Query 022527
Match_columns 295
No_of_seqs 257 out of 1300
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:13:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022527.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022527hhsearch_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 3.7E-71 8.1E-76 526.8 26.2 245 2-249 86-336 (336)
2 KOG1459 Squalene synthetase [L 100.0 9.6E-68 2.1E-72 494.6 19.0 282 1-291 115-403 (413)
3 COG1562 ERG9 Phytoene/squalene 100.0 2.9E-37 6.4E-42 288.7 17.8 201 4-210 84-285 (288)
4 TIGR03465 HpnD squalene syntha 100.0 2.3E-36 5E-41 279.2 20.5 180 21-207 82-263 (266)
5 TIGR03464 HpnC squalene syntha 100.0 6.8E-36 1.5E-40 276.3 20.6 179 22-207 84-264 (266)
6 PLN02632 phytoene synthase 100.0 5.3E-35 1.2E-39 278.9 20.7 183 21-207 137-324 (334)
7 PF00494 SQS_PSY: Squalene/phy 100.0 2E-35 4.4E-40 271.4 16.9 192 3-199 71-267 (267)
8 cd00683 Trans_IPPS_HH Trans-Is 100.0 5.1E-35 1.1E-39 269.6 18.3 188 4-199 74-264 (265)
9 KOG4411 Phytoene/squalene synt 99.5 7.7E-13 1.7E-17 119.0 16.0 162 22-191 105-269 (292)
10 cd00867 Trans_IPPS Trans-Isopr 99.4 1.1E-12 2.5E-17 117.9 10.3 96 17-115 85-197 (236)
11 cd00385 Isoprenoid_Biosyn_C1 I 99.3 1.9E-11 4.1E-16 106.4 11.6 141 17-160 79-228 (243)
12 KOG1459 Squalene synthetase [L 98.1 1E-05 2.2E-10 77.6 8.5 117 28-153 225-345 (413)
13 cd00685 Trans_IPPS_HT Trans-Is 94.2 1.4 3E-05 40.5 13.5 130 17-163 108-244 (259)
14 PLN02890 geranyl diphosphate s 93.6 1.2 2.6E-05 44.5 12.5 143 17-162 227-398 (422)
15 PRK10888 octaprenyl diphosphat 93.6 2.7 5.8E-05 40.3 14.5 143 17-163 130-306 (323)
16 PLN02857 octaprenyl-diphosphat 93.4 1.6 3.5E-05 43.5 13.1 143 17-162 227-398 (416)
17 TIGR02749 prenyl_cyano solanes 93.4 1.5 3.2E-05 42.1 12.4 143 17-162 133-304 (322)
18 PRK10581 geranyltranstransfera 92.8 2.6 5.6E-05 40.0 13.0 129 20-162 140-280 (299)
19 TIGR02748 GerC3_HepT heptapren 92.5 2.1 4.6E-05 40.9 12.1 143 17-162 129-301 (319)
20 CHL00151 preA prenyl transfera 92.2 1 2.2E-05 43.1 9.5 140 19-162 136-305 (323)
21 PF00348 polyprenyl_synt: Poly 87.3 19 0.00041 33.1 13.5 85 17-101 103-196 (260)
22 COG0142 IspA Geranylgeranyl py 83.7 21 0.00046 34.1 12.3 145 16-160 133-302 (322)
23 KOG0776 Geranylgeranyl pyropho 50.7 1.8E+02 0.0039 28.9 10.5 85 76-163 266-369 (384)
24 PRK02899 adaptor protein; Prov 35.2 46 0.00099 29.8 3.6 41 105-147 10-50 (197)
25 TIGR01439 lp_hng_hel_AbrB loop 29.9 31 0.00066 22.2 1.2 20 105-124 6-25 (43)
26 PF08965 DUF1870: Domain of un 26.1 25 0.00054 29.2 0.3 42 5-46 45-86 (118)
27 PF14261 DUF4351: Domain of un 26.0 97 0.0021 22.3 3.3 42 8-50 17-58 (59)
28 PF14384 DUF4415: Domain of un 25.1 67 0.0015 23.2 2.4 24 5-28 37-60 (62)
29 PRK02315 adaptor protein; Prov 24.0 89 0.0019 28.6 3.5 41 105-147 10-50 (233)
30 cd00684 Terpene_cyclase_plant_ 22.3 8.5E+02 0.019 24.9 16.7 135 40-192 383-527 (542)
31 COG5204 SPT4 Transcription elo 21.8 39 0.00084 27.2 0.6 18 94-113 90-107 (112)
32 KOG0777 Geranylgeranyl pyropho 21.7 84 0.0018 29.4 2.8 55 32-89 138-197 (322)
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=3.7e-71 Score=526.77 Aligned_cols=245 Identities=63% Similarity=1.040 Sum_probs=234.8
Q ss_pred CccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccc-c--CCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCC---C
Q 022527 2 DQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKE-V--ESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL---A 75 (295)
Q Consensus 2 ~~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~-~--~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~---~ 75 (295)
++||.|+.+|+.|++.||++|.+|+++|++||++|+.+. + +|++||+.|||||||+||+|+++||+.+|.++. .
T Consensus 86 ~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~~~~~~ 165 (336)
T TIGR01559 86 DDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFEDPSLGE 165 (336)
T ss_pred HhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCCcchhh
Confidence 579999999999999999999999999999999999865 6 999999999999999999999999976543332 1
Q ss_pred hhHHHHHHHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 022527 76 PDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKY 155 (295)
Q Consensus 76 ~~~~A~slG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~y 155 (295)
..++|++||+|||+||||||++||++ +||+|||+|+|++||++.+|+.++++++++.+|+++|+.+|+.|+++|+.|
T Consensus 166 ~~~~A~~lG~aLQlTNIlRDv~ED~~---~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~al~y 242 (336)
T TIGR01559 166 SEALSNSMGLFLQKTNIIRDYLEDIN---EGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTY 242 (336)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHh---CCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999999999999999999998 899999999999999999999999999999999999999999999999999
Q ss_pred HHhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcChhhHHHHHHHHHHHhccccCCCCCCH
Q 022527 156 MSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNA 235 (295)
Q Consensus 156 l~~l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~~~v~~~f~~~~~~i~~k~~~~dp~~ 235 (295)
++.++++++|+||+||++||++||++|++|+++|+++|||||+.++.+|++++|+++|+.+|++|+++|++|++|+||||
T Consensus 243 l~~l~~~~~~~fcaip~~mAi~TL~~~~~n~~~~~~~VKi~r~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~dp~~ 322 (336)
T TIGR01559 243 LSRLRDQSIFNFCAIPQVMAIATLALCYNNPQVFQGNVKIRKGTTVKLILDSTNMPAVYDIFYRYARKIYHKIDPNDPNF 322 (336)
T ss_pred HHhCCCcchhHHHHHHHHHHHHHHHHHhcChhhcCCCceecHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCCCCCCCH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHh
Q 022527 236 TKTLSRVEAIQKAC 249 (295)
Q Consensus 236 ~~~~~~~~~i~~~~ 249 (295)
++|+++|++|+|+|
T Consensus 323 ~~~~~~~~~~~~~~ 336 (336)
T TIGR01559 323 SKTLIIISKIEQQC 336 (336)
T ss_pred HHHHHHHHHHHHhC
Confidence 99999999999997
No 2
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=100.00 E-value=9.6e-68 Score=494.62 Aligned_cols=282 Identities=55% Similarity=0.859 Sum_probs=264.2
Q ss_pred CCccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCC--ChhH
Q 022527 1 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL--APDS 78 (295)
Q Consensus 1 ~~~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~--~~~~ 78 (295)
|++|++|+.+|++|.++||++|+|||++||.||+.|+.++++|+.|++.|||||||+||.+++++|.+++.++. ...+
T Consensus 115 l~qf~~v~~ef~~L~e~Yqeviaeitk~mg~Gma~~~~~~v~ti~d~d~yChyvagLVg~glsrlf~~s~le~~~~~~e~ 194 (413)
T KOG1459|consen 115 LPQFVVVSGEFLNLGEGYQEVIAEITKRMGLGMALFIPEEVETIWDYDVYCHYVAGLVGIGLSRLFTASKLEDLLARLEQ 194 (413)
T ss_pred ccccccchHHHHHhhHHHHHHHHHHHHHHhchHHHhhHHHHhHHHHHHHHHHHHHHhhCCchHhhhhHHHHhhhhhhHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999998766663 2348
Q ss_pred HHHHHHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 022527 79 LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 158 (295)
Q Consensus 79 ~A~slG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~ 158 (295)
++++||++||+||||||+.||.. .||.|||+|+|++|..+.+|+..+++++.+..|+++|+++|+.|.++++.|++.
