IFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEK 384 (416)
T ss_pred HHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 99999888888888777778899999999999999999999999875
No 4
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=1.3e-33 Score=260.20 Aligned_cols=178 Identities=39% Similarity=0.620 Sum_probs=154.6
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||+.||+.+++.+++.+++.+++++..+++||++|..+..
T Consensus 114 l~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~~~~~~----------------------------------- 158 (323)
T CHL00151 114 LAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQGLVQF----------------------------------- 158 (323)
T ss_pred hhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHhcCC-----------------------------------
Confidence 689999999999999999989999999999999999999764321
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
+...+.++|++|+.+|||+||++||.+|+++++.+++..+.+++||.++|++|||+||++|+++++
T Consensus 159 ---------~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~----- 224 (323)
T CHL00151 159 ---------DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSST----- 224 (323)
T ss_pred ---------CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccCh-----
Confidence 123677899999999999999999999999999988877878888888888888777777776653
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||.|+|+++||+|+|+
T Consensus 225 ------------------------------------------------------------~~~GK~~g~Dl~eGk~Tlp~ 244 (323)
T CHL00151 225 ------------------------------------------------------------ESLGKPIGSDLKNGNLTAPV 244 (323)
T ss_pred ------------------------------------------------------------hhhCCCchhhHhcCchHHHH
Confidence 46788889999999999999
Q ss_pred HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..++..+.+.....++++++++.+++.++|++++|++++++|
T Consensus 245 l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~ 291 (323)
T CHL00151 245 LFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEH 291 (323)
T ss_pred HHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence 99999877777777777777889999999999999999999999875
No 5
>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=4.3e-33 Score=256.29 Aligned_cols=177 Identities=28% Similarity=0.493 Sum_probs=147.2
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
++|||||++||+.+++++++.+++.+++++..+++||++|+.+..+
T Consensus 109 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~---------------------------------- 154 (319)
T TIGR02748 109 YTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKDKYN---------------------------------- 154 (319)
T ss_pred HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence 5899999999999999999999999999999999999998754332
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
..+++++|++|+.+|||+||++||.+|+++++.+++.++.+.+||+++|++|||+||++|+++++
T Consensus 155 ----------~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~----- 219 (319)
T TIGR02748 155 ----------FDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTE----- 219 (319)
T ss_pred ----------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCH-----
Confidence 23567899999999999999999999999999988877778888887777777777777776653
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||.++|+++||+|+|+
T Consensus 220 ------------------------------------------------------------~~~GK~~~~Dl~~gk~Tlp~ 239 (319)
T TIGR02748 220 ------------------------------------------------------------EELGKPAGGDLLQGNVTLPV 239 (319)
T ss_pred ------------------------------------------------------------HhhCCChhhHHhCCCchHHH
Confidence 56788889999999999999
Q ss_pred HHhhhhCccchHHHHhhc--CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~--~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..+ .+..+.... .+++++++++++++++|++++|+.++++|
T Consensus 240 l~al~~~~-~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~ 287 (319)
T TIGR02748 240 LYAMEDPF-LKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRY 287 (319)
T ss_pred HHHhcCcc-hhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence 99998543 333443222 25678999999999999999999999875
No 6
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=1.2e-32 Score=253.38 Aligned_cols=178 Identities=30% Similarity=0.438 Sum_probs=148.0
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||+.||+.+++.++++++..+++++..+++||.+|+.+..+
T Consensus 110 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~---------------------------------- 155 (323)
T PRK10888 110 LVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQLMNVND---------------------------------- 155 (323)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence 5899999999999999999999999999999999999998754322
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
..+++++|++|+.+|||+||++||.+|+++++.+++..+.+++||+++|++|||+||++|+.+++
T Consensus 156 ----------~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~----- 220 (323)
T PRK10888 156 ----------PDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADG----- 220 (323)
T ss_pred ----------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCCh-----
Confidence 24677899999999999999999999999999988888888888888888888888888877654
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||+|+|+++||+|+|+
T Consensus 221 ------------------------------------------------------------~~~GK~~g~Dl~~gk~Tlp~ 240 (323)
T PRK10888 221 ------------------------------------------------------------ETLGKNVGDDLNEGKPTLPL 240 (323)
T ss_pred ------------------------------------------------------------HhhCCCchhhhhcCCchHHH
Confidence 45678888999999999999
Q ss_pred HHhhhhCcc-chHHHHhhc---CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPE-LNPMIMRRF---QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~-~~~~l~~~~---~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
+++++..++ .++.+.... ..+++++++++++.++|++++++++|++|
T Consensus 241 l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~ 291 (323)
T PRK10888 241 LHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEE 291 (323)
T ss_pred HHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence 999986533 333333222 23467899999999999999999999875
No 7
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=1.4e-32 Score=253.02 Aligned_cols=177 Identities=37% Similarity=0.554 Sum_probs=142.4
Q ss_pred CchhHHHHHHHHHHhcCCC--hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRD--NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLV 78 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~--~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~ 78 (287)
|+||||++.||+++++.++ +.+++.+++++..++.||.+|+
T Consensus 112 laGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl------------------------------------- 154 (322)
T COG0142 112 LAGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDL------------------------------------- 154 (322)
T ss_pred HHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHHHHH-------------------------------------
Confidence 5899999999999999988 6666666665555555555544
Q ss_pred hhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022 79 QGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158 (287)
Q Consensus 79 ~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~ 158 (287)
.++++. ++.++|++|+++|||+||++++.+|+++++.+++..+.+.+||+++|++|||+||++|+.+++
T Consensus 155 -------~~~~~~-~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~--- 223 (322)
T COG0142 155 -------AFENKP-VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDE--- 223 (322)
T ss_pred -------HccCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCCh---
Confidence 444444 788999999999999999999999999999988888888888888888888888888877664
Q ss_pred CccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChH
Q psy17022 159 GKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA 238 (287)
Q Consensus 159 Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tl 238 (287)
..+|||+|+|+++||+||
T Consensus 224 --------------------------------------------------------------~~lGK~~g~Dl~~gK~T~ 241 (322)
T COG0142 224 --------------------------------------------------------------EELGKPVGSDLKEGKPTL 241 (322)
T ss_pred --------------------------------------------------------------HHhCCCcchHHHcCCchH
Confidence 467888899999999999
Q ss_pred HHHHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 239 PVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 239 p~i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
|++++++.+.+..+.+........+++++++++.++|+++++..+++.|
T Consensus 242 p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~ 290 (322)
T COG0142 242 PVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTY 290 (322)
T ss_pred HHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHH
Confidence 9999999876533333333233339999999999999999988888765
No 8
>KOG0776|consensus
Probab=99.97 E-value=2.3e-31 Score=243.63 Aligned_cols=179 Identities=46% Similarity=0.647 Sum_probs=156.9
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
|+|||||+.||+.++.++|+.++++|++++++|++|+++|.... |
T Consensus 176 LaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~-----------------------------------~ 220 (384)
T KOG0776|consen 176 LAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVA-----------------------------------G 220 (384)
T ss_pred hhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhccccc-----------------------------------c
Confidence 79999999999999999999999999999999999999977443 2
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
|.+|.. +..+++|..++.+|||+|++.+|.++++++|.+++..+.+++||+++|++||+.||++|++...
