Query 025823
Match_columns 247
No_of_seqs 224 out of 1304
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 09:58:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025823.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025823hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10888 octaprenyl diphosphat 100.0 3.1E-54 6.7E-59 378.3 26.5 234 1-247 87-323 (323)
2 COG0142 IspA Geranylgeranyl py 100.0 6.5E-54 1.4E-58 376.4 25.4 232 1-247 89-322 (322)
3 TIGR02748 GerC3_HepT heptapren 100.0 1.3E-53 2.8E-58 374.4 26.0 232 1-247 86-319 (319)
4 PLN02890 geranyl diphosphate s 100.0 3.9E-53 8.3E-58 379.5 26.2 231 1-247 184-422 (422)
5 TIGR02749 prenyl_cyano solanes 100.0 5.6E-53 1.2E-57 370.4 25.8 231 1-247 90-322 (322)
6 PLN02857 octaprenyl-diphosphat 100.0 4.4E-52 9.6E-57 372.9 24.8 231 1-247 184-416 (416)
7 CHL00151 preA prenyl transfera 100.0 7.6E-52 1.6E-56 363.8 25.1 230 1-246 91-322 (323)
8 PRK10581 geranyltranstransfera 100.0 1.1E-46 2.4E-51 327.2 21.7 202 1-247 89-299 (299)
9 KOG0776 Geranylgeranyl pyropho 100.0 5E-45 1.1E-49 317.6 21.9 230 1-245 153-384 (384)
10 cd00685 Trans_IPPS_HT Trans-Is 100.0 1.4E-43 3E-48 303.3 21.5 196 1-245 62-259 (259)
11 KOG0711 Polyprenyl synthetase 100.0 5.9E-43 1.3E-47 294.6 20.2 244 1-247 101-347 (347)
12 PF00348 polyprenyl_synt: Poly 100.0 3.8E-43 8.3E-48 300.6 13.3 200 1-212 56-259 (260)
13 cd00867 Trans_IPPS Trans-Isopr 100.0 1.1E-34 2.3E-39 244.8 20.8 192 1-245 41-236 (236)
14 KOG0777 Geranylgeranyl pyropho 100.0 9.2E-32 2E-36 217.7 16.0 216 2-235 79-298 (322)
15 cd00385 Isoprenoid_Biosyn_C1 I 99.8 8E-18 1.7E-22 139.9 23.5 202 1-241 33-240 (243)
16 PLN02632 phytoene synthase 96.5 0.14 2.9E-06 45.6 14.8 135 59-229 142-279 (334)
17 TIGR03465 HpnD squalene syntha 96.2 0.4 8.7E-06 41.1 15.6 130 59-228 87-217 (266)
18 TIGR03464 HpnC squalene syntha 96.0 0.6 1.3E-05 40.1 15.6 130 60-229 89-219 (266)
19 cd00683 Trans_IPPS_HH Trans-Is 96.0 0.31 6.7E-06 41.7 13.7 132 58-228 94-226 (265)
20 TIGR01559 squal_synth farnesyl 95.5 0.92 2E-05 40.4 15.3 149 50-229 101-249 (336)
21 PF00494 SQS_PSY: Squalene/phy 95.5 0.44 9.5E-06 40.7 13.0 142 55-233 89-232 (267)
22 cd00687 Terpene_cyclase_nonpla 91.6 8.5 0.00018 33.3 15.6 105 50-171 129-239 (303)
23 COG1562 ERG9 Phytoene/squalene 90.3 12 0.00025 32.7 13.5 136 56-229 102-237 (288)
24 PF07307 HEPPP_synt_1: Heptapr 87.5 4.1 8.9E-05 33.8 8.1 62 21-97 72-134 (212)
25 cd00684 Terpene_cyclase_plant_ 82.1 48 0.001 31.6 13.9 106 50-172 356-467 (542)
26 PF06783 UPF0239: Uncharacteri 79.3 2.8 6.2E-05 29.3 3.3 29 115-143 14-42 (85)
27 cd00868 Terpene_cyclase_C1 Ter 70.4 65 0.0014 27.2 14.4 106 50-172 122-233 (284)
28 PRK10888 octaprenyl diphosphat 69.8 13 0.00027 33.0 5.9 49 108-167 55-103 (323)
29 PRK12884 ubiA prenyltransferas 66.1 16 0.00034 31.4 5.7 61 101-171 139-199 (279)
30 PRK13105 ubiA prenyltransferas 65.6 16 0.00035 31.7 5.6 34 129-172 172-205 (282)
31 PF00348 polyprenyl_synt: Poly 65.2 33 0.00072 29.1 7.4 54 105-169 21-74 (260)
32 cd00685 Trans_IPPS_HT Trans-Is 64.9 21 0.00045 30.3 6.1 32 110-141 31-63 (259)
33 PRK12872 ubiA prenyltransferas 57.7 25 0.00053 30.2 5.4 35 128-172 172-206 (285)
34 PF01040 UbiA: UbiA prenyltran 57.6 29 0.00063 28.8 5.7 57 105-171 133-190 (257)
35 TIGR02748 GerC3_HepT heptapren 56.9 31 0.00067 30.4 5.9 47 109-166 55-101 (319)
36 PLN00012 chlorophyll synthetas 56.2 18 0.0004 32.7 4.4 35 127-171 262-296 (375)
37 PLN02279 ent-kaur-16-ene synth 55.2 2.4E+02 0.0051 28.4 14.4 102 50-170 590-697 (784)
38 PRK10581 geranyltranstransfera 53.9 33 0.00072 30.0 5.6 49 109-168 56-106 (299)
39 PRK13595 ubiA prenyltransferas 47.7 42 0.00091 29.3 5.1 60 101-172 155-214 (292)
40 PF03936 Terpene_synth_C: Terp 43.4 1.9E+02 0.0041 24.0 12.4 105 51-171 138-247 (270)
41 PRK12871 ubiA prenyltransferas 42.2 48 0.001 28.9 4.7 33 129-171 187-219 (297)
42 PRK12882 ubiA prenyltransferas 42.1 89 0.0019 26.7 6.4 35 128-172 168-202 (276)
43 TIGR02749 prenyl_cyano solanes 42.0 67 0.0015 28.4 5.7 40 117-167 67-106 (322)
44 PRK09573 (S)-2,3-di-O-geranylg 41.9 76 0.0017 27.2 5.9 31 131-171 168-198 (279)
45 TIGR02056 ChlG chlorophyll syn 41.4 58 0.0013 28.5 5.1 34 129-172 195-228 (306)
46 PRK13591 ubiA prenyltransferas 40.0 6.2 0.00014 34.7 -1.1 31 132-172 194-224 (307)
47 CHL00151 preA prenyl transfera 39.9 78 0.0017 27.9 5.8 37 121-168 72-108 (323)
48 cd00867 Trans_IPPS Trans-Isopr 37.4 1.1E+02 0.0023 25.1 6.0 41 102-142 3-43 (236)
49 COG0382 UbiA 4-hydroxybenzoate 37.2 1E+02 0.0022 26.6 6.0 62 101-172 150-212 (289)
50 PRK12883 ubiA prenyltransferas 36.2 85 0.0018 26.8 5.3 32 130-171 167-198 (277)
51 PF04284 DUF441: Protein of un 34.5 1.6E+02 0.0034 22.8 5.9 73 94-171 13-86 (140)
52 KOG2114 Vacuolar assembly/sort 34.2 2.3E+02 0.0051 28.6 8.2 65 178-242 448-532 (933)
53 PF09053 CagZ: CagZ; InterPro 34.0 33 0.00071 26.2 2.0 11 126-136 142-152 (199)
54 PHA02130 hypothetical protein 33.6 22 0.00047 23.6 0.9 32 136-167 31-65 (81)
55 PRK12887 ubiA tocopherol phyty 33.0 56 0.0012 28.7 3.7 35 128-172 193-227 (308)
56 PRK13387 1,4-dihydroxy-2-napht 32.4 1.6E+02 0.0035 25.9 6.6 60 84-144 2-66 (317)
57 PF05823 Gp-FAR-1: Nematode fa 32.1 1.9E+02 0.0042 22.6 6.3 22 165-186 14-35 (154)
58 TIGR01474 ubiA_proteo 4-hydrox 31.7 1.3E+02 0.0028 25.9 5.7 61 101-171 143-204 (281)
59 TIGR01475 ubiA_other putative 31.4 1.2E+02 0.0026 26.0 5.5 30 132-171 173-202 (282)
60 TIGR01476 chlor_syn_BchG bacte 29.7 18 0.00038 31.2 -0.0 32 131-172 175-206 (283)
61 PRK12875 ubiA prenyltransferas 29.6 1E+02 0.0023 26.7 4.8 35 127-171 175-209 (282)
62 PRK12878 ubiA 4-hydroxybenzoat 24.9 2.9E+02 0.0064 24.2 6.8 79 84-164 29-119 (314)
63 PF02313 Fumarate_red_D: Fumar 24.9 31 0.00068 25.8 0.6 20 1-20 1-20 (118)
64 COG3080 FrdD Fumarate reductas 24.8 35 0.00075 25.1 0.8 20 1-20 2-21 (118)
65 PRK12884 ubiA prenyltransferas 24.2 4.4E+02 0.0096 22.3 8.3 78 84-164 3-82 (279)
66 PRK12392 bacteriochlorophyll c 23.9 89 0.0019 27.8 3.4 40 122-171 185-224 (331)
67 TIGR01473 cyoE_ctaB protoheme 23.9 2.6E+02 0.0057 23.9 6.3 72 87-163 2-81 (280)
68 COG5559 Uncharacterized conser 23.3 1.1E+02 0.0023 20.0 2.7 27 218-245 3-29 (65)
69 PRK09573 (S)-2,3-di-O-geranylg 23.0 4.8E+02 0.01 22.2 7.7 76 84-162 2-80 (279)
70 PRK07566 bacteriochlorophyll/c 22.8 29 0.00063 30.5 0.1 31 131-171 203-233 (314)
71 PF10047 DUF2281: Protein of u 22.7 1.3E+02 0.0028 19.8 3.2 29 217-246 3-31 (66)
72 PF15080 DUF4547: Domain of un 22.2 4.1E+02 0.0089 21.2 8.7 73 154-226 78-154 (196)
73 PF14394 DUF4423: Domain of un 22.0 3.8E+02 0.0082 21.2 6.4 41 188-228 54-117 (171)
74 COG0142 IspA Geranylgeranyl py 21.8 1.8E+02 0.0039 25.6 4.9 38 120-168 69-106 (322)
75 PRK04375 protoheme IX farnesyl 21.3 5.3E+02 0.011 22.3 7.7 75 83-162 8-89 (296)
76 PLN02878 homogentisate phytylt 21.2 72 0.0016 27.7 2.2 38 125-172 164-201 (280)
77 PF06304 DUF1048: Protein of u 20.6 53 0.0011 24.0 1.1 15 131-145 45-59 (103)
78 TIGR03042 PS_II_psbQ_bact phot 20.4 4.1E+02 0.009 20.6 8.2 31 114-144 30-60 (142)
No 1
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=100.00 E-value=3.1e-54 Score=378.35 Aligned_cols=234 Identities=19% Similarity=0.244 Sum_probs=215.9
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|++||+. +|++||+++.. +|+++.+. ...+++..+++++..+++||.+|+.+..+..
T Consensus 87 ~D~s~~RRG~pt~~~~~G~~~Ail~GD~L~~~--a~~~l~~~-----~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~~-- 157 (323)
T PRK10888 87 VDESDMRRGKATANAAFGNAASVLVGDFIYTR--AFQMMTSL-----GSLKVLEVMSEAVNVIAEGEVLQLMNVNDPD-- 157 (323)
T ss_pred ccCCcccCCCCCHHHHhCccHHHHHHHHHHHH--HHHHHHhC-----CCHHHHHHHHHHHHHHHHHHHHHHHhccCCC--
Confidence 79999999999999999998 89999999964 68888764 2467889999999999999999998765432
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++|+.+|||+| |++||.+|++++|++++.++.+++||.++|+||||+||++||+++++.+|| .|+||++
T Consensus 158 ---~s~~~y~~~i~~KTa~l-f~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~~ 233 (323)
T PRK10888 158 ---ITEENYMRVIYSKTARL-FEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNE 233 (323)
T ss_pred ---CCHHHHHHHHHHHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhhc
Confidence 69999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCC-hHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVD-PACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKS 237 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~-~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~ 237 (247)
||+|||++++++..+++.++.+..++++.+ ++++.++.+++.++|+++++++++++|.++|++.|+.+|+++.++.|..
T Consensus 234 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~~~~~L~~ 313 (323)
T PRK10888 234 GKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTPWREALIG 313 (323)
T ss_pred CCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 999999999999988888888988887653 5678999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccC
Q 025823 238 FLAKIYKRQK 247 (247)
Q Consensus 238 l~~~~~~R~~ 247 (247)
+++++++|.+
T Consensus 314 l~~~~~~R~~ 323 (323)
T PRK10888 314 LAHIAVQRDR 323 (323)
T ss_pred HHHHHHhCcC
Confidence 9999999964
No 2
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=100.00 E-value=6.5e-54 Score=376.38 Aligned_cols=232 Identities=27% Similarity=0.312 Sum_probs=215.8
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|.+||+. +|++||++++. +|+++++...+ ...+.+.+++++..||.||.+|+.+..+.
T Consensus 89 mD~s~~RRG~pt~~~~~g~~~AIlaGD~L~~~--Af~~l~~~~~~---~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~--- 160 (322)
T COG0142 89 MDDDDLRRGKPTVHAKFGEATAILAGDALLAA--AFELLSKLGSE---ALEAIKALAEAINGLCGGQALDLAFENKP--- 160 (322)
T ss_pred ccCCCccCCCCCchhHhccHHHHHHHHHHHHH--HHHHHHhCCch---hHHHHHHHHHHHHHHHHhHHHHHHccCCC---
Confidence 89999999999999999998 89999999964 79999875321 37789999999999999999999998764
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+|+++|++||++|||+| |+++|.+|+++++++++..+.+++||.++|+||||+||+||++|+++++|| +|+|+++
T Consensus 161 ---~t~e~y~~~i~~KTa~L-~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~Dl~~ 236 (322)
T COG0142 161 ---VTLEEYLRVIELKTAAL-FAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKE 236 (322)
T ss_pred ---CCHHHHHHHHHHHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcchHHHc
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|||++++++.++++.+ .+...+.... +++++++++.++|+++++..+++.|.++|++.|+.+|+++.++.|..+
T Consensus 237 gK~T~p~l~~l~~~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~~~~~L~~l 313 (322)
T COG0142 237 GKPTLPVLLALEKANEDQK-LLRILLEGGG--EVEEALELLRKSGAIEYAKNLAKTYVEKAKEALEKLPDSEAKEALLEL 313 (322)
T ss_pred CCchHHHHHHHHcCchhhH-HHHHHhhcch--HHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence 9999999999999988777 7777666544 999999999999999999999999999999999999988999999999
Q ss_pred HHHHHhccC
Q 025823 239 LAKIYKRQK 247 (247)
Q Consensus 239 ~~~~~~R~~ 247 (247)
++++++|.+
T Consensus 314 a~~i~~R~~ 322 (322)
T COG0142 314 ADFIIKRKY 322 (322)
T ss_pred HHHHHhccC
Confidence 999999974
No 3
>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=1.3e-53 Score=374.38 Aligned_cols=232 Identities=17% Similarity=0.161 Sum_probs=213.6
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|.+||+. +|++||+|++. +|+++++. ...++++.+++++..++.||.+|+.+..+..
