Query 038218
Match_columns 280
No_of_seqs 191 out of 800
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 08:48:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038218.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038218hhsearch_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 5.2E-69 1.1E-73 539.9 26.1 265 1-272 515-781 (784)
2 cd00684 Terpene_cyclase_plant_ 100.0 1.5E-68 3.3E-73 524.6 27.5 261 1-266 282-542 (542)
3 cd00868 Terpene_cyclase_C1 Ter 100.0 2.8E-42 6E-47 311.6 25.5 235 2-242 49-284 (284)
4 PLN02592 ent-copalyl diphospha 100.0 3E-39 6.6E-44 323.9 20.7 222 1-268 563-800 (800)
5 PF03936 Terpene_synth_C: Terp 100.0 7.3E-39 1.6E-43 287.3 16.1 207 2-211 63-270 (270)
6 cd00687 Terpene_cyclase_nonpla 100.0 5.8E-34 1.3E-38 260.7 17.1 199 4-208 61-261 (303)
7 PLN02150 terpene synthase/cycl 100.0 3.8E-34 8.1E-39 219.4 9.9 95 170-269 1-96 (96)
8 cd00385 Isoprenoid_Biosyn_C1 I 99.9 1.3E-21 2.7E-26 169.4 14.8 215 2-236 16-243 (243)
9 cd00686 Terpene_cyclase_cis_tr 98.1 2.9E-05 6.3E-10 71.7 11.9 191 5-218 89-280 (357)
10 PF06330 TRI5: Trichodiene syn 98.1 2.2E-05 4.8E-10 73.4 10.1 184 2-208 86-273 (376)
11 cd00867 Trans_IPPS Trans-Isopr 96.7 0.075 1.6E-06 46.5 14.5 116 77-208 86-212 (236)
12 cd00685 Trans_IPPS_HT Trans-Is 94.3 2.9 6.2E-05 37.4 15.3 120 75-208 107-237 (259)
13 PF00494 SQS_PSY: Squalene/phy 93.7 0.97 2.1E-05 40.4 11.2 165 2-195 20-192 (267)
14 COG0142 IspA Geranylgeranyl py 92.5 8.7 0.00019 35.7 15.9 109 76-189 134-252 (322)
15 TIGR02749 prenyl_cyano solanes 91.9 11 0.00023 35.1 16.8 89 75-167 132-220 (322)
16 PLN02890 geranyl diphosphate s 91.4 10 0.00022 36.8 15.3 91 74-168 225-315 (422)
17 TIGR03465 HpnD squalene syntha 91.0 11 0.00024 33.7 15.4 173 2-208 20-205 (266)
18 PLN02857 octaprenyl-diphosphat 90.4 8.1 0.00018 37.4 13.7 89 76-168 227-315 (416)
19 cd00683 Trans_IPPS_HH Trans-Is 86.8 22 0.00048 31.7 14.6 157 2-192 26-189 (265)
20 TIGR02748 GerC3_HepT heptapren 86.5 27 0.00059 32.3 16.4 87 76-167 129-216 (319)
21 TIGR03464 HpnC squalene syntha 82.2 37 0.00081 30.4 16.2 156 2-193 20-182 (266)
22 PLN02632 phytoene synthase 80.8 49 0.0011 30.9 15.7 158 2-192 75-241 (334)
23 CHL00151 preA prenyl transfera 80.5 49 0.0011 30.7 14.3 88 77-168 135-222 (323)
24 PRK10888 octaprenyl diphosphat 77.0 63 0.0014 30.0 17.1 91 74-168 128-218 (323)
25 KOG1719 Dual specificity phosp 75.9 2.4 5.2E-05 35.4 2.6 38 171-208 119-163 (183)
26 COG3707 AmiR Response regulato 75.2 2.6 5.7E-05 36.3 2.8 49 155-203 126-175 (194)
27 PF03861 ANTAR: ANTAR domain; 73.8 3.6 7.7E-05 27.9 2.7 30 175-204 15-44 (56)
28 PF10776 DUF2600: Protein of u 73.5 81 0.0017 29.6 15.1 124 101-247 173-296 (330)
29 PF12368 DUF3650: Protein of u 66.6 4.8 0.0001 23.6 1.7 18 181-198 9-26 (28)
30 PRK10581 geranyltranstransfera 63.7 1.2E+02 0.0026 27.9 11.3 111 86-208 152-274 (299)
31 PF00348 polyprenyl_synt: Poly 59.8 1.1E+02 0.0023 27.2 10.1 79 87-168 114-193 (260)
32 smart00400 ZnF_CHCC zinc finge 52.7 17 0.00037 24.3 2.9 25 173-197 30-54 (55)
33 smart00463 SMR Small MutS-rela 52.5 18 0.00039 25.9 3.2 23 186-208 7-29 (80)
34 COG1308 EGD2 Transcription fac 50.7 17 0.00037 29.0 2.9 22 178-199 87-108 (122)
35 PF01713 Smr: Smr domain; Int 50.4 20 0.00042 26.0 3.1 23 186-208 4-26 (83)
36 COG1093 SUI2 Translation initi 48.0 38 0.00082 30.6 5.0 65 166-236 97-169 (269)
37 TIGR01559 squal_synth farnesyl 47.6 2.4E+02 0.0053 26.4 20.1 238 2-265 28-293 (336)
38 COG2443 Sss1 Preprotein transl 42.9 90 0.002 22.1 5.2 21 103-123 26-46 (65)