T Consensus 221 ~~~d~~-----~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss----- 290 (384)
T KOG0776|consen 221 EGLDLD-----DVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSS----- 290 (384)
T ss_pred cccccC-----CcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccch-----
Confidence 223332 2567899999999999999999999999999999999999999999999999999988887764
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
+.+|||.|.|+..|+.|+|+
T Consensus 291 ------------------------------------------------------------~elGK~ag~Dl~~g~lT~P~ 310 (384)
T KOG0776|consen 291 ------------------------------------------------------------EELGKTAGKDLKAGKLTAPV 310 (384)
T ss_pred ------------------------------------------------------------hhcCcchhhhhhhccccccc
Confidence 35677778899999999999
Q ss_pred HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287 (287)
Q Consensus 241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y 287 (287)
++++++.|++.+.+.+.+.++.+..+..+++. ++..|..+|++|
T Consensus 311 Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~---~v~~a~~la~~~ 354 (384)
T KOG0776|consen 311 LFALEKSPELREKLEREFSEPLDGFDADKAVP---GVALAKYLARRH 354 (384)
T ss_pred hhhhhhChHHHHHHHHhccccchhhHHHHHHH---HHHHHHHHHHHH
Confidence 99999999999999999888888888888887 899999998876
No 9
>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=99.96 E-value=3.2e-29 Score=224.67 Aligned_cols=178 Identities=34% Similarity=0.524 Sum_probs=138.7
Q ss_pred CchhHHHHHHHHHHhcCCC----hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Q psy17022 1 MAGDFILAVACQMISRLRD----NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTD 76 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~----~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~ 76 (287)
++||||++.||+.+++..+ .....+++.....++ .+
T Consensus 79 l~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~----------------------------------------~~ 118 (260)
T PF00348_consen 79 LAGDYLLALAFELLARLGHFDPSERVLRILELFIEALI----------------------------------------EG 118 (260)
T ss_dssp HHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHH----------------------------------------HH
T ss_pred hhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcc----------------------------------------cc
Confidence 5799999999999999872 222332222222222 22
Q ss_pred hhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcc
Q psy17022 77 LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD 156 (287)
Q Consensus 77 ~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~ 156 (287)
+ .||..|+.+... .+++++|++|+++|||+||++||++|+++++.+++..+.+++||+++|++|||+||++|+.++
T Consensus 119 ~-~~q~~d~~~~~~-~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~-- 194 (260)
T PF00348_consen 119 E-IGQALDLANEDK-DPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGD-- 194 (260)
T ss_dssp H-HHHHHHHHTTTS-STSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH--
T ss_pred e-eehhhccccccc-cccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCc--
Confidence 2 337777777544 789999999999999999999999999999999888888888888888888888888777664
Q ss_pred ccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCC
Q psy17022 157 AMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236 (287)
Q Consensus 157 ~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~ 236 (287)
++.+||++++||++||+
T Consensus 195 ---------------------------------------------------------------~~~~gK~~~~Dl~~gk~ 211 (260)
T PF00348_consen 195 ---------------------------------------------------------------EEELGKPVGSDLKEGKP 211 (260)
T ss_dssp ---------------------------------------------------------------HHHHSSTTTHHHHTTTS
T ss_pred ---------------------------------------------------------------HHHhcccchhHHhcCcc
Confidence 34568888999999999
Q ss_pred hHHHHHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHH
Q psy17022 237 TAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285 (287)
Q Consensus 237 Tlp~i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~ 285 (287)
|||++++++++++..+.+.....+..+.+.+.+.+..++.+++++++++
T Consensus 212 Tlp~~~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (260)
T PF00348_consen 212 TLPVLHALERAREELRELLQEAYGKEDSEEALEIIAQTGALEYTRKFME 260 (260)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHTHHHHHH-
T ss_pred cHHHHHHHHhCHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHhhcC
Confidence 9999999999766555555555556678889999999999999998764
No 10
>PRK10581 geranyltranstransferase; Provisional
Probab=99.95 E-value=3.5e-27 Score=214.93 Aligned_cols=147 Identities=26% Similarity=0.413 Sum_probs=120.1
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHH-Hhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA-IMTDLVQ 79 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~-~~~~~~~ 79 (287)
|+||||++.||+++++...+.+... +.+ .++...... +..+|+.
T Consensus 112 l~GD~L~~~a~~~l~~~~~~~~~~~-----------~~~------------------------~~~~~~~~~~~~~~l~~ 156 (299)
T PRK10581 112 LAGDALQTLAFSILSDAPMPEVSDR-----------DRI------------------------SMISELASASGIAGMCG 156 (299)
T ss_pred HHHHHHHHHHHHHHHhCCCccCChH-----------HHH------------------------HHHHHHHHhcccchhhH
Confidence 6899999999999988754321110 000 011222221 3568899
Q ss_pred hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022 80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158 (287)
Q Consensus 80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~ 158 (287)
||++|+.+... .+++++|++|+.+|||+||.+|+.+|+++++.++ ..++.+++||.++|++|||+||++|+.++++.+
T Consensus 157 GQ~ld~~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~ 235 (299)
T PRK10581 157 GQALDLEAEGK-QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATL 235 (299)
T ss_pred hhHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHH
Confidence 99999988654 6789999999999999999999999999999865 568999999999999999999999999999999
Q ss_pred CccchhhhHhhhhhhhhHhhhhhhh
Q psy17022 159 GKPTAADLKLGLATAPVLFACEKSA 183 (287)
Q Consensus 159 Gk~~~~Di~~~K~t~~~l~a~~~ga 183 (287)
||+.++|+.+||.|+|++++++.+.
T Consensus 236 GK~~g~Dl~~gk~T~p~l~~~e~a~ 260 (299)
T PRK10581 236 GKRQGADQQLGKSTYPALLGLEQAR 260 (299)
T ss_pred CCCcchhhhcCCCCHHHHHHHHHHH
Confidence 9999999999999999999987653
No 11
>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=99.93 E-value=5e-25 Score=197.44 Aligned_cols=135 Identities=37% Similarity=0.601 Sum_probs=118.7
Q ss_pred CchhHHHHHHHHHHhcCCC---hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhh
Q psy17022 1 MAGDFILAVACQMISRLRD---NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDL 77 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~---~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~ 77 (287)
++||||++.+|++++...+ +++++.+++.+..+++||.+++.
