Query psy5532
Match_columns 168
No_of_seqs 152 out of 1279
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 19:58:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5532hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0142 IspA Geranylgeranyl py 100.0 9.1E-31 2E-35 209.6 10.7 120 2-123 74-250 (322)
2 PRK10888 octaprenyl diphosphat 100.0 5.2E-30 1.1E-34 205.2 12.2 158 2-166 72-287 (323)
3 CHL00151 preA prenyl transfera 100.0 4.3E-30 9.3E-35 205.9 9.8 118 2-121 76-249 (323)
4 PLN02857 octaprenyl-diphosphat 100.0 3.9E-30 8.6E-35 210.8 9.0 118 2-121 169-342 (416)
5 PLN02890 geranyl diphosphate s 100.0 8.9E-30 1.9E-34 208.7 10.2 117 2-120 169-341 (422)
6 TIGR02749 prenyl_cyano solanes 100.0 7E-30 1.5E-34 204.5 9.3 117 2-120 75-247 (322)
7 TIGR02748 GerC3_HepT heptapren 100.0 1.6E-29 3.6E-34 202.2 10.4 120 2-121 71-244 (319)
8 PRK10581 geranyltranstransfera 100.0 9.9E-29 2.2E-33 195.9 9.3 122 2-123 72-259 (299)
9 PF00348 polyprenyl_synt: Poly 100.0 3.3E-29 7.2E-34 195.5 5.0 157 2-167 41-259 (260)
10 cd00685 Trans_IPPS_HT Trans-Is 99.9 6.6E-26 1.4E-30 176.8 9.3 119 2-120 47-222 (259)
11 KOG0776|consensus 99.9 2E-24 4.3E-29 172.9 10.7 116 2-119 136-313 (384)
12 KOG0777|consensus 99.9 8E-22 1.7E-26 147.6 10.2 155 2-167 63-275 (322)
13 cd00867 Trans_IPPS Trans-Isopr 99.8 3.8E-20 8.3E-25 142.1 8.6 116 2-119 26-197 (236)
14 KOG0711|consensus 99.8 1.2E-18 2.6E-23 135.7 8.4 144 2-154 86-296 (347)
15 PRK10888 octaprenyl diphosphat 99.8 1.9E-18 4.2E-23 138.5 9.9 121 44-164 28-152 (323)
16 COG0142 IspA Geranylgeranyl py 99.8 1.7E-18 3.7E-23 138.9 9.5 124 43-166 25-158 (322)
17 TIGR02748 GerC3_HepT heptapren 99.8 2.1E-18 4.7E-23 138.2 9.7 121 44-164 27-151 (319)
18 TIGR02749 prenyl_cyano solanes 99.8 2.1E-18 4.6E-23 138.3 9.6 121 43-163 27-154 (322)
19 PLN02890 geranyl diphosphate s 99.8 4.6E-18 9.9E-23 139.9 10.4 122 43-164 105-249 (422)
20 PRK10581 geranyltranstransfera 99.8 1E-17 2.2E-22 133.0 11.1 120 45-164 29-164 (299)
21 CHL00151 preA prenyl transfera 99.7 6.3E-18 1.4E-22 135.7 9.9 119 44-162 29-154 (323)
22 PLN02857 octaprenyl-diphosphat 99.7 6.6E-18 1.4E-22 138.9 8.5 119 44-162 119-247 (416)
23 cd00685 Trans_IPPS_HT Trans-Is 99.7 7E-17 1.5E-21 126.0 10.1 120 45-164 3-130 (259)
24 PF00348 polyprenyl_synt: Poly 99.6 4.1E-16 9E-21 121.7 7.6 91 50-140 3-96 (260)
25 KOG0776|consensus 99.6 9.1E-16 2E-20 123.3 6.9 86 45-130 92-181 (384)
26 KOG0777|consensus 99.4 1.2E-12 2.6E-17 98.5 6.1 114 44-164 19-135 (322)
27 cd00385 Isoprenoid_Biosyn_C1 I 99.1 3.1E-10 6.8E-15 85.5 7.2 119 2-121 18-185 (243)
28 cd00867 Trans_IPPS Trans-Isopr 99.0 7E-10 1.5E-14 85.1 6.9 103 63-165 1-108 (236)
29 KOG0711|consensus 98.4 7.5E-07 1.6E-11 70.3 7.3 88 57-144 48-145 (347)
30 cd00385 Isoprenoid_Biosyn_C1 I 96.2 0.011 2.3E-07 44.2 5.1 81 83-163 14-100 (243)
31 PRK13105 ubiA prenyltransferas 76.9 2.5 5.4E-05 33.6 2.8 41 84-124 165-206 (282)
32 PLN00012 chlorophyll synthetas 71.1 2.9 6.2E-05 34.6 2.0 39 86-124 259-298 (375)
33 TIGR02056 ChlG chlorophyll syn 70.1 4 8.6E-05 32.7 2.5 36 89-124 193-229 (306)
34 TIGR01476 chlor_syn_BchG bacte 68.9 3.4 7.3E-05 32.6 1.9 35 90-124 172-207 (283)
35 PRK12875 ubiA prenyltransferas 68.4 3.1 6.8E-05 33.0 1.6 36 89-124 175-211 (282)
36 PRK07566 bacteriochlorophyll/c 65.6 3.8 8.3E-05 32.9 1.6 34 91-124 201-235 (314)
37 PRK12884 ubiA prenyltransferas 65.1 6.1 0.00013 31.0 2.6 39 86-124 162-201 (279)
38 PRK12883 ubiA prenyltransferas 64.4 4.3 9.4E-05 31.9 1.7 33 92-124 167-200 (277)
39 PF07307 HEPPP_synt_1: Heptapr 63.4 61 0.0013 24.7 7.6 80 80-164 34-116 (212)
40 PRK12872 ubiA prenyltransferas 59.8 9.4 0.0002 30.0 2.8 34 90-123 172-206 (285)
41 PRK12887 ubiA tocopherol phyty 59.5 9.4 0.0002 30.7 2.8 40 85-124 188-228 (308)
42 PRK12882 ubiA prenyltransferas 58.4 9.7 0.00021 29.9 2.7 33 92-124 170-203 (276)
43 PRK12392 bacteriochlorophyll c 53.6 7.8 0.00017 31.5 1.5 40 84-123 185-225 (331)
44 PF01040 UbiA: UbiA prenyltran 53.1 12 0.00026 28.4 2.4 43 83-125 150-193 (257)
45 TIGR03464 HpnC squalene syntha 52.8 94 0.002 24.2 7.4 34 85-118 137-171 (266)
46 PRK13591 ubiA prenyltransferas 51.2 4 8.8E-05 32.8 -0.5 29 96-124 196-225 (307)
47 PRK06080 1,4-dihydroxy-2-napht 51.0 8.7 0.00019 30.3 1.4 39 85-123 174-213 (293)
48 PLN02878 homogentisate phytylt 50.4 16 0.00035 29.0 2.7 38 87-124 164-202 (280)
49 TIGR01475 ubiA_other putative 47.8 20 0.00043 28.2 2.9 32 92-123 171-203 (282)
50 PRK09573 (S)-2,3-di-O-geranylg 45.9 18 0.00038 28.4 2.4 32 93-124 168-200 (279)
51 PRK12871 ubiA prenyltransferas 42.1 17 0.00037 29.0 1.8 37 87-123 183-220 (297)
52 PRK13595 ubiA prenyltransferas 41.1 25 0.00055 28.1 2.6 37 88-124 178-215 (292)
53 PRK12847 ubiA 4-hydroxybenzoat 38.3 38 0.00082 26.7 3.2 35 90-124 176-211 (285)
54 TIGR01474 ubiA_proteo 4-hydrox 37.8 31 0.00068 27.2 2.6 33 91-123 172-205 (281)
55 PRK12888 ubiA prenyltransferas 37.6 30 0.00066 27.4 2.5 35 90-124 170-205 (284)
56 PF06783 UPF0239: Uncharacteri 36.5 49 0.0011 21.4 2.8 18 81-98 18-35 (85)
57 PRK13592 ubiA prenyltransferas 35.6 47 0.001 26.7 3.3 40 84-124 180-219 (299)
58 cd00683 Trans_IPPS_HH Trans-Is 32.6 1.2E+02 0.0026 23.4 5.2 37 82-118 142-179 (265)
59 PF00494 SQS_PSY: Squalene/phy 31.6 1.1E+02 0.0025 23.4 4.9 52 67-118 126-179 (267)
60 TIGR02235 menA_cyano-plnt 1,4- 31.2 23 0.00049 28.2 0.8 34 90-123 172-206 (285)
61 COG0382 UbiA 4-hydroxybenzoate 30.6 79 0.0017 24.9 3.9 44 81-124 169-213 (289)
62 TIGR03465 HpnD squalene syntha 30.2 1.9E+02 0.0041 22.4 5.9 36 82-117 133-169 (266)
63 PRK13387 1,4-dihydroxy-2-napht 29.1 13 0.00029 30.0 -0.8 30 95-124 205-235 (317)
64 PRK12870 ubiA 4-hydroxybenzoat 28.4 63 0.0014 25.6 2.9 41 84-124 171-212 (290)
65 PF15312 JSRP: Junctional sarc 28.4 1E+02 0.0023 18.8 3.2 25 80-104 13-37 (65)
66 PRK05951 ubiA prenyltransferas 27.5 22 0.00049 28.2 0.2 31 93-123 185-216 (296)
67 PRK12848 ubiA 4-hydroxybenzoat 25.9 73 0.0016 25.1 2.9 30 95-124 178-208 (282)
68 TIGR00751 menA 1,4-dihydroxy-2 25.2 38 0.00083 26.9 1.2 32 93-124 178-210 (284)
69 PRK12869 ubiA protoheme IX far 24.4 17 0.00037 28.6 -0.9 32 6-39 174-205 (279)
70 PHA02706 hypothetical protein; 24.4 94 0.002 17.8 2.3 22 81-102 7-28 (58)
71 PRK12878 ubiA 4-hydroxybenzoat 23.7 77 0.0017 25.5 2.7 33 92-124 205-238 (314)
72 PRK07419 1,4-dihydroxy-2-napht 23.5 31 0.00067 27.7 0.4 32 92-123 187-219 (304)
73 PRK12874 ubiA prenyltransferas 23.2 1.6E+02 0.0035 23.4 4.4 35 90-124 178-213 (291)
74 PLN02922 prenyltransferase 23.1 49 0.0011 26.7 1.5 35 90-124 199-234 (315)
75 PF09053 CagZ: CagZ; InterPro 23.0 62 0.0013 22.8 1.7 14 88-101 142-157 (199)
76 PRK12886 ubiA prenyltransferas 20.7 2.2E+02 0.0047 22.6 4.6 31 94-124 177-208 (291)
77 PF02313 Fumarate_red_D: Fumar 20.3 63 0.0014 22.3 1.3 19 17-35 1-19 (118)
No 1
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=99.97 E-value=9.1e-31 Score=209.55 Aligned_cols=120 Identities=28% Similarity=0.450 Sum_probs=90.6
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHHH---------------------HHHHHHh---
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELRT---------------------ISTYYFD--- 57 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~~---------------------~~~~~~~--- 57 (168)
++|++|++|||||||||+|++|||+||+|.+||+..||+ .++..+.. ....+..
T Consensus 74 avEliH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIl--aGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~ 151 (322)
T COG0142 74 AIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAIL--AGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQA 151 (322)
T ss_pred HHHHHHHHHHHHhhcccCCCccCCCCCchhHhccHHHHH--HHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHH
Confidence 799999999999999999999999999999999988872 11111111 1111111
Q ss_pred ----CCC---------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------
Q psy5532 58 ----GQG---------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------ 104 (168)
Q Consensus 58 ----~~g---------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------ 104 (168)
..+ ..++.+++.++..++..++ ....+..||..+|+||||+|||+|+
T Consensus 152 lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g 231 (322)
T COG0142 152 LDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVG 231 (322)
T ss_pred HHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcc
Confidence 001 2466777777776665443 4678999999999999999999998
Q ss_pred CccccCCCchhHHhccchh
Q psy5532 105 SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 105 ~d~r~Gk~t~~~~~g~~~a 123 (168)
+|++.||+|+|++++.+.+
T Consensus 232 ~Dl~~gK~T~p~l~~l~~~ 250 (322)
T COG0142 232 SDLKEGKPTLPVLLALEKA 250 (322)
T ss_pred hHHHcCCchHHHHHHHHcC
Confidence 4788999999999985533
No 2
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=99.97 E-value=5.2e-30 Score=205.18 Aligned_cols=158 Identities=23% Similarity=0.416 Sum_probs=99.9
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHH-------------------HHHHHHHHHh-----
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEE-------------------LRTISTYYFD----- 57 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~-------------------l~~~~~~~~~----- 57 (168)
++|++|+||||||||||+|++|||+|++|..||+..||+ .++.. +......+..
