Query 022601
Match_columns 294
No_of_seqs 115 out of 1235
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:47:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022601.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022601hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01559 squal_synth farnesyl 100.0 3.2E-58 6.8E-63 429.6 27.5 255 36-293 1-262 (336)
2 cd00683 Trans_IPPS_HH Trans-Is 100.0 7.5E-54 1.6E-58 390.2 24.0 237 39-294 2-239 (265)
3 PLN02632 phytoene synthase 100.0 6.8E-53 1.5E-57 395.2 24.3 232 32-280 44-279 (334)
4 TIGR03464 HpnC squalene syntha 100.0 9.8E-52 2.1E-56 376.7 23.2 217 45-280 2-219 (266)
5 TIGR03465 HpnD squalene syntha 100.0 1.3E-50 2.8E-55 369.3 23.1 224 45-289 2-226 (266)
6 COG1562 ERG9 Phytoene/squalene 100.0 3.5E-50 7.6E-55 368.3 24.3 245 32-294 5-251 (288)
7 PF00494 SQS_PSY: Squalene/phy 100.0 9.5E-50 2.1E-54 363.0 15.0 234 44-293 1-241 (267)
8 KOG1459 Squalene synthetase [L 100.0 5.4E-35 1.2E-39 266.5 12.8 284 6-293 2-288 (413)
9 KOG4411 Phytoene/squalene synt 100.0 2.1E-29 4.5E-34 217.7 20.1 228 34-280 9-241 (292)
10 cd00867 Trans_IPPS Trans-Isopr 99.8 1.6E-19 3.5E-24 161.0 13.8 192 50-278 1-220 (236)
11 cd00385 Isoprenoid_Biosyn_C1 I 99.8 1.4E-17 2.9E-22 145.5 14.9 217 50-278 1-228 (243)
12 KOG1459 Squalene synthetase [L 99.1 5.9E-10 1.3E-14 103.0 11.3 213 33-273 128-347 (413)
13 PLN02890 geranyl diphosphate s 96.3 0.21 4.5E-06 48.7 15.6 143 136-281 228-399 (422)
14 TIGR02749 prenyl_cyano solanes 96.2 0.34 7.3E-06 45.6 16.1 144 136-282 134-306 (322)
15 cd00685 Trans_IPPS_HT Trans-Is 95.9 0.93 2E-05 41.0 17.2 127 138-281 111-244 (259)
16 TIGR02748 GerC3_HepT heptapren 95.3 1.9 4.1E-05 40.4 17.6 142 137-281 131-302 (319)
17 PRK10888 octaprenyl diphosphat 95.1 0.55 1.2E-05 44.2 13.3 143 136-282 131-307 (323)
18 CHL00151 preA prenyl transfera 95.0 1.6 3.4E-05 41.1 16.2 136 143-281 142-306 (323)
19 PLN02857 octaprenyl-diphosphat 94.9 0.6 1.3E-05 45.5 13.3 145 135-282 227-400 (416)
20 PRK10581 geranyltranstransfera 94.2 0.89 1.9E-05 42.3 12.2 122 146-281 153-281 (299)
21 PF00348 polyprenyl_synt: Poly 92.8 3.6 7.7E-05 37.2 13.5 59 159-217 132-194 (260)
22 COG0142 IspA Geranylgeranyl py 86.9 23 0.0005 33.2 14.0 139 138-279 137-303 (322)
23 PF06330 TRI5: Trichodiene syn 83.3 27 0.00059 33.6 12.5 174 52-243 75-258 (376)
24 cd00868 Terpene_cyclase_C1 Ter 81.5 39 0.00085 30.2 18.1 183 51-242 33-238 (284)
25 cd00686 Terpene_cyclase_cis_tr 73.7 49 0.0011 31.5 10.9 167 58-243 81-258 (357)
26 cd00687 Terpene_cyclase_nonpla 71.2 82 0.0018 28.7 21.0 211 51-277 44-271 (303)
27 KOG0776 Geranylgeranyl pyropho 69.1 37 0.00081 32.8 9.2 90 192-284 264-372 (384)
28 PF03936 Terpene_synth_C: Terp 60.7 1.2E+02 0.0026 26.7 16.2 181 52-242 50-253 (270)
29 cd00684 Terpene_cyclase_plant_ 49.0 3E+02 0.0064 27.8 17.3 201 52-271 270-492 (542)
30 TIGR01439 lp_hng_hel_AbrB loop 45.2 13 0.00028 23.4 1.2 20 223-242 6-25 (43)
31 PRK02899 adaptor protein; Prov 38.2 45 0.00098 29.1 4.0 41 224-266 11-51 (197)
32 PRK11508 sulfur transfer prote 28.5 1E+02 0.0022 24.4 4.1 41 249-289 60-100 (109)
33 PRK02315 adaptor protein; Prov 25.8 93 0.002 27.8 3.9 40 224-265 11-50 (233)
34 PF04358 DsrC: DsrC like prote 23.2 1.2E+02 0.0026 23.9 3.6 41 249-289 60-100 (109)
35 PHA01083 hypothetical protein 21.8 3E+02 0.0065 23.0 5.8 62 194-265 19-90 (149)
36 COG5204 SPT4 Transcription elo 20.3 37 0.00081 26.2 0.2 18 212-231 90-107 (112)
No 1
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=100.00 E-value=3.2e-58 Score=429.59 Aligned_cols=255 Identities=63% Similarity=1.067 Sum_probs=233.3
Q ss_pred hHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHccccccccc-CCCc
Q 022601 36 HWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSC-GTKE 114 (294)
Q Consensus 36 ~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~-g~~~ 114 (294)
++++|.++++++|+|||+++++||+++|++++++|+|||++|||+|+.+.+.+.|...|++|.+.+.+..|.+.. +.+.
T Consensus 1 ~~~~C~~~l~~~SrSF~~ai~~Lp~~lR~aV~~~Yl~cR~~DdIeDd~~~~~~~kl~~l~~~~~~l~~~~~~~~~~~~~~ 80 (336)
T TIGR01559 1 SLGFCYELLNLTSRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDMTISVDKKIPLLRDFHEKIYDPDWRFTESDNEK 80 (336)
T ss_pred ChHHHHHHHhhcCccHHHHHHHcCHHHHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHhccCcccCCCCChh
Confidence 368999999999999999999999999999999999999999999998888888999999999999875554542 2455
Q ss_pred cHHHHhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhhh-hhc--CCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC
Q 022601 115 YKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEV--ESIDDYDEYCYYVAGLVGLGLSKLFYASGTED 191 (294)
Q Consensus 115 ~~~l~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl~-~~~--~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~ 191 (294)
+..+++.++.+...|..++++++++|.+++.+|++||++|+. ..| +|++||+.|||+|||+||+|+++|++..|..+
T Consensus 81 ~~~L~~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~ 160 (336)
T TIGR01559 81 DRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFED 160 (336)
T ss_pred hHHHHHhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCC
Confidence 567888899999999999999999999999999999999995 567 99999999999999999999999997643322
Q ss_pred C---ChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHH
Q 022601 192 L---APDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVE 268 (294)
Q Consensus 192 ~---~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~ 268 (294)
+ ...+.|.++|.|||+||||||++||+. +||||||.|+|.+||++.+++..+++++++.+++.+++.+|+.||+
T Consensus 161 ~~~~~~~~~A~~lG~aLQlTNIlRDv~ED~~---~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~ 237 (336)
T TIGR01559 161 PSLGESEALSNSMGLFLQKTNIIRDYLEDIN---EGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHAT 237 (336)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHhHHh---CCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHH
Confidence 2 246899999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhCCCchhhhhhhhhhhhc
Q 022601 269 DCLKYMSALRDHAIFRFCAIPQVRC 293 (294)
Q Consensus 269 ~A~~~~~~lp~~~~~~~c~~p~~~~ 293 (294)
+|.+|+..|+.+++|.||+||++||
T Consensus 238 ~al~yl~~l~~~~~~~fcaip~~mA 262 (336)
T TIGR01559 238 DCLTYLSRLRDQSIFNFCAIPQVMA 262 (336)
T ss_pred HHHHHHHhCCCcchhHHHHHHHHHH
Confidence 9999999999999999999999987
No 2
>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=100.00 E-value=7.5e-54 Score=390.23 Aligned_cols=237 Identities=35% Similarity=0.534 Sum_probs=214.3
Q ss_pred HHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHH
Q 022601 39 FCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVL 118 (294)
Q Consensus 39 ~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l 118 (294)
+|.++++++|+|||+++++||+++|++++++|||||++|||+|+++.+...+..+|+||++.+.+ .+. |.+..+|+
T Consensus 2 ~c~~~~~~~~~sf~~a~~~lp~~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~---~~~-~~~~~~pv 77 (265)
T cd00683 2 YCRAILRKGSRSFYLASRLLPPELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDA---AYW-GGAPTHPV 77 (265)
T ss_pred HHHHHHHHhCCcHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHH---HHc-CCCCCChH
Confidence 79999999999999999999999999999999999999999999987757788999999999987 355 55667789
Q ss_pred HhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhhh-hhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHH
Q 022601 119 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSL 197 (294)
Q Consensus 119 ~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl~-~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~~~~~~~ 197 (294)
..+|..+++.+..+..++.++|+ ||++|+. .+|+|++||+.||++|||+||+|+++|++.. ..+...+.
T Consensus 78 ~~al~~~~~~~~l~~~~~~~li~--------g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~~ 147 (265)
T cd00683 78 LRALADLARRYGIPREPFRDLLA--------GMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALER 147 (265)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHH--------HHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHHH
Confidence 89999999988777677777775 9999995 7899999999999999999999999999841 23456799
Q ss_pred HHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 022601 198 SNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSAL 277 (294)
Q Consensus 198 A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~l 277 (294)
|.++|+|+|+||||||+++|++ +||||||.|+|.+||++.+++.++..++++++++++++++|+.||.+|+++++.+
T Consensus 148 A~~lG~AlqltnilRdv~eD~~---~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~l 224 (265)
T cd00683 148 ARALGLALQLTNILRDVGEDAR---RGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAAL 224 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc---cCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhC
Confidence 9999999999999999999998 9999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhhhhhhhhhhhcC
Q 022601 278 RDHAIFRFCAIPQVRCF 294 (294)
Q Consensus 278 p~~~~~~~c~~p~~~~~ 294 (294)
|+ ...+|.+|+...|
T Consensus 225 p~--~~~~~~~~~~~~y 239 (265)
T cd00683 225 PR--RSRFCVRAAAMLY 239 (265)
T ss_pred CH--hhHHHHHHHHHHH
Confidence 94 3457777776543
No 3
>PLN02632 phytoene synthase
Probab=100.00 E-value=6.8e-53 Score=395.23 Aligned_cols=232 Identities=23% Similarity=0.286 Sum_probs=208.9
Q ss_pred CCchhHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccC
Q 022601 32 PPEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCG 111 (294)
Q Consensus 32 ~~~~~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g 111 (294)
++++++.+|.++++++|+|||+++++||+++|++++++|||||++|||+|+++.+.. +..+|+||++.+.+ ++. |
T Consensus 44 ~l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~ai~alYAf~R~~DdI~D~~~~~~~-~~~~L~~w~~~l~~---~~~-g 118 (334)
T PLN02632 44 LLEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWCRRTDELVDGPNASHI-TPAALDRWEARLED---LFD-G 118 (334)
T ss_pred cchHHHHHHHHHHhhcCchHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCCCCChh-hHHHHHHHHHHHHH---HhC-C
Confidence 478999999999999999999999999999999999999999999999999876543 35689999999987 465 7
Q ss_pred CCccHHHHhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhh-hhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCC
Q 022601 112 TKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFI-CKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTE 190 (294)
Q Consensus 112 ~~~~~~l~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl-~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~ 190 (294)
.+ .+|+..++.++++.+.++..++.++|+ ||++|+ ..+|+|++||+.|||+|||+||+|+++|+|..+..