T Consensus 195 l~ns~glfLqktnIirdy~ed~~---d~r~Fwp~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~ 271 (413)
T KOG1459|consen 195 LSNSMGLFLQKTNIIRDYLEDPV---DGRPFWPREIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDVLTYLSK 271 (413)
T ss_pred HhcccchHHHHhHHHHHHHhccc---cCCccChHHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHHHHHHhh
Confidence 99999999999999999999999 699999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcChhhHHHHHHHHHHHhccccCCCCCC----
Q 022527 159 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPN---- 234 (295)
Q Consensus 159 l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~~~v~~~f~~~~~~i~~k~~~~dp~---- 234 (295)
++.+++|+||+|||+||++||++||+|.+||+|+||||||..+.+|.+++|+.+|+.+|+.|++.|+.|++++|||
T Consensus 272 l~~qsvfnfcaipqimai~Tlal~~nn~dvfrG~VklrkGl~~~~I~~~k~~~~v~~~f~~y~~~i~~k~d~~dpnflkl 351 (413)
T KOG1459|consen 272 LRTQSVFNFCAIPQIMAIATLALCYNNEDVFRGNVKLRKGLAVELILASKTMDKVRNIFYMYLRDIRMKFDEADPNFLKL 351 (413)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhcCHhHhccceeecCCchHHHHHhcccHHHHHHHHHHHHHHHHhhCCccCCCchhh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -HHHHHHHHHHHHHHhhhccccccccchhhccchhhhhHHHHHHHHHHHHHHHHHhhc
Q 022527 235 -ATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSST 291 (295)
Q Consensus 235 -~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (295)
..+|.+..+++.+.|.+.+.++++..+..+ +..+.+++.++|+.|+|+...
T Consensus 352 sask~~qv~esl~~~~~~~~il~n~~~~f~k------~~~v~~V~~i~al~~ay~~~v 403 (413)
T KOG1459|consen 352 SASKTEQVWESLLLYRRPDEILANRYNNFTK------RIYVGFVKKIAALPLAYAKSV 403 (413)
T ss_pred hhhhHHHHHHHHHHhhccccccccccccccc------hhHHHHHHHHHHHHHHHHHHH
Confidence 667778888999999999999988543211 555667899999999998653
No 3
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=100.00 E-value=2.9e-37 Score=288.75 Aligned_cols=201 Identities=21% Similarity=0.235 Sum_probs=184.5
Q ss_pred cchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHH
Q 022527 4 FHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNS 82 (295)
Q Consensus 4 f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~s 82 (295)
.+.|...|...-..+ .++.+++.+|++||++|+. .++.|++||+.|||+|||+||.|+++|++.+. +....+.|.+
T Consensus 84 ~~pv~~al~~~~~~~-~~~~~~~~~~~da~~~Dl~~~~y~~~~eL~~Yc~~vAg~vG~l~~~Il~~~~--~~~~~~~a~~ 160 (288)
T COG1562 84 DHPVLAALVEVARRF-GLPREAFPALIDAMRMDLDRTRYLDFEELEEYCYGVAGAVGLLLARILGPDK--DAATRAYARG 160 (288)
T ss_pred cCHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHHhhhccccCHHHHHHHHHHhHHHHHHHHHHHhCccc--chhhHHHHHH
Confidence 356777777777774 8999999999999999997 57999999999999999999999999999642 2334467788
Q ss_pred HHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q 022527 83 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 162 (295)
Q Consensus 83 lG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~ 162 (295)
+|.|+|+||||||++||.. +||+|||.|+|++||++.+|+.++++.++++.|++.++.+|+.|+.+++.+++.+|.+
T Consensus 161 lG~A~QlvNilRdv~eD~~---~GrvylP~e~l~~~g~~~~d~~~~~~~~~~~~~~~~~~~~ar~~~~~a~~~~~~lp~~ 237 (288)
T COG1562 161 LGLALQLVNILRDVGEDRR---RGRVYLPAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGR 237 (288)
T ss_pred HHHHHHHHHHHHHhHHHHh---CCcccCCHHHHHHhCCCHHHHHcccchhHHHHHHHHHHHHHHHHHHHHHHhhhhCCcc
Confidence 9999999999999999999 8999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcCh
Q 022527 163 AIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNM 210 (295)
Q Consensus 163 ~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~ 210 (295)
+.+.||++|+.++..+.....++.+||++++++++++++|+++++...
T Consensus 238 ~~~~~~~~~~~~~~~~~~i~a~~~~vl~~~~~l~~~~~~~~~~~~~~~ 285 (288)
T COG1562 238 AQLAVLAAALLYAYLLDAIEADPADVLSQRAVLPKLRKLWLLLKAWLR 285 (288)
T ss_pred ccchhhHHHHHHHHHHHHHHccchhhhccCcccCcchHHHHHHHHHHh
Confidence 999999999999999988888889999999999999999999987543
No 4
>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=2.3e-36 Score=279.18 Aligned_cols=180 Identities=22% Similarity=0.187 Sum_probs=165.4
Q ss_pred HHHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHHHHHHHHHHHHHhchHhh
Q 022527 21 AIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLED 99 (295)
Q Consensus 21 ~i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~slG~aLQltNILRD~~ED 99 (295)
+-.+.+.+|++||++|+. ++++|++||+.||++|||+||.|++++++.. +....+.|+++|.|+|+||||||++||
T Consensus 82 l~~~~~~~li~g~~~Dl~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~~a~~lG~AlqltnilRdv~eD 158 (266)
T TIGR03465 82 LPQEDFLEVIDGMEMDLEQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLEYAHHLGRALQLTNILRDVGED 158 (266)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 445678899999999997 5799999999999999999999999999743 234568999999999999999999999
Q ss_pred hhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhhhhHHHHHHHH
Q 022527 100 INEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTL 179 (295)
Q Consensus 100 ~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~~~~~fcaiP~~mAiatL 179 (295)
+. +||+|||.|+|.+||++.+|+..++.++++..++.+++++|+.|+.++..++..+|... +.++.++..++.++|
T Consensus 159 ~~---~gR~ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~-~~~~~~~~~~~~~iL 234 (266)
T TIGR03465 159 AR---RGRIYLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRA-QRAARAMAAIYRALL 234 (266)
T ss_pred Hh---CCCeecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhh-hHHHHHHHHHHHHHH
Confidence 99 89999999999999999999999999999999999999999999999999999999765 456888999999999
Q ss_pred HHHh-cCCCCCCCccccChHHHHHHHHHh
Q 022527 180 ALCY-NNIEVFRGVVKMRRGLTAKVIDRT 207 (295)
Q Consensus 180 ~~~~-~n~~Vf~~~vki~k~~~~~l~~ra 207 (295)
..+. ++++||++++++++.++.|+++++
T Consensus 235 ~~i~~~~~~~~~~r~~~~~~~k~~~~~~~ 263 (266)
T TIGR03465 235 DEIEADGFQVLRQRVSLTPLRKLWIALRT 263 (266)
T ss_pred HHHHHCCCCCCCCCCcCCHHHHHHHHHHH
Confidence 8886 678999999999999999999886
No 5
>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=6.8e-36 Score=276.33 Aligned_cols=179 Identities=17% Similarity=0.115 Sum_probs=161.5
Q ss_pred HHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHHHHHHHHHHHHHhchHhhh
Q 022527 22 IEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI 100 (295)
Q Consensus 22 i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~slG~aLQltNILRD~~ED~ 100 (295)
-.+.+.+|++||.+|+. .++.|++||+.|||+|||+||+|++++++... ......|.++|.|+|+|||+||++||+
T Consensus 84 ~~~~~~~li~~~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~---~~~~~~A~~lG~AlQltniLRDl~eD~ 160 (266)
T TIGR03464 84 PIEPFLDLLDAFRQDVVVTRYATWAELLDYCRYSANPVGRLVLDLYGASD---PENVALSDAICTALQLINFWQDVGVDY 160 (266)
T ss_pred ChHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCCC---hhHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 35677899999999997 47999999999999999999999999998542 234578999999999999999999999
Q ss_pred hhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhhhhHHHHHHHHH
Q 022527 101 NEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLA 180 (295)
Q Consensus 101 ~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~~~~~fcaiP~~mAiatL~ 180 (295)
+ +||+|||.|++.+||++.+|+..++.++++++++.+++.+|+.|+.++..+++.+|... ..++..+..++.++|.