T Consensus 72 avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~Ail--~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d 149 (323)
T PRK10888 72 LIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVL--VGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQ 149 (323)
T ss_pred HHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccHHHH--HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999988872 11111 1111111100
Q ss_pred ----CCC--------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------C
Q psy5532 58 ----GQG--------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------S 105 (168)
Q Consensus 58 ----~~g--------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~ 105 (168)
... .+++.+++.++..+|..++ ....+..||+++|+||||+||++|+ +
T Consensus 150 ~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~ 229 (323)
T PRK10888 150 LMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGD 229 (323)
T ss_pred HHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchh
Confidence 000 2345566666655553332 3567899999999999999999998 4
Q ss_pred ccccCCCchhHHhccchhhccCCCHHHHHHHhhhhhcCCC-chHHHHHHHH-hhhhhhhhhhh
Q psy5532 106 DFRRGKPSVNVVYNHKKELISNTNQEELRTISTYYFDGQG-KAVRPMVSVL-MGRAINYHLNR 166 (168)
Q Consensus 106 d~r~Gk~t~~~~~g~~~ail~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~-~~~~~~y~~~~ 166 (168)
|+++||+|+|.++... ...+...+.+......... .....+.+.. ..+.++|++++
T Consensus 230 Dl~~gk~Tlp~l~al~-----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~ 287 (323)
T PRK10888 230 DLNEGKPTLPLLHAMH-----HGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQR 287 (323)
T ss_pred hhhcCCchHHHHHHHH-----hCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHH
Confidence 7888888888887633 2223333333333322221 1222333333 33677777653
No 3
>CHL00151 preA prenyl transferase; Reviewed
Probab=99.96 E-value=4.3e-30 Score=205.87 Aligned_cols=118 Identities=27% Similarity=0.457 Sum_probs=85.6
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHH-------------------HHHHHHHhC----
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELR-------------------TISTYYFDG---- 58 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~-------------------~~~~~~~~~---- 58 (168)
++|++|+||||||||||+|++|||+|++|..||+..||+ .++..+. ++...+...
T Consensus 76 aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail--~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~ 153 (323)
T CHL00151 76 ITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVL--AGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQ 153 (323)
T ss_pred HHHHHHHHHHHHcccccCccccCCCccHHHHhCCcchhh--hHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999988872 2221111 111111100
Q ss_pred ------CC-------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------C
Q psy5532 59 ------QG-------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------S 105 (168)
Q Consensus 59 ------~g-------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~ 105 (168)
.. .+++.+++.+++.+|..++ ....+..||+.+|+||||+||++|+ +
T Consensus 154 ~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g~ 233 (323)
T CHL00151 154 GLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGS 233 (323)
T ss_pred HhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCchh
Confidence 00 1234566666655544332 3568999999999999999999997 4
Q ss_pred ccccCCCchhHHhccc
Q psy5532 106 DFRRGKPSVNVVYNHK 121 (168)
Q Consensus 106 d~r~Gk~t~~~~~g~~ 121 (168)
|+++||+|+|.+++..
T Consensus 234 Dl~eGk~Tlp~l~al~ 249 (323)
T CHL00151 234 DLKNGNLTAPVLFALT 249 (323)
T ss_pred hHhcCchHHHHHHHHh
Confidence 7889999999998743
No 4
>PLN02857 octaprenyl-diphosphate synthase
Probab=99.96 E-value=3.9e-30 Score=210.82 Aligned_cols=118 Identities=30% Similarity=0.444 Sum_probs=86.4
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHHHHHHH-------------------HHhC----
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELRTISTY-------------------YFDG---- 58 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~~~~~~-------------------~~~~---- 58 (168)
++||+|+||||||||||+|++|||+|++|..||+..|| ..++..+..+... +..+
T Consensus 169 aiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AI--laGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q 246 (416)
T PLN02857 169 ITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAV--LAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQ 246 (416)
T ss_pred HHHHHHHHHHHHCccccCCcccCCCCCccccCCcceee--eHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHH
Confidence 79999999999999999999999999999999998887 2222221111111 0000
Q ss_pred -----C--------CcchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------C
Q psy5532 59 -----Q--------GKAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------S 105 (168)
Q Consensus 59 -----~--------gk~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~ 105 (168)
. -+.++.+++.+++.++..++ ....+..||++||+||||+||++|+ +
T Consensus 247 ~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~GK~~g~ 326 (416)
T PLN02857 247 ASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGS 326 (416)
T ss_pred HhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHhCCCcch
Confidence 0 02355666777665554332 3567999999999999999999997 4
Q ss_pred ccccCCCchhHHhccc
Q psy5532 106 DFRRGKPSVNVVYNHK 121 (168)
Q Consensus 106 d~r~Gk~t~~~~~g~~ 121 (168)
|+++||+|+|.++..+
T Consensus 327 DL~eGK~TlPli~al~ 342 (416)
T PLN02857 327 DLAKGNLTAPVIFALE 342 (416)
T ss_pred hhhcCCccHHHHHHHh
Confidence 7889999999888643
No 5
>PLN02890 geranyl diphosphate synthase
Probab=99.96 E-value=8.9e-30 Score=208.75 Aligned_cols=117 Identities=27% Similarity=0.351 Sum_probs=85.4
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHHHH-------------------HHHHHh-----
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELRTI-------------------STYYFD----- 57 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~~~-------------------~~~~~~----- 57 (168)
++|++|+||||||||||++++|||+|++|..||+..||+ .++..+..+ ...+..
T Consensus 169 avEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIl--aGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld 246 (422)
T PLN02890 169 ITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVL--AGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQ 246 (422)
T ss_pred HHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHH--HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999988872 111111111 110100
Q ss_pred ----CCC--------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------C
Q psy5532 58 ----GQG--------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------S 105 (168)
Q Consensus 58 ----~~g--------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~ 105 (168)
... +.+..+++.+++.+|..++ ....+..||+++|+||||.||++|+ +
T Consensus 247 ~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~~~~~GK~~g~ 326 (422)
T PLN02890 247 ITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLS 326 (422)
T ss_pred HHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhhhCCCchh
Confidence 000 2355666777666554332 3567899999999999999999997 4
Q ss_pred ccccCCCchhHHhcc
Q psy5532 106 DFRRGKPSVNVVYNH 120 (168)
Q Consensus 106 d~r~Gk~t~~~~~g~ 120 (168)
|+++||+|+|.++..
T Consensus 327 DL~eGk~TlPvl~al 341 (422)
T PLN02890 327 DIRHGVITAPILFAM 341 (422)
T ss_pred hHhcCCccHHHHHHH
Confidence 788888888888874
No 6
>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=99.96 E-value=7e-30 Score=204.45 Aligned_cols=117 Identities=26% Similarity=0.384 Sum_probs=83.2
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHH-------------------HHHHHHHh-----
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELR-------------------TISTYYFD----- 57 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~-------------------~~~~~~~~----- 57 (168)
++|++|+||||||||||+|++|||+||+|+.||+..||+ .++..+. .+...+..
T Consensus 75 avEliH~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail--~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~ 152 (322)
T TIGR02749 75 ITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVL--AGDFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQ 152 (322)
T ss_pred HHHHHHHHHHHHcccccCccccCCCccHHHHhCcHHHHH--HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999988872 1111111 11111110
Q ss_pred ---CCC---------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------C
Q psy5532 58 ---GQG---------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------S 105 (168)
Q Consensus 58 ---~~g---------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~ 105 (168)
... +.++.+++.++..+|..++ ....+..||+++|+||||+||++|+ +
T Consensus 153 ~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g~ 232 (322)
T TIGR02749 153 GLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGS 232 (322)
T ss_pred HHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChhH
Confidence 000 1244555666555443322 4578999999999999999999997 3
Q ss_pred ccccCCCchhHHhcc
Q psy5532 106 DFRRGKPSVNVVYNH 120 (168)
Q Consensus 106 d~r~Gk~t~~~~~g~ 120 (168)
|+++||+|+|.+++.
T Consensus 233 Dl~~Gk~Tlp~l~al 247 (322)
T TIGR02749 233 DLMKGNLTAPVLFAL 247 (322)
T ss_pred HHhCCCchHHHHHHH
Confidence 678888888888874
No 7
>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=99.96 E-value=1.6e-29 Score=202.20 Aligned_cols=120 Identities=25% Similarity=0.454 Sum_probs=85.2
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhh-------------cccChHH----HHHHHHHHHhC------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELI-------------SNTNQEE----LRTISTYYFDG------ 58 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~-------------~~~~~~~----l~~~~~~~~~~------ 58 (168)
++|++|+||||||||||+|++|||+|++|..||+..||+ ....... +......+..+
T Consensus 71 aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~ 150 (319)
T TIGR02748 71 ALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIK 150 (319)
T ss_pred HHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999988872 1111111 11111111110
Q ss_pred ---C--------CcchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC------------Ccc
Q psy5532 59 ---Q--------GKAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------------SDF 107 (168)
Q Consensus 59 ---~--------gk~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------------~d~ 107 (168)
. -..++.+++.+++.+|..+. ....+..||+.+|+||||+||++|+ +|+
T Consensus 151 ~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl 230 (319)
T TIGR02748 151 DKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDL 230 (319)
T ss_pred hccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHH
Confidence 0 01244566666655554322 3567999999999999999999997 478
Q ss_pred ccCCCchhHHhccc
Q psy5532 108 RRGKPSVNVVYNHK 121 (168)
Q Consensus 108 r~Gk~t~~~~~g~~ 121 (168)
++||+|+|.+++..
T Consensus 231 ~~gk~Tlp~l~al~ 244 (319)
T TIGR02748 231 LQGNVTLPVLYAME 244 (319)
T ss_pred hCCCchHHHHHHhc
Confidence 89999999998754
No 8
>PRK10581 geranyltranstransferase; Provisional
Probab=99.95 E-value=9.9e-29 Score=195.85 Aligned_cols=122 Identities=25% Similarity=0.451 Sum_probs=84.9
Q ss_pred HhHHHhHhhhhcccc--cCCCccccChhhHHhhhhhhhhhhc-------------ccCh----H-----HHHHHHHH---
Q psy5532 2 FAEMIHTASLIHDDV--IDQSDFRRGKPSVNVVYNHKKELIS-------------NTNQ----E-----ELRTISTY--- 54 (168)
Q Consensus 2 ~~El~h~aslihDDi--~D~~~~RRG~~~~~~~~g~~~ai~~-------------~~~~----~-----~l~~~~~~--- 54 (168)
++|++|+|||||||| ||+|++|||+||+|.+||+..||+. .... . .+......
T Consensus 72 avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (299)
T PRK10581 72 AVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGI 151 (299)
T ss_pred HHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhccc
Confidence 799999999999999 9999999999999999999887721 1000 0 11111110
Q ss_pred --HHhC-------CC---------cchHHHHHHHHHHHhcCCc---------cHHHHHHHHHHHHHHHHHHhhhcCC---
Q psy5532 55 --YFDG-------QG---------KAVRPMVSVLMGRAINYHL---------NRKQVAMFAEMIHTASLIHDDVIDQ--- 104 (168)
Q Consensus 55 --~~~~-------~g---------k~~r~~~~~l~~~~~~~~~---------~~~~l~~~~e~lg~afqI~DDilD~--- 104 (168)
+..+ .+ +.++.+++.++..++..++ ....+..||+.+|+||||+||++|+
T Consensus 152 ~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~ 231 (299)
T PRK10581 152 AGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGD 231 (299)
T ss_pred chhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCC
Confidence 0000 00 2344566666544332211 2467999999999999999999997
Q ss_pred ---------CccccCCCchhHHhccchh
Q psy5532 105 ---------SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 105 ---------~d~r~Gk~t~~~~~g~~~a 123 (168)
+|+++||+|+|.+++...+
T Consensus 232 ~~~~GK~~g~Dl~~gk~T~p~l~~~e~a 259 (299)
T PRK10581 232 TATLGKRQGADQQLGKSTYPALLGLEQA 259 (299)
T ss_pred hHHHCCCcchhhhcCCCCHHHHHHHHHH
Confidence 4788899999999886544
No 9
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=99.95 E-value=3.3e-29 Score=195.47 Aligned_cols=157 Identities=27% Similarity=0.417 Sum_probs=104.6
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHHHHHHHH---------------------------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEELRTISTY--------------------------- 54 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~~~~~~--------------------------- 54 (168)
++|++|++|||||||||+|++|||+||+|..||+..||+ .++..+..+...