T Consensus 119 ~~-~~pv~~aL~~~~~~~~L~~~~~~~li~--------g~~~Dl~~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~ 189 (334)
T PLN02632 119 RP-YDMLDAALADTVSKFPLDIQPFRDMIE--------GMRMDLVKSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPES 189 (334)
T ss_pred CC-CChHHHHHHHHHHHCCCChHHHHHHHH--------HHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCcc
Confidence 65 567888899999999877777777775 999999 57899999999999999999999999999853211
Q ss_pred C---CChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHH
Q 022601 191 D---LAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHV 267 (294)
Q Consensus 191 ~---~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l 267 (294)
. +.+.+.|.++|+|+|+|||||||++|++ +||||||.|+|++||++.+++.++..++++++++.+++++|+.||
T Consensus 190 ~~~~~~~~~~A~~lG~AlQltNILRDv~eD~~---~GRvYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~ 266 (334)
T PLN02632 190 KASTESVYNAALALGIANQLTNILRDVGEDAR---RGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYF 266 (334)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh---CCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 1 2356889999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhCCCc
Q 022601 268 EDCLKYMSALRDH 280 (294)
Q Consensus 268 ~~A~~~~~~lp~~ 280 (294)
++|+.++..||+.
T Consensus 267 ~~a~~~l~~lp~~ 279 (334)
T PLN02632 267 AEAEEGVSELDPA 279 (334)
T ss_pred HHHHHhHhhCCHH
Confidence 9999999999985
No 4
>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=100.00 E-value=9.8e-52 Score=376.73 Aligned_cols=217 Identities=17% Similarity=0.209 Sum_probs=198.6
Q ss_pred hhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHH
Q 022601 45 HKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHH 124 (294)
Q Consensus 45 r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~ 124 (294)
+++++|||+|+++||+++|++++++|||||++|||+|+++.+++++..+|+||++.+.+ ++. |.+ .+|+..++.+
T Consensus 2 ~~~~~sf~~a~~~lp~~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~---~~~-g~~-~~pv~~aL~~ 76 (266)
T TIGR03464 2 VAHYENFPVASLLLPARLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDA---IYS-GEP-AAPVFVALAR 76 (266)
T ss_pred CCccCcHHHHHHhCCHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHH---HhC-CCC-CChHHHHHHH
Confidence 57899999999999999999999999999999999999866777888999999999987 355 665 5678899999
Q ss_pred HHHHHHhcChhHHHHHHHHHHHhhhHHHhhh-hhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHHHHH
Q 022601 125 VSTAFLELGKGYQDAIEDITKRMGAGMAKFI-CKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGL 203 (294)
Q Consensus 125 ~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl-~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~~~~~~~A~~lG~ 203 (294)
+++.++++.+++.++|+ ||++|+ ..+|+|++||+.|||+|||+||+|+++|+|. .+....+.|.++|+
T Consensus 77 ~~~~~~l~~~~~~~li~--------~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~---~~~~~~~~A~~lG~ 145 (266)
T TIGR03464 77 TVQRHGLPIEPFLDLLD--------AFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGA---SDPENVALSDAICT 145 (266)
T ss_pred HHHHcCCChHHHHHHHH--------HHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCC---CChhHHHHHHHHHH
Confidence 99999877677777775 999999 5789999999999999999999999999984 22346689999999
Q ss_pred HHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCc
Q 022601 204 FLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 280 (294)
Q Consensus 204 AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~ 280 (294)
|+|+||||||+++|+. +||||||.|+|++||++++|+.++..++++++++++++++|+.||.+|+.+++.+|+.
T Consensus 146 AlQltniLRDl~eD~~---~gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~ 219 (266)
T TIGR03464 146 ALQLINFWQDVGVDYR---KGRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGR 219 (266)
T ss_pred HHHHHHHHHhhHHHHh---cCCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHh
Confidence 9999999999999999 9999999999999999999999999999999999999999999999999999999975
No 5
>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=100.00 E-value=1.3e-50 Score=369.29 Aligned_cols=224 Identities=21% Similarity=0.250 Sum_probs=199.7
Q ss_pred hhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHH
Q 022601 45 HKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHH 124 (294)
Q Consensus 45 r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~ 124 (294)
+++|+|||+|++++|+++|++++++|||||++|+|+|+.++ +..+.++|+||++.+.+ ++. |.+ .+|+..++..
T Consensus 2 ~~~s~sF~~a~~~lp~~~R~~~~alYaf~r~~d~i~D~~~~-~~~~~~~L~~w~~~l~~---~~~-g~~-~~pv~~al~~ 75 (266)
T TIGR03465 2 AASGSSFYYGMRLLPPERRRAMTALYAFCREVDDIVDEDSD-PEVAQAKLAWWRAEIDR---LYA-GAP-SHPVARALAD 75 (266)
T ss_pred CCCcCcHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCCC-chHHHHHHHHHHHHHHH---HhC-CCC-CChHHHHHHH
Confidence 67999999999999999999999999999999999999654 56778899999999987 355 655 5678889999
Q ss_pred HHHHHHhcChhHHHHHHHHHHHhhhHHHhhh-hhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHHHHH
Q 022601 125 VSTAFLELGKGYQDAIEDITKRMGAGMAKFI-CKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGL 203 (294)
Q Consensus 125 ~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl-~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~~~~~~~A~~lG~ 203 (294)
+++.++.+.+++.++|+ ||++|+ .++|+|++||+.|||+|||+||.|+++++|. .++.+.+.|+++|+
T Consensus 76 ~~~~~~l~~~~~~~li~--------g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~---~~~~~~~~a~~lG~ 144 (266)
T TIGR03465 76 PARRFDLPQEDFLEVID--------GMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARIFGA---TDARTLEYAHHLGR 144 (266)
T ss_pred HHHHcCCCHHHHHHHHH--------HHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCC---CChhHHHHHHHHHH
Confidence 99998776667776665 999999 4789999999999999999999999999974 33456789999999
Q ss_pred HHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhh
Q 022601 204 FLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIF 283 (294)
Q Consensus 204 AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~~~ 283 (294)
|+|+||||||+++|+. +||||||.|+|++||+++++|.+++.++++++++++++++|+.||++|++++..+|+. .+
T Consensus 145 AlqltnilRdv~eD~~---~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~-~~ 220 (266)
T TIGR03465 145 ALQLTNILRDVGEDAR---RGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRR-AQ 220 (266)
T ss_pred HHHHHHHHHHhHHHHh---CCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHh-hh
Confidence 9999999999999999 9999999999999999999999999999999999999999999999999999999964 23
Q ss_pred hhhhhh
Q 022601 284 RFCAIP 289 (294)
Q Consensus 284 ~~c~~p 289 (294)
..|.+|
T Consensus 221 ~~~~~~ 226 (266)
T TIGR03465 221 RAARAM 226 (266)
T ss_pred HHHHHH
Confidence 334444
No 6
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=3.5e-50 Score=368.29 Aligned_cols=245 Identities=26% Similarity=0.361 Sum_probs=215.4
Q ss_pred CCchhHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccC
Q 022601 32 PPEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCG 111 (294)
Q Consensus 32 ~~~~~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g 111 (294)
+...++.+|.++++++|+|||+++++||+++|++++++|||||++|+|+|+++++... ...+.+|+..+... ++ |
T Consensus 5 ~~~~~~~~c~~i~~~~srtf~la~~~lp~~~R~av~alYa~~R~~Ddv~D~~~~~~~~-~e~~~~~~~~~~~~---~~-~ 79 (288)
T COG1562 5 EIMEALDYCLDILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDGVSDPDLP-AEILLAWRRELDGD---FS-G 79 (288)
T ss_pred chhHHHHHHHHHHHHhCcchHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhcccchhhH-HHHHHHHHHHHhcc---cc-C
Confidence 4567889999999999999999999999999999999999999999999999887233 33444444444441 33 4
Q ss_pred CC-ccHHHHhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhh-hhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCC
Q 022601 112 TK-EYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFI-CKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGT 189 (294)
Q Consensus 112 ~~-~~~~l~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl-~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~ 189 (294)
.+ ..+|+..+|.+++++++.+.+++.++++ ||++|+ ..+|.+++||+.||++|||+||.|++.|++...
T Consensus 80 ~~~~~~pv~~al~~~~~~~~~~~~~~~~~~d--------a~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~- 150 (288)
T COG1562 80 QPASDHPVLAALVEVARRFGLPREAFPALID--------AMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDK- 150 (288)
T ss_pred CCcccCHHHHHHHHHHHHcCCCHHHHHHHHH--------HHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCccc-
Confidence 43 5678999999999999887778877776 999999 579999999999999999999999999998632
Q ss_pred CCCChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHH
Q 022601 190 EDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVED 269 (294)
Q Consensus 190 ~~~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~ 269 (294)
.....+.|..+|.|+|+||||||++||.. +||+|||.|+|.+||++.+|+..+.++++++.+|++++.+|+.|+.+
T Consensus 151 -~~~~~~~a~~lG~A~QlvNilRdv~eD~~---~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~ 226 (288)
T COG1562 151 -DAATRAYARGLGLALQLVNILRDVGEDRR---RGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAE 226 (288)
T ss_pred -chhhHHHHHHHHHHHHHHHHHHHhHHHHh---CCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHH
Confidence 22345677889999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCchhhhhhhhhhhhcC
Q 022601 270 CLKYMSALRDHAIFRFCAIPQVRCF 294 (294)
Q Consensus 270 A~~~~~~lp~~~~~~~c~~p~~~~~ 294 (294)
|+.+++.||.++...+|.+|++.++
T Consensus 227 a~~~~~~lp~~~~~~~~~~~~~~~~ 251 (288)
T COG1562 227 ARRGLPALPGRAQLAVLAAALLYAY 251 (288)
T ss_pred HHHhhhhCCccccchhhHHHHHHHH
Confidence 9999999999988999999998763
No 7
>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=100.00 E-value=9.5e-50 Score=363.02 Aligned_cols=234 Identities=26% Similarity=0.335 Sum_probs=196.5
Q ss_pred HhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccc----cCCCccHHHH
Q 022601 44 LHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFS----CGTKEYKVLM 119 (294)
Q Consensus 44 ~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~----~g~~~~~~l~ 119 (294)
+|++|+|||+|++++|+++|++++++|||||++|+|+|+++++ ..+.++|+||++.+.+ ++. .+.+..+|++
T Consensus 1 lr~~~~sf~~a~~~lP~~~R~~~~alyaf~r~~d~i~D~~~~~-~~~~~~L~~w~~~l~~---~~~~~~~~~~~~~~pv~ 76 (267)
T PF00494_consen 1 LRKHSRSFYLASLLLPKEKRPAVFALYAFCRELDDIVDEPSDP-EEARARLQWWRDALNS---IFASYEDSLPEPSHPVA 76 (267)
T ss_dssp -HHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHHHCTSS--HSCHHHHHHHHHHHHH---HHH-TSTHHHSSHHHHH
T ss_pred CCCCCccHHHHHHHCCHHHHHHHHHHHHHHHHHhhccccchhh-HHHHHHHHHHHHHHHH---HhhhhhhccCCCcCHHH
Confidence 5889999999999999999999999999999999999999854 4556799999999987 342 1235667899
Q ss_pred hhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhhh-hhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHH
Q 022601 120 DQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLS 198 (294)
Q Consensus 120 ~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl~-~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~~~~~~~A 198 (294)
.+|..+++.++++..++.++|+ ||++|+. ++|+|++||+.||++|||+||+|++++++.. .++..+.++|
T Consensus 77 ~~l~~~~~~~~l~~~~l~~li~--------~~~~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~-~~~~~~~~~a 147 (267)
T PF00494_consen 77 RALADLVRRYGLPREPLLELID--------GMEMDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAH-DPDEAARDAA 147 (267)
T ss_dssp HHHHHHHCCSHHHHHHHHHHHH--------HHHHCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSS-TSHHHHHHHH
T ss_pred HHHHHHHHHHhhhHHHHHHHHH--------HhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccc-cchhhHHHHH
Confidence 9999998888766666666665 9999994 8999999999999999999999999999852 1112468999
Q ss_pred HHHHHHHHHHHHHhchhhh-hhcCCCCCccccHHHHHhcCCChhhhhccc-CCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 022601 199 NSMGLFLQKTNIIRDYLED-INEIPKCRMFWPREIWSKYVNKLEDLKYEE-NSDKAVQCLNDMVTNALMHVEDCLKYMSA 276 (294)
Q Consensus 199 ~~lG~AlQltniLRDi~~D-~~~~~~gR~YLP~d~l~~~gv~~edl~~~~-~~~~~~~~i~~~~~~A~~~l~~A~~~~~~ 276 (294)
.++|.|+|+||||||+++| .. +||||||.|+|++||++++|+.++. .++++++++.+++.+|+.+|.+|+++++.
