Query 047694
Match_columns 308
No_of_seqs 143 out of 780
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 13:43:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047694.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047694hhsearch_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 9.4E-90 2E-94 709.7 27.4 293 11-306 401-748 (784)
2 cd00684 Terpene_cyclase_plant_ 100.0 6.7E-88 1.5E-92 679.4 29.8 296 11-306 179-513 (542)
3 PLN02592 ent-copalyl diphospha 100.0 2.5E-66 5.5E-71 534.0 24.9 274 11-306 448-775 (800)
4 PF03936 Terpene_synth_C: Terp 100.0 1.5E-41 3.2E-46 311.6 18.7 230 53-283 1-270 (270)
5 cd00868 Terpene_cyclase_C1 Ter 100.0 2.3E-38 5.1E-43 292.4 24.4 240 67-306 1-279 (284)
6 cd00687 Terpene_cyclase_nonpla 99.9 9.1E-26 2E-30 211.6 17.8 208 75-287 19-266 (303)
7 PLN02150 terpene synthase/cycl 99.9 1E-21 2.2E-26 155.4 7.0 63 244-306 1-63 (96)
8 cd00385 Isoprenoid_Biosyn_C1 I 99.7 1.2E-16 2.7E-21 140.7 9.6 198 95-305 2-243 (243)
9 cd00686 Terpene_cyclase_cis_tr 96.1 0.16 3.5E-06 48.8 13.8 123 165-290 143-280 (357)
10 PF06330 TRI5: Trichodiene syn 93.4 1.1 2.3E-05 43.9 11.5 164 108-285 100-276 (376)
11 PF00494 SQS_PSY: Squalene/phy 87.3 6.6 0.00014 35.9 10.5 175 108-299 34-233 (267)
12 cd00867 Trans_IPPS Trans-Isopr 85.2 8.9 0.00019 34.1 10.0 105 168-284 86-214 (236)
13 TIGR03464 HpnC squalene syntha 84.2 19 0.00041 33.2 11.9 170 108-300 34-224 (266)
14 TIGR03465 HpnD squalene syntha 83.2 30 0.00064 31.9 12.8 122 174-301 85-224 (266)
15 KOG1719 Dual specificity phosp 79.5 1.5 3.2E-05 37.9 2.4 43 243-285 117-166 (183)
16 cd00683 Trans_IPPS_HH Trans-Is 76.5 58 0.0013 29.8 12.3 141 143-303 75-235 (265)
17 cd00685 Trans_IPPS_HT Trans-Is 73.8 49 0.0011 30.2 11.1 72 167-242 108-192 (259)
18 COG0142 IspA Geranylgeranyl py 72.9 75 0.0016 30.3 12.5 71 167-242 134-217 (322)
19 PLN02857 octaprenyl-diphosphat 72.2 59 0.0013 32.4 11.8 71 168-242 228-311 (416)
20 PF12368 DUF3650: Protein of u 65.2 4.6 0.0001 24.7 1.5 18 255-272 9-26 (28)
21 PLN02890 geranyl diphosphate s 64.4 1.2E+02 0.0026 30.3 12.2 72 167-242 227-311 (422)
22 PRK08470 adenylosuccinate lyas 61.8 60 0.0013 32.5 9.7 69 213-282 303-386 (442)
23 PLN02632 phytoene synthase 59.0 1.7E+02 0.0037 28.0 13.0 137 144-297 123-281 (334)
24 TIGR02749 prenyl_cyano solanes 52.1 2.2E+02 0.0047 27.2 13.1 72 167-242 133-217 (322)
25 COG3707 AmiR Response regulato 51.8 12 0.00026 33.4 2.5 23 255-277 153-175 (194)
26 PF13060 DUF3921: Protein of u 50.8 78 0.0017 21.9 5.7 44 142-187 6-49 (58)
27 PF03861 ANTAR: ANTAR domain; 47.8 17 0.00036 25.4 2.3 29 249-277 15-43 (56)
28 TIGR02748 GerC3_HepT heptapren 47.3 2.6E+02 0.0056 26.6 12.5 71 168-242 130-213 (319)
29 smart00463 SMR Small MutS-rela 41.9 34 0.00074 25.3 3.3 24 260-283 7-30 (80)
30 PRK07380 adenylosuccinate lyas 41.0 2.5E+02 0.0054 28.1 10.2 67 213-280 303-384 (431)
31 smart00400 ZnF_CHCC zinc finge 40.0 28 0.00062 24.0 2.5 25 247-271 30-54 (55)
32 PF07067 DUF1340: Protein of u 40.0 2.8E+02 0.006 24.9 9.8 72 193-282 80-163 (236)
33 PRK07492 adenylosuccinate lyas 39.3 2.5E+02 0.0054 28.1 9.9 68 213-281 306-388 (435)
34 PF01713 Smr: Smr domain; Int 37.5 42 0.00091 25.0 3.3 28 260-287 4-31 (83)
35 PTZ00393 protein tyrosine phos 33.7 33 0.00072 31.6 2.5 44 244-287 179-226 (241)
36 CHL00151 preA prenyl transfera 30.4 4.8E+02 0.01 24.8 12.7 71 168-242 135-218 (323)
37 TIGR01542 A118_put_portal phag 30.0 2.1E+02 0.0045 29.1 7.7 94 164-278 375-470 (476)
38 COG1308 EGD2 Transcription fac 30.0 48 0.001 27.4 2.6 22 252-273 87-108 (122)
39 TIGR03755 conj_TIGR03755 integ 27.0 6E+02 0.013 25.5 10.0 89 192-286 275-370 (418)
40 PF10193 Telomere_reg-2: Telom 25.0 1.4E+02 0.003 24.0 4.5 48 171-221 42-89 (114)
41 COG4860 Uncharacterized protei 24.4 1.5E+02 0.0032 25.3 4.6 60 143-210 27-91 (170)
42 smart00195 DSPc Dual specifici 24.2 1.1E+02 0.0024 24.6 3.8 25 248-272 91-116 (138)
43 PRK10581 geranyltranstransfera 23.1 5.1E+02 0.011 24.4 8.6 97 177-284 152-276 (299)
44 PF08519 RFC1: Replication fac 22.8 28 0.00061 29.8 0.0 55 239-300 95-149 (155)
45 KOG3616 Selective LIM binding 22.6 9.8E+02 0.021 26.4 10.9 110 143-260 497-629 (1636)
46 PF01807 zf-CHC2: CHC2 zinc fi 22.5 71 0.0015 24.9 2.3 29 247-275 61-89 (97)
47 KOG0506 Glutaminase (contains 21.6 2.1E+02 0.0045 29.3 5.7 88 169-259 121-208 (622)
48 PF06883 RNA_pol_Rpa2_4: RNA p 21.0 33 0.00072 24.5 0.1 33 114-146 3-35 (58)
49 COG5107 RNA14 Pre-mRNA 3'-end 20.5 9.3E+02 0.02 24.8 9.9 53 55-107 86-153 (660)
50 COG4755 Uncharacterized protei 20.4 5.2E+02 0.011 21.7 8.9 78 117-220 10-87 (151)
51 PF00348 polyprenyl_synt: Poly 20.4 6.5E+02 0.014 22.8 10.2 62 178-242 114-189 (260)
No 1
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=9.4e-90 Score=709.68 Aligned_cols=293 Identities=27% Similarity=0.403 Sum_probs=281.1
Q ss_pred cChhHHHHHHHHhCCCCCCCcchhHHhhhhhhccCCCC------------CCHHHHHHHhhhhhhhhhhhHHHHHhHhHh
Q 047694 11 LDQNLAKHINDALEQPLHMGVPRIEAHKFIPFYEHDDS------------KNDTLLKFAKLDFNRVQLPHQQELAYITRW 78 (308)
Q Consensus 11 ~~~~l~~eV~~aL~~P~~~~~~rlear~yI~~Y~~~~~------------~n~~lLelAkldFn~~Q~~h~~El~~i~rW 78 (308)
++++|++||+|||++|||+++||||||+||++|+.++. +|++||||||+|||+||++||+||++|+||
T Consensus 401 ~~~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rW 480 (784)
T PLN02279 401 LRKYIKKEVEDALNFPYYANLERLANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLERW 480 (784)
T ss_pred cCccHHHHHHHHhcCchhcCccHHHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCee
Confidence 57889999999999999999999999999999999986 899999999999999999999999999999
Q ss_pred h-----cCCCccchhHHHHHHHHhhhccCCCCCc---------------cchhcccCCHHHHHHHHHHHHhcchh-hhcc
Q 047694 79 V-----STYSYSRDRTVEMYLWSVAQYFEPHFSR---------------DDAYDAYGTLGELRSFTDAVERWDIN-CISE 137 (308)
Q Consensus 79 w-----~~l~f~R~r~ve~yf~~~~~~~eP~~s~---------------DD~yD~~gt~eEl~~~t~aierWd~~-~~~~ 137 (308)
| .+|||+|||+||||||++|++||||||. ||+||+|||.|||++||+||+|||.+ .++.