T Consensus 41 avEliH~asLIhDDI~D~s~~RRG~pt~~~~~G~~~Ail--~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~ 118 (260)
T PF00348_consen 41 AVELIHAASLIHDDIIDNSDLRRGKPTVHKKFGNAIAIL--AGDYLLALAFELLARLGHFDPSERVLRILELFIEALIEG 118 (260)
T ss_dssp HHHHHHHHHHHHHHHHTTCSEETTEECHHHHHHHHHHHH--HHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhhcccccCCCCccccccccccchhh--hchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccc
Confidence 799999999999999999999999999999999988772 111111110000
Q ss_pred ----HH--hCC---------CcchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC-------
Q psy5532 55 ----YF--DGQ---------GKAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------- 104 (168)
Q Consensus 55 ----~~--~~~---------gk~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------- 104 (168)
.. ... -++++.+++.++..++..+. ....+..||+.+|+||||+||++|+
T Consensus 119 ~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~ 198 (260)
T PF00348_consen 119 EIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEEL 198 (260)
T ss_dssp HHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHH
T ss_pred eeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHh
Confidence 00 000 02355566666655444332 4678999999999999999999997
Q ss_pred -----CccccCCCchhHHhccchhhccCCCHHHHHHHhhhhhcCCCchHHHHHHHHhhhhhhhhhhhc
Q psy5532 105 -----SDFRRGKPSVNVVYNHKKELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHLNRK 167 (168)
Q Consensus 105 -----~d~r~Gk~t~~~~~g~~~ail~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~ 167 (168)
+|+++||+|+|.+++... ..+..+.+..... +..........+..-+.++|++++.
T Consensus 199 gK~~~~Dl~~gk~Tlp~~~al~~------~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (260)
T PF00348_consen 199 GKPVGSDLKEGKPTLPVLHALER------AREELRELLQEAY-GKEDSEEALEIIAQTGALEYTRKFM 259 (260)
T ss_dssp SSTTTHHHHTTTSSHHHHHHHHH------HHHHHHHHHHHHH-HHSHHHHHHHHHHHHHHHTHHHHHH
T ss_pred cccchhHHhcCcccHHHHHHHHh------CHHHHHHHHHHHH-cccchHHHHHHHHHHHHHHHHHhhc
Confidence 378899999999998543 2233333333322 2223344555555558888888764
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=99.93 E-value=6.6e-26 Score=176.78 Aligned_cols=119 Identities=30% Similarity=0.462 Sum_probs=81.6
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhh-------------cccCh---HHHHHHH-H---HH-----H
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELI-------------SNTNQ---EELRTIS-T---YY-----F 56 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~-------------~~~~~---~~l~~~~-~---~~-----~ 56 (168)
++|++|+||||||||||+|++|||+|++|..||+..|+. ..... ..+.... + .+ .
T Consensus 47 aiEllh~asLIhDDI~D~s~~RRG~p~~~~~~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~ 126 (259)
T cd00685 47 AIELLHTASLVHDDVMDNSDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLL 126 (259)
T ss_pred HHHHHHHHHHHHhhhccCCcccCCCCcHHHHhCcccHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999987762 11111 1111111 0 00 0
Q ss_pred h--CCC----------cchHHHHHHHHHHHhc------CC-c-cHHHHHHHHHHHHHHHHHHhhhcCC------------
Q psy5532 57 D--GQG----------KAVRPMVSVLMGRAIN------YH-L-NRKQVAMFAEMIHTASLIHDDVIDQ------------ 104 (168)
Q Consensus 57 ~--~~g----------k~~r~~~~~l~~~~~~------~~-~-~~~~l~~~~e~lg~afqI~DDilD~------------ 104 (168)
. ... +.+..+++.++..++. +. . ....+..++..+|++|||.||++|+
T Consensus 127 d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~ 206 (259)
T cd00685 127 DLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVG 206 (259)
T ss_pred HHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcc
Confidence 0 000 1233444444433322 11 1 4678999999999999999999997
Q ss_pred CccccCCCchhHHhcc
Q psy5532 105 SDFRRGKPSVNVVYNH 120 (168)
Q Consensus 105 ~d~r~Gk~t~~~~~g~ 120 (168)
+|+++||+|++.+++.
T Consensus 207 ~Di~~gk~T~~~~~~l 222 (259)
T cd00685 207 SDLREGKCTLPVLLAL 222 (259)
T ss_pred hHHHcCCchHHHHHHH
Confidence 4778899999999875
No 11
>KOG0776|consensus
Probab=99.91 E-value=2e-24 Score=172.86 Aligned_cols=116 Identities=30% Similarity=0.440 Sum_probs=85.5
Q ss_pred HhHHHhHhhhhcccc--cCCCccccChhhHHhhhhhhhhhhcccChHHHHHHHHHHH-------------------hCC-
Q psy5532 2 FAEMIHTASLIHDDV--IDQSDFRRGKPSVNVVYNHKKELISNTNQEELRTISTYYF-------------------DGQ- 59 (168)
Q Consensus 2 ~~El~h~aslihDDi--~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l~~~~~~~~-------------------~~~- 59 (168)
++||+|++||||||+ ||++++|||+|+.|++||++.|+ ..++..+..+.+++. ...
T Consensus 136 i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~Av--LaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~ 213 (384)
T KOG0776|consen 136 IVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAV--LAGDALLALASEHLASLENPVVVELMASAIADLVRGEF 213 (384)
T ss_pred HHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhh--hhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhh
Confidence 689999999999999 99999999999999999999888 333333333222221 110
Q ss_pred ------C--------------cchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCC-------
Q psy5532 60 ------G--------------KAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQ------- 104 (168)
Q Consensus 60 ------g--------------k~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~------- 104 (168)
| ...-.+++.+++.+|.+.+ ..+.+..||+++|++||+.||++|+
T Consensus 214 ~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss~el 293 (384)
T KOG0776|consen 214 TQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSSEEL 293 (384)
T ss_pred hcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccchhhc
Confidence 1 0122456777777765543 4678999999999999999999998
Q ss_pred -----CccccCCCchhHHhc
Q psy5532 105 -----SDFRRGKPSVNVVYN 119 (168)
Q Consensus 105 -----~d~r~Gk~t~~~~~g 119 (168)
.|+..|+.|.|.+|+
T Consensus 294 GK~ag~Dl~~g~lT~P~Lf~ 313 (384)
T KOG0776|consen 294 GKTAGKDLKAGKLTAPVLFA 313 (384)
T ss_pred Ccchhhhhhhccccccchhh
Confidence 256666667777766
No 12
>KOG0777|consensus
Probab=99.87 E-value=8e-22 Score=147.56 Aligned_cols=155 Identities=21% Similarity=0.311 Sum_probs=100.2
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhhhhhhhcccChHHH---------------HHHH--------------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEEL---------------RTIS-------------- 52 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai~~~~~~~~l---------------~~~~-------------- 52 (168)
++||+|++||+.|||+|++++|||.|..|..||.+..| ++..... ..+.
T Consensus 63 ivemLHNsSLLIDDIEDNs~LRRG~pvaHsIyGvpStI--NtANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGld 140 (322)
T KOG0777|consen 63 IVEMLHNSSLLIDDIEDNSPLRRGQPVAHSIYGVPSTI--NTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLD 140 (322)
T ss_pred HHHHHhccceeeccccccchhhcCCcchhhhccCcchh--hhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcc
Confidence 58999999999999999999999999999999998766 2211111 1111
Q ss_pred ----------------HHHHhCCCcchHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHhhhcCC------------
Q psy5532 53 ----------------TYYFDGQGKAVRPMVSVLMGRAINYHLNRKQVAMFAEMIHTASLIHDDVIDQ------------ 104 (168)
Q Consensus 53 ----------------~~~~~~~gk~~r~~~~~l~~~~~~~~~~~~~l~~~~e~lg~afqI~DDilD~------------ 104 (168)
...+.+.|..++..+.++-..+ ..-+.+..+...+|..|||+||++++
T Consensus 141 IYWRD~~tcPtee~Yk~Mv~~KTGGLF~La~rLMqlfS----~~kedl~pl~n~LGl~fQIRDDY~NL~~keysenKsFa 216 (322)
T KOG0777|consen 141 IYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRLMQLFS----HHKEDLVPLINLLGLIFQIRDDYLNLKDKEYSENKSFA 216 (322)
T ss_pred eeeeccCcCCCHHHHHHHHHHhcccHHHHHHHHHHHHH----hcchhHHHHHHHHhHhhhhhhhhccchhhhhhcccchh
Confidence 1111222223332222221111 12356778889999999999999997
Q ss_pred CccccCCCchhHHhccchhhccCCCHHHHHHHhhhhhcCCCchHHHHHHHHhh-hhhhhhhhhc
Q psy5532 105 SDFRRGKPSVNVVYNHKKELISNTNQEELRTISTYYFDGQGKAVRPMVSVLMG-RAINYHLNRK 167 (168)
Q Consensus 105 ~d~r~Gk~t~~~~~g~~~ail~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~y~~~~~ 167 (168)
+|+.+||-++|.+++.+.- |....-+..|... +.. .+.-.-++..++. ++++||||..
T Consensus 217 EDlTEGKfsFP~iHA~~t~---~q~~Qvl~ILrqR-T~d-idiKkyci~~LEd~gSf~YTrn~l 275 (322)
T KOG0777|consen 217 EDLTEGKFSFPIIHALKTK---GQTEQVLRILRQR-TSD-IDIKKYCIQILEDTGSFAYTRNFL 275 (322)
T ss_pred hhhccCccCCcchhhhhcC---CchHHHHHHHHHh-hcc-chHHHHHHHHHHHcccHHHHHHHH
Confidence 4899999999999986532 4444444444443 322 2223344444444 9999999864
No 13
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=99.82 E-value=3.8e-20 Score=142.07 Aligned_cols=116 Identities=23% Similarity=0.375 Sum_probs=76.9
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhh-hhhhhhhhcccChHH-------------------HHHHHHHH------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVV-YNHKKELISNTNQEE-------------------LRTISTYY------ 55 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~-~g~~~ai~~~~~~~~-------------------l~~~~~~~------ 55 (168)
++|++|+++++||||+|++..|||+|++|.. ||...++. ..+.. +.+....+
T Consensus 26 ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~ai~--~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~ 103 (236)
T cd00867 26 AVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALAIL--AGDYLLARAFQLLARLGYPRALELFAEALRELLEGQAL 103 (236)
T ss_pred HHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHHHH--HHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999999999999 99976652 11110 00100000
Q ss_pred --HhCC--C-------cchHHHHHHHHHHHhcC-----Cc---cHHHHHHHHHHHHHHHHHHhhhcCC-C----------
Q psy5532 56 --FDGQ--G-------KAVRPMVSVLMGRAINY-----HL---NRKQVAMFAEMIHTASLIHDDVIDQ-S---------- 105 (168)
Q Consensus 56 --~~~~--g-------k~~r~~~~~l~~~~~~~-----~~---~~~~l~~~~e~lg~afqI~DDilD~-~---------- 105 (168)
.... . +..+.+++.++..++.. +. ....+..+++.+|+||||.||+.|. .
T Consensus 104 Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~ 183 (236)
T cd00867 104 DLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGKVGS 183 (236)
T ss_pred HHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCccHH
Confidence 0000 0 11122222223222211 11 3577899999999999999999997 2
Q ss_pred ccccCCCchhHHhc
Q psy5532 106 DFRRGKPSVNVVYN 119 (168)
Q Consensus 106 d~r~Gk~t~~~~~g 119 (168)
|+++||+|+|.++.
T Consensus 184 D~~~gr~tlp~~~~ 197 (236)
T cd00867 184 DLREGRITLPVILA 197 (236)
T ss_pred HHHcCCchHHHHHH
Confidence 34899999999987
No 14
>KOG0711|consensus
Probab=99.77 E-value=1.2e-18 Score=135.71 Aligned_cols=144 Identities=20% Similarity=0.221 Sum_probs=97.3
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhhhhh-hhhhhcccChHHHHHHHHHHH------------------------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNH-KKELISNTNQEELRTISTYYF------------------------ 56 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~~g~-~~ai~~~~~~~~l~~~~~~~~------------------------ 56 (168)
++|++|++.||.|||||+|.+|||+|||+++.|. ..|| ++..+.+.+-|.+
T Consensus 86 ~vElLQaffLiaDDIMDnS~tRRGqpCWy~~~gVG~~AI----NDA~lLea~Iy~lLkk~fr~~~~y~~l~elf~ev~f~ 161 (347)
T KOG0711|consen 86 CVELLQAFFLVADDIMDNSKTRRGQPCWYQKPGVGLDAI----NDAFLLEAAIYKLLKKHFRNIYCYVDLVELFHEVTFQ 161 (347)
T ss_pred HHHHHHHHHHHhhhhhccccccCCCcceeecCCcchhhh----hHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999 6666 2222222211111
Q ss_pred --------------------------hCCCcchH-----HHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHhhhcCC-
Q psy5532 57 --------------------------DGQGKAVR-----PMVSVLMGRAINYHLNRKQVAMFAEMIHTASLIHDDVIDQ- 104 (168)
Q Consensus 57 --------------------------~~~gk~~r-----~~~~~l~~~~~~~~~~~~~l~~~~e~lg~afqI~DDilD~- 104 (168)
-...|+.. |.-+.+................+...+|..||++||++|+
T Consensus 162 T~lGdllt~~~~~~~ls~fsl~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~f 241 (347)
T KOG0711|consen 162 TELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCF 241 (347)
T ss_pred HhhhccccCcccchhHhhhhHHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhc
Confidence 11112111 2211111111111224556788899999999999999997
Q ss_pred ----------CccccCCCchhHHhccchhhccCCCHHHHHHHhhhhhcCCCchHHHHHHH
Q psy5532 105 ----------SDFRRGKPSVNVVYNHKKELISNTNQEELRTISTYYFDGQGKAVRPMVSV 154 (168)
Q Consensus 105 ----------~d~r~Gk~t~~~~~g~~~ail~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 154 (168)
.|+..+|.||-...+.+.+ .+++.+.+...+.......+..++..