T Consensus 148 ~~lG~alql~nilRd~~~D~~~---~gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~ 224 (267)
T PF00494_consen 148 RALGRALQLTNILRDIPEDALR---RGRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSA 224 (267)
T ss_dssp HHHHHHHHHHHHHHTHHHH-HH---TT---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGG
T ss_pred HHHHHHHHHHHHHHHhHHHHHh---cccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999 88 9999999999999999999999876 88889999999999999999999999999
Q ss_pred CCCchhhhhhhhhhhhc
Q 022601 277 LRDHAIFRFCAIPQVRC 293 (294)
Q Consensus 277 lp~~~~~~~c~~p~~~~ 293 (294)
+|+...+.+|.+|..++
T Consensus 225 l~~~~~~~~~~~~~~~~ 241 (267)
T PF00494_consen 225 LPPPRARPAVAAAAALY 241 (267)
T ss_dssp S--TTHHHHHHHHHHHH
T ss_pred cCCHhhhHHHHHHHHHH
Confidence 97767888888887653
No 8
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=5.4e-35 Score=266.54 Aligned_cols=284 Identities=61% Similarity=0.997 Sum_probs=259.8
Q ss_pred hhhhCchhHHHHHHHH-HhhccccCCCCCchhHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCC
Q 022601 6 AVLRHPDDLYPLLKLK-MASRQAEKQIPPEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTS 84 (294)
Q Consensus 6 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~ 84 (294)
.++.||++++.++|++ +...+..++.++ ..+..|.+++..+|+||...+.-++.+.|++++.+|...|.+|++.|+.+
T Consensus 2 ~~l~~p~e~~~l~~~k~~~l~~~~eq~~~-~~~~~Cy~~l~~tsrsfa~Vi~~l~~elRNav~ifylVlraLdtvedd~s 80 (413)
T KOG1459|consen 2 ALLWHPEESYNLLKMKKLPLVRVLEQSPL-PLLSPCYNLLNLTSRSFAAVIQELSSELRNAVCIFYLVLRALDTVEDDMS 80 (413)
T ss_pred ccccChhhhcCchhhccCCcchhhhcCCc-hHHHHHHHHHHhhcchHHHHHHhhCHHHhhhhheeeeehhhhccCCCCCc
Confidence 5789999999999994 444445666555 89999999999999999999999999999999999999999999999999
Q ss_pred CChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhhhhhcCCHHH
Q 022601 85 IPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDD 164 (294)
Q Consensus 85 ~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl~~~~~t~~d 164 (294)
.+.+.|...|..+.+.++...|.|.+|.+.+..++..++.+...|..+.+.+++.|.++.++|+.||...+....+|..|
T Consensus 81 I~~d~kvpil~~fhk~i~~~~w~f~~s~~k~r~~l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~~v~ti~d 160 (413)
T KOG1459|consen 81 IPLDKKVPILRVFHKQIYLVDWQFRESSPKDRQLLPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPEEVETIWD 160 (413)
T ss_pred ccccccccHHHHHHHHHhhcCceecCCChhhhhhccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHHHHhHHHH
Confidence 99888899999999999988888887777788888889999999999999999999999999999999999888999999
Q ss_pred HHHHHHhhhhHHHHHHHHhhcccCCCC--CChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhh
Q 022601 165 YDEYCYYVAGLVGLGLSKLFYASGTED--LAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLED 242 (294)
Q Consensus 165 L~~Y~~~vAg~Vg~l~~~ll~~~~~~~--~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~ed 242 (294)
...||.+|||-||.-+++++.+++.++ .+..+.++.+|..+|.|||+||..||.. -||-|+|.++|.++--.-+|
T Consensus 161 ~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~l~ns~glfLqktnIirdy~ed~~---d~r~Fwp~eIwg~y~d~L~d 237 (413)
T KOG1459|consen 161 YDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQLSNSMGLFLQKTNIIRDYLEDPV---DGRPFWPREIWGKYMDKLKD 237 (413)
T ss_pred HHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHHHhcccchHHHHhHHHHHHHhccc---cCCccChHHHHHHHHHHHHh
Confidence 999999999999999999997643332 2345889999999999999999999999 79999999999999655888
Q ss_pred hhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhhhhhhhhhhc
Q 022601 243 LKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQVRC 293 (294)
Q Consensus 243 l~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~~~~~c~~p~~~~ 293 (294)
+..+++++...+++.++++.|..|......+++.+..+++|.||+||.++|
T Consensus 238 ~~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvfnfcaipqima 288 (413)
T KOG1459|consen 238 FRYPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVFNFCAIPQIMA 288 (413)
T ss_pred hhCccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999876
No 9
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=99.97 E-value=2.1e-29 Score=217.66 Aligned_cols=228 Identities=14% Similarity=0.101 Sum_probs=190.7
Q ss_pred chhHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCC
Q 022601 34 EPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTK 113 (294)
Q Consensus 34 ~~~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~ 113 (294)
..+.. |.+++++.++..|+|...+|.+.|.++++|.|||.|+..|+=++...+....+||+||+++++. +|. -.|
T Consensus 9 ~~A~s-c~~~vr~ydy~~ylc~l~lp~e~r~aafaLrAfNVE~ar~~~d~~~~p~ia~mRL~fW~daIdk---~y~-~~p 83 (292)
T KOG4411|consen 9 RSALS-CVQQVRNYDYHHYLCLLELPTEMRKAAFALRAFNVELARIKVDTRKGPAIAMMRLQFWKDAIDK---IYG-ISP 83 (292)
T ss_pred hhHHH-HHHHHHhhhHHHHHHHHhCcHHHHHHHHHHHHhhHHHHHHhhccccCcHHHHHHHHHHHHHHHH---HcC-CCC
Confidence 34455 9999999999999999999999999999999999999996554444456678999999999987 664 222
Q ss_pred ---ccHHHHhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhh-hhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCC
Q 022601 114 ---EYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFI-CKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGT 189 (294)
Q Consensus 114 ---~~~~l~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl-~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~ 189 (294)
+.+|+..++-.++....... .|+.+++++++.|. ++.|+++.+|++|.+.+-|++..+.+...| .
T Consensus 84 ~~v~~qPva~aL~~~~~~~~~nk--------~~L~rlV~aR~r~~~d~~fesI~eLeeY~e~TissLL~l~l~agg---~ 152 (292)
T KOG4411|consen 84 LPVPRQPVAIALCSFAAGHNANK--------DMLLRLVEARQRTIGDRQFESINELEEYGESTISSLLCLQLDAGG---K 152 (292)
T ss_pred CCCCCcHHHHHHHHHHhccccCH--------HHHHHHHHHhhcCCcccchHHHHHHHHHHHhHHHHHHHHHHHhcC---c
Confidence 45567666666665433222 23335556999988 578999999999999988877777776665 4
Q ss_pred CCCChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhh-hcccCCHHHHHHHHHHHHHHHHHHH
Q 022601 190 EDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDL-KYEENSDKAVQCLNDMVTNALMHVE 268 (294)
Q Consensus 190 ~~~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl-~~~~~~~~~~~~i~~~~~~A~~~l~ 268 (294)
..+.+.++|+|+|.|.+++|+||.+|...+ +|..|||.|+|..||++.+++ ......+++..++++++..|+.|+.
T Consensus 153 ~~~~AdhaAshlGkA~gia~llrs~p~~~~---r~~~~iPadv~~lhGvtq~~il~~k~~~~g~~~~~fd~as~an~hL~ 229 (292)
T KOG4411|consen 153 VLPMADHAASHLGKAYGIANLLRSTPPLLA---RGIVLIPADVMSLHGVTQLDILYKKKKLDGMVGMTFDLASEANRHLI 229 (292)
T ss_pred cccchHHHHHHHhHHHHHHHHHHhccHHHh---CCCccccHHHHHHcCCCHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence 567788999999999999999999999999 999999999999999999664 5677889999999999999999999
Q ss_pred HHHHHHhhCCCc
Q 022601 269 DCLKYMSALRDH 280 (294)
Q Consensus 269 ~A~~~~~~lp~~ 280 (294)
.|+..++.+|+.
T Consensus 230 ~AR~l~~kVP~~ 241 (292)
T KOG4411|consen 230 DARSLIEKVPKA 241 (292)
T ss_pred HHHhHhhhCCHH
Confidence 999999999985
No 10
>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=1.6e-19 Score=161.01 Aligned_cols=192 Identities=22% Similarity=0.208 Sum_probs=140.3
Q ss_pred cHHHHHHhcCh----------hhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHH-HHHHHcccccccccCCCccHHH
Q 022601 50 SFALVIQQLGT----------DLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIA-FHRHVYDREWHFSCGTKEYKVL 118 (294)
Q Consensus 50 sfy~a~~llP~----------~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~-w~~~l~~~~~~~~~g~~~~~~l 118 (294)
+|+++++++|+ ..+.++.++|+|+++.|||+|+.... ..+.....+ |.....- .. .+.++
T Consensus 1 ~r~~~~~~~~~~~~~~~~~~~~~a~ave~l~~~~li~DDI~D~~~~r-rg~~~~~~~~~g~~~ai----~~----gd~l~ 71 (236)
T cd00867 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLR-RGKPTAHLRRFGNALAI----LA----GDYLL 71 (236)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcccccCCccC-CCCccHhHHhhCHhHHH----HH----HHHHH
Confidence 47888999999 99999999999999999999997654 233345555 6554431 11 23455
Q ss_pred HhhHHHHHHHHHhcChhHHHHHHHHHHHhhhHHHhhhh-hh--cCCHHHHHHHHHh-hhhHHHHHHHHhhcccCCCC---
Q 022601 119 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KE--VESIDDYDEYCYY-VAGLVGLGLSKLFYASGTED--- 191 (294)
Q Consensus 119 ~~al~~~~~~~~~~~~~~~~li~~~~~~m~~g~~~Dl~-~~--~~t~~dL~~Y~~~-vAg~Vg~l~~~ll~~~~~~~--- 191 (294)
..++..+.+. ......+++.+.+..|..|+..|+. .. +.|++++..||++ ||+.+|.++..+....+...