T Consensus 481 wke~~L~~L~faRdr~ve~Yf~aaa~~fEPe~S~aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~ 560 (784)
T PLN02279 481 IVENRLDKLKFARQKLAYCYFSAAATLFSPELSDARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDF 560 (784)
T ss_pred HHhcCCccCCchhhHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhh
Confidence 9 8999999999999999999999999999 99999999999999999999999998 5689
Q ss_pred CCCchHHHHHHHHhHHHHHHHHHH-hcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc----
Q 047694 138 LPEYMKPLFSALSNPFDELNNELA-EEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI---- 212 (308)
Q Consensus 138 lp~~mk~~f~al~~~~~ei~~~~~-~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~---- 212 (308)
||+|||+||.+|+++++||+.++. +||+ ++.+|++++|++++++|++||+|+.+|++||+||||+|+.+|+|++
T Consensus 561 lpeymki~f~aL~~t~nei~~~~~~~qGr-~v~~~l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l 639 (784)
T PLN02279 561 CSEQVEIIFSALRSTISEIGDKAFTWQGR-NVTSHIIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVL 639 (784)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHcCc-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHH
Confidence 999999999999999999998865 5776 8899999999999999999999999999999999999999999865
Q ss_pred ---------cchhhhHhhhcchHHHHHHHHHHHHhhhhH----HhhcCCcchhHHHhhhcC--CCCHHHHHHHHHHHHHH
Q 047694 213 ---------AGIDAYEWLRSQPKIMTASFTLSRLIADLA----EQERGHVASVVESYMKEY--GTSGEETAEEFKKMIAD 277 (308)
Q Consensus 213 ---------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~----E~~~G~~an~V~cyMke~--g~s~EeA~~~i~~lie~ 277 (308)
+|+++++| .++|+++++++.++||+|||+ |+++|++ |+|+|||+|+ |+|+|||+++++++|++
T Consensus 640 ~~~~~~G~~l~eev~e~-~~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~ 717 (784)
T PLN02279 640 PALYLVGPKLSEEVVDS-PELHKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIES 717 (784)
T ss_pred HHHHHhCCCCCHHHHhC-cchhHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHH
Confidence 89999999 699999999999999999999 9999998 9999999987 89999999999999999
Q ss_pred HHHHHHHhhcCC--CCCCHHHHHHHHhhhcc
Q 047694 278 GWKDINEECMRP--TIVPNFQCDSLMLLLTL 306 (308)
Q Consensus 278 ~wk~ln~~~l~~--~~~p~~~~~~~~n~~~~ 306 (308)
+||+||++++++ +.+|++|+++++|+||+
T Consensus 718 ~wKeLn~~~l~~~~~~vp~~~~~~~ln~aR~ 748 (784)
T PLN02279 718 QRRELLRLVLQEKGSNVPRECKDLFWKMSKV 748 (784)
T ss_pred HHHHHHHHHhccCCCCCCHHHHHHHHHHHHh
Confidence 999999999974 46999999999999997
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=6.7e-88 Score=679.40 Aligned_cols=296 Identities=51% Similarity=0.886 Sum_probs=289.2
Q ss_pred cChhHHHHHHHHhCCCCCCCcchhHHhhhhhhccCCCCCCHHHHHHHhhhhhhhhhhhHHHHHhHhHhh------cCCCc
Q 047694 11 LDQNLAKHINDALEQPLHMGVPRIEAHKFIPFYEHDDSKNDTLLKFAKLDFNRVQLPHQQELAYITRWV------STYSY 84 (308)
Q Consensus 11 ~~~~l~~eV~~aL~~P~~~~~~rlear~yI~~Y~~~~~~n~~lLelAkldFn~~Q~~h~~El~~i~rWw------~~l~f 84 (308)
++++|++||++||++|||+++||||||+||++|++++++|++||||||+|||+||++||+||++++||| .+|||
T Consensus 179 ~~~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~hq~El~~~~rWwk~~gL~~~l~~ 258 (542)
T cd00684 179 IDPDLSGEIEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPF 258 (542)
T ss_pred CCchHHHHHHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhHHHHHHHHhHHHHhcCCcccCCc
Confidence 788999999999999999999999999999999999999999999999999999999999999999999 66699
Q ss_pred cchhHHHHHHHHhhhccCCCCCc---------------cchhcccCCHHHHHHHHHHHHhcchhhhccCCCchHHHHHHH
Q 047694 85 SRDRTVEMYLWSVAQYFEPHFSR---------------DDAYDAYGTLGELRSFTDAVERWDINCISELPEYMKPLFSAL 149 (308)
Q Consensus 85 ~R~r~ve~yf~~~~~~~eP~~s~---------------DD~yD~~gt~eEl~~~t~aierWd~~~~~~lp~~mk~~f~al 149 (308)
+|+|++|||||++|++|||++|. ||+||.|||.+|++.||+||+|||.++++++|+|||+||.+|
T Consensus 259 aRdr~ve~yf~~~a~~feP~~s~~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al 338 (542)
T cd00684 259 ARDRLVECYFWAAGTYFEPQYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKAL 338 (542)
T ss_pred ccchhHHHHHHHHhcccCccchHHHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHH
Confidence 99999999999999999999999 999999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchh
Q 047694 150 SNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGID 216 (308)
Q Consensus 150 ~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e 216 (308)
++++++++.++.++|+.+...|+++.|+++++||++||+|+++|++||++|||++|.+|+|++ +|++
T Consensus 339 ~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e 418 (542)
T cd00684 339 LNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEE 418 (542)
T ss_pred HHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHH
Confidence 999999999999988888999999999999999999999999999999999999999999987 8999
Q ss_pred hhHhhhcchHHHHHHHHHHHHhhhhH----HhhcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCC-CC
Q 047694 217 AYEWLRSQPKIMTASFTLSRLIADLA----EQERGHVASVVESYMKEYGTSGEETAEEFKKMIADGWKDINEECMRP-TI 291 (308)
Q Consensus 217 ~~e~~~~~p~i~~~~~~i~RL~NDi~----E~~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~~~l~~-~~ 291 (308)
+++|+..+|+++++++.++||+|||. |+++|+++|+|.|||+|+|+|+|+|+++++++|+++||++|++++++ ++
T Consensus 419 ~~e~~~~~~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~~ 498 (542)
T cd00684 419 AFEWLESRPKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKPSSD 498 (542)
T ss_pred HHHHHhccHHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 99998777999999999999999999 99999999999999999999999999999999999999999999998 78
Q ss_pred CCHHHHHHHHhhhcc
Q 047694 292 VPNFQCDSLMLLLTL 306 (308)
Q Consensus 292 ~p~~~~~~~~n~~~~ 306 (308)
+|++|+++++|+||+
T Consensus 499 ~p~~~~~~~~n~~r~ 513 (542)
T cd00684 499 VPRPIKQRFLNLARV 513 (542)
T ss_pred CCHHHHHHHHHHHHH
Confidence 999999999999997
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=2.5e-66 Score=533.98 Aligned_cols=274 Identities=18% Similarity=0.260 Sum_probs=240.1
Q ss_pred cChhHHHHHHHHhCCCCCCCcchhHHhhhhhhccCCCCC-------------CHHHHHHHhhhhhhhhhhhHHHHHhHhH
Q 047694 11 LDQNLAKHINDALEQPLHMGVPRIEAHKFIPFYEHDDSK-------------NDTLLKFAKLDFNRVQLPHQQELAYITR 77 (308)
Q Consensus 11 ~~~~l~~eV~~aL~~P~~~~~~rlear~yI~~Y~~~~~~-------------n~~lLelAkldFn~~Q~~h~~El~~i~r 77 (308)
++++|++||+|||++|||+++||||||+||++|++++++ |++||||||+|||+||++||+||++|+|
T Consensus 448 ~~~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsr 527 (800)
T PLN02592 448 IMKDLPGEVGFALEIPWYASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQK 527 (800)
T ss_pred cCccHHHHHHHhccChhhcCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhH
Confidence 367899999999999999999999999999999987764 9999999999999999999999999999
Q ss_pred hh-----cCCCccchhHHHHHHHHhhhccCCCCCc---------------cchhcccCCHHHHHHHHHHHH--------h
Q 047694 78 WV-----STYSYSRDRTVEMYLWSVAQYFEPHFSR---------------DDAYDAYGTLGELRSFTDAVE--------R 129 (308)
Q Consensus 78 Ww-----~~l~f~R~r~ve~yf~~~~~~~eP~~s~---------------DD~yD~~gt~eEl~~~t~aie--------r 129 (308)
|| .+|||+|||+||||||++|++|||+||. ||+||+|||+|||++||++|+ |
T Consensus 528 Wwke~~L~~L~faRdr~ve~Yfwa~~~~feP~~s~~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~r 607 (800)
T PLN02592 528 WYEECNLGEFGVSRSELLLAYFLAAASIFEPERSHERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRR 607 (800)
T ss_pred HHHhcCCCcCCcchhHHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccc
Confidence 99 7899999999999999999999999999 999999999999999999997 9
Q ss_pred cchhhhccCCC------chHHHHHHHHhHHHHHHHHHHh-cCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 047694 130 WDINCISELPE------YMKPLFSALSNPFDELNNELAE-EGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERM 202 (308)
Q Consensus 130 Wd~~~~~~lp~------~mk~~f~al~~~~~ei~~~~~~-~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl 202 (308)
||.+++++||+ |||+||.+||+|+|||+.++.+ ||+ ++++|++++|.+++++++.|+.|..++. + .+
T Consensus 608 Wd~~~~~~lp~~~~~~~~mki~f~aLy~tineia~~a~~~qGr-~v~~~L~~~W~~l~~~w~~~g~~s~~~~--~---il 681 (800)
T PLN02592 608 SDHHFNDRNMRRSGSVKTGEELVGLLLGTLNQLSLDALEAHGR-DISHLLRHAWEMWLLKWLLEGDGRQGEA--E---LL 681 (800)
T ss_pred cCchhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHHHHhcCceeccch--h---hH
Confidence 99999999988 9999999999999999987766 555 7899999999999997777666654222 2 22
Q ss_pred hhhhh-hcccccchhhhHhhhcchHHHHHHHHHHHHhhhhH--HhhcCCcchhHHHhhhcCC-CCHHHHHHHHHHHHHHH
Q 047694 203 SNAIV-TGTYIAGIDAYEWLRSQPKIMTASFTLSRLIADLA--EQERGHVASVVESYMKEYG-TSGEETAEEFKKMIADG 278 (308)
Q Consensus 203 ~~~~~-S~g~~l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~--E~~~G~~an~V~cyMke~g-~s~EeA~~~i~~lie~~ 278 (308)
-.... ++|-.+++++++ +|++.+++++++||+||++ +++. + ..| .|+ +|++++++.|+.+
T Consensus 682 v~~~~l~~g~~lsee~l~----~~~~~~l~~li~Rl~nDl~t~~~e~--~---------~~~~~~~-~a~~~~~~~ie~~ 745 (800)
T PLN02592 682 VKTINLTAGRSLSEELLA----HPQYEQLAQLTNRICYQLGHYKKNK--V---------HINTYNP-EEKSKTTPSIESD 745 (800)
T ss_pred HHHHHHhcCCCCCHHHcc----chhHHHHHHHHHHHHHhhhHHhhhc--c---------cCCcccH-HHHHHHHHHHHHH
Confidence 22223 446668998764 7999999999999999999 3322 1 134 445 8999999999999
Q ss_pred HHHHHHhhcC-C-CCCCHHHHHHHHhhhcc
Q 047694 279 WKDINEECMR-P-TIVPNFQCDSLMLLLTL 306 (308)
Q Consensus 279 wk~ln~~~l~-~-~~~p~~~~~~~~n~~~~ 306 (308)
+++|.+.+++ . +.+|++||+.|+|++|+
T Consensus 746 ~~eL~~lvl~~~~~~vp~~cK~~f~~~~k~ 775 (800)
T PLN02592 746 MQELVQLVLQNSSDDIDPVIKQTFLMVAKS 775 (800)
T ss_pred HHHHHHHHhhcCCCCCCHHHHHHHHHHHHH
Confidence 9999999997 3 46999999999999985
No 4
>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=1.5e-41 Score=311.62 Aligned_cols=230 Identities=34% Similarity=0.487 Sum_probs=209.3
Q ss_pred HHHHHhhhhhhhhhhhHHHHHhHhHhh--cCC----CccchhHHHHHHHHhhhccCCCCCc----------------cch
Q 047694 53 LLKFAKLDFNRVQLPHQQELAYITRWV--STY----SYSRDRTVEMYLWSVAQYFEPHFSR----------------DDA 110 (308)
Q Consensus 53 lLelAkldFn~~Q~~h~~El~~i~rWw--~~l----~f~R~r~ve~yf~~~~~~~eP~~s~----------------DD~ 110 (308)
||+|||+|||+||++||+|++++++|| ..| +.+|+|++.++|+.+++++.|. +. ||+
T Consensus 1 ~~~la~~~~~~~~~~~~~e~~~~~~W~~~~~l~~~~~~~~~~~~~~~~~~~aa~~~P~-~~~~l~~~a~~~~w~f~~DD~ 79 (270)
T PF03936_consen 1 YLELAKRDFPHCQALHQQELEEIDRWVKEFGLFDEDKAARQRFRQAYFGLLAARFYPD-SSDELLAAADWMAWLFIFDDF 79 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTHHHHHTTSHHHHHHHHHHHHHHHHSGC-GHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchhhcHhhHHHHHHHHHHHHHHHHHcCCccccccchhhhhHhHHhhhhheeCCC-cHHHHHHHHhhchheeeeeec
Confidence 699999999999999999999999999 444 3579999999999999999999 55 999
Q ss_pred hcccCCHHHHHHHHHHHHhcchhhhccCCCchHHHHHHHHhHHHHHHHHHHhc-CCCchHHhHHHHHHHHHHHHHHHHHH
Q 047694 111 YDAYGTLGELRSFTDAVERWDINCISELPEYMKPLFSALSNPFDELNNELAEE-GRSYSVSFTKDMMKGVARAYFVEAQW 189 (308)
Q Consensus 111 yD~~gt~eEl~~~t~aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~-g~~~~~~~lk~~~~~~~~a~l~EAkW 189 (308)
||.+|+.++++.|+++++||+......+|+.+++++.++.++++++...+.+. ++.+..+++++.|.++++++++|++|
T Consensus 80 ~D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 159 (270)
T PF03936_consen 80 FDDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNSWREYLNAYLWEARW 159 (270)
T ss_dssp HHTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999987778899999999999999999999877663 44346788999999999999999999
Q ss_pred HhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHHHHHHhhhhH----HhhcCCcchh
Q 047694 190 FHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFTLSRLIADLA----EQERGHVASV 252 (308)
Q Consensus 190 ~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~----E~~~G~~an~ 252 (308)
+..|++||++||++.|..|+|+. +++...+++.+.|.+.++++.+++|.|||. |+++|+.+|.
