Query 048111
Match_columns 304
No_of_seqs 179 out of 814
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 06:21:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048111.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048111hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02279 ent-kaur-16-ene synth 100.0 9.3E-81 2E-85 628.6 29.5 296 1-304 480-778 (784)
2 cd00684 Terpene_cyclase_plant_ 100.0 4.5E-78 9.8E-83 596.7 30.8 296 1-301 246-542 (542)
3 PLN02592 ent-copalyl diphospha 100.0 2.2E-55 4.8E-60 442.6 24.1 256 1-303 528-800 (800)
4 cd00868 Terpene_cyclase_C1 Ter 100.0 2.5E-46 5.5E-51 341.7 27.8 272 1-277 12-284 (284)
5 PF03936 Terpene_synth_C: Terp 100.0 4.5E-43 9.8E-48 318.0 16.6 244 1-249 26-270 (270)
6 cd00687 Terpene_cyclase_nonpla 100.0 5.7E-35 1.2E-39 270.1 18.7 233 12-254 32-267 (303)
7 PLN02150 terpene synthase/cycl 100.0 2.7E-32 5.9E-37 209.6 10.7 95 205-304 1-96 (96)
8 cd00385 Isoprenoid_Biosyn_C1 I 99.9 4.2E-22 9.1E-27 174.7 13.1 229 24-271 2-243 (243)
9 PF06330 TRI5: Trichodiene syn 98.0 0.00018 3.9E-09 67.7 14.9 198 27-251 74-276 (376)
10 cd00686 Terpene_cyclase_cis_tr 97.9 0.00051 1.1E-08 63.8 15.1 195 33-255 80-279 (357)
11 cd00867 Trans_IPPS Trans-Isopr 92.3 2 4.4E-05 37.7 11.0 88 113-205 87-175 (236)
12 PF00494 SQS_PSY: Squalene/phy 92.0 9 0.00019 34.4 17.4 209 20-265 6-233 (267)
13 TIGR02749 prenyl_cyano solanes 88.9 20 0.00044 33.5 15.8 87 112-202 134-220 (322)
14 PLN02857 octaprenyl-diphosphat 88.8 18 0.00039 35.2 14.8 87 112-202 228-314 (416)
15 PLN02890 geranyl diphosphate s 87.4 22 0.00049 34.6 14.4 90 111-204 227-316 (422)
16 TIGR03464 HpnC squalene syntha 87.3 22 0.00048 32.1 15.9 120 20-165 6-130 (266)
17 cd00685 Trans_IPPS_HT Trans-Is 86.5 24 0.00052 31.7 14.1 89 112-204 109-197 (259)
18 COG0142 IspA Geranylgeranyl py 85.6 29 0.00063 32.5 13.9 105 112-221 135-249 (322)
19 TIGR02748 GerC3_HepT heptapren 78.5 58 0.0013 30.4 15.5 86 112-202 130-216 (319)
20 cd00683 Trans_IPPS_HH Trans-Is 76.9 56 0.0012 29.3 16.8 209 21-271 13-237 (265)
21 TIGR03465 HpnD squalene syntha 74.7 65 0.0014 29.0 18.5 195 37-270 19-227 (266)
22 KOG1719 Dual specificity phosp 74.2 3 6.5E-05 34.9 2.7 54 179-240 90-149 (183)
23 PRK10888 octaprenyl diphosphat 69.2 1E+02 0.0022 28.9 15.9 87 112-203 131-218 (323)
24 CHL00151 preA prenyl transfera 67.8 1.1E+02 0.0023 28.6 15.8 87 113-203 136-222 (323)
25 COG3707 AmiR Response regulato 66.1 4.3 9.4E-05 35.1 2.1 50 191-245 127-177 (194)
26 PF10776 DUF2600: Protein of u 58.9 1.6E+02 0.0035 27.7 16.0 98 163-282 199-296 (330)
27 PF03861 ANTAR: ANTAR domain; 55.9 12 0.00025 25.4 2.5 31 210-245 15-45 (56)
28 PLN02632 phytoene synthase 51.4 2.1E+02 0.0046 26.8 18.4 193 37-266 74-284 (334)
29 smart00400 ZnF_CHCC zinc finge 51.0 19 0.00042 24.1 2.9 25 208-237 30-54 (55)
30 PRK10581 geranyltranstransfera 47.5 2.3E+02 0.005 26.1 10.8 112 122-250 153-276 (299)
31 PF13060 DUF3921: Protein of u 46.7 78 0.0017 21.0 5.0 44 86-131 6-49 (58)
32 PF12368 DUF3650: Protein of u 42.9 20 0.00044 20.9 1.7 18 216-238 9-26 (28)
33 PRK07122 RNA polymerase sigma 35.4 2.7E+02 0.0058 25.1 8.7 71 66-144 77-148 (264)
34 smart00463 SMR Small MutS-rela 34.8 48 0.001 23.8 3.1 23 225-249 8-30 (80)
35 KOG2077 JNK/SAPK-associated pr 33.4 1.1E+02 0.0024 31.0 6.0 92 173-273 302-405 (832)
36 PF01713 Smr: Smr domain; Int 33.0 51 0.0011 23.8 3.0 27 225-253 5-31 (83)
37 KOG1464 COP9 signalosome, subu 32.3 4.2E+02 0.0091 24.7 9.3 75 179-268 299-375 (440)
38 PF01807 zf-CHC2: CHC2 zinc fi 31.2 55 0.0012 24.8 3.0 30 208-242 61-90 (97)
39 TIGR03486 cas_csx13_C CRISPR-a 30.1 67 0.0015 26.7 3.4 68 36-106 7-74 (152)
40 PF05772 NinB: NinB protein; 28.4 32 0.00069 27.8 1.3 56 93-152 43-99 (127)
41 COG1093 SUI2 Translation initi 27.1 1.2E+02 0.0026 27.6 4.7 64 200-271 96-169 (269)
42 PF10397 ADSL_C: Adenylosuccin 25.6 1.1E+02 0.0025 22.1 3.8 30 213-247 8-37 (81)
43 COG1308 EGD2 Transcription fac 25.0 80 0.0017 25.2 2.9 23 212-239 86-108 (122)
44 COG1562 ERG9 Phytoene/squalene 24.3 5.6E+02 0.012 23.5 9.8 120 28-165 28-147 (288)
45 PTZ00393 protein tyrosine phos 24.2 74 0.0016 28.6 2.9 28 208-240 182-209 (241)
46 COG2443 Sss1 Preprotein transl 22.8 2.3E+02 0.0049 20.1 4.5 21 137-157 25-45 (65)
47 TIGR01589 A_thal_3526 uncharac 22.5 2.3E+02 0.005 19.5 4.4 23 211-239 5-27 (57)
48 PF07637 PSD5: Protein of unkn 21.2 1.7E+02 0.0037 20.3 3.8 54 233-301 3-56 (64)
49 KOG3730 Acyl-CoA:dihydroxyacte 20.7 8.7E+02 0.019 24.4 9.6 65 210-291 77-141 (685)
50 PF09713 A_thal_3526: Plant pr 20.4 2.9E+02 0.0063 18.8 4.5 24 211-240 2-25 (54)
No 1
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=9.3e-81 Score=628.56 Aligned_cols=296 Identities=25% Similarity=0.377 Sum_probs=283.3
Q ss_pred CCccCCCCCCCChhhhhHHHHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhcccc-cc
Q 048111 1 WWKDLNFAGKLPFARDRVVESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMS-CM 79 (304)
Q Consensus 1 Ww~~~~l~~~l~~~R~r~~e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~-~~ 79 (304)
|||++|| .+|||+|||++|||||++|++|||+||.+|++|||.+++++++||+||.|||.||++.||+||+|||.+ .+
T Consensus 480 Wwke~~L-~~L~faRdr~ve~Yf~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~ 558 (784)
T PLN02279 480 WIVENRL-DKLKFARQKLAYCYFSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSP 558 (784)
T ss_pred eHHhcCC-ccCCchhhHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccch
Confidence 9999999 799999999999999999999999999999999999999999999999999999999999999999998 56
Q ss_pred ccCchhHHHHHHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHH
Q 048111 80 DQLPEYMQIFYEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLT 159 (304)
Q Consensus 80 ~~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~ 159 (304)
+.+|+|||+||.+++++++|++.++.+.+|.++++|++++|++++++|++||+|+.+|++||+||||+|+.+|+|..+++
T Consensus 559 ~~lpeymki~f~aL~~t~nei~~~~~~~qGr~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~ 638 (784)
T PLN02279 559 DFCSEQVEIIFSALRSTISEIGDKAFTWQGRNVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIV 638 (784)
T ss_pred hhCcHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHH
Confidence 89999999999999999999999976556668999999999999999999999999999999999999999999999998
Q ss_pred HHHHHhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHH
Q 048111 160 AASFLGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYK 239 (304)
Q Consensus 160 ~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~ 239 (304)
+.+++++|..+|+++++| +.+|+++++++.++||+|||+||++|+++|++ |+|+|||+|+ ++++|+|||++++++
T Consensus 639 l~~~~~~G~~l~eev~e~-~~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~---~~gvSeEEAi~~i~~ 713 (784)
T PLN02279 639 LPALYLVGPKLSEEVVDS-PELHKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHG---NGNSTEEEAIESMKG 713 (784)
T ss_pred HHHHHHhCCCCCHHHHhC-cchhHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccC---CCCCCHHHHHHHHHH
Confidence 989999999999999999 79999999999999999999999999999998 9999999997 323999999999999
Q ss_pred HHHHHHHHHHHhhcCC--CCCcHHHHHHHHHHHhhhhhhcccCCCCCCCChhHHHHHHhhhccccCC
Q 048111 240 KVGDAWKDINEECLMP--TEVPRALLMRVLNLSRVIDIIYKEADDYTHVGQVMKDNIASVLIHPVAI 304 (304)
Q Consensus 240 ~i~~~~k~ln~~~l~~--~~~p~~~~~~~ln~aR~~~~~Y~~~D~~~~~~~~~~~~i~~ll~~pi~~ 304 (304)
+|+++||+||++++++ +.+|++|+++++|++|+++++|+++||||.+ .||++|++||++||++
T Consensus 714 ~Ie~~wKeLn~~~l~~~~~~vp~~~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 714 LIESQRRELLRLVLQEKGSNVPRECKDLFWKMSKVLHLFYRKDDGFTSN--DMMSLVKSVIYEPVSL 778 (784)
T ss_pred HHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHhhhhheeCCCCCChH--HHHHHHHHHhccCCcC
Confidence 9999999999999974 5799999999999999999999999999974 6999999999999985
No 2
>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=100.00 E-value=4.5e-78 Score=596.69 Aligned_cols=296 Identities=55% Similarity=0.967 Sum_probs=290.4
Q ss_pred CCccCCCCCCCChhhhhHHHHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccc
Q 048111 1 WWKDLNFAGKLPFARDRVVESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMD 80 (304)
Q Consensus 1 Ww~~~~l~~~l~~~R~r~~e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~ 80 (304)
||+++||.++|||+|+|+++||||++|++|||++|.+|+++||+++|++++||+||.|||.+|++.||++++|||.++++
T Consensus 246 Wwk~~gL~~~l~~aRdr~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~ 325 (542)
T cd00684 246 WWKDLDLASKLPFARDRLVECYFWAAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAID 325 (542)
T ss_pred HHHhcCCcccCCcccchhHHHHHHHHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchh
Confidence 99999998888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHH
Q 048111 81 QLPEYMQIFYEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTA 160 (304)
Q Consensus 81 ~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~ 160 (304)
.+|+|||+||.++++++++++.++.++++++.+.+++++|++++++|++||+|+++|++||++|||++|.+|+|++++++
T Consensus 326 ~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~ 405 (542)
T cd00684 326 QLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLL 405 (542)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHH
Q 048111 161 ASFLGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYKK 240 (304)
Q Consensus 161 ~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~ 240 (304)
++++++|..+|+++++|+..+|+++++++.++||+|||.||++|+++|+++|+|.|||+|+ | +|+|+|+++++++
T Consensus 406 ~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~---g--~s~eeA~~~i~~~ 480 (542)
T cd00684 406 TSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEY---G--VSEEEAREEIKKM 480 (542)
T ss_pred HHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhc---C--CCHHHHHHHHHHH
Confidence 9999999999999999977779999999999999999999999999999999999999999 9 9999999999999
Q ss_pred HHHHHHHHHHhhcCC-CCCcHHHHHHHHHHHhhhhhhcccCCCCCCCChhHHHHHHhhhccc
Q 048111 241 VGDAWKDINEECLMP-TEVPRALLMRVLNLSRVIDIIYKEADDYTHVGQVMKDNIASVLIHP 301 (304)
Q Consensus 241 i~~~~k~ln~~~l~~-~~~p~~~~~~~ln~aR~~~~~Y~~~D~~~~~~~~~~~~i~~ll~~p 301 (304)
|+++||+||++++++ +++|++|+++++|++|+++++|+++||||.|++.||+||++||++|
