Query 029266
Match_columns 196
No_of_seqs 110 out of 1186
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 10:08:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029266.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029266hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02749 prenyl_cyano solanes 100.0 8.2E-45 1.8E-49 306.9 21.9 190 1-196 106-322 (322)
2 PLN02890 geranyl diphosphate s 100.0 1.4E-44 3.1E-49 312.7 21.9 196 1-196 200-422 (422)
3 PLN02857 octaprenyl-diphosphat 100.0 1.3E-44 2.8E-49 313.0 20.0 190 1-196 200-416 (416)
4 CHL00151 preA prenyl transfera 100.0 3.3E-44 7.2E-49 303.5 20.5 190 1-196 107-323 (323)
5 TIGR02748 GerC3_HepT heptapren 100.0 1.5E-43 3.2E-48 299.0 21.2 188 1-196 102-319 (319)
6 PRK10888 octaprenyl diphosphat 100.0 6.8E-43 1.5E-47 295.2 21.9 189 1-196 103-323 (323)
7 COG0142 IspA Geranylgeranyl py 100.0 1.2E-41 2.5E-46 287.7 20.4 190 1-196 105-322 (322)
8 KOG0776 Geranylgeranyl pyropho 100.0 1.4E-38 3E-43 268.3 18.3 185 1-194 169-384 (384)
9 PRK10581 geranyltranstransfera 100.0 2.9E-37 6.2E-42 258.3 17.5 158 1-196 105-299 (299)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 2.9E-33 6.4E-38 230.2 17.1 152 1-194 78-259 (259)
11 PF00348 polyprenyl_synt: Poly 100.0 4.1E-34 9E-39 235.4 9.7 154 1-155 72-259 (260)
12 cd00867 Trans_IPPS Trans-Isopr 99.9 9.4E-26 2E-30 182.5 16.7 152 1-194 58-236 (236)
13 KOG0777 Geranylgeranyl pyropho 99.9 2.9E-24 6.4E-29 169.5 14.9 169 1-173 94-293 (322)
14 KOG0711 Polyprenyl synthetase 99.8 1.5E-20 3.4E-25 154.4 12.0 161 31-196 182-347 (347)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.6 4.1E-13 8.8E-18 106.5 18.8 148 1-172 52-226 (243)
16 PF00494 SQS_PSY: Squalene/phy 95.4 0.26 5.6E-06 40.4 10.5 117 31-173 112-229 (267)
17 TIGR03465 HpnD squalene syntha 95.0 0.59 1.3E-05 38.5 11.6 113 31-172 106-218 (266)
18 PLN02632 phytoene synthase 94.5 0.53 1.2E-05 40.3 10.6 118 31-173 161-280 (334)
19 TIGR03464 HpnC squalene syntha 94.3 1.3 2.9E-05 36.5 12.2 114 31-173 107-220 (266)
20 cd00683 Trans_IPPS_HH Trans-Is 94.3 0.61 1.3E-05 38.3 10.1 114 31-172 114-227 (265)
21 TIGR01559 squal_synth farnesyl 91.9 1.9 4.2E-05 37.0 9.8 86 66-173 165-250 (336)
22 PF07307 HEPPP_synt_1: Heptapr 90.6 1 2.2E-05 36.2 6.4 41 5-45 71-114 (212)
23 COG1562 ERG9 Phytoene/squalene 77.3 27 0.00058 29.4 9.2 86 66-173 153-238 (288)
24 TIGR02748 GerC3_HepT heptapren 71.9 61 0.0013 27.5 10.4 47 55-113 56-102 (319)
25 PRK10888 octaprenyl diphosphat 67.7 59 0.0013 27.7 9.3 49 53-113 55-103 (323)
26 PF06783 UPF0239: Uncharacteri 65.7 7.6 0.00016 26.4 2.8 21 61-81 15-35 (85)
27 PF00348 polyprenyl_synt: Poly 57.7 75 0.0016 25.8 8.0 51 51-113 22-72 (260)
28 cd00685 Trans_IPPS_HT Trans-Is 56.0 1.1E+02 0.0024 24.8 10.0 45 57-113 33-78 (259)
29 PRK12872 ubiA prenyltransferas 54.6 43 0.00094 27.5 6.1 34 73-117 172-205 (285)
30 PRK12884 ubiA prenyltransferas 54.4 32 0.0007 28.3 5.4 59 47-116 140-198 (279)
31 PHA02130 hypothetical protein 50.1 6.8 0.00015 25.3 0.5 34 80-113 30-65 (81)
32 PRK13105 ubiA prenyltransferas 49.9 97 0.0021 25.9 7.5 34 74-118 172-205 (282)
33 cd00687 Terpene_cyclase_nonpla 47.9 1.6E+02 0.0034 24.3 9.6 58 31-90 160-221 (303)
34 TIGR02749 prenyl_cyano solanes 43.1 2.1E+02 0.0045 24.3 9.5 36 66-113 71-106 (322)
35 PLN00012 chlorophyll synthetas 40.3 48 0.001 29.0 4.4 33 73-116 263-295 (375)
36 PF01040 UbiA: UbiA prenyltran 39.0 79 0.0017 25.1 5.3 55 48-113 131-186 (257)
37 PRK12878 ubiA 4-hydroxybenzoat 38.4 1.1E+02 0.0023 26.0 6.1 79 31-110 30-119 (314)
38 PF05546 She9_MDM33: She9 / Md 35.9 2.3E+02 0.005 22.7 7.3 105 64-169 8-125 (207)
39 KOG2802 Membrane protein HUEL 35.6 2E+02 0.0044 25.4 7.2 52 40-96 369-422 (503)
40 PF04716 ETC_C1_NDUFA5: ETC co 35.1 1.1E+02 0.0025 19.0 4.5 35 152-191 4-38 (57)
41 CHL00151 preA prenyl transfera 34.2 2.9E+02 0.0063 23.4 8.6 35 67-113 73-107 (323)
42 PRK13591 ubiA prenyltransferas 33.0 68 0.0015 27.3 4.0 30 77-117 194-223 (307)
43 COG2096 cob(I)alamin adenosylt 32.7 1.6E+02 0.0035 23.1 5.8 41 147-192 121-161 (184)
44 PRK12882 ubiA prenyltransferas 31.8 2.6E+02 0.0057 22.8 7.4 33 74-117 169-201 (276)
45 PRK12869 ubiA protoheme IX far 31.4 3E+02 0.0065 22.7 9.1 76 32-108 3-81 (279)
46 PRK09573 (S)-2,3-di-O-geranylg 30.1 3.1E+02 0.0067 22.5 7.6 17 100-116 181-197 (279)
47 PRK13362 protoheme IX farnesyl 29.6 2.3E+02 0.0051 23.8 6.8 76 31-110 13-94 (306)
48 PRK06080 1,4-dihydroxy-2-napht 29.5 3.2E+02 0.007 22.5 8.3 82 32-113 4-90 (293)
49 PRK13595 ubiA prenyltransferas 29.0 1.8E+02 0.004 24.5 5.9 59 46-117 155-213 (292)
50 TIGR01473 cyoE_ctaB protoheme 28.8 1.6E+02 0.0035 24.2 5.7 73 33-109 2-81 (280)
51 PRK13387 1,4-dihydroxy-2-napht 26.4 1.5E+02 0.0033 25.1 5.1 60 31-90 3-67 (317)
52 PRK12871 ubiA prenyltransferas 24.7 3.8E+02 0.0082 22.5 7.1 58 31-91 5-70 (297)
53 TIGR02056 ChlG chlorophyll syn 24.2 1.8E+02 0.0039 24.4 5.2 60 43-113 164-223 (306)
54 PF11676 DUF3272: Protein of u 23.7 1E+02 0.0023 19.6 2.7 18 4-21 20-37 (61)
55 PF06304 DUF1048: Protein of u 23.6 42 0.00092 23.7 1.0 34 64-97 28-66 (103)
56 PRK09573 (S)-2,3-di-O-geranylg 23.5 3.9E+02 0.0084 21.9 7.0 77 31-110 3-82 (279)
57 PRK12884 ubiA prenyltransferas 23.3 4.1E+02 0.0089 21.6 8.3 79 31-112 4-84 (279)
58 PRK04375 protoheme IX farnesyl 23.1 4.4E+02 0.0095 21.9 8.9 75 31-109 10-90 (296)
59 KOG3330 Transport protein part 22.8 46 0.001 25.5 1.2 37 60-104 39-75 (183)
60 PRK12392 bacteriochlorophyll c 21.8 4.9E+02 0.011 22.2 7.3 74 31-108 12-93 (331)
61 COG0382 UbiA 4-hydroxybenzoate 21.3 3.6E+02 0.0077 22.3 6.3 65 43-118 147-212 (289)
62 KOG2114 Vacuolar assembly/sort 21.2 4.8E+02 0.01 25.6 7.5 68 119-192 448-533 (933)
63 cd00868 Terpene_cyclase_C1 Ter 21.2 4.3E+02 0.0094 21.1 11.9 59 31-90 153-215 (284)
64 COG0571 Rnc dsRNA-specific rib 21.0 4.6E+02 0.01 21.3 8.7 49 136-189 124-172 (235)
No 1
>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=8.2e-45 Score=306.86 Aligned_cols=190 Identities=42% Similarity=0.662 Sum_probs=179.6
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++||++||||++.|++.+++.++++++ +++|++|+.+|||+||++||++|
T Consensus 106 ~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~g 185 (322)
T TIGR02749 106 FGTRVAVLAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAA 185 (322)
T ss_pred hCcHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHH
Confidence 899999999999999999999887654322 67899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
++++|++++.++.+.+||.++|+||||+||++|++++++.+|||.++||++||+|+|++++++..|++.+++.+...+++
T Consensus 186 a~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~ 265 (322)
T TIGR02749 186 AVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMKGNLTAPVLFALEEEPKLSELIEREFSQKG 265 (322)
T ss_pred HHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChhHHHhCCCchHHHHHHHhcChHHHHHHHhccCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999988888899988888889
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
+++++.+++.++|+++++++.++++.++|++.|+.+|+++ .++.|..|++++++|++
T Consensus 266 ~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~ 322 (322)
T TIGR02749 266 DLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSP------PREALKELVHFVLSRLY 322 (322)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999987 89999999999999975
No 2
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=1.4e-44 Score=312.66 Aligned_cols=196 Identities=72% Similarity=1.074 Sum_probs=180.1
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++||++||||++.|+..+++.++++++ +++|++++.+|||+||++||++|
T Consensus 200 ~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~g 279 (422)
T PLN02890 200 MGNKLSVLAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAV 279 (422)
T ss_pred cChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHH
Confidence 899999999999999999999887765432 67899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
|+++|++++..+.+.+||+++|+||||+||++||+++++.+||+.++||++||+|+|++++++..+++..++.+...+++
T Consensus 280 Ailaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~ 359 (422)
T PLN02890 280 AILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPA 359 (422)
T ss_pred HHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999888888899988888889
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
+++++++++.++|++++++..+++|.++|.+.|+.+|.++.+.--..++.|..|++++++|+|
T Consensus 360 ~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~lp~s~~~~~~~~r~~L~~L~~~vi~R~k 422 (422)
T PLN02890 360 NVDIALEYLGKSRGIQRTRELAREHANLAAAAIESLPETDDEDVLTSRRALIDLTERVITRNK 422 (422)
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999987511000158999999999999986
No 3
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=1.3e-44 Score=312.98 Aligned_cols=190 Identities=39% Similarity=0.636 Sum_probs=180.2
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++|||+||||+++|++.+++.++++++ +++|++++.+|||+||++||++|
T Consensus 200 ~G~~~AIlaGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~g 279 (416)
T PLN02857 200 YGTRVAVLAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSA 279 (416)
T ss_pred CCcceeeeHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHH
Confidence 899999999999999999999887654322 68899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
++++|++++..+.+.+||+++|+||||+||++|++++++.+||+.++||.+||+|+|++++++..|++.+++.+...+++
T Consensus 280 allaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~ 359 (416)
T PLN02857 280 AIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEG 359 (416)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998899999988888889
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
+++++++++.++|+++++++.++++.++|++.|+.+|.++ .++.|..|++++++|.+
T Consensus 360 ~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~------~~~~L~~L~~~~~~R~~ 416 (416)
T PLN02857 360 SLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPRGA------FRSSLEDMVDYNLERIY 416 (416)
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999999999999887 88999999999999975
No 4
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=3.3e-44 Score=303.47 Aligned_cols=190 Identities=38% Similarity=0.637 Sum_probs=178.1
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++||++||||++.||+.+++.+++.+. .++|++|+.+|||+||++||++|
T Consensus 107 ~G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~g 186 (323)
T CHL00151 107 FGTKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAA 186 (323)
T ss_pred hCCcchhhhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHH
Confidence 899999999999999999999877654221 57899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
++++|++++..+.+.+||+++|+||||+||++|++++++.+|||.++||++||+|+|++++++..+++.+++.....+++
T Consensus 187 a~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~ 266 (323)
T CHL00151 187 ALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETK 266 (323)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999988888888877777888
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
+++++.+++.++|+++++++.+++|.++|.+.|+.+|.++ .++.|..+++++++|+.