T Consensus 160 ~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~ 239 (270)
T PF03936_consen 160 RERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLYSYKKEIARGDVHNL 239 (270)
T ss_dssp HHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSH
T ss_pred hccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccchhhcchhhcccccH
Confidence 99999999999999999999988 235556666677789999999999999999 9999999999
Q ss_pred HHHhhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 047694 253 VESYMKEYGTSGEETAEEFKKMIADGWKDIN 283 (308)
Q Consensus 253 V~cyMke~g~s~EeA~~~i~~lie~~wk~ln 283 (308)
|.|+|+++|+|.|+|++++.+|+++++++||
T Consensus 240 v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 240 VVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999998
No 5
>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=2.3e-38 Score=292.45 Aligned_cols=240 Identities=50% Similarity=0.866 Sum_probs=220.9
Q ss_pred hhHHHHHhHhHhh------cCCCccchhHHHHHHHHhhhccCCCCCc---------------cchhcccCCHHHHHHHHH
Q 047694 67 PHQQELAYITRWV------STYSYSRDRTVEMYLWSVAQYFEPHFSR---------------DDAYDAYGTLGELRSFTD 125 (308)
Q Consensus 67 ~h~~El~~i~rWw------~~l~f~R~r~ve~yf~~~~~~~eP~~s~---------------DD~yD~~gt~eEl~~~t~ 125 (308)
.||+|++++++|| ...+++|.+...+|+|+++++|+|+.+. ||.||.+|+.+++..+++
T Consensus 1 ~~~~e~~~~~~W~~~~~l~~~~~~~r~~~~~~~~~~a~~~p~~~~~~~l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~ 80 (284)
T cd00868 1 LHQEELKELSRWWKELGLQEKLPFARDRLVECYFWAAGSYFEPQYSEARIALAKTIALLTVIDDTYDDYGTLEELELFTE 80 (284)
T ss_pred CCHHHHHHHHHHHHHhCCcccCCchhhHhHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHH
Confidence 4999999999999 2333899999999999999999998776 999999999999999999
Q ss_pred HHHhcchhhhccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhh
Q 047694 126 AVERWDINCISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNA 205 (308)
Q Consensus 126 aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~ 205 (308)
+++||+....+.+|+++++++.++.++++++...+.+++|.....++++.|..++.++.+|++|+..|++||++||+.++
T Consensus 81 ~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R 160 (284)
T cd00868 81 AVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAWKDLLRAYLVEAKWANEGYVPSFEEYLENR 160 (284)
T ss_pred HHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhc
Confidence 99999998888999999999999999999999888876666789999999999999999999999999999999999999
Q ss_pred hhhcccc-------------cchhhhHhhhcchHHHHHHHHHHHHhhhhH----HhhcCCcchhHHHhhhcCCCCHHHHH
Q 047694 206 IVTGTYI-------------AGIDAYEWLRSQPKIMTASFTLSRLIADLA----EQERGHVASVVESYMKEYGTSGEETA 268 (308)
Q Consensus 206 ~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~----E~~~G~~an~V~cyMke~g~s~EeA~ 268 (308)
..|+|+. +|++.+.+.+..+++...++.+++|+||+. |+.+|+.+|+|.|||+++|+|.++|+
T Consensus 161 ~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA~ 240 (284)
T cd00868 161 RVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEEAL 240 (284)
T ss_pred eehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHHHH
Confidence 9999876 777444444788899999999999999999 89999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHhhhcc
Q 047694 269 EEFKKMIADGWKDINEECMRP-TIVPNFQCDSLMLLLTL 306 (308)
Q Consensus 269 ~~i~~lie~~wk~ln~~~l~~-~~~p~~~~~~~~n~~~~ 306 (308)
+++.++++++++++++.+.+. ++.|+.+++.+.|++|-
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g 279 (284)
T cd00868 241 EELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLARG 279 (284)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Confidence 999999999999999999864 36889999999998874
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=99.94 E-value=9.1e-26 Score=211.60 Aligned_cols=208 Identities=15% Similarity=0.079 Sum_probs=176.3
Q ss_pred HhHhh---cCCC--ccchhHHHHHHHHhhhccCCCCCc----------------cchhccc-CCHHHHHHHHHHHHhcch
Q 047694 75 ITRWV---STYS--YSRDRTVEMYLWSVAQYFEPHFSR----------------DDAYDAY-GTLGELRSFTDAVERWDI 132 (308)
Q Consensus 75 i~rWw---~~l~--f~R~r~ve~yf~~~~~~~eP~~s~----------------DD~yD~~-gt~eEl~~~t~aierWd~ 132 (308)
...|. ..++ .+|++.++++|+.++.++.|+.+. ||+||.. ++.++++.+++.+.++..
T Consensus 19 ~~~w~~~~~l~~~~~~~~~~~~~~~~~~~a~~~P~a~~~~l~l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~ 98 (303)
T cd00687 19 YLEWVLEEMLIPSEKAEKRFLSADFGDLAALFYPDADDERLMLAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILR 98 (303)
T ss_pred HHHHHHHcCCCCcchhHHHHhcCCHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccC
Confidence 55666 2343 689999999999999999999988 9999997 599999999998887765
Q ss_pred hhhccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc
Q 047694 133 NCISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI 212 (308)
Q Consensus 133 ~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~ 212 (308)
.....-|....++..++.+++.++...... ....++++.|.+++.|+++|++|+.+|++||++||+++|..|+|+.
T Consensus 99 ~~~~~~~~~~~p~~~~~~d~~~r~~~~~~~----~~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~ 174 (303)
T cd00687 99 GDGLDSPDDATPLEFGLADLWRRTLARMSA----EWFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGAD 174 (303)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHhccCCCH----HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhccccc
Confidence 432111478889999999999998765422 3478999999999999999999999999999999999999999977
Q ss_pred -------------cchhhhHhhhcchHHHHHHHHHHHHhhhhH----Hh-hcCCcchhHHHhhhcCCCCHHHHHHHHHHH
Q 047694 213 -------------AGIDAYEWLRSQPKIMTASFTLSRLIADLA----EQ-ERGHVASVVESYMKEYGTSGEETAEEFKKM 274 (308)
Q Consensus 213 -------------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~----E~-~~G~~an~V~cyMke~g~s~EeA~~~i~~l 274 (308)
+|+++.+. +...++.++++.+++|+|||. |+ +.|+.+|+|.|+|+++|+|.|+|++++.++
T Consensus 175 ~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~ 253 (303)
T cd00687 175 PCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDM 253 (303)
T ss_pred ccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHH
Confidence 55554443 344568999999999999999 88 889999999999999999999999999999
Q ss_pred HHHHHHHHHHhhc
Q 047694 275 IADGWKDINEECM 287 (308)
Q Consensus 275 ie~~wk~ln~~~l 287 (308)
++++++++.+..-
T Consensus 254 ~~~~~~~f~~~~~ 266 (303)
T cd00687 254 HNERITQFEELEA 266 (303)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999886553
No 7
>PLN02150 terpene synthase/cyclase family protein
Probab=99.85 E-value=1e-21 Score=155.40 Aligned_cols=63 Identities=38% Similarity=0.461 Sum_probs=61.4
Q ss_pred hhcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhcc
Q 047694 244 QERGHVASVVESYMKEYGTSGEETAEEFKKMIADGWKDINEECMRPTIVPNFQCDSLMLLLTL 306 (308)
Q Consensus 244 ~~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~~~l~~~~~p~~~~~~~~n~~~~ 306 (308)
|+|||++|+|+|||||||+|+|||+++|++||+++||+||+++|+++++|++++++++|+||+
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~~~p~~~~~~~~NlaR~ 63 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIKDVPRPVLVRCLNLARL 63 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHH
Confidence 579999999999999999999999999999999999999999999989999999999999996
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=99.68 E-value=1.2e-16 Score=140.74 Aligned_cols=198 Identities=27% Similarity=0.335 Sum_probs=155.4
Q ss_pred HHhhhccCCCCCc---------------cchhcccCCHHHHHHHHHHHHhcchhhhccCCCchHHHHHHHHhHHHHHHHH
Q 047694 95 WSVAQYFEPHFSR---------------DDAYDAYGTLGELRSFTDAVERWDINCISELPEYMKPLFSALSNPFDELNNE 159 (308)
Q Consensus 95 ~~~~~~~eP~~s~---------------DD~yD~~gt~eEl~~~t~aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~ 159 (308)
++++++|+|+++. ||++|..++..+.......+ ...+.|..+...+..+...++++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (243)
T cd00385 2 RPLAVLLEPEASRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELARE 75 (243)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhC
Confidence 4566777777533 99999988887766655444 22345667778888888888888643
Q ss_pred HHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc------------cchhhhHhhhcchHH
Q 047694 160 LAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI------------AGIDAYEWLRSQPKI 227 (308)
Q Consensus 160 ~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~------------l~~e~~e~~~~~p~i 227 (308)
.. ......+.+.|.+++.|+..|+.|..+ ..||++||+..+..++|.. .++ ..+.....++
T Consensus 76 ~~----~~~~~~~~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~--~~~~~~~~~~ 148 (243)
T cd00385 76 GS----PEALEILAEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGE--AELLEALRKL 148 (243)
T ss_pred CC----HHHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCC--HHHHHHHHHH
Confidence 22 246889999999999999999999987 8999999999999886443 222 2233555678
Q ss_pred HHHHHHHHHHhhhhH----HhhcC-CcchhHHHhhhcCCC------------CHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 047694 228 MTASFTLSRLIADLA----EQERG-HVASVVESYMKEYGT------------SGEETAEEFKKMIADGWKDINEECMRPT 290 (308)
Q Consensus 228 ~~~~~~i~RL~NDi~----E~~~G-~~an~V~cyMke~g~------------s~EeA~~~i~~lie~~wk~ln~~~l~~~ 290 (308)
....+.+.+|.||+. |.++| ...|.+.++|+++|+ +.++|.+.+..+++++++++++......
T Consensus 149 ~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 228 (243)
T cd00385 149 GRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLP 228 (243)
T ss_pred HHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence 888999999999999 66664 567999999999998 8899999999999999999999877533
Q ss_pred CCCHHHHHHHHhhhc
Q 047694 291 IVPNFQCDSLMLLLT 305 (308)
Q Consensus 291 ~~p~~~~~~~~n~~~ 305 (308)
..++.+++.+.|+++
T Consensus 229 ~~~~~~~~~~~~~~~ 243 (243)
T cd00385 229 DVPRALLALALNLYR 243 (243)
T ss_pred HHHHHHHHHHHHHhC
Confidence 467788888888764
No 9
>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=96.14 E-value=0.16 Score=48.84 Aligned_cols=123 Identities=12% Similarity=0.029 Sum_probs=83.3
Q ss_pred CCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------cchhhhHhhhcchHHHHHHHHH---
Q 047694 165 RSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------AGIDAYEWLRSQPKIMTASFTL--- 234 (308)
Q Consensus 165 ~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------l~~e~~e~~~~~p~i~~~~~~i--- 234 (308)
|.+...-+.+.--+++.+..-|.. ..+.-|...+|-...+.=+|.+ -|++.|.-...+..+..+...+
T Consensus 143 GpF~s~~IikSTLdFv~g~~iEq~--nf~~~p~A~~fP~ylR~ksGl~E~yA~FiFPk~~FpE~~~~~qi~~AIp~~~~~ 220 (357)
T cd00686 143 GPFCSLNLIRSTLDFFEGCWIEQY--NFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENW 220 (357)
T ss_pred hhhhHHHHHHHHHHHHHHHHHhhh--ccCCCCCCcccchHHHhccCCcceeEEEecchhhCchHhhHHHhhHHHHHHHHH
Confidence 345666777888889999888865 3444776666777666666666 5666553323333344444443
Q ss_pred HHHhhhhH----Hh-hcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 047694 235 SRLIADLA----EQ-ERGHVASVVESYMKEYGTSGEETAEEFKKMIADGWKDINEECMRPT 290 (308)
Q Consensus 235 ~RL~NDi~----E~-~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~~~l~~~ 290 (308)
.-++|||. |- ..++-.|-|.-|-+.+|+|..+|...+..-.-.+-+.+.+ +|.+.