T Consensus 481 ie~~wk~ln~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 481 IEDAWKELNEEFLKPSSDVPRPIKQRFLNLARVIDVFYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 999999999999997 7899999999999999999999999999999778999999999998
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=2.2e-55 Score=442.56 Aligned_cols=256 Identities=16% Similarity=0.241 Sum_probs=232.8
Q ss_pred CCccCCCCCCCChhhhhHHHHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhh--------
Q 048111 1 WWKDLNFAGKLPFARDRVVESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAID-------- 72 (304)
Q Consensus 1 Ww~~~~l~~~l~~~R~r~~e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~-------- 72 (304)
|||++|| .+|||||||++|||||++|++|||+||.+|++|||.+++++++||+||.|||+||++.||++|+
T Consensus 528 Wwke~~L-~~L~faRdr~ve~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~ 606 (800)
T PLN02592 528 WYEECNL-GEFGVSRSELLLAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGR 606 (800)
T ss_pred HHHhcCC-CcCCcchhHHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhccccccc
Confidence 9999999 6999999999999999999999999999999999999999999999999999999999999996
Q ss_pred hccccccccCch------hHHHHHHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHH
Q 048111 73 RWDMSCMDQLPE------YMQIFYEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYM 146 (304)
Q Consensus 73 rWd~~~~~~lp~------~~k~~~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl 146 (304)
|||.+.+++||+ |||+||.+|++++||++.++.+.+|.++.++++++|.++++ +|..+|+
T Consensus 607 rWd~~~~~~lp~~~~~~~~mki~f~aLy~tineia~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~-------- 672 (800)
T PLN02592 607 RSDHHFNDRNMRRSGSVKTGEELVGLLLGTLNQLSLDALEAHGRDISHLLRHAWEMWLL------KWLLEGD-------- 672 (800)
T ss_pred ccCchhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc--------
Confidence 999999999988 99999999999999999999988888999999999999999 6777665
Q ss_pred hhhhhhhchhHHHHHHHH-hCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCC
Q 048111 147 RVSLVTSAYSMLTAASFL-GMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREG 225 (304)
Q Consensus 147 ~~~~~s~g~~~~~~~~~~-~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g 225 (304)
+|+|...+++++++ .+|..+|+++++ +|++.++++++.||+||++|+++|+. ++ |
T Consensus 673 ----~s~~~~~ilv~~~~l~~g~~lsee~l~----~~~~~~l~~li~Rl~nDl~t~~~e~~--------------~~--~ 728 (800)
T PLN02592 673 ----GRQGEAELLVKTINLTAGRSLSEELLA----HPQYEQLAQLTNRICYQLGHYKKNKV--------------HI--N 728 (800)
T ss_pred ----eeccchhhHHHHHHHhcCCCCCHHHcc----chhHHHHHHHHHHHHHhhhHHhhhcc--------------cC--C
Confidence 44566667777777 559999999865 68999999999999999999999884 21 3
Q ss_pred cccCHHHHHHHHHHHHHHHHHHHHHhhcC-C-CCCcHHHHHHHHHHHhhhhhhcccCCCCCCCChhHHHHHHhhhccccC
Q 048111 226 VSVTQQEVHEELYKKVGDAWKDINEECLM-P-TEVPRALLMRVLNLSRVIDIIYKEADDYTHVGQVMKDNIASVLIHPVA 303 (304)
Q Consensus 226 ~~~s~eeA~~~i~~~i~~~~k~ln~~~l~-~-~~~p~~~~~~~ln~aR~~~~~Y~~~D~~~~~~~~~~~~i~~ll~~pi~ 303 (304)
++++ +|.+++++.|+..+|+|.+++++ . +.+|++||++||+++|++ +|. ||++| .+|++||++||||||+
T Consensus 729 -~~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~vp~~cK~~f~~~~k~f--y~~---~~~~~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 729 -TYNP-EEKSKTTPSIESDMQELVQLVLQNSSDDIDPVIKQTFLMVAKSF--YYA---AYCDP-GTINYHIAKVLFERVA 800 (800)
T ss_pred -cccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHH--HHh---hcCCH-HHHHHHHHHHhCCCCC
Confidence 2566 89999999999999999999997 3 569999999999999966 666 99999 6899999999999985
No 4
>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=100.00 E-value=2.5e-46 Score=341.66 Aligned_cols=272 Identities=51% Similarity=0.896 Sum_probs=254.9
Q ss_pred CCccCCCCCCCChhhhhHHHHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccc
Q 048111 1 WWKDLNFAGKLPFARDRVVESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMD 80 (304)
Q Consensus 1 Ww~~~~l~~~l~~~R~r~~e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~ 80 (304)
||+++||....+++|.+...+|+|+++++|+|+.+..|+++||+++|+|++||.||.+++.+++..++++++||+....+
T Consensus 12 W~~~~~l~~~~~~~r~~~~~~~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~ 91 (284)
T cd00868 12 WWKELGLQEKLPFARDRLVECYFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFTEAVERWDISAID 91 (284)
T ss_pred HHHHhCCcccCCchhhHhHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHHhcChhhhh
Confidence 89999996555599999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHH
Q 048111 81 QLPEYMQIFYEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTA 160 (304)
Q Consensus 81 ~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~ 160 (304)
.+|+++++++.++.++++++...+.+.++....+++++.|..++.++..|++|+..|++||++||+.+|+.|+|+.+++.
T Consensus 92 ~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~ 171 (284)
T cd00868 92 ELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLA 171 (284)
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHH
Confidence 99999999999999999999999888777778999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHH
Q 048111 161 ASFLGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYKK 240 (304)
Q Consensus 161 ~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~ 240 (304)
++.+++|..+|++.+.+.+...++.+.++.+++|+||+.||+||+.+|+.+|+|.|||+++ | +|.|+|++++.++
T Consensus 172 l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~---~--~~~~eA~~~~~~~ 246 (284)
T cd00868 172 LSFLGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEY---G--VSEEEALEELRKM 246 (284)
T ss_pred HHHHHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhcc---C--CCHHHHHHHHHHH
Confidence 9999999999994434348899999999999999999999999999999999999999999 9 9999999999999
Q ss_pred HHHHHHHHHHhhcCC-CCCcHHHHHHHHHHHhhhhhhc
Q 048111 241 VGDAWKDINEECLMP-TEVPRALLMRVLNLSRVIDIIY 277 (304)
Q Consensus 241 i~~~~k~ln~~~l~~-~~~p~~~~~~~ln~aR~~~~~Y 277 (304)
++++++++++.+.+. ++.++.+++.+.+.+|.....|
T Consensus 247 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 247 IEEAWKELNEEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 999999999999974 4688999999999999886544
No 5
>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=100.00 E-value=4.5e-43 Score=317.98 Aligned_cols=244 Identities=23% Similarity=0.373 Sum_probs=223.1
Q ss_pred CCccCCCCCCCChhhhhHHHHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccc
Q 048111 1 WWKDLNFAGKLPFARDRVVESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMD 80 (304)
Q Consensus 1 Ww~~~~l~~~l~~~R~r~~e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~ 80 (304)
||+++|+..+.+.+|+|++.++|+.++++++|+.+..|+++||++.|+|++||.||.+++.++++.|+++++||++...+
T Consensus 26 W~~~~~l~~~~~~~~~~~~~~~~~~~aa~~~P~~~~~l~~~a~~~~w~f~~DD~~D~~~~~~~~~~l~~~~~~~~~~~~~ 105 (270)
T PF03936_consen 26 WVKEFGLFDEDKAARQRFRQAYFGLLAARFYPDSSDELLAAADWMAWLFIFDDFFDDGGSAEELEALTDAVERWDPNSGD 105 (270)
T ss_dssp HHHHCTHHHHHTTSHHHHHHHHHHHHHHHHSGCGHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHTSSGGGG
T ss_pred HHHHcCCccccccchhhhhHhHHhhhhheeCCCcHHHHHHHHhhchheeeeeeccccccchHHHHHHHHHHhcccccccc
Confidence 89999996677888999999999999999999977788899999999999999999999999999999999999988788
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHhcCC-cceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHH
Q 048111 81 QLPEYMQIFYEALLDLYKEIEEELATKGW-SYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLT 159 (304)
Q Consensus 81 ~lp~~~k~~~~~l~~~~~ei~~~~~~~~~-~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~ 159 (304)
.+|...++++.++.++++++...+.+..+ .+..++++++|.+|+.++++|++|+..|++||++||+++|+.|+|+.+++
T Consensus 106 ~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~ 185 (270)
T PF03936_consen 106 PLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCL 185 (270)
T ss_dssp GSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHH
T ss_pred cccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHH
Confidence 99999999999999999999988776532 23577899999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHH
Q 048111 160 AASFLGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYK 239 (304)
Q Consensus 160 ~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~ 239 (304)
.+..+++|...+++..+++..++.+.++++.+++|+|||.||+||+++|+.+|.|.++|+++ | +|.|+|++++.+
T Consensus 186 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~v~~l~~~~---~--~s~e~A~~~v~~ 260 (270)
T PF03936_consen 186 ALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNLVVVLMNEH---G--LSLEEAVDEVAE 260 (270)
T ss_dssp HHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSHHHHHHHHH---T--HHHHHHHHHHHH
T ss_pred HHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccHHHHhhhhc---C--CCHHHHHHHHHH
Confidence 99989987666666666555667799999999999999999999999999999999999999 9 999999999999
Q ss_pred HHHHHHHHHH
Q 048111 240 KVGDAWKDIN 249 (304)
Q Consensus 240 ~i~~~~k~ln 249 (304)
++++++++||
T Consensus 261 ~~~~~~~efn 270 (270)
T PF03936_consen 261 MINECIREFN 270 (270)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHhcC
Confidence 9999999997
No 6
>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=100.00 E-value=5.7e-35 Score=270.07 Aligned_cols=233 Identities=16% Similarity=0.067 Sum_probs=206.4
Q ss_pred ChhhhhHHHHHHhhhhcccCCCchHHHH-HHHHHHHHHHhhhhhhccC-CCHHHHHHHHHhhhhccccccccCchhHHHH
Q 048111 12 PFARDRVVESYFWIVGVYFEPEYSLARK-LLAKIFSMTSIIDYIYDVY-ATPKELDLFTAAIDRWDMSCMDQLPEYMQIF 89 (304)
Q Consensus 12 ~~~R~r~~e~yf~~~~~~feP~~s~~R~-~~ak~~~l~~~iDD~~D~~-~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~ 89 (304)
+.+|++...++|+.++.++.|+++.+|+ ..++++.|+|++||.||.. ++.++.+.+++.+.++.......-|...+++
T Consensus 32 ~~~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ 111 (303)
T cd00687 32 EKAEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILRGDGLDSPDDATPL 111 (303)
T ss_pred chhHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccCCCCCCCCCCCCHH
Confidence 4789999999999999999999999998 5579999999999999997 5899999999888876554221114667788
Q ss_pred HHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCC
Q 048111 90 YEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSV 169 (304)
Q Consensus 90 ~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~ 169 (304)
..++.+++.++.... +....+++++.|.+|+.+++.|++|+.+|++||++||+++|..|+|+.+++..+.+++|..