T Consensus 86 ~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~--a~~~l~~~-----~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~-- 156 (319)
T TIGR02748 86 IDDADLRRGRPTIKSKWGNRIAMYTGDYLFAK--SLETMTEI-----KDPRAHQILSHTIVEVCRGEIEQIKDKYNFD-- 156 (319)
T ss_pred cCCCCCCCCCcCHHHHhChHHHHHHHHHHHHH--HHHHHHhC-----CcHHHHHHHHHHHHHHHHHHHHHHHhccCCC--
Confidence 79999999999999999998 89999999965 68888764 1357888999999999999999998765432
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++|+.+|||+| |.+||.+|++++|++++.++.+++||.++|+||||+||++||+++++.+|| .|+||++
T Consensus 157 ---~~~~~Y~~~i~~KTa~L-~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~~ 232 (319)
T TIGR02748 157 ---QNLRTYLRRIKRKTALL-IAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQ 232 (319)
T ss_pred ---CCHHHHHHHHHHHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHhC
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|+|++++++..+ .++.+..++++.+++++.++.+++.++|++++++.++++|.++|++.|+.+|+++.++.|..+
T Consensus 233 gk~Tlp~l~al~~~~--~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l 310 (319)
T TIGR02748 233 GNVTLPVLYAMEDPF--LKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGRAKKPLQEI 310 (319)
T ss_pred CCchHHHHHHhcCcc--hhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 999999999998533 677888888876788999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccC
Q 025823 239 LAKIYKRQK 247 (247)
Q Consensus 239 ~~~~~~R~~ 247 (247)
++++.+|.+
T Consensus 311 ~~~~~~R~~ 319 (319)
T TIGR02748 311 AKYIGKRKY 319 (319)
T ss_pred HHHHHhccC
Confidence 999999975
No 4
>PLN02890 geranyl diphosphate synthase
Probab=100.00 E-value=3.9e-53 Score=379.51 Aligned_cols=231 Identities=21% Similarity=0.227 Sum_probs=207.8
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|.+||+. ||++|||+++. ++..+... ...++++.+++++..+++||++|+.+..+..
T Consensus 184 iD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~--A~~~l~~~-----~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~~~-- 254 (422)
T PLN02890 184 LDDADTRRGVGSLNVVMGNKLSVLAGDFLLSR--ACVALAAL-----KNTEVVSLLATAVEHLVTGETMQITSSREQR-- 254 (422)
T ss_pred ccCCCCcCCCcChhhhcChHHHHHHHHHHHHH--HHHHHHcC-----CcHHHHHHHHHHHHHHHHHHHHHHHhccCCC--
Confidence 79999999999999999998 89999999965 67777653 2467899999999999999999998876543
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++++.+|||+| |++||++||+++|++++.++.+++||.++|+||||+||++||+|+++.+|| .|+||++
T Consensus 255 ---~s~~~Yl~~i~~KTa~L-f~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~~~~~GK~~g~DL~e 330 (422)
T PLN02890 255 ---RSMDYYMQKTYYKTASL-ISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRH 330 (422)
T ss_pred ---CCHHHHHHHHHHhHHHH-HHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhhhCCCchhhHhc
Confidence 69999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChH------HH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKE------VQ 232 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~------~~ 232 (247)
||+|+|++++++. .++.++.+... ..++++++++.+++.++|+++++++.+++|.++|++.|+.+|+++ .+
T Consensus 331 Gk~TlPvl~al~~-~~~l~~~l~~~--~~~~~~v~~~~~~i~~~gaie~a~~la~~~~~~A~~~L~~lp~s~~~~~~~~r 407 (422)
T PLN02890 331 GVITAPILFAMEE-FPQLREVVDRG--FDNPANVDIALEYLGKSRGIQRTRELAREHANLAAAAIESLPETDDEDVLTSR 407 (422)
T ss_pred CCccHHHHHHHhc-CHHHHHHHhcc--cCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCccccchHHH
Confidence 9999999999975 34434444321 125788999999999999999999999999999999999999876 79
Q ss_pred HHHHHHHHHHHhccC
Q 025823 233 AVLKSFLAKIYKRQK 247 (247)
Q Consensus 233 ~~L~~l~~~~~~R~~ 247 (247)
+.|..|++++++|.|
T Consensus 408 ~~L~~L~~~vi~R~k 422 (422)
T PLN02890 408 RALIDLTERVITRNK 422 (422)
T ss_pred HHHHHHHHHHHhccC
Confidence 999999999999986
No 5
>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=5.6e-53 Score=370.44 Aligned_cols=231 Identities=22% Similarity=0.238 Sum_probs=208.6
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|++||+. ||++||++++. ++..++.. ...++++.+++++..++.||++|+.+..+..
T Consensus 90 iD~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~--a~~~l~~~-----~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~-- 160 (322)
T TIGR02749 90 IDESDTRRGIETVHSLFGTRVAVLAGDFLFAQ--ASWYLANL-----ENLEVVKLISKVITDFAEGEIKQGLNQFDSD-- 160 (322)
T ss_pred ccCccccCCCccHHHHhCcHHHHHHHHHHHHH--HHHHHHhc-----CCHHHHHHHHHHHHHHHHHHHHHHHcccCCC--
Confidence 79999999999999999998 89999999965 67888754 1357899999999999999999987765432
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++|+.+|||+| |++||++|++++|++++.++.+++||.++|+||||+||++|++++++.+|| .|+||++
T Consensus 161 ---~~~~~y~~~~~~KTa~L-~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g~Dl~~ 236 (322)
T TIGR02749 161 ---LSLEDYLEKSFYKTASL-VAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMK 236 (322)
T ss_pred ---CCHHHHHHHHHccHHHH-HHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChhHHHhC
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|+|++++++. .++.++.+..... ++++++++.+++.++|++++++++++++.++|++.|+.+|+++.++.|..|
T Consensus 237 Gk~Tlp~l~al~~-~~~~~~~l~~~~~--~~~~~~~~~~~i~~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~~~~~L~~l 313 (322)
T TIGR02749 237 GNLTAPVLFALEE-EPKLSELIEREFS--QKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPPSPPREALKEL 313 (322)
T ss_pred CCchHHHHHHHhc-ChHHHHHHHhccC--CHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence 9999999999986 4544555543332 567899999999999999999999999999999999999998899999999
Q ss_pred HHHHHhccC
Q 025823 239 LAKIYKRQK 247 (247)
Q Consensus 239 ~~~~~~R~~ 247 (247)
++++.+|.+
T Consensus 314 ~~~~~~R~~ 322 (322)
T TIGR02749 314 VHFVLSRLY 322 (322)
T ss_pred HHHHHhcCC
Confidence 999999975
No 6
>PLN02857 octaprenyl-diphosphate synthase
Probab=100.00 E-value=4.4e-52 Score=372.86 Aligned_cols=231 Identities=22% Similarity=0.258 Sum_probs=208.4
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|.+||+. ||++||+|++. ++..+++. ...++++++++++..++.||+.|+.+..+..
T Consensus 184 ~D~s~~RRG~pt~h~~~G~~~AIlaGD~L~a~--A~~~la~~-----~~~~~~~~~s~~~~~l~~Gei~q~~~~~~~~-- 254 (416)
T PLN02857 184 LDESDMRRGKETVHQLYGTRVAVLAGDFMFAQ--SSWYLANL-----DNLEVIKLISQVIKDFASGEIKQASSLFDCD-- 254 (416)
T ss_pred ccCCcccCCCCCccccCCcceeeeHHHHHHHH--HHHHHHcC-----CcHHHHHHHHHHHHHHHhhHHHHHhcccCCC--
Confidence 79999999999999999998 89999999965 67888754 2467899999999999999999988765432
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++++++|||+| |++||++|++++|++++.++.+++||.++|+||||+||++||+++++.+|| .|+||++
T Consensus 255 ---~s~~~Yl~~i~~KTa~L-~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~GK~~g~DL~e 330 (416)
T PLN02857 255 ---VTLDEYLLKSYYKTASL-IAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLAK 330 (416)
T ss_pred ---CCHHHHHHHHHHhHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHhCCCcchhhhc
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|+|++++++. .++.++.+.... .++++++++.++++++|++++++++++++.++|++.|+.||+++.++.|..|
T Consensus 331 GK~TlPli~al~~-~~~l~~~l~~~~--~~~~~~~~~~~lv~~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~~~~~L~~L 407 (416)
T PLN02857 331 GNLTAPVIFALEK-EPELREIIESEF--CEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECLPRGAFRSSLEDM 407 (416)
T ss_pred CCccHHHHHHHhc-ChHHHHHHhhcc--CCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence 9999999999997 454444443322 2568899999999999999999999999999999999999998889999999
Q ss_pred HHHHHhccC
Q 025823 239 LAKIYKRQK 247 (247)
Q Consensus 239 ~~~~~~R~~ 247 (247)
++++++|.+
T Consensus 408 ~~~~~~R~~ 416 (416)
T PLN02857 408 VDYNLERIY 416 (416)
T ss_pred HHHHHhccC
Confidence 999999975
No 7
>CHL00151 preA prenyl transferase; Reviewed
Probab=100.00 E-value=7.6e-52 Score=363.82 Aligned_cols=230 Identities=20% Similarity=0.255 Sum_probs=206.4
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|++||+. ||++||++++. +|.+++.. ....+.+.+++++..++.||..|..+..+..
T Consensus 91 ~D~s~~RRG~pt~h~~~G~~~Ail~GD~l~~~--a~~~l~~~-----~~~~~~~~~~~~~~~l~~G~~~~~~~~~~~~-- 161 (323)
T CHL00151 91 IDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQ--SSWYLANL-----NNLEVVKLISKVITDFAEGEIRQGLVQFDTT-- 161 (323)
T ss_pred ccCccccCCCccHHHHhCCcchhhhHHHHHHH--HHHHHHhC-----CChHHHHHHHHHHHHHHHHHHHHHhcCCCCC--
Confidence 79999999999999999997 89999999965 67888654 1356788999999999999999987754432
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++|+.+|||+| |++||.+|++++|++++.++.+++||.++|+||||+||++|++|+++.+|| .|+||++
T Consensus 162 ---~~~~~yl~~i~~KTa~L-~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g~Dl~e 237 (323)
T CHL00151 162 ---LSILNYIEKSFYKTASL-IAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKN 237 (323)
T ss_pred ---CCHHHHHHHHHhHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCchhhHhc
Confidence 59999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|||++++++. .++.++.+.... .++++++++.+++.++|+++++++++.+|.++|++.|+.+|.++.++.|..+
T Consensus 238 Gk~Tlp~l~al~~-~~~~~~~l~~~~--~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L~~l 314 (323)
T CHL00151 238 GNLTAPVLFALTQ-NSKLAKLIEREF--CETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSSAKDSLIEI 314 (323)
T ss_pred CchHHHHHHHHhc-ChHHHHHHHHhc--CCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence 9999999999986 444444443322 2567899999999999999999999999999999999999998889999999
Q ss_pred HHHHHhcc
Q 025823 239 LAKIYKRQ 246 (247)
Q Consensus 239 ~~~~~~R~ 246 (247)
++++++|.
T Consensus 315 ~~~~~~R~ 322 (323)
T CHL00151 315 ANFIINRL 322 (323)
T ss_pred HHHHHhcc
Confidence 99999986
No 8
>PRK10581 geranyltranstransferase; Provisional
Probab=100.00 E-value=1.1e-46 Score=327.15 Aligned_cols=202 Identities=23% Similarity=0.269 Sum_probs=173.3
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCc---hHHHHHHHHHHH--HHHHhhHHHhhhcccc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKP---YYVDLLDLFNEV--EFQTASGQMIDLITTI 74 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~--~~~~~~GQ~~d~~~~~ 74 (247)
||+|++|||+||+|++||++ ||++||+|++. +|+++++...... ...++++.++.+ +..++.||.+|+.+..
T Consensus 89 ~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~--a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~ 166 (299)
T PRK10581 89 MDDDDLRRGLPTCHVKFGEANAILAGDALQTL--AFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEG 166 (299)
T ss_pred ccCCCccCCCcChHHHhCcchHHHHHHHHHHH--HHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccC
Confidence 79999999999999999987 89999999954 7888876421111 123455555654 4679999999998865
Q ss_pred cCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCCh-HHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-c
Q 025823 75 EGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENL-DKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-V 152 (247)
Q Consensus 75 ~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~-~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~ 152 (247)
. .+++++|++|+.+|||+| |.+||.+|++++|+++ +.++.+++||.++|+||||+||++|++|+++.+|| .
T Consensus 167 ~------~~~~~~y~~i~~~KTa~L-~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~ 239 (299)
T PRK10581 167 K------QVPLDALERIHRHKTGAL-IRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQ 239 (299)
T ss_pred C------CCCHHHHHHHHHHhhHHH-HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCc
Confidence 3 159999999999999999 9999999999999864 57899999999999999999999999999999999 9
Q ss_pred cchHhhCcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHH-
Q 025823 153 GTDIEDYKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEV- 231 (247)
Q Consensus 153 ~~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~- 231 (247)
|+|+++||+|||++++++ ++++.+++|.++|++.|+.+|.++.
T Consensus 240 g~Dl~~gk~T~p~l~~~e------------------------------------~a~~~a~~~~~~A~~~l~~l~~~~~~ 283 (299)
T PRK10581 240 GADQQLGKSTYPALLGLE------------------------------------QARKKARDLIDDARQSLDQLAAQSLD 283 (299)
T ss_pred chhhhcCCCCHHHHHHHH------------------------------------HHHHHHHHHHHHHHHHHHhCcCCchh
Confidence 999999999999999764 4556788999999999999987554
Q ss_pred HHHHHHHHHHHHhccC
Q 025823 232 QAVLKSFLAKIYKRQK 247 (247)
Q Consensus 232 ~~~L~~l~~~~~~R~~ 247 (247)
++.|..|++++++|.+
T Consensus 284 ~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 284 TSALEALANYIIQRDK 299 (299)
T ss_pred HHHHHHHHHHHHhccC
Confidence 7899999999999975
No 9
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=5e-45 Score=317.59 Aligned_cols=230 Identities=21% Similarity=0.218 Sum_probs=204.2
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||++++|||+||.|+.||++ +|++||+|++. |+..++.+- ++.+.++++.++.+++.|++.+...... ..|
T Consensus 153 mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~--A~~~la~l~-----n~~v~elm~~aI~dLv~ge~~~~~~~~~-~~d 224 (384)
T KOG0776|consen 153 MDDADLRRGKPTNHKVFGNKMAVLAGDALLAL--ASEHLASLE-----NPVVVELMASAIADLVRGEFTQGLVAGE-GLD 224 (384)
T ss_pred ccccccccCCCCcchhhcchhhhhhhHHHHHH--HHHHHHhcc-----CchHHHHHHHHHHHHHHhhhhccccccc-ccc
Confidence 79999999999999999999 89999999965 788887652 3478899999999999999999887652 234
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
.++..++.|+.++.+|||+| ++.+|++|++++|.+++.++.+++||+++|++||+.||++||....+.+|| .|.|+..