T Consensus 72 ~~a~~~l~~~---~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~ 148 (236)
T cd00867 72 ARAFQLLARL---GYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQA 148 (236)
T ss_pred HHHHHHHHhC---ChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHH
Confidence 5555554431 1112334455566677789999994 44 8999999999999 99999998877765433221
Q ss_pred CChhHHHHHHHHHHHHHHHHhchhhhh----------hcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHH
Q 022601 192 LAPDSLSNSMGLFLQKTNIIRDYLEDI----------NEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVT 261 (294)
Q Consensus 192 ~~~~~~A~~lG~AlQltniLRDi~~D~----------~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~ 261 (294)
....+++.++|.|+|++|.++|+.+|. . .||+|||...+ .+.+..
T Consensus 149 ~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~---~gr~tlp~~~~----------------------~~~~~~ 203 (236)
T cd00867 149 EALKDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLR---EGRITLPVILA----------------------RERAAE 203 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCChHHHCccHHHHH---cCCchHHHHHH----------------------HHHHHH
Confidence 235689999999999999999999888 7 89999999987 456666
Q ss_pred HHHHHHHHHHHHHhhCC
Q 022601 262 NALMHVEDCLKYMSALR 278 (294)
Q Consensus 262 ~A~~~l~~A~~~~~~lp 278 (294)
.+++++..+...+..+|
T Consensus 204 ~~~~~~~~~~~~~~~~~ 220 (236)
T cd00867 204 YAEEAYAALEALPPSLP 220 (236)
T ss_pred HHHHHHHHHHhCCCCch
Confidence 67777777776665544
No 11
>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=99.76 E-value=1.4e-17 Score=145.49 Aligned_cols=217 Identities=22% Similarity=0.169 Sum_probs=163.7
Q ss_pred cHHHHHHhcCh--hhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHHHHH
Q 022601 50 SFALVIQQLGT--DLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVST 127 (294)
Q Consensus 50 sfy~a~~llP~--~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~~~~ 127 (294)
++++++.+.|+ +.|..+..+|+|++++|||.|+..... .+.....+| ...+.. .. ..+...++...+..+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~-~~~~~~~~~--~~~~~~--~~-~~~~~~~~~~~~~~~~~ 74 (243)
T cd00385 1 FRPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRR-GLPTAHLAV--AIDGLP--EA-ILAGDLLLADAFEELAR 74 (243)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC-CchhhhhhH--HhcCch--HH-HHHHHHHHHHHHHHHHh
Confidence 47889999999 999999999999999999999887543 223344555 111110 00 11223344443433332
Q ss_pred HHHhcChhHHHHHHHHHHHhhhHHHhhhh-hh--cCCHHHHHHHHHhh-hhHHHHHHHHhhcccCCC---CCChhHHHHH
Q 022601 128 AFLELGKGYQDAIEDITKRMGAGMAKFIC-KE--VESIDDYDEYCYYV-AGLVGLGLSKLFYASGTE---DLAPDSLSNS 200 (294)
Q Consensus 128 ~~~~~~~~~~~li~~~~~~m~~g~~~Dl~-~~--~~t~~dL~~Y~~~v-Ag~Vg~l~~~ll~~~~~~---~~~~~~~A~~ 200 (294)
. ........+.+.+..+..|+..|+. .. ++|++++..||+.+ ++.+|.++....+..+.. .+.....+.+
T Consensus 75 ~---~~~~~~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (243)
T cd00385 75 E---GSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRA 151 (243)
T ss_pred C---CCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 2 1123344555566677889999995 33 89999999999999 778888777666542211 1235688999
Q ss_pred HHHHHHHHHHHhchhhhhhcCCC--CCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 022601 201 MGLFLQKTNIIRDYLEDINEIPK--CRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALR 278 (294)
Q Consensus 201 lG~AlQltniLRDi~~D~~~~~~--gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp 278 (294)
+|.++|++|.++|+..|.. . |++++|...+.++|++.+++..+..++.+.++++.+...++..+.+..+....+|
T Consensus 152 ~g~~~ql~nDl~~~~~e~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 152 LGLAFQLTNDLLDYEGDAE---RGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHHHHHHHHHHhccCCHH---HhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 9999999999999999998 6 8999999999999999999999999999999999999999999999998887776
No 12
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=99.11 E-value=5.9e-10 Score=103.00 Aligned_cols=213 Identities=9% Similarity=-0.007 Sum_probs=154.7
Q ss_pred CchhHHHHHHHHhhcCccHHHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCC
Q 022601 33 PEPHWAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGT 112 (294)
Q Consensus 33 ~~~~~~~c~~~~r~~~~sfy~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~ 112 (294)
+.+.|+ +++...-+.++..+..+-.+.+++++..|-+||.++.+++.+-.. -.-.+.|+.|....++ +++ |.
T Consensus 128 L~e~Yq---eviaeitk~mg~Gma~~~~~~v~ti~d~d~yChyvagLVg~glsr-lf~~s~le~~~~~~e~---l~n-s~ 199 (413)
T KOG1459|consen 128 LGEGYQ---EVIAEITKRMGLGMALFIPEEVETIWDYDVYCHYVAGLVGIGLSR-LFTASKLEDLLARLEQ---LSN-SM 199 (413)
T ss_pred hhHHHH---HHHHHHHHHHhchHHHhhHHHHhHHHHHHHHHHHHHHhhCCchHh-hhhHHHHhhhhhhHHH---Hhc-cc
Confidence 345554 666666777889888777777999999999999999999987532 1113455556555544 233 33
Q ss_pred CccHHHHhhHHHHHHHHHhc---ChhHHHHHHHHHHHhhhHHHhh-hh-hhcCCHHHHHHHHHhhhhHHHHHHHHhhcc-
Q 022601 113 KEYKVLMDQFHHVSTAFLEL---GKGYQDAIEDITKRMGAGMAKF-IC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYA- 186 (294)
Q Consensus 113 ~~~~~l~~al~~~~~~~~~~---~~~~~~li~~~~~~m~~g~~~D-l~-~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~- 186 (294)
+-. + + =...++.|... ..+|- -+++-|+..| +. -.+++.+++--||++..+|+|.+-.+..-.
T Consensus 200 glf--L-q-ktnIirdy~ed~~d~r~Fw-------p~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~y 268 (413)
T KOG1459|consen 200 GLF--L-Q-KTNIIRDYLEDPVDGRPFW-------PREIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDVLTY 268 (413)
T ss_pred chH--H-H-HhHHHHHHHhccccCCccC-------hHHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHHHHH
Confidence 211 1 0 01122333222 23442 1333489888 54 589999999999999999999986655422
Q ss_pred -cCCCCCChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHH
Q 022601 187 -SGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALM 265 (294)
Q Consensus 187 -~~~~~~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~ 265 (294)
++...+.....|--.|++-+.|+++++..+|+. +|++|||. |.+.+++.++.+.++++.++......++-
T Consensus 269 ls~l~~qsvfnfcaipqimai~Tlal~~nn~dvf---rG~Vklrk------Gl~~~~I~~~k~~~~v~~~f~~y~~~i~~ 339 (413)
T KOG1459|consen 269 LSKLRTQSVFNFCAIPQIMAIATLALCYNNEDVF---RGNVKLRK------GLAVELILASKTMDKVRNIFYMYLRDIRM 339 (413)
T ss_pred HhhcccHHHHHHHHHHHHHHHHHHHHHhcCHhHh---ccceeecC------CchHHHHHhcccHHHHHHHHHHHHHHHHh
Confidence 223344567888999999999999999999999 99999997 99999999999999999999999999988
Q ss_pred HHHHHHHH
Q 022601 266 HVEDCLKY 273 (294)
Q Consensus 266 ~l~~A~~~ 273 (294)
-++++.+.
T Consensus 340 k~d~~dpn 347 (413)
T KOG1459|consen 340 KFDEADPN 347 (413)
T ss_pred hCCccCCC
Confidence 88777655
No 13
>PLN02890 geranyl diphosphate synthase
Probab=96.26 E-value=0.21 Score=48.75 Aligned_cols=143 Identities=15% Similarity=0.131 Sum_probs=87.2
Q ss_pred HHHHHHHHHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHH
Q 022601 136 YQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKT 208 (294)
Q Consensus 136 ~~~li~~~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQlt 208 (294)
+.+.+.+....|..|-..|+.. .-.|++++..-.++-.|++...++.+-.. .|.+. .....++.++|.|+|+.
T Consensus 228 ~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~ 307 (422)
T PLN02890 228 VVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLI 307 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555556777888888742 24577777766666667766666544322 22222 12457899999999999
Q ss_pred HHHhch-----------hhhhhcCCCCCccccHHHHHhcCCChhhhh-cccCC-HHHHH---------HHHHHHHHHHHH
Q 022601 209 NIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLK-YEENS-DKAVQ---------CLNDMVTNALMH 266 (294)
Q Consensus 209 niLRDi-----------~~D~~~~~~gR~YLP~d~l~~~gv~~edl~-~~~~~-~~~~~---------~i~~~~~~A~~~ 266 (294)
+=+-|+ +.|+. .|.+=+|.=..-+..-....+. .+..+ +.+.. .+.+-...+++|
T Consensus 308 DDiLD~~g~~~~~GK~~g~DL~---eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~ 384 (422)
T PLN02890 308 DDVLDFTGTSASLGKGSLSDIR---HGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREH 384 (422)
T ss_pred HHHHhhcCChhhhCCCchhhHh---cCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 888886 36787 7888787643322110111111 22211 22222 244556678999
Q ss_pred HHHHHHHHhhCCCch
Q 022601 267 VEDCLKYMSALRDHA 281 (294)
Q Consensus 267 l~~A~~~~~~lp~~~ 281 (294)
.++|.+.+..+|..+
T Consensus 385 ~~~A~~~L~~lp~s~ 399 (422)
T PLN02890 385 ANLAAAAIESLPETD 399 (422)
T ss_pred HHHHHHHHHhCCCCc
Confidence 999999999999764
No 14
>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=96.16 E-value=0.34 Score=45.60 Aligned_cols=144 Identities=19% Similarity=0.098 Sum_probs=83.7
Q ss_pred HHHHHHHHHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHH
Q 022601 136 YQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKT 208 (294)
Q Consensus 136 ~~~li~~~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQlt 208 (294)
+.+.+.+....+..|...|+.. .-.|.+++..-++.-.|++...++.+-.. .|.+. .....++.++|.|+|+.