T Consensus 112 ~~~~~d~~~r~~~~~----~~~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~ 187 (303)
T cd00687 112 EFGLADLWRRTLARM----SAEWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPE 187 (303)
T ss_pred HHHHHHHHHHhccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCC
Confidence 889999988886553 2344789999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhh-hcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHH
Q 048111 170 VTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQ-ERGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDI 248 (304)
Q Consensus 170 ~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~-~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~l 248 (304)
+|+++.++ +...++.++++.+++|+|||.||+||+ +.|+.+|+|.|+|+++ | +|.|+|++++.+++++.++++
T Consensus 188 lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~---g--~s~~eA~~~~~~~~~~~~~~f 261 (303)
T cd00687 188 VPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEH---G--LSLEEAISVVRDMHNERITQF 261 (303)
T ss_pred CCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHc---C--CCHHHHHHHHHHHHHHHHHHH
Confidence 99999887 667789999999999999999999999 8999999999999999 9 999999999999999999887
Q ss_pred HHhhcC
Q 048111 249 NEECLM 254 (304)
Q Consensus 249 n~~~l~ 254 (304)
.+..-.
T Consensus 262 ~~~~~~ 267 (303)
T cd00687 262 EELEAS 267 (303)
T ss_pred HHHHHh
Confidence 765543
No 7
>PLN02150 terpene synthase/cyclase family protein
Probab=99.98 E-value=2.7e-32 Score=209.61 Aligned_cols=95 Identities=42% Similarity=0.721 Sum_probs=91.9
Q ss_pred hhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHhhhhhh-cccCCCC
Q 048111 205 QERGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINEECLMPTEVPRALLMRVLNLSRVIDII-YKEADDY 283 (304)
Q Consensus 205 ~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~~~l~~~~~p~~~~~~~ln~aR~~~~~-Y~~~D~~ 283 (304)
|+|||++|+|+|||||| | +|+|+|+++++++|+++||+||+++|+++++|.+++++++|+||+++++ |+++|||
T Consensus 1 ~~rg~vaSsIeCYMke~---g--~seeeA~~~i~~li~~~WK~iN~e~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~ 75 (96)
T PLN02150 1 MRRGEVANGVNCYMKQH---G--VTKEEAVSELKKMIRDNYKIVMEEFLTIKDVPRPVLVRCLNLARLIDVYCYNEGDGF 75 (96)
T ss_pred CCCCcchHHHHHHhccC---C--CCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHhheecCCCCC
Confidence 57899999999999999 9 9999999999999999999999999999899999999999999999999 9999999
Q ss_pred CCCChhHHHHHHhhhccccCC
Q 048111 284 THVGQVMKDNIASVLIHPVAI 304 (304)
Q Consensus 284 ~~~~~~~~~~i~~ll~~pi~~ 304 (304)
|.+++.+|++|++||++||++
T Consensus 76 t~~~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 76 TYPHGKLKDLITSLFFHPLPL 96 (96)
T ss_pred CCCcHHHHHHHHHHhccCCCC
Confidence 988778999999999999986
No 8
>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=99.88 E-value=4.2e-22 Score=174.68 Aligned_cols=229 Identities=30% Similarity=0.344 Sum_probs=182.1
Q ss_pred hhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHH
Q 048111 24 WIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEE 103 (304)
Q Consensus 24 ~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~ 103 (304)
+++++++.|+++..|..++++..+++++||++|..++..........+ .....|..+......+...++++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELARE 75 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhC
Confidence 466778899989999999999999999999999987766555544333 12345667777778888888887643
Q ss_pred HHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhH
Q 048111 104 LATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPR 183 (304)
Q Consensus 104 ~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~ 183 (304)
. .....+++.+.|.+++.++..|+.|+.. +.||++||+.++..++ +.++...+..+++...++ ..+.+....
T Consensus 76 ~----~~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t-~~~~~~~~~~~~~~~~~~--~~~~~~~~~ 147 (243)
T cd00385 76 G----SPEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKT-AGLVGALCLLGAGLSGGE--AELLEALRK 147 (243)
T ss_pred C----CHHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhH-HHHHHHHHHHHHHHhCCC--HHHHHHHHH
Confidence 2 2345788999999999999999999877 8999999999999998 455555555665655554 222255677
Q ss_pred HHHHHHHHHHHhcCccchhhhhhcC-CCchhHHHHHhhcccCCccc------------CHHHHHHHHHHHHHHHHHHHHH
Q 048111 184 IIRASTIIGRLVNDIKSHKFEQERG-HPASAIECYMKEKEREGVSV------------TQQEVHEELYKKVGDAWKDINE 250 (304)
Q Consensus 184 l~~~~~~i~rL~NDi~s~~~E~~~G-~~~n~V~~ym~e~~~~g~~~------------s~eeA~~~i~~~i~~~~k~ln~ 250 (304)
+...++.+.+|.||+.++.+|.++| ...|++.++|+++ | + +.++|.+++.++++++++++++
T Consensus 148 ~~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~---~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ 222 (243)
T cd00385 148 LGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEY---G--VPAEDLLLVEKSGSLEEALEELAKLAEEALKELNE 222 (243)
T ss_pred HHHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHh---C--ChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhc
Confidence 8899999999999999999999985 6679999999999 8 8 8899999999999999999998
Q ss_pred hhcCCCCCcHHHHHHHHHHHh
Q 048111 251 ECLMPTEVPRALLMRVLNLSR 271 (304)
Q Consensus 251 ~~l~~~~~p~~~~~~~ln~aR 271 (304)
........+..+++.+.++.|
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~ 243 (243)
T cd00385 223 LILSLPDVPRALLALALNLYR 243 (243)
T ss_pred CCCCcHHHHHHHHHHHHHHhC
Confidence 777633456777777777654
No 9
>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=98.03 E-value=0.00018 Score=67.68 Aligned_cols=198 Identities=17% Similarity=0.106 Sum_probs=112.7
Q ss_pred hcccCCCchH-HHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHH
Q 048111 27 GVYFEPEYSL-ARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELA 105 (304)
Q Consensus 27 ~~~feP~~s~-~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~ 105 (304)
+++..|..+. .++..+-...+++++||..+.. .+++..|-+-+-.=.+ +++ ++...+.+.+.+ +.
T Consensus 74 ~~~~y~~~~~evqv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~Gq~------Q~~--p~L~~~~~~L~~----~~ 139 (376)
T PF06330_consen 74 AVYCYPHLPKEVQVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLILGQP------QKH--PLLDGFASLLRE----MW 139 (376)
T ss_dssp HHHHSTTS-HHHHHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHHT---------SS--HHHHHHHHHHHH----HH
T ss_pred eEeecCCCCHHHHHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhcCCC------CCC--HHHHHHHHHHHH----HH
Confidence 3455665554 4567788899999999997765 3677766655542111 111 233333333333 23
Q ss_pred hcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHH
Q 048111 106 TKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRII 185 (304)
Q Consensus 106 ~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~ 185 (304)
+--++.+-+-+.++--+++.+..-|++-. +-.|.-..|-..-+.=+|.....+.+.+- ....|+. ..+.++.
T Consensus 140 ~~fgpf~anmI~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiFP-k~~fpe~-----~~~~~y~ 211 (376)
T PF06330_consen 140 RHFGPFCANMIVKSTLDFINGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIFP-KALFPEV-----EYFIQYT 211 (376)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT---TTTS-TT-----TTHHHHH
T ss_pred HHcchHHHHHHHHHHHHHHHHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeecc-cccCChH-----HHHHHHH
Confidence 32345556667778889999999887643 33454334444455566666666653331 2223332 2334433
Q ss_pred HHH---HHHHHHhcCccchhhhhh-cCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHHh
Q 048111 186 RAS---TIIGRLVNDIKSHKFEQE-RGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINEE 251 (304)
Q Consensus 186 ~~~---~~i~rL~NDi~s~~~E~~-~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~~ 251 (304)
.+. ...+-++|||.||=||.- .|+.+|.|.-+-.-+ | +|.-+|...+.+..-.+-+++.+-
T Consensus 212 ~AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~---g--~S~~eaL~~l~~eti~a~~rv~~v 276 (376)
T PF06330_consen 212 PAIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVH---G--VSILEALRELTDETIEAVERVRRV 276 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHH---T----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhcc---C--CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 333 344568899999999977 788899998888778 8 999999998766666665554443
No 10
>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=97.90 E-value=0.00051 Score=63.77 Aligned_cols=195 Identities=14% Similarity=0.047 Sum_probs=116.5
Q ss_pred CchHHHH-HHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCcc
Q 048111 33 EYSLARK-LLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELATKGWSY 111 (304)
Q Consensus 33 ~~s~~R~-~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~ 111 (304)
..|..=+ .++-....++++||.-|... +.++.|.+-+..=.+ ... ++...+...+..+.+. -|++
T Consensus 80 ~~skev~~~isi~~tY~~~lDD~~~e~~--~~m~~f~~dL~~G~~---qkh-----P~l~~v~~~l~~~lr~----fGpF 145 (357)
T cd00686 80 KVSKECMADLSIHYTYTLVLDDSKDDPY--PTMVNYFDDLQAGRE---QAH-----PWWALVNEHFPNVLRH----FGPF 145 (357)
T ss_pred CCCHHHHHHHHHHHheeeEecccccccc--hHHHHHHHHHhcCCC---CCC-----cHHHHHHHHHHHHHHH----hhhh
Confidence 3555533 45667788889999966543 567777665543111 111 2222222222222221 2444
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHH--
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRAST-- 189 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~-- 189 (304)
+-.-+.+.--+++.+..-|... -+.-|.-.+|-...+.=+|.+-..+.++ .|++.+.-...+..+..+..
T Consensus 146 ~s~~IikSTLdFv~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~Fi------FPk~~FpE~~~~~qi~~AIp~~ 217 (357)
T cd00686 146 CSLNLIRSTLDFFEGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASL------WPKEQFNERSLFLEITSAIAQM 217 (357)
T ss_pred hHHHHHHHHHHHHHHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEe------cchhhCchHhhHHHhhHHHHHH
Confidence 4555667777889988888663 3446766666666777677666654422 24443322122333333433
Q ss_pred -HHHHHhcCccchhhhhhc-CCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 048111 190 -IIGRLVNDIKSHKFEQER-GHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINEECLMP 255 (304)
Q Consensus 190 -~i~rL~NDi~s~~~E~~~-G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~~~l~~ 255 (304)
...-++|||.||=||.-. ++-.|.|.-|.+.+ | +|..+|.+.+.+-.-.+-+++.. +|.+
T Consensus 218 ~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~---G--iS~~eAL~~lt~dTv~~s~rv~~-VLse 279 (357)
T cd00686 218 ENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSD---E--ISLHEALEKLTQDTLHSSKQMVA-VFSD 279 (357)
T ss_pred HHHHHhhhhhhheehhhcccccccchHHHhhhhc---C--CCHHHHHHHHHHHHHHHHHHHHH-HhcC
Confidence 344588999999999854 45678888888889 9 99999999877766666666554 3543
No 11
>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=92.29 E-value=2 Score=37.71 Aligned_cols=88 Identities=16% Similarity=0.143 Sum_probs=59.6
Q ss_pred ehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhh-hhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHH
Q 048111 113 VHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLV-TSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTII 191 (304)
Q Consensus 113 ~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~-s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i 191 (304)
...+.+....++.|...+..|... ..||.++|+..... |.+.....+......+. -+++..+ ...++.+..++.