T Consensus 161 ~---~gR~YLP~~~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~-~~~~~~~~~~y~~iL~ 236 (266)
T TIGR03464 161 R---KGRVYLPRDDLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRL-GLELALIVRGGLRILE 236 (266)
T ss_pred h---cCCccCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhh-hHHHHHHHHHHHHHHH
Confidence 9 89999999999999999999999999999999999999999999999999999999765 3444667677888888
Q ss_pred HHh-cCCCCCCCccccChHHHHHHHHHh
Q 022527 181 LCY-NNIEVFRGVVKMRRGLTAKVIDRT 207 (295)
Q Consensus 181 ~~~-~n~~Vf~~~vki~k~~~~~l~~ra 207 (295)
.+. ++++||++++.+++.++.|+++++
T Consensus 237 ~l~~~~~~~~~~r~~~~~~~kl~~~~~a 264 (266)
T TIGR03464 237 KIERQGYDVLRERPKLGKFDWAGLLLRA 264 (266)
T ss_pred HHHHcCCCCCCCCCcCCHHHHHHHHHHH
Confidence 776 789999999999999999999886
No 6
>PLN02632 phytoene synthase
Probab=100.00 E-value=5.3e-35 Score=278.88 Aligned_cols=183 Identities=20% Similarity=0.185 Sum_probs=161.8
Q ss_pred HHHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC---CChhHHHHHHHHHHHHHHHHhch
Q 022527 21 AIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED---LAPDSLSNSMGLFLQKTNIIRDY 96 (295)
Q Consensus 21 ~i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~---~~~~~~A~slG~aLQltNILRD~ 96 (295)
+-.+.+.+|++||++|+. .+++|++||+.|||+|||+||+|++++++...... ....+.|.++|.|+|+|||+||+
T Consensus 137 L~~~~~~~li~g~~~Dl~~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv 216 (334)
T PLN02632 137 LDIQPFRDMIEGMRMDLVKSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAALALGIANQLTNILRDV 216 (334)
T ss_pred CChHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667899999999997 57999999999999999999999999998642101 12357899999999999999999
Q ss_pred HhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhhhhHHHHH
Q 022527 97 LEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAI 176 (295)
Q Consensus 97 ~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~~~~~fcaiP~~mAi 176 (295)
+||++ +||+|||.|+|.+||++.+|+..+..++++..++.+++.+|+.||.+++.++..+|..+. .++.++..+..
T Consensus 217 ~eD~~---~GRvYLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r-~~v~~a~~~y~ 292 (334)
T PLN02632 217 GEDAR---RGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASR-WPVWASLLLYR 292 (334)
T ss_pred HHHHh---CCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhH-HHHHHHHHHHH
Confidence 99998 999999999999999999999999999999999999999999999999999999998762 34566777788
Q ss_pred HHHHHHh-cCCCCCCCccccChHHHHHHHHHh
Q 022527 177 GTLALCY-NNIEVFRGVVKMRRGLTAKVIDRT 207 (295)
Q Consensus 177 atL~~~~-~n~~Vf~~~vki~k~~~~~l~~ra 207 (295)
+.|..+. +|+++|++++.++++++.|+++++
T Consensus 293 ~iL~~i~~~~~~v~~~R~~l~~~~Kl~~~~~~ 324 (334)
T PLN02632 293 QILDAIEANDYDNFTKRAYVGKWKKLLALPLA 324 (334)
T ss_pred HHHHHHHHcCCCcCCCCCccCHHHHHHHHHHH
Confidence 8887776 789999999999999999999766
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=2e-35 Score=271.39 Aligned_cols=192 Identities=27% Similarity=0.345 Sum_probs=160.2
Q ss_pred ccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHH
Q 022527 3 QFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSN 81 (295)
Q Consensus 3 ~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~ 81 (295)
..+.|..+|..+...++ +..+.+.+|++||++|+. ++++|++||+.||++|||+||.+++++++... ++....+.|+
T Consensus 71 ~~~pv~~~l~~~~~~~~-l~~~~l~~li~~~~~dl~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~-~~~~~~~~a~ 148 (267)
T PF00494_consen 71 PSHPVARALADLVRRYG-LPREPLLELIDGMEMDLEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHD-PDEAARDAAR 148 (267)
T ss_dssp SHHHHHHHHHHHHCCSH-HHHHHHHHHHHHHHHCTT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST-SHHHHHHHHH
T ss_pred CcCHHHHHHHHHHHHHh-hhHHHHHHHHHHhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc-chhhHHHHHH
Confidence 45778899999988886 999999999999999998 68999999999999999999999999998631 1123568999
Q ss_pred HHHHHHHHHHHHhchHhh-hhhCCCCCccccHHHHHhccCChhhhhccc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 022527 82 SMGLFLQKTNIIRDYLED-INEIPKCRMFWPREIWSKYVNKLEDLKYEE-NSDKAVQCLNDMVTNALMHVEDCLKYMSAL 159 (295)
Q Consensus 82 slG~aLQltNILRD~~ED-~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~-~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l 159 (295)
++|.|+|+||||||++|| +. +||+|||.|+|.+||++++|+..+. .+++++.++.+++.+|+.|+.+++.+++.+
T Consensus 149 ~lG~alql~nilRd~~~D~~~---~gR~ylP~d~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l 225 (267)
T PF00494_consen 149 ALGRALQLTNILRDIPEDALR---RGRIYLPLDDLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSAL 225 (267)
T ss_dssp HHHHHHHHHHHHHTHHHH-HH---TT---S-HHHHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS
T ss_pred HHHHHHHHHHHHHHhHHHHHh---cccccCCchhHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 999999999999999999 78 8999999999999999999999876 788899999999999999999999999999
Q ss_pred hhhhhhhhhhhhHHHHHHHHHHHh-cCCC-CCCCccccChHH
Q 022527 160 RDHAIFRFCAIPQIMAIGTLALCY-NNIE-VFRGVVKMRRGL 199 (295)
Q Consensus 160 ~~~~~~~fcaiP~~mAiatL~~~~-~n~~-Vf~~~vki~k~~ 199 (295)
|+...+.+|++|..++.++|..+. ++++ ||+++++++|++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~v~~~r~~~~~~r 267 (267)
T PF00494_consen 226 PPPRARPAVAAAAALYRAILDKLERNGYDPVFQRRVKVSKWR 267 (267)
T ss_dssp --TTHHHHHHHHHHHHHHHHHHHHHTTT--GSSS-----HH-
T ss_pred CCHhhhHHHHHHHHHHHHHHHHHHcCCCcccCCCCCcCCCCC
Confidence 656566788999999999998887 7788 889999999975
No 8
>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=5.1e-35 Score=269.56 Aligned_cols=188 Identities=34% Similarity=0.476 Sum_probs=165.6
Q ss_pred cchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHH
Q 022527 4 FHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNS 82 (295)
Q Consensus 4 f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~s 82 (295)
.+.|...+..+.+.+ .+..+.+.+|++||++|+. .+++|++||+.||++|||+||+|++++++.+ .+....+.|.+
T Consensus 74 ~~pv~~al~~~~~~~-~l~~~~~~~li~g~~~Dl~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~~A~~ 150 (265)
T cd00683 74 THPVLRALADLARRY-GIPREPFRDLLAGMAMDLDKRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALERARA 150 (265)
T ss_pred CChHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHHHHHH
Confidence 456777777777744 7888999999999999998 4799999999999999999999999999852 12345689999
Q ss_pred HHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q 022527 83 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 162 (295)
Q Consensus 83 lG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~ 162 (295)
+|.|+|+||||||++||++ +||+|||.|+|.+||++.+|+..++.++++++++.+++.+|+.|+..+..+++.+|..