T Consensus 225 ~~~~~~e~~e~~~~~KTAsL-la~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~~ 303 (384)
T KOG0776|consen 225 LDDVGLEYLEFKTLLKTASL-LAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLKA 303 (384)
T ss_pred cCCcchHHHHHHHHHHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhhh
Confidence 45568999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
|+.|+|+++++++. |+.++.|.+-+..+ .+..+..+.+. ++..+..++++|.++|++.|+.+|.++.|.+|..|
T Consensus 304 g~lT~P~Lf~~e~~-pe~~e~l~~~~~e~--~~~~~~~k~v~---~v~~a~~la~~~~~~Al~~l~~~p~s~ar~aL~~l 377 (384)
T KOG0776|consen 304 GKLTAPVLFALEKS-PELREKLEREFSEP--LDGFDADKAVP---GVALAKYLARRHNNKALEALQSLPRSEARSALENL 377 (384)
T ss_pred ccccccchhhhhhC-hHHHHHHHHhcccc--chhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHH
Confidence 99999999999994 56777777666543 34555555555 88899999999999999999999999999999999
Q ss_pred HHHHHhc
Q 025823 239 LAKIYKR 245 (247)
Q Consensus 239 ~~~~~~R 245 (247)
+..+..|
T Consensus 378 ~~~~~~r 384 (384)
T KOG0776|consen 378 VLAVLTR 384 (384)
T ss_pred HHHHhcC
Confidence 9999876
No 10
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=100.00 E-value=1.4e-43 Score=303.29 Aligned_cols=196 Identities=33% Similarity=0.499 Sum_probs=178.1
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCcc
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKD 79 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d 79 (247)
||+|++|||+||+|.+||+. ||++||+++.. +++++++.... ...++++.+++++..++.||.+|+.+..+..
T Consensus 62 ~D~s~~RRG~p~~~~~~G~~~Ail~gd~l~~~--a~~~l~~~~~~--~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~-- 135 (259)
T cd00685 62 MDNSDLRRGKPTVHKVFGNATAILAGDYLLAR--AFELLARLGNP--YYPRALELFSEAILELVEGQLLDLLSEYDTD-- 135 (259)
T ss_pred ccCCcccCCCCcHHHHhCcccHHHHHHHHHHH--HHHHHHhCCCc--cHHHHHHHHHHHHHHHHHHHHHHHHccCCCC--
Confidence 79999999999999999998 89999999964 68888764221 3478999999999999999999999876522
Q ss_pred CCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhh
Q 025823 80 LSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 80 ~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
+++++|++|+.+|||+| |.++|.+|++++|++++.++.+++||.++|++|||+||++|++++++.+|| .++|+++
T Consensus 136 ---~~~~~y~~~~~~KT~~l-~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~ 211 (259)
T cd00685 136 ---VTEEEYLRIIRLKTAAL-FAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLRE 211 (259)
T ss_pred ---CCHHHHHHHHHHhHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHc
Confidence 69999999999999999 999999999999999999999999999999999999999999999999999 9999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVLKSF 238 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L~~l 238 (247)
||+|||+++++ ++.+..+.++|+..|+.+|.+..+..|..+
T Consensus 212 gk~T~~~~~~l---------------------------------------~~~~~~~~~~a~~~l~~~~~~~~~~~l~~~ 252 (259)
T cd00685 212 GKCTLPVLLAL---------------------------------------RELAREYEEKALEALKALPESPAREALRAL 252 (259)
T ss_pred CCchHHHHHHH---------------------------------------HHHHHHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence 99999999998 456788999999999999977778899999
Q ss_pred HHHHHhc
Q 025823 239 LAKIYKR 245 (247)
Q Consensus 239 ~~~~~~R 245 (247)
++++.+|
T Consensus 253 ~~~~~~r 259 (259)
T cd00685 253 ADFILER 259 (259)
T ss_pred HHHHHcC
Confidence 9999887
No 11
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=5.9e-43 Score=294.59 Aligned_cols=244 Identities=58% Similarity=0.927 Sum_probs=225.7
Q ss_pred CCCCCCccCchhhccccchhHHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCccC
Q 025823 1 MDGSHTRRGQPCWFRVPKVGMIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKDL 80 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~ 80 (247)
||+|.+|||+||||++.|.+..+++|++++.++...+|..+++..+...+++++|.+....++.||+++.. +...++
T Consensus 101 MDnS~tRRGqpCWy~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~f~T~lGdllt~~---~~~~~l 177 (347)
T KOG0711|consen 101 MDNSKTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVTFQTELGDLLTTP---EGNKDL 177 (347)
T ss_pred hccccccCCCcceeecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHHHHHhhhccccCc---ccchhH
Confidence 89999999999999999999889999999999999999999988888899999999999999999655543 334456
Q ss_pred CCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhC
Q 025823 81 SKYSLPLHRRIVQYKTAYYSFYLPVACALLMAG-ENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDY 159 (247)
Q Consensus 81 ~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~g 159 (247)
+.+|++.|..|+.+|||.|||.+|+++|.+++| .+.+.......+...+|..||++||+||++|||+.+||.|+||.++
T Consensus 178 s~fsl~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgkiGtDIqDn 257 (347)
T KOG0711|consen 178 SKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGKIGTDIQDN 257 (347)
T ss_pred hhhhHHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCCCCCccccC
Confidence 678999999999999999999999999999998 6777788999999999999999999999999999999999999999
Q ss_pred cccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCC--hHHHHHHHH
Q 025823 160 KCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPT--KEVQAVLKS 237 (247)
Q Consensus 160 k~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~--~~~~~~L~~ 237 (247)
|+||.+++|++++++++++.+...+++++++.++.++.++.+.+......++.+.........|+.++. ++....+..
T Consensus 258 KCsWlv~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~~f~~yE~~~~~~Ik~~I~~~~~~~~~~~~v~t~ 337 (347)
T KOG0711|consen 258 KCSWLVVKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPALFIEYEEGSYKKIKKLISQVDEDTGVKVKVGTS 337 (347)
T ss_pred ceeeehHHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHhhhhHHHHHHHHHHHccCCCcchhhhHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999998864 466778888
Q ss_pred HHHHHHhccC
Q 025823 238 FLAKIYKRQK 247 (247)
Q Consensus 238 l~~~~~~R~~ 247 (247)
+++++.+|++
T Consensus 338 fl~kiykr~k 347 (347)
T KOG0711|consen 338 FLNKIYKRSK 347 (347)
T ss_pred HHHHHHhhcC
Confidence 9999999975
No 12
>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=3.8e-43 Score=300.62 Aligned_cols=200 Identities=28% Similarity=0.365 Sum_probs=168.8
Q ss_pred CCCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCC--CchHHHHHHHHHHHHHHHhhHHHhhhcccccCC
Q 025823 1 MDGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRD--KPYYVDLLDLFNEVEFQTASGQMIDLITTIEGE 77 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~ 77 (247)
||+|++|||+||+|.+||++ +|++||++++. ++.++++.... .+....+.+.+...+.....||..|+.+....
T Consensus 56 ~D~s~~RRG~pt~~~~~G~~~Ail~gd~ll~~--a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~~- 132 (260)
T PF00348_consen 56 IDNSDLRRGKPTVHKKFGNAIAILAGDYLLAL--AFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDKD- 132 (260)
T ss_dssp HTTCSEETTEECHHHHHHHHHHHHHHHHHHHH--HHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSS-
T ss_pred hcccccCCCCccccccccccchhhhchHHHHH--HHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhcccccccc-
Confidence 69999999999999999998 89999999965 67888765311 11234556666666777788899999886441
Q ss_pred ccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchH
Q 025823 78 KDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDI 156 (247)
Q Consensus 78 ~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl 156 (247)
+++++|++|+++|||+| |++||++|++++|++++.++.+++||.++|+||||+||++|++++++.+|| .|+||
T Consensus 133 -----~~~~~y~~i~~~KTg~l-~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl 206 (260)
T PF00348_consen 133 -----PTEEEYLEIIRLKTGSL-FALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDL 206 (260)
T ss_dssp -----TSHHHHHHHHHHHTHHH-HHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHH
T ss_pred -----ccHHHHHHHHhhcchHH-HHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHH
Confidence 69999999999999999 999999999999999999999999999999999999999999999999999 89999
Q ss_pred hhCcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHH
Q 025823 157 EDYKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYE 212 (247)
Q Consensus 157 ~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~ 212 (247)
++||+|||++++++.++++.++.+....++ .+.+.+.+.+..++.++++++++
T Consensus 207 ~~gk~Tlp~~~al~~~~~~~~~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~ 259 (260)
T PF00348_consen 207 KEGKPTLPVLHALERAREELRELLQEAYGK---EDSEEALEIIAQTGALEYTRKFM 259 (260)
T ss_dssp HTTTSSHHHHHHHHHHHHHHHHHHHHHHHH---SHHHHHHHHHHHHHHHTHHHHHH
T ss_pred hcCcccHHHHHHHHhCHHHHHHHHHHHHcc---cchHHHHHHHHHHHHHHHHHhhc
Confidence 999999999999999777777777666543 24566777777777788877765
No 13
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=100.00 E-value=1.1e-34 Score=244.78 Aligned_cols=192 Identities=29% Similarity=0.347 Sum_probs=164.4
Q ss_pred CCCCCCccCchhhccc-cchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCc
Q 025823 1 MDGSHTRRGQPCWFRV-PKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEK 78 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~-~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~ 78 (247)
||++..|||+||+|.. ||+. ++++||+++.. ++..+.+.. ..++.+++++.+..+++||.+|+.+..+..
T Consensus 41 ~D~~~~rrg~~~~~~~~~g~~~ai~~gd~l~~~--a~~~l~~~~-----~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~- 112 (236)
T cd00867 41 VDDSDLRRGKPTAHLRRFGNALAILAGDYLLAR--AFQLLARLG-----YPRALELFAEALRELLEGQALDLEFERDTY- 112 (236)
T ss_pred ccCCccCCCCccHhHHhhCHhHHHHHHHHHHHH--HHHHHHhCC-----hHHHHHHHHHHHHHHHHHHHHHHHhccCCC-
Confidence 7999999999999999 9987 89999999865 677776541 467788999999999999999998865322
Q ss_pred cCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhh
Q 025823 79 DLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIED 158 (247)
Q Consensus 79 d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~ 158 (247)
+|+++|++++++|||++ |.++|.+++++++.+++..+.+.+||.++|+||||+||++|+++|++.+||.++|+++
T Consensus 113 ----~t~~~y~~~~~~Kta~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~~ 187 (236)
T cd00867 113 ----ETLDEYLEYCRYKTAGL-VGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLRE 187 (236)
T ss_pred ----CCHHHHHHHHHhccHHH-HHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCccHHHHHc
Confidence 69999999999999999 9999999999999998899999999999999999999999999999999999999999
Q ss_pred CcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChH--HHHHHH
Q 025823 159 YKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKE--VQAVLK 236 (247)
Q Consensus 159 gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~--~~~~L~ 236 (247)
||+|||++++ .+.+..+.+++.+.+..+++.. .+..+.
T Consensus 188 gr~tlp~~~~----------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (236)
T cd00867 188 GRITLPVILA----------------------------------------RERAAEYAEEAYAALEALPPSLPRARRALI 227 (236)
T ss_pred CCchHHHHHH----------------------------------------HHHHHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence 9999999998 2334455566666666665432 577788
Q ss_pred HHHHHHHhc
Q 025823 237 SFLAKIYKR 245 (247)
Q Consensus 237 ~l~~~~~~R 245 (247)
.++..+.+|
T Consensus 228 ~~~~~~~~r 236 (236)
T cd00867 228 ALADFLYRR 236 (236)
T ss_pred HHHHHHHhC
Confidence 888887765
No 14
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=99.98 E-value=9.2e-32 Score=217.71 Aligned_cols=216 Identities=16% Similarity=0.157 Sum_probs=178.1
Q ss_pred CCCCCccCchhhccccchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCccC
Q 025823 2 DGSHTRRGQPCWFRVPKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKDL 80 (247)
Q Consensus 2 D~~~~RRG~pt~~~~~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~ 80 (247)
|+|..|||.|+.|..||++ .|...+|++.. +.+.++.+. .+.++.+|.+-...++.||.+|+.|+....|
T Consensus 79 DNs~LRRG~pvaHsIyGvpStINtANY~yFl--alekV~qLd-----hP~a~kifteqLleLHrGQGldIYWRD~~tc-- 149 (322)
T KOG0777|consen 79 DNSPLRRGQPVAHSIYGVPSTINTANYMYFL--ALEKVSQLD-----HPNAIKIFTEQLLELHRGQGLDIYWRDFLTC-- 149 (322)
T ss_pred ccchhhcCCcchhhhccCcchhhhhHHHHHH--HHHHHHhcC-----CchHHHHHHHHHHHHhcCCCcceeeeccCcC--
Confidence 8999999999999999998 68888888754 567776642 2478899999999999999999999987665
Q ss_pred CCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhhC
Q 025823 81 SKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIEDY 159 (247)
Q Consensus 81 ~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~g 159 (247)
||+++|..|+..|||-| |.++..+.-..+... +.+..+-.-+|+.|||+||++++-.-+-.-.| .+.||.||
T Consensus 150 --Ptee~Yk~Mv~~KTGGL-F~La~rLMqlfS~~k----edl~pl~n~LGl~fQIRDDY~NL~~keysenKsFaEDlTEG 222 (322)
T KOG0777|consen 150 --PTEEMYKNMVMNKTGGL-FRLALRLMQLFSHHK----EDLVPLINLLGLIFQIRDDYLNLKDKEYSENKSFAEDLTEG 222 (322)
T ss_pred --CCHHHHHHHHHHhcccH-HHHHHHHHHHHHhcc----hhHHHHHHHHhHhhhhhhhhccchhhhhhcccchhhhhccC
Confidence 89999999999999999 999999988887543 35678888999999999999999765555678 99999999
Q ss_pred cccHHHHHHHhhcCHHHHHHHHHhhCCC-ChHhH-HHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCChHHHHHH
Q 025823 160 KCSWLVVKALELCNEEQKKLVHENYGKV-DPACV-AKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTKEVQAVL 235 (247)
Q Consensus 160 k~Tlp~l~al~~~~~~~~~~l~~~~~~~-~~~~~-~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~~~~~~L 235 (247)
|.++|+++|+... ++. +.+..++... ++-++ .....++++.|+.+|++...++...+|...+.....++.-..|
T Consensus 223 KfsFP~iHA~~t~-~q~-~Qvl~ILrqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~g~Npyl~~L 298 (322)
T KOG0777|consen 223 KFSFPIIHALKTK-GQT-EQVLRILRQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKNDGENPYLPDL 298 (322)
T ss_pred ccCCcchhhhhcC-Cch-HHHHHHHHHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhcCCCcchHHH
Confidence 9999999999653 322 2344454433 23344 6689999999999999999999999999999987666554443
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=99.82 E-value=8e-18 Score=139.91 Aligned_cols=202 Identities=22% Similarity=0.192 Sum_probs=157.2
Q ss_pred CCCCCCccCchhhccc---cchh-HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccC
Q 025823 1 MDGSHTRRGQPCWFRV---PKVG-MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEG 76 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~---~g~~-ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~ 76 (247)
+|++..|||+|++|.. +|.+ ++..++..+.. ++..+.... .......+.+.+..++.||..|+.+...
T Consensus 33 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~-----~~~~~~~~~~~~~~~~~g~~~d~~~~~~- 104 (243)
T cd00385 33 VDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLAD--AFEELAREG-----SPEALEILAEALLDLLEGQLLDLKWRRE- 104 (243)
T ss_pred ccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHH--HHHHHHhCC-----CHHHHHHHHHHHHHHHHHHHHHHHhccC-
Confidence 5899999999999988 8876 67788887754 455555431 2567889999999999999999998764
Q ss_pred CccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchH
Q 025823 77 EKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDI 156 (247)
Q Consensus 77 ~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl 156 (247)
. .+|.++|..+.+.|||.+ +...+..++...+.+......+..++.++|++||+.||+.|+..+.+..
T Consensus 105 ~----~~t~~ey~~~~~~~t~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~------- 172 (243)
T cd00385 105 Y----VPTLEEYLEYCRYKTAGL-VGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG------- 172 (243)
T ss_pred C----CCCHHHHHHHHHHhHHHH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh-------
Confidence 2 269999999999999988 8888888888877666778899999999999999999999998654311
Q ss_pred hhCcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhcCCCh--HHHHH
Q 025823 157 EDYKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEKLTKSIEAHPTK--EVQAV 234 (247)
Q Consensus 157 ~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~A~~~l~~lp~~--~~~~~ 234 (247)
+|+.|+|.+++.+...+.+. + ..++.++..+.+.+.+..+.+++++.+..+... .....