T Consensus 87 ~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~lG~a 161 (236)
T cd00867 87 LELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAE---ALKDYGRALGLA 161 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHH---HHHHHHHHHHHH
Confidence 455667788999999999888644 57899999999988 65554333332222222 2333222 235678888999
Q ss_pred HHHhcCccchhhhh
Q 048111 192 GRLVNDIKSHKFEQ 205 (304)
Q Consensus 192 ~rL~NDi~s~~~E~ 205 (304)
..+.||+..+....
T Consensus 162 ~Qi~dd~~D~~~d~ 175 (236)
T cd00867 162 FQLTDDLLDVFGDA 175 (236)
T ss_pred HHHHHHhccccCCh
Confidence 99999999886654
No 12
>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=91.96 E-value=9 Score=34.41 Aligned_cols=209 Identities=19% Similarity=0.204 Sum_probs=108.8
Q ss_pred HHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHH----HHHHHHhhhhccccccccCchhHHHHHHHHHH
Q 048111 20 ESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKE----LDLFTAAIDRWDMSCMDQLPEYMQIFYEALLD 95 (304)
Q Consensus 20 e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~ee----l~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~ 95 (304)
.++|++. .+-| ...|-.+.-+-.+.-.+||+-|.....++ ++-+-++++..-....+..+....++..++..
T Consensus 6 ~sf~~a~--~~lP--~~~R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~ 81 (267)
T PF00494_consen 6 RSFYLAS--LLLP--KEKRPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALAD 81 (267)
T ss_dssp HHHHHHH--TTS---HHHHHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHH
T ss_pred ccHHHHH--HHCC--HHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHH
Confidence 3444444 3445 34555555677888899999998764332 33444444432211111233344566666665
Q ss_pred HHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCH-HH
Q 048111 96 LYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTK-EA 174 (304)
Q Consensus 96 ~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~-e~ 174 (304)
+... ...-++.+.+++.++.+. .....++|++|.......+.|.-..+++..++.. -++ +.
T Consensus 82 ~~~~-------------~~l~~~~l~~li~~~~~d---l~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~~~~ 143 (267)
T PF00494_consen 82 LVRR-------------YGLPREPLLELIDGMEMD---LEFTPYETFADLERYCYYVAGSVGLLLLQLLGAH--DPDEAA 143 (267)
T ss_dssp HHCC-------------SHHHHHHHHHHHHHHHHC---TT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSHHHH
T ss_pred HHHH-------------HhhhHHHHHHHHHHhccc---ccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccc--cchhhH
Confidence 5522 223455677778877533 3335578999998888888887766666555542 122 22
Q ss_pred HhhccchhHHHHHHHHHHHHhcCccchhhh-hhcCCC--chhHHHHHhhcccCCcccCHHHHHHH----------HHHHH
Q 048111 175 FDWVSEKPRIIRASTIIGRLVNDIKSHKFE-QERGHP--ASAIECYMKEKEREGVSVTQQEVHEE----------LYKKV 241 (304)
Q Consensus 175 ~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E-~~~G~~--~n~V~~ym~e~~~~g~~~s~eeA~~~----------i~~~i 241 (304)
. +.....+...-+.|=+...... ..+|.+ +. =.|.+| | +|.++-.+. +..++
T Consensus 144 ~-------~~a~~lG~alql~nilRd~~~D~~~~gR~ylP~---d~l~~~---g--v~~~dl~~~~~~~~~~~~~~~~~~ 208 (267)
T PF00494_consen 144 R-------DAARALGRALQLTNILRDIPEDALRRGRIYLPL---DDLRRF---G--VTPEDLLAGRPRSERLRALIRELA 208 (267)
T ss_dssp H-------HHHHHHHHHHHHHHHHHTHHHH-HHTT---S-H---HHHHHT---T--SSHHHHHHHG-GGHHHHHHHHHHH
T ss_pred H-------HHHHHHHHHHHHHHHHHHhHHHHHhcccccCCc---hhHHHc---C--CCHHHHHhcccCCHHHHHHHHHHH
Confidence 2 2344444444455545555566 566653 33 246778 8 888765432 34455
Q ss_pred HHHHHHHHHhhcCCCCC-cHHHHHH
Q 048111 242 GDAWKDINEECLMPTEV-PRALLMR 265 (304)
Q Consensus 242 ~~~~k~ln~~~l~~~~~-p~~~~~~ 265 (304)
+.+...+.+..-....+ |..+.-.
T Consensus 209 ~~A~~~l~~a~~~~~~l~~~~~~~~ 233 (267)
T PF00494_consen 209 ARARAHLDEARAGLSALPPPRARPA 233 (267)
T ss_dssp HHHHHHHHHHHHGGGGS--TTHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCHhhhHH
Confidence 55554444333222346 4334433
No 13
>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=88.93 E-value=20 Score=33.52 Aligned_cols=87 Identities=13% Similarity=0.059 Sum_probs=55.1
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTII 191 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i 191 (304)
....+.+.....+.+-+.+..+... ..+|.++|+.....-+|..+..++..-++--..+++..+. ..++-+..++.
T Consensus 134 ~~~~~~~~~~~~~~Gq~~~~~~~~~-~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~---l~~~G~~lG~a 209 (322)
T TIGR02749 134 VVKLISKVITDFAEGEIKQGLNQFD-SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAND---LYEYGKHLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccC-CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHHH
Confidence 3555666777788887777665433 3479999998766655554332221111112345554443 35677889999
Q ss_pred HHHhcCccchh
Q 048111 192 GRLVNDIKSHK 202 (304)
Q Consensus 192 ~rL~NDi~s~~ 202 (304)
.-+.||+..+.
T Consensus 210 FQi~DDild~~ 220 (322)
T TIGR02749 210 FQVVDDILDFT 220 (322)
T ss_pred HHHHHHhccCC
Confidence 99999998875
No 14
>PLN02857 octaprenyl-diphosphate synthase
Probab=88.81 E-value=18 Score=35.20 Aligned_cols=87 Identities=14% Similarity=0.098 Sum_probs=55.4
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTII 191 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i 191 (304)
....+.+...+++.+-+.+..+.. +.-+|.++|+.....-+|.....++..-++--..+++..+. ..++-+..++.
T Consensus 228 ~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~---l~~fG~~LGiA 303 (416)
T PLN02857 228 VIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQ---MYEYGKNLGLA 303 (416)
T ss_pred HHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHH
Confidence 355566667777777777766654 34579999998877655555433221111112345554443 35677888899
Q ss_pred HHHhcCccchh
Q 048111 192 GRLVNDIKSHK 202 (304)
Q Consensus 192 ~rL~NDi~s~~ 202 (304)
.-+.+|+..+.
T Consensus 304 FQI~DDiLD~~ 314 (416)
T PLN02857 304 FQVVDDILDFT 314 (416)
T ss_pred HHHHHHHHhhc
Confidence 99999999876
No 15
>PLN02890 geranyl diphosphate synthase
Probab=87.41 E-value=22 Score=34.63 Aligned_cols=90 Identities=14% Similarity=0.047 Sum_probs=60.2
Q ss_pred ceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHH
Q 048111 111 YRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTI 190 (304)
Q Consensus 111 ~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~ 190 (304)
..+..+.++...++.+-+.+..|.. ...+|.++|+.....-+|.....++..-++--..+++..+. .-++-+..++
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~---l~~fG~~lGl 302 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVL---AFEYGRNLGL 302 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHH---HHHHHHHHHH
Confidence 4466777888889999888888864 34689999998766655555433322211111245555443 2467788899
Q ss_pred HHHHhcCccchhhh
Q 048111 191 IGRLVNDIKSHKFE 204 (304)
Q Consensus 191 i~rL~NDi~s~~~E 204 (304)
..-+.||+..|.-.
T Consensus 303 AFQI~DDiLD~~g~ 316 (422)
T PLN02890 303 AFQLIDDVLDFTGT 316 (422)
T ss_pred HHHHHHHHHhhcCC
Confidence 99999999988543
No 16
>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=87.31 E-value=22 Score=32.12 Aligned_cols=120 Identities=17% Similarity=0.144 Sum_probs=62.9
Q ss_pred HHHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccC-CCHHH----HHHHHHhhhhccccccccCchhHHHHHHHHH
Q 048111 20 ESYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVY-ATPKE----LDLFTAAIDRWDMSCMDQLPEYMQIFYEALL 94 (304)
Q Consensus 20 e~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~-~t~ee----l~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~ 94 (304)
++|+++.-.. |. ..|..+.-+-.|.=..||+-|.. .+.++ ++.+-++++. ....-|. .++..++.
T Consensus 6 ~sf~~a~~~l--p~--~~R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~----~~~g~~~--~pv~~aL~ 75 (266)
T TIGR03464 6 ENFPVASLLL--PA--RLRAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDA----IYSGEPA--APVFVALA 75 (266)
T ss_pred CcHHHHHHhC--CH--HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHH----HhCCCCC--ChHHHHHH
Confidence 3555555433 43 23444445667778899999975 44443 2222222221 1111121 24556666
Q ss_pred HHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHh
Q 048111 95 DLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLG 165 (304)
Q Consensus 95 ~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~ 165 (304)
.++.+. +.. ++.+.+++.++.... .....+|++|...+...+.|+--.+++..++
T Consensus 76 ~~~~~~--------~l~-----~~~~~~li~~~~~Dl---~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g 130 (266)
T TIGR03464 76 RTVQRH--------GLP-----IEPFLDLLDAFRQDV---VVTRYATWAELLDYCRYSANPVGRLVLDLYG 130 (266)
T ss_pred HHHHHc--------CCC-----hHHHHHHHHHHHHhc---cCCCCCCHHHHHHHHHHhHHHHHHHHHHHcC
Confidence 655432 211 345566666664222 2345679888888887777766665554443
No 17
>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=86.52 E-value=24 Score=31.69 Aligned_cols=89 Identities=18% Similarity=0.057 Sum_probs=59.0
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTII 191 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i 191 (304)
....+.+.....+.+-..+..|... ..||.++|++....-+|.....+...-++--..+++..+. ..++-+..++.
T Consensus 109 ~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG~a 184 (259)
T cd00685 109 ALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLGLA 184 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHH
Confidence 4555667777888888888887554 5799999999988777766544332222211123443332 35678888889
Q ss_pred HHHhcCccchhhh
Q 048111 192 GRLVNDIKSHKFE 204 (304)
Q Consensus 192 ~rL~NDi~s~~~E 204 (304)
.-+.||+..+...
T Consensus 185 fQi~DD~ld~~~~ 197 (259)
T cd00685 185 FQIQDDILDLFGD 197 (259)
T ss_pred HHHHHHhhcccCC
Confidence 9999998877543
No 18
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=85.58 E-value=29 Score=32.47 Aligned_cols=105 Identities=20% Similarity=0.159 Sum_probs=69.7
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTII 191 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i 191 (304)
....+.+....++.+-..+-.+.... +|.|+|+++-..=+|.....+...-++--..+++..+. ...+-+..++.