T Consensus 85 l~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~----------------------------------- 129 (259)
T cd00685 85 LAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLL----------------------------------- 129 (259)
T ss_pred HHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHH-----------------------------------
Confidence 5799999999999999877 56666666666666666666553
Q ss_pred hhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccc
Q psy17022 78 VQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA 157 (287)
Q Consensus 78 ~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~ 157 (287)
+.....+++++|++|+.+|||+||.+++.+|+++++.+++..+.+++||+++|++|||+||++|+.++++.
T Consensus 130 ---------~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~ 200 (259)
T cd00685 130 ---------SEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPET 200 (259)
T ss_pred ---------ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHH
Confidence 43334578899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccchhhhHhhhhhhhhHhhh
Q psy17022 158 MGKPTAADLKLGLATAPVLFAC 179 (287)
Q Consensus 158 ~Gk~~~~Di~~~K~t~~~l~a~ 179 (287)
+||+.++|+.+||.|+|+++++
T Consensus 201 ~gK~~~~Di~~gk~T~~~~~~l 222 (259)
T cd00685 201 LGKPVGSDLREGKCTLPVLLAL 222 (259)
T ss_pred HCCCcchHHHcCCchHHHHHHH
Confidence 9999999999999999999988
No 12
>KOG0777|consensus
Probab=99.86 E-value=3.3e-21 Score=164.24 Aligned_cols=131 Identities=18% Similarity=0.252 Sum_probs=109.3
Q ss_pred chhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhhh
Q psy17022 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGE 81 (287)
Q Consensus 2 ~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~GQ 81 (287)
+.+|++..|.+.++.+..|++++++.+..-.++.||++++.||+...
T Consensus 102 tANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~t--------------------------------- 148 (322)
T KOG0777|consen 102 TANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLT--------------------------------- 148 (322)
T ss_pred hhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCc---------------------------------
Confidence 57899999999999999999999999999999999999999998763
Q ss_pred hhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCcc
Q psy17022 82 FMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP 161 (287)
Q Consensus 82 ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~ 161 (287)
+|+++.|..|+..|||.||++++++.-.++...+ .+..+-..+|+.|||+||+.++...+....|.
T Consensus 149 ----------cPtee~Yk~Mv~~KTGGLF~La~rLMqlfS~~ke----dl~pl~n~LGl~fQIRDDY~NL~~keysenKs 214 (322)
T KOG0777|consen 149 ----------CPTEEMYKNMVMNKTGGLFRLALRLMQLFSHHKE----DLVPLINLLGLIFQIRDDYLNLKDKEYSENKS 214 (322)
T ss_pred ----------CCCHHHHHHHHHHhcccHHHHHHHHHHHHHhcch----hHHHHHHHHhHhhhhhhhhccchhhhhhcccc
Confidence 4777899999999999999999999998885543 46778889999999999999998876665666
Q ss_pred chhhhHhhhhhhhhHhhh
Q psy17022 162 TAADLKLGLATAPVLFAC 179 (287)
Q Consensus 162 ~~~Di~~~K~t~~~l~a~ 179 (287)
+.+|+.+||.++|+++|+
T Consensus 215 FaEDlTEGKfsFP~iHA~ 232 (322)
T KOG0777|consen 215 FAEDLTEGKFSFPIIHAL 232 (322)
T ss_pred hhhhhccCccCCcchhhh
Confidence 555555555555555444
No 13
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=99.85 E-value=1.4e-20 Score=165.77 Aligned_cols=134 Identities=37% Similarity=0.571 Sum_probs=118.2
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG 80 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G 80 (287)
++||++++.+|..++....++..+++++.+..+++||.+++.+..
T Consensus 65 ~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~----------------------------------- 109 (236)
T cd00867 65 LAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFER----------------------------------- 109 (236)
T ss_pred HHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhcc-----------------------------------
Confidence 479999999999999887777777777777777777777664332
Q ss_pred hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022 81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 160 (287)
Q Consensus 81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk 160 (287)
+..+++++|.+++++|||+++..++..++++++.+++..+.+.+||+++|++||+.||++|+.++.+..||
T Consensus 110 ---------~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk 180 (236)
T cd00867 110 ---------DTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK 180 (236)
T ss_pred ---------CCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc
Confidence 23468899999999999999999999999999999888999999999999999999999999999999999
Q ss_pred cchhhhHhhhhhhhhHhhh
Q psy17022 161 PTAADLKLGLATAPVLFAC 179 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~ 179 (287)
.++|+.+||.|+|...+.
T Consensus 181 -~~~D~~~gr~tlp~~~~~ 198 (236)
T cd00867 181 -VGSDLREGRITLPVILAR 198 (236)
T ss_pred -cHHHHHcCCchHHHHHHH
Confidence 999999999999999883
No 14
>PRK10581 geranyltranstransferase; Provisional
Probab=99.74 E-value=1.3e-17 Score=152.08 Aligned_cols=141 Identities=22% Similarity=0.249 Sum_probs=102.5
Q ss_pred HHHHHHHHHHHhcCC--C-hHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhc
Q psy17022 109 LIANCVKASAMLGGA--D-DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML 185 (287)
Q Consensus 109 L~~~~~~~g~~la~~--~-~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~l 185 (287)
|+..++.+.+..... . ....+.+..+....|+.--+...++|+..............+..+||+.++..+++.|+++
T Consensus 117 L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gail 196 (299)
T PRK10581 117 LQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALS 196 (299)
T ss_pred HHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 355555554433221 1 1223445555554333222233333333332233455667789999999999999999999
Q ss_pred cCCCh-HHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022 186 GGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE 249 (287)
Q Consensus 186 a~~~~-~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~ 249 (287)
++.++ +..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||.|+|++++++.+.+
T Consensus 197 ag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~ 261 (299)
T PRK10581 197 AGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARK 261 (299)
T ss_pred cCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHH
Confidence 98764 57899999999999999999999999999999999999999999999999999987654
No 15
>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=99.63 E-value=7e-16 Score=138.28 Aligned_cols=86 Identities=36% Similarity=0.533 Sum_probs=80.7
Q ss_pred ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHH
Q psy17022 160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAP 239 (287)
Q Consensus 160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp 239 (287)
......+...|++.++..++..++++++++++..+.+.+||.++|++|||.||++|++++++.+||+.++|+++||+|||
T Consensus 138 ~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~ 217 (259)
T cd00685 138 EEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLP 217 (259)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHH
Confidence 34566779999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhh
Q psy17022 240 VLFACE 245 (287)
Q Consensus 240 ~i~al~ 245 (287)
++++++
T Consensus 218 ~~~~l~ 223 (259)
T cd00685 218 VLLALR 223 (259)
T ss_pred HHHHHH
Confidence 999983
No 16
>KOG0711|consensus
Probab=99.55 E-value=1.3e-14 Score=129.49 Aligned_cols=114 Identities=19% Similarity=0.177 Sum_probs=83.1
Q ss_pred HHHHHHHhhhhhhhhhhhccCccc--hhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCC-ChHHHHHHHHHHHHHhHHH
Q psy17022 67 ANCVKAIMTDLVQGEFMQLGSKET--ENERFAHYLTKTYRKTASL-IANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAF 142 (287)
Q Consensus 67 ~~~~~~~~~~~~~GQ~~d~~~~~~--~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~-~~~~~~~l~~~g~~~G~af 142 (287)
....+.++.....||+++....+. ..+|++.|-.|+..||+.+ |.+|+.++..++|. +.+.-.....+...+|..|
T Consensus 152 ~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~F 231 (347)
T KOG0711|consen 152 VELFHEVTFQTELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYF 231 (347)
T ss_pred HHHHHHHHHHHhhhccccCcccchhHhhhhHHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHH
Confidence 344556677778888887665443 3899999999999999999 99999999999986 4444566777777777777
Q ss_pred HhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhh
Q psy17022 143 QLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181 (287)
Q Consensus 143 Qi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ 181 (287)
|++||++|++++++.+||. |+||..+|+||++..|++.