T Consensus 173 -~~~~~l~~~~~~~~~~~~~~--~----------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (243)
T cd00385 173 -EGKCTLPVLYALEYGVPAED--L----------------LLVEKSGSLEEALEELAKLAEEALKELNELILSLPDVPRA 233 (243)
T ss_pred -CCchHHHHHHHHHhCChhhH--H----------------HHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHH
Confidence 38999999999987554321 1 156677888888888888888888888877543 23444
Q ss_pred HHHHHHH
Q 025823 235 LKSFLAK 241 (247)
Q Consensus 235 L~~l~~~ 241 (247)
+...+..
T Consensus 234 ~~~~~~~ 240 (243)
T cd00385 234 LLALALN 240 (243)
T ss_pred HHHHHHH
Confidence 4444443
No 16
>PLN02632 phytoene synthase
Probab=96.51 E-value=0.14 Score=45.64 Aligned_cols=135 Identities=10% Similarity=0.043 Sum_probs=84.2
Q ss_pred HHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCC--hHHHHHHHHHHHHHHHHHHHH
Q 025823 59 EFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGEN--LDKHVEVKDILVQMGIYFQVQ 136 (247)
Q Consensus 59 ~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~--~~~~~~l~~~g~~lG~afQi~ 136 (247)
+..++.|...|+....- .|++++..-.++--|.+ ..+++.+ ++..+ +...+.+...+.++|+|+|+.
T Consensus 142 ~~~li~g~~~Dl~~~~~-------~t~~eL~~Ycy~vAgtV-G~l~l~v---lg~~~~~~~~~~~~~~~A~~lG~AlQlt 210 (334)
T PLN02632 142 FRDMIEGMRMDLVKSRY-------ENFDELYLYCYYVAGTV-GLMSVPV---MGIAPESKASTESVYNAALALGIANQLT 210 (334)
T ss_pred HHHHHHHHHHHhccCCC-------CCHHHHHHHHHHhhHHH-HHHHHHH---hCCCCccccchHHHHHHHHHHHHHHHHH
Confidence 35678888888875321 37888877777766665 4333332 32222 222345678899999999999
Q ss_pred hhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc-CHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHH
Q 025823 137 DDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC-NEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKES 215 (247)
Q Consensus 137 DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~ 215 (247)
|=+.|+ +.|+..|.+-+|.=..-+.. ++++ ++.....+.+. .+ +.+....++.+
T Consensus 211 NILRDv----------~eD~~~GRvYLP~e~L~~~Gv~~ed------l~~~~~~~~~~---~l------~~~~~~~Ar~~ 265 (334)
T PLN02632 211 NILRDV----------GEDARRGRVYLPQDELAQFGLTDED------IFAGKVTDKWR---AF------MKFQIKRARMY 265 (334)
T ss_pred HHHHHH----------HHHHhCCceeCCHHHHHHcCCCHHH------HhcCCCCHHHH---HH------HHHHHHHHHHH
Confidence 988887 36889999999965443332 2221 22222222222 22 12223458889
Q ss_pred HHHHHHHhhcCCCh
Q 025823 216 YEKLTKSIEAHPTK 229 (247)
Q Consensus 216 ~~~A~~~l~~lp~~ 229 (247)
..+|...+..+|..
T Consensus 266 ~~~a~~~l~~lp~~ 279 (334)
T PLN02632 266 FAEAEEGVSELDPA 279 (334)
T ss_pred HHHHHHhHhhCCHH
Confidence 99999999999853
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=96.21 E-value=0.4 Score=41.09 Aligned_cols=130 Identities=10% Similarity=0.010 Sum_probs=83.6
Q ss_pred HHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhh
Q 025823 59 EFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDD 138 (247)
Q Consensus 59 ~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD 138 (247)
+..++.|...|+....- .|++++..-.+.--|.+ ..+.+. +++..+ ......+.++|.|+|+.|=
T Consensus 87 ~~~li~g~~~Dl~~~~~-------~t~~dL~~Y~~~vAg~v-g~l~~~---llg~~~----~~~~~~a~~lG~Alqltni 151 (266)
T TIGR03465 87 FLEVIDGMEMDLEQTRY-------PDFAELDLYCDRVAGAV-GRLSAR---IFGATD----ARTLEYAHHLGRALQLTNI 151 (266)
T ss_pred HHHHHHHHHHHcCCCCC-------CCHHHHHHHHHHhHHHH-HHHHHH---HhCCCC----hhHHHHHHHHHHHHHHHHH
Confidence 46788899888875421 48888888888777776 444433 233222 2357889999999999998
Q ss_pred hhhccCCCCccCCccchHhhCcccHHHHHHHhhc-CHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHH
Q 025823 139 FLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC-NEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYE 217 (247)
Q Consensus 139 ~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~ 217 (247)
+.|+- .|+..|++.+|.=..-+.. +++ .| ........+..+ +......++.+.+
T Consensus 152 lRdv~----------eD~~~gR~ylP~~~l~~~gv~~~---~l---~~~~~~~~~~~~---------~~~l~~~A~~~l~ 206 (266)
T TIGR03465 152 LRDVG----------EDARRGRIYLPAEELQRFGVPAA---DI---LEGRYSPALAAL---------CRFQAERARAHYA 206 (266)
T ss_pred HHHhH----------HHHhCCCeecCHHHHHHcCCCHH---Hh---cCCCCCHHHHHH---------HHHHHHHHHHHHH
Confidence 88873 5888999999975444332 222 12 222222222222 2233345788888
Q ss_pred HHHHHhhcCCC
Q 025823 218 KLTKSIEAHPT 228 (247)
Q Consensus 218 ~A~~~l~~lp~ 228 (247)
.|...+..+|.
T Consensus 207 ~a~~~~~~~p~ 217 (266)
T TIGR03465 207 EADALLPACDR 217 (266)
T ss_pred HHHHhhhhCCH
Confidence 99989988885
No 18
>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=95.98 E-value=0.6 Score=40.07 Aligned_cols=130 Identities=9% Similarity=0.012 Sum_probs=80.6
Q ss_pred HHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhh
Q 025823 60 FQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDF 139 (247)
Q Consensus 60 ~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ 139 (247)
..++.|...|+....- .|++++..-.++--|++ ..+++. +++..+++ ...++.++|.|+|+.|=+
T Consensus 89 ~~li~~~~~Dl~~~~~-------~t~~eL~~Y~~~vAg~v-g~l~~~---i~g~~~~~----~~~~A~~lG~AlQltniL 153 (266)
T TIGR03464 89 LDLLDAFRQDVVVTRY-------ATWAELLDYCRYSANPV-GRLVLD---LYGASDPE----NVALSDAICTALQLINFW 153 (266)
T ss_pred HHHHHHHHHhccCCCC-------CCHHHHHHHHHHhHHHH-HHHHHH---HcCCCChh----HHHHHHHHHHHHHHHHHH
Confidence 5677788888765321 47888877777766765 433332 33333322 346899999999999988
Q ss_pred hhccCCCCccCCccchHhhCcccHHHHHHHhhc-CHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHHHH
Q 025823 140 LDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC-NEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESYEK 218 (247)
Q Consensus 140 ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~~~ 218 (247)
.|+ +.|+..|.+-+|.=..-+.. ++++ + ........+..+ ++.....++.+...
T Consensus 154 RDl----------~eD~~~gR~YLP~~~l~~~Gv~~ed---l---~~~~~~~~~~~~---------~~~~~~~A~~~~~~ 208 (266)
T TIGR03464 154 QDV----------GVDYRKGRVYLPRDDLARFGVSEED---L---AAGRATPALREL---------MAFEVSRTRALLDR 208 (266)
T ss_pred Hhh----------HHHHhcCCccCCHHHHHHcCCCHHH---H---hcCCCCHHHHHH---------HHHHHHHHHHHHHH
Confidence 886 36888899999965443332 2221 2 222222222222 22334457889999
Q ss_pred HHHHhhcCCCh
Q 025823 219 LTKSIEAHPTK 229 (247)
Q Consensus 219 A~~~l~~lp~~ 229 (247)
|...+..+|..
T Consensus 209 a~~~~~~lp~~ 219 (266)
T TIGR03464 209 GAPLAARVDGR 219 (266)
T ss_pred HHHhHHhCCHh
Confidence 99999999853
No 19
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=95.96 E-value=0.31 Score=41.70 Aligned_cols=132 Identities=10% Similarity=0.041 Sum_probs=84.6
Q ss_pred HHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHh
Q 025823 58 VEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQD 137 (247)
Q Consensus 58 ~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~D 137 (247)
.+..++.|...|+....- .|++++..-.++=-|++ ..+.+. +++.... ..+..++.++|+|+|+.+
T Consensus 94 ~~~~li~g~~~Dl~~~~~-------~t~~eL~~Y~~~vAg~v-g~l~~~---i~~~~~~---~~~~~~A~~lG~Alqltn 159 (265)
T cd00683 94 PFRDLLAGMAMDLDKRRY-------ETLDELDEYCYYVAGVV-GLMLLR---VFGASSD---EAALERARALGLALQLTN 159 (265)
T ss_pred HHHHHHHHHHHhCCCCCC-------CCHHHHHHHHHHhHHHH-HHHHHH---HhCCCCC---hHHHHHHHHHHHHHHHHH
Confidence 346788999999885321 47888887777766665 333332 3332112 345688999999999999
Q ss_pred hhhhccCCCCccCCccchHhhCcccHHHHHHHhhc-CHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHHH
Q 025823 138 DFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC-NEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKESY 216 (247)
Q Consensus 138 D~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~~ 216 (247)
=+.|+. .|+..|++.+|.=..-+.. +++ .+ +.....+.+..+ +.+....++.+.
T Consensus 160 ilRdv~----------eD~~~gR~YlP~d~l~~~gv~~~---~l---~~~~~~~~~~~~---------~~~~~~~A~~~~ 214 (265)
T cd00683 160 ILRDVG----------EDARRGRIYLPREELARFGVTLE---DL---LAPENSPAFRAL---------LRRLIARARAHY 214 (265)
T ss_pred HHHHHH----------HHHccCCCcCCHHHHHHcCCCHH---HH---cCCCCCHHHHHH---------HHHHHHHHHHHH
Confidence 888874 5888999999976544432 222 12 222222233222 233345588899
Q ss_pred HHHHHHhhcCCC
Q 025823 217 EKLTKSIEAHPT 228 (247)
Q Consensus 217 ~~A~~~l~~lp~ 228 (247)
..|...+..+|.
T Consensus 215 ~~a~~~~~~lp~ 226 (265)
T cd00683 215 REALAGLAALPR 226 (265)
T ss_pred HHHHHhHHhCCH
Confidence 999999999984
No 20
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=95.54 E-value=0.92 Score=40.42 Aligned_cols=149 Identities=9% Similarity=0.042 Sum_probs=86.1
Q ss_pred HHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHH
Q 025823 50 DLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQM 129 (247)
Q Consensus 50 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~l 129 (247)
...+++.+.+..|..|...++....... .|.++|..-.++=-|.. =.+.+.+-+. +|...+......+++..+
T Consensus 101 ~~~~~I~~~~~~M~~GMa~dl~~~~~~~-----~T~~dL~~YCy~VAG~V-G~mlt~l~~~-~~~~~~~~~~~~~~A~~l 173 (336)
T TIGR01559 101 KYQEVIADITRRMGNGMADFIDKEVTNE-----QTVGDYDKYCHYVAGLV-GIGLSRLFVA-SGFEDPSLGESEALSNSM 173 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcCCC-----CCHHHHHHHHhccccHH-HHHHHHHHhh-cCCCCcchhhhHHHHHHH
Confidence 4556777778889999998886542100 26777766555444432 1112222111 232222222346899999
Q ss_pred HHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHH
Q 025823 130 GIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFV 209 (247)
Q Consensus 130 G~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~ 209 (247)
|+|+|+.|=+.|+. .|+.+|++=||.=..-+...+ +..+.. + +......+. +++..
T Consensus 174 G~aLQlTNIlRDv~----------ED~~~GR~YlP~e~l~~~g~~-----~~dl~~-~--~~~~~~~~~------l~~lv 229 (336)
T TIGR01559 174 GLFLQKTNIIRDYL----------EDINEGRMFWPREIWSKYAKK-----LGDFKK-P--ENSDKALQC------LNELV 229 (336)
T ss_pred HHHHHHHHHHHHHH----------hHHhCCCCCCCHHHHHHcCCC-----HHHhcC-c--cccHHHHHH------HHHHH
Confidence 99999999988874 588889999995533222211 011111 1 111122222 23344
Q ss_pred HHHHHHHHHHHHHhhcCCCh
Q 025823 210 EYEKESYEKLTKSIEAHPTK 229 (247)
Q Consensus 210 ~~~~~~~~~A~~~l~~lp~~ 229 (247)
..+..+...|+..+..+++.
T Consensus 230 ~~A~~~~~~al~yl~~l~~~ 249 (336)
T TIGR01559 230 TNALHHATDCLTYLSRLRDQ 249 (336)
T ss_pred HHHHHHHHHHHHHHHhCCCc
Confidence 56888999999999998763
No 21
>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=95.52 E-value=0.44 Score=40.66 Aligned_cols=142 Identities=12% Similarity=0.097 Sum_probs=86.6
Q ss_pred HHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHH
Q 025823 55 FNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQ 134 (247)
Q Consensus 55 ~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQ 134 (247)
-.+.+..+..|...|+....- .|++++..-.++=+|++ ..+.+.+ ++..+++ ......+.++|.|+|
T Consensus 89 ~~~~l~~li~~~~~dl~~~~~-------~t~~~L~~Y~~~vag~v-g~l~~~~---~~~~~~~--~~~~~~a~~lG~alq 155 (267)
T PF00494_consen 89 PREPLLELIDGMEMDLEFTPY-------ETFADLERYCYYVAGSV-GLLLLQL---LGAHDPD--EAARDAARALGRALQ 155 (267)
T ss_dssp HHHHHHHHHHHHHHCTT-S---------SSHHHHHHHHHHHTHHH-HHHHHHH---HHSSTSH--HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhcccccCCCC-------CCHHHHHHHHHHHHHHH-HHHHHHH---hccccch--hhHHHHHHHHHHHHH
Confidence 344557888999999876331 48999999888888887 4444333 3221221 467888999999999
Q ss_pred HHhhhhhccCCCCccCCccch-HhhCcccHHHHHHHhh-cCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHH
Q 025823 135 VQDDFLDCFGSPEVIGKVGTD-IEDYKCSWLVVKALEL-CNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYE 212 (247)
Q Consensus 135 i~DD~ld~~~~~~~~GK~~~D-l~~gk~Tlp~l~al~~-~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~ 212 (247)
+.|=+.|+ +.| +..|++-+|.=..-+. .++++ +...- ...+.+..+. ......+
T Consensus 156 l~nilRd~----------~~D~~~~gR~ylP~d~l~~~gv~~~d---l~~~~--~~~~~~~~~~---------~~~~~~A 211 (267)
T PF00494_consen 156 LTNILRDI----------PEDALRRGRIYLPLDDLRRFGVTPED---LLAGR--PRSERLRALI---------RELAARA 211 (267)
T ss_dssp HHHHHHTH----------HHH-HHTT---S-HHHHHHTTSSHHH---HHHHG---GGHHHHHHH---------HHHHHHH
T ss_pred HHHHHHHh----------HHHHHhcccccCCchhHHHcCCCHHH---HHhcc--cCCHHHHHHH---------HHHHHHH
Confidence 99988887 369 8999999998766543 23332 21111 1112233322 2344568
Q ss_pred HHHHHHHHHHhhcCCChHHHH
Q 025823 213 KESYEKLTKSIEAHPTKEVQA 233 (247)
Q Consensus 213 ~~~~~~A~~~l~~lp~~~~~~ 233 (247)
+.+.++|...+..+|+...+.