T Consensus 151 lG~AlqltnilRdv~eD~~---~gR~YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~ 227 (265)
T cd00683 151 LGLALQLTNILRDVGEDAR---RGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRR 227 (265)
T ss_pred HHHHHHHHHHHHHHHHHHc---cCCCcCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHh
Confidence 9999999999999999998 9999999999999999999999999999999999999999999999999999999977
Q ss_pred hhhhhhhhhHHHH-HHHHHHHh-cCCCCCCCccccChHH
Q 022527 163 AIFRFCAIPQIMA-IGTLALCY-NNIEVFRGVVKMRRGL 199 (295)
Q Consensus 163 ~~~~fcaiP~~mA-iatL~~~~-~n~~Vf~~~vki~k~~ 199 (295)
. ++|++|...+ ...+..+. +++++|++++.+++.+
T Consensus 228 ~--~~~~~~~~~~y~~il~~i~~~~~~~~~~r~~~~~~~ 264 (265)
T cd00683 228 S--RFCVRAAAMLYRTILDEIEARGYDVLSVRVRVPKAR 264 (265)
T ss_pred h--HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
Confidence 6 7888887766 44454554 7889999999988764
No 9
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism]
Probab=99.50 E-value=7.7e-13 Score=119.01 Aligned_cols=162 Identities=15% Similarity=0.114 Sum_probs=124.6
Q ss_pred HHHHHHHHHHHHHHhhc-cccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCCChhHHHHHHHHHHHHHHHHhchHhhh
Q 022527 22 IEDITKRMGAGMAKFIC-KEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI 100 (295)
Q Consensus 22 i~di~~~m~~GMa~dl~-~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~~~~~~A~slG~aLQltNILRD~~ED~ 100 (295)
-+++.++..+.=..+.- +.++++.||++|...+-|++-.+.....| ..++.+++.|.|+|.|..++|.||.++-..
T Consensus 105 nk~~L~rlV~aR~r~~~d~~fesI~eLeeY~e~TissLL~l~l~agg---~~~~~AdhaAshlGkA~gia~llrs~p~~~ 181 (292)
T KOG4411|consen 105 NKDMLLRLVEARQRTIGDRQFESINELEEYGESTISSLLCLQLDAGG---KVLPMADHAASHLGKAYGIANLLRSTPPLL 181 (292)
T ss_pred CHHHHHHHHHHhhcCCcccchHHHHHHHHHHHhHHHHHHHHHHHhcC---ccccchHHHHHHHhHHHHHHHHHHhccHHH
Confidence 34455555555444442 35888999988888876666555554444 345667899999999999999999999999
Q ss_pred hhCCCCCccccHHHHHhccCChhhhh-cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhhhhHHHHHHHH
Q 022527 101 NEIPKCRMFWPREIWSKYVNKLEDLK-YEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTL 179 (295)
Q Consensus 101 ~e~~~GR~ylP~e~l~k~g~~~~dl~-~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~~~~~fcaiP~~mAiatL 179 (295)
. +|.+|+|.|++..||++..|+. +....+....|+.+++..|-.|+.+|+..+..+|.+. ++.++..+-.-..|
T Consensus 182 ~---r~~~~iPadv~~lhGvtq~~il~~k~~~~g~~~~~fd~as~an~hL~~AR~l~~kVP~~v--rp~ll~tv~td~~l 256 (292)
T KOG4411|consen 182 A---RGIVLIPADVMSLHGVTQLDILYKKKKLDGMVGMTFDLASEANRHLIDARSLIEKVPKAV--RPALLATVTTDYIL 256 (292)
T ss_pred h---CCCccccHHHHHHcCCCHHHHHhhccchhhhhhHHHHHHHHHHHHHHHHHhHhhhCCHHH--HHHHHHhhhHHHHH
Confidence 9 8999999999999999996654 5567889999999999999999999999999999886 44333333333334
Q ss_pred HHHh-cCCCCCCC
Q 022527 180 ALCY-NNIEVFRG 191 (295)
Q Consensus 180 ~~~~-~n~~Vf~~ 191 (295)
+.+. +|+++|++
T Consensus 257 ~~l~k~nfdi~~p 269 (292)
T KOG4411|consen 257 KTLEKNNFDIYSP 269 (292)
T ss_pred HHHHHccccccCH
Confidence 4444 89999986
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=99.41 E-value=1.1e-12 Score=117.86 Aligned_cols=96 Identities=29% Similarity=0.348 Sum_probs=80.5
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHh-hhhHHHHHHHHhhcccCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYY-VAGLVGLGLSKLFYASGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~-VAG~VG~ll~~l~~~~~~~~---~~~~~~A~slG~aLQl 89 (295)
...+++.+.+.+|+.|+..|+... +.|+++|..||++ ||+++|.++..+....+.+. ....+.+.++|.|+|+
T Consensus 85 ~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi 164 (236)
T cd00867 85 RALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQL 164 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 356788899999999999999743 8899999999999 99999998887765443211 2234889999999999
Q ss_pred HHHHhchHhhh----------hhCCCCCccccHHHH
Q 022527 90 TNIIRDYLEDI----------NEIPKCRMFWPREIW 115 (295)
Q Consensus 90 tNILRD~~ED~----------~e~~~GR~ylP~e~l 115 (295)
+|++||+.+|. . .||+|||.+.+
T Consensus 165 ~dd~~D~~~d~~~~gk~~~D~~---~gr~tlp~~~~ 197 (236)
T cd00867 165 TDDLLDVFGDAEELGKVGSDLR---EGRITLPVILA 197 (236)
T ss_pred HHHhccccCChHHHCccHHHHH---cCCchHHHHHH
Confidence 99999999888 6 79999999976
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=99.31 E-value=1.9e-11 Score=106.42 Aligned_cols=141 Identities=25% Similarity=0.235 Sum_probs=118.9
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHhh-hhHHHHHHHHhhcccCCC---CCChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYYV-AGLVGLGLSKLFYASGTE---DLAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~V-AG~VG~ll~~l~~~~~~~---~~~~~~~A~slG~aLQl 89 (295)
..++.+.+.+.+++.|+..++... ++|++||..||+++ ++++|.++....+..+.+ ......++.++|.++|+
T Consensus 79 ~~~~~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql 158 (243)
T cd00385 79 EALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQL 158 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Confidence 347888899999999999999753 89999999999999 888888877666543221 12234788999999999
Q ss_pred HHHHhchHhhhhhCCC--CCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Q 022527 90 TNIIRDYLEDINEIPK--CRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALR 160 (295)
Q Consensus 90 tNILRD~~ED~~e~~~--GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~ 160 (295)
+|.++|+..|.. . ||+++|...+.++|.+.+++.....++....+++.+...+..++.+.......++
T Consensus 159 ~nDl~~~~~e~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 159 TNDLLDYEGDAE---RGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHHHhccCCHH---HhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 999999999999 5 8999999999999999999988888888889999999888888888877666554
No 12
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism]
Probab=98.11 E-value=1e-05 Score=77.55 Aligned_cols=117 Identities=12% Similarity=-0.040 Sum_probs=94.8
Q ss_pred HHHHHHHHh-hcc-ccCCHHHHHHHHHhhhhHHHHHHHHhhcc--cCCCCCChhHHHHHHHHHHHHHHHHhchHhhhhhC
Q 022527 28 RMGAGMAKF-ICK-EVESIDDYDEYCYYVAGLVGLGLSKLFYA--SGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEI 103 (295)
Q Consensus 28 ~m~~GMa~d-l~~-~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~--~~~~~~~~~~~A~slG~aLQltNILRD~~ED~~e~ 103 (295)
+|+-||.+| +.+ .++..+|+-.||.++++++|.+-....-. ++..+......+--.|.+-|.||++++..||..