T Consensus 242 gDp~vtgkiGtDIqDnKCsWlv~~al~~~-----~~eq~~~l~~~yg~~~~~~v~~vk~l 296 (347)
T KOG0711|consen 242 GDPEVTGKIGTDIQDNKCSWLVVKALQRA-----SAEQYKILFENYGKPEAEAVAKVKAL 296 (347)
T ss_pred CChhhcCCCCCccccCceeeehHHHHhhc-----CHHHHHHHHHhcCCccHHHHHHHHHH
Confidence 5889999999888875544 67888888888877765554444443
No 15
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=99.77 E-value=1.9e-18 Score=138.54 Aligned_cols=121 Identities=26% Similarity=0.470 Sum_probs=98.8
Q ss_pred ChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccch
Q psy5532 44 NQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKK 122 (168)
Q Consensus 44 ~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ 122 (168)
..+.+..+..|++..+||++||.++++++.+++... ....++...|++|.|++|||||+|.+++|||+||+|..||++.
T Consensus 28 ~~~~l~~~~~~~~~~~GKrlRp~l~ll~~~~~g~~~~~~~~~A~avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~ 107 (323)
T PRK10888 28 DVQLINQLGYYIISGGGKRIRPMIAVLAARAVGYQGNAHVTIAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAA 107 (323)
T ss_pred cchhHHHHHHHHHhCCCchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccH
Confidence 456688999999999999999999999999887654 5678999999999999999999999999999999999999999
Q ss_pred hhccCCCH--HHHHHHhhhhhcCC-CchHHHHHHHHhhhhhhhhh
Q psy5532 123 ELISNTNQ--EELRTISTYYFDGQ-GKAVRPMVSVLMGRAINYHL 164 (168)
Q Consensus 123 ail~~~~~--~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~y~~ 164 (168)
|++.||+. .+++.+........ ...+..+..++.||.++...
T Consensus 108 Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~ 152 (323)
T PRK10888 108 SVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQLMN 152 (323)
T ss_pred HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999985 34454544311111 33466677889999988653
No 16
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=99.77 E-value=1.7e-18 Score=138.86 Aligned_cols=124 Identities=27% Similarity=0.464 Sum_probs=103.3
Q ss_pred cChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc-----cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHH
Q psy5532 43 TNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL-----NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVV 117 (168)
Q Consensus 43 ~~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-----~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~ 117 (168)
...+.+.....|....+||++||.++++++.+++... .+..++...|++|++++||||++|.+++|||+||.|..
T Consensus 25 ~~~~~l~~a~~~~~~aGGKrlRP~l~l~~~~~~~~~~~~~~~~~~~~aaavEliH~~SLiHDDvmD~s~~RRG~pt~~~~ 104 (322)
T COG0142 25 SDPELLLEAMRYLLLAGGKRLRPLLVLLAAEALGIDLETGGNDALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAK 104 (322)
T ss_pred cccHHHHHHHHHHHhcCCccHhHHHHHHHHHHcCCCcccchhhHHHHHHHHHHHHHHHHHHhhcccCCCccCCCCCchhH
Confidence 4467899999999999999999999999999987322 35789999999999999999999999999999999999
Q ss_pred hccchhhccCCCH--HHHHHHhhhhhc---CCCchHHHHHHHHhhhhhhhhhhh
Q psy5532 118 YNHKKELISNTNQ--EELRTISTYYFD---GQGKAVRPMVSVLMGRAINYHLNR 166 (168)
Q Consensus 118 ~g~~~ail~~~~~--~~~~~l~~~~~~---~~~~~~~~~~~~~~~~~~~y~~~~ 166 (168)
||...+|++||+. .+++.+...... -....+.....++.||+++....+
T Consensus 105 ~g~~~AIlaGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~ 158 (322)
T COG0142 105 FGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDLAFEN 158 (322)
T ss_pred hccHHHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHHHHHHccC
Confidence 9999999999995 445666655431 124456788889999998876643
No 17
>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=99.77 E-value=2.1e-18 Score=138.16 Aligned_cols=121 Identities=29% Similarity=0.451 Sum_probs=98.9
Q ss_pred ChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccch
Q psy5532 44 NQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKK 122 (168)
Q Consensus 44 ~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ 122 (168)
..+.+.++..|++..+||++||.++++++.+++... ....++.+.|++|.|++|||||+|.+++|||+||.|..||++.
T Consensus 27 ~~~~l~~~~~~~~~~gGKriRp~L~ll~~~~~~~~~~~~~~~A~aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~ 106 (319)
T TIGR02748 27 EHPVLSEASLHLLEAGGKRIRPVFVLLAGKFGDYDLDAIKHVAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRI 106 (319)
T ss_pred CchHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHH
Confidence 456788899999999999999999999988876543 4567899999999999999999999999999999999999999
Q ss_pred hhccCCCH--HHHHHHhhhhhcCC-CchHHHHHHHHhhhhhhhhh
Q psy5532 123 ELISNTNQ--EELRTISTYYFDGQ-GKAVRPMVSVLMGRAINYHL 164 (168)
Q Consensus 123 ail~~~~~--~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~y~~ 164 (168)
|++.||+. .+++.+........ ...+..+..++.||.++...
T Consensus 107 Ail~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~ 151 (319)
T TIGR02748 107 AMYTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKD 151 (319)
T ss_pred HHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999995 44555554322111 34466778899998887643
No 18
>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=99.77 E-value=2.1e-18 Score=138.30 Aligned_cols=121 Identities=26% Similarity=0.355 Sum_probs=98.1
Q ss_pred cChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc----cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHh
Q psy5532 43 TNQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL----NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVY 118 (168)
Q Consensus 43 ~~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~----~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~ 118 (168)
...+.+..+..|+...+||++||.++++++.+++... ....++...|++|.|++|||||+|.+++|||+||+|..|
T Consensus 27 ~~~~~l~~~~~~~~~~gGKrlRp~l~ll~~~~~~~~~~~~~~~~~~A~avEliH~asLiHDDiiD~s~~RRG~pt~h~~~ 106 (322)
T TIGR02749 27 ARHPILYAAAEHLFSAGGKRLRPAIVLLVSRATAEQQELTPRHRRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLF 106 (322)
T ss_pred CCChHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHh
Confidence 4567789999999999999999999999999876432 456789999999999999999999999999999999999
Q ss_pred ccchhhccCCCH--HHHHHHhhhhhcCC-CchHHHHHHHHhhhhhhhh
Q psy5532 119 NHKKELISNTNQ--EELRTISTYYFDGQ-GKAVRPMVSVLMGRAINYH 163 (168)
Q Consensus 119 g~~~ail~~~~~--~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~y~ 163 (168)
|.+.|++.||+. .+++.+........ ...+..+..++.||+++..
T Consensus 107 G~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~ 154 (322)
T TIGR02749 107 GTRVAVLAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQGL 154 (322)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999995 34455544321111 3346667788999888754
No 19
>PLN02890 geranyl diphosphate synthase
Probab=99.76 E-value=4.6e-18 Score=139.88 Aligned_cols=122 Identities=30% Similarity=0.451 Sum_probs=98.7
Q ss_pred cChHHHHHHHHHHHhCC--CcchHHHHHHHHHHHhcCCc------------------cHHHHHHHHHHHHHHHHHHhhhc
Q psy5532 43 TNQEELRTISTYYFDGQ--GKAVRPMVSVLMGRAINYHL------------------NRKQVAMFAEMIHTASLIHDDVI 102 (168)
Q Consensus 43 ~~~~~l~~~~~~~~~~~--gk~~r~~~~~l~~~~~~~~~------------------~~~~l~~~~e~lg~afqI~DDil 102 (168)
...+.+..+..|++..+ ||++||.++++++.+++... ....++.+.|++|.|++|||||+
T Consensus 105 ~~~~~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~~AaavEliH~ASLVHDDIi 184 (422)
T PLN02890 105 AEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELRTRQQNIAEITEMIHVASLLHDDVL 184 (422)
T ss_pred cCChHHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccchhhccchhhhHHHHHHHHHHHHHHHHHHcccc
Confidence 34577888999999888 99999999999999887531 24579999999999999999999
Q ss_pred CCCccccCCCchhHHhccchhhccCCCHH--HHHHHhhhhhcCC-CchHHHHHHHHhhhhhhhhh
Q psy5532 103 DQSDFRRGKPSVNVVYNHKKELISNTNQE--ELRTISTYYFDGQ-GKAVRPMVSVLMGRAINYHL 164 (168)
Q Consensus 103 D~~d~r~Gk~t~~~~~g~~~ail~~~~~~--~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~y~~ 164 (168)
|.++.|||+||+|..||++.||++||+.. ++..+........ ...+..+..++.||.++...
T Consensus 185 D~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~ 249 (422)
T PLN02890 185 DDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITS 249 (422)
T ss_pred cCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999963 3444443321111 34467788899999988654
No 20
>PRK10581 geranyltranstransferase; Provisional
Probab=99.75 E-value=1e-17 Score=133.04 Aligned_cols=120 Identities=22% Similarity=0.334 Sum_probs=94.3
Q ss_pred hHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhh--cCCCccccCCCchhHHhccc
Q psy5532 45 QEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDV--IDQSDFRRGKPSVNVVYNHK 121 (168)
Q Consensus 45 ~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDi--lD~~d~r~Gk~t~~~~~g~~ 121 (168)
.+.+.++..|+...+||++||.++++++.+++... ....++.+.|++|.|++||||| +|.+++|||+||.|..||.+
T Consensus 29 ~~~l~~~~~~~~~~gGKrlRp~L~l~~~~~~g~~~~~~~~~A~avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~ 108 (299)
T PRK10581 29 NTPVVEAMQYGALLGGKRLRPFLVYATGQMFGVSTNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEA 108 (299)
T ss_pred chHHHHHHHHHHhcCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcc
Confidence 45688999999999999999999999999887654 4567899999999999999999 99999999999999999999
Q ss_pred hhhccCCCH--HHHHHHhhhhhcCCCc-----hHHH------HHHHHhhhhhhhhh
Q psy5532 122 KELISNTNQ--EELRTISTYYFDGQGK-----AVRP------MVSVLMGRAINYHL 164 (168)
Q Consensus 122 ~ail~~~~~--~~~~~l~~~~~~~~~~-----~~~~------~~~~~~~~~~~y~~ 164 (168)
.||++||+. .+++.+.......... .... ...++.||.++...
T Consensus 109 ~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~ 164 (299)
T PRK10581 109 NAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEA 164 (299)
T ss_pred hHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhc
Confidence 999999995 3445554432211111 1111 23477888887644
No 21
>CHL00151 preA prenyl transferase; Reviewed
Probab=99.75 E-value=6.3e-18 Score=135.70 Aligned_cols=119 Identities=24% Similarity=0.389 Sum_probs=96.0
Q ss_pred ChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc----cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhc
Q psy5532 44 NQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL----NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYN 119 (168)
Q Consensus 44 ~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~----~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g 119 (168)
..+.+.++..|+...+||++||.++++++.+++... ....++.+.|++|.|++|||||+|.+++|||+||+|..||
T Consensus 29 ~~~~l~~~~~~~~~~gGKr~Rp~L~ll~~~~~~~~~~~~~~~~~~A~aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G 108 (323)
T CHL00151 29 GHPILYAAAKHLFSAGGKRIRPAIVLLVAKATGGNMEIKTSQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFG 108 (323)
T ss_pred CChhHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhC
Confidence 456789999999999999999999999999987642 3457899999999999999999999999999999999999
Q ss_pred cchhhccCCCH--HHHHHHhhhhhcCC-CchHHHHHHHHhhhhhhh
Q psy5532 120 HKKELISNTNQ--EELRTISTYYFDGQ-GKAVRPMVSVLMGRAINY 162 (168)
Q Consensus 120 ~~~ail~~~~~--~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~y 162 (168)
++.||+.||+. .+++.+........ ......+..++.|+.++-
T Consensus 109 ~~~Ail~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~~ 154 (323)
T CHL00151 109 TKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQG 154 (323)
T ss_pred CcchhhhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999985 34444544321111 334566777888877663
No 22
>PLN02857 octaprenyl-diphosphate synthase
Probab=99.74 E-value=6.6e-18 Score=138.92 Aligned_cols=119 Identities=28% Similarity=0.374 Sum_probs=94.3
Q ss_pred ChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcC----C---ccHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhH
Q psy5532 44 NQEELRTISTYYFDGQGKAVRPMVSVLMGRAINY----H---LNRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNV 116 (168)
Q Consensus 44 ~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~----~---~~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~ 116 (168)
..+.+.++..|++..+||++||.++++++.+++. . .....++.+.|++|.|++|||||+|.+++|||+||+|.