T Consensus 232 QvQDDYLd~fgDp~vtgki-GtDIqDnKCsWlv~~al~~ 269 (347)
T KOG0711|consen 232 QVQDDYLDCFGDPEVTGKI-GTDIQDNKCSWLVVKALQR 269 (347)
T ss_pred hcchHHHHhcCChhhcCCC-CCccccCceeeehHHHHhh
Confidence 7777777777776666553 4555555555555554443
No 17
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=99.40 E-value=2.1e-12 Score=113.67 Aligned_cols=85 Identities=39% Similarity=0.566 Sum_probs=77.9
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~ 240 (287)
.....+..+|++.++..++..++.+++.+++..+.+..+|.++|++||+.||++|+.++.+.+|| .++|+++||+|+|.
T Consensus 116 ~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~ 194 (236)
T cd00867 116 DEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPV 194 (236)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHH
Confidence 34567788999999999999999999988889999999999999999999999999999999999 99999999999999
Q ss_pred HHhhhh
Q psy17022 241 LFACEK 246 (287)
Q Consensus 241 i~al~~ 246 (287)
+++.+.
T Consensus 195 ~~~~~~ 200 (236)
T cd00867 195 ILARER 200 (236)
T ss_pred HHHHHH
Confidence 999443
No 18
>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=99.26 E-value=3.1e-10 Score=98.03 Aligned_cols=80 Identities=34% Similarity=0.515 Sum_probs=62.4
Q ss_pred hhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCc
Q psy17022 76 DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS 155 (287)
Q Consensus 76 ~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~ 155 (287)
.++.||..|+.+.....+++++|+++++.|||.++...+..++.....+....+.+.+++.++|+++|+.||+.|+..+.
T Consensus 90 ~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~ 169 (243)
T cd00385 90 DLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDA 169 (243)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Confidence 34444444444433235788999999999999999999999888887776667888999999999999999999987653
No 19
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=98.98 E-value=3.5e-09 Score=97.86 Aligned_cols=125 Identities=26% Similarity=0.276 Sum_probs=85.0
Q ss_pred hhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCc
Q psy17022 148 LLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 227 (287)
Q Consensus 148 ~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~ 227 (287)
++|+.......-.....-++++||..++.+++..|+++++++++..+.+.+||+++|++|||+||++|++
T Consensus 151 ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~---------- 220 (322)
T COG0142 151 ALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDIT---------- 220 (322)
T ss_pred HHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCC----------
Confidence 3444443332334445667999999999999999999999999999999999999999999999999985
Q ss_pred hhhHhhCCChHHHHHhhhhCccchHHHH-hhcCCchhHHHHHHHHHhcChHHHHHHHHHh
Q psy17022 228 AADLKLGLATAPVLFACEKFPELNPMIM-RRFQEPGDVEKAFEFVHKSQGLEQTKFLARK 286 (287)
Q Consensus 228 g~Dl~~gk~Tlp~i~al~~~~~~~~~l~-~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~ 286 (287)
+..-..||.+---+.- .......+. -....+++. .++..+...+-++++..+.++
T Consensus 221 ~d~~~lGK~~g~Dl~~---gK~T~p~l~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 276 (322)
T COG0142 221 GDEEELGKPVGSDLKE---GKPTLPVLLALEKANEDQK-LLRILLEGGGEVEEALELLRK 276 (322)
T ss_pred CChHHhCCCcchHHHc---CCchHHHHHHHHcCchhhH-HHHHHhhcchHHHHHHHHHHH
Confidence 3345568866522221 222222222 223334444 667777676667777666554
No 20
>PLN02890 geranyl diphosphate synthase
Probab=98.80 E-value=8.9e-09 Score=97.86 Aligned_cols=55 Identities=40% Similarity=0.686 Sum_probs=51.0
Q ss_pred chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022 162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF 216 (287)
Q Consensus 162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~ 216 (287)
..-.+..+|+..++..+|+.|+++++++++..+.+.+||+++|++|||+||++||
T Consensus 259 ~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~ 313 (422)
T PLN02890 259 YYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDF 313 (422)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455688999999999999999999999999999999999999999999999997
No 21
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=98.73 E-value=1.8e-08 Score=93.18 Aligned_cols=57 Identities=32% Similarity=0.439 Sum_probs=52.7
Q ss_pred cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022 161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217 (287)
Q Consensus 161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~ 217 (287)
.....+..+|++.++..+|+.|+++++.+++..+.+.+||+++|++|||+||++|++
T Consensus 161 ~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~ 217 (323)
T PRK10888 161 ENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYS 217 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 345567899999999999999999999999999999999999999999999999986
No 22
>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=98.72 E-value=2.4e-08 Score=92.20 Aligned_cols=55 Identities=22% Similarity=0.469 Sum_probs=50.8
Q ss_pred hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022 163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217 (287)
Q Consensus 163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~ 217 (287)
.-++..+|++.++..+|+.|+++++.+++..+.+.+||.++|++|||+||++||+
T Consensus 162 Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~ 216 (319)
T TIGR02748 162 YLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFV 216 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3456789999999999999999999999999999999999999999999999994
No 23
>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=98.71 E-value=2.8e-07 Score=82.74 Aligned_cols=106 Identities=29% Similarity=0.337 Sum_probs=75.6
Q ss_pred HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022 110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA 188 (287)
Q Consensus 110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~ 188 (287)
+..++...+.+...++ .....+.......+...++. +..|+..............+.+.|++.++.++|+.|+++++.