T Consensus 221 i~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~-VLse~ 280 (357)
T cd00686 221 MVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA-VFSDK 280 (357)
T ss_pred HHhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH-HhcCC
Confidence 34889999 44 4456678888888889999999999887777777766655 45543
No 10
>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=93.44 E-value=1.1 Score=43.86 Aligned_cols=164 Identities=14% Similarity=0.172 Sum_probs=89.9
Q ss_pred cchhcccCCHHHHHHHHHHHHhcchhhhccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHH
Q 047694 108 DDAYDAYGTLGELRSFTDAVERWDINCISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEA 187 (308)
Q Consensus 108 DD~yD~~gt~eEl~~~t~aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EA 187 (308)
||.++.. .+++..|-+-+-. +=|.. .++...+.+.+.++. +.-+.++.+-+..+--+++.+..-|.
T Consensus 100 DD~~~~~--~~~l~~F~~~l~~-------Gq~Q~-~p~L~~~~~~L~~~~----~~fgpf~anmI~~STLdFi~g~~LE~ 165 (376)
T PF06330_consen 100 DDSSQEP--SDDLRTFHQRLIL-------GQPQK-HPLLDGFASLLREMW----RHFGPFCANMIVKSTLDFINGCWLEQ 165 (376)
T ss_dssp TT--S-S--HHHHTTHHHHHHH-------T---S-SHHHHHHHHHHHHHH----TTS-HHHHHHHHHHHHHHHHHHHHHT
T ss_pred ccccccc--cHHHHHHHHHHhc-------CCCCC-CHHHHHHHHHHHHHH----HHcchHHHHHHHHHHHHHHHHHHhhc
Confidence 8886543 4666666555431 11111 144455555555443 33344667788888999999999887
Q ss_pred HHHhcC-CCCCHHHHHhhhhhhcccc----cchhhhHhhhcchHHHHHHHHHH---HHhhhhH----Hhh-cCCcchhHH
Q 047694 188 QWFHEG-YMPPFDERMSNAIVTGTYI----AGIDAYEWLRSQPKIMTASFTLS---RLIADLA----EQE-RGHVASVVE 254 (308)
Q Consensus 188 kW~~~g-~vPs~eEYl~~~~~S~g~~----l~~e~~e~~~~~p~i~~~~~~i~---RL~NDi~----E~~-~G~~an~V~ 254 (308)
+-.+.. .-|.+-+|+..-...+... .|++.+.-...+..++.+...+. -+.|||. |.- .|+.+|.|.
T Consensus 166 ~~f~~~p~A~~FP~fLR~ktGlsEaYA~FiFPk~~fpe~~~~~~y~~AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~ 245 (376)
T PF06330_consen 166 KNFHGSPGAPDFPDFLRRKTGLSEAYAFFIFPKALFPEVEYFIQYTPAIPDLMRFINYVNDILSFYKEELVAGETGNYIH 245 (376)
T ss_dssp TT----TT-TTHHHHHHHHHH-HHHHHHHT--TTTS-TTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHH
T ss_pred ccCCCCCCCccccHHHHhccCcchhheeeecccccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHhhcccccccchhh
Confidence 632211 1335666655432222221 56665532233445545555555 4899999 544 788899997
Q ss_pred HhhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 047694 255 SYMKEYGTSGEETAEEFKKMIADGWKDINEE 285 (308)
Q Consensus 255 cyMke~g~s~EeA~~~i~~lie~~wk~ln~~ 285 (308)
-+=.-+|+|.-+|...+..-.-++-+.+.+.
T Consensus 246 n~A~~~g~S~~eaL~~l~~eti~a~~rv~~v 276 (376)
T PF06330_consen 246 NRARVHGVSILEALRELTDETIEAVERVRRV 276 (376)
T ss_dssp HHHHHHT--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 6655579999999998866666666655554
No 11
>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=87.29 E-value=6.6 Score=35.89 Aligned_cols=175 Identities=14% Similarity=0.193 Sum_probs=82.9
Q ss_pred cchhcccCCHHH----HHHHHHHHHhcchhhhccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHH
Q 047694 108 DDAYDAYGTLGE----LRSFTDAVERWDINCISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAY 183 (308)
Q Consensus 108 DD~yD~~gt~eE----l~~~t~aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~ 183 (308)
||+-|......+ |+-+-++++..-....+..+....++..+|..++.... --++.+.+++.|+
T Consensus 34 d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~~-------------l~~~~l~~li~~~ 100 (267)
T PF00494_consen 34 DDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRYG-------------LPREPLLELIDGM 100 (267)
T ss_dssp HHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCSH-------------HHHHHHHHHHHHH
T ss_pred hhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHHh-------------hhHHHHHHHHHHh
Confidence 888887664322 44455555433222122344555677777765554322 2334577777777
Q ss_pred HHHHHHHhcCCCCCHHHHHhhhhhhcccc--cchhhhHhhhcchHHHHHHHH------HHHHhhhhH-H-hhcCCcchhH
Q 047694 184 FVEAQWFHEGYMPPFDERMSNAIVTGTYI--AGIDAYEWLRSQPKIMTASFT------LSRLIADLA-E-QERGHVASVV 253 (308)
Q Consensus 184 l~EAkW~~~g~vPs~eEYl~~~~~S~g~~--l~~e~~e~~~~~p~i~~~~~~------i~RL~NDi~-E-~~~G~~an~V 253 (308)
.+. ......+|++|+......+.|.. +.-+++..-...+.....+.. ++.++-|+. . ..+|-+-==.
T Consensus 101 ~~d---l~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~~~~~~~~~a~~lG~alql~nilRd~~~D~~~~gR~ylP~ 177 (267)
T PF00494_consen 101 EMD---LEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHDPDEAARDAARALGRALQLTNILRDIPEDALRRGRIYLPL 177 (267)
T ss_dssp HHC---TT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSSTSHHHHHHHHHHHHHHHHHHHHHHTHHHH-HHTT---S-H
T ss_pred ccc---ccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHhHHHHHhcccccCCc
Confidence 633 33355778888777766666644 111111110001112222222 234455777 5 5677531111
Q ss_pred HHhhhcCCCCHHHHHHH----------HHHHHHHHHHHHHHhhcCCCCC-CHHHHHH
Q 047694 254 ESYMKEYGTSGEETAEE----------FKKMIADGWKDINEECMRPTIV-PNFQCDS 299 (308)
Q Consensus 254 ~cyMke~g~s~EeA~~~----------i~~lie~~wk~ln~~~l~~~~~-p~~~~~~ 299 (308)
+ .|.+||+|.++-... +..+++.+...+.+..---..+ |+.+...
T Consensus 178 d-~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~~~~~~l~~~~~~~~ 233 (267)
T PF00494_consen 178 D-DLRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEARAGLSALPPPRARPA 233 (267)
T ss_dssp H-HHHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHHHGGGGS--TTHHHH
T ss_pred h-hHHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhhhHH
Confidence 2 457789988876543 4555555555555433222346 4434433
No 12
>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=85.23 E-value=8.9 Score=34.15 Aligned_cols=105 Identities=10% Similarity=0.109 Sum_probs=68.3
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhh-hcccc---------cchhhhHhhhcchHHHHHHHHHHHH
Q 047694 168 SVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIV-TGTYI---------AGIDAYEWLRSQPKIMTASFTLSRL 237 (308)
Q Consensus 168 ~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~-S~g~~---------l~~e~~e~~~~~p~i~~~~~~i~RL 237 (308)
+...+.+....++.|...+..|... ..||.++|.+.... |.++. +....-+......++.+..+....+
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi 164 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQL 164 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHH
Confidence 4566778899999999999988654 57899999999887 65544 1110001112234567788888899
Q ss_pred hhhhH-----Hh---------hcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 047694 238 IADLA-----EQ---------ERGHVASVVESYMKEYGTSGEETAEEFKKMIADGWKDINE 284 (308)
Q Consensus 238 ~NDi~-----E~---------~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~ 284 (308)
.||+. .. ++|.. +....++ .+.+.+..+++.+.+..
T Consensus 165 ~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 165 TDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 99999 22 33443 3333333 66666777777766655
No 13
>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=84.16 E-value=19 Score=33.21 Aligned_cols=170 Identities=16% Similarity=0.163 Sum_probs=76.5
Q ss_pred cchhccc-CCHHHHHHHHHHHHhcchh--h-hccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHH
Q 047694 108 DDAYDAY-GTLGELRSFTDAVERWDIN--C-ISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAY 183 (308)
Q Consensus 108 DD~yD~~-gt~eEl~~~t~aierWd~~--~-~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~ 183 (308)
||+-|.. ++.++-. ..++.|... . ..+-| -.++..+|.+++.+.. . . ++.+.+++.++
T Consensus 34 Ddi~D~~~~~~~~~~---~~L~~wr~~l~~~~~g~~--~~pv~~aL~~~~~~~~--------l-~----~~~~~~li~~~ 95 (266)
T TIGR03464 34 DDIADEGDGSAEERL---ALLDDFRAELDAIYSGEP--AAPVFVALARTVQRHG--------L-P----IEPFLDLLDAF 95 (266)
T ss_pred HHhccCCCCChHHHH---HHHHHHHHHHHHHhCCCC--CChHHHHHHHHHHHcC--------C-C----hHHHHHHHHHH
Confidence 9999974 4444322 223333211 1 11112 2467777766665421 1 1 23466667666
Q ss_pred HHHHHHHhcCCCCCHHHHHhhhhhhcccc--cchhhhHh-----hhcchHHHHHHHHHHHHhhhhH-HhhcCCcchhHHH
Q 047694 184 FVEAQWFHEGYMPPFDERMSNAIVTGTYI--AGIDAYEW-----LRSQPKIMTASFTLSRLIADLA-EQERGHVASVVES 255 (308)
Q Consensus 184 l~EAkW~~~g~vPs~eEYl~~~~~S~g~~--l~~e~~e~-----~~~~p~i~~~~~~i~RL~NDi~-E~~~G~~an~V~c 255 (308)
.... .....+|++|+..-...+.|.. +.-.++.- ...-..+-.+.++ .-++.|+. ...+|-+ -.=.=
T Consensus 96 ~~Dl---~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g~~~~~~~~~A~~lG~AlQl-tniLRDl~eD~~~gR~-YLP~~ 170 (266)
T TIGR03464 96 RQDV---VVTRYATWAELLDYCRYSANPVGRLVLDLYGASDPENVALSDAICTALQL-INFWQDVGVDYRKGRV-YLPRD 170 (266)
T ss_pred HHhc---cCCCCCCHHHHHHHHHHhHHHHHHHHHHHcCCCChhHHHHHHHHHHHHHH-HHHHHhhHHHHhcCCc-cCCHH
Confidence 5332 2345678887666665555543 11111100 0000012222222 33455777 4556643 00011
Q ss_pred hhhcCCCCHHHHH---------HHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 047694 256 YMKEYGTSGEETA---------EEFKKMIADGWKDINEECMRPTIVPNFQCDSL 300 (308)
Q Consensus 256 yMke~g~s~EeA~---------~~i~~lie~~wk~ln~~~l~~~~~p~~~~~~~ 300 (308)
-|.++|+|.|+-. .-+..++..+..-+.+..---..+|..+.-.+
T Consensus 171 ~l~~~Gv~~edl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~ 224 (266)
T TIGR03464 171 DLARFGVSEEDLAAGRATPALRELMAFEVSRTRALLDRGAPLAARVDGRLGLEL 224 (266)
T ss_pred HHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhhHHH
Confidence 3467899987643 33444444444443332211234666544443
No 14
>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=83.21 E-value=30 Score=31.86 Aligned_cols=122 Identities=9% Similarity=0.096 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc--cchhhhHhhhcchHHHHHHHH------HHHHhhhhH-Hh
Q 047694 174 DMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI--AGIDAYEWLRSQPKIMTASFT------LSRLIADLA-EQ 244 (308)
Q Consensus 174 ~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~--l~~e~~e~~~~~p~i~~~~~~------i~RL~NDi~-E~ 244 (308)
+.+.+++.++-+.. .....+|++|+..-...+.|.. +.-.++.. ..+.....+.. +..++-|+. ..