T Consensus 134 ~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~ 213 (322)
T TIGR02749 134 VVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVV 213 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555677787766632 23466666665566566665555443221 12222 23467888999999999
Q ss_pred HHHhc-----------hhhhhhcCCCCCccccHHHHHhcCCChhhhhc-ccC-CHHHHHH---------HHHHHHHHHHH
Q 022601 209 NIIRD-----------YLEDINEIPKCRMFWPREIWSKYVNKLEDLKY-EEN-SDKAVQC---------LNDMVTNALMH 266 (294)
Q Consensus 209 niLRD-----------i~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~-~~~-~~~~~~~---------i~~~~~~A~~~ 266 (294)
+=+.| ++.|+. .|.+=+|.=..-+..-....+.. ... +..+.++ +...-..++++
T Consensus 214 DDild~~~~~~~~GK~~g~Dl~---~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~ 290 (322)
T TIGR02749 214 DDILDFTGSTEQLGKPAGSDLM---KGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQ 290 (322)
T ss_pred HHhccCCCChHhhCCChhHHHh---CCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence 88877 457888 78888885432221111111211 111 1222222 34455667889
Q ss_pred HHHHHHHHhhCCCchh
Q 022601 267 VEDCLKYMSALRDHAI 282 (294)
Q Consensus 267 l~~A~~~~~~lp~~~~ 282 (294)
.++|.+.+..+|..+.
T Consensus 291 ~~~A~~~L~~lp~~~~ 306 (322)
T TIGR02749 291 AQLALQSLSFLPPSPP 306 (322)
T ss_pred HHHHHHHHHhCCCCHH
Confidence 9999999999997643
No 15
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=95.85 E-value=0.93 Score=41.00 Aligned_cols=127 Identities=15% Similarity=0.087 Sum_probs=81.2
Q ss_pred HHHHHHHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHHHH
Q 022601 138 DAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTNI 210 (294)
Q Consensus 138 ~li~~~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQltni 210 (294)
+.+.+....+..|...|+.. ...|++++..-+..-.|+...+++.+.+. .+.+. .....++.++|.++|+.|=
T Consensus 111 ~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD 190 (259)
T cd00685 111 ELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDD 190 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555677788888842 25789999888888888876666554432 12111 2346899999999999998
Q ss_pred HhchhhhhhcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCch
Q 022601 211 IRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHA 281 (294)
Q Consensus 211 LRDi~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~ 281 (294)
+.|+-.|... .|+- ..+|+.+|+.+=.+.-++ -..++.+.++|...++.+|...
T Consensus 191 ~ld~~~~~~~--~gK~------------~~~Di~~gk~T~~~~~~l---~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 191 ILDLFGDPET--LGKP------------VGSDLREGKCTLPVLLAL---RELAREYEEKALEALKALPESP 244 (259)
T ss_pred hhcccCChHH--HCCC------------cchHHHcCCchHHHHHHH---HHHHHHHHHHHHHHHHcCCCcH
Confidence 8887544321 1221 124455555443333222 5678888899999999998754
No 16
>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=95.32 E-value=1.9 Score=40.44 Aligned_cols=142 Identities=13% Similarity=0.040 Sum_probs=86.1
Q ss_pred HHHHHHHHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHHH
Q 022601 137 QDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTN 209 (294)
Q Consensus 137 ~~li~~~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQltn 209 (294)
.+.+.+....|..|...|+.. .-.|.++..+-++.-.|++...++.+-.. +|.+. .....++.++|.|+|+.|
T Consensus 131 ~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~D 210 (319)
T TIGR02748 131 HQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITD 210 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555677787777742 24577776666677777766655544221 12222 124578899999999998
Q ss_pred HHhch-----------hhhhhcCCCCCccccHHHHHhcCCChhhh---hcccCCHHHHHH---------HHHHHHHHHHH
Q 022601 210 IIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDL---KYEENSDKAVQC---------LNDMVTNALMH 266 (294)
Q Consensus 210 iLRDi-----------~~D~~~~~~gR~YLP~d~l~~~gv~~edl---~~~~~~~~~~~~---------i~~~~~~A~~~ 266 (294)
=+.|+ +.|+. .|..=+|.=..-+..-..+.+ .....++.+..+ +..-...++.+
T Consensus 211 DilD~~~~~~~~GK~~~~Dl~---~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~ 287 (319)
T TIGR02748 211 DILDFVGTEEELGKPAGGDLL---QGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRY 287 (319)
T ss_pred HHHHccCCHHhhCCChhhHHh---CCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence 88886 47788 788888865443321111111 111122233332 23345567889
Q ss_pred HHHHHHHHhhCCCch
Q 022601 267 VEDCLKYMSALRDHA 281 (294)
Q Consensus 267 l~~A~~~~~~lp~~~ 281 (294)
.++|.+.+..+|..+
T Consensus 288 ~~~A~~~L~~lp~~~ 302 (319)
T TIGR02748 288 LKKALELLDGLPDGR 302 (319)
T ss_pred HHHHHHHHhcCCCCH
Confidence 999999999999764
No 17
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=95.10 E-value=0.55 Score=44.19 Aligned_cols=143 Identities=12% Similarity=0.070 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHhhhHHHhhhh---hhcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCCC---ChhHHHHHHHHHHHHH
Q 022601 136 YQDAIEDITKRMGAGMAKFIC---KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQKT 208 (294)
Q Consensus 136 ~~~li~~~~~~m~~g~~~Dl~---~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~~---~~~~~A~~lG~AlQlt 208 (294)
+.+.+.+....|..|...|+. ..-.|.+++..-++.-.|++..+++.+-.. +|.+.. ....++.++|.|+|+.
T Consensus 131 ~~~~~~~~~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~ 210 (323)
T PRK10888 131 VLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLI 210 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555567778877773 234688888888888888887777664432 232221 2357889999999999
Q ss_pred HHHhch-----------hhhhhcCCCCCccccHHHHHhcCCChhh---h---hcccC-CHHHHHH---------HHHHHH
Q 022601 209 NIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLED---L---KYEEN-SDKAVQC---------LNDMVT 261 (294)
Q Consensus 209 niLRDi-----------~~D~~~~~~gR~YLP~d~l~~~gv~~ed---l---~~~~~-~~~~~~~---------i~~~~~ 261 (294)
+=+.|+ +.|+. .|.+=+|.=..-+. .+.++ + ..... .+.+..+ +.+...
T Consensus 211 DD~ld~~~~~~~~GK~~g~Dl~---~gk~Tlp~l~al~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~ 286 (323)
T PRK10888 211 DDLLDYSADGETLGKNVGDDLN---EGKPTLPLLHAMHH-GTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQ 286 (323)
T ss_pred HHhhcccCChHhhCCCchhhhh---cCCchHHHHHHHHh-CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHH
Confidence 888776 67888 79988884322221 12211 1 11111 1222222 344456
Q ss_pred HHHHHHHHHHHHHhhCCCchh
Q 022601 262 NALMHVEDCLKYMSALRDHAI 282 (294)
Q Consensus 262 ~A~~~l~~A~~~~~~lp~~~~ 282 (294)
.++++.++|.+.+..+|+.+.
T Consensus 287 ~a~~~~~~A~~~L~~lp~~~~ 307 (323)
T PRK10888 287 RAEEEADKAIAALQVLPDTPW 307 (323)
T ss_pred HHHHHHHHHHHHHhcCCCCHH
Confidence 678999999999999998754
No 18
>CHL00151 preA prenyl transferase; Reviewed
Probab=95.03 E-value=1.6 Score=41.05 Aligned_cols=136 Identities=17% Similarity=0.126 Sum_probs=74.7
Q ss_pred HHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHHHHHhch-
Q 022601 143 ITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTNIIRDY- 214 (294)
Q Consensus 143 ~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQltniLRDi- 214 (294)
....+..|...+... .-.|.++...=++.-.|++..+++.+-.. .|.+. .....++.++|.|+|+.+=+.|+
T Consensus 142 ~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~ 221 (323)
T CHL00151 142 VITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDIT 221 (323)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 334455555444321 22344444443334455555544433221 12221 22468889999999999877774
Q ss_pred ----------hhhhhcCCCCCccccHHHHHhcCCChhhhh-ccc-CCHHHHHH---------HHHHHHHHHHHHHHHHHH
Q 022601 215 ----------LEDINEIPKCRMFWPREIWSKYVNKLEDLK-YEE-NSDKAVQC---------LNDMVTNALMHVEDCLKY 273 (294)
Q Consensus 215 ----------~~D~~~~~~gR~YLP~d~l~~~gv~~edl~-~~~-~~~~~~~~---------i~~~~~~A~~~l~~A~~~ 273 (294)
+.|+. .|++=+|.=..-+..-....+. ... .++.+.++ +.+.-..+++|.++|.+.
T Consensus 222 ~~~~~~GK~~g~Dl~---eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~~~~A~~~ 298 (323)
T CHL00151 222 SSTESLGKPIGSDLK---NGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQC 298 (323)
T ss_pred cChhhhCCCchhhHh---cCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHH
Confidence 56888 7888888533222110111111 111 12233333 455666789999999999
Q ss_pred HhhCCCch
Q 022601 274 MSALRDHA 281 (294)
Q Consensus 274 ~~~lp~~~ 281 (294)
+..+|.++
T Consensus 299 L~~lp~~~ 306 (323)
T CHL00151 299 LKFLPPSS 306 (323)
T ss_pred HHhCCCCH
Confidence 99999764
No 19
>PLN02857 octaprenyl-diphosphate synthase
Probab=94.92 E-value=0.6 Score=45.53 Aligned_cols=145 Identities=17% Similarity=0.142 Sum_probs=84.2
Q ss_pred hHHHHHHHHHHHhhhHHHhhhhh---hcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022601 135 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 207 (294)
Q Consensus 135 ~~~~li~~~~~~m~~g~~~Dl~~---~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQl 207 (294)
...+++.+....+..|...++.. .-.|.+++..-.++-.|++....+.+-.- +|.+. .....++.++|.|+|+
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI 306 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQV 306 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34445555556667776655532 23466666666666666665555443321 22222 1246889999999999
Q ss_pred HHHHhch-----------hhhhhcCCCCCccccHHHHHhcCCChhhhhc-cc-CCHHHHHH---------HHHHHHHHHH
Q 022601 208 TNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLKY-EE-NSDKAVQC---------LNDMVTNALM 265 (294)
Q Consensus 208 tniLRDi-----------~~D~~~~~~gR~YLP~d~l~~~gv~~edl~~-~~-~~~~~~~~---------i~~~~~~A~~ 265 (294)
.+=+.|+ +.|+. .|.+=+|.=.--+..-....+.. .. .++.+.++ +.+-.+.+++
T Consensus 307 ~DDiLD~~~~~~~~GK~~g~DL~---eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~ 383 (416)
T PLN02857 307 VDDILDFTQSTEQLGKPAGSDLA---KGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKE 383 (416)
T ss_pred HHHHHhhcCCHHHhCCCcchhhh---cCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 9887774 57888 79888885321111101111221 11 12223222 3344566888
Q ss_pred HHHHHHHHHhhCCCchh
Q 022601 266 HVEDCLKYMSALRDHAI 282 (294)
Q Consensus 266 ~l~~A~~~~~~lp~~~~ 282 (294)
+.++|.+.+..+|..+.
T Consensus 384 ~~~~A~~~L~~Lp~~~~ 400 (416)
T PLN02857 384 KADLAIQNLECLPRGAF 400 (416)
T ss_pred HHHHHHHHHHhCCCCHH
Confidence 99999999999997643
No 20
>PRK10581 geranyltranstransferase; Provisional
Probab=94.17 E-value=0.89 Score=42.31 Aligned_cols=122 Identities=17% Similarity=0.140 Sum_probs=80.2
Q ss_pred HhhhHHHhhhh--hhcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC----CChhHHHHHHHHHHHHHHHHhchhhhh
Q 022601 146 RMGAGMAKFIC--KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED----LAPDSLSNSMGLFLQKTNIIRDYLEDI 218 (294)
Q Consensus 146 ~m~~g~~~Dl~--~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~----~~~~~~A~~lG~AlQltniLRDi~~D~ 218 (294)
.|..|...|+. ....|.+++..-++.=.|++....+.+-.. +|... ....+++.++|.|+|+.+=+.|+-.|.