T Consensus 212 ~~~l~~a~~~~~~l~~~~~~~ 232 (267)
T PF00494_consen 212 RAHLDEARAGLSALPPPRARP 232 (267)
T ss_dssp HHHHHHHHHGGGGS--TTHHH
T ss_pred HHHHHHHHHHHHHcCCHhhhH
Confidence 899999999999995433333
No 22
>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=91.55 E-value=8.5 Score=33.29 Aligned_cols=105 Identities=8% Similarity=0.034 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcC--CChHHHH--HHHHH
Q 025823 50 DLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAG--ENLDKHV--EVKDI 125 (247)
Q Consensus 50 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag--~~~~~~~--~l~~~ 125 (247)
.....|.+.+...+.|+..+..+...... +|.++|+.+=..=.|.. + .+.+.-...| .+++... .+.++
T Consensus 129 ~~~~r~~~~~~~~~~a~~~e~~~~~~~~~----psl~eYl~~R~~~~g~~-~--~~~l~~~~~g~~lp~~~~~~~~~~~l 201 (303)
T cd00687 129 EWFNRFAHYTEDYFDAYIWEGKNRLNGHV----PDVAEYLEMRRFNIGAD-P--CLGLSEFIGGPEVPAAVRLDPVMRAL 201 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCC----cCHHHHHHHhhhccccc-c--cHHHHHHhcCCCCCHHHHhChHHHHH
Confidence 34455666777888888888877665543 79999997655444544 3 2223333333 3444333 37788
Q ss_pred HHHHHHHHHHHhhhhhccCCCCccCCccchH-hhCc-ccHHHHHHHhh
Q 025823 126 LVQMGIYFQVQDDFLDCFGSPEVIGKVGTDI-EDYK-CSWLVVKALEL 171 (247)
Q Consensus 126 g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl-~~gk-~Tlp~l~al~~ 171 (247)
-...+...-+.||+..|.- ++ ..|. .++..++.-+.
T Consensus 202 ~~~~~~~~~l~NDl~S~~K----------E~~~~g~~~N~V~vl~~~~ 239 (303)
T cd00687 202 EALASDAIALVNDIYSYEK----------EIKANGEVHNLVKVLAEEH 239 (303)
T ss_pred HHHHHHHHHHHHHHHhhHH----------HHHhCCccchHHHHHHHHc
Confidence 8899999999999988852 22 3344 56666665554
No 23
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=90.25 E-value=12 Score=32.67 Aligned_cols=136 Identities=10% Similarity=0.040 Sum_probs=79.5
Q ss_pred HHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHH
Q 025823 56 NEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQV 135 (247)
Q Consensus 56 ~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi 135 (247)
.+.+..+..|...|+....- .+++++..-+.+=-|.. ...+..+++-.+ ..........+|.|+|+
T Consensus 102 ~~~~~~~~da~~~Dl~~~~y-------~~~~eL~~Yc~~vAg~v----G~l~~~Il~~~~---~~~~~~~a~~lG~A~Ql 167 (288)
T COG1562 102 REAFPALIDAMRMDLDRTRY-------LDFEELEEYCYGVAGAV----GLLLARILGPDK---DAATRAYARGLGLALQL 167 (288)
T ss_pred HHHHHHHHHHHHHHhhhccc-------cCHHHHHHHHHHhHHHH----HHHHHHHhCccc---chhhHHHHHHHHHHHHH
Confidence 34456789999999987543 25566655555444443 222333443221 22344445559999999
Q ss_pred HhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhcCHHHHHHHHHhhCCCChHhHHHHHHHHHHcChHHHHHHHHHHH
Q 025823 136 QDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELCNEEQKKLVHENYGKVDPACVAKVKELYKTLDLEGAFVEYEKES 215 (247)
Q Consensus 136 ~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~g~~~~~~~~~~~~ 215 (247)
.+=+.|+ +.|.+.|++=+|.=-..+..-+ .+. +......+ .+.+++ ++.-..++.+
T Consensus 168 vNilRdv----------~eD~~~GrvylP~e~l~~~g~~--~~d---~~~~~~~~---~~~~~~------~~~~~~ar~~ 223 (288)
T COG1562 168 VNILRDV----------GEDRRRGRVYLPAEELARFGVS--EAD---LLAGRVDD---AFRELM------RFEADRARDH 223 (288)
T ss_pred HHHHHHh----------HHHHhCCcccCCHHHHHHhCCC--HHH---HHcccchh---HHHHHH------HHHHHHHHHH
Confidence 9988887 4689999999995433332211 111 11111111 222322 3445568889
Q ss_pred HHHHHHHhhcCCCh
Q 025823 216 YEKLTKSIEAHPTK 229 (247)
Q Consensus 216 ~~~A~~~l~~lp~~ 229 (247)
...|...+..+|..
T Consensus 224 ~~~a~~~~~~lp~~ 237 (288)
T COG1562 224 LAEARRGLPALPGR 237 (288)
T ss_pred HHHHHHhhhhCCcc
Confidence 99999999999864
No 24
>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=87.53 E-value=4.1 Score=33.80 Aligned_cols=62 Identities=13% Similarity=-0.009 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCCCchHHHHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHH-Hhchh
Q 025823 21 MIAANDGVLLRNHISRILKNHFRDKPYYVDLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIV-QYKTA 97 (247)
Q Consensus 21 ai~~gd~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~-~~KTa 97 (247)
.|++||++- +..+.+|++. +...+++.+++++..+.+....=-.... .+.++|++.+ .-+|+
T Consensus 72 tVLAGDy~S--~~yY~lLA~~-----~~i~li~~ls~aI~eiNE~K~~ly~~~~--------~~~e~~~~~~~~ies~ 134 (212)
T PF07307_consen 72 TVLAGDYYS--GLYYQLLAES-----GDISLIRALSEAIKEINELKMSLYQKKK--------ETAEEYLESVVTIESA 134 (212)
T ss_pred hhhhHHHHH--HHHHHHHHhC-----CCHHHHHHHHHHHHHHHHHHHHHHHhhh--------CCHHHHHHHHHHHHHH
Confidence 489999976 4568899875 3578999999999999998875443321 2677776644 33444
No 25
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=82.08 E-value=48 Score=31.58 Aligned_cols=106 Identities=8% Similarity=-0.045 Sum_probs=70.7
Q ss_pred HHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcC--CChHHHHHHH---H
Q 025823 50 DLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAG--ENLDKHVEVK---D 124 (247)
Q Consensus 50 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag--~~~~~~~~l~---~ 124 (247)
.....+.+.+..++.+-..+..|.....+ ||.++|+.+-..=+|.. . .+.......| .+++..+.+. .
T Consensus 356 ~~~~~~~~~~~~~~~a~l~EA~w~~~g~v----Pt~eEYl~~~~~S~g~~-~--~~~~~~~~~g~~l~~e~~e~~~~~~~ 428 (542)
T cd00684 356 YVVPYLKEAWKDLVKAYLVEAKWAHEGYV----PTFEEYMENALVSIGLG-P--LLLTSFLGMGDILTEEAFEWLESRPK 428 (542)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhcCCC----CCHHHHHhhhhHHhhHH-H--HHHHHHHhcCCCCCHHHHHHHhccHH
Confidence 34556777778888999999999876654 79999999877655543 1 1111222223 4555555443 6
Q ss_pred HHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCc-ccHHHHHHHhhc
Q 025823 125 ILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYK-CSWLVVKALELC 172 (247)
Q Consensus 125 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk-~Tlp~l~al~~~ 172 (247)
+....+...-+.||+..+.- ....|. ++...++.-+..
T Consensus 429 l~~~~~~i~rL~NDi~S~~k----------E~~rGdv~n~V~~ymke~g 467 (542)
T cd00684 429 LVRASSTIGRLMNDIATYED----------EMKRGDVASSIECYMKEYG 467 (542)
T ss_pred HHHHHHHHHHHhcChhhhHH----------HHhcCCcccHHHHHHHhcC
Confidence 77788999999999988752 123454 588888877653
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=79.34 E-value=2.8 Score=29.29 Aligned_cols=29 Identities=10% Similarity=-0.062 Sum_probs=22.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 025823 115 NLDKHVEVKDILVQMGIYFQVQDDFLDCF 143 (247)
Q Consensus 115 ~~~~~~~l~~~g~~lG~afQi~DD~ld~~ 143 (247)
.+...+.+-+||..+|-.||++==+-=++
T Consensus 14 Eet~~e~llRYGLf~GAIFQliCilAiI~ 42 (85)
T PF06783_consen 14 EETFFENLLRYGLFVGAIFQLICILAIIL 42 (85)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHheee
Confidence 45678899999999999999986444443
No 27
>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=70.40 E-value=65 Score=27.15 Aligned_cols=106 Identities=11% Similarity=-0.037 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcC--CCh---HHHHHHHH
Q 025823 50 DLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAG--ENL---DKHVEVKD 124 (247)
Q Consensus 50 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag--~~~---~~~~~l~~ 124 (247)
.....+.+.+...+.|...+..+...... ++.++|+.+-..=.|.. + .+.+.-...| .++ .....+..
T Consensus 122 ~~~~r~~~~~~~~~~~~~~e~~~~~~~~~----p~~~eYl~~R~~~~g~~-~--~~~l~~~~~g~~l~~~~~~~~~~~~~ 194 (284)
T cd00868 122 ESLPYLKEAWKDLLRAYLVEAKWANEGYV----PSFEEYLENRRVSIGYP-P--LLALSFLGMGDILPEEAFEWLPSYPK 194 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHCCCC----CCHHHHHHhceehhhHH-H--HHHHHHHHcCCCCCHHHHHHhhhhHH
Confidence 44555677777888888888877654432 79999998766655543 2 1222222222 333 34556778
Q ss_pred HHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCc-ccHHHHHHHhhc
Q 025823 125 ILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYK-CSWLVVKALELC 172 (247)
Q Consensus 125 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk-~Tlp~l~al~~~ 172 (247)
+....+..-=+.||+..|.-. ...|. .+++.++..+..
T Consensus 195 l~~~~~~~~~l~NDl~S~~kE----------~~~g~~~N~v~vl~~~~~ 233 (284)
T cd00868 195 LVRASSTIGRLLNDIASYEKE----------IARGEVANSVECYMKEYG 233 (284)
T ss_pred HHHHHHHHHHHhccchHHHHH----------HccCCcccHHHHHHhccC
Confidence 888888888899999888421 12333 477777776653
No 28
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=69.82 E-value=13 Score=32.98 Aligned_cols=49 Identities=18% Similarity=0.165 Sum_probs=33.3
Q ss_pred HHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHH
Q 025823 108 ALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVK 167 (247)
Q Consensus 108 ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~ 167 (247)
++.+.|.+.+....+...-+.+=.+..|.||+.|- +++|.|++|+-..+
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 34444555555556666677788899999999773 46777777765543
No 29
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=66.06 E-value=16 Score=31.36 Aligned_cols=61 Identities=10% Similarity=0.011 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 101 FYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 101 f~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
+..+...|....+......-.+.-+.--+.+.+++..|+.|.. +|.+.|+.|+|+.+.-+.
T Consensus 139 ~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e----------~D~~~G~~Tl~v~~G~~~ 199 (279)
T PRK12884 139 TGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVE----------GDRLRGARTLAILYGEKI 199 (279)
T ss_pred HHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhh----------hHHHcCCeeechHhcHHH
Confidence 4445555554444332222233344455566778888988886 477899999999987765
No 30
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=65.61 E-value=16 Score=31.70 Aligned_cols=34 Identities=18% Similarity=0.031 Sum_probs=29.1
Q ss_pred HHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 129 MGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 129 lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
+..++.+.+++.|+.+ |-++||.|+|+.+..+.+
T Consensus 172 ~~~a~~ii~~irDie~----------Dr~~G~~Tlpv~lG~~~a 205 (282)
T PRK13105 172 WGMASHAFGAVQDVVA----------DREAGIASIATVLGARRT 205 (282)
T ss_pred HHHHHHHHHhCcchHh----------HHHcCCccchHHhcHHHH
Confidence 4679999999999875 667899999999998874
No 31
>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=65.24 E-value=33 Score=29.11 Aligned_cols=54 Identities=17% Similarity=0.103 Sum_probs=39.1
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHH
Q 025823 105 VACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKAL 169 (247)
Q Consensus 105 ~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al 169 (247)
+.+.+.+.|.+++....+...-+.+=.++=|.||+.|= +++|.|++|.-..+.-
T Consensus 21 ~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~-----------s~~RRG~pt~~~~~G~ 74 (260)
T PF00348_consen 21 VLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDN-----------SDLRRGKPTVHKKFGN 74 (260)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTT-----------CSEETTEECHHHHHHH
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcc-----------cccCCCCccccccccc
Confidence 33444555667777778888888999999999999773 4667788776655543
No 32
>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=64.93 E-value=21 Score=30.33 Aligned_cols=32 Identities=16% Similarity=0.180 Sum_probs=23.6
Q ss_pred HHcCCCh-HHHHHHHHHHHHHHHHHHHHhhhhh
Q 025823 110 LMAGENL-DKHVEVKDILVQMGIYFQVQDDFLD 141 (247)
Q Consensus 110 ~~ag~~~-~~~~~l~~~g~~lG~afQi~DD~ld 141 (247)
.+.|.++ +....+...-+-+=.++-|.||+.|
T Consensus 31 ~~~g~~~~~~~~~la~aiEllh~asLIhDDI~D 63 (259)
T cd00685 31 RALGGPELEAALRLAAAIELLHTASLVHDDVMD 63 (259)
T ss_pred HHhCCCchHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3334444 5566777777888889999999977
No 33
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=57.69 E-value=25 Score=30.22 Aligned_cols=35 Identities=17% Similarity=0.007 Sum_probs=28.5
Q ss_pred HHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 128 QMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 128 ~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
-+-.+.++..|+.|+.+ |-+.|+.|+|+.+..+++
T Consensus 172 l~~~~~~~~~d~~D~e~----------D~~~G~~Tlpv~lG~~~t 206 (285)
T PRK12872 172 LKSFIREIVFDIKDIEG----------DRKSGLKTLPIVLGKERT 206 (285)
T ss_pred HHHHHHHHHHhcccchh----------HHHcCCcccchhcchHHH
Confidence 34568889999999875 667899999999988764
No 34
>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=57.61 E-value=29 Score=28.82 Aligned_cols=57 Identities=12% Similarity=0.036 Sum_probs=37.6
Q ss_pred HHHHHHHcCCC-hHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 105 VACALLMAGEN-LDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 105 ~~~ga~~ag~~-~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
..+|+...+.+ +...-.+.-+.--++......+|+.|+.+ |.+.|+.|+|+.+..+.
T Consensus 133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~----------D~~~g~~Tl~v~~G~~~ 190 (257)
T PF01040_consen 133 ILLGAYAAGGDPPPPPFLLAIFFFLLIFAIMFFNDIRDIEG----------DRKAGRRTLPVLLGEKK 190 (257)
T ss_pred hhhhhhhcCCcccHHHHHHHHHHHHHHHHHHHHHHhhhHHH----------HHHcCCcchHHHHHHHH
Confidence 33444444433 22333444454677888888889999874 67889999999986654
No 35
>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=56.94 E-value=31 Score=30.41 Aligned_cols=47 Identities=19% Similarity=0.101 Sum_probs=31.1
Q ss_pred HHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHH
Q 025823 109 LLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVV 166 (247)
Q Consensus 109 a~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l 166 (247)
+.+.|.+.+....+...-+.+=.|.=|.||+.|= +++|.|++|....