T Consensus 85 ~~~~~li~g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~--~~~~~~~~a~~lG~AlqltnilRdv~eD~ 159 (266)
T TIGR03465 85 EDFLEVIDGMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIFGA--TDARTLEYAHHLGRALQLTNILRDVGEDA 159 (266)
T ss_pred HHHHHHHHHHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCC--CChhHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 44777777776433 3345678887666555554433 11111110 01111122211 233445666 45
Q ss_pred hcCCcchhHHHhhhcCCCCHH---------HHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 047694 245 ERGHVASVVESYMKEYGTSGE---------ETAEEFKKMIADGWKDINEECMRPTIVPNFQCDSLM 301 (308)
Q Consensus 245 ~~G~~an~V~cyMke~g~s~E---------eA~~~i~~lie~~wk~ln~~~l~~~~~p~~~~~~~~ 301 (308)
++|-+ -.=.=-|.++|+|.+ ....-+..+++.+..-+.+..--...+|+.....+.
T Consensus 160 ~~gR~-ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~~~~~ 224 (266)
T TIGR03465 160 RRGRI-YLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQRAAR 224 (266)
T ss_pred hCCCe-ecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhhHHHH
Confidence 66653 110112456888877 334556666666666555543222457764444333
No 15
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=79.47 E-value=1.5 Score=37.89 Aligned_cols=43 Identities=23% Similarity=0.375 Sum_probs=33.6
Q ss_pred HhhcCCcchhHHHhhhcC-CCCHHHHHHHHHHH------HHHHHHHHHHh
Q 047694 243 EQERGHVASVVESYMKEY-GTSGEETAEEFKKM------IADGWKDINEE 285 (308)
Q Consensus 243 E~~~G~~an~V~cyMke~-g~s~EeA~~~i~~l------ie~~wk~ln~~ 285 (308)
--.||-.+..|.||+.++ |.|.++|.++++++ -...|+-+++-
T Consensus 117 KAGRtRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~ef 166 (183)
T KOG1719|consen 117 KAGRTRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKEF 166 (183)
T ss_pred cCCCccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHHHHH
Confidence 345777899999999988 89999999999874 34566665553
No 16
>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=76.46 E-value=58 Score=29.80 Aligned_cols=141 Identities=11% Similarity=0.197 Sum_probs=69.3
Q ss_pred HHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc--cchhhhHh
Q 047694 143 KPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI--AGIDAYEW 220 (308)
Q Consensus 143 k~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~--l~~e~~e~ 220 (308)
.++..+|..++.+. + --++.+.+++.|+-.... ....||++|...-..-+.|.. +.-.++..
T Consensus 75 ~pv~~al~~~~~~~--------~-----l~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~ 138 (265)
T cd00683 75 HPVLRALADLARRY--------G-----IPREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGA 138 (265)
T ss_pred ChHHHHHHHHHHHc--------C-----CCHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCC
Confidence 36777776665421 1 112447788888775444 456778866555544444432 11112110
Q ss_pred hhcchHHHHHHHH------HHHHhhhhH-HhhcCCc--chhHHHhhhcCCCCHHHHH---------HHHHHHHHHHHHHH
Q 047694 221 LRSQPKIMTASFT------LSRLIADLA-EQERGHV--ASVVESYMKEYGTSGEETA---------EEFKKMIADGWKDI 282 (308)
Q Consensus 221 ~~~~p~i~~~~~~------i~RL~NDi~-E~~~G~~--an~V~cyMke~g~s~EeA~---------~~i~~lie~~wk~l 282 (308)
...+.....+.. ++.++.|+. ..++|-+ +.- -|.++|+|.++-. .-+..+++.+.+-+
T Consensus 139 -~~~~~~~~~A~~lG~AlqltnilRdv~eD~~~gR~YlP~d---~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~ 214 (265)
T cd00683 139 -SSDEAALERARALGLALQLTNILRDVGEDARRGRIYLPRE---ELARFGVTLEDLLAPENSPAFRALLRRLIARARAHY 214 (265)
T ss_pred -CCChHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcCCHH---HHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 011222222222 234555777 4566642 211 2567898886642 44555666666555
Q ss_pred HHhhcCCCCCCHHHHHHHHhh
Q 047694 283 NEECMRPTIVPNFQCDSLMLL 303 (308)
Q Consensus 283 n~~~l~~~~~p~~~~~~~~n~ 303 (308)
....-....+|....-.++-+
T Consensus 215 ~~a~~~~~~lp~~~~~~~~~~ 235 (265)
T cd00683 215 REALAGLAALPRRSRFCVRAA 235 (265)
T ss_pred HHHHHhHHhCCHhhHHHHHHH
Confidence 544322245776544444333
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=73.78 E-value=49 Score=30.24 Aligned_cols=72 Identities=4% Similarity=-0.050 Sum_probs=51.0
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHH
Q 047694 167 YSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFT 233 (308)
Q Consensus 167 ~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~ 233 (308)
.+...+.+....++.|-..+..|... ..||.++|++....-+|.. .+++.. ...-++.+..++
T Consensus 108 ~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~---~~l~~~g~~lG~ 183 (259)
T cd00685 108 RALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEA---EALKRFGRNLGL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHH---HHHHHHHHHHHH
Confidence 35666777888899998888888654 5799999998875555433 122222 223456777888
Q ss_pred HHHHhhhhH
Q 047694 234 LSRLIADLA 242 (308)
Q Consensus 234 i~RL~NDi~ 242 (308)
..-+.||+.
T Consensus 184 afQi~DD~l 192 (259)
T cd00685 184 AFQIQDDIL 192 (259)
T ss_pred HHHHHHHhh
Confidence 888999988
No 18
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=72.95 E-value=75 Score=30.33 Aligned_cols=71 Identities=7% Similarity=0.028 Sum_probs=51.9
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHH
Q 047694 167 YSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFT 233 (308)
Q Consensus 167 ~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~ 233 (308)
.....+.+....++.|-+.+..+..+. +|.++|++....=+|.. .+++..+. .-.+-+..++
T Consensus 134 ~~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~---l~~~g~~lGl 208 (322)
T COG0142 134 EAIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEA---LEDYGRNLGL 208 (322)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHhhH
Confidence 356777888899999988888887666 99999999855444433 23333333 3457788888
Q ss_pred HHHHhhhhH
Q 047694 234 LSRLIADLA 242 (308)
Q Consensus 234 i~RL~NDi~ 242 (308)
..-+.||+.
T Consensus 209 aFQi~DDiL 217 (322)
T COG0142 209 AFQIQDDIL 217 (322)
T ss_pred HHHHHHHhh
Confidence 899999999
No 19
>PLN02857 octaprenyl-diphosphate synthase
Probab=72.21 E-value=59 Score=32.43 Aligned_cols=71 Identities=10% Similarity=0.046 Sum_probs=47.7
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHHH
Q 047694 168 SVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFTL 234 (308)
Q Consensus 168 ~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~i 234 (308)
+...+.+...+++.|-+.+..+.. +..+|.++|++....-+|.. .+++..+. .-++-+..++.
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 566677778888888777777764 34579999998754433322 33443322 34567777888
Q ss_pred HHHhhhhH
Q 047694 235 SRLIADLA 242 (308)
Q Consensus 235 ~RL~NDi~ 242 (308)
..+.||+.
T Consensus 304 FQI~DDiL 311 (416)
T PLN02857 304 FQVVDDIL 311 (416)
T ss_pred HHHHHHHH
Confidence 88899998
No 20
>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=65.17 E-value=4.6 Score=24.65 Aligned_cols=18 Identities=50% Similarity=0.661 Sum_probs=15.3
Q ss_pred HhhhcCCCCHHHHHHHHH
Q 047694 255 SYMKEYGTSGEETAEEFK 272 (308)
Q Consensus 255 cyMke~g~s~EeA~~~i~ 272 (308)
-|.++||+|.|+..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 599999999999877664
No 21
>PLN02890 geranyl diphosphate synthase
Probab=64.35 E-value=1.2e+02 Score=30.34 Aligned_cols=72 Identities=11% Similarity=-0.032 Sum_probs=50.5
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHH
Q 047694 167 YSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFT 233 (308)
Q Consensus 167 ~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~ 233 (308)
.+...+-++...++.|-+.+..|..+ ..+|.++|++....-+|.. .+++..+.+ -++-+..++
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~~-~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lGl 302 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSRE-QRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLGL 302 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHH
Confidence 45677888889999999999888643 4689999998643322221 344444332 356777888
Q ss_pred HHHHhhhhH
Q 047694 234 LSRLIADLA 242 (308)
Q Consensus 234 i~RL~NDi~ 242 (308)
...+.||+.
T Consensus 303 AFQI~DDiL 311 (422)
T PLN02890 303 AFQLIDDVL 311 (422)
T ss_pred HHHHHHHHH
Confidence 888999998
No 22
>PRK08470 adenylosuccinate lyase; Provisional
Probab=61.83 E-value=60 Score=32.47 Aligned_cols=69 Identities=14% Similarity=0.177 Sum_probs=51.3
Q ss_pred cchhhhHhhhcchHHHHHHHHHHHHhhhhH--------------HhhcCCc-chhHHHhhhcCCCCHHHHHHHHHHHHHH
Q 047694 213 AGIDAYEWLRSQPKIMTASFTLSRLIADLA--------------EQERGHV-ASVVESYMKEYGTSGEETAEEFKKMIAD 277 (308)
Q Consensus 213 l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~--------------E~~~G~~-an~V~cyMke~g~s~EeA~~~i~~lie~ 277 (308)
++....+| ...|..+..+....+++.++. +...|-+ +..|...+...|++-++|-+.|++..-.
T Consensus 303 ~~~~~~e~-~~l~~~~~~~~~~l~~~~~~l~~l~v~~~rm~~nl~~~~g~~~ae~l~~~L~~~G~~~~~Ah~~V~~~~~~ 381 (442)
T PRK08470 303 ISHSSVER-FILPDAFITTDFMLHRLNNVIENLVVYPENMMKNLNLTGGLVFSQRVLLELPKKGVSREDAYKIVQRNAMK 381 (442)
T ss_pred CchhHHHh-hhHHHHHHHHHHHHHHHHHHHccCEECHHHHHHHHHhccChHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 44445566 356888888888888887777 2234554 6666666766799999999999999999
Q ss_pred HHHHH
Q 047694 278 GWKDI 282 (308)
Q Consensus 278 ~wk~l 282 (308)
+|+++
T Consensus 382 a~~~~ 386 (442)
T PRK08470 382 VWEDL 386 (442)
T ss_pred HHHHh
Confidence 99983
No 23
>PLN02632 phytoene synthase
Probab=59.03 E-value=1.7e+02 Score=28.05 Aligned_cols=137 Identities=13% Similarity=0.148 Sum_probs=65.8
Q ss_pred HHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc--cchhhhHhh
Q 047694 144 PLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI--AGIDAYEWL 221 (308)
Q Consensus 144 ~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~--l~~e~~e~~ 221 (308)
++..+|.+++.+.. - -++.+.+++.|+..... ....+|++|+..-...+.|.. +.-.++..-
T Consensus 123 pv~~aL~~~~~~~~---------L----~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~ 186 (334)
T PLN02632 123 MLDAALADTVSKFP---------L----DIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIA 186 (334)
T ss_pred hHHHHHHHHHHHCC---------C----ChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCC
Confidence 56666666554332 1 12346777888764432 345678887776655555543 111122110
Q ss_pred h----cchHHHHHH---H---HHHHHhhhhH-HhhcCCcchhHHHhhhcCCCCHHHH---------HHHHHHHHHHHHHH
Q 047694 222 R----SQPKIMTAS---F---TLSRLIADLA-EQERGHVASVVESYMKEYGTSGEET---------AEEFKKMIADGWKD 281 (308)
Q Consensus 222 ~----~~p~i~~~~---~---~i~RL~NDi~-E~~~G~~an~V~cyMke~g~s~EeA---------~~~i~~lie~~wk~ 281 (308)
. ..+...... + -+..++.|+. ...+|-+ -.=.=-|.++|+|.++- ..-+..+++.+..-
T Consensus 187 ~~~~~~~~~~~~~A~~lG~AlQltNILRDv~eD~~~GRv-YLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~ 265 (334)
T PLN02632 187 PESKASTESVYNAALALGIANQLTNILRDVGEDARRGRV-YLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMY 265 (334)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCce-eCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 0 001112221 1 1234556777 5666653 00011256789999873 33345555555544
Q ss_pred HHHhhcCCCCCCHHHH
Q 047694 282 INEECMRPTIVPNFQC 297 (308)
Q Consensus 282 ln~~~l~~~~~p~~~~ 297 (308)
+.+..---..+|+.+.