T Consensus 153 ~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~ 232 (299)
T PRK10581 153 GMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDT 232 (299)
T ss_pred hhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCCh
Confidence 36678777774 235678888887777777776655543321 23221 124578999999999999888875443
Q ss_pred hcCCCCCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCch
Q 022601 219 NEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHA 281 (294)
Q Consensus 219 ~~~~~gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~ 281 (294)
.. .|.- .-.|+.+|+.+-.+...+++.-..+++++++|.+.+..+|+.+
T Consensus 233 ~~--~GK~------------~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~~ 281 (299)
T PRK10581 233 AT--LGKR------------QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQS 281 (299)
T ss_pred HH--HCCC------------cchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCc
Confidence 21 1211 1145555665555555667777889999999999999998643
No 21
>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=92.78 E-value=3.6 Score=37.23 Aligned_cols=59 Identities=17% Similarity=0.174 Sum_probs=44.5
Q ss_pred cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHHHHHhchhhh
Q 022601 159 VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTNIIRDYLED 217 (294)
Q Consensus 159 ~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQltniLRDi~~D 217 (294)
-.|++++..-++.-.|++..+.+.+... .|... .....++.++|.|+|+.|=+.|+-.|
T Consensus 132 ~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 132 DPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp STSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH
T ss_pred cccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCc
Confidence 7799999999999999988887766543 22221 23458899999999999888877643
No 22
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=86.89 E-value=23 Score=33.21 Aligned_cols=139 Identities=16% Similarity=0.146 Sum_probs=83.5
Q ss_pred HHHHHHHHHhhhHHHhhhh--hhcCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHHHHH
Q 022601 138 DAIEDITKRMGAGMAKFIC--KEVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKTNII 211 (294)
Q Consensus 138 ~li~~~~~~m~~g~~~Dl~--~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~-~~~~~---~~~~~~A~~lG~AlQltniL 211 (294)
..+.+....|..|...|+. ....|.+++..=.+.-.|.+....+.+.+. ++... .....++..+|.|+|+.+=+
T Consensus 137 ~~~~~~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDi 216 (322)
T COG0142 137 KALAEAINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDI 216 (322)
T ss_pred HHHHHHHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 3444556677889989994 234777777777777677766666555432 22221 23468999999999999877
Q ss_pred hchhh-----------hhhcCCCCCccccHHHHHhcCCChhh-hhccc-CCHHHHHHHH---------HHHHHHHHHHHH
Q 022601 212 RDYLE-----------DINEIPKCRMFWPREIWSKYVNKLED-LKYEE-NSDKAVQCLN---------DMVTNALMHVED 269 (294)
Q Consensus 212 RDi~~-----------D~~~~~~gR~YLP~d~l~~~gv~~ed-l~~~~-~~~~~~~~i~---------~~~~~A~~~l~~ 269 (294)
-|+-- |+. .|.+-+|.=..-+.+-..+. +.... ....+.++.. .-...+..+.++
T Consensus 217 LD~~~d~~~lGK~~g~Dl~---~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~ 293 (322)
T COG0142 217 LDITGDEEELGKPVGSDLK---EGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVEK 293 (322)
T ss_pred hcCCCChHHhCCCcchHHH---cCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHHH
Confidence 77654 555 56677776544443332111 10000 0002222222 333458999999
Q ss_pred HHHHHhhCCC
Q 022601 270 CLKYMSALRD 279 (294)
Q Consensus 270 A~~~~~~lp~ 279 (294)
|.+.++.+|+
T Consensus 294 a~~~L~~l~~ 303 (322)
T COG0142 294 AKEALEKLPD 303 (322)
T ss_pred HHHHHHhCCC
Confidence 9999999994
No 23
>PF06330 TRI5: Trichodiene synthase (TRI5); InterPro: IPR024652 This family consists of several fungal trichodiene synthase proteins (EC:4.2.3.6). TRI5 encodes the enzyme trichodiene synthase, which has been shown to catalyse the first step in the trichothecene pathways of Fusarium and Trichothecium species [, ].; GO: 0045482 trichodiene synthase activity, 0016106 sesquiterpenoid biosynthetic process; PDB: 1YYT_A 2PS5_A 2AEL_A 1YYS_A 1YJ4_A 2Q9Y_A 2PS4_A 2AEK_B 1KIY_B 2PS7_A ....
Probab=83.25 E-value=27 Score=33.56 Aligned_cols=174 Identities=13% Similarity=0.108 Sum_probs=85.3
Q ss_pred HHHHHhcChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHHHHHHHHh
Q 022601 52 ALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLE 131 (294)
Q Consensus 52 y~a~~llP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~~~~~~~~ 131 (294)
..|-..+|.+.+-.+...+++.-.+||+.++... .+..|.+.+-. |.+..+|++..+.........
T Consensus 75 ~~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~~~-------~l~~F~~~l~~-------Gq~Q~~p~L~~~~~~L~~~~~ 140 (376)
T PF06330_consen 75 VYCYPHLPKEVQVAIAIYTTYVIIIDDSSQEPSD-------DLRTFHQRLIL-------GQPQKHPLLDGFASLLREMWR 140 (376)
T ss_dssp HHHSTTS-HHHHHHHHHHHHHHHHHTT--S-SHH-------HHTTHHHHHHH-------T---SSHHHHHHHHHHHHHHT
T ss_pred EeecCCCCHHHHHHHHHHHHHHHhcccccccccH-------HHHHHHHHHhc-------CCCCCCHHHHHHHHHHHHHHH
Confidence 4555788999999999999999999999777532 34456566643 777667888888877765543
Q ss_pred cChhH-HHHHHHHHHHhhhHH--HhhhhhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC-CChhHHHHHHHHHHHH
Q 022601 132 LGKGY-QDAIEDITKRMGAGM--AKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED-LAPDSLSNSMGLFLQK 207 (294)
Q Consensus 132 ~~~~~-~~li~~~~~~m~~g~--~~Dl~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~-~~~~~~A~~lG~AlQl 207 (294)
.-.++ ..+|-.-.-+.++|. +..-.+.++.-...-.|.+...|.-.-...-+|-..-.++ ..-..+...+......
T Consensus 141 ~fgpf~anmI~~STLdFi~g~~LE~~~f~~~p~A~~FP~fLR~ktGlsEaYA~FiFPk~~fpe~~~~~~y~~AIpdl~~f 220 (376)
T PF06330_consen 141 HFGPFCANMIVKSTLDFINGCWLEQKNFHGSPGAPDFPDFLRRKTGLSEAYAFFIFPKALFPEVEYFIQYTPAIPDLMRF 220 (376)
T ss_dssp TS-HHHHHHHHHHHHHHHHHHHHHTTT----TT-TTHHHHHHHHHH-HHHHHHHT--TTTS-TTTTHHHHHHHHHHHHHH
T ss_pred HcchHHHHHHHHHHHHHHHHHHhhcccCCCCCCCccccHHHHhccCcchhheeeecccccCChHHHHHHHHHHHHHHHHH
Confidence 33333 223321111222222 2211122333333444444444433333334553211111 2223444567777777
Q ss_pred HHHHhchh----hhh-hcCCCCC-ccccHHHHHhcCCChhhh
Q 022601 208 TNIIRDYL----EDI-NEIPKCR-MFWPREIWSKYVNKLEDL 243 (294)
Q Consensus 208 tniLRDi~----~D~-~~~~~gR-~YLP~d~l~~~gv~~edl 243 (294)
+|++-||= |-. . ..+ .|+ ...-.-+|++..+-
T Consensus 221 i~~~NDILSFYKE~l~a---~E~~NyI-~n~A~~~g~S~~ea 258 (376)
T PF06330_consen 221 INYVNDILSFYKEELVA---GETGNYI-HNRARVHGVSILEA 258 (376)
T ss_dssp HHHHHHHHHHHHHHTTS---SSSSSHH-HHHHHHHT--HHHH
T ss_pred HHhhhhHHHHHHhhccc---ccccchh-hhhhhccCCCHHHH
Confidence 77777774 322 3 233 466 55556678877653
No 24
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=81.46 E-value=39 Score=30.17 Aligned_cols=183 Identities=16% Similarity=0.022 Sum_probs=93.2
Q ss_pred HHHHHHhcChh----hhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCC-ccHHHHhhHHHH
Q 022601 51 FALVIQQLGTD----LRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTK-EYKVLMDQFHHV 125 (294)
Q Consensus 51 fy~a~~llP~~----~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~-~~~~l~~al~~~ 125 (294)
.++++...|.. .+..+.-..++.-.+||+-|+.....+ ...+.+.+..-......+.| ...|+..++.++
T Consensus 33 ~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~-----~~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~d~ 107 (284)
T cd00868 33 YFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEE-----LELFTEAVERWDISAIDELPEYMKPVFKALYDL 107 (284)
T ss_pred HHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHH-----HHHHHHHHHhcChhhhhhCCHHHHHHHHHHHHH
Confidence 36666777755 566667777788889999998653221 11122222100000010222 235677777776
Q ss_pred HHHHHhcC------hhHHHHHHHHHHHhhhHHHhhhh----hhcCCHHHHHHHHHhhhhHHH-HHHHHhhcccCCCC---
Q 022601 126 STAFLELG------KGYQDAIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLVG-LGLSKLFYASGTED--- 191 (294)
Q Consensus 126 ~~~~~~~~------~~~~~li~~~~~~m~~g~~~Dl~----~~~~t~~dL~~Y~~~vAg~Vg-~l~~~ll~~~~~~~--- 191 (294)
..+..... .....+++ .+.....++..... ..++|+++...+-..++|.-- ..+..+......+.
T Consensus 108 ~~r~~~~~~~~~~~~~~~r~~~-~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~ 186 (284)
T cd00868 108 VNEIEEELAKEGGSESLPYLKE-AWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAF 186 (284)
T ss_pred HHHHHHHHHHhcCchHHHHHHH-HHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHH
Confidence 65443221 12222332 33344445555442 247887777666666555422 22222221111111
Q ss_pred ---CChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCc-cccHHHHHhcCCChhh
Q 022601 192 ---LAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRM-FWPREIWSKYVNKLED 242 (294)
Q Consensus 192 ---~~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~-YLP~d~l~~~gv~~ed 242 (294)
+.........+...-++|=+-....... .|.. -+..=++.++|++.++
T Consensus 187 ~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~---~g~~~N~v~vl~~~~~~~~~e 238 (284)
T cd00868 187 EWLPSYPKLVRASSTIGRLLNDIASYEKEIA---RGEVANSVECYMKEYGVSEEE 238 (284)
T ss_pred HHhhhhHHHHHHHHHHHHHhccchHHHHHHc---cCCcccHHHHHHhccCCCHHH
Confidence 1223455566666777777777777776 6765 5555667777777653
No 25
>cd00686 Terpene_cyclase_cis_trans_C1 Cis, Trans, Terpene Cyclases, Class 1. This CD includes the terpenoid cyclase, trichodiene synthase, which catalyzes the cyclization of farnesyl diphosphate (FPP) to trichodiene using a cis-trans pathway, and is the first committed step in the biosynthesis of trichothecene toxins and antibiotics. As with other enzymes with the 'terpenoid synthase fold', this enzyme has two conserved metal binding motifs that coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function as homodimers and are found in several genera of fungi.