T Consensus 267 ~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~ 323 (323)
T CHL00151 267 DISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSS------AKDSLIEIANFIINRLN 323 (323)
T ss_pred HHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999999999999887 89999999999999973
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=1.5e-43 Score=299.04 Aligned_cols=188 Identities=30% Similarity=0.520 Sum_probs=173.1
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++||++||||++.||+.+++.++++++ +++|++++.+|||+||++||.+|
T Consensus 102 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~g 181 (319)
T TIGR02748 102 WGNRIAMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLG 181 (319)
T ss_pred hChHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999887654322 67899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCc---HHHHHHhcCCC
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSSD 130 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~---~~~~~~~~~~~ 130 (196)
++++|++++.++.+.+||+++|+||||+||++|++++++.+|||.++|+++||+|+|++++++..+ .+..++.+.
T Consensus 182 a~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~~-- 259 (319)
T TIGR02748 182 AIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEET-- 259 (319)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcCC--
Confidence 999999999999999999999999999999999999999999999999999999999999998643 455666543
Q ss_pred ChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 131 NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 131 ~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
++++++++++++.++|++++++.+++++.++|.+.|+.+|.++ .++.|..+++++++|++
T Consensus 260 ~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~ 319 (319)
T TIGR02748 260 TAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGR------AKKPLQEIAKYIGKRKY 319 (319)
T ss_pred CHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHHHHHHHHhccC
Confidence 6788999999999999999999999999999999999999987 89999999999999975
No 6
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=6.8e-43 Score=295.20 Aligned_cols=189 Identities=33% Similarity=0.514 Sum_probs=171.4
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+++||++||||++.||+.+++.++++++ +++|++|+.+|||+||++||++|
T Consensus 103 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~g 182 (323)
T PRK10888 103 FGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCS 182 (323)
T ss_pred hCccHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999887654322 67899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhC-c----HHHHHHhcC
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-P----QLRAFINSS 128 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~-~----~~~~~~~~~ 128 (196)
++++|++++.++.+++||+++|+||||+||++|+++++..+|||.++||++||+|+|++++++.. + .+..++.+.
T Consensus 183 a~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~ 262 (323)
T PRK10888 183 GILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPTLPLLHAMHHGTPEQAAMIRTAIEQG 262 (323)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhhcCCchHHHHHHHHhCCHHHHHHHHHHHhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999864 3 344455433
Q ss_pred CCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 129 SDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 129 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
.++++++++++++.++|+++++++.+++|.++|.+.|+.+|.++ .++.|..+++++++|++
T Consensus 263 -~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~ 323 (323)
T PRK10888 263 -NGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTP------WREALIGLAHIAVQRDR 323 (323)
T ss_pred -CCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHHHHHHHHhCcC
Confidence 34567899999999999999999999999999999999999887 89999999999999974
No 7
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=1.2e-41 Score=287.69 Aligned_cols=190 Identities=37% Similarity=0.517 Sum_probs=170.4
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCC--hhhh--------------------------HHHHHHHHhcchHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKH--TEVI--------------------------MECYMQKTYNKTAALVSNSCKA 52 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~--~~~~--------------------------~~~yl~~~~~KTa~L~~~~~~~ 52 (196)
||+.+||++||+|++.||+++++.++ +.++ +++|++|+++|||+||+++|++
T Consensus 105 ~g~~~AIlaGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ 184 (322)
T COG0142 105 FGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVL 184 (322)
T ss_pred hccHHHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999876 3322 6899999999999999999999
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCCh
Q 029266 53 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 132 (196)
Q Consensus 53 ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~ 132 (196)
|+++++++++..+.+.+||+++|+||||+||++|+++++.++||++|+|+++||+|+|++++++..++-...+.......
T Consensus 185 ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~ 264 (322)
T COG0142 185 GAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGG 264 (322)
T ss_pred HHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999998643111222222212
Q ss_pred hhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 133 ANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 133 ~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
.+++++++++.++|+++++...++.|.++|.+.|+.+|+++ .++.|..+++++++|++
T Consensus 265 ~~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~------~~~~L~~la~~i~~R~~ 322 (322)
T COG0142 265 GEVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSE------AKEALLELADFIIKRKY 322 (322)
T ss_pred hHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCch------HHHHHHHHHHHHHhccC
Confidence 28999999999999999999999999999999999999666 89999999999999974
No 8
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.4e-38 Score=268.26 Aligned_cols=185 Identities=44% Similarity=0.634 Sum_probs=174.4
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh-------------------------------HHHHHHHHhcchHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI-------------------------------MECYMQKTYNKTAALVSNS 49 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~-------------------------------~~~yl~~~~~KTa~L~~~~ 49 (196)
||+++|||+||||+++|++.++.+.|+.++ ++.|+.+..+|||+|++.+
T Consensus 169 fG~k~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~S 248 (384)
T KOG0776|consen 169 FGNKMAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKS 248 (384)
T ss_pred hcchhhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999998875432 6889999999999999999
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCC
Q 029266 50 CKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSS 129 (196)
Q Consensus 50 ~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~ 129 (196)
|++|++++|++++..+.+++||+++|++||+.||++|++...+++||+.+.|+..|+.|+|+++++++.|++.+.+.+.+
T Consensus 249 c~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~ 328 (384)
T KOG0776|consen 249 CVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREKLEREF 328 (384)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhhhccccccchhhhhhChHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcc
Q 029266 130 DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR 194 (196)
Q Consensus 130 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R 194 (196)
.++.+..+..+.+. ++..+..++++|.++|++.|+.+|+++ +|+.|++|+..++.|
T Consensus 329 ~e~~~~~~~~k~v~---~v~~a~~la~~~~~~Al~~l~~~p~s~------ar~aL~~l~~~~~~r 384 (384)
T KOG0776|consen 329 SEPLDGFDADKAVP---GVALAKYLARRHNNKALEALQSLPRSE------ARSALENLVLAVLTR 384 (384)
T ss_pred cccchhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHhCCCCch------HHHHHHHHHHHHhcC
Confidence 87777777777766 899999999999999999999999999 999999999999876
No 9
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=2.9e-37 Score=258.33 Aligned_cols=158 Identities=30% Similarity=0.418 Sum_probs=142.9
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCCh--------h-------------hh---------------HHHHHHHHhcchHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHT--------E-------------VI---------------MECYMQKTYNKTAA 44 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~--------~-------------~~---------------~~~yl~~~~~KTa~ 44 (196)
||+++||++||||++.||+.+++.+.+ + ++ .++|++|+.+|||+
T Consensus 105 ~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~ 184 (299)
T PRK10581 105 FGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGA 184 (299)
T ss_pred hCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCCCCHHHHHHHHHHhhHH
Confidence 899999999999999999998865321 0 00 56899999999999
Q ss_pred HHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHH
Q 029266 45 LVSNSCKAVAYLSGQR-EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRA 123 (196)
Q Consensus 45 L~~~~~~~ga~lag~~-~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~ 123 (196)
||++||++|++++|.+ ++.++.+.+||+++|+||||+||++|++++++.+||+.++|+++||+|+|+++
T Consensus 185 L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~---------- 254 (299)
T PRK10581 185 LIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALL---------- 254 (299)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHH----------
Confidence 9999999999999986 45789999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcccC
Q 029266 124 FINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 196 (196)
Q Consensus 124 ~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~ 196 (196)
+++++++.++++.++|.+.|+.+|.++. .++.|..|++++++|++
T Consensus 255 -----------------------~~e~a~~~a~~~~~~A~~~l~~l~~~~~-----~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 255 -----------------------GLEQARKKARDLIDDARQSLDQLAAQSL-----DTSALEALANYIIQRDK 299 (299)
T ss_pred -----------------------HHHHHHHHHHHHHHHHHHHHHhCcCCch-----hHHHHHHHHHHHHhccC
Confidence 6788999999999999999999998661 37899999999999985
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=2.9e-33 Score=230.21 Aligned_cols=152 Identities=43% Similarity=0.581 Sum_probs=141.1
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCC---hhhh---------------------------HHHHHHHHhcchHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKH---TEVI---------------------------MECYMQKTYNKTAALVSNSC 50 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~---~~~~---------------------------~~~yl~~~~~KTa~L~~~~~ 50 (196)
||+..|||+||+|++.+++.+++..+ ++++ +++|++|+.+|||+||.++|
T Consensus 78 ~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~ 157 (259)
T cd00685 78 FGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAP 157 (259)
T ss_pred hCcccHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHH
Confidence 79999999999999999999998765 3322 67899999999999999999
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCC
Q 029266 51 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSD 130 (196)
Q Consensus 51 ~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~ 130 (196)
.+|+++++++++..+.+++||.++|++|||+||++|++++++.+||+.++||++||+|||+++++
T Consensus 158 ~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l--------------- 222 (259)
T cd00685 158 LLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL--------------- 222 (259)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH---------------
Confidence 99999999999999999999999999999999999999999999999999999999999999953
Q ss_pred ChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcc
Q 029266 131 NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR 194 (196)
Q Consensus 131 ~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R 194 (196)
++.++.+.++|...|+.+|.+. .+..|..+++++++|
T Consensus 223 ---------------------~~~~~~~~~~a~~~l~~~~~~~------~~~~l~~~~~~~~~r 259 (259)
T cd00685 223 ---------------------RELAREYEEKALEALKALPESP------AREALRALADFILER 259 (259)
T ss_pred ---------------------HHHHHHHHHHHHHHHHcCCCcH------HHHHHHHHHHHHHcC
Confidence 7889999999999999999876 789999999999987
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=4.1e-34 Score=235.40 Aligned_cols=154 Identities=34% Similarity=0.550 Sum_probs=133.0
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCC--hh-----hh--------------------------HHHHHHHHhcchHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKH--TE-----VI--------------------------MECYMQKTYNKTAALVS 47 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~--~~-----~~--------------------------~~~yl~~~~~KTa~L~~ 47 (196)
||++.||++||+|++.|++.++..++ +. +. +++|++|+.+|||+||+
T Consensus 72 ~G~~~Ail~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~ 151 (260)
T PF00348_consen 72 FGNAIAILAGDYLLALAFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFA 151 (260)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHH
T ss_pred ccccchhhhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhccccccccccHHHHHHHHhhcchHHHH
Confidence 79999999999999999999998772 11 00 68999999999999999
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCc-HHHHHHh
Q 029266 48 NSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP-QLRAFIN 126 (196)
Q Consensus 48 ~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~-~~~~~~~ 126 (196)
+||++|++++|++++..+.+++||.++|++|||+||++|++++++.+||+.++||++||+|+|++++++..+ +.+.++.