T Consensus 135 ~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~---l~~~g~~lGla 209 (322)
T COG0142 135 AIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEA---LEDYGRNLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHhhHH
Confidence 45666777888888888887775544 99999999887766665544332222211223555554 35678889999
Q ss_pred HHHhcCccchhhhhh-cCCC---------chhHHHHHhhc
Q 048111 192 GRLVNDIKSHKFEQE-RGHP---------ASAIECYMKEK 221 (304)
Q Consensus 192 ~rL~NDi~s~~~E~~-~G~~---------~n~V~~ym~e~ 221 (304)
.-+.||+..+.-+.+ -|+. .+...++.-++
T Consensus 210 FQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~ 249 (322)
T COG0142 210 FQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEK 249 (322)
T ss_pred HHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHc
Confidence 999999998875422 2332 36666777666
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=78.51 E-value=58 Score=30.37 Aligned_cols=86 Identities=13% Similarity=0.052 Sum_probs=55.1
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhC-CCCCCHHHHhhccchhHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGM-DSVVTKEAFDWVSEKPRIIRASTI 190 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~-g~~~~~e~~~~~~~~~~l~~~~~~ 190 (304)
....+.++....+.+-..+..|.. +.-+|.++|++.-..-+|..+..++ ..+. --..+++..+. ..++-+..++
T Consensus 130 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~ag~~~~~~~~---l~~~g~~lG~ 204 (319)
T TIGR02748 130 AHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIASGANEAIVKK---LYWFGYYVGM 204 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 355666777788888777777643 3457999999887766665543322 2221 01234443333 3567788899
Q ss_pred HHHHhcCccchh
Q 048111 191 IGRLVNDIKSHK 202 (304)
Q Consensus 191 i~rL~NDi~s~~ 202 (304)
..-+.||+..+.
T Consensus 205 aFQI~DDilD~~ 216 (319)
T TIGR02748 205 SYQITDDILDFV 216 (319)
T ss_pred HHHHHHHHHHcc
Confidence 999999998775
No 20
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes
Probab=76.86 E-value=56 Score=29.32 Aligned_cols=209 Identities=20% Similarity=0.223 Sum_probs=103.0
Q ss_pred HHHhhhhcccCCCchHHHHHHHHHHHHHHhhhhhhccCCCH-H----HHHHHHHhhhhccccccccCchhHHHHHHHHHH
Q 048111 21 SYFWIVGVYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATP-K----ELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLD 95 (304)
Q Consensus 21 ~yf~~~~~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~-e----el~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~ 95 (304)
+++++.-. -|. ..|..+.-+-.+.-.+||+-|..... . .++-+-++++.-.. +..|. .++..++..
T Consensus 13 sf~~a~~~--lp~--~~R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~---~~~~~--~pv~~al~~ 83 (265)
T cd00683 13 SFYLASRL--LPP--ELRRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYW---GGAPT--HPVLRALAD 83 (265)
T ss_pred cHHHHHHh--CCH--HHHHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHc---CCCCC--ChHHHHHHH
Confidence 45555433 342 34444445667777899999976432 2 23333333332111 11122 245566655
Q ss_pred HHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHH
Q 048111 96 LYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAF 175 (304)
Q Consensus 96 ~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~ 175 (304)
+..+ .+.-++.+.+++.++..... ....||++|.......+.|+--.+++..++.+ -+++..
T Consensus 84 ~~~~-------------~~l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~ 145 (265)
T cd00683 84 LARR-------------YGIPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAAL 145 (265)
T ss_pred HHHH-------------cCCCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHH
Confidence 5531 11224567788888765444 35678988777777766665555454444321 122221
Q ss_pred hhccchhHHHHHHHHHHHHhcCccchhhhhhcCCC--chhHHHHHhhcccCCcccCHHHH---------HHHHHHHHHHH
Q 048111 176 DWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHP--ASAIECYMKEKEREGVSVTQQEV---------HEELYKKVGDA 244 (304)
Q Consensus 176 ~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~--~n~V~~ym~e~~~~g~~~s~eeA---------~~~i~~~i~~~ 244 (304)
+.....+...-|.|=+.......++|.+ +.-+ |.++ | +|.|+- ..-+..+++.+
T Consensus 146 -------~~A~~lG~AlqltnilRdv~eD~~~gR~YlP~d~---l~~~---g--v~~~~l~~~~~~~~~~~~~~~~~~~A 210 (265)
T cd00683 146 -------ERARALGLALQLTNILRDVGEDARRGRIYLPREE---LARF---G--VTLEDLLAPENSPAFRALLRRLIARA 210 (265)
T ss_pred -------HHHHHHHHHHHHHHHHHHHHHHHccCCCcCCHHH---HHHc---C--CCHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 2233333333333333333344456643 3322 6777 7 877553 24445555555
Q ss_pred HHHHHHhhcCCCCCcHHHHHHHHHHHh
Q 048111 245 WKDINEECLMPTEVPRALLMRVLNLSR 271 (304)
Q Consensus 245 ~k~ln~~~l~~~~~p~~~~~~~ln~aR 271 (304)
.+.+....-....+|....-.++-++.
T Consensus 211 ~~~~~~a~~~~~~lp~~~~~~~~~~~~ 237 (265)
T cd00683 211 RAHYREALAGLAALPRRSRFCVRAAAM 237 (265)
T ss_pred HHHHHHHHHhHHhCCHhhHHHHHHHHH
Confidence 544444332224577655444444443
No 21
>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=74.67 E-value=65 Score=29.00 Aligned_cols=195 Identities=12% Similarity=0.118 Sum_probs=95.1
Q ss_pred HHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhcccc---ccccCchhHHHHHHHHHHHHHHHHHHHHhcCCccee
Q 048111 37 ARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMS---CMDQLPEYMQIFYEALLDLYKEIEEELATKGWSYRV 113 (304)
Q Consensus 37 ~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~---~~~~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~~ 113 (304)
.|-.+.-+-.+.-.+||+-|..++.++.+.- ++.|... ....-|. .++..++..++... +
T Consensus 19 ~R~~~~alYaf~r~~d~i~D~~~~~~~~~~~---L~~w~~~l~~~~~g~~~--~pv~~al~~~~~~~--------~---- 81 (266)
T TIGR03465 19 RRRAMTALYAFCREVDDIVDEDSDPEVAQAK---LAWWRAEIDRLYAGAPS--HPVARALADPARRF--------D---- 81 (266)
T ss_pred HHHHHHHHHHHHHHHHhhhcCCCCchHHHHH---HHHHHHHHHHHhCCCCC--ChHHHHHHHHHHHc--------C----
Confidence 3444455667778899999985444332221 2233211 0011121 24555555444221 1
Q ss_pred hhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHHHH
Q 048111 114 HYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTIIGR 193 (304)
Q Consensus 114 ~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~r 193 (304)
--++.+.+++.++..... ....+|++|+......+.|+-..+++..+ |.. ++... ......+...-
T Consensus 82 -l~~~~~~~li~g~~~Dl~---~~~~~t~~dL~~Y~~~vAg~vg~l~~~ll--g~~-~~~~~-------~~a~~lG~Alq 147 (266)
T TIGR03465 82 -LPQEDFLEVIDGMEMDLE---QTRYPDFAELDLYCDRVAGAVGRLSARIF--GAT-DARTL-------EYAHHLGRALQ 147 (266)
T ss_pred -CCHHHHHHHHHHHHHHcC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCC-ChhHH-------HHHHHHHHHHH
Confidence 113557777777754333 34567988888877777666555554444 321 12221 12223333333
Q ss_pred HhcCccchhhhhhcCCC--chhHHHHHhhcccCCcccCHHH---------HHHHHHHHHHHHHHHHHHhhcCCCCCcHHH
Q 048111 194 LVNDIKSHKFEQERGHP--ASAIECYMKEKEREGVSVTQQE---------VHEELYKKVGDAWKDINEECLMPTEVPRAL 262 (304)
Q Consensus 194 L~NDi~s~~~E~~~G~~--~n~V~~ym~e~~~~g~~~s~ee---------A~~~i~~~i~~~~k~ln~~~l~~~~~p~~~ 262 (304)
|.|=+........+|.+ +- =-|.++ | +|.++ ..+-+..+++.+...+.+..-....+|...
T Consensus 148 ltnilRdv~eD~~~gR~ylP~---~~l~~~---g--v~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~ 219 (266)
T TIGR03465 148 LTNILRDVGEDARRGRIYLPA---EELQRF---G--VPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRA 219 (266)
T ss_pred HHHHHHHhHHHHhCCCeecCH---HHHHHc---C--CCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhh
Confidence 33333333344556753 22 125667 7 87663 344455666666554444322224577655
Q ss_pred HHHHHHHH
Q 048111 263 LMRVLNLS 270 (304)
Q Consensus 263 ~~~~ln~a 270 (304)
...++-.+
T Consensus 220 ~~~~~~~~ 227 (266)
T TIGR03465 220 QRAARAMA 227 (266)
T ss_pred hHHHHHHH
Confidence 44444333
No 22
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=74.21 E-value=3 Score=34.87 Aligned_cols=54 Identities=20% Similarity=0.268 Sum_probs=36.3
Q ss_pred cchhHHHHHHHHHHHHhcCccchhhh------hhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHH
Q 048111 179 SEKPRIIRASTIIGRLVNDIKSHKFE------QERGHPASAIECYMKEKEREGVSVTQQEVHEELYKK 240 (304)
Q Consensus 179 ~~~~~l~~~~~~i~rL~NDi~s~~~E------~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~ 240 (304)
++..+|.+++.-|.+ -+|..+= ..||..+..|.||+-++. + .|.++|.+++++.
T Consensus 90 Ps~~~i~~aVeFi~k----~asLGktvYVHCKAGRtRSaTvV~cYLmq~~--~--wtpe~A~~~vr~i 149 (183)
T KOG1719|consen 90 PSLENIQKAVEFIHK----NASLGKTVYVHCKAGRTRSATVVACYLMQHK--N--WTPEAAVEHVRKI 149 (183)
T ss_pred CCHHHHHHHHHHHHh----ccccCCeEEEEecCCCccchhhhhhhhhhhc--C--CCHHHHHHHHHhc
Confidence 444555555554433 2333321 236677899999999986 7 9999999998874
No 23
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=69.23 E-value=1e+02 Score=28.88 Aligned_cols=87 Identities=18% Similarity=0.051 Sum_probs=56.0
Q ss_pred eehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHh-CCCCCCHHHHhhccchhHHHHHHHH
Q 048111 112 RVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLG-MDSVVTKEAFDWVSEKPRIIRASTI 190 (304)
Q Consensus 112 ~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~-~g~~~~~e~~~~~~~~~~l~~~~~~ 190 (304)
....+.++....+.+-..+..|.. +.-+|.++|+.....-+|.....++ ..+ +--..+++..+. ..++-+..++
T Consensus 131 ~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~~-~~ga~lag~~~~~~~~---l~~~g~~lG~ 205 (323)
T PRK10888 131 VLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAAA-QCSGILAGCTPEQEKG---LQDYGRYLGT 205 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 355566777778888877777643 3357999999887766665543322 222 111234443332 3567888899
Q ss_pred HHHHhcCccchhh
Q 048111 191 IGRLVNDIKSHKF 203 (304)
Q Consensus 191 i~rL~NDi~s~~~ 203 (304)
..-+.||+..+..
T Consensus 206 aFQi~DD~ld~~~ 218 (323)
T PRK10888 206 AFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHhhcccC
Confidence 9999999988853
No 24
>CHL00151 preA prenyl transferase; Reviewed
Probab=67.78 E-value=1.1e+02 Score=28.64 Aligned_cols=87 Identities=8% Similarity=0.012 Sum_probs=52.9
Q ss_pred ehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCCCHHHHhhccchhHHHHHHHHHH
Q 048111 113 VHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVVTKEAFDWVSEKPRIIRASTIIG 192 (304)
Q Consensus 113 ~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~ 192 (304)
...+.+....++.+-+.+..+.. ..-+|.++|+.....-+|.....++..-++--..+++..+. ..++-+..++..