T Consensus 225 ~eIwg~y~d~L~d~~~~en~dl~l~Cln~m~tnaL~hv~d~l~yls~l~~qsvfnfcaipqimai~Tlal~~nn~dvf-- 302 (413)
T KOG1459|consen 225 REIWGKYMDKLKDFRYPENDDLALQCLNEMVTNALMHVPDVLTYLSKLRTQSVFNFCAIPQIMAIATLALCYNNEDVF-- 302 (413)
T ss_pred HHHHHHHHHHHHhhhCccchhHHHHHHHHHHHHHhhccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCHhHh--
Confidence 899999999 543 69999999999999999999886554421 222333444677788999999999999999999
Q ss_pred CCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHH
Q 022527 104 PKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCL 153 (295)
Q Consensus 104 ~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~ 153 (295)
+|++++|+ |.+.+++.++.+.++++..+.....++...++++.
T Consensus 303 -rG~Vklrk------Gl~~~~I~~~k~~~~v~~~f~~y~~~i~~k~d~~d 345 (413)
T KOG1459|consen 303 -RGNVKLRK------GLAVELILASKTMDKVRNIFYMYLRDIRMKFDEAD 345 (413)
T ss_pred -ccceeecC------CchHHHHHhcccHHHHHHHHHHHHHHHHhhCCccC
Confidence 99999999 88999999999999998888777777666555444
No 13
>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=94.23 E-value=1.4 Score=40.52 Aligned_cols=130 Identities=15% Similarity=0.082 Sum_probs=84.2
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQl 89 (295)
...+.+.+....|..|...|+... ..|+++|..-+.+=.|....+++.+.+. .+.+. ....+.+.++|.++|+
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi 187 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQI 187 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 445667777888999999998643 5789999888877777666655554332 11111 1234789999999999
Q ss_pred HHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhh
Q 022527 90 TNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHA 163 (295)
Q Consensus 90 tNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~~ 163 (295)
.|=+.|+..|-.+ .|+- ..+|+.+++.+=.+.-++ -..+..+.+++...++.++...
T Consensus 188 ~DD~ld~~~~~~~--~gK~------------~~~Di~~gk~T~~~~~~l---~~~~~~~~~~a~~~l~~~~~~~ 244 (259)
T cd00685 188 QDDILDLFGDPET--LGKP------------VGSDLREGKCTLPVLLAL---RELAREYEEKALEALKALPESP 244 (259)
T ss_pred HHHhhcccCChHH--HCCC------------cchHHHcCCchHHHHHHH---HHHHHHHHHHHHHHHHcCCCcH
Confidence 9988887554431 1221 124666665543333333 5667778888888888887653
No 14
>PLN02890 geranyl diphosphate synthase
Probab=93.61 E-value=1.2 Score=44.50 Aligned_cols=143 Identities=14% Similarity=0.112 Sum_probs=83.4
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQl 89 (295)
..-+.+.+.+..|..|-..++... -.|+++|..-.++=.|......+.+-.. +|.+. .....++.++|+|+|+
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI 306 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQL 306 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 345667777888999998888643 3477777765555444444444433211 12111 1123778999999999
Q ss_pred HHHHhchH-----------hhhhhCCCCCccccHHHHHhccCChhhhhc-ccCC-HHHHH---------HHHHHHHHHHH
Q 022527 90 TNIIRDYL-----------EDINEIPKCRMFWPREIWSKYVNKLEDLKY-EENS-DKAVQ---------CLNDMVTNALM 147 (295)
Q Consensus 90 tNILRD~~-----------ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~-~~~~-~~~~~---------~l~~lv~~A~~ 147 (295)
.+=+-|+- .|+. .|..-||.=..-+.......+.. +..+ +.+.. .+..-...|.+
T Consensus 307 ~DDiLD~~g~~~~~GK~~g~DL~---eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~ 383 (422)
T PLN02890 307 IDDVLDFTGTSASLGKGSLSDIR---HGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELARE 383 (422)
T ss_pred HHHHHhhcCChhhhCCCchhhHh---cCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 99998874 6677 58887886332221111111111 1111 11111 23344455788
Q ss_pred HHHHHHHHHHhchhh
Q 022527 148 HVEDCLKYMSALRDH 162 (295)
Q Consensus 148 hl~~a~~yl~~l~~~ 162 (295)
|.++|...+..+|+.
T Consensus 384 ~~~~A~~~L~~lp~s 398 (422)
T PLN02890 384 HANLAAAAIESLPET 398 (422)
T ss_pred HHHHHHHHHHhCCCC
Confidence 888888888888765
No 15
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=93.55 E-value=2.7 Score=40.32 Aligned_cols=143 Identities=12% Similarity=0.056 Sum_probs=85.6
Q ss_pred hhhhHHHHHHHHHHHHHHHhhcc---ccCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~---~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQl 89 (295)
..-+++.+.+..|..|-..++.. .-.|.++|..-+.+=.|......+.+-.. +|.+. .....++.++|.|+|+
T Consensus 130 ~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi 209 (323)
T PRK10888 130 KVLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQL 209 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34556777778889999888753 34588888776666666666655544321 22211 1123788999999999
Q ss_pred HHHHhch-----------HhhhhhCCCCCccccHHHHHhccCChh------hhhcccCC-HHHHHH---------HHHHH
Q 022527 90 TNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLE------DLKYEENS-DKAVQC---------LNDMV 142 (295)
Q Consensus 90 tNILRD~-----------~ED~~e~~~GR~ylP~e~l~k~g~~~~------dl~~~~~~-~~~~~~---------l~~lv 142 (295)
.+=+-|+ +.|+. .|..-||.=..-+.+ +.+ .+...... +....+ +....
T Consensus 210 ~DD~ld~~~~~~~~GK~~g~Dl~---~gk~Tlp~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~ 285 (323)
T PRK10888 210 IDDLLDYSADGETLGKNVGDDLN---EGKPTLPLLHAMHHG-TPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTR 285 (323)
T ss_pred HHHhhcccCChHhhCCCchhhhh---cCCchHHHHHHHHhC-CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHH
Confidence 9988887 57787 588888853222211 111 11111111 122222 23334
Q ss_pred HHHHHHHHHHHHHHHhchhhh
Q 022527 143 TNALMHVEDCLKYMSALRDHA 163 (295)
Q Consensus 143 ~~A~~hl~~a~~yl~~l~~~~ 163 (295)
..|.+|.++|...+..+|+..
T Consensus 286 ~~a~~~~~~A~~~L~~lp~~~ 306 (323)
T PRK10888 286 QRAEEEADKAIAALQVLPDTP 306 (323)
T ss_pred HHHHHHHHHHHHHHhcCCCCH
Confidence 456778888888888887653
No 16
>PLN02857 octaprenyl-diphosphate synthase
Probab=93.44 E-value=1.6 Score=43.50 Aligned_cols=143 Identities=15% Similarity=0.128 Sum_probs=79.3
Q ss_pred hhhhHHHHHHHHHHHHHHHhhcc---ccCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICK---EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~---~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQl 89 (295)
...+++.+.+.+|..|.-.++.. .-.|.++|..-.++=.|......+.+-.. +|.+. .....++.++|+|+|+
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 44667777888888897665542 23477777665555444444444333211 12111 1234788999999999
Q ss_pred HHHHhch-----------HhhhhhCCCCCccccHHHHHhccCChhhhhcc-c-CCHHHHHH---------HHHHHHHHHH
Q 022527 90 TNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLKYE-E-NSDKAVQC---------LNDMVTNALM 147 (295)
Q Consensus 90 tNILRD~-----------~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~-~-~~~~~~~~---------l~~lv~~A~~ 147 (295)
.+=+.|+ +.|+. .|..-||.=..-+......++... . ..+.+.++ +..-...|.+
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 9888886 46787 588888852211111111111111 1 11112222 2333344667
Q ss_pred HHHHHHHHHHhchhh
Q 022527 148 HVEDCLKYMSALRDH 162 (295)
Q Consensus 148 hl~~a~~yl~~l~~~ 162 (295)
+.++|++.+..+|+.