T Consensus 266 ~~~a~~~l~~lp~~~r 281 (334)
T PLN02632 266 FAEAEEGVSELDPASR 281 (334)
T ss_pred HHHHHHhHhhCCHHhH
Confidence 4443211134776554
No 24
>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=52.13 E-value=2.2e+02 Score=27.15 Aligned_cols=72 Identities=4% Similarity=-0.018 Sum_probs=47.6
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHH
Q 047694 167 YSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFT 233 (308)
Q Consensus 167 ~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~ 233 (308)
.+...+.+....++.|-+.+..+... ..+|.++|++....-+|.. .+++..+ ..-++-...++
T Consensus 133 ~~~~~~~~~~~~~~~Gq~~~~~~~~~-~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~---~l~~~G~~lG~ 208 (322)
T TIGR02749 133 EVVKLISKVITDFAEGEIKQGLNQFD-SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVAN---DLYEYGKHLGL 208 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccC-CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHH---HHHHHHHHHHH
Confidence 35666777788888888877766533 3579999998654333322 2333322 23456777888
Q ss_pred HHHHhhhhH
Q 047694 234 LSRLIADLA 242 (308)
Q Consensus 234 i~RL~NDi~ 242 (308)
...+.||+.
T Consensus 209 aFQi~DDil 217 (322)
T TIGR02749 209 AFQVVDDIL 217 (322)
T ss_pred HHHHHHHhc
Confidence 889999998
No 25
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=51.84 E-value=12 Score=33.36 Aligned_cols=23 Identities=30% Similarity=0.359 Sum_probs=20.0
Q ss_pred HhhhcCCCCHHHHHHHHHHHHHH
Q 047694 255 SYMKEYGTSGEETAEEFKKMIAD 277 (308)
Q Consensus 255 cyMke~g~s~EeA~~~i~~lie~ 277 (308)
+.|+.+|.|++||..+++++--+
T Consensus 153 lLM~~~g~sE~EAy~~lR~~AM~ 175 (194)
T COG3707 153 LLMKRRGLSEEEAYKLLRRTAMD 175 (194)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHh
Confidence 68999999999999999887544
No 26
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=50.85 E-value=78 Score=21.93 Aligned_cols=44 Identities=18% Similarity=0.219 Sum_probs=33.3
Q ss_pred hHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHH
Q 047694 142 MKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEA 187 (308)
Q Consensus 142 mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EA 187 (308)
|-.+-+++..|++|+..++..||- +..-+.++=++++.+.--|.
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 446778999999999999988873 56667777777777655543
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=47.80 E-value=17 Score=25.41 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=20.5
Q ss_pred cchhHHHhhhcCCCCHHHHHHHHHHHHHH
Q 047694 249 VASVVESYMKEYGTSGEETAEEFKKMIAD 277 (308)
Q Consensus 249 ~an~V~cyMke~g~s~EeA~~~i~~lie~ 277 (308)
+.-++.+.|..+|+|+++|.+.+.+.--+
T Consensus 15 I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~ 43 (56)
T PF03861_consen 15 IEQAKGILMARYGLSEDEAYRLLRRQAMR 43 (56)
T ss_dssp HHHHHHHHHHHHT--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHHHHH
Confidence 34456678999999999999998876443
No 28
>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=47.31 E-value=2.6e+02 Score=26.58 Aligned_cols=71 Identities=6% Similarity=-0.086 Sum_probs=47.7
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHHH
Q 047694 168 SVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFTL 234 (308)
Q Consensus 168 ~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~i 234 (308)
+...+.++...++.|-..+..|.. +..+|.++|++....-+|.. .+++..+ ..-++-...++.
T Consensus 130 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~---~l~~~g~~lG~a 205 (319)
T TIGR02748 130 AHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVK---KLYWFGYYVGMS 205 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHH---HHHHHHHHHHHH
Confidence 466677788889998888887753 34579999997655444422 2333222 223466778888
Q ss_pred HHHhhhhH
Q 047694 235 SRLIADLA 242 (308)
Q Consensus 235 ~RL~NDi~ 242 (308)
..+.||+.
T Consensus 206 FQI~DDil 213 (319)
T TIGR02748 206 YQITDDIL 213 (319)
T ss_pred HHHHHHHH
Confidence 89999998
No 29
>smart00463 SMR Small MutS-related domain.
Probab=41.90 E-value=34 Score=25.28 Aligned_cols=24 Identities=17% Similarity=0.136 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 047694 260 YGTSGEETAEEFKKMIADGWKDIN 283 (308)
Q Consensus 260 ~g~s~EeA~~~i~~lie~~wk~ln 283 (308)
||+|.++|+..+...++++++.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999998754
No 30
>PRK07380 adenylosuccinate lyase; Provisional
Probab=40.97 E-value=2.5e+02 Score=28.06 Aligned_cols=67 Identities=22% Similarity=0.187 Sum_probs=46.1
Q ss_pred cchhhhHhhhcchHHHHHHHHHHHHhhhhH--------------HhhcCCc-chhHHHhhhcCCCCHHHHHHHHHHHHHH
Q 047694 213 AGIDAYEWLRSQPKIMTASFTLSRLIADLA--------------EQERGHV-ASVVESYMKEYGTSGEETAEEFKKMIAD 277 (308)
Q Consensus 213 l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~--------------E~~~G~~-an~V~cyMke~g~s~EeA~~~i~~lie~ 277 (308)
++....+| ...|+++.++....+++.++. +...|-+ +..+.-.+-..|++-++|-+.|+++...
T Consensus 303 ~~~~~~e~-~~l~~~~~~~~~~l~~~~~~l~~L~v~~~rm~~nl~~~~g~~~ae~~~~~Lv~~gl~r~~Ah~~V~~~~~~ 381 (431)
T PRK07380 303 ISHSSVER-VMLPDCSILLHFMLREMTDLVKNLLVYPENMRRNMNIYGGVVFSQRVLLALVEKGMSREEAYRLVQKNAHT 381 (431)
T ss_pred chHHHHHH-HHHHHHHHHHHHHHHHHHHHHccCEECHHHHHHHHHhcCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 44445566 466778777777777777776 1123433 3444444445699999999999999999
Q ss_pred HHH
Q 047694 278 GWK 280 (308)
Q Consensus 278 ~wk 280 (308)
+|+
T Consensus 382 a~~ 384 (431)
T PRK07380 382 AWN 384 (431)
T ss_pred HHH
Confidence 998
No 31
>smart00400 ZnF_CHCC zinc finger.
Probab=40.02 E-value=28 Score=24.03 Aligned_cols=25 Identities=24% Similarity=0.151 Sum_probs=20.6
Q ss_pred CCcchhHHHhhhcCCCCHHHHHHHH
Q 047694 247 GHVASVVESYMKEYGTSGEETAEEF 271 (308)
Q Consensus 247 G~~an~V~cyMke~g~s~EeA~~~i 271 (308)
|.-.++|+.+|+-.|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 4456889999988899999998865
No 32
>PF07067 DUF1340: Protein of unknown function (DUF1340); InterPro: IPR009774 This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 235 residues in length. The function of this family is unknown.
Probab=40.01 E-value=2.8e+02 Score=24.85 Aligned_cols=72 Identities=14% Similarity=0.296 Sum_probs=40.1
Q ss_pred CCCCCHHHHHhhhhhhcccc-----------cchhhhHhhhcchHHHHHHHHHHHHhhhhHHhhcCCcchhHHHhhhcC-
Q 047694 193 GYMPPFDERMSNAIVTGTYI-----------AGIDAYEWLRSQPKIMTASFTLSRLIADLAEQERGHVASVVESYMKEY- 260 (308)
Q Consensus 193 g~vPs~eEYl~~~~~S~g~~-----------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~E~~~G~~an~V~cyMke~- 260 (308)
|-.-.++||+..-..+.|.. +|++.|. +.++.|.+....+. |.+.-|+.+-
T Consensus 80 gL~NDlq~yL~~~y~~~~~~~rpd~dk~NAGL~eeLfk----------------q~~~Ei~~Lra~hp-n~~~~YIm~vK 142 (236)
T PF07067_consen 80 GLANDLQEYLSKHYTSRSVKCRPDTDKTNAGLPEELFK----------------QYREEIEELRAAHP-NNFTNYIMDVK 142 (236)
T ss_pred HHHHHHHHHHHhhcccCCCccCCCcccccCCCCHHHHH----------------HHHHHHHHHHHhCc-chHHHHHHHhc
Confidence 33446777877666544433 6666553 33444444444454 4445566555
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH
Q 047694 261 GTSGEETAEEFKKMIADGWKDI 282 (308)
Q Consensus 261 g~s~EeA~~~i~~lie~~wk~l 282 (308)
|.+-++|- .|..-|+.++.++
T Consensus 143 gC~~q~An-~i~taiNt~YtE~ 163 (236)
T PF07067_consen 143 GCSNQQAN-TIRTAINTCYTEI 163 (236)
T ss_pred cccHHHHH-HHHHHHHHHHHHH
Confidence 77777664 3555566665553
No 33
>PRK07492 adenylosuccinate lyase; Provisional
Probab=39.31 E-value=2.5e+02 Score=28.07 Aligned_cols=68 Identities=15% Similarity=0.111 Sum_probs=47.0
Q ss_pred cchhhhHhhhcchHHHHHHHHHHHHhhhhH--------------HhhcCCc-chhHHHhhhcCCCCHHHHHHHHHHHHHH
Q 047694 213 AGIDAYEWLRSQPKIMTASFTLSRLIADLA--------------EQERGHV-ASVVESYMKEYGTSGEETAEEFKKMIAD 277 (308)
Q Consensus 213 l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~--------------E~~~G~~-an~V~cyMke~g~s~EeA~~~i~~lie~ 277 (308)
++....+| ...|+++.++....+.+.++. +...|-+ +..|...+..+|++-++|-+.|++....
T Consensus 306 ~~~~~~e~-~~lp~~~~~~~~~l~~~~~~l~~L~v~~~rm~~nl~~~~g~i~ae~~~~~L~~~g~~r~~Ah~~V~~~~~~ 384 (435)
T PRK07492 306 ISHSSVER-MIGPDATITLDFALNRLAGVIEKLVVYPENMLKNLNKFGGLVHSQRVLLALTQAGVSREDAYRLVQRNAMK 384 (435)
T ss_pred ChHHHHhh-hHHHHHHHHHHHHHHHHHHHHccCEECHHHHHHHHhhcCChhHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 34445666 355777777777777777766 2223543 5555556666799999999999999998
Q ss_pred HHHH
Q 047694 278 GWKD 281 (308)
Q Consensus 278 ~wk~ 281 (308)
+|++
T Consensus 385 a~~~ 388 (435)
T PRK07492 385 VWEQ 388 (435)
T ss_pred HHHh
Confidence 8875
No 34
>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=37.55 E-value=42 Score=24.96 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=23.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhhc
Q 047694 260 YGTSGEETAEEFKKMIADGWKDINEECM 287 (308)
Q Consensus 260 ~g~s~EeA~~~i~~lie~~wk~ln~~~l 287 (308)
||++.++|+..+...+.++++.-...+.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~~ 31 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIRELR 31 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEEE
Confidence 7999999999999999999977665554
No 35
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=33.67 E-value=33 Score=31.65 Aligned_cols=44 Identities=9% Similarity=0.078 Sum_probs=31.9
Q ss_pred hhcCCcchhHHHhhhcCCCCHHHHHHHHHHH----HHHHHHHHHHhhc
Q 047694 244 QERGHVASVVESYMKEYGTSGEETAEEFKKM----IADGWKDINEECM 287 (308)
Q Consensus 244 ~~~G~~an~V~cyMke~g~s~EeA~~~i~~l----ie~~wk~ln~~~l 287 (308)
-..|-.+..+.|||.++|+|.++|++.|+.. |.....++.+.+-
T Consensus 179 AGlGRTGtl~AayLI~~GmspeeAI~~VR~~RPgAIn~~Q~~fL~~y~ 226 (241)
T PTZ00393 179 AGLGRAPVLASIVLIEFGMDPIDAIVFIRDRRKGAINKRQLQFLKAYK 226 (241)
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Confidence 3455667889999999999999999999864 3444444444443
No 36
>CHL00151 preA prenyl transferase; Reviewed
Probab=30.42 E-value=4.8e+02 Score=24.76 Aligned_cols=71 Identities=8% Similarity=-0.040 Sum_probs=45.1
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcc-cc------------cchhhhHhhhcchHHHHHHHHH
Q 047694 168 SVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGT-YI------------AGIDAYEWLRSQPKIMTASFTL 234 (308)
Q Consensus 168 ~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g-~~------------l~~e~~e~~~~~p~i~~~~~~i 234 (308)
+...+.+....++.+-+.+..+.. ...+|.++|+.....=+| +. .+++..+ ..-++-...++.