T Consensus 85 l~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~-q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~ 163 (260)
T PF00348_consen 85 LALAFELLARLGHFDPSERVLRILELFIEALIEGEIG-QALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGA 163 (260)
T ss_dssp HHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceee-hhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccc
Confidence 5556666665552222 33333333333333333333 555555543344455667889999999999999999999999
Q ss_pred ChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022 189 DDKLSEVAFEYGRNLGIAFQLVDDLLDF 216 (287)
Q Consensus 189 ~~~~~~~l~~~g~~lG~afQi~DDlld~ 216 (287)
+++..+.+.+||.++|++||+.||++|+
T Consensus 164 ~~~~~~~l~~~g~~lG~afQi~DD~~d~ 191 (260)
T PF00348_consen 164 DEEQIEALREFGRHLGIAFQIRDDLLDL 191 (260)
T ss_dssp GHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhhc
Confidence 9999999999999999999999999997
No 24
>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=98.71 E-value=2e-08 Score=92.84 Aligned_cols=58 Identities=29% Similarity=0.508 Sum_probs=53.1
Q ss_pred ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022 160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217 (287)
Q Consensus 160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~ 217 (287)
....-.+..+|+..++..+|+.|+++++.+++..+.+.+||.++|++||++||++|++
T Consensus 163 ~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~ 220 (322)
T TIGR02749 163 LEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFT 220 (322)
T ss_pred HHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3445667899999999999999999999999999999999999999999999999985
No 25
>PLN02857 octaprenyl-diphosphate synthase
Probab=98.63 E-value=5.9e-08 Score=92.27 Aligned_cols=58 Identities=33% Similarity=0.543 Sum_probs=53.5
Q ss_pred ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022 160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217 (287)
Q Consensus 160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~ 217 (287)
.....++..+|+..++..+|+.|+++++++++..+.+.+||+++|++|||+||++|++
T Consensus 257 ~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~ 314 (416)
T PLN02857 257 LDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFT 314 (416)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3456677899999999999999999999999999999999999999999999999986
No 26
>KOG0776|consensus
Probab=98.57 E-value=3.2e-07 Score=85.20 Aligned_cols=165 Identities=24% Similarity=0.224 Sum_probs=108.4
Q ss_pred HhhhhHHHHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhh
Q psy17022 101 KTYRKTASLIANCVKASAMLGGADD--KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 178 (287)
Q Consensus 101 ~~~~KTg~L~~~~~~~g~~la~~~~--~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a 178 (287)
|.-+-=..|++.++...+.+.+... -....+.++++-.|.-.+.-.--+|+.. .|-....-++..|+..++..+
T Consensus 173 ~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~----~~~e~~e~~~~~KTAsLla~S 248 (384)
T KOG0776|consen 173 MAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVAGEGLDLDD----VGLEYLEFKTLLKTASLLAKS 248 (384)
T ss_pred hhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhcccccccccccCC----cchHHHHHHHHHHHHHHHHHH
Confidence 3334445567788877777776522 2346788888888776666541122221 455667788999999999999
Q ss_pred hhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHh-hhhCccchHHHHhh
Q psy17022 179 CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA-CEKFPELNPMIMRR 257 (287)
Q Consensus 179 ~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~a-l~~~~~~~~~l~~~ 257 (287)
|+.|+++++.+++.++.+++||+++|++||++||++|+. .+...-||...--+.+ .-..|. +-..
T Consensus 249 c~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildft----------kss~elGK~ag~Dl~~g~lT~P~----Lf~~ 314 (384)
T KOG0776|consen 249 CVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFT----------KSSEELGKTAGKDLKAGKLTAPV----LFAL 314 (384)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcc----------cchhhcCcchhhhhhhccccccc----hhhh
Confidence 999999999999999999999999999999999999974 2344446644332222 112232 2222
Q ss_pred cCCchhHHHHHHHHHhcChHHHHHHH
Q psy17022 258 FQEPGDVEKAFEFVHKSQGLEQTKFL 283 (287)
Q Consensus 258 ~~~~~~~~~~~~~i~~~g~~e~a~~~ 283 (287)
...++-.+.+..-..+.+-.+.+.+.
T Consensus 315 e~~pe~~e~l~~~~~e~~~~~~~~k~ 340 (384)
T KOG0776|consen 315 EKSPELREKLEREFSEPLDGFDADKA 340 (384)
T ss_pred hhChHHHHHHHHhccccchhhHHHHH
Confidence 23444455555555555555555544
No 27
>CHL00151 preA prenyl transferase; Reviewed
Probab=98.44 E-value=1.3e-06 Score=80.91 Aligned_cols=53 Identities=32% Similarity=0.612 Sum_probs=49.6
Q ss_pred hhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022 165 DLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217 (287)
Q Consensus 165 Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~ 217 (287)
.+..+|++.++..+|+.|+++++.+++..+.+.+||.++|++|||+||++|++
T Consensus 169 ~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~ 221 (323)
T CHL00151 169 EKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDIT 221 (323)
T ss_pred HHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34589999999999999999999999999999999999999999999999985
No 28
>KOG0711|consensus
Probab=95.42 E-value=0.009 Score=54.36 Aligned_cols=116 Identities=18% Similarity=0.140 Sum_probs=91.2
Q ss_pred chhhhHhhhhhhhhH-hhhhhhhhccC-CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHH
Q psy17022 162 TAADLKLGLATAPVL-FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAP 239 (287)
Q Consensus 162 ~~~Di~~~K~t~~~l-~a~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp 239 (287)
..+-|.+.|+++-.. +....|-.+++ ...+.+...+++...+|.-||++||++|.++|++.+||. |+||+++|+||.
T Consensus 184 ~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgki-GtDIqDnKCsWl 262 (347)
T KOG0711|consen 184 KYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGKI-GTDIQDNKCSWL 262 (347)
T ss_pred HHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCCC-CCccccCceeee
Confidence 345677788776544 34444555555 566778889999999999999999999999999999997 799999999999
Q ss_pred HHHhhhhC-ccchHHHHhhcC--CchhHHHHHHHHHhcChHH
Q psy17022 240 VLFACEKF-PELNPMIMRRFQ--EPGDVEKAFEFVHKSQGLE 278 (287)
Q Consensus 240 ~i~al~~~-~~~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e 278 (287)
+..|++.+ ++..+++..++. +++.+++++.+..+.+...
T Consensus 263 v~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~ 304 (347)
T KOG0711|consen 263 VVKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPA 304 (347)
T ss_pred hHHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHH
Confidence 99999986 556677766554 5677888888877776543
No 29
>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=94.35 E-value=0.25 Score=42.95 Aligned_cols=68 Identities=18% Similarity=0.288 Sum_probs=51.7
Q ss_pred CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHH
Q psy17022 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVK 71 (287)
Q Consensus 1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~ 71 (287)
|+|||.=+.-+.+||+.++..+++.||+++..+++....-.... ..+.++|+..+..=.+.++...+.