T Consensus 119 ~~~~l~~~~~~~~~~gGKriRP~Lvll~a~a~g~~~g~~~~~~~~~~lAaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~ 198 (416)
T PLN02857 119 ENPVLMSAAEQIFGAGGKRMRPALVFLVSRATAELAGLKELTTEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQ 198 (416)
T ss_pred CchHHHHHHHHHHhCCCccHhHHHHHHHHHHhccccCCCcchHHHHHHHHHHHHHHHHHHHHCccccCCcccCCCCCccc
Confidence 4567888999999999999999999999987642 1 24577999999999999999999999999999999999
Q ss_pred HhccchhhccCCCHH--HHHHHhhhhhcC-CCchHHHHHHHHhhhhhhh
Q psy5532 117 VYNHKKELISNTNQE--ELRTISTYYFDG-QGKAVRPMVSVLMGRAINY 162 (168)
Q Consensus 117 ~~g~~~ail~~~~~~--~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~y 162 (168)
.||++.||++||+.. +++.+....... ....+..+..++.||+.|.
T Consensus 199 ~~G~~~AIlaGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q~ 247 (416)
T PLN02857 199 LYGTRVAVLAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQA 247 (416)
T ss_pred cCCcceeeeHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHHH
Confidence 999999999999963 344454332111 1334556667788887764
No 23
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=99.71 E-value=7e-17 Score=125.99 Aligned_cols=120 Identities=28% Similarity=0.438 Sum_probs=99.7
Q ss_pred hHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc--cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccch
Q psy5532 45 QEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL--NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKK 122 (168)
Q Consensus 45 ~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~--~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ 122 (168)
.+.+.++..|+...+||++||.++.+++.+++... ....++.+.|++|.|++|||||+|.++.|||+||+|..||...
T Consensus 3 ~~~l~~~~~~~~~~~GK~~Rp~l~~~~~~~~g~~~~~~~~~la~aiEllh~asLIhDDI~D~s~~RRG~p~~~~~~G~~~ 82 (259)
T cd00685 3 VELLREALRYLLLAGGKRLRPLLVLLAARALGGPELEAALRLAAAIELLHTASLVHDDVMDNSDLRRGKPTVHKVFGNAT 82 (259)
T ss_pred chHHHHHHHHHHHcCCccHhHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHhhhccCCcccCCCCcHHHHhCccc
Confidence 45688899999999999999999999999988754 5678999999999999999999999999999999999999999
Q ss_pred hhccCCCH--HHHHHHhhhhhc---C-CCchHHHHHHHHhhhhhhhhh
Q psy5532 123 ELISNTNQ--EELRTISTYYFD---G-QGKAVRPMVSVLMGRAINYHL 164 (168)
Q Consensus 123 ail~~~~~--~~~~~l~~~~~~---~-~~~~~~~~~~~~~~~~~~y~~ 164 (168)
|++.|++. ...+.+.....+ . .......+..++.||.++...
T Consensus 83 Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~ 130 (259)
T cd00685 83 AILAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLS 130 (259)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 99999985 445555544321 1 144566778888888888654
No 24
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=99.64 E-value=4.1e-16 Score=121.73 Aligned_cols=91 Identities=32% Similarity=0.529 Sum_probs=80.5
Q ss_pred HHHHHHHhCCCcchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccchhhccCC
Q psy5532 50 TISTYYFDGQGKAVRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNT 128 (168)
Q Consensus 50 ~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ail~~~ 128 (168)
+++.|+...+||++||.++.+++.+++... ....++.+.|++|.+++|||||+|.++.|||+||.|..||.+.+++.||
T Consensus 3 ~~~~~~~~~~GK~~Rp~l~~~~~~~~~~~~~~~~~~a~avEliH~asLIhDDI~D~s~~RRG~pt~~~~~G~~~Ail~gd 82 (260)
T PF00348_consen 3 EPARYYILRGGKRIRPLLVLLAAEALGGDPEKAIPLAAAVELIHAASLIHDDIIDNSDLRRGKPTVHKKFGNAIAILAGD 82 (260)
T ss_dssp HHHHHHHHSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEETTEECHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCCCccccccccccchhhhch
Confidence 567788889999999999999999998655 5788999999999999999999999999999999999999999999999
Q ss_pred CH--HHHHHHhhhh
Q psy5532 129 NQ--EELRTISTYY 140 (168)
Q Consensus 129 ~~--~~~~~l~~~~ 140 (168)
+. .+++.+....
T Consensus 83 ~ll~~a~~~l~~~~ 96 (260)
T PF00348_consen 83 YLLALAFELLARLG 96 (260)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHhh
Confidence 85 4455555554
No 25
>KOG0776|consensus
Probab=99.62 E-value=9.1e-16 Score=123.30 Aligned_cols=86 Identities=34% Similarity=0.549 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHhCCCcchHHHHHHHHHHHhc-CCc-cHHHHHHHHHHHHHHHHHHhhh--cCCCccccCCCchhHHhcc
Q psy5532 45 QEELRTISTYYFDGQGKAVRPMVSVLMGRAIN-YHL-NRKQVAMFAEMIHTASLIHDDV--IDQSDFRRGKPSVNVVYNH 120 (168)
Q Consensus 45 ~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~-~~~-~~~~l~~~~e~lg~afqI~DDi--lD~~d~r~Gk~t~~~~~g~ 120 (168)
+..+....+|.+..+||++||.++.+.+...+ +.. .+..++++.||+|++++||||+ +|.++.||||||.|..||+
T Consensus 92 ~~~i~~a~ry~~la~gKr~rP~l~~~~~e~~~~g~~~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~ 171 (384)
T KOG0776|consen 92 PLLISEAMRYLLLAGGKRVRPLLCLAACELVGSGDESSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGN 171 (384)
T ss_pred cchhHHHHHHHHHhcccccCchhhhhHHHhccccccHHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcc
Confidence 45667778899999999999999999999888 333 5789999999999999999999 9999999999999999999
Q ss_pred chhhccCCCH
Q psy5532 121 KKELISNTNQ 130 (168)
Q Consensus 121 ~~ail~~~~~ 130 (168)
+.+||+||+.
T Consensus 172 k~AvLaGD~L 181 (384)
T KOG0776|consen 172 KMAVLAGDAL 181 (384)
T ss_pred hhhhhhhHHH
Confidence 9999999995
No 26
>KOG0777|consensus
Probab=99.36 E-value=1.2e-12 Score=98.53 Aligned_cols=114 Identities=22% Similarity=0.339 Sum_probs=95.3
Q ss_pred ChHHHHHHHHHHHhCCCcchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccch
Q psy5532 44 NQEELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKK 122 (168)
Q Consensus 44 ~~~~l~~~~~~~~~~~gk~~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ 122 (168)
+...+.++..|+...+||.+|..+...+..+...+. ....+..++|++|.++++.|||.|.+.+|||.|+.|.+||.+.
T Consensus 19 ~~~ill~Py~yilq~PGKqfR~~L~~afNhwl~~P~dkLaii~~ivemLHNsSLLIDDIEDNs~LRRG~pvaHsIyGvpS 98 (322)
T KOG0777|consen 19 NESILLKPYNYILQKPGKQFRLNLIVAFNHWLNLPKDKLAIISQIVEMLHNSSLLIDDIEDNSPLRRGQPVAHSIYGVPS 98 (322)
T ss_pred HHHHHhchHHHHHhCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccceeeccccccchhhcCCcchhhhccCcc
Confidence 456688899999999999999999999999998876 4667899999999999999999999999999999999999999
Q ss_pred hhccCCCH--HHHHHHhhhhhcCCCchHHHHHHHHhhhhhhhhh
Q psy5532 123 ELISNTNQ--EELRTISTYYFDGQGKAVRPMVSVLMGRAINYHL 164 (168)
Q Consensus 123 ail~~~~~--~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~y~~ 164 (168)
++++++|. .+++.+.+.- .+...++...|+++.+|
T Consensus 99 tINtANY~yFlalekV~qLd-------hP~a~kifteqLleLHr 135 (322)
T KOG0777|consen 99 TINTANYMYFLALEKVSQLD-------HPNAIKIFTEQLLELHR 135 (322)
T ss_pred hhhhhHHHHHHHHHHHHhcC-------CchHHHHHHHHHHHHhc
Confidence 99999884 5666666663 33445555555555554
No 27
>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=99.09 E-value=3.1e-10 Score=85.51 Aligned_cols=119 Identities=24% Similarity=0.314 Sum_probs=72.8
Q ss_pred HhHHHhHhhhhcccccCCCccccChhhHHhh---hhhhhhhh--------------cccC---hHHHHHHH---------
Q psy5532 2 FAEMIHTASLIHDDVIDQSDFRRGKPSVNVV---YNHKKELI--------------SNTN---QEELRTIS--------- 52 (168)
Q Consensus 2 ~~El~h~aslihDDi~D~~~~RRG~~~~~~~---~g~~~ai~--------------~~~~---~~~l~~~~--------- 52 (168)
++|.+|+++++||||+|++..|++.|+++.. +|...++. .... ...+....
T Consensus 18 ~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 97 (243)
T cd00385 18 AVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLLEGQLL 97 (243)
T ss_pred HHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999988 66654431 0000 00010000
Q ss_pred -------------HHHHhCCCcchHHHHHHHHHHHhc--CCc--cHHHHHHHHHHHHHHHHHHhhhcCCC-cccc--CCC
Q psy5532 53 -------------TYYFDGQGKAVRPMVSVLMGRAIN--YHL--NRKQVAMFAEMIHTASLIHDDVIDQS-DFRR--GKP 112 (168)
Q Consensus 53 -------------~~~~~~~gk~~r~~~~~l~~~~~~--~~~--~~~~l~~~~e~lg~afqI~DDilD~~-d~r~--Gk~ 112 (168)
.|......|. -..+..++..... .+. ....+..++..+|.++|+.||+.|+. +... |+.
T Consensus 98 d~~~~~~~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~~~~~ 176 (243)
T cd00385 98 DLKWRREYVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERGEGKC 176 (243)
T ss_pred HHHhccCCCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCch
Confidence 1111111111 1111111111111 111 35678999999999999999999984 4455 899
Q ss_pred chhHHhccc
Q psy5532 113 SVNVVYNHK 121 (168)
Q Consensus 113 t~~~~~g~~ 121 (168)
+++.++..+
T Consensus 177 ~l~~~~~~~ 185 (243)
T cd00385 177 TLPVLYALE 185 (243)
T ss_pred HHHHHHHHH
Confidence 999888544
No 28
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=99.03 E-value=7e-10 Score=85.07 Aligned_cols=103 Identities=25% Similarity=0.521 Sum_probs=81.0
Q ss_pred hHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHH-hccchhhccCCCH--HHHHHHhh
Q psy5532 63 VRPMVSVLMGRAINYHL-NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVV-YNHKKELISNTNQ--EELRTIST 138 (168)
Q Consensus 63 ~r~~~~~l~~~~~~~~~-~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~-~g~~~ail~~~~~--~~~~~l~~ 138 (168)
+||.++.+++.+++... ....++...|++|.++.|||||+|.++.|+|+|+.+.. ||...+++.|+++ ..+..+..
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~ai~~gd~l~~~a~~~l~~ 80 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALAILAGDYLLARAFQLLAR 80 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHHHHHHHHHHHHHHHHHHh
Confidence 47888888888877654 56689999999999999999999999999999999999 9999999999986 44455544
Q ss_pred hhhc-CCCchHHHHHHHHhhhhhhhhhh
Q psy5532 139 YYFD-GQGKAVRPMVSVLMGRAINYHLN 165 (168)
Q Consensus 139 ~~~~-~~~~~~~~~~~~~~~~~~~y~~~ 165 (168)
.... ...........++.|+.++....