T Consensus 384 ~~~~A~~~L~~Lp~~ 398 (416)
T PLN02857 384 KADLAIQNLECLPRG 398 (416)
T ss_pred HHHHHHHHHHhCCCC
Confidence 777777777777754
No 17
>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=93.41 E-value=1.5 Score=42.07 Aligned_cols=143 Identities=20% Similarity=0.123 Sum_probs=78.1
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQl 89 (295)
..-+.+.+....|+.|...++... -.|.++|..-..+=.|......+.+-.. +|.++ ....+++.++|.|+|+
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi 212 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQV 212 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 345667777788999987776532 3477777654444334443333332211 12111 1233788899999999
Q ss_pred HHHHhch-----------HhhhhhCCCCCccccHHHHHhccCChhhhhc-ccCC-HHHHHH---------HHHHHHHHHH
Q 022527 90 TNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLKY-EENS-DKAVQC---------LNDMVTNALM 147 (295)
Q Consensus 90 tNILRD~-----------~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~-~~~~-~~~~~~---------l~~lv~~A~~ 147 (295)
.+=+.|+ +.|+. .|..-||.=..-+.......+.. ...+ ....++ +...-..+.+
T Consensus 213 ~DDild~~~~~~~~GK~~g~Dl~---~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~ 289 (322)
T TIGR02749 213 VDDILDFTGSTEQLGKPAGSDLM---KGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKE 289 (322)
T ss_pred HHHhccCCCChHhhCCChhHHHh---CCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHH
Confidence 9988884 57788 58888886322221111111111 1111 111111 2333444666
Q ss_pred HHHHHHHHHHhchhh
Q 022527 148 HVEDCLKYMSALRDH 162 (295)
Q Consensus 148 hl~~a~~yl~~l~~~ 162 (295)
+.++|...+..+|+.
T Consensus 290 ~~~~A~~~L~~lp~~ 304 (322)
T TIGR02749 290 QAQLALQSLSFLPPS 304 (322)
T ss_pred HHHHHHHHHHhCCCC
Confidence 777777777777654
No 18
>PRK10581 geranyltranstransferase; Provisional
Probab=92.81 E-value=2.6 Score=40.01 Aligned_cols=129 Identities=18% Similarity=0.167 Sum_probs=81.2
Q ss_pred hHHHHHHH-----HHHHHHHHhhcc--ccCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC----CChhHHHHHHHHHH
Q 022527 20 DAIEDITK-----RMGAGMAKFICK--EVESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED----LAPDSLSNSMGLFL 87 (295)
Q Consensus 20 ~~i~di~~-----~m~~GMa~dl~~--~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~----~~~~~~A~slG~aL 87 (295)
+++..+.. .|..|...|+.. ...|.++|..-+++=.|......+.+-.. +|.++ ....+++.++|.|+
T Consensus 140 ~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aF 219 (299)
T PRK10581 140 SMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAF 219 (299)
T ss_pred HHHHHHHHhcccchhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHH
Confidence 45655544 588888888753 24578888766654444444444333211 12111 11236889999999
Q ss_pred HHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q 022527 88 QKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 162 (295)
Q Consensus 88 QltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~l~~~ 162 (295)
|+.+=+.|+..|-. .++|- .-+|+.+++.+-.....+...-..+.++.++|...+..+|..
T Consensus 220 QI~DDilD~~g~~~------------~~GK~--~g~Dl~~gk~T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~ 280 (299)
T PRK10581 220 QVQDDILDVVGDTA------------TLGKR--QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQ 280 (299)
T ss_pred HHHHHHccccCChH------------HHCCC--cchhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 99988888754443 23331 115666666666666666777778889999999999988754
No 19
>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=92.49 E-value=2.1 Score=40.86 Aligned_cols=143 Identities=13% Similarity=0.063 Sum_probs=81.8
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCCC---ChhHHHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAKFICKE---VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTEDL---APDSLSNSMGLFLQK 89 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~~---~~~~~A~slG~aLQl 89 (295)
...+.+.+.+..|+.|-..++... -.|.++|..-++.=.|......+.+-.. +|.++. ....++.++|+|+|+
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI 208 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQI 208 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 445677888889999988887532 3477887666665555554444433211 121111 123688999999999
Q ss_pred HHHHhchH-----------hhhhhCCCCCccccHHHHHhccCChh---hhhcccCCHHHHHHH---------HHHHHHHH
Q 022527 90 TNIIRDYL-----------EDINEIPKCRMFWPREIWSKYVNKLE---DLKYEENSDKAVQCL---------NDMVTNAL 146 (295)
Q Consensus 90 tNILRD~~-----------ED~~e~~~GR~ylP~e~l~k~g~~~~---dl~~~~~~~~~~~~l---------~~lv~~A~ 146 (295)
.|=+.|+- .|+. .|..-||.=..-+.....+ .+......+....++ ..-...+.
T Consensus 209 ~DDilD~~~~~~~~GK~~~~Dl~---~gk~Tlp~l~al~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~ 285 (319)
T TIGR02748 209 TDDILDFVGTEEELGKPAGGDLL---QGNVTLPVLYAMEDPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSD 285 (319)
T ss_pred HHHHHHccCCHHhhCCChhhHHh---CCCchHHHHHHhcCcchhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence 99998874 6777 5888888743332111111 111111112222222 22333456
Q ss_pred HHHHHHHHHHHhchhh
Q 022527 147 MHVEDCLKYMSALRDH 162 (295)
Q Consensus 147 ~hl~~a~~yl~~l~~~ 162 (295)
.+..+|++.+..+|..
T Consensus 286 ~~~~~A~~~L~~lp~~ 301 (319)
T TIGR02748 286 RYLKKALELLDGLPDG 301 (319)
T ss_pred HHHHHHHHHHhcCCCC
Confidence 6777777777777654
No 20
>CHL00151 preA prenyl transferase; Reviewed
Probab=92.16 E-value=1 Score=43.10 Aligned_cols=140 Identities=19% Similarity=0.121 Sum_probs=73.2
Q ss_pred hhHHHHHHHHHHHHHHHhhccc---cCCHHHHHHH-HHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHHHHH
Q 022527 19 QDAIEDITKRMGAGMAKFICKE---VESIDDYDEY-CYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFLQKT 90 (295)
Q Consensus 19 ~~~i~di~~~m~~GMa~dl~~~---~~T~~dLd~Y-c~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aLQlt 90 (295)
-+.+.+....|..|-..+.... -.|.++|..= -+-+|.. ....+.+-.. +|.+. .....++.++|.|+|+.
T Consensus 136 ~~~~~~~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L-~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~ 214 (323)
T CHL00151 136 VKLISKVITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASL-IAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQII 214 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666776765554322 2355555442 2333333 3333222111 12111 12347888999999999
Q ss_pred HHHhch-----------HhhhhhCCCCCccccHHHHHhccCChhhhhc-ccC-CHHHHHH---------HHHHHHHHHHH
Q 022527 91 NIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKLEDLKY-EEN-SDKAVQC---------LNDMVTNALMH 148 (295)
Q Consensus 91 NILRD~-----------~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~-~~~-~~~~~~~---------l~~lv~~A~~h 148 (295)
+=+-|+ +.|+. .|..-||.=..-+.......+.. ... .+...++ +.+....+.+|
T Consensus 215 DDilD~~~~~~~~GK~~g~Dl~---eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~ 291 (323)
T CHL00151 215 DDVLDITSSTESLGKPIGSDLK---NGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEH 291 (323)
T ss_pred HHHhhcccChhhhCCCchhhHh---cCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence 888885 56888 58888885322111111111111 111 1122222 34455567888
Q ss_pred HHHHHHHHHhchhh
Q 022527 149 VEDCLKYMSALRDH 162 (295)
Q Consensus 149 l~~a~~yl~~l~~~ 162 (295)
.++|...+..+|..