T Consensus 136 ~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~---l~~~G~~lG~aF 211 (323)
T CHL00151 136 VKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHND---FYLYGKHLGLAF 211 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHHH
Confidence 45566777777777776665532 33578999999755545544432221111111234444333 356778889999
Q ss_pred HHhcCccchhh
Q 048111 193 RLVNDIKSHKF 203 (304)
Q Consensus 193 rL~NDi~s~~~ 203 (304)
-+.||+..+.-
T Consensus 212 Qi~DDilD~~~ 222 (323)
T CHL00151 212 QIIDDVLDITS 222 (323)
T ss_pred HHHHHHhhccc
Confidence 99999988753
No 25
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=66.07 E-value=4.3 Score=35.07 Aligned_cols=50 Identities=20% Similarity=0.174 Sum_probs=31.8
Q ss_pred HHHHhcCccchhhhhhcCC-CchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHH
Q 048111 191 IGRLVNDIKSHKFEQERGH-PASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAW 245 (304)
Q Consensus 191 i~rL~NDi~s~~~E~~~G~-~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~ 245 (304)
.-+|--++..+++..+.-+ +.-+=.++|+.+ | +|++||.++++++.-+..
T Consensus 127 ~~~L~~el~~~k~~L~~rK~ierAKglLM~~~---g--~sE~EAy~~lR~~AM~Rr 177 (194)
T COG3707 127 RRALRRELAKLKDRLEERKVIERAKGLLMKRR---G--LSEEEAYKLLRRTAMDRR 177 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---C--CCHHHHHHHHHHHHHhcc
Confidence 4444455555554432211 223334899999 9 999999999998765543
No 26
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=58.88 E-value=1.6e+02 Score=27.72 Aligned_cols=98 Identities=16% Similarity=0.169 Sum_probs=62.1
Q ss_pred HHhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHH
Q 048111 163 FLGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVG 242 (304)
Q Consensus 163 ~~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~ 242 (304)
-++..+.++++..+.+. ....-.++-+-.|++-....+.+...|+. |.|..| -+.+++.+.+.-.++
T Consensus 199 a~A~~p~~t~~~a~~i~--~aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv~YY----------~~~~~~~~Rl~~f~~ 265 (330)
T PF10776_consen 199 AYAADPDLTPEDAEKIK--DAYFPWICGLHILLDYFIDQEEDREGGDL-NFVFYY----------PDEEEMEERLKYFVE 265 (330)
T ss_pred HHHcCCCCCHHHHHHHH--HcccHHHHHHHHHHHHHhhhHhHhcCCCc-eeeeeC----------CCHHHHHHHHHHHHH
Confidence 34456668877766542 23333455566677777776777778877 888643 378999999999999
Q ss_pred HHHHHHHHhhcCCCCCcHHHHHHHHHHHhhhhhhcccCCC
Q 048111 243 DAWKDINEECLMPTEVPRALLMRVLNLSRVIDIIYKEADD 282 (304)
Q Consensus 243 ~~~k~ln~~~l~~~~~p~~~~~~~ln~aR~~~~~Y~~~D~ 282 (304)
++-+...+ +|.+--...++ |.+--+|-.++.
T Consensus 266 ~A~~~~~~-------Lp~~~fHr~iv--~GLla~YLSD~K 296 (330)
T PF10776_consen 266 KALEQASR-------LPYPKFHRMIV--RGLLAMYLSDPK 296 (330)
T ss_pred HHHHHHHh-------CCCchHHHHHH--HHHHHHHhCCHh
Confidence 99977664 55543333333 333336865543
No 27
>PF03861 ANTAR: ANTAR domain; InterPro: IPR005561 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins []. This domain has been detected in various response regulators of two-component systems, which are structured around two proteins, a histidine kinase and a response regulator. This domain is also found in one-component sensory regulators from a variety of bacteria. Most response regulators interact with DNA, however ANTAR-containing regulators interact with RNA. The majority of the domain consists of a coiled-coil.; PDB: 4AKK_A 1SD5_A 1S8N_A 1QO0_E.
Probab=55.95 E-value=12 Score=25.40 Aligned_cols=31 Identities=16% Similarity=0.113 Sum_probs=22.3
Q ss_pred CchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHH
Q 048111 210 PASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAW 245 (304)
Q Consensus 210 ~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~ 245 (304)
+.-++.+.|..+ | +|+++|.+.+++.-.+.-
T Consensus 15 I~~AkgiLm~~~---g--~~e~~A~~~Lr~~Am~~~ 45 (56)
T PF03861_consen 15 IEQAKGILMARY---G--LSEDEAYRLLRRQAMRRR 45 (56)
T ss_dssp HHHHHHHHHHHH---T----HHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHh---C--cCHHHHHHHHHHHHHHcC
Confidence 345667899999 9 999999998887665543
No 28
>PLN02632 phytoene synthase
Probab=51.37 E-value=2.1e+02 Score=26.81 Aligned_cols=193 Identities=16% Similarity=0.165 Sum_probs=93.3
Q ss_pred HHHHHHHHHHHHHhhhhhhccCCCHH----HHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCcce
Q 048111 37 ARKLLAKIFSMTSIIDYIYDVYATPK----ELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELATKGWSYR 112 (304)
Q Consensus 37 ~R~~~ak~~~l~~~iDD~~D~~~t~e----el~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~ 112 (304)
.|..+.-+-.|.-.+||+-|...... .++..-+.++. ....-|. .++..++.++..+. +
T Consensus 74 ~R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~----~~~g~~~--~pv~~aL~~~~~~~--------~--- 136 (334)
T PLN02632 74 RRKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLED----LFDGRPY--DMLDAALADTVSKF--------P--- 136 (334)
T ss_pred HHHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHH----HhCCCCC--ChHHHHHHHHHHHC--------C---
Confidence 34444456678888999999754322 23333232222 1111122 24455555554322 1
Q ss_pred ehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHhCCCCC--C-HHHHhhccchhHHHHHHH
Q 048111 113 VHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLGMDSVV--T-KEAFDWVSEKPRIIRAST 189 (304)
Q Consensus 113 ~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~~--~-~e~~~~~~~~~~l~~~~~ 189 (304)
.-++.+.+++.++..... ....+|++|+..+...+.|+--.+++..++..... + ++.. +.....+
T Consensus 137 --L~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~-------~~A~~lG 204 (334)
T PLN02632 137 --LDIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVY-------NAALALG 204 (334)
T ss_pred --CChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHH-------HHHHHHH
Confidence 123456777777754432 34567888888877776666555554444332211 1 1111 1222233
Q ss_pred HHHHHhcCccchhhhhhcCCC--chhHHHHHhhcccCCcccCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCC
Q 048111 190 IIGRLVNDIKSHKFEQERGHP--ASAIECYMKEKEREGVSVTQQEV---------HEELYKKVGDAWKDINEECLMPTEV 258 (304)
Q Consensus 190 ~i~rL~NDi~s~~~E~~~G~~--~n~V~~ym~e~~~~g~~~s~eeA---------~~~i~~~i~~~~k~ln~~~l~~~~~ 258 (304)
...-|.|=+.....+..+|.+ +- =-|.++ | +|.++- ..-+..+++.+..-+.+-.-.-..+
T Consensus 205 ~AlQltNILRDv~eD~~~GRvYLP~---e~L~~~---G--v~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~l 276 (334)
T PLN02632 205 IANQLTNILRDVGEDARRGRVYLPQ---DELAQF---G--LTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSEL 276 (334)
T ss_pred HHHHHHHHHHHHHHHHhCCceeCCH---HHHHHc---C--CCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhC
Confidence 333333333333455567753 22 126778 8 988773 2334445555444333322112357
Q ss_pred cHHHHHHH
Q 048111 259 PRALLMRV 266 (304)
Q Consensus 259 p~~~~~~~ 266 (304)
|+.+.-.+
T Consensus 277 p~~~r~~v 284 (334)
T PLN02632 277 DPASRWPV 284 (334)
T ss_pred CHHhHHHH
Confidence 76554333
No 29
>smart00400 ZnF_CHCC zinc finger.
Probab=51.03 E-value=19 Score=24.12 Aligned_cols=25 Identities=24% Similarity=0.276 Sum_probs=20.6
Q ss_pred CCCchhHHHHHhhcccCCcccCHHHHHHHH
Q 048111 208 GHPASAIECYMKEKEREGVSVTQQEVHEEL 237 (304)
Q Consensus 208 G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i 237 (304)
|..+++|..+|+-+ | +|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~---~--~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYD---K--LSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHH---C--cCHHHHHHHh
Confidence 44568999999988 8 9999998765
No 30
>PRK10581 geranyltranstransferase; Provisional
Probab=47.52 E-value=2.3e+02 Score=26.13 Aligned_cols=112 Identities=10% Similarity=0.060 Sum_probs=66.5
Q ss_pred HHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHH--HhCCCCCCHHHHhhccchhHHHHHHHHHHHHhcCcc
Q 048111 122 ILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASF--LGMDSVVTKEAFDWVSEKPRIIRASTIIGRLVNDIK 199 (304)
Q Consensus 122 ~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~--~~~g~~~~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 199 (304)
.++.+-..+..|. +..+|.++|+..-..=+|.....+... +..|. -+++..+. ..++-+..++..-+.+|+.
T Consensus 153 ~l~~GQ~ld~~~~--~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~-~~~~~~~~---l~~~g~~lG~aFQI~DDil 226 (299)
T PRK10581 153 GMCGGQALDLEAE--GKQVPLDALERIHRHKTGALIRAAVRLGALSAGD-KGRRALPV---LDRYAESIGLAFQVQDDIL 226 (299)
T ss_pred hhhHhhHHHHhcc--CCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCC-CcHHHHHH---HHHHHHHHHHHHHHHHHHc
Confidence 4556666666664 346899999987665555443322211 11232 12333333 3567888899999999999
Q ss_pred chhhh-hhcCCC---------chhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHH
Q 048111 200 SHKFE-QERGHP---------ASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINE 250 (304)
Q Consensus 200 s~~~E-~~~G~~---------~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~ 250 (304)
.+.-. ..-|+. .+.+.++ ..|.|.+.+++.++++.+.|..
T Consensus 227 D~~g~~~~~GK~~g~Dl~~gk~T~p~l~-----------~~e~a~~~a~~~~~~A~~~l~~ 276 (299)
T PRK10581 227 DVVGDTATLGKRQGADQQLGKSTYPALL-----------GLEQARKKARDLIDDARQSLDQ 276 (299)
T ss_pred cccCChHHHCCCcchhhhcCCCCHHHHH-----------HHHHHHHHHHHHHHHHHHHHHh
Confidence 88532 222331 1222221 2477888888888888877765
No 31
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=46.74 E-value=78 Score=20.98 Aligned_cols=44 Identities=14% Similarity=0.269 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHH
Q 048111 86 MQIFYEALLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDES 131 (304)
Q Consensus 86 ~k~~~~~l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea 131 (304)
|..+-+++..|++|+.+++..+|- +.+-+.++=++|+.+.-.|.
T Consensus 6 lsmiqkaih~tydelgkei~~~g~--~~d~i~kaqeeylsals~et 49 (58)
T PF13060_consen 6 LSMIQKAIHRTYDELGKEIDLQGV--IADEIQKAQEEYLSALSHET 49 (58)
T ss_pred HHHHHHHHHHhHHHHhHHhhhcch--HHHHHHHHHHHHHHHhhHHH
Confidence 456778999999999999887654 35666667677777665553
No 32
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=42.90 E-value=20 Score=20.93 Aligned_cols=18 Identities=44% Similarity=0.739 Sum_probs=14.6
Q ss_pred HHHhhcccCCcccCHHHHHHHHH
Q 048111 216 CYMKEKEREGVSVTQQEVHEELY 238 (304)
Q Consensus 216 ~ym~e~~~~g~~~s~eeA~~~i~ 238 (304)
-|.++| | +|.|+....+.