T Consensus 74 LAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE~K~~ly~~~---~~~~e~~~~~~~~ies~l~~~~~~ 141 (212)
T PF07307_consen 74 LAGDYYSGLYYQLLAESGDISLIRALSEAIKEINELKMSLYQKK---KETAEEYLESVVTIESALFQSFAE 141 (212)
T ss_pred hhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhh---hCCHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999987644222 235577776655444444444443
No 30
>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=89.36 E-value=14 Score=34.42 Aligned_cols=160 Identities=11% Similarity=0.107 Sum_probs=89.0
Q ss_pred HHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhh
Q psy17022 66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLV 145 (287)
Q Consensus 66 ~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~ 145 (287)
+...+..++..|+.|...|+....-...|.++|..=+++=.|.-=.+.+.+-+. ++..........+++..+|+++|+.
T Consensus 102 ~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQlT 180 (336)
T TIGR01559 102 YQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQKT 180 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHHHH
Confidence 344445567788899988887643212566666665655555543333333222 2222211223467899999999999
Q ss_pred hhhhhhccCccccCccchhhhHhhhhhhhhHhhhh----hhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhcc
Q psy17022 146 DDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE----KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD 221 (287)
Q Consensus 146 dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~----~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~ 221 (287)
|=+.|+ ++|+..|..=+|-..--+ ......+...+.. ..-...-+..+...+++.+.|+..-.
T Consensus 181 NIlRDv-----------~ED~~~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~--~~~l~~lv~~A~~~~~~al~yl~~l~ 247 (336)
T TIGR01559 181 NIIRDY-----------LEDINEGRMFWPREIWSKYAKKLGDFKKPENSDKA--LQCLNELVTNALHHATDCLTYLSRLR 247 (336)
T ss_pred HHHHHH-----------HhHHhCCCCCCCHHHHHHcCCCHHHhcCccccHHH--HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 999886 455666666666552221 1222222111111 11122345556677788888876431
Q ss_pred ccCCCchhhHhhCCChHHHHHhhhh
Q psy17022 222 AMGKPTAADLKLGLATAPVLFACEK 246 (287)
Q Consensus 222 ~~gK~~g~Dl~~gk~Tlp~i~al~~ 246 (287)
. + + + ..-+-+|.++|+..
T Consensus 248 ~---~-~--~-~~fcaip~~mAi~T 265 (336)
T TIGR01559 248 D---Q-S--I-FNFCAIPQVMAIAT 265 (336)
T ss_pred C---c-c--h-hHHHHHHHHHHHHH
Confidence 1 1 1 1 23567899999876
No 31
>PLN02632 phytoene synthase
Probab=84.74 E-value=3.3 Score=38.57 Aligned_cols=90 Identities=22% Similarity=0.250 Sum_probs=63.4
Q ss_pred HhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022 73 IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 152 (287)
Q Consensus 73 ~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~ 152 (287)
...+|+.|..+|+... .-.|++++..-++.=.|.+..+++.+... ...+....+.+...+.++|+++|+.|=+.|+
T Consensus 141 ~~~~li~g~~~Dl~~~--~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~-~~~~~~~~~~~~~~A~~lG~AlQltNILRDv- 216 (334)
T PLN02632 141 PFRDMIEGMRMDLVKS--RYENFDELYLYCYYVAGTVGLMSVPVMGI-APESKASTESVYNAALALGIANQLTNILRDV- 216 (334)
T ss_pred HHHHHHHHHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHHhCC-CCccccchHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 3578999999999753 45577888887888888887666655221 1111223355678899999999999999887
Q ss_pred cCccccCccchhhhHhhhhhhhhH
Q psy17022 153 SSSDAMGKPTAADLKLGLATAPVL 176 (287)
Q Consensus 153 ~~~~~~Gk~~~~Di~~~K~t~~~l 176 (287)
++|...|..-+|.-
T Consensus 217 ----------~eD~~~GRvYLP~e 230 (334)
T PLN02632 217 ----------GEDARRGRVYLPQD 230 (334)
T ss_pred ----------HHHHhCCceeCCHH
Confidence 56667777666654
No 32
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=84.16 E-value=11 Score=33.49 Aligned_cols=73 Identities=27% Similarity=0.257 Sum_probs=54.9
Q ss_pred HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022 72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF 151 (287)
Q Consensus 72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~ 151 (287)
....+|+.|...|+... ...|++++..-++.=+|++..+.+.+...- .+. .....++.++|.++|+.|=+.|+
T Consensus 91 ~~l~~li~~~~~dl~~~--~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~ 163 (267)
T PF00494_consen 91 EPLLELIDGMEMDLEFT--PYETFADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI 163 (267)
T ss_dssp HHHHHHHHHHHHCTT-S----SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHHhcccccCC--CCCCHHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh
Confidence 45779999999999863 356888999989999999887777765542 111 45778889999999999888886
No 33
>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=82.72 E-value=4.2 Score=36.41 Aligned_cols=86 Identities=23% Similarity=0.261 Sum_probs=63.3
Q ss_pred HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022 72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF 151 (287)
Q Consensus 72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~ 151 (287)
.-..+|+.|+..|+... ...|.+++..-++.=.|++..+++.+- +..+ +....++.++|.++|+.|=+.|+
T Consensus 85 ~~~~~li~g~~~Dl~~~--~~~t~~dL~~Y~~~vAg~vg~l~~~ll---g~~~----~~~~~~a~~lG~AlqltnilRdv 155 (266)
T TIGR03465 85 EDFLEVIDGMEMDLEQT--RYPDFAELDLYCDRVAGAVGRLSARIF---GATD----ARTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred HHHHHHHHHHHHHcCCC--CCCCHHHHHHHHHHhHHHHHHHHHHHh---CCCC----hhHHHHHHHHHHHHHHHHHHHHh
Confidence 33678999999999764 456888888888888888877766653 2222 23567899999999999999887
Q ss_pred ccCccccCccchhhhHhhhhhhhhHh
Q psy17022 152 ISSSDAMGKPTAADLKLGLATAPVLF 177 (287)
Q Consensus 152 ~~~~~~~Gk~~~~Di~~~K~t~~~l~ 177 (287)
+.|+..|..-+|.-.