T Consensus 152 ~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~~~~~~~~l~ 231 (260)
T PF00348_consen 152 LACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERAREELRELLQ 231 (260)
T ss_dssp HHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhCHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999864 4555554
Q ss_pred cCCCChhhHHHHHHHHHhccHHHHHHHHH
Q 029266 127 SSSDNPANVDVILEYLGKSHGIQRTTELA 155 (196)
Q Consensus 127 ~~~~~~~~~~~i~~~~~~~g~~~~~~~~~ 155 (196)
.. ...+..+.+.+.+..++.++++++.+
T Consensus 232 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (260)
T PF00348_consen 232 EA-YGKEDSEEALEIIAQTGALEYTRKFM 259 (260)
T ss_dssp HH-HHHSHHHHHHHHHHHHHHHTHHHHHH
T ss_pred HH-HcccchHHHHHHHHHHHHHHHHHhhc
Confidence 42 23335567777788888888887765
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=99.94 E-value=9.4e-26 Score=182.54 Aligned_cols=152 Identities=43% Similarity=0.601 Sum_probs=128.2
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||+..||++||++++.++..+.+...+++. +++|++++++|||++|+.+|..+
T Consensus 58 ~g~~~ai~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~ 137 (236)
T cd00867 58 FGNALAILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLG 137 (236)
T ss_pred hCHhHHHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHH
Confidence 789999999999999999999875432111 68899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
+.+++.+++..+.+.+||+++|+||||+||++|++++.+.+|| .++|+++||+|+|++++
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~------------------- 197 (236)
T cd00867 138 AGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILA------------------- 197 (236)
T ss_pred HHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHH-------------------
Confidence 9999998888999999999999999999999999999999999 99999999999999883
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHHcc
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR 194 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~~R 194 (196)
.+.+.++.+++...+..+++... ..+..+..++.++.+|
T Consensus 198 ------------------~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~r 236 (236)
T cd00867 198 ------------------RERAAEYAEEAYAALEALPPSLP----RARRALIALADFLYRR 236 (236)
T ss_pred ------------------HHHHHHHHHHHHHHHHhCCCCch----HHHHHHHHHHHHHHhC
Confidence 45555566666666666554320 1567788888888776
No 13
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.92 E-value=2.9e-24 Score=169.46 Aligned_cols=169 Identities=21% Similarity=0.258 Sum_probs=152.9
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh----------------------------HHHHHHHHhcchHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI----------------------------MECYMQKTYNKTAALVSNSCKA 52 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~----------------------------~~~yl~~~~~KTa~L~~~~~~~ 52 (196)
||.+..|++++|++++|++.++.+.+|+.+ .++|..|+..|||.||++++++
T Consensus 94 yGvpStINtANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~tcPtee~Yk~Mv~~KTGGLF~La~rL 173 (322)
T KOG0777|consen 94 YGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRL 173 (322)
T ss_pred ccCcchhhhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCcCCCHHHHHHHHHHhcccHHHHHHHH
Confidence 899999999999999999999999887644 6899999999999999999999
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCc---HHHHHHhcCC
Q 029266 53 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSS 129 (196)
Q Consensus 53 ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~---~~~~~~~~~~ 129 (196)
+-+.+...++ +..+-..+|+.|||+|||+++..-+..-.|..+.|+.|||.++|+++|+...+ .+..++..+.
T Consensus 174 MqlfS~~ked----l~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEGKfsFP~iHA~~t~~q~~Qvl~ILrqRT 249 (322)
T KOG0777|consen 174 MQLFSHHKED----LVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHALKTKGQTEQVLRILRQRT 249 (322)
T ss_pred HHHHHhcchh----HHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccCccCCcchhhhhcCCchHHHHHHHHHhh
Confidence 9999976655 66778899999999999999977766678999999999999999999998753 5778888888
Q ss_pred CChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 130 DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 130 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
.+.+....+..+++..|+++|++..+++...+|.+.++....++
T Consensus 250 ~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g~Np 293 (322)
T KOG0777|consen 250 SDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDGENP 293 (322)
T ss_pred ccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 78888889999999999999999999999999999999988777
No 14
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.84 E-value=1.5e-20 Score=154.37 Aligned_cols=161 Identities=19% Similarity=0.109 Sum_probs=141.1
Q ss_pred HHHHHHHHhcchHHH-HHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCc
Q 029266 31 MECYMQKTYNKTAAL-VSNSCKAVAYLSGQ-REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 108 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L-~~~~~~~ga~lag~-~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T 108 (196)
++.|-.|+.+|||.+ |.+|..+|.++||. +.+.-.....+...+|..||++|||||++|||+.+|| .|+||+++|||
T Consensus 182 l~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgk-iGtDIqDnKCs 260 (347)
T KOG0711|consen 182 LEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCS 260 (347)
T ss_pred HHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCC-CCCccccCcee
Confidence 789999999999999 99999999999985 5566778999999999999999999999999999998 59999999999
Q ss_pred HHHHHHhhhC-cHHHHHHhcCCC--ChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHH
Q 029266 109 APILFAMEEF-PQLRAFINSSSD--NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALV 185 (196)
Q Consensus 109 ~p~i~al~~~-~~~~~~~~~~~~--~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~ 185 (196)
|.++.|++.. +++.+++..+.. +++.++.++.+..+.+......+.-..........++.++....+ .+..+-
T Consensus 261 Wlv~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~~f~~yE~~~~~~Ik~~I~~~~~~~~~----~~~v~t 336 (347)
T KOG0711|consen 261 WLVVKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPALFIEYEEGSYKKIKKLISQVDEDTGV----KVKVGT 336 (347)
T ss_pred eehHHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHhhhhHHHHHHHHHHHccCCCcc----hhhhHH
Confidence 9999999985 688888877664 678899999999999888888888888888888888888755421 667777
Q ss_pred HHHHHHHcccC
Q 029266 186 HITQKIITRNK 196 (196)
Q Consensus 186 ~l~~~~~~R~~ 196 (196)
.+++.+.+|++
T Consensus 337 ~fl~kiykr~k 347 (347)
T KOG0711|consen 337 SFLNKIYKRSK 347 (347)
T ss_pred HHHHHHHhhcC
Confidence 89999999875
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=99.58 E-value=4.1e-13 Score=106.55 Aligned_cols=148 Identities=34% Similarity=0.417 Sum_probs=120.1
Q ss_pred CchhHHHHHhhHHHHHHHHHHHcCCChhhh---------------------------HHHHHHHHhcchHHHHHHHHHHH
Q 029266 1 MGNKLAILAGDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAV 53 (196)
Q Consensus 1 ~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~---------------------------~~~yl~~~~~KTa~L~~~~~~~g 53 (196)
||...+++.|+++++.+++.+.....+.+. +++|+.+...|||.++...|..+
T Consensus 52 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~ 131 (243)
T cd00385 52 DGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLG 131 (243)
T ss_pred cCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHH
Confidence 578899999999999999998876432111 58899999999999999999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChh
Q 029266 54 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA 133 (196)
Q Consensus 54 a~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~ 133 (196)
+...+.+......+.+++.++|+++|+.||+.|+.++.... +|+.|+|.+++.+....-+..
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~---------~~~~~l~~~~~~~~~~~~~~~--------- 193 (243)
T cd00385 132 AGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLYALEYGVPAEDL--------- 193 (243)
T ss_pred HHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh---------CCchHHHHHHHHHhCChhhHH---------
Confidence 98887777778899999999999999999999999876421 588999999987654211111
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCC
Q 029266 134 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPET 172 (196)
Q Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~ 172 (196)
..+..++..+.+...+..+.+++...+..+...
T Consensus 194 ------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ 226 (243)
T cd00385 194 ------LLVEKSGSLEEALEELAKLAEEALKELNELILS 226 (243)
T ss_pred ------HHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 166677788999999999999999988877654
No 16
>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=95.35 E-value=0.26 Score=40.41 Aligned_cols=117 Identities=18% Similarity=0.129 Sum_probs=70.1
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchh-hhcccCcH
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTD-LRNGIITA 109 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~D-l~~gk~T~ 109 (196)
++++..-+++-+|++..+.+.+...- .+. ....+.+.++|.++|+.|=+.|+ +.| +..|++-+
T Consensus 112 ~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~-----------~~D~~~~gR~yl 175 (267)
T PF00494_consen 112 FADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI-----------PEDALRRGRIYL 175 (267)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH-----------HHH-HHTT---S
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh-----------HHHHHhcccccC
Confidence 56666667777787776666655431 222 45788899999999999777666 457 78899999
Q ss_pred HHHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 110 PILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 110 p~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
|.=..-+..-...+++.....++ .+.+ .+......++.+.++|...+..+|+..