T Consensus 292 ~~~A~~~L~~lp~~ 305 (323)
T CHL00151 292 MQAAIQCLKFLPPS 305 (323)
T ss_pred HHHHHHHHHhCCCC
Confidence 88888888888764
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=87.31 E-value=19 Score=33.06 Aligned_cols=85 Identities=15% Similarity=0.126 Sum_probs=56.7
Q ss_pred hhhhHHHHHHHHHHHHHHH---hhccc--cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCCC---CChhHHHHHHHHHH
Q 022527 17 GYQDAIEDITKRMGAGMAK---FICKE--VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTED---LAPDSLSNSMGLFL 87 (295)
Q Consensus 17 ~~~~~i~di~~~m~~GMa~---dl~~~--~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~~---~~~~~~A~slG~aL 87 (295)
....++..+...++.|+.. |+... ..|+++|..-+++=.|....+.+++-.. ++.+. .....++.++|+++
T Consensus 103 ~~~~i~~~~~~~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~af 182 (260)
T PF00348_consen 103 RVLRILELFIEALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAF 182 (260)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHH
Confidence 3456666666666666554 44333 6799999888888888877777666433 22111 12337889999999
Q ss_pred HHHHHHhchHhhhh
Q 022527 88 QKTNIIRDYLEDIN 101 (295)
Q Consensus 88 QltNILRD~~ED~~ 101 (295)
|+.|=+.|+..|-.
T Consensus 183 Qi~DD~~d~~~~~~ 196 (260)
T PF00348_consen 183 QIRDDLLDLFGDEE 196 (260)
T ss_dssp HHHHHHHHHHSHHH
T ss_pred hhhhhhhhccCcHH
Confidence 99998888775543
No 22
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=83.66 E-value=21 Score=34.10 Aligned_cols=145 Identities=17% Similarity=0.112 Sum_probs=76.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhccc--cCCHHHHHHHHHhhhhHHHHHHHHhhcc-cCCC-C--CChhHHHHHHHHHHHH
Q 022527 16 KGYQDAIEDITKRMGAGMAKFICKE--VESIDDYDEYCYYVAGLVGLGLSKLFYA-SGTE-D--LAPDSLSNSMGLFLQK 89 (295)
Q Consensus 16 ~~~~~~i~di~~~m~~GMa~dl~~~--~~T~~dLd~Yc~~VAG~VG~ll~~l~~~-~~~~-~--~~~~~~A~slG~aLQl 89 (295)
..--.++.+.+..|..|...|+... ..|.++|..=.+.=-|......+.+-+. ++.. . ....+++..+|+|+|+
T Consensus 133 ~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi 212 (322)
T COG0142 133 LEAIKALAEAINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQI 212 (322)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHH
Confidence 3446777888899999999999743 3566666544333333333333332221 1111 1 1234789999999999
Q ss_pred HHHHhchHhhhhhCC--------CCCccccHHHHHhccCChh-hhhcc-cCCHHHHHHHH---------HHHHHHHHHHH
Q 022527 90 TNIIRDYLEDINEIP--------KCRMFWPREIWSKYVNKLE-DLKYE-ENSDKAVQCLN---------DMVTNALMHVE 150 (295)
Q Consensus 90 tNILRD~~ED~~e~~--------~GR~ylP~e~l~k~g~~~~-dl~~~-~~~~~~~~~l~---------~lv~~A~~hl~ 150 (295)
.+=+=|+.-|-.+.- .|-.-||.=..-+.+...+ .+... .....+..+.. .-...+..+.+
T Consensus 213 ~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~ 292 (322)
T COG0142 213 QDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTYVE 292 (322)
T ss_pred HHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHHHH
Confidence 987777665433200 3556666543333332211 00000 00001111111 22233777888
Q ss_pred HHHHHHHhch
Q 022527 151 DCLKYMSALR 160 (295)
Q Consensus 151 ~a~~yl~~l~ 160 (295)
+|...++.+|
T Consensus 293 ~a~~~L~~l~ 302 (322)
T COG0142 293 KAKEALEKLP 302 (322)
T ss_pred HHHHHHHhCC
Confidence 8888888777
No 23
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=50.65 E-value=1.8e+02 Score=28.95 Aligned_cols=85 Identities=19% Similarity=0.171 Sum_probs=51.6
Q ss_pred hhHHHHHHHHHHHHHHHHhchHh-----------hhhhCCCCCccccH----HHHHhcc----CChhhhhcccCCHHHHH
Q 022527 76 PDSLSNSMGLFLQKTNIIRDYLE-----------DINEIPKCRMFWPR----EIWSKYV----NKLEDLKYEENSDKAVQ 136 (295)
Q Consensus 76 ~~~~A~slG~aLQltNILRD~~E-----------D~~e~~~GR~ylP~----e~l~k~g----~~~~dl~~~~~~~~~~~ 136 (295)
..++++++|+++|++.=+-|+-. |+. .|-.--|. |.-.+.+ -...+-.++....++..
T Consensus 266 ~~~yGR~lGL~fQvvDDildftkss~elGK~ag~Dl~---~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~ 342 (384)
T KOG0776|consen 266 AFEYGRCLGLAFQVVDDILDFTKSSEELGKTAGKDLK---AGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVP 342 (384)
T ss_pred HHHHHHHHHHHHHHhhcccCcccchhhcCcchhhhhh---hccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHH
Confidence 34899999999999987766543 444 34443343 2111111 11111122233445555
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhchhhh
Q 022527 137 CLNDMVTNALMHVEDCLKYMSALRDHA 163 (295)
Q Consensus 137 ~l~~lv~~A~~hl~~a~~yl~~l~~~~ 163 (295)
.+..-...|.+|-..|++.+..+|+..
T Consensus 343 ~v~~a~~la~~~~~~Al~~l~~~p~s~ 369 (384)
T KOG0776|consen 343 GVALAKYLARRHNNKALEALQSLPRSE 369 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCch
Confidence 677777778899999999998887765
No 24
>PRK02899 adaptor protein; Provisional
Probab=35.21 E-value=46 Score=29.77 Aligned_cols=41 Identities=27% Similarity=0.216 Sum_probs=35.8
Q ss_pred CCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHH
Q 022527 105 KCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALM 147 (295)
Q Consensus 105 ~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~ 147 (295)
.=||++-.++|...|.+.+||..+ ++++..+..+|...|..
T Consensus 10 tIrv~it~~DL~eRgi~~~dL~~n--~~k~e~lF~~mm~Ea~~ 50 (197)
T PRK02899 10 KIKIFLTFDDLSERGLTKEDLWRD--APKVHQLFRDMMQEANK 50 (197)
T ss_pred eEEEEEeHHHHHHcCCCHHHHhcC--cHHHHHHHHHHHHHhhh
Confidence 348999999999999999999864 78999999999888754
No 25
>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=29.90 E-value=31 Score=22.24 Aligned_cols=20 Identities=35% Similarity=0.355 Sum_probs=17.0
Q ss_pred CCCccccHHHHHhccCChhh
Q 022527 105 KCRMFWPREIWSKYVNKLED 124 (295)
Q Consensus 105 ~GR~ylP~e~l~k~g~~~~d 124 (295)
+||+.+|.++..+.+.+..|
T Consensus 6 kgri~iP~~~r~~l~~~~gd 25 (43)
T TIGR01439 6 KGQIVIPKEIREKLGLKEGD 25 (43)
T ss_pred CCeEEecHHHHHHcCcCCCC
Confidence 59999999999998876554
No 26
>PF08965 DUF1870: Domain of unknown function (DUF1870); InterPro: IPR015060 This family consist of hypothetical bacterial proteins. ; PDB: 1S4K_A.