T Consensus 55 ~~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~-----------s~~RRg~pt~~~~ 101 (319)
T TIGR02748 55 GKFGDYDLDAIKHVAVALELIHMASLVHDDVIDD-----------ADLRRGRPTIKSK 101 (319)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHHHHhccccCC-----------CCCCCCCcCHHHH
Confidence 3445555555556666777888899999999873 3556666665433
No 36
>PLN00012 chlorophyll synthetase; Provisional
Probab=56.17 E-value=18 Score=32.71 Aligned_cols=35 Identities=23% Similarity=0.116 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 127 VQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 127 ~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
--+++++-+++|+.|+.+ |.+.|+.|+|+.+..+.
T Consensus 262 ~l~~lai~ivnd~~Die~----------Dr~aG~~TLpV~~G~~~ 296 (375)
T PLN00012 262 SIAGLGIAIVNDFKSIEG----------DRALGLQSLPVAFGVET 296 (375)
T ss_pred HHHHHHHHHHhhhcchhh----------HHHcCCcccceeechHH
Confidence 347888999999999864 77899999999988765
No 37
>PLN02279 ent-kaur-16-ene synthase
Probab=55.18 E-value=2.4e+02 Score=28.43 Aligned_cols=102 Identities=11% Similarity=0.044 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHH-HH-HHHHcC--CChHHHH--HHH
Q 025823 50 DLLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPV-AC-ALLMAG--ENLDKHV--EVK 123 (247)
Q Consensus 50 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~-~~-ga~~ag--~~~~~~~--~l~ 123 (247)
.++..+.++...++.+=+.+..|.....+ ||.++|++... .|+.+.. .+ +..+.| .+++..+ ...
T Consensus 590 ~v~~~l~~aW~~ll~ayl~EAeW~~~g~v----PT~eEYL~na~-----vS~~l~~i~l~~~~~~G~~l~eev~e~~~~~ 660 (784)
T PLN02279 590 NVTSHIIKIWLDLLKSMLTEAQWSSNKST----PTLDEYMTNAY-----VSFALGPIVLPALYLVGPKLSEEVVDSPELH 660 (784)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcCCC----CCHHHHHhhch-----hhhhhHHHHHHHHHHhCCCCCHHHHhCcchh
Confidence 56667777788888888888888876654 79999999833 2232221 11 122223 2333332 355
Q ss_pred HHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHh
Q 025823 124 DILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALE 170 (247)
Q Consensus 124 ~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~ 170 (247)
++-...+...-+.||+..+.. ...+|+.+...+|.-+
T Consensus 661 ~L~~l~s~I~RLlNDI~S~e~----------E~~rG~~nsV~cYMke 697 (784)
T PLN02279 661 KLYKLMSTCGRLLNDIRGFKR----------ESKEGKLNAVSLHMIH 697 (784)
T ss_pred HHHHHHHHHHHHHHhccccHh----------HHhCCCcceehhhhcc
Confidence 677788888889999866642 3356677777777765
No 38
>PRK10581 geranyltranstransferase; Provisional
Probab=53.87 E-value=33 Score=29.98 Aligned_cols=49 Identities=16% Similarity=0.103 Sum_probs=34.1
Q ss_pred HHHcCCChHHHHHHHHHHHHHHHHHHHHhhh--hhccCCCCccCCccchHhhCcccHHHHHH
Q 025823 109 LLMAGENLDKHVEVKDILVQMGIYFQVQDDF--LDCFGSPEVIGKVGTDIEDYKCSWLVVKA 168 (247)
Q Consensus 109 a~~ag~~~~~~~~l~~~g~~lG~afQi~DD~--ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~a 168 (247)
+.+.|.+++....+...-+.+=.|.-|.||+ .| .+|+|.|++|....|.
T Consensus 56 ~~~~g~~~~~~~~~A~avEliH~aSLiHDDip~~D-----------~s~~RRG~pt~h~~~G 106 (299)
T PRK10581 56 GQMFGVSTNTLDAPAAAVECIHAYSLIHDDLPAMD-----------DDDLRRGLPTCHVKFG 106 (299)
T ss_pred HHHhCCCHHHHHHHHHHHHHHHHHHHHHcCccccc-----------CCCccCCCcChHHHhC
Confidence 3344555555556666777788899999999 77 2577788887766544
No 39
>PRK13595 ubiA prenyltransferase; Provisional
Probab=47.70 E-value=42 Score=29.34 Aligned_cols=60 Identities=15% Similarity=0.010 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 101 FYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 101 f~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
+.+|...|+...|...... +--...-.+++|++.-|+.|+.+ |.+.|..|+|+.+..+.+
T Consensus 155 ~g~p~~~~~~~~g~~~~~~--~l~a~~~w~~g~dii~ai~Dieg----------Dr~~Gi~Slpv~lG~r~a 214 (292)
T PRK13595 155 YALPLALPALALGAPVPWP--PLLALMAWSVGKHAFDAAQDIPA----------DRAAGTRTVATTLGVRGT 214 (292)
T ss_pred HHHHHHHHHHHcCCcchHH--HHHHHHHHHHHHHHHHhccChHh----------HHHcCCeechHHhCcHhH
Confidence 4556666766666543221 12334456699999999999764 678999999999987763
No 40
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=43.43 E-value=1.9e+02 Score=23.99 Aligned_cols=105 Identities=10% Similarity=-0.014 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHhhHHHhhhcccccCCccCCCCCHHHHHHHHHhchhhhhhHHHHHHHHHHcCC----ChHHHHHHHHHH
Q 025823 51 LLDLFNEVEFQTASGQMIDLITTIEGEKDLSKYSLPLHRRIVQYKTAYYSFYLPVACALLMAGE----NLDKHVEVKDIL 126 (247)
Q Consensus 51 ~~~~~~~~~~~~~~GQ~~d~~~~~~~~~d~~~~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~----~~~~~~~l~~~g 126 (247)
..+.|.+.+...+.|...+..+...... +|.++|+.+=+.=+|.. +.+.+.. ..+... .++.+..-..+-
T Consensus 138 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~----ps~eeYl~~R~~t~g~~-~~~~l~~-~~~~~~~~~~~~~~~~~~~~l~ 211 (270)
T PF03936_consen 138 QIKRFRNSWREYLNAYLWEARWRERGRI----PSLEEYLEMRRHTSGVY-PCLALIE-FALEFALGELPPEVLEHPPMLR 211 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTS------SHHHHHHHHHHHTSHH-HHHHHHH-HHCSSCHTHHHHHHHHTTHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHhccCCC----CCHHHHHHhcccccccc-HHHHHHH-HhCCCccccccHHHHHhchHHH
Confidence 4455777888888888888888766543 79999997655555543 2222211 111211 112222211255
Q ss_pred HHHHHHHHHHhhhhhccCCCCccCCccchHhhCcc-cHHHHHHHhh
Q 025823 127 VQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKC-SWLVVKALEL 171 (247)
Q Consensus 127 ~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~-Tlp~l~al~~ 171 (247)
...+..--+.||+..|. .++++|.. ++.+++..+.
T Consensus 212 ~~~~~~~~l~NDl~S~~----------KE~~~g~~~N~v~~l~~~~ 247 (270)
T PF03936_consen 212 RLAADIIRLVNDLYSYK----------KEIARGDVHNLVVVLMNEH 247 (270)
T ss_dssp HHHHHHHHHHHHHHHHH----------HHHHTTSCCSHHHHHHHHH
T ss_pred HHHHHHHHHhcccchhh----------cchhhcccccHHHHhhhhc
Confidence 66666666779999884 24455555 5555555443
No 41
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=42.18 E-value=48 Score=28.95 Aligned_cols=33 Identities=18% Similarity=0.046 Sum_probs=25.1
Q ss_pred HHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 129 MGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 129 lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
+-..+-+..|+.|.. +|.+.|++|+|+.+..+.
T Consensus 187 w~~~~~~~~a~~D~e----------~D~~~G~~Tlpv~~G~~~ 219 (297)
T PRK12871 187 WTMAHLGLNDFIDLE----------NDRARGMKSIAVLYGMKG 219 (297)
T ss_pred HHHHHHHHHHHhhhh----------hHHHcCCeeeeeeechHH
Confidence 345567788888775 488899999999987654
No 42
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=42.09 E-value=89 Score=26.72 Aligned_cols=35 Identities=11% Similarity=0.064 Sum_probs=27.1
Q ss_pred HHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 128 QMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 128 ~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
..-+++-+.+|+.|+.+ |.+.|.+|+|+.+..+..
T Consensus 168 l~~~~~~~~~~~~D~e~----------D~~~G~~tlpv~~G~~~t 202 (276)
T PRK12882 168 LATLAREIIKDVEDIEG----------DRAEGARTLPILIGVRKA 202 (276)
T ss_pred HHHHHHHHHhhhhhhhh----------HHHcCCccccHHhhHHHH
Confidence 34457778888888763 778999999999988753
No 43
>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=42.03 E-value=67 Score=28.36 Aligned_cols=40 Identities=18% Similarity=0.118 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHH
Q 025823 117 DKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVK 167 (247)
Q Consensus 117 ~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~ 167 (247)
+....+...-+.+=.|.-|.||++|- +++|.|++|+...|
T Consensus 67 ~~~~~~A~avEliH~asLiHDDiiD~-----------s~~RRG~pt~h~~~ 106 (322)
T TIGR02749 67 PRHRRLAEITEMIHTASLVHDDVIDE-----------SDTRRGIETVHSLF 106 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHcccccC-----------ccccCCCccHHHHh
Confidence 33445566667778899999999773 46777877776654
No 44
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=41.91 E-value=76 Score=27.20 Aligned_cols=31 Identities=10% Similarity=0.065 Sum_probs=22.6
Q ss_pred HHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 131 IYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 131 ~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
.++=+..|+.|+. .|.+.|.+|+|+.+..++
T Consensus 168 ~~~~~~~~~~D~~----------~D~~~G~~tlpv~~G~~~ 198 (279)
T PRK09573 168 WSREIVKDIEDIE----------GDLKENVITLPIKYGIKK 198 (279)
T ss_pred HHHHHHhhhhhhh----------hHHHCCCccccHHhhHHH
Confidence 3444556777764 477899999999988765
No 45
>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=41.36 E-value=58 Score=28.50 Aligned_cols=34 Identities=21% Similarity=0.097 Sum_probs=26.5
Q ss_pred HHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 129 MGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 129 lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
+..++-+.+|+.|+. +|.+.|+.|+|+.+..+.+
T Consensus 195 ~~~~i~~~n~~~D~e----------~D~~~G~~Tlpv~lG~~~a 228 (306)
T TIGR02056 195 AGLGIAIVNDFKSVE----------GDRALGLQSLPVAFGIETA 228 (306)
T ss_pred HHHHHHHHHHccChH----------HHHHcCCcCcchhcChHHH
Confidence 445566889998886 4778999999999887653
No 46
>PRK13591 ubiA prenyltransferase; Provisional
Probab=39.97 E-value=6.2 Score=34.67 Aligned_cols=31 Identities=19% Similarity=-0.025 Sum_probs=25.3
Q ss_pred HHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 132 YFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 132 afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
+..+.+|+.|+.| |.++|+.|+|+.+..+.+
T Consensus 194 ~~~iindirDiEG----------Dr~~G~kTLPV~lG~~~A 224 (307)
T PRK13591 194 INSCVYDFKDVKG----------DTLAGIKTLPVSLGEQKT 224 (307)
T ss_pred HHHHHHHhhhhHh----------HHHcCCeeEEEEECHHHH
Confidence 3457899999874 778999999999888764
No 47
>CHL00151 preA prenyl transferase; Reviewed
Probab=39.94 E-value=78 Score=27.90 Aligned_cols=37 Identities=16% Similarity=0.060 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHH
Q 025823 121 EVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKA 168 (247)
Q Consensus 121 ~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~a 168 (247)
.+...-+.+=.+.-|.||+.|= +++|.|++|+...|.
T Consensus 72 ~~A~aiEllH~asLiHDDi~D~-----------s~~RRG~pt~h~~~G 108 (323)
T CHL00151 72 RLAEITEIIHTASLVHDDVIDE-----------CSIRRGIPTVHKIFG 108 (323)
T ss_pred HHHHHHHHHHHHHHHHcccccC-----------ccccCCCccHHHHhC
Confidence 4555566777789999999772 466777777665443
No 48
>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=37.44 E-value=1.1e+02 Score=25.14 Aligned_cols=41 Identities=20% Similarity=0.160 Sum_probs=29.6
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 025823 102 YLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDC 142 (247)
Q Consensus 102 ~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~ 142 (247)
.+.+.+.+.+.|.+.+....+..--+.+=.+.-|.||+.|=
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~ 43 (236)
T cd00867 3 PLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDD 43 (236)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccC
Confidence 34444455555666666667788888888899999999884
No 49
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=37.24 E-value=1e+02 Score=26.55 Aligned_cols=62 Identities=13% Similarity=-0.048 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHcCC-ChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 101 FYLPVACALLMAGE-NLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 101 f~~~~~~ga~~ag~-~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
+..+.-.|+...+. .....--+.-+..-..++|.+..|+.|..+ |-+.|..|.|+.+..+.+
T Consensus 150 ~~~~~~~g~~a~~~~~~~~~~~l~~~~~l~~~~~~~i~~~~D~e~----------D~~~G~~s~~~~~G~~~a 212 (289)
T COG0382 150 FGLGALAGAAAVGGSLPLLAWLLLLAAILWTLGYDIIYAIQDIEG----------DRKAGLKSLPVLFGIKKA 212 (289)
T ss_pred HHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHhccCccc----------hHhcCCcchHHHhCchhH
Confidence 55566666655543 233344677788888999999999999975 456889999999887753
No 50
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=36.25 E-value=85 Score=26.85 Aligned_cols=32 Identities=9% Similarity=0.000 Sum_probs=25.1
Q ss_pred HHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 130 GIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 130 G~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
..+..+.+|+.|+. .|.+.|++|+|+.+..+.
T Consensus 167 ~~~~~~~~~~~D~e----------~D~~~G~~Tlpv~~G~~~ 198 (277)
T PRK12883 167 NVAREIMKDIEDIE----------GDKAKGAKTLPIIIGKKR 198 (277)
T ss_pred HHHHHHHhhhhhhc----------cHHHcCCcCcChHhcHHH
Confidence 34666888888876 377899999999987665
No 51
>PF04284 DUF441: Protein of unknown function (DUF441); InterPro: IPR007382 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 4 TM domains.
Probab=34.52 E-value=1.6e+02 Score=22.80 Aligned_cols=73 Identities=15% Similarity=-0.006 Sum_probs=53.0
Q ss_pred hchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCccCC-ccchHhhCcccHHHHHHHhh
Q 025823 94 YKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMGIYFQVQDDFLDCFGSPEVIGK-VGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 94 ~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK-~~~Dl~~gk~Tlp~l~al~~ 171 (247)
.|.-+++++.+.-+...+.+-+......+++.|.++|+.|=..-=+.-+ .+|| ...|+.+.-.||+-+.|+-.