Probab=73.69 E-value=49 Score=31.51 Aligned_cols=167 Identities=13% Similarity=0.093 Sum_probs=87.8
Q ss_pred cChhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhh----HHHHHHHHHhcC
Q 022601 58 LGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQ----FHHVSTAFLELG 133 (294)
Q Consensus 58 lP~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~a----l~~~~~~~~~~~ 133 (294)
.+++...++..-|...-.+||+.++... .|..|.+.|.. |++..+|++.. |..+.+.|+-..
T Consensus 81 ~skev~~~isi~~tY~~~lDD~~~e~~~-------~m~~f~~dL~~-------G~~qkhP~l~~v~~~l~~~lr~fGpF~ 146 (357)
T cd00686 81 VSKECMADLSIHYTYTLVLDDSKDDPYP-------TMVNYFDDLQA-------GREQAHPWWALVNEHFPNVLRHFGPFC 146 (357)
T ss_pred CCHHHHHHHHHHHheeeEecccccccch-------HHHHHHHHHhc-------CCCCCCcHHHHHHHHHHHHHHHhhhhh
Confidence 7888999999999999999999998764 45667777754 77777775444 444555554222
Q ss_pred hhHHHHHHHHHHHhhhHHHhh--hhhhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC-CChhHHHHHHHHHHHHHHH
Q 022601 134 KGYQDAIEDITKRMGAGMAKF--ICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED-LAPDSLSNSMGLFLQKTNI 210 (294)
Q Consensus 134 ~~~~~li~~~~~~m~~g~~~D--l~~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~-~~~~~~A~~lG~AlQltni 210 (294)
.. .++.. .-+.++|..-. ....++.-.+.-.|.+...|.-.-...-+|-..-.+. .--.++...+...+..+|.
T Consensus 147 s~--~IikS-TLdFv~g~~iEq~nf~~~p~A~~fP~ylR~ksGl~E~yA~FiFPk~~FpE~~~~~qi~~AIp~~~~~i~~ 223 (357)
T cd00686 147 SL--NLIRS-TLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVW 223 (357)
T ss_pred HH--HHHHH-HHHHHHHHHHhhhccCCCCCCcccchHHHhccCCcceeEEEecchhhCchHhhHHHhhHHHHHHHHHHHh
Confidence 11 11211 11112222111 1123555556667777777754444444442210011 1112333355555655666
Q ss_pred Hhchh----hhhhcCCCCCccccHHHHHhcCCChhhh
Q 022601 211 IRDYL----EDINEIPKCRMFWPREIWSKYVNKLEDL 243 (294)
Q Consensus 211 LRDi~----~D~~~~~~gR~YLP~d~l~~~gv~~edl 243 (294)
+-||= |.... +.|.-+=...-.-+|+|..+-
T Consensus 224 ~NDILSFYKEe~~~--~E~~n~V~Nya~~~GiS~~eA 258 (357)
T cd00686 224 VNDLMSFYKEFDDE--RDQISLVKNYVVSDEISLHEA 258 (357)
T ss_pred hhhhhheehhhccc--ccccchHHHhhhhcCCCHHHH
Confidence 66654 33211 233433334445578876653
No 26
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=71.16 E-value=82 Score=28.65 Aligned_cols=211 Identities=13% Similarity=0.011 Sum_probs=107.1
Q ss_pred HHHHHHhcChhhhHHH---HHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccccccccCCCccHHHHhhHHHHHH
Q 022601 51 FALVIQQLGTDLRNAV---CIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVST 127 (294)
Q Consensus 51 fy~a~~llP~~~R~a~---~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~~~~~g~~~~~~l~~al~~~~~ 127 (294)
..+++++.|......+ .-+..+.-..||.-|+...+.+..........+.+.+.. ..+.....|+...+.+...
T Consensus 44 ~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~p~~~~~~d~~~ 120 (303)
T cd00687 44 GDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILRGDG---LDSPDDATPLEFGLADLWR 120 (303)
T ss_pred HHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccCCCC---CCCCCCCCHHHHHHHHHHH
Confidence 4567778774443333 345577777999999864223221222233333332210 0011233466666777766
Q ss_pred HHHhcC--hhHHHHHHHHHHHhhhHHHhhhh----hhcCCHHHHHHHHHhhhhHH-HHHHHHhhcccCCC-----CCChh
Q 022601 128 AFLELG--KGYQDAIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLV-GLGLSKLFYASGTE-----DLAPD 195 (294)
Q Consensus 128 ~~~~~~--~~~~~li~~~~~~m~~g~~~Dl~----~~~~t~~dL~~Y~~~vAg~V-g~l~~~ll~~~~~~-----~~~~~ 195 (294)
+..... .....+++. +.....++..-.. ...+|+++...+=..+.|.- ...++.+......+ .+...
T Consensus 121 r~~~~~~~~~~~r~~~~-~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~~~~~ 199 (303)
T cd00687 121 RTLARMSAEWFNRFAHY-TEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLDPVMR 199 (303)
T ss_pred HhccCCCHHHHHHHHHH-HHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhChHHH
Confidence 554332 222333332 2233345443331 24677666655555554432 22223332210011 11233
Q ss_pred HHHHHHHHHHHHHHHHhchhhhh-hcCCCCC-ccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 022601 196 SLSNSMGLFLQKTNIIRDYLEDI-NEIPKCR-MFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKY 273 (294)
Q Consensus 196 ~~A~~lG~AlQltniLRDi~~D~-~~~~~gR-~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~A~~~ 273 (294)
..-...+....++|=|-....+. . .|. .-+-.=+++++|++.++ ..+.+..+.....+.|.++.+.
T Consensus 200 ~l~~~~~~~~~l~NDl~S~~KE~~~---~g~~~N~V~vl~~~~g~s~~e---------A~~~~~~~~~~~~~~f~~~~~~ 267 (303)
T cd00687 200 ALEALASDAIALVNDIYSYEKEIKA---NGEVHNLVKVLAEEHGLSLEE---------AISVVRDMHNERITQFEELEAS 267 (303)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHh---CCccchHHHHHHHHcCCCHHH---------HHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777788888888888888 6 777 33444456677887763 3444555556666666666655
Q ss_pred HhhC
Q 022601 274 MSAL 277 (294)
Q Consensus 274 ~~~l 277 (294)
+...
T Consensus 268 l~~~ 271 (303)
T cd00687 268 LIKS 271 (303)
T ss_pred cccc
Confidence 5443
No 27
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=69.11 E-value=37 Score=32.75 Aligned_cols=90 Identities=19% Similarity=0.145 Sum_probs=58.5
Q ss_pred CChhHHHHHHHHHHHHHHHHhchh-----------hhhhcCCCCCccccH----HHHHhcC----CChhhhhcccCCHHH
Q 022601 192 LAPDSLSNSMGLFLQKTNIIRDYL-----------EDINEIPKCRMFWPR----EIWSKYV----NKLEDLKYEENSDKA 252 (294)
Q Consensus 192 ~~~~~~A~~lG~AlQltniLRDi~-----------~D~~~~~~gR~YLP~----d~l~~~g----v~~edl~~~~~~~~~ 252 (294)
+.+.++++++|.++|+++=+-|+- .|+. .|-.==|. +.-.+.+ -...+-..+....++
T Consensus 264 e~~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~---~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~ 340 (384)
T KOG0776|consen 264 EAAFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLK---AGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKA 340 (384)
T ss_pred HHHHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhh---hccccccchhhhhhChHHHHHHHHhccccchhhHHHHH
Confidence 346799999999999997666653 3555 45542222 3222221 000111123345566
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCCCchhhh
Q 022601 253 VQCLNDMVTNALMHVEDCLKYMSALRDHAIFR 284 (294)
Q Consensus 253 ~~~i~~~~~~A~~~l~~A~~~~~~lp~~~~~~ 284 (294)
...+..--..|++|-.+|.+.+..+|+.+.|+
T Consensus 341 v~~v~~a~~la~~~~~~Al~~l~~~p~s~ar~ 372 (384)
T KOG0776|consen 341 VPGVALAKYLARRHNNKALEALQSLPRSEARS 372 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCchHHH
Confidence 66888888899999999999999999987765
No 28
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=60.67 E-value=1.2e+02 Score=26.74 Aligned_cols=181 Identities=14% Similarity=-0.007 Sum_probs=93.1
Q ss_pred HHHHHhcC--hhhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHcccc-cccccCCCccHHHHhhHHHHHHH
Q 022601 52 ALVIQQLG--TDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDRE-WHFSCGTKEYKVLMDQFHHVSTA 128 (294)
Q Consensus 52 y~a~~llP--~~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~-~~~~~g~~~~~~l~~al~~~~~~ 128 (294)
.+++.+.| .+.+..+.-...+.-..||+.|+... ... ++.+.+.+..-. .....+.+..+|+..++..+..+
T Consensus 50 ~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~D~~~~--~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r 124 (270)
T PF03936_consen 50 LLAARFYPDSSDELLAAADWMAWLFIFDDFFDDGGS--AEE---LEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNR 124 (270)
T ss_dssp HHHHHHSGCGHHHHHHHHHHHHHHHHHHHHHHTTSH--HHH---HHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHH
T ss_pred hhhheeCCCcHHHHHHHHhhchheeeeeeccccccc--hHH---HHHHHHHHhcccccccccccchhHHHHHHHHHHHHH
Confidence 44555666 45666777888889999999997653 221 333444333100 00111223345666667666655
Q ss_pred HHhcC--hhHHH-----HHHHHHHHhhhHHHhhhh----hhcCCHHHHHHHHHhhhhHHHHHHHHhh--cccCCCCC---
Q 022601 129 FLELG--KGYQD-----AIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLVGLGLSKLF--YASGTEDL--- 192 (294)
Q Consensus 129 ~~~~~--~~~~~-----li~~~~~~m~~g~~~Dl~----~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll--~~~~~~~~--- 192 (294)
..... ....+ ++. .+.....+...... ..++|+++...+=..++|.--.+.+..+ +......+
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~ 203 (270)
T PF03936_consen 125 IAARMSPAQRRRDQIKRFRN-SWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEV 203 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHH
T ss_pred HHHHhhhhhcccHHhhHHHH-HHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHH
Confidence 44221 11122 222 12222334333331 3588888877777777776443333322 21000000
Q ss_pred --ChhHHHHHHHHHHHHHHHHhchhhhhhcCCCCCc--cccHHHHHhcCCChhh
Q 022601 193 --APDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRM--FWPREIWSKYVNKLED 242 (294)
Q Consensus 193 --~~~~~A~~lG~AlQltniLRDi~~D~~~~~~gR~--YLP~d~l~~~gv~~ed 242 (294)
.........+....++|=|-....+.. .|.. +++. ++..+|++.++
T Consensus 204 ~~~~~~l~~~~~~~~~l~NDl~S~~KE~~---~g~~~N~v~~-l~~~~~~s~e~ 253 (270)
T PF03936_consen 204 LEHPPMLRRLAADIIRLVNDLYSYKKEIA---RGDVHNLVVV-LMNEHGLSLEE 253 (270)
T ss_dssp HHTTHHHHHHHHHHHHHHHHHHHHHHHHH---TTSCCSHHHH-HHHHHTHHHHH
T ss_pred HHhchHHHHHHHHHHHHhcccchhhcchh---hcccccHHHH-hhhhcCCCHHH
Confidence 111255667788888888888888887 6765 4433 45555776653
No 29
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=49.01 E-value=3e+02 Score=27.79 Aligned_cols=201 Identities=14% Similarity=0.070 Sum_probs=94.3
Q ss_pred HHHHHhcCh--hhhHHHHHHHHHHhhhccccCCCCCChhhhHHHHHHHHHHHccccc-ccccCCCc-cHHHHhhHHHHHH
Q 022601 52 ALVIQQLGT--DLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHRHVYDREW-HFSCGTKE-YKVLMDQFHHVST 127 (294)
Q Consensus 52 y~a~~llP~--~~R~a~~alYAf~R~~DdI~D~~~~~~~~k~~~L~~w~~~l~~~~~-~~~~g~~~-~~~l~~al~~~~~ 127 (294)
.+++.+-|. ..|-.+.=.-.+.-.+||+=|.... .+ .++.+.+++..-.. ... +-|. ..++..++..+..