Probab=26.08 E-value=25 Score=29.16 Aligned_cols=42 Identities=12% Similarity=0.226 Sum_probs=29.4
Q ss_pred chHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccccCCHHH
Q 022527 5 HHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDD 46 (295)
Q Consensus 5 ~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~~~T~~d 46 (295)
|.|++++.+|...-++.|..|.+++.+++....-+-|+|.++
T Consensus 45 ~~Vie~l~~m~~~R~~~i~ai~~~i~~~ign~t~ryy~~~~~ 86 (118)
T PF08965_consen 45 DDVIEELLEMKSQRKQRINAIIDKINNRIGNNTMRYYPDLNA 86 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCS-S--EEE--SSHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCceeeecCCHHH
Confidence 578999999999999999999999996664333233444444
No 27
>PF14261 DUF4351: Domain of unknown function (DUF4351)
Probab=25.96 E-value=97 Score=22.27 Aligned_cols=42 Identities=21% Similarity=0.372 Sum_probs=30.7
Q ss_pred HHHHcccChhhhhHHHHHHHHHHHHHHHhhccccCCHHHHHHH
Q 022527 8 STAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEY 50 (295)
Q Consensus 8 ~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~~~T~~dLd~Y 50 (295)
..=|..+|+.+++-|.....+-.+...+.+- .+.|.+|+..|
T Consensus 17 ~rrFG~lp~~~~~~I~~l~~eqLE~l~e~il-df~~l~dL~~w 58 (59)
T PF14261_consen 17 TRRFGELPPEIQERIQQLSLEQLEALAEAIL-DFNSLEDLENW 58 (59)
T ss_pred HHHcCCCCHHHHHHHHcCCHHHHHHHHHHHh-CCCCHHHHHhh
Confidence 3457788999888888777666666665554 47888888776
No 28
>PF14384 DUF4415: Domain of unknown function (DUF4415)
Probab=25.12 E-value=67 Score=23.20 Aligned_cols=24 Identities=33% Similarity=0.520 Sum_probs=20.7
Q ss_pred chHHHHHcccChhhhhHHHHHHHH
Q 022527 5 HHVSTAFLELGKGYQDAIEDITKR 28 (295)
Q Consensus 5 ~~v~~~~~~L~~~~~~~i~di~~~ 28 (295)
+.|++-|+...++||..|.+++++
T Consensus 37 ~dVl~~fka~G~gyQtriN~~Lr~ 60 (62)
T PF14384_consen 37 PDVLEWFKAQGKGYQTRINEALRK 60 (62)
T ss_pred HHHHHHHHHHChhHHHHHHHHHHH
Confidence 358899999999999999988874
No 29
>PRK02315 adaptor protein; Provisional
Probab=24.03 E-value=89 Score=28.58 Aligned_cols=41 Identities=17% Similarity=0.181 Sum_probs=35.5
Q ss_pred CCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHH
Q 022527 105 KCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALM 147 (295)
Q Consensus 105 ~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~ 147 (295)
.=||++-.+.|...|.+..||..+ ++++..+..+|...|..
T Consensus 10 tIRv~it~~DL~eRGi~~~dL~~n--~~k~e~fF~~mm~Ea~~ 50 (233)
T PRK02315 10 TIKVFITYDDLEERGFEREDLLYN--REKIEEFFYSMMDEVDE 50 (233)
T ss_pred eEEEEecHHHHHHcCCCHHHHhcC--cHHHHHHHHHHHHHhcc
Confidence 348999999999999999999854 78999999999888744
No 30
>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=22.33 E-value=8.5e+02 Score=24.94 Aligned_cols=135 Identities=14% Similarity=0.113 Sum_probs=66.9
Q ss_pred ccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCC-Ch-------hHHHHHHHHHHHHHHHHhchHhhhhhCCCCCc-cc
Q 022527 40 EVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL-AP-------DSLSNSMGLFLQKTNIIRDYLEDINEIPKCRM-FW 110 (295)
Q Consensus 40 ~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~-~~-------~~~A~slG~aLQltNILRD~~ED~~e~~~GR~-yl 110 (295)
.++|++||-.....++|.--.+.+-.++. |.... .. ..+-...+...-+.|=|-.+..... +|-+ =.
T Consensus 383 ~vPt~eEYl~~~~~S~g~~~~~~~~~~~~-g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~---rGdv~n~ 458 (542)
T cd00684 383 YVPTFEEYMENALVSIGLGPLLLTSFLGM-GDILTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDEMK---RGDVASS 458 (542)
T ss_pred CCCCHHHHHhhhhHHhhHHHHHHHHHHhc-CCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHHHh---cCCcccH
Confidence 48899999887766665544444433332 21110 00 1223333444444454445544444 4553 22
Q ss_pred cHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHH-HhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCC
Q 022527 111 PREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYM-SALRDHAIFRFCAIPQIMAIGTLALCYNNIEVF 189 (295)
Q Consensus 111 P~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl-~~l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf 189 (295)
-.=.+.++|++ .+.+...+..+++++.+.+.+..--- ..+|. .|..+..=-..++..+|.+.|-|
T Consensus 459 V~~ymke~g~s---------~eeA~~~i~~~ie~~wk~ln~e~l~~~~~~p~-----~~~~~~~n~~r~~~~~Y~~~D~~ 524 (542)
T cd00684 459 IECYMKEYGVS---------EEEAREEIKKMIEDAWKELNEEFLKPSSDVPR-----PIKQRFLNLARVIDVFYKEGDGF 524 (542)
T ss_pred HHHHHHhcCCC---------HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCH-----HHHHHHHHHHHHHHHHhcCCCCC
Confidence 22233455554 34667778899999888777654211 12222 22222211223446667766766
Q ss_pred CCc
Q 022527 190 RGV 192 (295)
Q Consensus 190 ~~~ 192 (295)
+..
T Consensus 525 t~~ 527 (542)
T cd00684 525 THP 527 (542)
T ss_pred CCc
Confidence 543
No 31
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=21.76 E-value=39 Score=27.16 Aligned_cols=18 Identities=33% Similarity=0.864 Sum_probs=15.7
Q ss_pred hchHhhhhhCCCCCccccHH
Q 022527 94 RDYLEDINEIPKCRMFWPRE 113 (295)
Q Consensus 94 RD~~ED~~e~~~GR~ylP~e 113 (295)
-|+.||+.. +||.|-|++
T Consensus 90 edvve~L~~--~g~~Y~pR~ 107 (112)
T COG5204 90 EDVVEDLEQ--HGRIYYPRT 107 (112)
T ss_pred HHHHHHHHH--hCccccCCC
Confidence 588899987 899999986
No 32
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=21.65 E-value=84 Score=29.40 Aligned_cols=55 Identities=18% Similarity=0.163 Sum_probs=32.9
Q ss_pred HHHHhhcc--ccCCHHHHHHHHHhhhhHHHHHHHHhh---cccCCCCCChhHHHHHHHHHHHH
Q 022527 32 GMAKFICK--EVESIDDYDEYCYYVAGLVGLGLSKLF---YASGTEDLAPDSLSNSMGLFLQK 89 (295)
Q Consensus 32 GMa~dl~~--~~~T~~dLd~Yc~~VAG~VG~ll~~l~---~~~~~~~~~~~~~A~slG~aLQl 89 (295)
||.-|-+. ..+|.++|..-.-.-.|-+..+..+++ +.. .+ ....+-+-+|+.+|+
T Consensus 138 GldIYWRD~~tcPtee~Yk~Mv~~KTGGLF~La~rLMqlfS~~-ke--dl~pl~n~LGl~fQI 197 (322)
T KOG0777|consen 138 GLDIYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRLMQLFSHH-KE--DLVPLINLLGLIFQI 197 (322)
T ss_pred CcceeeeccCcCCCHHHHHHHHHHhcccHHHHHHHHHHHHHhc-ch--hHHHHHHHHhHhhhh
Confidence 44433333 367888886665555555555555554 422 12 234788899999995
Done!