T Consensus 176 P~d~l~~~gv~~~dl~~~~~~~~----~~~~------~~~~~~~~A~~~l~~a~~~~~~l~~~~ 229 (267)
T PF00494_consen 176 PLDDLRRFGVTPEDLLAGRPRSE----RLRA------LIRELAARARAHLDEARAGLSALPPPR 229 (267)
T ss_dssp -HHHHHHTTSSHHHHHHHG-GGH----HHHH------HHHHHHHHHHHHHHHHHHGGGGS--TT
T ss_pred CchhHHHcCCCHHHHHhcccCCH----HHHH------HHHHHHHHHHHHHHHHHHHHHHcCCHh
Confidence 98554332212222222110111 1222 455677888999999999999996554
No 17
>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=94.97 E-value=0.59 Score=38.50 Aligned_cols=113 Identities=19% Similarity=0.107 Sum_probs=70.5
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHH
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 110 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p 110 (196)
++++..-++.-.|++..+.+.+ ++..++ .....+.++|+|+|+.|=+.|+ +.|+..|++.+|
T Consensus 106 ~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv-----------~eD~~~gR~ylP 167 (266)
T TIGR03465 106 FAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV-----------GEDARRGRIYLP 167 (266)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCCeecC
Confidence 4555555666666666655554 232232 3577899999999999877777 356788999999
Q ss_pred HHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCC
Q 029266 111 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPET 172 (196)
Q Consensus 111 ~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~ 172 (196)
.=..-+..-...+++... .++ .+.. .+......++.+.++|...+..+|..
T Consensus 168 ~~~l~~~gv~~~~l~~~~-~~~----~~~~------~~~~l~~~A~~~l~~a~~~~~~~p~~ 218 (266)
T TIGR03465 168 AEELQRFGVPAADILEGR-YSP----ALAA------LCRFQAERARAHYAEADALLPACDRR 218 (266)
T ss_pred HHHHHHcCCCHHHhcCCC-CCH----HHHH------HHHHHHHHHHHHHHHHHHhhhhCCHh
Confidence 855443332233333322 121 1222 35556667888889999988888854
No 18
>PLN02632 phytoene synthase
Probab=94.54 E-value=0.53 Score=40.28 Aligned_cols=118 Identities=13% Similarity=0.005 Sum_probs=70.3
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQR--EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 108 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~--~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T 108 (196)
++++..-+++-.|....+++.+. +..+ ....+...+.+.++|+|+|+.|=+.|+ +.|+..|++-
T Consensus 161 ~~eL~~Ycy~vAgtVG~l~l~vl---g~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv-----------~eD~~~GRvY 226 (334)
T PLN02632 161 FDELYLYCYYVAGTVGLMSVPVM---GIAPESKASTESVYNAALALGIANQLTNILRDV-----------GEDARRGRVY 226 (334)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHh---CCCCccccchHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHhCCcee
Confidence 34444445555555555555442 2222 112245678899999999999877777 4577889999
Q ss_pred HHHHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 109 APILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 109 ~p~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
+|.=..-+..-...+++... .++ .++. .+......++.+.++|...+..+|...
T Consensus 227 LP~e~L~~~Gv~~edl~~~~-~~~----~~~~------l~~~~~~~Ar~~~~~a~~~l~~lp~~~ 280 (334)
T PLN02632 227 LPQDELAQFGLTDEDIFAGK-VTD----KWRA------FMKFQIKRARMYFAEAEEGVSELDPAS 280 (334)
T ss_pred CCHHHHHHcCCCHHHHhcCC-CCH----HHHH------HHHHHHHHHHHHHHHHHHhHhhCCHHh
Confidence 99744333221223333322 121 1222 234444678899999999999998654
No 19
>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=94.31 E-value=1.3 Score=36.47 Aligned_cols=114 Identities=11% Similarity=-0.020 Sum_probs=67.2
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHH
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 110 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p 110 (196)
+++...-+++-.|+...+++.+ ++..+++ ..+++.++|+|+|+.|=+.|+ +.|...|++.+|
T Consensus 107 ~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl-----------~eD~~~gR~YLP 168 (266)
T TIGR03464 107 WAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDV-----------GVDYRKGRVYLP 168 (266)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhh-----------HHHHhcCCccCC
Confidence 3444444455555555444432 2222332 346799999999999877776 456778999999
Q ss_pred HHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 111 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 111 ~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
.=..-+..=...+++... .++ .++. .+......++.+.+.|...+..+|...
T Consensus 169 ~~~l~~~Gv~~edl~~~~-~~~----~~~~------~~~~~~~~A~~~~~~a~~~~~~lp~~~ 220 (266)
T TIGR03464 169 RDDLARFGVSEEDLAAGR-ATP----ALRE------LMAFEVSRTRALLDRGAPLAARVDGRL 220 (266)
T ss_pred HHHHHHcCCCHHHHhcCC-CCH----HHHH------HHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence 744333221223333321 121 1222 355566778899999999999998543
No 20
>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=94.28 E-value=0.61 Score=38.30 Aligned_cols=114 Identities=21% Similarity=0.209 Sum_probs=69.0
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHH
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 110 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p 110 (196)
+++...-+++-.|+...+.+.+- +.... +...+++.++|+|+|+.|=+.|+ +.|...|++.+|
T Consensus 114 ~~eL~~Y~~~vAg~vg~l~~~i~---~~~~~---~~~~~~A~~lG~AlqltnilRdv-----------~eD~~~gR~YlP 176 (265)
T cd00683 114 LDELDEYCYYVAGVVGLMLLRVF---GASSD---EAALERARALGLALQLTNILRDV-----------GEDARRGRIYLP 176 (265)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHh---CCCCC---hHHHHHHHHHHHHHHHHHHHHHH-----------HHHHccCCCcCC
Confidence 34444445555555444444332 22111 23668899999999999877777 356778999999
Q ss_pred HHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCC
Q 029266 111 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPET 172 (196)
Q Consensus 111 ~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~ 172 (196)
.=..-+..-...+++.. ..++ .++. .+......++.+...|...+..+|..
T Consensus 177 ~d~l~~~gv~~~~l~~~-~~~~----~~~~------~~~~~~~~A~~~~~~a~~~~~~lp~~ 227 (265)
T cd00683 177 REELARFGVTLEDLLAP-ENSP----AFRA------LLRRLIARARAHYREALAGLAALPRR 227 (265)
T ss_pred HHHHHHcCCCHHHHcCC-CCCH----HHHH------HHHHHHHHHHHHHHHHHHhHHhCCHh
Confidence 85543332223333322 1121 2222 35566677899999999999999854
No 21
>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=91.86 E-value=1.9 Score=36.98 Aligned_cols=86 Identities=21% Similarity=0.225 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhc
Q 029266 66 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKS 145 (196)
Q Consensus 66 ~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 145 (196)
...+++..+|+++|+.|=+.|+. .|+.+|++=||-=-.-+......++... +.......
T Consensus 165 ~~~~~A~~lG~aLQlTNIlRDv~-----------ED~~~GR~YlP~e~l~~~g~~~~dl~~~-----~~~~~~~~----- 223 (336)
T TIGR01559 165 ESEALSNSMGLFLQKTNIIRDYL-----------EDINEGRMFWPREIWSKYAKKLGDFKKP-----ENSDKALQ----- 223 (336)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH-----------hHHhCCCCCCCHHHHHHcCCCHHHhcCc-----cccHHHHH-----
Confidence 34688999999999998888874 4677899999974333222222232221 11122222
Q ss_pred cHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 146 HGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 146 g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
.++.....+..+.+.|...+..++...
T Consensus 224 -~l~~lv~~A~~~~~~al~yl~~l~~~~ 250 (336)
T TIGR01559 224 -CLNELVTNALHHATDCLTYLSRLRDQS 250 (336)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 456667778889999999999886544
No 22
>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=90.61 E-value=1 Score=36.17 Aligned_cols=41 Identities=24% Similarity=0.194 Sum_probs=32.6
Q ss_pred HHHHHhhHHHHHHHHHHHcCCChhhh---HHHHHHHHhcchHHH
Q 029266 5 LAILAGDLLISRALVALASLKHTEVI---MECYMQKTYNKTAAL 45 (196)
Q Consensus 5 ~Ail~GD~L~~~a~~~l~~~~~~~~~---~~~yl~~~~~KTa~L 45 (196)
..||+|||.-++-+.++++.++..++ -+..-++.+.|+..+
T Consensus 71 LtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE~K~~ly 114 (212)
T PF07307_consen 71 LTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKEINELKMSLY 114 (212)
T ss_pred hhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999987766 344556666776665
No 23
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=77.25 E-value=27 Score=29.36 Aligned_cols=86 Identities=22% Similarity=0.229 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhCcHHHHHHhcCCCChhhHHHHHHHHHhc
Q 029266 66 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKS 145 (196)
Q Consensus 66 ~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 145 (196)
........+|.|+|..|=+.|+ +.|...|+.-+|.=-..+......++......+ .+.+
T Consensus 153 ~~~~~a~~lG~A~QlvNilRdv-----------~eD~~~GrvylP~e~l~~~g~~~~d~~~~~~~~-----~~~~----- 211 (288)
T COG1562 153 ATRAYARGLGLALQLVNILRDV-----------GEDRRRGRVYLPAEELARFGVSEADLLAGRVDD-----AFRE----- 211 (288)
T ss_pred hhHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCcccCCHHHHHHhCCCHHHHHcccchh-----HHHH-----
Confidence 3445555699999999877776 557888999999643333222333333221111 2222
Q ss_pred cHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 029266 146 HGIQRTTELALKHASLAAAAIDSLPETH 173 (196)
Q Consensus 146 g~~~~~~~~~~~~~~~a~~~l~~lp~~~ 173 (196)
.+++-....+.+...|...+..+|...