T Consensus 135 ~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~---~l~~~G~~lG~a 210 (323)
T CHL00151 135 VVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHN---DFYLYGKHLGLA 210 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHH---HHHHHHHHHHHH
Confidence 456677778888888777766643 335789999986332222 21 2333322 234567778888
Q ss_pred HHHhhhhH
Q 047694 235 SRLIADLA 242 (308)
Q Consensus 235 ~RL~NDi~ 242 (308)
..+.||+.
T Consensus 211 FQi~DDil 218 (323)
T CHL00151 211 FQIIDDVL 218 (323)
T ss_pred HHHHHHHh
Confidence 89999998
No 37
>TIGR01542 A118_put_portal phage portal protein, putative, A118 family. This model represents a family of phage minor structural proteins. The protein is suggested to be the head-tail connector, or portal protein, on the basis of its position in the phage gene order, its presence in mature phage, its size, and its conservation across a number of complete genomes of tailed phage that lack other candidate portal proteins. Several other known portal protein families lack clear homology to this family and to each other.
Probab=30.04 E-value=2.1e+02 Score=29.13 Aligned_cols=94 Identities=13% Similarity=0.180 Sum_probs=55.9
Q ss_pred CCCchHHhHHHHHHHHHHHHHHHHHHHh--cCCCCCHHHHHhhhhhhcccccchhhhHhhhcchHHHHHHHHHHHHhhhh
Q 047694 164 GRSYSVSFTKDMMKGVARAYFVEAQWFH--EGYMPPFDERMSNAIVTGTYIAGIDAYEWLRSQPKIMTASFTLSRLIADL 241 (308)
Q Consensus 164 g~~~~~~~lk~~~~~~~~a~l~EAkW~~--~g~vPs~eEYl~~~~~S~g~~l~~e~~e~~~~~p~i~~~~~~i~RL~NDi 241 (308)
.+..+..+++++.++++.+.+.=+++.. .+.+|+.++ +|+.. ++.++.. ++ ....+ ++
T Consensus 375 t~~~~~~~l~~aL~~Lv~ail~~~~~~~~~~~~~~~~~~------v~v~f--dDsi~~D----~e-----~e~~~---~~ 434 (476)
T TIGR01542 375 TRNSHSQLVEQGIKELIVSILEVAKFIEAYSGEVVELDT------ITIDF--DDGVFQD----ED-----TTINR---YT 434 (476)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCc------eEEec--CCccccC----HH-----HHHHH---HH
Confidence 4445788999999999999998887752 333443221 23222 3322211 10 11111 22
Q ss_pred HHhhcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 047694 242 AEQERGHVASVVESYMKEYGTSGEETAEEFKKMIADG 278 (308)
Q Consensus 242 ~E~~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~ 278 (308)
....-|-+ +.-.+.|+-+|.|+|||.+.+.++-++.
T Consensus 435 ~~vaaG~m-s~~~yl~k~yg~~eeeA~~~~~~i~~e~ 470 (476)
T TIGR01542 435 NAVNAGMI-PLKIALQRAWNITEEEADEWAAMIAKEK 470 (476)
T ss_pred HHHHcCCC-CHHHHHHHccCCCHHHHHHHHHHHhhhh
Confidence 23455655 6667777767999999999988775543
No 38
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=29.98 E-value=48 Score=27.37 Aligned_cols=22 Identities=23% Similarity=0.359 Sum_probs=18.2
Q ss_pred hHHHhhhcCCCCHHHHHHHHHH
Q 047694 252 VVESYMKEYGTSGEETAEEFKK 273 (308)
Q Consensus 252 ~V~cyMke~g~s~EeA~~~i~~ 273 (308)
=|.+.|.|.|+|.|+|+..+.+
T Consensus 87 DIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 87 DIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHhCCCHHHHHHHHHH
Confidence 3688899999999999987653
No 39
>TIGR03755 conj_TIGR03755 integrating conjugative element protein, PFL_4711 family. Members of this protein family are found in genomic regions associated with conjugative transfer and integrated TOL-like plasmids. The specific function is unknown.
Probab=26.99 E-value=6e+02 Score=25.46 Aligned_cols=89 Identities=19% Similarity=0.228 Sum_probs=57.8
Q ss_pred cCCCC-CHHHHHhhhhhhcccccchhhhHhhhcchHHHHHHHHHHHHhhhhH-----HhhcCCcchhHHHhhhcCCCCH-
Q 047694 192 EGYMP-PFDERMSNAIVTGTYIAGIDAYEWLRSQPKIMTASFTLSRLIADLA-----EQERGHVASVVESYMKEYGTSG- 264 (308)
Q Consensus 192 ~g~vP-s~eEYl~~~~~S~g~~l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~-----E~~~G~~an~V~cyMke~g~s~- 264 (308)
+|..| |.+.+-+.+ |.++++|..+++-+...| .-.-++.||.-+|+ |+.-= .-.++..=|+|.++.-
T Consensus 275 ~~~~~~t~enL~k~s--a~~l~ITrgVIeALr~~P---dq~~l~~RLA~EiA~a~~~ekALl-~RR~L~tG~~ePnva~~ 348 (418)
T TIGR03755 275 SGATPPTQENLAKAS--SPSLPITRGVIEALREDP---DQSLLVQRLASEIALADTLEKALL-MRRMLLTGLQEPNVAAN 348 (418)
T ss_pred cCCCCCCHHHHHHhc--CCCccccHHHHHHHHhCh---hhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcccCcccccC
Confidence 45555 888876655 556779999999998888 66778889999998 43210 0122233344444433
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 047694 265 EETAEEFKKMIADGWKDINEEC 286 (308)
Q Consensus 265 EeA~~~i~~lie~~wk~ln~~~ 286 (308)
+.|.+++...++.-=++|+..-
T Consensus 349 ~~A~~~~~~~i~~LDrEI~~Lk 370 (418)
T TIGR03755 349 KPAQQEVDKAIDKLDREINNLK 370 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777777766666543
No 40
>PF10193 Telomere_reg-2: Telomere length regulation protein; InterPro: IPR019337 This entry represents a conserved domain found in a group of proteins called telomere-length regulation, or clock abnormal protein-2, which are conserved from plants to humans. These proteins regulate telomere length and contribute to silencing of sub-telomeric regions []. In vitro the protein binds to telomeric DNA repeats. ; PDB: 3O4Z_B.
Probab=24.98 E-value=1.4e+02 Score=24.05 Aligned_cols=48 Identities=17% Similarity=0.131 Sum_probs=30.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccccchhhhHhh
Q 047694 171 FTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYIAGIDAYEWL 221 (308)
Q Consensus 171 ~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~l~~e~~e~~ 221 (308)
-+.+...++++..+ .-.++-.+|.|+++=.++.++..+..|+.+..|+
T Consensus 42 el~~~a~eL~~~Ll---~L~~~f~~~~Fe~~R~~alval~v~~P~~~~~~L 89 (114)
T PF10193_consen 42 ELSEYAEELLKALL---HLQNKFDIENFEELRQNALVALVVAAPEKVAPYL 89 (114)
T ss_dssp SHHHHHHHHHHHHH---H---TT--TTTTHHHHHHHHHHHHHSGGGHHH-H
T ss_pred hHHHHHHHHHHHHh---hccccCCccCHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 34455666665555 3444667999999999999999888777766654
No 41
>COG4860 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.38 E-value=1.5e+02 Score=25.32 Aligned_cols=60 Identities=27% Similarity=0.427 Sum_probs=36.7
Q ss_pred HHHHHHHHh---HHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHh--cCCCCCHHHHHhhhhhhcc
Q 047694 143 KPLFSALSN---PFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFH--EGYMPPFDERMSNAIVTGT 210 (308)
Q Consensus 143 k~~f~al~~---~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~--~g~vPs~eEYl~~~~~S~g 210 (308)
|-+|.+|.. |..+|++...++|+. .+.+ +=++=|-|++|+- +|..|+-+=+.....+++-
T Consensus 27 rKl~~aLstgW~T~~eiee~iG~eg~R-aL~i-------LkkagmlEtqWr~p~~G~kPeKeYHtsYt~VqiN 91 (170)
T COG4860 27 RKLLLALSTGWITLPEIEEKIGKEGRR-ALLI-------LKKAGMLETQWRTPSNGQKPEKEYHTSYTNVQIN 91 (170)
T ss_pred HHHHHHHhhcceeHHHHHHHhchhhHH-HHHH-------HHhhcchhheeeccCCCCCchhhhhhheeeEEEE
Confidence 455666655 566777777666652 3334 3345578999984 5788876655444555543
No 42
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=24.19 E-value=1.1e+02 Score=24.57 Aligned_cols=25 Identities=24% Similarity=0.250 Sum_probs=18.6
Q ss_pred CcchhHHHh-hhcCCCCHHHHHHHHH
Q 047694 248 HVASVVESY-MKEYGTSGEETAEEFK 272 (308)
Q Consensus 248 ~~an~V~cy-Mke~g~s~EeA~~~i~ 272 (308)
-.+..+.|| |...|.|.++|++.++
T Consensus 91 RS~~v~~~yl~~~~~~~~~~A~~~v~ 116 (138)
T smart00195 91 RSATLIIAYLMKYRNLSLNDAYDFVK 116 (138)
T ss_pred hHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 345566777 4556999999999885
No 43
>PRK10581 geranyltranstransferase; Provisional
Probab=23.07 E-value=5.1e+02 Score=24.39 Aligned_cols=97 Identities=12% Similarity=0.086 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHhhhh-hhcccc------------cch-hhhHhhhcchHHHHHHHHHHHHhhhhH
Q 047694 177 KGVARAYFVEAQWFHEGYMPPFDERMSNAI-VTGTYI------------AGI-DAYEWLRSQPKIMTASFTLSRLIADLA 242 (308)
Q Consensus 177 ~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~-~S~g~~------------l~~-e~~e~~~~~p~i~~~~~~i~RL~NDi~ 242 (308)
..++.|-+.+..|.. ..+|.++|++... .|.++. .++ +..+ ..-++....++..-+.||+.
T Consensus 152 ~~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~---~l~~~g~~lG~aFQI~DDil 226 (299)
T PRK10581 152 AGMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALP---VLDRYAESIGLAFQVQDDIL 226 (299)
T ss_pred chhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHH---HHHHHHHHHHHHHHHHHHHc
Confidence 456677676777753 4689999997643 333221 121 2222 23456777888889999999
Q ss_pred -----HhhcCCc---------chhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 047694 243 -----EQERGHV---------ASVVESYMKEYGTSGEETAEEFKKMIADGWKDINE 284 (308)
Q Consensus 243 -----E~~~G~~---------an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~ 284 (308)
+..-|+. .+.+.+| ..|.|.+.+++.++++.+.+..