T Consensus 81 ~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~ 108 (236)
T cd00867 81 LGYPRALELFAEALRELLEGQALDLEFE 108 (236)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 2211 11345677888899988886654
No 29
>KOG0711|consensus
Probab=98.44 E-value=7.5e-07 Score=70.30 Aligned_cols=88 Identities=18% Similarity=0.113 Sum_probs=66.4
Q ss_pred hCCCcchHHHHHHHHHHHhcCCc--------cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccc-hhhccC
Q psy5532 57 DGQGKAVRPMVSVLMGRAINYHL--------NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHK-KELISN 127 (168)
Q Consensus 57 ~~~gk~~r~~~~~l~~~~~~~~~--------~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~-~ail~~ 127 (168)
..+||..|...+.-..++...+. .+..+++..|+|...|+|.|||+|.|..|||+|+|...-|.. .||+.+
T Consensus 48 ~~GGK~nRgl~vv~s~~~L~~~~~l~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS~tRRGqpCWy~~~gVG~~AINDA 127 (347)
T KOG0711|consen 48 VIGGKLNRGLSVVDSFKALVEPRKLDEEELQLALILGWCVELLQAFFLVADDIMDNSKTRRGQPCWYQKPGVGLDAINDA 127 (347)
T ss_pred CcccccccchhHHHHHHHhcCccCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccCCCcceeecCCcchhhhhHH
Confidence 46899999888888877776643 356788999999999999999999999999999999998874 444322
Q ss_pred CCH-HHHHHHhhhhhcCC
Q psy5532 128 TNQ-EELRTISTYYFDGQ 144 (168)
Q Consensus 128 ~~~-~~~~~l~~~~~~~~ 144 (168)
--. .+...|+..++++.
T Consensus 128 ~lLea~Iy~lLkk~fr~~ 145 (347)
T KOG0711|consen 128 FLLEAAIYKLLKKHFRNI 145 (347)
T ss_pred HHHHHHHHHHHHHhccCC
Confidence 222 23445666566554
No 30
>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=96.20 E-value=0.011 Score=44.17 Aligned_cols=81 Identities=20% Similarity=0.370 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHH---hccchhhccCCCH--HHHHHHhhhhhcC-CCchHHHHHHHHh
Q psy5532 83 QVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVV---YNHKKELISNTNQ--EELRTISTYYFDG-QGKAVRPMVSVLM 156 (168)
Q Consensus 83 ~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~---~g~~~ail~~~~~--~~~~~l~~~~~~~-~~~~~~~~~~~~~ 156 (168)
.+....+.++.++.++||+.|.+..++|+++.+.. +|.+.+++.++.+ ..++.+....... .......+...+.
T Consensus 14 ~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (243)
T cd00385 14 RLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLLE 93 (243)
T ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 67888999999999999999999999999999987 7877777666553 3333333321100 1334556666666
Q ss_pred hhhhhhh
Q psy5532 157 GRAINYH 163 (168)
Q Consensus 157 ~~~~~y~ 163 (168)
|+..+..
T Consensus 94 g~~~d~~ 100 (243)
T cd00385 94 GQLLDLK 100 (243)
T ss_pred HHHHHHH
Confidence 6655543
No 31
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=76.87 E-value=2.5 Score=33.58 Aligned_cols=41 Identities=22% Similarity=0.152 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 84 VAMFAEMIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 84 l~~~~e~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
+....-.+..++.+..++.|.+ |.+.||.|.+..+|.+.+.
T Consensus 165 ~~~~~~~~~~a~~ii~~irDie~Dr~~G~~Tlpv~lG~~~a~ 206 (282)
T PRK13105 165 VLAAFFLWGMASHAFGAVQDVVADREAGIASIATVLGARRTV 206 (282)
T ss_pred HHHHHHHHHHHHHHHHhCcchHhHHHcCCccchHHhcHHHHH
Confidence 3444555678999999999995 8899999999999998774
No 32
>PLN00012 chlorophyll synthetase; Provisional
Probab=71.08 E-value=2.9 Score=34.64 Aligned_cols=39 Identities=15% Similarity=0.152 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 86 MFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 86 ~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+.-.+..+..+.+|+.|. .|.+.|++|+++.+|.+.+.
T Consensus 259 l~~~l~~lai~ivnd~~Die~Dr~aG~~TLpV~~G~~~a~ 298 (375)
T PLN00012 259 LLYSIAGLGIAIVNDFKSIEGDRALGLQSLPVAFGVETAK 298 (375)
T ss_pred HHHHHHHHHHHHHhhhcchhhHHHcCCcccceeechHHHH
Confidence 3344578889999999998 48899999999999987663
No 33
>TIGR02056 ChlG chlorophyll synthase, ChlG. This model represents the strictly cyanobacterial and plant-specific chlorophyll synthase ChlG. ChlG is the enzyme (esterase) which attaches the side chain moiety onto chlorophyllide a. Both geranylgeranyl and phytyl pyrophosphates are substrates to varying degrees in enzymes from different sources. Thus, ChlG may act as the final or penultimate step in chlorophyll biosynthesis (along with the geranylgeranyl reductase, ChlP).
Probab=70.06 E-value=4 Score=32.73 Aligned_cols=36 Identities=17% Similarity=0.150 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 89 EMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 89 e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
-.+-.+..+.+|+.|. +|.+.|++|+++.+|.+.+.
T Consensus 193 ~l~~~~i~~~n~~~D~e~D~~~G~~Tlpv~lG~~~a~ 229 (306)
T TIGR02056 193 SIAGLGIAIVNDFKSVEGDRALGLQSLPVAFGIETAA 229 (306)
T ss_pred HHHHHHHHHHHHccChHHHHHcCCcCcchhcChHHHH
Confidence 3466778899999998 58899999999999988764
No 34
>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=68.87 E-value=3.4 Score=32.59 Aligned_cols=35 Identities=17% Similarity=0.149 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 90 MIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 90 ~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+-.+..+.+|+.|. .|.+.|++|++..+|.+.+.
T Consensus 172 l~~~~i~~~nd~~D~~~D~~~G~~Tl~v~lG~~~a~ 207 (283)
T TIGR01476 172 LGAHGIMTLNDFKSVEGDRQLGLRSLPVMIGVKRAA 207 (283)
T ss_pred HHHHHHHHHHhccchhhHHHcCCcCcceEEcHHHHH
Confidence 344567899999997 58899999999999988663
No 35
>PRK12875 ubiA prenyltransferase; Reviewed
Probab=68.38 E-value=3.1 Score=33.00 Aligned_cols=36 Identities=11% Similarity=0.098 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 89 EMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 89 e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
-.+..++.+..++.|. +|.+.|++|.+..+|.+.+.
T Consensus 175 ~l~~~~~~~in~i~Die~D~~aGi~Tlav~lG~~~a~ 211 (282)
T PRK12875 175 WLWAMGMHTFSAIPDIEPDRAAGIRTTATVLGERRTY 211 (282)
T ss_pred HHHHHHHHHHHhccCHHHHHHcCCccchhhccHhhHH
Confidence 3667788899999998 58899999999999988764
No 36
>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed
Probab=65.60 E-value=3.8 Score=32.93 Aligned_cols=34 Identities=21% Similarity=0.205 Sum_probs=28.1
Q ss_pred HHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 91 IHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 91 lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.-.+..+.+|+.|. +|.+.|++|++..+|.+.+.
T Consensus 201 ~~~~~~~~~d~~D~e~D~~aG~~Tlpv~~G~~~a~ 235 (314)
T PRK07566 201 GAHGIMTLNDFKSVEGDRQLGLRSLPVVFGEKNAA 235 (314)
T ss_pred HHHHHHHHHHHHHhHhHHHcCCcccceeEcHHHHH
Confidence 34556889999998 58899999999999988664
No 37
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=65.07 E-value=6.1 Score=30.98 Aligned_cols=39 Identities=23% Similarity=0.301 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 86 MFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 86 ~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+.-.....+++..|+.|. +|.+.|++|.+..+|.+.+.
T Consensus 162 ~~~~~~~~~~~~~~~~~D~e~D~~~G~~Tl~v~~G~~~~~ 201 (279)
T PRK12884 162 AMAFLMTLGREIMKDIEDVEGDRLRGARTLAILYGEKIAG 201 (279)
T ss_pred HHHHHHHHHHHHHHHhhhhhhHHHcCCeeechHhcHHHHH
Confidence 3344555677888999998 47799999999999988764
No 38
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=64.39 E-value=4.3 Score=31.86 Aligned_cols=33 Identities=21% Similarity=0.353 Sum_probs=26.6
Q ss_pred HHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 92 HTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 92 g~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
..+..+..|+.|. +|.+.|++|.|..+|.+.+.
T Consensus 167 ~~~~~~~~~~~D~e~D~~~G~~Tlpv~~G~~~a~ 200 (277)
T PRK12883 167 NVAREIMKDIEDIEGDKAKGAKTLPIIIGKKRAA 200 (277)
T ss_pred HHHHHHHhhhhhhccHHHcCCcCcChHhcHHHHH
Confidence 3456677899997 57899999999999988653
No 39
>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=63.42 E-value=61 Score=24.70 Aligned_cols=80 Identities=9% Similarity=0.014 Sum_probs=53.3
Q ss_pred cHHHHHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccchhhccCCCHHH--HHHHhhhhhcCC-CchHHHHHHHHh
Q psy5532 80 NRKQVAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKELISNTNQEE--LRTISTYYFDGQ-GKAVRPMVSVLM 156 (168)
Q Consensus 80 ~~~~l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ail~~~~~~~--~~~l~~~~~~~~-~~~~~~~~~~~~ 156 (168)
........+.++++|.-.||.|-+ .... +-......+.+||+||+... ...|+....-.. +..+.+++++++
T Consensus 34 ~~~~~~~a~~LVq~aLDtHd~V~~-~~~~----~~~~~k~RQLtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE 108 (212)
T PF07307_consen 34 EAERYALATMLVQIALDTHDEVDN-AGDE----SEESSKERQLTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKEINE 108 (212)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc-cccc----ccHHHHhhhhhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 456777788899999999999966 2222 22223355678999999543 456665543332 566788888888
Q ss_pred hhhhhhhh
Q psy5532 157 GRAINYHL 164 (168)
Q Consensus 157 ~~~~~y~~ 164 (168)
.++.=|..
T Consensus 109 ~K~~ly~~ 116 (212)
T PF07307_consen 109 LKMSLYQK 116 (212)
T ss_pred HHHHHHHh
Confidence 86665544
No 40
>PRK12872 ubiA prenyltransferase; Reviewed
Probab=59.85 E-value=9.4 Score=29.96 Aligned_cols=34 Identities=18% Similarity=0.220 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhhcCCC-ccccCCCchhHHhccchh
Q psy5532 90 MIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 90 ~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~a 123 (168)
.+-...++..|+.|.+ |.+.|++|+|..+|.+.+
T Consensus 172 l~~~~~~~~~d~~D~e~D~~~G~~Tlpv~lG~~~t 206 (285)
T PRK12872 172 LKSFIREIVFDIKDIEGDRKSGLKTLPIVLGKERT 206 (285)
T ss_pred HHHHHHHHHHhcccchhHHHcCCcccchhcchHHH
Confidence 3456677889999984 778899999999998876
No 41
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=59.46 E-value=9.4 Score=30.69 Aligned_cols=40 Identities=15% Similarity=0.195 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 85 AMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 85 ~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
..+.-.+-.++.+..|+.|. .|.+.|+.|.+..+|.+.+.
T Consensus 188 ~~~~~~~~~~~~l~~di~D~egD~~~Gi~Tlav~lG~~~a~ 228 (308)
T PRK12887 188 TLFVLVFTFAIAIFKDIPDMEGDRQYQITTFTLRLGKQAVF 228 (308)
T ss_pred HHHHHHHHHHHHHHHhccchhhHHHcCCcchhHHHhHHHHH
Confidence 33444556788899999998 48899999999999988774
No 42
>PRK12882 ubiA prenyltransferase; Reviewed
Probab=58.45 E-value=9.7 Score=29.86 Aligned_cols=33 Identities=27% Similarity=0.307 Sum_probs=26.7
Q ss_pred HHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 92 HTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 92 g~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
-.++.+..|+.|. +|.+.|.||+|..+|.+.+.