T Consensus 9 rYV~eh---~--ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEH---G--LSEEEVAERLA 26 (28)
T ss_pred hhHHhc---C--CCHHHHHHHHH
Confidence 689999 9 99998766554
No 33
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=35.42 E-value=2.7e+02 Score=25.06 Aligned_cols=71 Identities=21% Similarity=0.237 Sum_probs=34.2
Q ss_pred HHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHHhcCCcceeh-hhHHHHHHHHHHHHHHHhHhhCCCCCChHH
Q 048111 66 LFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELATKGWSYRVH-YAKEEMKILVHGYHDESKWFHNNYVPTMEE 144 (304)
Q Consensus 66 ~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~~~~~~~~~~-~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eE 144 (304)
.++.|+++.|++.--..+. .+.+.+-.+|...+........++ ++++.....-+ ...+-. ..-|.-||.+|
T Consensus 77 GLi~AierFDp~~G~~FsT------YA~~~Irg~I~~~lr~~~~~ir~Pr~~~~~~~~i~~-~~~~l~-~~lg~~pt~~e 148 (264)
T PRK07122 77 GLVNAVNRFDVETGSDFVS------FAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGR-ATAELS-QRLGRAPTASE 148 (264)
T ss_pred HHHHHHHHcCCCCCCChHH------HHHHHHHHHHHHHHHHcCCccccCHHHHHHHHHHHH-HHHHHH-HHhCCCCCHHH
Confidence 5889999999863323233 344555555555554433322122 22222222222 111111 13478888666
No 34
>smart00463 SMR Small MutS-related domain.
Probab=34.84 E-value=48 Score=23.81 Aligned_cols=23 Identities=26% Similarity=0.147 Sum_probs=20.8
Q ss_pred CcccCHHHHHHHHHHHHHHHHHHHH
Q 048111 225 GVSVTQQEVHEELYKKVGDAWKDIN 249 (304)
Q Consensus 225 g~~~s~eeA~~~i~~~i~~~~k~ln 249 (304)
| ++.++|+..+...++++++.-.
T Consensus 8 G--~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 8 G--LTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred C--CCHHHHHHHHHHHHHHHHHcCC
Confidence 8 9999999999999999997654
No 35
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=33.39 E-value=1.1e+02 Score=31.02 Aligned_cols=92 Identities=17% Similarity=0.237 Sum_probs=50.9
Q ss_pred HHHhhccchhHHHHHHHHHHHHhcCccc------hhhhhhcCCCch--hHHHHHhhcccCCcccCHHHHHHHHHHHHHHH
Q 048111 173 EAFDWVSEKPRIIRASTIIGRLVNDIKS------HKFEQERGHPAS--AIECYMKEKEREGVSVTQQEVHEELYKKVGDA 244 (304)
Q Consensus 173 e~~~~~~~~~~l~~~~~~i~rL~NDi~s------~~~E~~~G~~~n--~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~ 244 (304)
|+-+-+..+..++..-+.+...-||+.. -+++.-||..-. -+..=|.+. . --.||-++.++....++
T Consensus 302 EVeNLilENsqLLetKNALNiVKNDLIakVDeL~~E~~vLrgElea~kqak~Klee~---i--~elEEElk~~k~ea~~a 376 (832)
T KOG2077|consen 302 EVENLILENSQLLETKNALNIVKNDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEK---I--RELEEELKKAKAEAEDA 376 (832)
T ss_pred HHHHHHHhhHHHHhhhhHHHHHHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHH---H--HHHHHHHHHHHHHHHHH
Confidence 4444445567888877778888888754 344445555421 111222222 1 22334444444444444
Q ss_pred HHHHHHhhcC--CCCCcHHHHHHH--HHHHhhh
Q 048111 245 WKDINEECLM--PTEVPRALLMRV--LNLSRVI 273 (304)
Q Consensus 245 ~k~ln~~~l~--~~~~p~~~~~~~--ln~aR~~ 273 (304)
.++ ... .+.+|..-+++| ..|+|++
T Consensus 377 r~~----~~~~e~ddiPmAqRkRFTRvEMaRVL 405 (832)
T KOG2077|consen 377 RQK----AKDDEDDDIPMAQRKRFTRVEMARVL 405 (832)
T ss_pred HHh----hcccccccccHHHHhhhHHHHHHHHH
Confidence 432 333 467999999888 6788877
No 36
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=33.04 E-value=51 Score=23.83 Aligned_cols=27 Identities=22% Similarity=0.152 Sum_probs=22.0
Q ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHhhc
Q 048111 225 GVSVTQQEVHEELYKKVGDAWKDINEECL 253 (304)
Q Consensus 225 g~~~s~eeA~~~i~~~i~~~~k~ln~~~l 253 (304)
| ++.++|...+.+.++++++.-.+.+.
T Consensus 5 G--~~~~eA~~~l~~~l~~~~~~~~~~~~ 31 (83)
T PF01713_consen 5 G--LTVEEALRALEEFLDEARQRGIRELR 31 (83)
T ss_dssp T--S-HHHHHHHHHHHHHHHHHTTHSEEE
T ss_pred C--CcHHHHHHHHHHHHHHHHHcCCCEEE
Confidence 7 99999999999999999976665443
No 37
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=32.35 E-value=4.2e+02 Score=24.68 Aligned_cols=75 Identities=13% Similarity=0.229 Sum_probs=41.7
Q ss_pred cchhHHHHHHHHHHHHh-cCccchhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHHhhcCC-C
Q 048111 179 SEKPRIIRASTIIGRLV-NDIKSHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINEECLMP-T 256 (304)
Q Consensus 179 ~~~~~l~~~~~~i~rL~-NDi~s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~~~l~~-~ 256 (304)
++.|+++-..+++.... |||..|++=.+. |. ..++.-.=-.+|+.+++.+-..+..-..++| +
T Consensus 299 KNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~-------------~~--~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt 363 (440)
T KOG1464|consen 299 KNDPEILAMTNLVAAYQNNDIIEFERILKS-------------NR--SNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYT 363 (440)
T ss_pred CCCHHHHHHHHHHHHHhcccHHHHHHHHHh-------------hh--ccccccHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 56799999988888776 788877653332 21 2123333344555555555554444444455 4
Q ss_pred CCcHHHHHHHHH
Q 048111 257 EVPRALLMRVLN 268 (304)
Q Consensus 257 ~~p~~~~~~~ln 268 (304)
++--|+...-+|
T Consensus 364 ~i~Ipfis~~Ln 375 (440)
T KOG1464|consen 364 NIGIPFISKELN 375 (440)
T ss_pred ccCchhhHhhcC
Confidence 444444443333
No 38
>PF01807 zf-CHC2: CHC2 zinc finger; InterPro: IPR002694 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents CycHisCysCys (CHC2) type zinc finger domains, which are found in bacteria and viruses. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0003896 DNA primase activity, 0008270 zinc ion binding, 0006260 DNA replication; PDB: 1D0Q_B 2AU3_A.
Probab=31.16 E-value=55 Score=24.78 Aligned_cols=30 Identities=27% Similarity=0.379 Sum_probs=20.5
Q ss_pred CCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHH
Q 048111 208 GHPASAIECYMKEKEREGVSVTQQEVHEELYKKVG 242 (304)
Q Consensus 208 G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~ 242 (304)
|..+|+|..+|+-+ | +|-.||++.+.++..
T Consensus 61 g~~Gd~i~~v~~~~---~--~~f~eAv~~l~~~~~ 90 (97)
T PF01807_consen 61 GKGGDVIDFVMKYE---G--CSFKEAVKWLAEEFG 90 (97)
T ss_dssp --EE-HHHHHHHHH---T----HHHHHHHHHHHHT
T ss_pred CCCCcHHhHHHHHh---C--CCHHHHHHHHHHHhC
Confidence 45568999999888 8 999999988877653
No 39
>TIGR03486 cas_csx13_C CRISPR-associated protein, Cas_csx13 family, C-terminal region. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the C-terminal region or upstream gene; the N-terminal region is modelled by TIGR03485. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.
Probab=30.07 E-value=67 Score=26.69 Aligned_cols=68 Identities=19% Similarity=0.200 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHHh
Q 048111 36 LARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELAT 106 (304)
Q Consensus 36 ~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~~ 106 (304)
..|=+++.+..+++-=||+-.-.--...|..++...+.||...-. --++.|..++-.++..|..+...
T Consensus 7 ~grpW~a~F~~~~~~~~~f~~~~~er~gL~~M~~~~~~~~~e~eq---~fiqa~HeAlr~~~~qI~~~tk~ 74 (152)
T TIGR03486 7 QGRPWYANFAKPLKWKIDFKERKRERDELNKMIENSEIWDSEAEQ---WFVQSFHEALRRIYAKIASHTKR 74 (152)
T ss_pred cCCcHHHHHHHHHHhhHHHHHHHHHHHhHHHHHHHHHhcccHHHH---HHHHHHHHHHHHHHHHHHHHhhh
Confidence 334445555555544444422211234567777777767643110 11345555555666666655443
No 40
>PF05772 NinB: NinB protein; InterPro: IPR008711 The ninR region of Bacteriophage lambda contains two recombination genes, orf (ninB) and rap (ninG), that have roles when the RecF and RecBCD recombination pathways of Escherichia coli, respectively, operate on phage lambda []. Genetic recombination in phage lambda relies on DNA end processing by Exo to expose 3'-tailed strands for annealing and exchange by beta protein. Phage lambda encodes an additional recombinase, NinB (Orf), which participates in the early stages of recombination by supplying a function equivalent to the E. coli RecFOR complex. These host enzymes assist loading of the RecA strand exchange protein onto ssDNA coated with ssDNA-binding protein. NinB has two structural domains with unusual folds, and exists as an intertwined dimer [].; PDB: 1PC6_B.
Probab=28.37 E-value=32 Score=27.76 Aligned_cols=56 Identities=16% Similarity=0.192 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHhcCCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChH-HHHhhhhhh
Q 048111 93 LLDLYKEIEEELATKGWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTME-EYMRVSLVT 152 (304)
Q Consensus 93 l~~~~~ei~~~~~~~~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~e-EYl~~~~~s 152 (304)
++-.+.+|++.+...| ..+-.+.|++++.+.+.-++.....-+|.+| |+...+..|
T Consensus 43 lwa~l~dIs~qv~~~G----~k~~~e~WK~~~~~~~~~~~~~~~~~~~gl~Gg~v~~g~sT 99 (127)
T PF05772_consen 43 LWAMLGDISRQVEWNG----RKLDPEDWKELFTAAFLIATGEEQRVVPGLDGGFVVLGEST 99 (127)
T ss_dssp HHHHHHHHHHH--BTT----B---HHHHHHHHHHHH-----S--EEEE-TTSSEEEE---T
T ss_pred HHHHHHHHHHHhHhcC----ccCCHHHHHHHHHHHHhhhccchhhhccCCCCCeEEEeeec
Confidence 4567788887766544 3556899999999888666655555566666 554444433
No 41
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=27.08 E-value=1.2e+02 Score=27.63 Aligned_cols=64 Identities=22% Similarity=0.241 Sum_probs=47.7
Q ss_pred chhhhhhcCCCchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHH----------hhcCCCCCcHHHHHHHHHH
Q 048111 200 SHKFEQERGHPASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINE----------ECLMPTEVPRALLMRVLNL 269 (304)
Q Consensus 200 s~~~E~~~G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~----------~~l~~~~~p~~~~~~~ln~ 269 (304)
.|++||+- .+.++..+... | .+.++|..++.--+++.+-++-. +.|...++|...+..+.++
T Consensus 96 ~wk~~qka---~klle~aaekl---~--~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~ 167 (269)
T COG1093 96 EWKKEQKA---DKLLELAAEKL---G--KDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEI 167 (269)
T ss_pred HHHHHHHH---HHHHHHHHHHh---C--CCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHH
Confidence 45666653 47788888888 8 99999999998888877654433 2333346888999999999
Q ss_pred Hh
Q 048111 270 SR 271 (304)
Q Consensus 270 aR 271 (304)
||
T Consensus 168 a~ 169 (269)
T COG1093 168 AR 169 (269)
T ss_pred HH
Confidence 98
No 42
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=25.63 E-value=1.1e+02 Score=22.08 Aligned_cols=30 Identities=30% Similarity=0.536 Sum_probs=24.1
Q ss_pred hHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHH
Q 048111 213 AIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKD 247 (304)
Q Consensus 213 ~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ 247 (304)
.|...+-+. | ++.|+|.+.+++....+|+.