T Consensus 212 -~~~~~~~~ar~~~~~a~~~~~~lp~~~ 238 (288)
T COG1562 212 -LMRFEADRARDHLAEARRGLPALPGRA 238 (288)
T ss_pred -HHHHHHHHHHHHHHHHHHhhhhCCccc
Confidence 456667788889999999999998765
No 24
>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=71.87 E-value=61 Score=27.45 Aligned_cols=47 Identities=19% Similarity=0.131 Sum_probs=29.8
Q ss_pred HHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 55 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 55 ~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
.+.|.+.+....+...-+.+=.|.-|-||+.|=- ++++|++|.-..|
T Consensus 56 ~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~s------------~~RRg~pt~~~~~ 102 (319)
T TIGR02748 56 KFGDYDLDAIKHVAVALELIHMASLVHDDVIDDA------------DLRRGRPTIKSKW 102 (319)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHhccccCCC------------CCCCCCcCHHHHh
Confidence 3345555444455556667778889999996642 4566777765544
No 25
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=67.74 E-value=59 Score=27.66 Aligned_cols=49 Identities=27% Similarity=0.247 Sum_probs=31.4
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 53 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 53 ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
++.+.|.+.+....+..--+.+=.+..|-||+.|= +++++|++|+-..|
T Consensus 55 ~~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D~------------s~~RRG~pt~~~~~ 103 (323)
T PRK10888 55 AARAVGYQGNAHVTIAALIEFIHTATLLHDDVVDE------------SDMRRGKATANAAF 103 (323)
T ss_pred HHHHcCCChHHHHHHHHHHHHHHHHHHHHcccccC------------CcccCCCCCHHHHh
Confidence 33444555444445556667777788999999653 35677777765554
No 26
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=65.74 E-value=7.6 Score=26.43 Aligned_cols=21 Identities=33% Similarity=0.490 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHchh
Q 029266 61 EEVATLAFEYGKNLGLAYQLI 81 (196)
Q Consensus 61 ~~~~~~l~~~g~~lGiafQi~ 81 (196)
+...+.+-+||..+|=.||+.
T Consensus 15 et~~e~llRYGLf~GAIFQli 35 (85)
T PF06783_consen 15 ETFFENLLRYGLFVGAIFQLI 35 (85)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 466889999999999999986
No 27
>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=57.71 E-value=75 Score=25.84 Aligned_cols=51 Identities=29% Similarity=0.182 Sum_probs=35.1
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 51 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 51 ~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
.+.+.+.|.+.+....+...-+.+=.++-|.||+.|= +++++|++|.-..+
T Consensus 22 ~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~------------s~~RRG~pt~~~~~ 72 (260)
T PF00348_consen 22 LLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDN------------SDLRRGKPTVHKKF 72 (260)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTT------------CSEETTEECHHHHH
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcc------------cccCCCCccccccc
Confidence 3344445566666777888888888999999999653 23566777665555
No 28
>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=56.02 E-value=1.1e+02 Score=24.84 Aligned_cols=45 Identities=33% Similarity=0.289 Sum_probs=29.6
Q ss_pred cCCCH-HHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 57 SGQRE-EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 57 ag~~~-~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
.|.++ +....+..--+-+=.++-|.||+.|=- +.++|++|+-..+
T Consensus 33 ~g~~~~~~~~~la~aiEllh~asLIhDDI~D~s------------~~RRG~p~~~~~~ 78 (259)
T cd00685 33 LGGPELEAALRLAAAIELLHTASLVHDDVMDNS------------DLRRGKPTVHKVF 78 (259)
T ss_pred hCCCchHHHHHHHHHHHHHHHHHHHHhhhccCC------------cccCCCCcHHHHh
Confidence 34444 555667777778888999999995532 3456666665544
No 29
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=54.61 E-value=43 Score=27.54 Aligned_cols=34 Identities=26% Similarity=0.443 Sum_probs=25.8
Q ss_pred HHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhh
Q 029266 73 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE 117 (196)
Q Consensus 73 ~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~ 117 (196)
-+-...++..|+.|..+| .+.|+.|+|+.+-.+.
T Consensus 172 l~~~~~~~~~d~~D~e~D-----------~~~G~~Tlpv~lG~~~ 205 (285)
T PRK12872 172 LKSFIREIVFDIKDIEGD-----------RKSGLKTLPIVLGKER 205 (285)
T ss_pred HHHHHHHHHHhcccchhH-----------HHcCCcccchhcchHH
Confidence 335677888999888765 4678999999986554
No 30
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=54.45 E-value=32 Score=28.25 Aligned_cols=59 Identities=22% Similarity=0.233 Sum_probs=33.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhh
Q 029266 47 SNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 116 (196)
Q Consensus 47 ~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~ 116 (196)
+.|...|....+......-.+.-+.--..+.+++..|+.|.-+ |.+.|+.|+|+.+--+
T Consensus 140 ~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e~-----------D~~~G~~Tl~v~~G~~ 198 (279)
T PRK12884 140 GMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVEG-----------DRLRGARTLAILYGEK 198 (279)
T ss_pred HHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhh-----------HHHcCCeeechHhcHH
Confidence 3344444443333222222333344455566777888888765 4567899999988544
No 31
>PHA02130 hypothetical protein
Probab=50.10 E-value=6.8 Score=25.29 Aligned_cols=34 Identities=21% Similarity=0.092 Sum_probs=23.9
Q ss_pred hhhccccc-cccccccC-CCcchhhhcccCcHHHHH
Q 029266 80 LIDDILDF-TGTSASLG-KASLTDLRNGIITAPILF 113 (196)
Q Consensus 80 i~DD~ld~-~~~~~~~g-K~~~~Dl~~gk~T~p~i~ 113 (196)
.-||++++ |...-..| -|...||.+||-|++.-+
T Consensus 30 wdddil~ipfkstv~w~lcp~~qdi~ngke~fvwn~ 65 (81)
T PHA02130 30 WDDDILSIPFKSTVYWDLCPYAQDIHNGKENFVWNT 65 (81)
T ss_pred cccchhcccccceeeeccCcchhhhhcCcceeehhh
Confidence 45788887 43333445 467789999999988754
No 32
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=49.87 E-value=97 Score=25.90 Aligned_cols=34 Identities=15% Similarity=0.267 Sum_probs=26.7
Q ss_pred HHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhC
Q 029266 74 LGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 118 (196)
Q Consensus 74 lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~ 118 (196)
+..++.+.+|+.|+.+| -+.|+.|+|+.+-.+..
T Consensus 172 ~~~a~~ii~~irDie~D-----------r~~G~~Tlpv~lG~~~a 205 (282)
T PRK13105 172 WGMASHAFGAVQDVVAD-----------REAGIASIATVLGARRT 205 (282)
T ss_pred HHHHHHHHHhCcchHhH-----------HHcCCccchHHhcHHHH
Confidence 36688999999998765 46799999999865543
No 33
>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=47.95 E-value=1.6e+02 Score=24.26 Aligned_cols=58 Identities=14% Similarity=0.146 Sum_probs=34.8
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcC--CCHHHH--HHHHHHHHHHHHHHchhhcccccccc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSG--QREEVA--TLAFEYGKNLGLAYQLIDDILDFTGT 90 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag--~~~~~~--~~l~~~g~~lGiafQi~DD~ld~~~~ 90 (196)
+++|+.+=..=.|..+... ++-...| .++... ..++++-...+...-+.||+..|-.+
T Consensus 160 l~eYl~~R~~~~g~~~~~~--l~~~~~g~~lp~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE 221 (303)
T cd00687 160 VAEYLEMRRFNIGADPCLG--LSEFIGGPEVPAAVRLDPVMRALEALASDAIALVNDIYSYEKE 221 (303)
T ss_pred HHHHHHHhhhcccccccHH--HHHHhcCCCCCHHHHhChHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 6788765443334443222 2222223 234332 34788889999999999999999654
No 34
>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=43.09 E-value=2.1e+02 Score=24.29 Aligned_cols=36 Identities=33% Similarity=0.356 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 66 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 66 ~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
.+..--+.+=.+.-|.||+.|= +++++|++|.-..|
T Consensus 71 ~~A~avEliH~asLiHDDiiD~------------s~~RRG~pt~h~~~ 106 (322)
T TIGR02749 71 RLAEITEMIHTASLVHDDVIDE------------SDTRRGIETVHSLF 106 (322)
T ss_pred HHHHHHHHHHHHHHHHcccccC------------ccccCCCccHHHHh
Confidence 4455566677788999999663 35677777776654
No 35
>PLN00012 chlorophyll synthetase; Provisional
Probab=40.33 E-value=48 Score=28.96 Aligned_cols=33 Identities=27% Similarity=0.554 Sum_probs=25.7
Q ss_pred HHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhh
Q 029266 73 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 116 (196)
Q Consensus 73 ~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~ 116 (196)
-+++++-+.+|+.|..+ |.+.|+.|+|+.+-.+
T Consensus 263 l~~lai~ivnd~~Die~-----------Dr~aG~~TLpV~~G~~ 295 (375)
T PLN00012 263 IAGLGIAIVNDFKSIEG-----------DRALGLQSLPVAFGVE 295 (375)
T ss_pred HHHHHHHHHhhhcchhh-----------HHHcCCcccceeechH
Confidence 46778899999988865 4567889999987543
No 36
>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=39.02 E-value=79 Score=25.06 Aligned_cols=55 Identities=25% Similarity=0.216 Sum_probs=34.3
Q ss_pred HHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 48 NSCKAVAYLSGQR-EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 48 ~~~~~ga~lag~~-~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
....+|....+.+ ....-.+.-+.--++......+|+.|+.+| .+.|+.|+|+.+
T Consensus 131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~D-----------~~~g~~Tl~v~~ 186 (257)
T PF01040_consen 131 LLILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEGD-----------RKAGRRTLPVLL 186 (257)
T ss_pred HhhhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-----------HHcCCcchHHHH
Confidence 3444444444443 223333444446777788888888888764 467889999887
No 37
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=38.39 E-value=1.1e+02 Score=26.00 Aligned_cols=79 Identities=16% Similarity=0.085 Sum_probs=47.9
Q ss_pred HHHHHHHH---hcchHHHHHHHHHHHHHHcCCCHH---HHHHHHHHHHHHHHHH-----chhhccccccccccccCCCcc
Q 029266 31 MECYMQKT---YNKTAALVSNSCKAVAYLSGQREE---VATLAFEYGKNLGLAY-----QLIDDILDFTGTSASLGKASL 99 (196)
Q Consensus 31 ~~~yl~~~---~~KTa~L~~~~~~~ga~lag~~~~---~~~~l~~~g~~lGiaf-----Qi~DD~ld~~~~~~~~gK~~~ 99 (196)
+.+|++.. +-+|-.+.-.|+..|..+|..... ......-+---+|..+ .+.||+.|.--|. ...++..
T Consensus 30 ~~~y~~L~R~~kP~~~~l~~~p~~~G~~lA~~~~~~~~~~~~~~~~l~~l~~~l~~~a~~~~Nd~~Dr~iD~-~~~Rt~~ 108 (314)
T PRK12878 30 LRPYAQLARWDRPIGWWLLLWPCWWSAALAAGAAADLGLLLLWHLFLFFVGAIAMRGAGCTYNDIVDRDIDA-KVARTRS 108 (314)
T ss_pred HHHHHHHHccccchhhHHHHHHHHHHHHHhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-CCCCCCC
Confidence 57899999 888999999999999998754200 0000011122233333 7899999965443 2233333
Q ss_pred hhhhcccCcHH
Q 029266 100 TDLRNGIITAP 110 (196)
Q Consensus 100 ~Dl~~gk~T~p 110 (196)
.=+..|+.|..