T Consensus 270 ~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt-~e----El~~ft~ai~rwd~~~~~-~lPe~mk~~~~al~~~~~ 343 (542)
T cd00684 270 AAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGT-LE----ELELFTEAVERWDISAID-QLPEYMKIVFKALLNTVN 343 (542)
T ss_pred HHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCC-HH----HHHHHHHHHHhccccchh-hccHHHHHHHHHHHHHHH
Confidence 344456563 2333444455566678888886543 22 23444444432000 011 2221 2345555554443
Q ss_pred HHH----hc-ChhHHHHHHHHHHHhhhHHHhhhh----hhcCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC-CChh--
Q 022601 128 AFL----EL-GKGYQDAIEDITKRMGAGMAKFIC----KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED-LAPD-- 195 (294)
Q Consensus 128 ~~~----~~-~~~~~~li~~~~~~m~~g~~~Dl~----~~~~t~~dL~~Y~~~vAg~Vg~l~~~ll~~~~~~~-~~~~-- 195 (294)
.+. .- .......+.+.+.....++..... ...+|++|.......++|.--.+....++- |... .+..
T Consensus 344 ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~-g~~l~~e~~e~ 422 (542)
T cd00684 344 EIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGM-GDILTEEAFEW 422 (542)
T ss_pred HHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhc-CCCCCHHHHHH
Confidence 221 10 111122233334445556655542 358888887777666655433333333332 2111 1111
Q ss_pred -----HHHHHHHHHHHHHHHHhchhhhhhcCCCCCc-cccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHHHHH
Q 022601 196 -----SLSNSMGLFLQKTNIIRDYLEDINEIPKCRM-FWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVED 269 (294)
Q Consensus 196 -----~~A~~lG~AlQltniLRDi~~D~~~~~~gR~-YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~l~~ 269 (294)
......+....+.|=+-....... +|.+ =.-.=.|.++|++.++ ..+.+..+++.+.+.+.+
T Consensus 423 ~~~~~~l~~~~~~i~rL~NDi~S~~kE~~---rGdv~n~V~~ymke~g~s~ee---------A~~~i~~~ie~~wk~ln~ 490 (542)
T cd00684 423 LESRPKLVRASSTIGRLMNDIATYEDEMK---RGDVASSIECYMKEYGVSEEE---------AREEIKKMIEDAWKELNE 490 (542)
T ss_pred HhccHHHHHHHHHHHHHhcChhhhHHHHh---cCCcccHHHHHHHhcCCCHHH---------HHHHHHHHHHHHHHHHHH
Confidence 222233333444444444445555 6763 4444467888888664 445566666666665555
Q ss_pred HH
Q 022601 270 CL 271 (294)
Q Consensus 270 A~ 271 (294)
..
T Consensus 491 e~ 492 (542)
T cd00684 491 EF 492 (542)
T ss_pred HH
Confidence 43
No 30
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=45.19 E-value=13 Score=23.39 Aligned_cols=20 Identities=35% Similarity=0.355 Sum_probs=17.8
Q ss_pred CCCccccHHHHHhcCCChhh
Q 022601 223 KCRMFWPREIWSKYVNKLED 242 (294)
Q Consensus 223 ~gR~YLP~d~l~~~gv~~ed 242 (294)
+||+.||.++.++.|+...+
T Consensus 6 kgri~iP~~~r~~l~~~~gd 25 (43)
T TIGR01439 6 KGQIVIPKEIREKLGLKEGD 25 (43)
T ss_pred CCeEEecHHHHHHcCcCCCC
Confidence 69999999999999988655
No 31
>PRK02899 adaptor protein; Provisional
Probab=38.25 E-value=45 Score=29.08 Aligned_cols=41 Identities=24% Similarity=0.190 Sum_probs=35.2
Q ss_pred CCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHHH
Q 022601 224 CRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMH 266 (294)
Q Consensus 224 gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~~ 266 (294)
=||+|-.++|+..|++.+||.. ++++..++...+.+.|..-
T Consensus 11 Irv~it~~DL~eRgi~~~dL~~--n~~k~e~lF~~mm~Ea~~e 51 (197)
T PRK02899 11 IKIFLTFDDLSERGLTKEDLWR--DAPKVHQLFRDMMQEANKE 51 (197)
T ss_pred EEEEEeHHHHHHcCCCHHHHhc--CcHHHHHHHHHHHHHhhhc
Confidence 3799999999999999999986 4588999999998888653
No 32
>PRK11508 sulfur transfer protein TusE; Provisional
Probab=28.51 E-value=1e+02 Score=24.37 Aligned_cols=41 Identities=7% Similarity=-0.092 Sum_probs=23.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhhhhhhh
Q 022601 249 SDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIP 289 (294)
Q Consensus 249 ~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~~~~~c~~p 289 (294)
+|.+|.+++.+...-...=....-+....|.+|+...|.|.
T Consensus 60 ~P~~R~l~K~~~~~~g~~k~~~kyLy~LFP~gPakqa~kiA 100 (109)
T PRK11508 60 SPAIRMLVKAMANKFGEEKGNSRYLYRLFPKGPAKQATKIA 100 (109)
T ss_pred CCcHHHHHHHHHHHhCcccccHHHHHHHCCCCHHHHHHHHc
Confidence 34566666666442211111122346678999999999875
No 33
>PRK02315 adaptor protein; Provisional
Probab=25.76 E-value=93 Score=27.83 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=34.6
Q ss_pred CCccccHHHHHhcCCChhhhhcccCCHHHHHHHHHHHHHHHH
Q 022601 224 CRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALM 265 (294)
Q Consensus 224 gR~YLP~d~l~~~gv~~edl~~~~~~~~~~~~i~~~~~~A~~ 265 (294)
=||+|-.+.|+..|++.+||.- ++++..++...+.+.|..
T Consensus 11 IRv~it~~DL~eRGi~~~dL~~--n~~k~e~fF~~mm~Ea~~ 50 (233)
T PRK02315 11 IKVFITYDDLEERGFEREDLLY--NREKIEEFFYSMMDEVDE 50 (233)
T ss_pred EEEEecHHHHHHcCCCHHHHhc--CcHHHHHHHHHHHHHhcc
Confidence 3899999999999999999984 458889999999888854
No 34
>PF04358 DsrC: DsrC like protein; InterPro: IPR007453 DsrC (P45573 from SWISSPROT) has been observed to co-purify with Desulphovibrio vulgaris dissimilatory sulphite reductase []. However, DsrC appears to be only loosely associated to the sulphite reductase, which suggests that it may not be an integral part of the dissimilatory sulphite reductase. Many proteins in this entry are found in organisms such as Escherichia coli and Haemophilus influenzae which do not contain dissimilatory sulphite reductases but can synthesise assimilatory sirohaem sulphite and nitrite reductases. It is speculated that DsrC may be involved in the assembly, folding or stabilisation of sirohaem proteins []. The strictly conserved cysteine in the C terminus suggests that DsrC may have a catalytic function in the metabolism of sulphur compounds []. Also included in this entry is TusE, a partner to TusBCD in a sulphur relay system for 2-thiouridine biosynthesis, a tRNA base modification process. Many proteins in this entry are annotated as the third (gamma) subunit of dissimilatory sulphite reductase ; PDB: 2V4J_F 2A5W_C 1SAU_A 1JI8_A 1YX3_A.
Probab=23.15 E-value=1.2e+02 Score=23.92 Aligned_cols=41 Identities=7% Similarity=-0.010 Sum_probs=22.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhhhhhhh
Q 022601 249 SDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIP 289 (294)
Q Consensus 249 ~~~~~~~i~~~~~~A~~~l~~A~~~~~~lp~~~~~~~c~~p 289 (294)
.|.+|.+++.+...-...-.....+....|.+|++..|.|.
T Consensus 60 ~P~~R~l~K~~~~~~g~~~~~~k~L~~LFP~gP~k~a~kiA 100 (109)
T PF04358_consen 60 SPAIRMLIKALGEDLGEDKGNSKYLYQLFPGGPAKQACKIA 100 (109)
T ss_dssp ---HHHHHHHHHHHCSTT---HHHHHHHSTTHHHHCHHHHH
T ss_pred CCcHHHHHHHHhhhcCCCchhHHHHHHHcCCCHHHHHHHHh
Confidence 35566666666544111111133455667988998899875
No 35
>PHA01083 hypothetical protein
Probab=21.77 E-value=3e+02 Score=23.01 Aligned_cols=62 Identities=11% Similarity=0.014 Sum_probs=47.4
Q ss_pred hhHHHHHHHHHHHHHHHHhchhhhhhcCCCC-CccccHHHHHh----cCCChhhhh-----cccCCHHHHHHHHHHHHHH
Q 022601 194 PDSLSNSMGLFLQKTNIIRDYLEDINEIPKC-RMFWPREIWSK----YVNKLEDLK-----YEENSDKAVQCLNDMVTNA 263 (294)
Q Consensus 194 ~~~~A~~lG~AlQltniLRDi~~D~~~~~~g-R~YLP~d~l~~----~gv~~edl~-----~~~~~~~~~~~i~~~~~~A 263 (294)
....|..||+-=|.+. +++ .| |.|+|.+.-.+ .|+++++.. +...+|+.+++|+..+.+.
T Consensus 19 dkqLA~~LGVs~q~IS-------~~R---~G~r~~i~de~A~~LAe~aGiDp~eall~i~aDraetp~~kalWesIaKKl 88 (149)
T PHA01083 19 YKQIAHDLGVSPQKIS-------KMR---TGVRTYISDEEAIFLAESAGIDPEIALLGCHADRNENPRAKAIWESIAKKQ 88 (149)
T ss_pred HHHHHHHhCCCHHHHH-------HHH---cCCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 4578888888888775 566 89 99999886543 689987743 3457899999999887776
Q ss_pred HH
Q 022601 264 LM 265 (294)
Q Consensus 264 ~~ 265 (294)
..
T Consensus 89 ng 90 (149)
T PHA01083 89 NG 90 (149)
T ss_pred hc
Confidence 65
No 36
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=20.27 E-value=37 Score=26.16 Aligned_cols=18 Identities=33% Similarity=0.864 Sum_probs=14.5
Q ss_pred hchhhhhhcCCCCCccccHH
Q 022601 212 RDYLEDINEIPKCRMFWPRE 231 (294)
Q Consensus 212 RDi~~D~~~~~~gR~YLP~d 231 (294)
-|+.+|+.. +||+|-|++
T Consensus 90 edvve~L~~--~g~~Y~pR~ 107 (112)
T COG5204 90 EDVVEDLEQ--HGRIYYPRT 107 (112)
T ss_pred HHHHHHHHH--hCccccCCC
Confidence 377788866 999999976
Done!