39 PF03701 UPF0181: Uncharacteri 41.2 54 0.0012 22.0 3.7 45 160-206 2-46 (51)
40 PRK06369 nac nascent polypepti 36.9 35 0.00076 27.0 2.7 27 173-199 74-100 (115)
41 TIGR00264 alpha-NAC-related pr 34.9 40 0.00087 26.6 2.8 24 176-199 79-102 (116)
42 PRK14562 haloacid dehalogenase 33.0 1.5E+02 0.0033 25.6 6.4 54 55-109 53-106 (204)
43 PF06603 UpxZ: UpxZ family of 32.8 70 0.0015 24.8 3.7 71 148-232 26-100 (106)
44 PF10397 ADSL_C: Adenylosuccin 32.4 64 0.0014 23.3 3.4 30 178-207 8-37 (81)
45 KOG0776 Geranylgeranyl pyropho 32.3 4E+02 0.0086 25.6 9.4 96 73-172 193-292 (384)
46 PF00156 Pribosyltran: Phospho 32.0 13 0.00028 28.6 -0.4 21 12-32 91-111 (125)
47 PF01807 zf-CHC2: CHC2 zinc fi 31.2 46 0.001 25.1 2.6 28 175-202 63-90 (97)
48 PTZ00393 protein tyrosine phos 30.8 46 0.001 29.7 2.8 27 173-199 182-208 (241)
49 cd02433 Nodulin-21_like_2 Nodu 30.2 1.6E+02 0.0034 26.1 6.2 37 177-214 102-140 (234)
50 PF02061 Lambda_CIII: Lambda P 29.3 1.3E+02 0.0029 19.2 3.9 27 187-216 12-40 (45)
51 PRK09177 xanthine-guanine phos 28.8 20 0.00042 29.7 0.1 24 12-35 87-110 (156)
52 KOG3730 Acyl-CoA:dihydroxyacte 27.6 1.3E+02 0.0028 29.8 5.4 35 174-208 76-110 (685)
53 PRK05114 hypothetical protein; 27.2 1.1E+02 0.0024 21.0 3.5 45 160-206 2-46 (59)
54 PF05772 NinB: NinB protein; 26.9 46 0.001 26.7 2.0 59 57-119 42-101 (127)
55 PRK13694 hypothetical protein; 26.8 45 0.00098 24.7 1.7 21 21-41 6-27 (83)
56 COG2236 Predicted phosphoribos 26.4 26 0.00057 30.2 0.5 22 13-34 91-112 (192)
57 KOG1464 COP9 signalosome, subu 23.8 4.9E+02 0.011 24.2 8.0 121 60-208 231-354 (440)
58 COG1562 ERG9 Phytoene/squalene 23.1 2.9E+02 0.0063 25.3 6.7 111 2-129 36-146 (288)
59 KOG3231 Predicted assembly/vac 23.1 67 0.0015 27.1 2.3 23 13-35 143-165 (208)
60 PRK05205 bifunctional pyrimidi 22.6 27 0.00059 29.2 -0.1 21 12-32 98-118 (176)
61 PRK09162 hypoxanthine-guanine 22.6 27 0.00058 29.5 -0.2 22 12-33 100-121 (181)
62 COG2096 cob(I)alamin adenosylt 20.9 3.1E+02 0.0067 23.5 5.9 19 18-36 31-49 (184)
63 COG4860 Uncharacterized protei 20.5 1.2E+02 0.0027 24.9 3.2 60 52-119 27-91 (170)
64 PF05402 PqqD: Coenzyme PQQ sy 20.5 1.2E+02 0.0025 20.7 2.8 49 148-205 14-62 (68)
65 PF12550 GCR1_C: Transcription 20.3 1.2E+02 0.0026 22.0 3.0 27 173-199 53-79 (81)
No 1
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=5.2e-69 Score=539.85 Aligned_cols=265 Identities=27% Similarity=0.409 Sum_probs=250.9
Q ss_pred CchhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHH
Q 038218 1 SRRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLR 80 (280)
Q Consensus 1 ~R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~ 80 (280)
+|+++||.++|++++||+||+|||+|||+.||+||+|||.+..+++||+|||+||.+++++++|++.++.+.||+++++|
T Consensus 515 aRi~~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~~~~~qGr~v~~~ 594 (784)
T PLN02279 515 ARLSWAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDKAFTWQGRNVTSH 594 (784)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHH
Confidence 69999999999999999999999999999999999999987346899999999999999999999999888899999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHh
Q 038218 81 IKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLL 160 (280)
Q Consensus 81 ~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~ 160 (280)
++++|++++++|++||+|+++||+||+||||+|+.+|+|.+++...+++++|..+|+++++|. ++|+|+++++.++||+
T Consensus 595 l~~aW~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~~-~~~~L~~l~s~I~RLl 673 (784)