T Consensus 109 RPl~sG~is~~ 119 (314)
T PRK12878 109 RPLPSGQVSRK 119 (314)
T ss_pred CCCCCCCcCHH
Confidence 44667887743
No 38
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=35.87 E-value=2.3e+02 Score=22.70 Aligned_cols=105 Identities=13% Similarity=0.171 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHHHchhhccccccccccccCC----------CcchhhhcccCcHHHHHHhhhC--cHHHHHHhcCCC-
Q 029266 64 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGK----------ASLTDLRNGIITAPILFAMEEF--PQLRAFINSSSD- 130 (196)
Q Consensus 64 ~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK----------~~~~Dl~~gk~T~p~i~al~~~--~~~~~~~~~~~~- 130 (196)
...+..+-..+..+-|-.||+-.|.+-+. +.+ ..-..+++-|..|--...-... .++.+++..+..
T Consensus 8 ~~~~d~lq~~i~~as~~lNd~TGYs~Ie~-LK~~i~~~E~~l~~~r~~~~~aK~~Y~~ai~~Rs~sQrEvn~LLqRK~sW 86 (207)
T PF05546_consen 8 SFYMDSLQETIFTASQALNDVTGYSEIEK-LKKSIEELEDELEAARQEVREAKAAYDDAIQQRSSSQREVNELLQRKHSW 86 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 34556666777888888888888755321 111 1112233333333333322222 267889977664
Q ss_pred ChhhHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccC
Q 029266 131 NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 169 (196)
Q Consensus 131 ~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~l 169 (196)
++.++++..+++..-...+.....++.-.+.|....+..
T Consensus 87 s~~DleRFT~Lyr~dH~~e~~e~~ak~~l~~aE~~~e~~ 125 (207)
T PF05546_consen 87 SPADLERFTELYRNDHENEQAEEEAKEALEEAEEKVEEA 125 (207)
T ss_pred ChHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999988888888888888888887766654
No 39
>KOG2802 consensus Membrane protein HUEL (cation efflux superfamily) [General function prediction only]
Probab=35.64 E-value=2e+02 Score=25.41 Aligned_cols=52 Identities=25% Similarity=0.432 Sum_probs=33.4
Q ss_pred cchHHHHHHHHHHHHHHcCCCHHHHHHHH--HHHHHHHHHHchhhccccccccccccCC
Q 029266 40 NKTAALVSNSCKAVAYLSGQREEVATLAF--EYGKNLGLAYQLIDDILDFTGTSASLGK 96 (196)
Q Consensus 40 ~KTa~L~~~~~~~ga~lag~~~~~~~~l~--~~g~~lGiafQi~DD~ld~~~~~~~~gK 96 (196)
.-||..++++|.......|-+ +-+.+. -.|..+|+. .||+-|+-+.+--.||
T Consensus 369 AVtGv~IAaa~m~lss~tgnP--IyD~~GSivvGaLLGmV---e~diyDvK~~diG~g~ 422 (503)
T KOG2802|consen 369 AVTGVIIAAACMGLSSITGNP--IYDSLGSIVVGALLGMV---ENDIYDVKATDIGLGK 422 (503)
T ss_pred HHHHHHHHHHHHHHHHhcCCC--CccccchHHHHHHHHHH---HHhhhhccceeeccce
Confidence 357777777776666665543 222232 468889998 8999888766543343
No 40
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=35.14 E-value=1.1e+02 Score=19.01 Aligned_cols=35 Identities=20% Similarity=0.181 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHH
Q 029266 152 TELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKI 191 (196)
Q Consensus 152 ~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~ 191 (196)
+........+.+..|+.+|.+.. .|..-++++.+=
T Consensus 4 r~~L~~lY~~~L~~L~~~P~~a~-----YR~~tE~it~~R 38 (57)
T PF04716_consen 4 REALISLYNKTLKALKKIPEDAA-----YRQYTEAITKHR 38 (57)
T ss_pred HHHHHHHHHHHHHHHHhCCCccH-----HHHHHHHHHHHH
Confidence 44556677888889999998763 888888887653
No 41
>CHL00151 preA prenyl transferase; Reviewed
Probab=34.22 E-value=2.9e+02 Score=23.38 Aligned_cols=35 Identities=29% Similarity=0.348 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 67 AFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 67 l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
+...-+.+=.+.-|.||+.|= +++++|++|+-..|
T Consensus 73 ~A~aiEllH~asLiHDDi~D~------------s~~RRG~pt~h~~~ 107 (323)
T CHL00151 73 LAEITEIIHTASLVHDDVIDE------------CSIRRGIPTVHKIF 107 (323)
T ss_pred HHHHHHHHHHHHHHHcccccC------------ccccCCCccHHHHh
Confidence 444456666778899999553 35677888876655
No 42
>PRK13591 ubiA prenyltransferase; Provisional
Probab=33.02 E-value=68 Score=27.26 Aligned_cols=30 Identities=23% Similarity=0.334 Sum_probs=22.5
Q ss_pred HHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhh
Q 029266 77 AYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE 117 (196)
Q Consensus 77 afQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~ 117 (196)
+..+.+|+.|..+| ..+|+.|+|+.+-.+.
T Consensus 194 ~~~iindirDiEGD-----------r~~G~kTLPV~lG~~~ 223 (307)
T PRK13591 194 INSCVYDFKDVKGD-----------TLAGIKTLPVSLGEQK 223 (307)
T ss_pred HHHHHHHhhhhHhH-----------HHcCCeeEEEEECHHH
Confidence 34578999998764 5679999999885443
No 43
>COG2096 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]
Probab=32.66 E-value=1.6e+02 Score=23.09 Aligned_cols=41 Identities=7% Similarity=0.003 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHHHHH
Q 029266 147 GIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKII 192 (196)
Q Consensus 147 ~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~~~~ 192 (196)
.++-|+..+++..+++....+..+.... ....|..|.++++
T Consensus 121 ~lh~ARtv~RRAER~~V~l~~~~~~~~~-----~l~YlNRLSdlLF 161 (184)
T COG2096 121 ALHVARTVARRAERRLVALSREEEANLV-----VLKYLNRLSDLLF 161 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcchhhH-----HHHHHHHHHHHHH
Confidence 5677888888888888887777765541 4566666666654
No 44
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=31.76 E-value=2.6e+02 Score=22.83 Aligned_cols=33 Identities=36% Similarity=0.569 Sum_probs=23.2
Q ss_pred HHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhh
Q 029266 74 LGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE 117 (196)
Q Consensus 74 lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~ 117 (196)
.-+++-+.+|+.|..+ |.+.|.+|+|+.+-.+.
T Consensus 169 ~~~~~~~~~~~~D~e~-----------D~~~G~~tlpv~~G~~~ 201 (276)
T PRK12882 169 ATLAREIIKDVEDIEG-----------DRAEGARTLPILIGVRK 201 (276)
T ss_pred HHHHHHHHhhhhhhhh-----------HHHcCCccccHHhhHHH
Confidence 3456667777777754 55779999999885443
No 45
>PRK12869 ubiA protoheme IX farnesyltransferase; Reviewed
Probab=31.36 E-value=3e+02 Score=22.69 Aligned_cols=76 Identities=11% Similarity=0.090 Sum_probs=45.8
Q ss_pred HHHHHHHhcchHHHHHHHHHHHHHHcCCC-HHHHHH-H-HHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCc
Q 029266 32 ECYMQKTYNKTAALVSNSCKAVAYLSGQR-EEVATL-A-FEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 108 (196)
Q Consensus 32 ~~yl~~~~~KTa~L~~~~~~~ga~lag~~-~~~~~~-l-~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T 108 (196)
..|++..+-++..+...++-.|+.+++.. .+.... + ---+-.+--+=++.||+.|.--|.. ..++...=+-.|+.|
T Consensus 3 ~~~~~l~rp~~~~~~~~~~~~g~~la~~~~~~~~~~~l~~~~~~l~~~a~~~~Nd~~D~~iD~~-~~Rt~~RPl~sG~is 81 (279)
T PRK12869 3 KAYLKLLKPRVIWLLDLAAVAGYFLAAKHGVSWLPLIPLLIGGTLASGGSAAFNHGIERDIDKV-MSRTSKRPTPVGLVN 81 (279)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHhchHhcCCCCC-CCCCCCCCcCCCCcC
Confidence 57899999999888999999999887432 111111 1 1111122233389999999655532 222233446677776
No 46
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=30.07 E-value=3.1e+02 Score=22.48 Aligned_cols=17 Identities=35% Similarity=0.761 Sum_probs=13.0
Q ss_pred hhhhcccCcHHHHHHhh
Q 029266 100 TDLRNGIITAPILFAME 116 (196)
Q Consensus 100 ~Dl~~gk~T~p~i~al~ 116 (196)
.|.+.|.+|+|+.+-.+
T Consensus 181 ~D~~~G~~tlpv~~G~~ 197 (279)
T PRK09573 181 GDLKENVITLPIKYGIK 197 (279)
T ss_pred hHHHCCCccccHHhhHH
Confidence 35677999999988544
No 47
>PRK13362 protoheme IX farnesyltransferase; Provisional
Probab=29.63 E-value=2.3e+02 Score=23.84 Aligned_cols=76 Identities=13% Similarity=0.111 Sum_probs=46.8
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHH-----chhhccccccccccccCCCcchhhhc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQ-REEVATLAFEYGKNLGLAY-----QLIDDILDFTGTSASLGKASLTDLRN 104 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~-~~~~~~~l~~~g~~lGiaf-----Qi~DD~ld~~~~~~~~gK~~~~Dl~~ 104 (196)
...|++..+-+.-.+...++-.|..++.. ..+.... +.--+|.++ .+.||+.|.--|. ...++...=|-.
T Consensus 13 l~~~~~L~RP~~~~~~~~~~~~G~~la~~~~~~~~~~---~~~~lg~~l~~aaa~~~Nd~~D~~iD~-~~~Rt~~RPlps 88 (306)
T PRK13362 13 LKDYIQVTKPGIIFGNVISVAGGFFLASKGHVDPVLM---LAAVIGLSLVVASGCALNNCIDRDIDA-KMQRTRNRVTVT 88 (306)
T ss_pred HHHHHHHhCHHHHHHHHHHHHHHHHHHccCCCCHHHH---HHHHHHHHHHHHHHHHHhChHHhCcCC-CCCCCCCCCCCC
Confidence 57899999999888888888888888732 2211111 111234433 8899999965543 223323344667
Q ss_pred ccCcHH
Q 029266 105 GIITAP 110 (196)
Q Consensus 105 gk~T~p 110 (196)
|+.|-.