T Consensus 170 ~~~~~~~~~~~D~e~D~~~G~~tlpv~~G~~~t~ 203 (276)
T PRK12882 170 TLAREIIKDVEDIEGDRAEGARTLPILIGVRKAL 203 (276)
T ss_pred HHHHHHHhhhhhhhhHHHcCCccccHHhhHHHHH
Confidence 3466677788887 47799999999999998774
No 43
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=53.58 E-value=7.8 Score=31.52 Aligned_cols=40 Identities=23% Similarity=0.238 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 84 VAMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 84 l~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
+....-.+-.++.+..|+.|. .|.+.|+.|.+..+|.+.+
T Consensus 185 l~~~~~l~~~~~~~i~d~~D~egD~~~G~kTlpV~~G~~~a 225 (331)
T PRK12392 185 LAGLNFFMAIALIIMNDFKSVEGDKEGGLKSLTVMIGAKNT 225 (331)
T ss_pred HHHHHHHHHHHHHHHHcccchhhHHHcCCeeeEeEEcHhhH
Confidence 344444566888889999998 4889999999999998876
No 44
>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=53.09 E-value=12 Score=28.44 Aligned_cols=43 Identities=23% Similarity=0.359 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhhc
Q psy5532 83 QVAMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKELI 125 (168)
Q Consensus 83 ~l~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ail 125 (168)
.+..+.-.+..+.....|+.|. +|.+.|++|++..+|.+.+..
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~D~~~D~~~g~~Tl~v~~G~~~~~~ 193 (257)
T PF01040_consen 150 LLAIFFFLLIFAIMFFNDIRDIEGDRKAGRRTLPVLLGEKKARY 193 (257)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHcCCcchHHHHHHHHHHH
Confidence 3444446677778888899998 478999999999999887754
No 45
>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=52.84 E-value=94 Score=24.17 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHh
Q psy5532 85 AMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVY 118 (168)
Q Consensus 85 ~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~ 118 (168)
..++..+|.|+|+.+=+-|. .|.++|+..+|.-.
T Consensus 137 ~~~A~~lG~AlQltniLRDl~eD~~~gR~YLP~~~ 171 (266)
T TIGR03464 137 VALSDAICTALQLINFWQDVGVDYRKGRVYLPRDD 171 (266)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHhcCCccCCHHH
Confidence 46788899999999988887 56788998887443
No 46
>PRK13591 ubiA prenyltransferase; Provisional
Probab=51.22 E-value=4 Score=32.85 Aligned_cols=29 Identities=21% Similarity=0.116 Sum_probs=25.2
Q ss_pred HHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 96 LIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 96 qI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+..|+.|. .|.+.|+.|+|..+|.+.|.
T Consensus 196 ~iindirDiEGDr~~G~kTLPV~lG~~~A~ 225 (307)
T PRK13591 196 SCVYDFKDVKGDTLAGIKTLPVSLGEQKTR 225 (307)
T ss_pred HHHHHhhhhHhHHHcCCeeEEEEECHHHHH
Confidence 367999998 58899999999999988774
No 47
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=51.04 E-value=8.7 Score=30.35 Aligned_cols=39 Identities=23% Similarity=0.348 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 85 AMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 85 ~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
.-..-.+-.++.+.+|+.|. .|.+.|+.|++..+|.+.+
T Consensus 174 ~l~~~l~~~~~~~~n~~~D~~~D~~~G~~Tl~v~lG~~~a 213 (293)
T PRK06080 174 ALPCGLLIGAVLLANNIRDIETDRENGKNTLAVRLGDKNA 213 (293)
T ss_pred HHHHHHHHHHHHHhcCCCcchhHHHcCCeeEEeeECcHhH
Confidence 33344555677788999998 5889999999999998875
No 48
>PLN02878 homogentisate phytyltransferase
Probab=50.43 E-value=16 Score=29.02 Aligned_cols=38 Identities=21% Similarity=0.232 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 87 FAEMIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 87 ~~e~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
+.-.+..+.-+..|+.|.+ |.+.|..|++..+|.+.+.
T Consensus 164 f~~~f~~~i~i~KDi~DieGD~~~Gi~Tlpv~lG~~~~~ 202 (280)
T PLN02878 164 FMCFFSVVIALFKDIPDVEGDRIFGIRSFSVRLGQKRVF 202 (280)
T ss_pred HHHHHHHHHHHHhhCcCchhHHHCCCceechhhChHHHH
Confidence 4444555666999999995 8899999999999988663
No 49
>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=47.83 E-value=20 Score=28.22 Aligned_cols=32 Identities=16% Similarity=0.080 Sum_probs=25.5
Q ss_pred HHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 92 HTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 92 g~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
-..+.+..|+.|. +|.+.|.+|.+..+|.+.+
T Consensus 171 ~~~~~~i~~~~D~e~D~~~G~~tlpv~~G~~~a 203 (282)
T TIGR01475 171 IAGFDLIYAIQDYEFDRKNGLHSIPARFGIKAA 203 (282)
T ss_pred HHHHHHHHHHhhHHhHHHcCCCchHHHhchHHH
Confidence 3455678888888 4789999999999997655
No 50
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=45.86 E-value=18 Score=28.45 Aligned_cols=32 Identities=22% Similarity=0.281 Sum_probs=24.6
Q ss_pred HHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 93 TASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 93 ~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
.++-+..|+.|.+ |.+.|.+|+|..+|.+.+.
T Consensus 168 ~~~~~~~~~~D~~~D~~~G~~tlpv~~G~~~a~ 200 (279)
T PRK09573 168 WSREIVKDIEDIEGDLKENVITLPIKYGIKKSW 200 (279)
T ss_pred HHHHHHhhhhhhhhHHHCCCccccHHhhHHHHH
Confidence 3455557788874 6778999999999988663
No 51
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=42.13 E-value=17 Score=29.04 Aligned_cols=37 Identities=35% Similarity=0.371 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 87 FAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 87 ~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
+.-..-..+.+..|+.|. +|.+.|++|.+..+|.+.+
T Consensus 183 ~~~~w~~~~~~~~a~~D~e~D~~~G~~Tlpv~~G~~~t 220 (297)
T PRK12871 183 FFYPWTMAHLGLNDFIDLENDRARGMKSIAVLYGMKGT 220 (297)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHcCCeeeeeeechHHH
Confidence 333445667888889988 5779999999999998755
No 52
>PRK13595 ubiA prenyltransferase; Provisional
Probab=41.12 E-value=25 Score=28.12 Aligned_cols=37 Identities=14% Similarity=0.066 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 88 AEMIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 88 ~e~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
.-....+|.+..|+.|.+ |.+.|..|.+..+|.+.+.
T Consensus 178 ~~~w~~g~dii~ai~DiegDr~~Gi~Slpv~lG~r~a~ 215 (292)
T PRK13595 178 LMAWSVGKHAFDAAQDIPADRAAGTRTVATTLGVRGTA 215 (292)
T ss_pred HHHHHHHHHHHHhccChHhHHHcCCeechHHhCcHhHH
Confidence 345568999999999985 7899999999999988774
No 53
>PRK12847 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=38.30 E-value=38 Score=26.71 Aligned_cols=35 Identities=14% Similarity=0.143 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 90 MIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 90 ~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
..-..+-+.-++.|. +|.+.|.+|++..+|.+.+.
T Consensus 176 ~w~~~~~~~~a~~D~e~D~~~G~~tl~v~~G~~~a~ 211 (285)
T PRK12847 176 FWTIGYDTIYAYQDKKDDLKIGVKSTAIYFGNKTRK 211 (285)
T ss_pred HHHHHHHHHHHhccHhhHHHcCCchhHHHhccccHH
Confidence 344455566678887 47799999999999988663
No 54
>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=37.78 E-value=31 Score=27.16 Aligned_cols=33 Identities=12% Similarity=0.120 Sum_probs=25.6
Q ss_pred HHHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 91 IHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 91 lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
.-..+.+..++.|. +|.+.|++|.+..+|.+.+
T Consensus 172 w~~~~~~~~a~~D~e~D~~~G~~tlpv~~G~~~~ 205 (281)
T TIGR01474 172 WTLGYDTIYAMQDKEDDIKIGVKSTALRFGDNTK 205 (281)
T ss_pred HHHHHHHHHHHhhHHhHHHcCCCcccHHhhhhhH
Confidence 34456666788887 4779999999999997755
No 55
>PRK12888 ubiA prenyltransferase; Reviewed
Probab=37.57 E-value=30 Score=27.39 Aligned_cols=35 Identities=20% Similarity=0.106 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 90 MIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 90 ~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
..-..|-+.-++.|. +|.+.|.+|.+..+|.+.+.
T Consensus 170 ~w~~~~~~i~a~~D~e~D~~~Gv~sl~v~~G~~~a~ 205 (284)
T PRK12888 170 LWIGGFDLIYACQDAEVDRRIGVRSVPARFGVRAAL 205 (284)
T ss_pred HHHHHHHHHHHhhhHHHHHHCCCcCcchhhCchhHH
Confidence 334456677788887 47799999999999988664
No 56
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=36.46 E-value=49 Score=21.36 Aligned_cols=18 Identities=0% Similarity=-0.003 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy5532 81 RKQVAMFAEMIHTASLIH 98 (168)
Q Consensus 81 ~~~l~~~~e~lg~afqI~ 98 (168)
...+-+||..+|-.||+.
T Consensus 18 ~e~llRYGLf~GAIFQli 35 (85)
T PF06783_consen 18 FENLLRYGLFVGAIFQLI 35 (85)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467889999999999986
No 57
>PRK13592 ubiA prenyltransferase; Provisional
Probab=35.57 E-value=47 Score=26.72 Aligned_cols=40 Identities=8% Similarity=-0.045 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCccccCCCchhHHhccchhh
Q psy5532 84 VAMFAEMIHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 84 l~~~~e~lg~afqI~DDilD~~d~r~Gk~t~~~~~g~~~ai 124 (168)
+..++-..+.+.=|..|+.|. +.+.|-+|++.+||.+.|.
T Consensus 180 l~l~afl~~l~rEI~KdieD~-gd~~~~~Tlpi~~G~kkA~ 219 (299)
T PRK13592 180 LAFTMYFPSLIWEVCRKIRAP-KDETEYVTYSKLFGYKKAT 219 (299)
T ss_pred HHHHHHHHHHHHHHHHhhcCC-ccccCCeeechhccchhHH
Confidence 334555667888999999995 4456689999999988774
No 58
>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=32.60 E-value=1.2e+02 Score=23.41 Aligned_cols=37 Identities=19% Similarity=0.094 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHh
Q psy5532 82 KQVAMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVY 118 (168)
Q Consensus 82 ~~l~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~ 118 (168)
.....++..+|.|+|+.+=+.|. .|.++|+..+|.-.
T Consensus 142 ~~~~~~A~~lG~AlqltnilRdv~eD~~~gR~YlP~d~ 179 (265)
T cd00683 142 EAALERARALGLALQLTNILRDVGEDARRGRIYLPREE 179 (265)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcCCHHH
Confidence 44568889999999999888887 56789998877443
No 59
>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=31.60 E-value=1.1e+02 Score=23.41 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=34.1
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHhhhcCC-Cc-cccCCCchhHHh
Q psy5532 67 VSVLMGRAINYHLNRKQVAMFAEMIHTASLIHDDVIDQ-SD-FRRGKPSVNVVY 118 (168)
Q Consensus 67 ~~~l~~~~~~~~~~~~~l~~~~e~lg~afqI~DDilD~-~d-~r~Gk~t~~~~~ 118 (168)
...++...++...........+..+|.|+|+.+=+.|. .| .++|+.-+|.-.
T Consensus 126 vg~l~~~~~~~~~~~~~~~~~a~~lG~alql~nilRd~~~D~~~~gR~ylP~d~ 179 (267)
T PF00494_consen 126 VGLLLLQLLGAHDPDEAARDAARALGRALQLTNILRDIPEDALRRGRIYLPLDD 179 (267)
T ss_dssp HHHHHHHHHHSSTSHHHHHHHHHHHHHHHHHHHHHHTHHHH-HHTT---S-HHH
T ss_pred HHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHhHHHHHhcccccCCchh
Confidence 34444444444323356788899999999999999998 56 789998888655
No 60
>TIGR02235 menA_cyano-plnt 1,4-dihydroxy-2-naphthoate phytyltransferase. This family of phytyltransferases, found in plants and cyanobacteria, are involved in the biosythesis of phylloquinone (Vitamin K1). Phylloquinone is a critical component of photosystem I. The closely related MenA enzyme from bacteria transfers a prenyl group (which only differs in the saturation of the isoprenyl groups) in the biosynthesis of menaquinone. Activity towards both substrates in certain organisms should be considered a possibility.
Probab=31.19 E-value=23 Score=28.18 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 90 MIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 90 ~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
.+-.+-+..+++.|. +|.+.||.|+++.+|.+.+
T Consensus 172 l~~~~iL~~Nn~rD~e~D~~~Gk~TL~v~lG~~~a 206 (285)
T TIGR02235 172 LATTLILFCSHFHQVEDDLAHGKRSPVVRLGTKLA 206 (285)
T ss_pred HHHHHHHHhcCCccchhHHHcCCcceeheecHHhH
Confidence 445567788999998 5889999999999998876
No 61
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=30.57 E-value=79 Score=24.90 Aligned_cols=44 Identities=23% Similarity=0.165 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 81 RKQVAMFAEMIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 81 ~~~l~~~~e~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
.--+-.+.-....++-+..|+.|.+ |.+.|-+|.+..||.+.+.