T PLN02279 595 IIKIWLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDSP-ELHKLYKLMSTCGRLL 673 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhCc-chhHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999988777788889999999999995 8999999999999999
Q ss_pred cCCCCChhhhhcCCCchhHHHHHhhC--CCCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHHHHHHhHHhhh
Q 038218 161 NDLGTSSDEIQRGDVSKSIQCYMHET--GASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKNEIILNPLRVA 238 (280)
Q Consensus 161 NDi~S~~~E~~~G~~~n~V~~yM~e~--g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~~~~~n~~R~~ 238 (280)
|||+||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+| |+++++++.+ .+|++|+++++|++|++
T Consensus 674 NDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeL--n~~~l~~~~~-~vp~~~~~~~ln~aR~~ 749 (784)
T PLN02279 674 NDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRREL--LRLVLQEKGS-NVPRECKDLFWKMSKVL 749 (784)
T ss_pred HhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHhccCCC-CCCHHHHHHHHHHHHhh
Confidence 999999999999998 9999999987 8999999999999999999999 9999975322 79999999999999999
Q ss_pred hhhcccCCCCCCCChhHHHHHHhhcccccccCCC
Q 038218 239 HFIYLHGDGHGAQKQETMDEVFALLFQPIPVENN 272 (280)
Q Consensus 239 ~~~Y~~~Dg~t~~~~~~k~~i~~l~~~pi~~~~~ 272 (280)
++||+++||||.+ +||++|++||++|||++.+
T Consensus 750 ~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l~~~ 781 (784)
T PLN02279 750 HLFYRKDDGFTSN--DMMSLVKSVIYEPVSLQEE 781 (784)
T ss_pred hhheeCCCCCChH--HHHHHHHHHhccCCcCCcc
Confidence 9999999999953 7999999999999998654
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=1.5e-68 Score=524.57 Aligned_cols=261 Identities=46% Similarity=0.746 Sum_probs=254.6
Q ss_pred CchhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHH
Q 038218 1 SRRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLR 80 (280)
Q Consensus 1 ~R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~ 80 (280)
+|+++||+++|+|++||+||.|||++|++.||++|+|||.+ +++++|+|||++|.++++++++++.++.+.++++++.|
T Consensus 282 ~Rl~~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~-~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~ 360 (542)
T cd00684 282 ARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDIS-AIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPY 360 (542)
T ss_pred HHHHHHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhcccc-chhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHH
Confidence 58999999999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHh
Q 038218 81 IKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLL 160 (280)
Q Consensus 81 ~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~ 160 (280)
++++|++++++|++||+|+++||+||++||+++|.+|+|++++++++++++|+.+|+++++|+..+|+|+++++.++||+
T Consensus 361 ~~~~~~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~ 440 (542)
T cd00684 361 LKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLM 440 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999877799999999999999
Q ss_pred cCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHHHHHHhHHhhhhh
Q 038218 161 NDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKNEIILNPLRVAHF 240 (280)
Q Consensus 161 NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~~~~~n~~R~~~~ 240 (280)
|||+|+++|+++|+++|+|.|||+|+|+|+|+|+++++++++++||++ |++++++++ .+|++|+++++|++|++++
T Consensus 441 NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~l--n~e~l~~~~--~~p~~~~~~~~n~~r~~~~ 516 (542)
T cd00684 441 NDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKEL--NEEFLKPSS--DVPRPIKQRFLNLARVIDV 516 (542)