T Consensus 89 G~is~~ 94 (306)
T PRK13362 89 GEISLG 94 (306)
T ss_pred CCCCHH
Confidence 777743
No 48
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=29.49 E-value=3.2e+02 Score=22.48 Aligned_cols=82 Identities=15% Similarity=0.043 Sum_probs=45.8
Q ss_pred HHHHHHHhcchHHHHHHHHHHHHHHcCC--CHHHHH-HHHHHHH-HHHHHHchhhcccccccc-ccccCCCcchhhhccc
Q 029266 32 ECYMQKTYNKTAALVSNSCKAVAYLSGQ--REEVAT-LAFEYGK-NLGLAYQLIDDILDFTGT-SASLGKASLTDLRNGI 106 (196)
Q Consensus 32 ~~yl~~~~~KTa~L~~~~~~~ga~lag~--~~~~~~-~l~~~g~-~lGiafQi~DD~ld~~~~-~~~~gK~~~~Dl~~gk 106 (196)
..|++..+-+|-.....|+-+|+.++.. ..+... .+.-++- .+=.+-.+.|||-|+..+ +...-.+...=+.+|+
T Consensus 4 ~~~~~~~Rp~~~~~~~~p~l~G~~~a~~~~~~~~~~~ll~~l~~~l~~~~~n~~Ndy~D~~~g~D~~~~~~~~r~l~~G~ 83 (293)
T PRK06080 4 KAWLELARPKTLPAAFAPVLVGTALAYWLGSFHPLLALLALLAALLLQIATNLANDYGDYVKGTDTEDRVGPLRAIGRGG 83 (293)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHhHHHhccCCCcccccCCcccccCCC
Confidence 5688889999988888888888877621 111111 1111111 112244789999999532 1111111223466777
Q ss_pred CcHHHHH
Q 029266 107 ITAPILF 113 (196)
Q Consensus 107 ~T~p~i~ 113 (196)
.|..-.+
T Consensus 84 is~~~~~ 90 (293)
T PRK06080 84 ISPKQVK 90 (293)
T ss_pred CCHHHHH
Confidence 7766543
No 49
>PRK13595 ubiA prenyltransferase; Provisional
Probab=29.05 E-value=1.8e+02 Score=24.50 Aligned_cols=59 Identities=12% Similarity=-0.001 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhh
Q 029266 46 VSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE 117 (196)
Q Consensus 46 ~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~ 117 (196)
++.|...|+...|......- + -.....+++|++.-|+.|..+ |.+.|..|+|+.+-.+.
T Consensus 155 ~g~p~~~~~~~~g~~~~~~~-l-~a~~~w~~g~dii~ai~Dieg-----------Dr~~Gi~Slpv~lG~r~ 213 (292)
T PRK13595 155 YALPLALPALALGAPVPWPP-L-LALMAWSVGKHAFDAAQDIPA-----------DRAAGTRTVATTLGVRG 213 (292)
T ss_pred HHHHHHHHHHHcCCcchHHH-H-HHHHHHHHHHHHHHhccChHh-----------HHHcCCeechHHhCcHh
Confidence 46677777777765432221 1 233456699999999999755 45678999999885443
No 50
>TIGR01473 cyoE_ctaB protoheme IX farnesyltransferase. This model describes protoheme IX farnesyltransferase, also called heme O synthase, an enzyme that creates an intermediate in the biosynthesis of heme A. Prior to the description of its enzymatic function, this protein was often called a cytochrome o ubiquinol oxidase assembly factor.
Probab=28.79 E-value=1.6e+02 Score=24.16 Aligned_cols=73 Identities=16% Similarity=0.115 Sum_probs=43.9
Q ss_pred HHHHHHhcchHHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHHHHH-----chhhccccccccccccCCCcchhhhcc
Q 029266 33 CYMQKTYNKTAALVSNSCKAVAYLSGQR--EEVATLAFEYGKNLGLAY-----QLIDDILDFTGTSASLGKASLTDLRNG 105 (196)
Q Consensus 33 ~yl~~~~~KTa~L~~~~~~~ga~lag~~--~~~~~~l~~~g~~lGiaf-----Qi~DD~ld~~~~~~~~gK~~~~Dl~~g 105 (196)
.|++..+-++..+...++..|..+++.. .+.. .-+.--+|... .+.||+.|.--|.. ..++...=+-.|
T Consensus 2 ~~~~l~rp~~~~~~~~~~~~g~~la~~~~~~~~~---~~~l~~~~~~l~~~a~~~~Nd~~D~~iD~~-~~Rt~~Rpl~sG 77 (280)
T TIGR01473 2 DYLQLTKPRIISLLLITAFAGMWLAPGGALVNPP---LLLLTLLGTTLAAASANAFNMYIDRDIDKK-MKRTRNRPLVTG 77 (280)
T ss_pred chHHHccHHHHHHHHHHHHHHHHHhCCCCCCCHH---HHHHHHHHHHHHHHHHHHHHhhcccCcCCC-CCCCCCCCCCCC
Confidence 5788899999988888999999887543 1111 11122233322 78999999755542 122122335566
Q ss_pred cCcH
Q 029266 106 IITA 109 (196)
Q Consensus 106 k~T~ 109 (196)
+.|.
T Consensus 78 ~is~ 81 (280)
T TIGR01473 78 RISP 81 (280)
T ss_pred CcCH
Confidence 6653
No 51
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=26.35 E-value=1.5e+02 Score=25.08 Aligned_cols=60 Identities=12% Similarity=0.078 Sum_probs=36.9
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-HHHc----hhhcccccccc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLG-LAYQ----LIDDILDFTGT 90 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG-iafQ----i~DD~ld~~~~ 90 (196)
+..|++.++-+|-..-..|+-+|+.++-......+...-..--+| ++.| +.|||-|+..+
T Consensus 3 ~~~~~~~~Rp~tl~~s~~pvllG~a~a~~~~~~~~~~~~ll~ll~~~~~~~~~N~~NDy~D~~~g 67 (317)
T PRK13387 3 AKLFLKLVEIHTKIASFFPVILGTLFSLYVAKIFDWLLFLAFMVAMLAFDIATTAINNYMDFKKA 67 (317)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHhHHHHhcC
Confidence 356888999999999889999998876311000111111222233 3345 68999999654
No 52
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=24.65 E-value=3.8e+02 Score=22.47 Aligned_cols=58 Identities=19% Similarity=0.217 Sum_probs=34.7
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHc----CC-CHHH---HHHHHHHHHHHHHHHchhhccccccccc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLS----GQ-REEV---ATLAFEYGKNLGLAYQLIDDILDFTGTS 91 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~la----g~-~~~~---~~~l~~~g~~lGiafQi~DD~ld~~~~~ 91 (196)
...|++..+-+|-.+.-.+.-.|+.+| |. +... .-.+.-+..+.| . +.||+.|.--|.
T Consensus 5 ~~~~~~l~Rp~~l~~~~~~~~~g~~lA~~~~g~~~~~~~~l~~l~~~l~~~ag--~-~iND~~D~~~D~ 70 (297)
T PRK12871 5 LKAYIDLTRAHFLPAWPLLFCSGLVLAFANYGGFSWELTIKAALIGLFGFEAG--F-VLNDYVDRKRDR 70 (297)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHH--H-HHhhHHHHhcCc
Confidence 457888899887666555554676554 22 2211 122333444444 3 899999997764
No 53
>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=24.17 E-value=1.8e+02 Score=24.39 Aligned_cols=60 Identities=20% Similarity=0.227 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHH
Q 029266 43 AALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 113 (196)
Q Consensus 43 a~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~ 113 (196)
+.+...|.-.|....|.-....-.+.-.---+..+.-+.||+.|+-+ |.+.|+.|+|+.+
T Consensus 164 ~~~~~~~~~~~~a~~g~~~~~~~l~~~~~~l~~~~i~~~n~~~D~e~-----------D~~~G~~Tlpv~l 223 (306)
T TIGR02056 164 ASYIALPWWAGHALFGELNPDIAVLTLIYSIAGLGIAIVNDFKSVEG-----------DRALGLQSLPVAF 223 (306)
T ss_pred HHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHccChHH-----------HHHcCCcCcchhc
No 54
>PF11676 DUF3272: Protein of unknown function (DUF3272); InterPro: IPR021690 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=23.71 E-value=1e+02 Score=19.60 Aligned_cols=18 Identities=28% Similarity=0.296 Sum_probs=13.4
Q ss_pred hHHHHHhhHHHHHHHHHH
Q 029266 4 KLAILAGDLLISRALVAL 21 (196)
Q Consensus 4 ~~Ail~GD~L~~~a~~~l 21 (196)
..|++.|||+++.-+..+
T Consensus 20 N~ai~~g~y~~A~Fw~~L 37 (61)
T PF11676_consen 20 NEAIMSGDYFFAFFWGFL 37 (61)
T ss_pred HHHHHhhhHHHHHHHHHH
Confidence 358999999998765444
No 55
>PF06304 DUF1048: Protein of unknown function (DUF1048); InterPro: IPR008316 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2O3L_B 2HH6_A 2O4T_A.
Probab=23.63 E-value=42 Score=23.70 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHH-----HHHchhhccccccccccccCCC
Q 029266 64 ATLAFEYGKNLG-----LAYQLIDDILDFTGTSASLGKA 97 (196)
Q Consensus 64 ~~~l~~~g~~lG-----iafQi~DD~ld~~~~~~~~gK~ 97 (196)
...+.+|-.++| -..+|.+|++|+|.....-|++
T Consensus 28 y~~i~~Yl~~~~~~~g~~~~~il~dildlfEe~aadG~~ 66 (103)
T PF06304_consen 28 YKAIQKYLWYFGPTDGRDMMEILSDILDLFEEAAADGKS 66 (103)
T ss_dssp HHHHHHHHHHHTBSSHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 345555556555 4569999999999887666665
No 56
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=23.54 E-value=3.9e+02 Score=21.90 Aligned_cols=77 Identities=14% Similarity=0.120 Sum_probs=44.8
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCC-CHHHH-HHHHHHHHHH-HHHHchhhccccccccccccCCCcchhhhcccC
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQ-REEVA-TLAFEYGKNL-GLAYQLIDDILDFTGTSASLGKASLTDLRNGII 107 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~-~~~~~-~~l~~~g~~l-GiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~ 107 (196)
...|++..+-++..+.-.|+..|..++.. ..+.. -.+.-+|--+ -.+=.+.||+.|.--|... + ...=+-.|+.
T Consensus 3 ~~~~~~l~Rp~~~~~~~~~~~~g~~la~~~~~~~~~~~l~~l~~~l~~~~~~~iNd~~D~~iD~~~--~-~~Rpl~sG~i 79 (279)
T PRK09573 3 IKAYFELIRPKNCIGASIGAIIGYLIASNFKIDLKGIILAALVVFLVCAGGNVINDIYDIEIDKIN--K-PERPIPSGRI 79 (279)
T ss_pred HHHHHHHHhHhHHHHHHHHHHHHHHHHccCCcchHHHHHHHHHHHHHHHHHHHHHhhccccccccc--C-CCCCcCCCcc
Confidence 35789999999998888888888888743 21111 1111111111 1122689999999766432 1 1233556666
Q ss_pred cHH
Q 029266 108 TAP 110 (196)
Q Consensus 108 T~p 110 (196)
|..