T Consensus 156 -----------~eD~~~gR~ylP~~~ 170 (266)
T TIGR03465 156 -----------GEDARRGRIYLPAEE 170 (266)
T ss_pred -----------HHHHhCCCeecCHHH
Confidence 456666776666543
No 34
>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=81.81 E-value=3.9 Score=36.52 Aligned_cols=86 Identities=26% Similarity=0.297 Sum_probs=59.6
Q ss_pred HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022 72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF 151 (287)
Q Consensus 72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~ 151 (287)
....+|+.|...|+... .-.+++++..-++.=.|+...+++.+. +... .+....++.++|+++|+.|=+.|+
T Consensus 93 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i~---~~~~---~~~~~~~A~~lG~AlqltnilRdv 164 (265)
T cd00683 93 EPFRDLLAGMAMDLDKR--RYETLDELDEYCYYVAGVVGLMLLRVF---GASS---DEAALERARALGLALQLTNILRDV 164 (265)
T ss_pred HHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHHhHHHHHHHHHHHh---CCCC---ChHHHHHHHHHHHHHHHHHHHHHH
Confidence 44678999999999853 456777777777777777766555443 2211 133568899999999999999887
Q ss_pred ccCccccCccchhhhHhhhhhhhhH
Q psy17022 152 ISSSDAMGKPTAADLKLGLATAPVL 176 (287)
Q Consensus 152 ~~~~~~~Gk~~~~Di~~~K~t~~~l 176 (287)
- .|...|..-+|.-
T Consensus 165 ~-----------eD~~~gR~YlP~d 178 (265)
T cd00683 165 G-----------EDARRGRIYLPRE 178 (265)
T ss_pred H-----------HHHccCCCcCCHH
Confidence 4 4555555555543
No 35
>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=81.22 E-value=2.5 Score=35.69 Aligned_cols=77 Identities=34% Similarity=0.385 Sum_probs=59.9
Q ss_pred hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHH
Q psy17022 163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242 (287)
Q Consensus 163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~ 242 (287)
...+...|+..++...+..+......+......+..++..+|.++|+.||+.|+..+.... +|+.|+|.++
T Consensus 112 y~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~---------~~~~~l~~~~ 182 (243)
T cd00385 112 YLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLY 182 (243)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh---------CCchHHHHHH
Confidence 4455677776777777777666665556677889999999999999999999998764321 4899999999
Q ss_pred hhhhCc
Q psy17022 243 ACEKFP 248 (287)
Q Consensus 243 al~~~~ 248 (287)
..+...
T Consensus 183 ~~~~~~ 188 (243)
T cd00385 183 ALEYGV 188 (243)
T ss_pred HHHhCC
Confidence 988754
No 36
>KOG0777|consensus
Probab=77.96 E-value=16 Score=32.30 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=15.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHH
Q psy17022 52 AHYLTKTYRKTASLIANCVKA 72 (287)
Q Consensus 52 ~~~~~~~~~kt~~l~~~~~~~ 72 (287)
++|..++.+||+.||..+++-
T Consensus 153 e~Yk~Mv~~KTGGLF~La~rL 173 (322)
T KOG0777|consen 153 EMYKNMVMNKTGGLFRLALRL 173 (322)
T ss_pred HHHHHHHHHhcccHHHHHHHH
Confidence 567777888888887777764
No 37
>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=75.52 E-value=13 Score=33.22 Aligned_cols=84 Identities=15% Similarity=0.134 Sum_probs=59.1
Q ss_pred HhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022 73 IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 152 (287)
Q Consensus 73 ~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~ 152 (287)
-..+|+.|...|+... ...|++++..-++.-.|+...+++.+. +..+++ ...++.++|.++|+.|=+.|+
T Consensus 87 ~~~~li~~~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i~---g~~~~~----~~~~A~~lG~AlQltniLRDl- 156 (266)
T TIGR03464 87 PFLDLLDAFRQDVVVT--RYATWAELLDYCRYSANPVGRLVLDLY---GASDPE----NVALSDAICTALQLINFWQDV- 156 (266)
T ss_pred HHHHHHHHHHHhccCC--CCCCHHHHHHHHHHhHHHHHHHHHHHc---CCCChh----HHHHHHHHHHHHHHHHHHHhh-
Confidence 4568899999998753 356778888878888888877666543 323322 246899999999999999886
Q ss_pred cCccccCccchhhhHhhhhhhhhH
Q psy17022 153 SSSDAMGKPTAADLKLGLATAPVL 176 (287)
Q Consensus 153 ~~~~~~Gk~~~~Di~~~K~t~~~l 176 (287)
++|...|..-.|.-
T Consensus 157 ----------~eD~~~gR~YLP~~ 170 (266)
T TIGR03464 157 ----------GVDYRKGRVYLPRD 170 (266)
T ss_pred ----------HHHHhcCCccCCHH
Confidence 45555666655544
No 38
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=50.50 E-value=20 Score=26.40 Aligned_cols=21 Identities=33% Similarity=0.499 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHhHHHHhhh
Q psy17022 126 KLSEVAFEYGRNLGIAFQLVD 146 (287)
Q Consensus 126 ~~~~~l~~~g~~~G~afQi~d 146 (287)
...+.+-+||..+|-.||++=
T Consensus 16 t~~e~llRYGLf~GAIFQliC 36 (85)
T PF06783_consen 16 TFFENLLRYGLFVGAIFQLIC 36 (85)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 446789999999999999863
No 39
>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=42.27 E-value=2.5e+02 Score=25.05 Aligned_cols=64 Identities=13% Similarity=-0.020 Sum_probs=40.4
Q ss_pred hhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHH--HHHHHHHHHHhHHHHhhhhhhhhccCc
Q psy17022 92 NERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLS--EVAFEYGRNLGIAFQLVDDLLDFISSS 155 (287)
Q Consensus 92 ~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~--~~l~~~g~~~G~afQi~dD~~d~~~~~ 155 (287)
.++.++|+.+-..-.|..+.+++.-.+.--..++... ..+.++-...+...-+.||+..+..+.
T Consensus 157 ~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~ 222 (303)
T cd00687 157 VPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMRALEALASDAIALVNDIYSYEKEI 222 (303)
T ss_pred CcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 5899999986666556554333221111112233333 347788888999999999999886543
No 40
>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=39.57 E-value=1.3e+02 Score=26.60 Aligned_cols=97 Identities=21% Similarity=0.230 Sum_probs=52.8
Q ss_pred HHHHHHHHHHhHHHHhhhhhhhhccCc-cccCccchhh---hHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhc
Q psy17022 129 EVAFEYGRNLGIAFQLVDDLLDFISSS-DAMGKPTAAD---LKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLG 204 (287)
Q Consensus 129 ~~l~~~g~~~G~afQi~dD~~d~~~~~-~~~Gk~~~~D---i~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG 204 (287)
..+.......++-.+...++++-...+ +...-....| +..+-.+.+..+.+.. ++..+ ......+.++|
T Consensus 71 ~al~~~~~~~~l~~~~~~~li~g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~l---lg~~~----~~~~~~a~~lG 143 (266)
T TIGR03465 71 RALADPARRFDLPQEDFLEVIDGMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARI---FGATD----ARTLEYAHHLG 143 (266)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHH---hCCCC----hhHHHHHHHHH
Confidence 444444455555555566655544311 1111122222 3333333333333332 22222 23456788999
Q ss_pred hhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHh
Q psy17022 205 IAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 243 (287)
Q Consensus 205 ~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~a 243 (287)
.++|+.+=+.|+ +.|+..|++.+|.=..