T Consensus 13 ~kn~~i~iAa~vLL~lk~~~l~~~~~p~le~~Gl~~GiiiLtiaiLvPi-----AtGki~~~~l~~~f~s~~g~~Ai~~ 86 (140)
T PF04284_consen 13 GKNNSIAIAACVLLILKLLPLDQYIFPFLEKKGLNWGIIILTIAILVPI-----ATGKIGFKDLLNSFKSWKGIIAILA 86 (140)
T ss_pred hccHHHHHHHHHHHHHHHhcchhhhhHHHHHhChhHhHHHHHHHHHccc-----cCCCcCHHHHHHHHhCHHHHHHHHH
Confidence 3444553555555555666666555788999999999999877655444 4689 88999999999998887754
No 52
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.17 E-value=2.3e+02 Score=28.58 Aligned_cols=65 Identities=17% Similarity=0.153 Sum_probs=44.8
Q ss_pred HHHHHhhCCCC----hHhHHHHHHHHHHcChHHHHHHHHHHH----------------HHHHHHHhhcCCChHHHHHHHH
Q 025823 178 KLVHENYGKVD----PACVAKVKELYKTLDLEGAFVEYEKES----------------YEKLTKSIEAHPTKEVQAVLKS 237 (247)
Q Consensus 178 ~~l~~~~~~~~----~~~~~~i~~l~~~~g~~~~~~~~~~~~----------------~~~A~~~l~~lp~~~~~~~L~~ 237 (247)
+.|.+.+.+.+ --+++.+.+++++++-.+.+..++..+ +.+|++.+.++|.++.-..+..
T Consensus 448 ~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~slp~~e~l~~l~k 527 (933)
T KOG2114|consen 448 EKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYISSLPISELLRTLNK 527 (933)
T ss_pred HHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHhcCCHHHHHHHHHH
Confidence 34555554432 126888999999999988887777654 4589999999998765555555
Q ss_pred HHHHH
Q 025823 238 FLAKI 242 (247)
Q Consensus 238 l~~~~ 242 (247)
.-..+
T Consensus 528 yGk~L 532 (933)
T KOG2114|consen 528 YGKIL 532 (933)
T ss_pred HHHHH
Confidence 44433
No 53
>PF09053 CagZ: CagZ; InterPro: IPR015139 Helicobacter pylori (Campylobacter pylori) clinical isolates can be classified into two types according to their degree of pathogenicity. Type I strains are associated with a severe disease pathology, express functional VacA (vacuolating cytotoxin A) and contain an insertion of 40 kb of foreign DNA: the cag (cytotoxin-associated gene) pathogenicity island (cagPAI). Type II strains lack the 40 kb insert, cagPAI. The cagPAI may be divided into two regions, cag I and cag II and contain approximately 16 and 15 genes, respectively. The cagPAI encodes a type IV secretion system (T4SS), which delivers CagA into the cytosol of gastric epithelial cells through a rigid needle structure covered by Cag7 or CagY, a VirB10-homologous protein, and CagT, a VirB7-homologous protein, at the base []. The CagA protein is the virulence factor that induces morphological changes in host cells, which may be associated with the development of peptic ulcer and gastric carcinoma []. CagZ is a 23 kDa protein consisting of a single compact L-shaped domain, composed of seven alpha-helices that run antiparallel to each other. 70% of the residues are in alpha-helix conformation and no beta-sheet is present. CagZ is essential for the translocation of the pathogenic protein CagA into host cells []. ; PDB: 1S2X_A.
Probab=33.99 E-value=33 Score=26.20 Aligned_cols=11 Identities=36% Similarity=0.467 Sum_probs=9.8
Q ss_pred HHHHHHHHHHH
Q 025823 126 LVQMGIYFQVQ 136 (247)
Q Consensus 126 g~~lG~afQi~ 136 (247)
|..+|+||||.
T Consensus 142 gnmmgvafqil 152 (199)
T PF09053_consen 142 GNMMGVAFQIL 152 (199)
T ss_dssp HHHHHHHHHHT
T ss_pred Cccceeeeeee
Confidence 78899999994
No 54
>PHA02130 hypothetical protein
Probab=33.64 E-value=22 Score=23.60 Aligned_cols=32 Identities=22% Similarity=0.146 Sum_probs=21.9
Q ss_pred Hhhhhhcc-CCCCccCC--ccchHhhCcccHHHHH
Q 025823 136 QDDFLDCF-GSPEVIGK--VGTDIEDYKCSWLVVK 167 (247)
Q Consensus 136 ~DD~ld~~-~~~~~~GK--~~~Dl~~gk~Tlp~l~ 167 (247)
-||||++- .+.-..|- ...||.+||-|+..-.
T Consensus 31 dddil~ipfkstv~w~lcp~~qdi~ngke~fvwn~ 65 (81)
T PHA02130 31 DDDILSIPFKSTVYWDLCPYAQDIHNGKENFVWNT 65 (81)
T ss_pred ccchhcccccceeeeccCcchhhhhcCcceeehhh
Confidence 47888873 33334455 5789999999986543
No 55
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=32.95 E-value=56 Score=28.68 Aligned_cols=35 Identities=11% Similarity=0.067 Sum_probs=27.7
Q ss_pred HHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 128 QMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 128 ~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
-+-.++.+..|+.|..+ |.+.|+.|+|+.+.-+..
T Consensus 193 ~~~~~~~l~~di~D~eg----------D~~~Gi~Tlav~lG~~~a 227 (308)
T PRK12887 193 VFTFAIAIFKDIPDMEG----------DRQYQITTFTLRLGKQAV 227 (308)
T ss_pred HHHHHHHHHHhccchhh----------HHHcCCcchhHHHhHHHH
Confidence 34456778889888864 778999999999988764
No 56
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=32.43 E-value=1.6e+02 Score=25.89 Aligned_cols=60 Identities=15% Similarity=0.156 Sum_probs=36.9
Q ss_pred CHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHHHHHHHHHHHH-HHHH----HHhhhhhccC
Q 025823 84 SLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHVEVKDILVQMG-IYFQ----VQDDFLDCFG 144 (247)
Q Consensus 84 s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~~l~~~g~~lG-~afQ----i~DD~ld~~~ 144 (247)
+...|++.++-+|-.. -..|+.+|..++-......+...-+..-+| +++| +.||+-|+..
T Consensus 2 ~~~~~~~~~Rp~tl~~-s~~pvllG~a~a~~~~~~~~~~~~ll~ll~~~~~~~~~N~~NDy~D~~~ 66 (317)
T PRK13387 2 SAKLFLKLVEIHTKIA-SFFPVILGTLFSLYVAKIFDWLLFLAFMVAMLAFDIATTAINNYMDFKK 66 (317)
T ss_pred CHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHhHHHHhc
Confidence 5678999999999887 567888887765211001122222333344 3355 6799999964
No 57
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=32.09 E-value=1.9e+02 Score=22.56 Aligned_cols=22 Identities=23% Similarity=0.138 Sum_probs=14.0
Q ss_pred HHHHHhhcCHHHHHHHHHhhCC
Q 025823 165 VVKALELCNEEQKKLVHENYGK 186 (247)
Q Consensus 165 ~l~al~~~~~~~~~~l~~~~~~ 186 (247)
++.++...+++++..+.+++.+
T Consensus 14 v~~~~~~Lt~eeK~~lkev~~~ 35 (154)
T PF05823_consen 14 VVEFYKNLTPEEKAELKEVAKN 35 (154)
T ss_dssp HHHHHHH--TTTHHHHHHHHTT
T ss_pred HHHHHHcCCHHHHHHHHHHHHH
Confidence 4566677777788888777654
No 58
>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase, proteobacterial. A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterized members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterized members.
Probab=31.73 E-value=1.3e+02 Score=25.94 Aligned_cols=61 Identities=10% Similarity=-0.129 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHcCCChHHHH-HHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 101 FYLPVACALLMAGENLDKHV-EVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 101 f~~~~~~ga~~ag~~~~~~~-~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
+..+..+|......+....- .+.-.....-..|.+..++.|+. .|.+.|++|+|+.+..+.
T Consensus 143 ~~~~~~~g~~a~~g~~~~~~~ll~~~~~lw~~~~~~~~a~~D~e----------~D~~~G~~tlpv~~G~~~ 204 (281)
T TIGR01474 143 FGWGALMGWAAVTGDLSTAAWVLYLANILWTLGYDTIYAMQDKE----------DDIKIGVKSTALRFGDNT 204 (281)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHhhHH----------hHHHcCCCcccHHhhhhh
Confidence 55555555543332222111 12222223344555666777765 477899999999998654
No 59
>TIGR01475 ubiA_other putative 4-hydroxybenzoate polyprenyltransferase. A fairly deep split separates this polyprenyltransferase subfamily from the set of mitochondrial and proteobacterial 4-hydroxybenzoate polyprenyltransferases, described in TIGR01474. Protoheme IX farnesyltransferase (heme O synthase) (TIGR01473) is more distantly related. Because no species appears to have both this protein and a member of TIGR01474, it is likely that This model represents 4-hydroxybenzoate polyprenyltransferase, a critical enzyme of ubiquinone biosynthesis, in the Archaea, Gram-positive bacteria, Aquifex aeolicus, the Chlamydias, etc.
Probab=31.35 E-value=1.2e+02 Score=26.01 Aligned_cols=30 Identities=13% Similarity=-0.078 Sum_probs=22.9
Q ss_pred HHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 132 YFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 132 afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
.+-+..|+.|+. .|.+.|.+|+|+.+..+.
T Consensus 173 ~~~~i~~~~D~e----------~D~~~G~~tlpv~~G~~~ 202 (282)
T TIGR01475 173 GFDLIYAIQDYE----------FDRKNGLHSIPARFGIKA 202 (282)
T ss_pred HHHHHHHHhhHH----------hHHHcCCCchHHHhchHH
Confidence 445677777775 477899999999998654
No 60
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=29.66 E-value=18 Score=31.22 Aligned_cols=32 Identities=19% Similarity=0.032 Sum_probs=25.5
Q ss_pred HHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 131 IYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 131 ~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
.++.+.+|+.|+.+ |.+.|+.|+|+.+..+.+
T Consensus 175 ~~i~~~nd~~D~~~----------D~~~G~~Tl~v~lG~~~a 206 (283)
T TIGR01476 175 HGIMTLNDFKSVEG----------DRQLGLRSLPVMIGVKRA 206 (283)
T ss_pred HHHHHHHhccchhh----------HHHcCCcCcceEEcHHHH
Confidence 34678899988864 778899999999877753
No 61
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=29.65 E-value=1e+02 Score=26.65 Aligned_cols=35 Identities=9% Similarity=-0.183 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 127 VQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 127 ~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
--+..++.+.+++.|+. .|.+.|+.|+|+.+..+.
T Consensus 175 ~l~~~~~~~in~i~Die----------~D~~aGi~Tlav~lG~~~ 209 (282)
T PRK12875 175 WLWAMGMHTFSAIPDIE----------PDRAAGIRTTATVLGERR 209 (282)
T ss_pred HHHHHHHHHHHhccCHH----------HHHHcCCccchhhccHhh
Confidence 35667778889988875 477899999999988775
No 62
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=24.90 E-value=2.9e+02 Score=24.24 Aligned_cols=79 Identities=10% Similarity=0.006 Sum_probs=49.2
Q ss_pred CHHHHHHHH---HhchhhhhhHHHHHHHHHHcCCCh---HHHHHHHHHHHHHHHHH-----HHHhhhhhccCCCCccCC-
Q 025823 84 SLPLHRRIV---QYKTAYYSFYLPVACALLMAGENL---DKHVEVKDILVQMGIYF-----QVQDDFLDCFGSPEVIGK- 151 (247)
Q Consensus 84 s~~~y~~i~---~~KTa~ltf~~~~~~ga~~ag~~~---~~~~~l~~~g~~lG~af-----Qi~DD~ld~~~~~~~~GK- 151 (247)
+...|.+.. +-+|-.+ .-.|+..|..++.... .......-+-.-+|..+ .+.||+.|.--|.. ..+
T Consensus 29 ~~~~y~~L~R~~kP~~~~l-~~~p~~~G~~lA~~~~~~~~~~~~~~~~l~~l~~~l~~~a~~~~Nd~~Dr~iD~~-~~Rt 106 (314)
T PRK12878 29 WLRPYAQLARWDRPIGWWL-LLWPCWWSAALAAGAAADLGLLLLWHLFLFFVGAIAMRGAGCTYNDIVDRDIDAK-VART 106 (314)
T ss_pred hHHHHHHHHccccchhhHH-HHHHHHHHHHHhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC-CCCC
Confidence 678999999 8889888 8889999988875420 00110112223344444 89999999755542 222
Q ss_pred ccchHhhCcccHH
Q 025823 152 VGTDIEDYKCSWL 164 (247)
Q Consensus 152 ~~~Dl~~gk~Tlp 164 (247)
...=+..|+.|..
T Consensus 107 ~~RPl~sG~is~~ 119 (314)
T PRK12878 107 RSRPLPSGQVSRK 119 (314)
T ss_pred CCCCCCCCCcCHH
Confidence 3455667777743
No 63
>PF02313 Fumarate_red_D: Fumarate reductase subunit D; InterPro: IPR003418 Fumarate reductase is a membrane-bound flavoenzyme consisting of four subunits, A-B. A and B comprise the membrane-extrinsic catalytic domain and C and D link the catalytic centres to the electron-transport chain. This family consists of the 13kDa hydrophobic subunit D. This component may be required to anchor the catalytic components of the fumarate reductase complex to the cytoplasmic membrane.; GO: 0006106 fumarate metabolic process, 0016020 membrane; PDB: 3P4R_P 1KF6_P 3P4Q_P 3P4S_D 3CIR_P 2B76_D 1L0V_P 3P4P_D 1KFY_P.
Probab=24.86 E-value=31 Score=25.77 Aligned_cols=20 Identities=20% Similarity=0.468 Sum_probs=13.8
Q ss_pred CCCCCCccCchhhccccchh
Q 025823 1 MDGSHTRRGQPCWFRVPKVG 20 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~ 20 (247)
|+++++|..+|-+|-.||.+
T Consensus 1 ~~~~~kRS~EPi~W~LFgAG 20 (118)
T PF02313_consen 1 MNQNPKRSDEPIFWGLFGAG 20 (118)
T ss_dssp --SS--B-SHHHHHHHHHHH
T ss_pred CCCCCcccCCCceeeeecch
Confidence 68899999999999999965
No 64
>COG3080 FrdD Fumarate reductase subunit D [Energy production and conversion]
Probab=24.83 E-value=35 Score=25.07 Aligned_cols=20 Identities=15% Similarity=0.426 Sum_probs=17.3
Q ss_pred CCCCCCccCchhhccccchh
Q 025823 1 MDGSHTRRGQPCWFRVPKVG 20 (247)
Q Consensus 1 iD~~~~RRG~pt~~~~~g~~ 20 (247)
+|.++.|-+.|.+|..||.+
T Consensus 2 ~~~~pkRS~EPv~WlLFgAG 21 (118)
T COG3080 2 INPNPKRSDEPVFWLLFGAG 21 (118)
T ss_pred CCCCCCcCCCCceEEEecCC
Confidence 45699999999999999964
No 65
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=24.24 E-value=4.4e+02 Score=22.32 Aligned_cols=78 Identities=9% Similarity=-0.029 Sum_probs=45.3
Q ss_pred CHHHHHHHHHhchhhhhhHHHHHHHHHHcCCChHHHH-HHHHHHHHH-HHHHHHHhhhhhccCCCCccCCccchHhhCcc
Q 025823 84 SLPLHRRIVQYKTAYYSFYLPVACALLMAGENLDKHV-EVKDILVQM-GIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKC 161 (247)
Q Consensus 84 s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~~~~~~~-~l~~~g~~l-G~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~ 161 (247)
....|.+.++-++... ...++.+|+.++........ .+.-+|.-+ -.+=.+.||+.|+.-|... |...-+-.|+.