T Consensus 80 s~~ 82 (279)
T PRK09573 80 SLK 82 (279)
T ss_pred CHH
Confidence 543
No 57
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=23.29 E-value=4.1e+02 Score=21.62 Aligned_cols=79 Identities=10% Similarity=0.061 Sum_probs=47.0
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHH-HHHHHHHHHH-HHHHchhhccccccccccccCCCcchhhhcccCc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA-TLAFEYGKNL-GLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 108 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~~~~~-~~l~~~g~~l-GiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T 108 (196)
+..|++..+-++......++..|+.++....... -.+--+|--+ -.+-.+.||+.|.--|... |+ ..=+-.|+.|
T Consensus 4 l~~~~~l~R~~~~~~~~~~~~~g~~la~~~~~~~~~~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~--r~-~Rpl~~G~is 80 (279)
T PRK12884 4 MKAYLELLRPEHGLMAGIAVVLGAIIALGGLPLDEALLGFLTAFFASGSANALNDYFDYEVDRIN--RP-DRPIPSGRIS 80 (279)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhcc--CC-CCCCCCCCCC
Confidence 3578899999988887778888888775431111 1111122211 1223689999999877543 32 3346667766
Q ss_pred HHHH
Q 029266 109 APIL 112 (196)
Q Consensus 109 ~p~i 112 (196)
..-.
T Consensus 81 ~~~a 84 (279)
T PRK12884 81 RREA 84 (279)
T ss_pred HHHH
Confidence 5543
No 58
>PRK04375 protoheme IX farnesyltransferase; Provisional
Probab=23.12 E-value=4.4e+02 Score=21.89 Aligned_cols=75 Identities=15% Similarity=0.149 Sum_probs=46.8
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHH-----chhhccccccccccccCCCcchhhhc
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQR-EEVATLAFEYGKNLGLAY-----QLIDDILDFTGTSASLGKASLTDLRN 104 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~~-~~~~~~l~~~g~~lGiaf-----Qi~DD~ld~~~~~~~~gK~~~~Dl~~ 104 (196)
+..|++..+-++..+...|+.+|+.++... .+.. .-+.--+|..+ .+.||+.|.--|.. ..++...=|-.
T Consensus 10 ~~~y~~L~rp~~~~~~~~~~~~G~~la~~~~~~~~---~~~l~~l~~~l~~aa~~~iNd~~D~~iD~~-~~Rt~~Rpl~s 85 (296)
T PRK04375 10 LKDYLALTKPRVISLNLFTALGGMLLAPPGVPPLL---LLLLTLLGIALVAGAAGALNNYIDRDIDAK-MERTKNRPLVT 85 (296)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHhcCCCCCHH---HHHHHHHHHHHHHHHHHHHHhHHhhccCCC-CCccCCCCCCC
Confidence 678999999998888889999999888532 1111 11122233332 78999999755432 22222334667
Q ss_pred ccCcH
Q 029266 105 GIITA 109 (196)
Q Consensus 105 gk~T~ 109 (196)
|+.|.
T Consensus 86 G~is~ 90 (296)
T PRK04375 86 GRISP 90 (296)
T ss_pred CCcCH
Confidence 88773
No 59
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.79 E-value=46 Score=25.46 Aligned_cols=37 Identities=30% Similarity=0.439 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhc
Q 029266 60 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRN 104 (196)
Q Consensus 60 ~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~ 104 (196)
.++.-++|.++|.++|+ .+.||+|.= ++-|.+.|.++
T Consensus 39 ~e~Vn~qLdkMGyNiG~--RLiedFLAk------s~vpRC~dfre 75 (183)
T KOG3330|consen 39 PEDVNKQLDKMGYNIGI--RLIEDFLAK------SNVPRCVDFRE 75 (183)
T ss_pred HHHHHHHHHhccchhhH--HHHHHHHhh------cCCchhhhHHH
Confidence 35667899999999998 578888754 34556888864
No 60
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=21.79 E-value=4.9e+02 Score=22.25 Aligned_cols=74 Identities=14% Similarity=0.158 Sum_probs=40.5
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHcCC--CHHHHH-----HHHHHHHHHHHH-HchhhccccccccccccCCCcchhh
Q 029266 31 MECYMQKTYNKTAALVSNSCKAVAYLSGQ--REEVAT-----LAFEYGKNLGLA-YQLIDDILDFTGTSASLGKASLTDL 102 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~~~~ga~lag~--~~~~~~-----~l~~~g~~lGia-fQi~DD~ld~~~~~~~~gK~~~~Dl 102 (196)
..+|++.++-+|-. ...|+..|..+|.. .+.... .+--++-.+|.+ -++.||+.|+.-|.. .|+. .=+
T Consensus 12 ~k~~l~L~kP~t~l-~~~p~~~g~~lA~g~~~~~~~~~~l~l~~~~~~~~L~~~a~~~iND~~D~~~D~~--n~rt-Rpl 87 (331)
T PRK12392 12 IRAHLELLDPVTWI-SVFPCLAGGVMASGAMQPTLHDYLLLLALFLMYGPLGTGFSQSVNDYFDLELDRV--NEPT-RPI 87 (331)
T ss_pred HHHHHHHHCHHHHH-HHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHhHHhcceeeccccc--CCCC-CCC
Confidence 56899999988877 45566666666532 111110 111122233333 389999999976542 2221 334
Q ss_pred hcccCc
Q 029266 103 RNGIIT 108 (196)
Q Consensus 103 ~~gk~T 108 (196)
-.|+.|
T Consensus 88 ~~G~is 93 (331)
T PRK12392 88 PSGRLS 93 (331)
T ss_pred CcCCcC
Confidence 556665
No 61
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=21.29 E-value=3.6e+02 Score=22.25 Aligned_cols=65 Identities=23% Similarity=0.267 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHchhhccccccccccccCCCcchhhhcccCcHHHHHHhhhC
Q 029266 43 AALVSNSCKAVAYLSGQ-REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 118 (196)
Q Consensus 43 a~L~~~~~~~ga~lag~-~~~~~~~l~~~g~~lGiafQi~DD~ld~~~~~~~~gK~~~~Dl~~gk~T~p~i~al~~~ 118 (196)
|..+..+.-.|+...+. .....-.+.-+.--..++|.+..|+.|..+|. +.|..|.|+.+-.+..
T Consensus 147 g~~~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~D~-----------~~G~~s~~~~~G~~~a 212 (289)
T COG0382 147 GLAFGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEGDR-----------KAGLKSLPVLFGIKKA 212 (289)
T ss_pred HHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccchH-----------hcCCcchHHHhCchhH
Confidence 44456666666655543 23344567777788889999999999997764 5677888888755443
No 62
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.20 E-value=4.8e+02 Score=25.64 Aligned_cols=68 Identities=26% Similarity=0.292 Sum_probs=49.0
Q ss_pred cHHHHHHhcCCCCh--hhHHHHHHHHHhccHHHHHHHHHHHH----------------HHHHHHHhccCCCCCCcchHHH
Q 029266 119 PQLRAFINSSSDNP--ANVDVILEYLGKSHGIQRTTELALKH----------------ASLAAAAIDSLPETHDVDATNA 180 (196)
Q Consensus 119 ~~~~~~~~~~~~~~--~~~~~i~~~~~~~g~~~~~~~~~~~~----------------~~~a~~~l~~lp~~~~~~~~~~ 180 (196)
+.+.+++++...+. -+++.+.+++.+++..+.+..++.++ .++|...+..+|++. .
T Consensus 448 ~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~slp~~e------~ 521 (933)
T KOG2114|consen 448 EKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYISSLPISE------L 521 (933)
T ss_pred HHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHhcCCHHH------H
Confidence 56777777665332 25788999999999999888777665 458888889999876 5
Q ss_pred HHHHHHHHHHHH
Q 029266 181 RTALVHITQKII 192 (196)
Q Consensus 181 ~~~L~~l~~~~~ 192 (196)
-+.+...-..++
T Consensus 522 l~~l~kyGk~Ll 533 (933)
T KOG2114|consen 522 LRTLNKYGKILL 533 (933)
T ss_pred HHHHHHHHHHHH
Confidence 555555554444
No 63
>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=21.20 E-value=4.3e+02 Score=21.07 Aligned_cols=59 Identities=12% Similarity=-0.042 Sum_probs=35.7
Q ss_pred HHHHHHHHhcchHHHHHHH-HHHHHHHcCCCH---HHHHHHHHHHHHHHHHHchhhcccccccc
Q 029266 31 MECYMQKTYNKTAALVSNS-CKAVAYLSGQRE---EVATLAFEYGKNLGLAYQLIDDILDFTGT 90 (196)
Q Consensus 31 ~~~yl~~~~~KTa~L~~~~-~~~ga~lag~~~---~~~~~l~~~g~~lGiafQi~DD~ld~~~~ 90 (196)
.++|+.+-..=+|..+.+. +..+.- -..++ .....+.++....+..-=+.||+..+-.+
T Consensus 153 ~~eYl~~R~~~~g~~~~~~l~~~~~g-~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE 215 (284)
T cd00868 153 FEEYLENRRVSIGYPPLLALSFLGMG-DILPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKE 215 (284)
T ss_pred HHHHHHhceehhhHHHHHHHHHHHcC-CCCCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHH
Confidence 5778766555444443222 222211 11233 44667888888888888999999998654
No 64
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=20.96 E-value=4.6e+02 Score=21.31 Aligned_cols=49 Identities=18% Similarity=0.233 Sum_probs=33.5
Q ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHHHHhccCCCCCCcchHHHHHHHHHHHH
Q 029266 136 DVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQ 189 (196)
Q Consensus 136 ~~i~~~~~~~g~~~~~~~~~~~~~~~a~~~l~~lp~~~~~~~~~~~~~L~~l~~ 189 (196)
+.+...+.--++++.+++.+.++...-...+...+...+ ++..|..+++
T Consensus 124 EAligAiylD~g~~~~~~~i~~l~~~~~~~~~~~~~~~D-----~Kt~LQe~~q 172 (235)
T COG0571 124 EALIGAIYLDSGLEAARKFILKLFLPRLEEIDAGDQFKD-----PKTRLQELLQ 172 (235)
T ss_pred HHHHHHHHHhCChHHHHHHHHHHHHHHHhhccccccccC-----hhHHHHHHHH
Confidence 334433333335999999999999988887776664222 7788877665
Done!