T Consensus 144 ~AlqltnilRdv-----------~eD~~~gR~ylP~~~l 171 (266)
T TIGR03465 144 RALQLTNILRDV-----------GEDARRGRIYLPAEEL 171 (266)
T ss_pred HHHHHHHHHHHh-----------HHHHhCCCeecCHHHH
Confidence 999999988886 4678888988887544
No 41
>PLN02632 phytoene synthase
Probab=39.31 E-value=1.3e+02 Score=28.04 Aligned_cols=39 Identities=31% Similarity=0.284 Sum_probs=31.4
Q ss_pred HHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHh
Q psy17022 194 EVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 243 (287)
Q Consensus 194 ~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~a 243 (287)
+.+...+.++|.++|+.+=+.|+ +.|+..|++-+|.=..
T Consensus 194 ~~~~~~A~~lG~AlQltNILRDv-----------~eD~~~GRvYLP~e~L 232 (334)
T PLN02632 194 ESVYNAALALGIANQLTNILRDV-----------GEDARRGRVYLPQDEL 232 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----------HHHHhCCceeCCHHHH
Confidence 44567788999999999998887 4688889988886543
No 42
>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=30.06 E-value=2.4e+02 Score=25.04 Aligned_cols=38 Identities=18% Similarity=0.165 Sum_probs=29.4
Q ss_pred HHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhh
Q psy17022 197 FEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 245 (287)
Q Consensus 197 ~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~ 245 (287)
..++.++|.++|+.+=+.|+ +.|...|++.+|.=..-+
T Consensus 137 ~~~A~~lG~AlQltniLRDl-----------~eD~~~gR~YLP~~~l~~ 174 (266)
T TIGR03464 137 VALSDAICTALQLINFWQDV-----------GVDYRKGRVYLPRDDLAR 174 (266)
T ss_pred HHHHHHHHHHHHHHHHHHhh-----------HHHHhcCCccCCHHHHHH
Confidence 35688899999999988885 467788898888655433
No 43
>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=27.61 E-value=56 Score=28.99 Aligned_cols=40 Identities=33% Similarity=0.370 Sum_probs=31.4
Q ss_pred HHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhh
Q psy17022 195 VAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 245 (287)
Q Consensus 195 ~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~ 245 (287)
....++.++|.++|+.+=+.|. +.|+..|++.+|.=..-+
T Consensus 143 ~~~~~A~~lG~AlqltnilRdv-----------~eD~~~gR~YlP~d~l~~ 182 (265)
T cd00683 143 AALERARALGLALQLTNILRDV-----------GEDARRGRIYLPREELAR 182 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----------HHHHccCCCcCCHHHHHH
Confidence 3557889999999999998887 467788888888655433
No 44
>PF11676 DUF3272: Protein of unknown function (DUF3272); InterPro: IPR021690 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=22.17 E-value=92 Score=21.51 Aligned_cols=30 Identities=23% Similarity=0.377 Sum_probs=18.2
Q ss_pred CchhHHHHH--HHHHHhcCCChHHHHHHHHHH
Q psy17022 1 MAGDFILAV--ACQMISRLRDNDVTLTLSQIM 30 (287)
Q Consensus 1 l~GD~l~~~--a~~~l~~~~~~~~~~~~s~~~ 30 (287)
++|||+++. |+.++-++...-++..+.+++
T Consensus 24 ~~g~y~~A~Fw~~Ll~Rnl~~aY~v~K~~~~i 55 (61)
T PF11676_consen 24 MSGDYFFAFFWGFLLFRNLRVAYVVDKFVKEI 55 (61)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 579999984 556665555555555444444
No 45
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=21.64 E-value=6.2e+02 Score=23.02 Aligned_cols=103 Identities=20% Similarity=0.199 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHhHHHHhhhhhhhhccCccc-cCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhc
Q psy17022 126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLG 204 (287)
Q Consensus 126 ~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~-~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG 204 (287)
.....+.+.....++-.++..++.|-...+-. ..-...+++..--.......++-.+.+++... ..........+|
T Consensus 86 pv~~al~~~~~~~~~~~~~~~~~~da~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~---~~~~~~~a~~lG 162 (288)
T COG1562 86 PVLAALVEVARRFGLPREAFPALIDAMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDK---DAATRAYARGLG 162 (288)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCccc---chhhHHHHHHHH
Confidence 44456666677777777777777665432211 11111122222111111112222223333221 222333444599
Q ss_pred hhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHH
Q psy17022 205 IAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242 (287)
Q Consensus 205 ~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~ 242 (287)
.++|..+=+.|+ +.|.+.|++=+|.=.
T Consensus 163 ~A~QlvNilRdv-----------~eD~~~GrvylP~e~ 189 (288)
T COG1562 163 LALQLVNILRDV-----------GEDRRRGRVYLPAEE 189 (288)
T ss_pred HHHHHHHHHHHh-----------HHHHhCCcccCCHHH
Confidence 999999999886 578888998888543
No 46
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=20.25 E-value=3.9e+02 Score=24.93 Aligned_cols=46 Identities=20% Similarity=0.368 Sum_probs=30.9
Q ss_pred hhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCC
Q psy17022 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP 226 (287)
Q Consensus 177 ~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~ 226 (287)
+.|+.|++.+-.+......+.+| =++||.+.|+||-+.|....--|
T Consensus 35 FHceGgsi~al~~~~~~~~~i~f----IVAyQTIsDYLDNLcDrs~~~d~ 80 (330)
T PF10776_consen 35 FHCEGGSIYALLPGENRDELIRF----IVAYQTISDYLDNLCDRSTSLDP 80 (330)
T ss_pred cCCcchhhhhhcCCccHhhHHHH----HHHHHHHHHHHHhhhhccCCCCh
Confidence 45666666655444444444433 47899999999999997765554
No 47
>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=20.14 E-value=2.3e+02 Score=26.45 Aligned_cols=36 Identities=17% Similarity=0.280 Sum_probs=30.1
Q ss_pred HHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHH
Q psy17022 196 AFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242 (287)
Q Consensus 196 l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~ 242 (287)
...++..+|+++|+.+=+.|+. .|+++|++=||.=.
T Consensus 166 ~~~~A~~lG~aLQlTNIlRDv~-----------ED~~~GR~YlP~e~ 201 (336)
T TIGR01559 166 SEALSNSMGLFLQKTNIIRDYL-----------EDINEGRMFWPREI 201 (336)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH-----------hHHhCCCCCCCHHH
Confidence 4578999999999999999874 67888999898663
Done!