T Consensus 169 ~~~l~~~~~l~~~~~~~i~~~~D~e~D~~~G~~s~~~~~G~~~a~ 213 (289)
T COG0382 169 AWLLLLAAILWTLGYDIIYAIQDIEGDRKAGLKSLPVLFGIKKAL 213 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCccchHhcCCcchHHHhCchhHH
Confidence 3345556667788899999999985 7799999999999987664
No 62
>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=30.18 E-value=1.9e+02 Score=22.38 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCC-CccccCCCchhHH
Q psy5532 82 KQVAMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVV 117 (168)
Q Consensus 82 ~~l~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~ 117 (168)
......+..+|.|+|+.+=+.|. .|.++|+..+|.-
T Consensus 133 ~~~~~~a~~lG~AlqltnilRdv~eD~~~gR~ylP~~ 169 (266)
T TIGR03465 133 ARTLEYAHHLGRALQLTNILRDVGEDARRGRIYLPAE 169 (266)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHHHhCCCeecCHH
Confidence 34567788999999999988887 5778999888853
No 63
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=29.09 E-value=13 Score=29.96 Aligned_cols=30 Identities=10% Similarity=0.242 Sum_probs=26.0
Q ss_pred HHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 95 SLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 95 fqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
-++.+++.|. +|.+.||.|++..+|.+.+.
T Consensus 205 ill~Nn~~D~e~D~~~gk~TL~v~lG~~~a~ 235 (317)
T PRK13387 205 IMLANNLRDLDEDIKNHRYTLVYYIGREKGV 235 (317)
T ss_pred HHHhcCCccchhHHHcCCeeeeeeEcHHhHH
Confidence 3788999997 58899999999999988763
No 64
>PRK12870 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=28.41 E-value=63 Score=25.64 Aligned_cols=41 Identities=12% Similarity=0.035 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 84 VAMFAEMIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 84 l~~~~e~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
+....-..-.++.+.-++.|. +|.+.|.+|.+..+|.+.+.
T Consensus 171 l~~~~~lw~~~~d~~~a~~D~e~D~~~G~~slav~~G~~~~~ 212 (290)
T PRK12870 171 LWAATVFWTLGFDTVYAMSDREDDLRIGVNSSAIFFGRYAPE 212 (290)
T ss_pred HHHHHHHHHHHHHHHHHhhhHhhHHHCCCcchhHHhccccHH
Confidence 333444556677778888887 47799999999999988664
No 65
>PF15312 JSRP: Junctional sarcoplasmic reticulum protein
Probab=28.41 E-value=1e+02 Score=18.81 Aligned_cols=25 Identities=8% Similarity=0.138 Sum_probs=21.5
Q ss_pred cHHHHHHHHHHHHHHHHHHhhhcCC
Q psy5532 80 NRKQVAMFAEMIHTASLIHDDVIDQ 104 (168)
Q Consensus 80 ~~~~l~~~~e~lg~afqI~DDilD~ 104 (168)
.+..++..+-.||.+||..-|..+.
T Consensus 13 kCLvlAslValL~s~fq~~~dav~g 37 (65)
T PF15312_consen 13 KCLVLASLVALLGSGFQLCHDAVRG 37 (65)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4677888999999999999988775
No 66
>PRK05951 ubiA prenyltransferase; Reviewed
Probab=27.47 E-value=22 Score=28.24 Aligned_cols=31 Identities=23% Similarity=0.534 Sum_probs=26.8
Q ss_pred HHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 93 TASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 93 ~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
....+.+++.|. +|.+.||.|.+..+|.+.+
T Consensus 185 ~~il~~n~~~D~e~D~~~G~~Tlav~lG~~~a 216 (296)
T PRK05951 185 ALVLLSNNLRDIEDDERKGIPTLAVIFGRRGA 216 (296)
T ss_pred HHHHHHCCCccchhHHHCCCeeeeeeEcHhhH
Confidence 567788899997 5889999999999998876
No 67
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=25.93 E-value=73 Score=25.08 Aligned_cols=30 Identities=17% Similarity=0.339 Sum_probs=21.9
Q ss_pred HHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 95 SLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 95 fqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
+.+.-.+.|. +|.+.|.||++..+|.+.+.
T Consensus 178 ~~~~~a~~D~e~D~~~G~~tlpv~~G~~~~~ 208 (282)
T PRK12848 178 YDTQYAMVDRDDDLKIGIKSTAILFGRYDKL 208 (282)
T ss_pred HHHHHHhccHhhHHHcCCccccHHhccccHH
Confidence 3333345576 47799999999999988664
No 68
>TIGR00751 menA 1,4-dihydroxy-2-naphthoate octaprenyltransferase. This membrane-associated enzyme converts 1,4-dihydroxy-2-naphthoic acid (DHNA) to demethylmenaquinone, a step in menaquinone biosynthesis.
Probab=25.17 E-value=38 Score=26.86 Aligned_cols=32 Identities=25% Similarity=0.299 Sum_probs=26.8
Q ss_pred HHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 93 TASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 93 ~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+-+..+++.|. +|.+.||.|+++.+|.+.+.
T Consensus 178 ~~il~~Nn~~D~~~D~~~Gk~Tl~v~lG~~~a~ 210 (284)
T TIGR00751 178 CAVLNINNLRDIPTDARAGKNTLAVRLGDARTR 210 (284)
T ss_pred HHHHHHcCcccchhHHHcCCEeehhhcchHhHH
Confidence 456678888998 58899999999999988773
No 69
>PRK12869 ubiA protoheme IX farnesyltransferase; Reviewed
Probab=24.44 E-value=17 Score=28.64 Aligned_cols=32 Identities=28% Similarity=0.191 Sum_probs=26.2
Q ss_pred HhHhhhhcccccCCCccccChhhHHhhhhhhhhh
Q psy5532 6 IHTASLIHDDVIDQSDFRRGKPSVNVVYNHKKEL 39 (168)
Q Consensus 6 ~h~aslihDDi~D~~~~RRG~~~~~~~~g~~~ai 39 (168)
-|-+++..+|++|+ .|.|.|++-..+|.+.+.
T Consensus 174 ~~~~~l~~~d~edd--~~~G~~tlpv~~G~~~a~ 205 (279)
T PRK12869 174 GHIWSLALKYREDY--RRAGVPMLPAVVGEKTSV 205 (279)
T ss_pred HHHHHHHHHhHHhH--HHcCCeecceeecHHHHH
Confidence 47788888999666 889999999999986543
No 70
>PHA02706 hypothetical protein; Provisional
Probab=24.41 E-value=94 Score=17.82 Aligned_cols=22 Identities=32% Similarity=0.386 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q psy5532 81 RKQVAMFAEMIHTASLIHDDVI 102 (168)
Q Consensus 81 ~~~l~~~~e~lg~afqI~DDil 102 (168)
...++-+..++|+++.|.|-+.
T Consensus 7 llviaiimmllgi~siiidtvi 28 (58)
T PHA02706 7 LLVIAIIMMLLGIASIIIDTVI 28 (58)
T ss_pred hHHHHHHHHHHhhHHHhhheee
Confidence 3456778889999999999874
No 71
>PRK12878 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=23.74 E-value=77 Score=25.52 Aligned_cols=33 Identities=12% Similarity=0.012 Sum_probs=23.2
Q ss_pred HHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 92 HTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 92 g~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
+..+=..-++.|. +|.+.|+||+++.+|.+.+.
T Consensus 205 ~~~~~~~~a~~D~e~D~~aGi~slpv~~G~~~~~ 238 (314)
T PRK12878 205 TIGYDTIYAHQDKEDDALIGVKSTARLFGDHTKT 238 (314)
T ss_pred HHHHHHHHHhhhHhhHHHcCCcccchHhchhhHH
Confidence 3333334466666 46799999999999987663
No 72
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=23.54 E-value=31 Score=27.71 Aligned_cols=32 Identities=22% Similarity=0.202 Sum_probs=26.8
Q ss_pred HHHHHHHhhhcCC-CccccCCCchhHHhccchh
Q psy5532 92 HTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKE 123 (168)
Q Consensus 92 g~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~a 123 (168)
-.+-+..+++.|. +|.+.||.|++..+|.+.+
T Consensus 187 ~~~IL~~Nn~rD~e~D~~~Gk~TL~v~lG~~~a 219 (304)
T PRK07419 187 TSLILFCSHFHQVEDDLAAGKRSPIVRLGTKRG 219 (304)
T ss_pred HHHHHHHcCCcchhhHHHcCCcceeeeechHhH
Confidence 3455678899998 5889999999999998876
No 73
>PRK12874 ubiA prenyltransferase; Reviewed
Probab=23.22 E-value=1.6e+02 Score=23.37 Aligned_cols=35 Identities=20% Similarity=0.202 Sum_probs=25.6
Q ss_pred HHHHHHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 90 MIHTASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 90 ~lg~afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
..-.++-+.-++.|.+ |.+.|.||.+..+|.+.+.
T Consensus 178 ~w~~~~~~~~a~~D~~~D~~~Gi~slpv~~G~~~~~ 213 (291)
T PRK12874 178 FWVAGFDLLYSLQDMEFDKKRGLHSIPSKFGEKATL 213 (291)
T ss_pred HHHHHHHHHHHhccHHHHHHcCCCcccHHhhhHhHH
Confidence 3444555566777764 6799999999999988653
No 74
>PLN02922 prenyltransferase
Probab=23.09 E-value=49 Score=26.69 Aligned_cols=35 Identities=23% Similarity=0.097 Sum_probs=28.1
Q ss_pred HHHHHHHHHhhhcCC-CccccCCCchhHHhccchhh
Q psy5532 90 MIHTASLIHDDVIDQ-SDFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 90 ~lg~afqI~DDilD~-~d~r~Gk~t~~~~~g~~~ai 124 (168)
.+-.+-+..+++.|. +|.+.||.|+++.+|.+.+.
T Consensus 199 ll~~~iL~~Nn~rD~e~D~~~Gk~TL~v~lG~~~a~ 234 (315)
T PLN02922 199 LTTTLILFCSHFHQIDGDRAVGKMSPLVRLGTEKGS 234 (315)
T ss_pred HHHHHHHHHccCcchhhHHHcCccceeeEEChHHHH
Confidence 344466778889998 58899999999999988763
No 75
>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=22.98 E-value=62 Score=22.81 Aligned_cols=14 Identities=36% Similarity=0.392 Sum_probs=11.1
Q ss_pred HHHHHHHHHHH--hhh
Q psy5532 88 AEMIHTASLIH--DDV 101 (168)
Q Consensus 88 ~e~lg~afqI~--DDi 101 (168)
|.++|.||||. ||.
T Consensus 142 gnmmgvafqilgiddf 157 (199)
T PF09053_consen 142 GNMMGVAFQILGIDDF 157 (199)
T ss_dssp HHHHHHHHHHTTHHHH
T ss_pred CccceeeeeeecchhH
Confidence 77999999994 554
No 76
>PRK12886 ubiA prenyltransferase; Reviewed
Probab=20.68 E-value=2.2e+02 Score=22.63 Aligned_cols=31 Identities=19% Similarity=0.099 Sum_probs=22.8
Q ss_pred HHHHHhhhcCCC-ccccCCCchhHHhccchhh
Q psy5532 94 ASLIHDDVIDQS-DFRRGKPSVNVVYNHKKEL 124 (168)
Q Consensus 94 afqI~DDilD~~-d~r~Gk~t~~~~~g~~~ai 124 (168)
.+-+.-.+.|.+ |.+.|.||.+..+|.+.+.
T Consensus 177 ~~~~~~a~~D~e~D~~aGi~slpv~~G~~~~~ 208 (291)
T PRK12886 177 GFDILYALQDLEFDRKEGLHSIPAKLGVNGSL 208 (291)
T ss_pred HHHHHHHhccHHhHHHcCCcCcchhcCchhHH
Confidence 344455567764 5789999999999987653
No 77
>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=20.34 E-value=63 Score=22.26 Aligned_cols=19 Identities=16% Similarity=0.275 Sum_probs=13.5
Q ss_pred cCCCccccChhhHHhhhhh
Q psy5532 17 IDQSDFRRGKPSVNVVYNH 35 (168)
Q Consensus 17 ~D~~~~RRG~~~~~~~~g~ 35 (168)
|++++.|..+|-+|..||.
T Consensus 1 ~~~~~kRS~EPi~W~LFgA 19 (118)
T PF02313_consen 1 MNQNPKRSDEPIFWGLFGA 19 (118)
T ss_dssp --SS--B-SHHHHHHHHHH
T ss_pred CCCCCcccCCCceeeeecc
Confidence 6889999999999999998
Done!