T Consensus 8 ~v~~~L~~~---G--~gR~~Ah~lv~~~a~~a~~~ 37 (81)
T PF10397_consen 8 RVMLALAEK---G--LGRQEAHELVQEAAMEAWEN 37 (81)
T ss_dssp HHHHHHHHT---T--H-HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHH---c--cCHHHHHHHHHHHHHHHHHH
Confidence 455566677 8 99999999999999999963
No 43
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=24.98 E-value=80 Score=25.24 Aligned_cols=23 Identities=26% Similarity=0.424 Sum_probs=18.4
Q ss_pred hhHHHHHhhcccCCcccCHHHHHHHHHH
Q 048111 212 SAIECYMKEKEREGVSVTQQEVHEELYK 239 (304)
Q Consensus 212 n~V~~ym~e~~~~g~~~s~eeA~~~i~~ 239 (304)
-=|.+.|.|- | +|.++|++.+.+
T Consensus 86 eDIkLV~eQa---~--VsreeA~kAL~e 108 (122)
T COG1308 86 EDIKLVMEQA---G--VSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHHh---C--CCHHHHHHHHHH
Confidence 3467889999 9 999999877654
No 44
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=24.31 E-value=5.6e+02 Score=23.55 Aligned_cols=120 Identities=16% Similarity=0.141 Sum_probs=62.8
Q ss_pred cccCCCchHHHHHHHHHHHHHHhhhhhhccCCCHHHHHHHHHhhhhccccccccCchhHHHHHHHHHHHHHHHHHHHHhc
Q 048111 28 VYFEPEYSLARKLLAKIFSMTSIIDYIYDVYATPKELDLFTAAIDRWDMSCMDQLPEYMQIFYEALLDLYKEIEEELATK 107 (304)
Q Consensus 28 ~~feP~~s~~R~~~ak~~~l~~~iDD~~D~~~t~eel~~~t~ai~rWd~~~~~~lp~~~k~~~~~l~~~~~ei~~~~~~~ 107 (304)
+.|-| ...|-..+-+-.+.=.+||+-|..+..+....+.+..++=-....+.-|..-.++-.++-.+..+
T Consensus 28 ~~~lp--~~~R~av~alYa~~R~~Ddv~D~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~pv~~al~~~~~~-------- 97 (288)
T COG1562 28 ILLLP--PEKREAVWALYAFCREADDVVDGVSDPDLPAEILLAWRRELDGDFSGQPASDHPVLAALVEVARR-------- 97 (288)
T ss_pred HHhCC--HHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHhccccCCCcccCHHHHHHHHHHHH--------
Confidence 34445 34566666788999999999999876655555555554311111111111112444444444322
Q ss_pred CCcceehhhHHHHHHHHHHHHHHHhHhhCCCCCChHHHHhhhhhhhchhHHHHHHHHh
Q 048111 108 GWSYRVHYAKEEMKILVHGYHDESKWFHNNYVPTMEEYMRVSLVTSAYSMLTAASFLG 165 (304)
Q Consensus 108 ~~~~~~~~~~~~w~~~~~~~~~Ea~w~~~~~~Ps~eEYl~~~~~s~g~~~~~~~~~~~ 165 (304)
...-++....++.++-.......-.....+++|. ..+.|+--.+++.+++
T Consensus 98 -----~~~~~~~~~~~~da~~~Dl~~~~y~~~~eL~~Yc---~~vAg~vG~l~~~Il~ 147 (288)
T COG1562 98 -----FGLPREAFPALIDAMRMDLDRTRYLDFEELEEYC---YGVAGAVGLLLARILG 147 (288)
T ss_pred -----cCCCHHHHHHHHHHHHHHhhhccccCHHHHHHHH---HHhHHHHHHHHHHHhC
Confidence 2223456667777776666543333333566665 4455444444444443
No 45
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=24.20 E-value=74 Score=28.59 Aligned_cols=28 Identities=11% Similarity=0.108 Sum_probs=23.3
Q ss_pred CCCchhHHHHHhhcccCCcccCHHHHHHHHHHH
Q 048111 208 GHPASAIECYMKEKEREGVSVTQQEVHEELYKK 240 (304)
Q Consensus 208 G~~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~ 240 (304)
|-.+..+.+||.++ | +|.++|++.++..
T Consensus 182 GRTGtl~AayLI~~---G--mspeeAI~~VR~~ 209 (241)
T PTZ00393 182 GRAPVLASIVLIEF---G--MDPIDAIVFIRDR 209 (241)
T ss_pred CHHHHHHHHHHHHc---C--CCHHHHHHHHHHH
Confidence 44568889999998 9 9999999888764
No 46
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=22.84 E-value=2.3e+02 Score=20.09 Aligned_cols=21 Identities=24% Similarity=0.366 Sum_probs=15.9
Q ss_pred CCCCChHHHHhhhhhhhchhH
Q 048111 137 NYVPTMEEYMRVSLVTSAYSM 157 (304)
Q Consensus 137 ~~~Ps~eEYl~~~~~s~g~~~ 157 (304)
-..||-|||...+.++...-.
T Consensus 25 arKP~~eEy~~~aKi~~~Gi~ 45 (65)
T COG2443 25 ARKPDWEEYSKIAKITGLGIL 45 (65)
T ss_pred HhCCCHHHHHHHHHHHHHHHH
Confidence 457999999999887754433
No 47
>TIGR01589 A_thal_3526 uncharacterized plant-specific domain TIGR01589. This model represents an uncharacterized plant-specific domain 57 residues in length. It is found toward the N-terminus of most proteins that contain it. Examples include at least 10 proteins from Arabidopsis thaliana and at least one from Oryza sativa.
Probab=22.48 E-value=2.3e+02 Score=19.49 Aligned_cols=23 Identities=17% Similarity=0.325 Sum_probs=16.6
Q ss_pred chhHHHHHhhcccCCcccCHHHHHHHHHH
Q 048111 211 ASAIECYMKEKEREGVSVTQQEVHEELYK 239 (304)
Q Consensus 211 ~n~V~~ym~e~~~~g~~~s~eeA~~~i~~ 239 (304)
.|.|+-++.-+ +|.+|.++.+.+
T Consensus 5 q~lIE~Cl~~y------Msk~E~v~~L~~ 27 (57)
T TIGR01589 5 QNRIETCIQGY------MSKEETVSFLFE 27 (57)
T ss_pred HHHHHHHHHHH------CCHHHHHHHHHH
Confidence 47777777656 888888776655
No 48
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=21.19 E-value=1.7e+02 Score=20.25 Aligned_cols=54 Identities=19% Similarity=0.338 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHhhhhhhcccCCCCCCCChhHHHHHHhhhccc
Q 048111 233 VHEELYKKVGDAWKDINEECLMPTEVPRALLMRVLNLSRVIDIIYKEADDYTHVGQVMKDNIASVLIHP 301 (304)
Q Consensus 233 A~~~i~~~i~~~~k~ln~~~l~~~~~p~~~~~~~ln~aR~~~~~Y~~~D~~~~~~~~~~~~i~~ll~~p 301 (304)
|.+-+......+|+ .+++..=++..+.+.... ++.|++|. ..++.-++.+|..|
T Consensus 3 a~~~l~~Fa~rAfR---------Rp~~~~e~~~~~~~~~~~---~~~g~~~~---~a~~~~l~aiL~SP 56 (64)
T PF07637_consen 3 AREILRRFARRAFR---------RPLTDEEVDRYLALYDSA---RAQGEDFE---EALKEALQAILCSP 56 (64)
T ss_pred HHHHHHHHHHHHhC---------CCCCHHHHHHHHHHHHHH---HHcCCCHH---HHHHHHHHHHHcCc
Confidence 44445555555553 356666677777666544 44455443 35888999988877
No 49
>KOG3730 consensus Acyl-CoA:dihydroxyactetone-phosphate acyltransferase DHAPAT [Lipid transport and metabolism]
Probab=20.71 E-value=8.7e+02 Score=24.39 Aligned_cols=65 Identities=18% Similarity=0.204 Sum_probs=42.8
Q ss_pred CchhHHHHHhhcccCCcccCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHhhhhhhcccCCCCCCCChh
Q 048111 210 PASAIECYMKEKEREGVSVTQQEVHEELYKKVGDAWKDINEECLMPTEVPRALLMRVLNLSRVIDIIYKEADDYTHVGQV 289 (304)
Q Consensus 210 ~~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~i~~~~k~ln~~~l~~~~~p~~~~~~~ln~aR~~~~~Y~~~D~~~~~~~~ 289 (304)
+.+.|+=|-+|. | +|.+.-.+++.+++++---++|- -.++-..+.+++++.=+|. |++.....
T Consensus 77 ~~sVi~~~~kes---~--~s~d~~r~ea~eIlDEmsh~~nl---------~~IR~cg~ai~ki~k~i~d---g~yVNe~~ 139 (685)
T KOG3730|consen 77 LRSVIEHYAKES---G--TSLDQMRREAREILDEMSHDRNL---------AIIRWCGIAITKIGKRICD---GFYVNEAS 139 (685)
T ss_pred HHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHhhhhcch---------HHHHHHHHHHHHHHHHHhc---ceeECHHH
Confidence 458888899998 8 99888888888777765544442 1233345667777766665 77665444
Q ss_pred HH
Q 048111 290 MK 291 (304)
Q Consensus 290 ~~ 291 (304)
|.
T Consensus 140 ~~ 141 (685)
T KOG3730|consen 140 MA 141 (685)
T ss_pred HH
Confidence 44
No 50
>PF09713 A_thal_3526: Plant protein 1589 of unknown function (A_thal_3526); InterPro: IPR006476 This plant-specific family of proteins are defined by an uncharacterised region 57 residues in length. It is found toward the N terminus of most proteins that contain it. Examples include at least several proteins from Arabidopsis thaliana (Mouse-ear cress) and Oryza sativa (Rice). The function of the proteins are unknown.
Probab=20.40 E-value=2.9e+02 Score=18.77 Aligned_cols=24 Identities=21% Similarity=0.267 Sum_probs=17.4
Q ss_pred chhHHHHHhhcccCCcccCHHHHHHHHHHH
Q 048111 211 ASAIECYMKEKEREGVSVTQQEVHEELYKK 240 (304)
Q Consensus 211 ~n~V~~ym~e~~~~g~~~s~eeA~~~i~~~ 240 (304)
.|.|+-++.-+ +|.+|.++.+.+.
T Consensus 2 q~lIErCl~~y------Msk~E~v~~L~~~ 25 (54)
T PF09713_consen 2 QNLIERCLQLY------MSKEECVRALQKQ 25 (54)
T ss_pred chHHHHHHHHc------CCHHHHHHHHHHH
Confidence 47788777766 8988888777543
Done!