T Consensus 3 ~l~~~~~l~R~~~~~~-~~~~~~~g~~la~~~~~~~~~~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~--r~~Rpl~~G~i 79 (279)
T PRK12884 3 KMKAYLELLRPEHGLM-AGIAVVLGAIIALGGLPLDEALLGFLTAFFASGSANALNDYFDYEVDRIN--RPDRPIPSGRI 79 (279)
T ss_pred HHHHHHHHhhhhHHHH-HHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhcc--CCCCCCCCCCC
Confidence 4678999999998876 55667778877643211111 111122211 1223689999999876543 33334556665
Q ss_pred cHH
Q 025823 162 SWL 164 (247)
Q Consensus 162 Tlp 164 (247)
|..
T Consensus 80 s~~ 82 (279)
T PRK12884 80 SRR 82 (279)
T ss_pred CHH
Confidence 544
No 66
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=23.93 E-value=89 Score=27.80 Aligned_cols=40 Identities=23% Similarity=0.174 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 122 VKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 122 l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
+.-+.--+..++-+.+|+.|+.+ |.+.|+.|+|+.+.-+.
T Consensus 185 l~~~~~l~~~~~~~i~d~~D~eg----------D~~~G~kTlpV~~G~~~ 224 (331)
T PRK12392 185 LAGLNFFMAIALIIMNDFKSVEG----------DKEGGLKSLTVMIGAKN 224 (331)
T ss_pred HHHHHHHHHHHHHHHHcccchhh----------HHHcCCeeeEeEEcHhh
Confidence 44445566788888999999864 77889999999888765
No 67
>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=23.87 E-value=2.6e+02 Score=23.88 Aligned_cols=72 Identities=7% Similarity=0.042 Sum_probs=43.1
Q ss_pred HHHHHHHhchhhhhhHHHHHHHHHHcCCC--hHHHHHHHHHHHHHHHHH-----HHHhhhhhccCCCCccCC-ccchHhh
Q 025823 87 LHRRIVQYKTAYYSFYLPVACALLMAGEN--LDKHVEVKDILVQMGIYF-----QVQDDFLDCFGSPEVIGK-VGTDIED 158 (247)
Q Consensus 87 ~y~~i~~~KTa~ltf~~~~~~ga~~ag~~--~~~~~~l~~~g~~lG~af-----Qi~DD~ld~~~~~~~~GK-~~~Dl~~ 158 (247)
.|++.++-++-.+ ...++.+|..+++.. ... ..-+..-+|..+ .+.||+.|.--|... -+ ...=+-.
T Consensus 2 ~~~~l~rp~~~~~-~~~~~~~g~~la~~~~~~~~---~~~~l~~~~~~l~~~a~~~~Nd~~D~~iD~~~-~Rt~~Rpl~s 76 (280)
T TIGR01473 2 DYLQLTKPRIISL-LLITAFAGMWLAPGGALVNP---PLLLLTLLGTTLAAASANAFNMYIDRDIDKKM-KRTRNRPLVT 76 (280)
T ss_pred chHHHccHHHHHH-HHHHHHHHHHHhCCCCCCCH---HHHHHHHHHHHHHHHHHHHHHhhcccCcCCCC-CCCCCCCCCC
Confidence 4788888888887 667788888887532 221 111223344433 799999998655431 12 2344555
Q ss_pred CcccH
Q 025823 159 YKCSW 163 (247)
Q Consensus 159 gk~Tl 163 (247)
|+.|.
T Consensus 77 G~is~ 81 (280)
T TIGR01473 77 GRISP 81 (280)
T ss_pred CCcCH
Confidence 66653
No 68
>COG5559 Uncharacterized conserved small protein [Function unknown]
Probab=23.32 E-value=1.1e+02 Score=20.00 Aligned_cols=27 Identities=4% Similarity=0.231 Sum_probs=15.8
Q ss_pred HHHHHhhcCCChHHHHHHHHHHHHHHhc
Q 025823 218 KLTKSIEAHPTKEVQAVLKSFLAKIYKR 245 (247)
Q Consensus 218 ~A~~~l~~lp~~~~~~~L~~l~~~~~~R 245 (247)
.+.+..+.+|+ +.+..+...++++.+|
T Consensus 3 ~~yelfqkLPD-dLKrEvldY~EfLlek 29 (65)
T COG5559 3 AAYELFQKLPD-DLKREVLDYIEFLLEK 29 (65)
T ss_pred hHHHHHHHCcH-HHHHHHHHHHHHHHHH
Confidence 34455566776 3455556666666655
No 69
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=22.98 E-value=4.8e+02 Score=22.23 Aligned_cols=76 Identities=16% Similarity=0.045 Sum_probs=43.7
Q ss_pred CHHHHHHHHHhchhhhhhHHHHHHHHHHcCC-ChHHHH-HHHHHHHHH-HHHHHHHhhhhhccCCCCccCCccchHhhCc
Q 025823 84 SLPLHRRIVQYKTAYYSFYLPVACALLMAGE-NLDKHV-EVKDILVQM-GIYFQVQDDFLDCFGSPEVIGKVGTDIEDYK 160 (247)
Q Consensus 84 s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~-~~~~~~-~l~~~g~~l-G~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk 160 (247)
+...|++.++-++..+ ...++..|+.++.. .+.... .+.-+|.-+ -.+=.+.||+.|..-|... |...=+-.|+
T Consensus 2 ~~~~~~~l~Rp~~~~~-~~~~~~~g~~la~~~~~~~~~~~l~~l~~~l~~~~~~~iNd~~D~~iD~~~--~~~Rpl~sG~ 78 (279)
T PRK09573 2 SIKAYFELIRPKNCIG-ASIGAIIGYLIASNFKIDLKGIILAALVVFLVCAGGNVINDIYDIEIDKIN--KPERPIPSGR 78 (279)
T ss_pred CHHHHHHHHhHhHHHH-HHHHHHHHHHHHccCCcchHHHHHHHHHHHHHHHHHHHHHhhccccccccc--CCCCCcCCCc
Confidence 4567999999999987 66678888877632 221111 111112111 1122689999999765432 2234455566
Q ss_pred cc
Q 025823 161 CS 162 (247)
Q Consensus 161 ~T 162 (247)
.|
T Consensus 79 is 80 (279)
T PRK09573 79 IS 80 (279)
T ss_pred cC
Confidence 55
No 70
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=22.83 E-value=29 Score=30.49 Aligned_cols=31 Identities=19% Similarity=-0.107 Sum_probs=24.8
Q ss_pred HHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhh
Q 025823 131 IYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALEL 171 (247)
Q Consensus 131 ~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~ 171 (247)
.++.+++|+.|.. +|.+.|+.|+|+.+..+.
T Consensus 203 ~~~~~~~d~~D~e----------~D~~aG~~Tlpv~~G~~~ 233 (314)
T PRK07566 203 HGIMTLNDFKSVE----------GDRQLGLRSLPVVFGEKN 233 (314)
T ss_pred HHHHHHHHHHHhH----------hHHHcCCcccceeEcHHH
Confidence 3457889999986 477899999999987664
No 71
>PF10047 DUF2281: Protein of unknown function (DUF2281); InterPro: IPR018739 This domain is found in putative uncharacterised proteins, though some proteins contaning this domain are described as a transcritional regulator of the Xre family.
Probab=22.69 E-value=1.3e+02 Score=19.79 Aligned_cols=29 Identities=24% Similarity=0.437 Sum_probs=20.2
Q ss_pred HHHHHHhhcCCChHHHHHHHHHHHHHHhcc
Q 025823 217 EKLTKSIEAHPTKEVQAVLKSFLAKIYKRQ 246 (247)
Q Consensus 217 ~~A~~~l~~lp~~~~~~~L~~l~~~~~~R~ 246 (247)
++..+.+..||+ +....+..+++++..|.
T Consensus 3 ~~l~~~i~~LP~-~~~~Evldfi~fL~~k~ 31 (66)
T PF10047_consen 3 EELLEKIQQLPE-ELQQEVLDFIEFLLQKY 31 (66)
T ss_pred HHHHHHHHHCCH-HHHHHHHHHHHHHHHhc
Confidence 345667788887 45666778888887653
No 72
>PF15080 DUF4547: Domain of unknown function (DUF4547)
Probab=22.16 E-value=4.1e+02 Score=21.18 Aligned_cols=73 Identities=10% Similarity=-0.012 Sum_probs=47.4
Q ss_pred chHhhCcccHHHHHHHhhcCHHHHHHHHHhhCCC--ChHhHHHHHHHHHHcC--hHHHHHHHHHHHHHHHHHHhhcC
Q 025823 154 TDIEDYKCSWLVVKALELCNEEQKKLVHENYGKV--DPACVAKVKELYKTLD--LEGAFVEYEKESYEKLTKSIEAH 226 (247)
Q Consensus 154 ~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~--~~~~~~~i~~l~~~~g--~~~~~~~~~~~~~~~A~~~l~~l 226 (247)
-||..|-+|+.-++-....+...|..-...+..- ...++..+.-.+..+| +.-|+.+.-+.|+...--.|..+
T Consensus 78 PdL~r~LPTlASvLrrKvkN~~Ir~vwesvLee~GLqE~dv~aLCtFfiahgnkaehy~a~~R~~yi~dv~~mItnm 154 (196)
T PF15080_consen 78 PDLVRGLPTLASVLRRKVKNKRIRVVWESVLEECGLQEGDVTALCTFFIAHGNKAEHYAAKVRQMYIRDVTFMITNM 154 (196)
T ss_pred hHHHhCcchHHHHHHHHhhchHHHHHHHHHHHHcCCCcccHHHHHHHHHHhcchHhHhHHHHHHHHHhhHHHHHHHH
Confidence 4899999999998877766654444333333221 3567777777777777 44566666666666666666554
No 73
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=22.04 E-value=3.8e+02 Score=21.24 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=28.8
Q ss_pred ChHhHHHHHHHHHHcChHH-----------------------HHHHHHHHHHHHHHHHhhcCCC
Q 025823 188 DPACVAKVKELYKTLDLEG-----------------------AFVEYEKESYEKLTKSIEAHPT 228 (247)
Q Consensus 188 ~~~~~~~i~~l~~~~g~~~-----------------------~~~~~~~~~~~~A~~~l~~lp~ 228 (247)
+.++++...+++.+.|.++ ..+.+-.+..+.|.++|+.+|.
T Consensus 54 s~~ev~~sL~~L~~~gli~k~~~g~y~~t~~~l~~~~~~~~~avr~~h~q~~~lA~~al~~~p~ 117 (171)
T PF14394_consen 54 SAEEVRDSLEFLEKLGLIKKDGDGKYVQTDKSLTTSSEIPSEAVRSYHKQMLELAQEALDRVPP 117 (171)
T ss_pred CHHHHHHHHHHHHHCCCeEECCCCcEEEecceeeCCCCCcHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 5566666666666666543 4556667788899999998775
No 74
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=21.81 E-value=1.8e+02 Score=25.63 Aligned_cols=38 Identities=13% Similarity=0.156 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHH
Q 025823 120 VEVKDILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKA 168 (247)
Q Consensus 120 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~a 168 (247)
-.+...-+.+=.+.=|.||+.| .+|+|.|++|.+..+.
T Consensus 69 ~~~aaavEliH~~SLiHDDvmD-----------~s~~RRG~pt~~~~~g 106 (322)
T COG0142 69 LDLAAAIELIHTASLIHDDLMD-----------DDDLRRGKPTVHAKFG 106 (322)
T ss_pred HHHHHHHHHHHHHHHHHhhccc-----------CCCccCCCCCchhHhc
Confidence 3455555666677889999965 2688999999987763
No 75
>PRK04375 protoheme IX farnesyltransferase; Provisional
Probab=21.28 E-value=5.3e+02 Score=22.26 Aligned_cols=75 Identities=11% Similarity=0.054 Sum_probs=47.5
Q ss_pred CCHHHHHHHHHhchhhhhhHHHHHHHHHHcCC-ChHHHHHHHHHHHHHHHHH-----HHHhhhhhccCCCCccCC-ccch
Q 025823 83 YSLPLHRRIVQYKTAYYSFYLPVACALLMAGE-NLDKHVEVKDILVQMGIYF-----QVQDDFLDCFGSPEVIGK-VGTD 155 (247)
Q Consensus 83 ~s~~~y~~i~~~KTa~ltf~~~~~~ga~~ag~-~~~~~~~l~~~g~~lG~af-----Qi~DD~ld~~~~~~~~GK-~~~D 155 (247)
.+...|++.++-++..+ ...++.+|+.++.. .++.. .-+..-+|..+ .+.||+.|.--|... -+ ...=
T Consensus 8 ~~~~~y~~L~rp~~~~~-~~~~~~~G~~la~~~~~~~~---~~~l~~l~~~l~~aa~~~iNd~~D~~iD~~~-~Rt~~Rp 82 (296)
T PRK04375 8 ATLKDYLALTKPRVISL-NLFTALGGMLLAPPGVPPLL---LLLLTLLGIALVAGAAGALNNYIDRDIDAKM-ERTKNRP 82 (296)
T ss_pred hhHHHHHHHhHHHHHHH-HHHHHHHHHHHhcCCCCCHH---HHHHHHHHHHHHHHHHHHHHhHHhhccCCCC-CccCCCC
Confidence 36788999999999887 77788889888742 22211 11223344433 789999997655431 22 3445
Q ss_pred HhhCccc
Q 025823 156 IEDYKCS 162 (247)
Q Consensus 156 l~~gk~T 162 (247)
|-.|+.|
T Consensus 83 l~sG~is 89 (296)
T PRK04375 83 LVTGRIS 89 (296)
T ss_pred CCCCCcC
Confidence 5667776
No 76
>PLN02878 homogentisate phytyltransferase
Probab=21.23 E-value=72 Score=27.70 Aligned_cols=38 Identities=16% Similarity=0.039 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhhhhccCCCCccCCccchHhhCcccHHHHHHHhhc
Q 025823 125 ILVQMGIYFQVQDDFLDCFGSPEVIGKVGTDIEDYKCSWLVVKALELC 172 (247)
Q Consensus 125 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~Dl~~gk~Tlp~l~al~~~ 172 (247)
|-.-+..+.-+..|+.|+.| |-+.|..|+|+.+.-++.
T Consensus 164 f~~~f~~~i~i~KDi~DieG----------D~~~Gi~Tlpv~lG~~~~ 201 (280)
T PLN02878 164 FMCFFSVVIALFKDIPDVEG----------DRIFGIRSFSVRLGQKRV 201 (280)
T ss_pred HHHHHHHHHHHHhhCcCchh----------HHHCCCceechhhChHHH
Confidence 33444445559999999986 557899999999987764
No 77
>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=20.60 E-value=53 Score=23.98 Aligned_cols=15 Identities=27% Similarity=0.459 Sum_probs=12.3
Q ss_pred HHHHHHhhhhhccCC
Q 025823 131 IYFQVQDDFLDCFGS 145 (247)
Q Consensus 131 ~afQi~DD~ld~~~~ 145 (247)
-..+|.+|++|+|-.
T Consensus 45 ~~~~il~dildlfEe 59 (103)
T PF06304_consen 45 DMMEILSDILDLFEE 59 (103)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 467999999999854
No 78
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=20.42 E-value=4.1e+02 Score=20.57 Aligned_cols=31 Identities=0% Similarity=-0.100 Sum_probs=27.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 025823 114 ENLDKHVEVKDILVQMGIYFQVQDDFLDCFG 144 (247)
Q Consensus 114 ~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~ 144 (247)
-++++++.+..+...|.-+..=.+++.++..
T Consensus 30 ysp~~l~~i~~~~~~i~~~~~r~~eLk~lI~ 60 (142)
T TIGR03042 30 YSPAQLAQIQRQAEGIEAAKDRLPELASLVA 60 (142)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Confidence 3788999999999999999999999999874
Done!