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 3333332 1222222 2478888899999999877665
No 44
>PF08519 RFC1: Replication factor RFC1 C terminal domain; InterPro: IPR013725 This is the C-terminal domain of replication factor C, RFC1. RFC complexes hydrolyse ATP and load sliding clamps such as PCNA (proliferating cell nuclear antigen) onto double-stranded DNA. RFC1 is essential for RFC function in vivo [, ]. ; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_A.
Probab=22.76 E-value=28 Score=29.77 Aligned_cols=55 Identities=20% Similarity=0.366 Sum_probs=0.0
Q ss_pred hhhHHhhcCCcchhHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 047694 239 ADLAEQERGHVASVVESYMKEYGTSGEETAEEFKKMIADGWKDINEECMRPTIVPNFQCDSL 300 (308)
Q Consensus 239 NDi~E~~~G~~an~V~cyMke~g~s~EeA~~~i~~lie~~wk~ln~~~l~~~~~p~~~~~~~ 300 (308)
+-+.+++.+.+..+|+ +|.++++|.|+. +.|.++. .|......+ +.+|..+|-.|
T Consensus 95 ~pL~~~~~~~v~~vi~-~Md~Y~Ltred~-d~i~el~--~~~~~~~~~---~~i~tkvKaaf 149 (155)
T PF08519_consen 95 QPLIEQGKDGVDEVID-LMDEYGLTREDW-DNIMELS--KWPGKEDPL---KKIDTKVKAAF 149 (155)
T ss_dssp --------------------------------------------------------------
T ss_pred HHHHHcCcccHHHHHH-HHHHhCCCHHHH-HHHHHhc--cCCCCcccc---cCCcHHHHHHH
Confidence 3333455557778887 999999999998 8888887 443322211 23666665544
No 45
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=22.58 E-value=9.8e+02 Score=26.37 Aligned_cols=110 Identities=16% Similarity=0.169 Sum_probs=68.6
Q ss_pred HHHHHHHHhH--------HHHHHHHHHhc-CCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccc-
Q 047694 143 KPLFSALSNP--------FDELNNELAEE-GRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYI- 212 (308)
Q Consensus 143 k~~f~al~~~--------~~ei~~~~~~~-g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~- 212 (308)
+-||.++-++ +.||+.+...+ ||....-|-..++..++..-++||+-.--..- ..|| .+|+.
T Consensus 497 ercfaai~dvak~r~lhd~~eiadeas~~~ggdgt~fykvra~lail~kkfk~ae~ifleqn-~te~-------aigmy~ 568 (1636)
T KOG3616|consen 497 ERCFAAIGDVAKARFLHDILEIADEASIEIGGDGTDFYKVRAMLAILEKKFKEAEMIFLEQN-ATEE-------AIGMYQ 568 (1636)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHhhCCCCchHHHHHHHHHHHHhhhhHHHHHHHhcc-cHHH-------HHHHHH
Confidence 5788887663 56777666543 77655556666677777666777764321111 1111 11222
Q ss_pred ---cchhhhH--hhhcchHHHHHHHHHHHHhhhhH------H--hhcCCcchhHHHhhhcC
Q 047694 213 ---AGIDAYE--WLRSQPKIMTASFTLSRLIADLA------E--QERGHVASVVESYMKEY 260 (308)
Q Consensus 213 ---l~~e~~e--~~~~~p~i~~~~~~i~RL~NDi~------E--~~~G~~an~V~cyMke~ 260 (308)
-=+|.++ -+..+|.+.++-....|.+-|.+ | ...|+.-++|+.|+|.+
T Consensus 569 ~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk~sdgd~laaiqlyika~ 629 (1636)
T KOG3616|consen 569 ELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELKESDGDGLAAIQLYIKAG 629 (1636)
T ss_pred HHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhccccCccHHHHHHHHHcC
Confidence 1112222 13788999999999999999988 3 25788889999999854
No 46
>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=22.51 E-value=71 Score=24.86 Aligned_cols=29 Identities=24% Similarity=0.227 Sum_probs=19.7
Q ss_pred CCcchhHHHhhhcCCCCHHHHHHHHHHHH
Q 047694 247 GHVASVVESYMKEYGTSGEETAEEFKKMI 275 (308)
Q Consensus 247 G~~an~V~cyMke~g~s~EeA~~~i~~li 275 (308)
|...++|..+|+-.|+|-.||++.+.++.
T Consensus 61 g~~Gd~i~~v~~~~~~~f~eAv~~l~~~~ 89 (97)
T PF01807_consen 61 GKGGDVIDFVMKYEGCSFKEAVKWLAEEF 89 (97)
T ss_dssp --EE-HHHHHHHHHT--HHHHHHHHHHHH
T ss_pred CCCCcHHhHHHHHhCCCHHHHHHHHHHHh
Confidence 33457799888877999999999887764
No 47
>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]
Probab=21.56 E-value=2.1e+02 Score=29.29 Aligned_cols=88 Identities=15% Similarity=0.100 Sum_probs=52.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhhhcccccchhhhHhhhcchHHHHHHHHHHHHhhhhHHhhcCC
Q 047694 169 VSFTKDMMKGVARAYFVEAQWFHEGYMPPFDERMSNAIVTGTYIAGIDAYEWLRSQPKIMTASFTLSRLIADLAEQERGH 248 (308)
Q Consensus 169 ~~~lk~~~~~~~~a~l~EAkW~~~g~vPs~eEYl~~~~~S~g~~l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~E~~~G~ 248 (308)
=+++++.+.++=+.-. |--|...|-.-+=|-+-+.--.|++.. +. ++..=.-.|.....++.|..+.+|..|+..|+
T Consensus 121 DPRLk~mMd~mKd~dq-~~~e~S~gw~LdKDlFKkcI~sSI~lv-Sq-ALrkqmVIPdw~~Fts~I~tIFEscke~seG~ 197 (622)
T KOG0506|consen 121 DPRLKDMMDEMKDVDQ-EENESSSGWLLDKDLFKKCIFSSIVLV-SQ-ALRKQMVIPDWEEFTSHIDTIFESCKESSEGK 197 (622)
T ss_pred CchHHHHHHHHHHHHh-hhcccccceeecHHHHHHhhccchhHH-HH-HHhcCccCCcHHHHHHHHHHHHHHHHhcCCcc
Confidence 3555555554433322 333555555545444444444444432 21 22211456888899999999999999999999
Q ss_pred cchhHHHhhhc
Q 047694 249 VASVVESYMKE 259 (308)
Q Consensus 249 ~an~V~cyMke 259 (308)
+|.-|.=.-++
T Consensus 198 vA~YIPQLar~ 208 (622)
T KOG0506|consen 198 VATYIPQLARQ 208 (622)
T ss_pred HHHhhHHHhcc
Confidence 98877644443
No 48
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=20.96 E-value=33 Score=24.48 Aligned_cols=33 Identities=12% Similarity=0.200 Sum_probs=26.9
Q ss_pred cCCHHHHHHHHHHHHhcchhhhccCCCchHHHH
Q 047694 114 YGTLGELRSFTDAVERWDINCISELPEYMKPLF 146 (308)
Q Consensus 114 ~gt~eEl~~~t~aierWd~~~~~~lp~~mk~~f 146 (308)
+.+.++++.+.+.+++|....-..+|..++|+|
T Consensus 3 ~~~~~~a~~~~~~LR~~Kv~~~~~vP~~lEI~~ 35 (58)
T PF06883_consen 3 YVSPEEAEQIADQLRYLKVEGEHGVPPTLEIGY 35 (58)
T ss_pred eecHHHHHHHHHHHHHHHHcCCCCCCCceEEEE
Confidence 457789999999999999887777888776654
No 49
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=20.52 E-value=9.3e+02 Score=24.84 Aligned_cols=53 Identities=23% Similarity=0.392 Sum_probs=41.1
Q ss_pred HHHhhhhhhhhhhhHHHHHh---HhHhh---------cCCC--ccchhHHHHHHHHhh-hccCCCCCc
Q 047694 55 KFAKLDFNRVQLPHQQELAY---ITRWV---------STYS--YSRDRTVEMYLWSVA-QYFEPHFSR 107 (308)
Q Consensus 55 elAkldFn~~Q~~h~~El~~---i~rWw---------~~l~--f~R~r~ve~yf~~~~-~~~eP~~s~ 107 (308)
|||.-||.-+.++.-+=|+. +.-|- .++. -+|-.++++|=..++ ++|||+.+.
T Consensus 86 ELA~~df~svE~lf~rCL~k~l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~ 153 (660)
T COG5107 86 ELARKDFRSVESLFGRCLKKSLNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSEN 153 (660)
T ss_pred hhhhhhHHHHHHHHHHHHhhhccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccc
Confidence 79999999998887665543 56675 3332 689999999977776 699999988
No 50
>COG4755 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.43 E-value=5.2e+02 Score=21.71 Aligned_cols=78 Identities=18% Similarity=0.234 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhcchhhhccCCCchHHHHHHHHhHHHHHHHHHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHhcCCCC
Q 047694 117 LGELRSFTDAVERWDINCISELPEYMKPLFSALSNPFDELNNELAEEGRSYSVSFTKDMMKGVARAYFVEAQWFHEGYMP 196 (308)
Q Consensus 117 ~eEl~~~t~aierWd~~~~~~lp~~mk~~f~al~~~~~ei~~~~~~~g~~~~~~~lk~~~~~~~~a~l~EAkW~~~g~vP 196 (308)
++.+..|+..+++|-. +-+.++.+++.++..+....|-+.+.+.+-++..+++-.-
T Consensus 10 ~~~~~sf~~~Le~Wvk------------lQk~~l~~lk~~~~~~k~~DRLdLi~~~r~af~hm~rtLK------------ 65 (151)
T COG4755 10 LEYLESFMERLEQWVK------------LQKRQLKELKSHGEHMKVADRLDLIYSARAAFGHMARTLK------------ 65 (151)
T ss_pred HHHHHHHHHHHHHHHH------------HHHHHHHHHHhHHHHhhHHHHHHHHHHHHHHHHHHHHHHH------------
Confidence 4678899999999953 2344566677776655444343444444444444443322
Q ss_pred CHHHHHhhhhhhcccccchhhhHh
Q 047694 197 PFDERMSNAIVTGTYIAGIDAYEW 220 (308)
Q Consensus 197 s~eEYl~~~~~S~g~~l~~e~~e~ 220 (308)
.||..+.+-.+|+-. |.|.+..
T Consensus 66 aFd~WLqdP~v~s~m--PremL~d 87 (151)
T COG4755 66 AFDSWLQDPVVTSVM--PREMLRD 87 (151)
T ss_pred HHHHHHhCchHhhhC--cHHHHHH
Confidence 456666666666544 4554443
No 51
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms. For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....
Probab=20.40 E-value=6.5e+02 Score=22.80 Aligned_cols=62 Identities=11% Similarity=-0.032 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHH-HhcCCCCCHHHHHhhhhhhcccc-------------cchhhhHhhhcchHHHHHHHHHHHHhhhhH
Q 047694 178 GVARAYFVEAQW-FHEGYMPPFDERMSNAIVTGTYI-------------AGIDAYEWLRSQPKIMTASFTLSRLIADLA 242 (308)
Q Consensus 178 ~~~~a~l~EAkW-~~~g~vPs~eEYl~~~~~S~g~~-------------l~~e~~e~~~~~p~i~~~~~~i~RL~NDi~ 242 (308)
..+.+..-+..- ...+..+|.++|++....-+|.. .+++.. ...-++....++...+.||+.
T Consensus 114 ~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~---~~l~~~g~~lG~afQi~DD~~ 189 (260)
T PF00348_consen 114 ALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQI---EALREFGRHLGIAFQIRDDLL 189 (260)
T ss_dssp HHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHH---HHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHH---HHHHHHHHHHHHHHhhhhhhh
Confidence 344444433322 22344889999999977666644 232222 233467788888899999999
Done!