T ss_pred cChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH--HHHHhcCCC--CCCHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999 999998732 8999999999999999999
Q ss_pred hcccCCCCCCCChhHHHHHHhhcccc
Q 038218 241 IYLHGDGHGAQKQETMDEVFALLFQP 266 (280)
Q Consensus 241 ~Y~~~Dg~t~~~~~~k~~i~~l~~~p 266 (280)
+|+++||||.+++.+|++|++||++|
T Consensus 517 ~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 517 FYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred HhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 99999999998778999999999998
No 3
>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=2.8e-42 Score=311.57 Aligned_cols=235 Identities=43% Similarity=0.672 Sum_probs=220.2
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRI 81 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~ 81 (280)
|+++||+++|+|++||+||.+|+.++++.++++++||+.. ..+.+|+++++++.+++++++++...+.+.+|+.+..++
T Consensus 49 l~~~a~~~~~~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~-~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~ 127 (284)
T cd00868 49 RIALAKTIALLTVIDDTYDDYGTLEELELFTEAVERWDIS-AIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYL 127 (284)
T ss_pred HHHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHHhcChh-hhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHH
Confidence 6799999999999999999999999999999999999988 899999999999999999999999998888888899999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCH-HHHhhcccChHHHHHHHHHHHHh
Q 038218 82 KNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIE-KELEYLESNPDLIQWSSRILRLL 160 (280)
Q Consensus 82 ~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~-e~~~~~~~~~~l~~~~~~i~rL~ 160 (280)
++.|.++++++.+|++|+..|++||++||+++|+.|+|+++++.++++++|..+|+ ++.+. +..+++.+.++.+++|+
T Consensus 128 ~~~~~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~-~~~~~l~~~~~~~~~l~ 206 (284)
T cd00868 128 KEAWKDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWL-PSYPKLVRASSTIGRLL 206 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHh-hhhHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999998 55554 67999999999999999
Q ss_pred cCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHHHHHHhHHhhhhh
Q 038218 161 NDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKNEIILNPLRVAHF 240 (280)
Q Consensus 161 NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~~~~~n~~R~~~~ 240 (280)
||++||+||+.+|+.+|+|.|||+++|+|.|+|++++.++++++|+++ ++.+.+... +.|+.+++.+.|.+|....
T Consensus 207 NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~--~~~~~~~~~--~~~~~~~~~l~~~~~g~~~ 282 (284)
T cd00868 207 NDIASYEKEIARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKEL--NEEVLKLSS--DVPRAVLETLLNLARGIYV 282 (284)
T ss_pred ccchHHHHHHccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHH--HHHHhcCCC--CCCHHHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999 888875321 5789999999999998766
Q ss_pred hc
Q 038218 241 IY 242 (280)
Q Consensus 241 ~Y 242 (280)
.|
T Consensus 283 w~ 284 (284)
T cd00868 283 WY 284 (284)
T ss_pred cC
Confidence 54
No 4
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=3e-39 Score=323.95 Aligned_cols=222 Identities=13% Similarity=0.100 Sum_probs=195.9
Q ss_pred CchhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHH--------hcchhhhhhcCch------HHHHHHHHHHhhHHHHH
Q 038218 1 SRRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVE--------RWDINFAIKQLPD------YMKICFFALYNFVSEVA 66 (280)
Q Consensus 1 ~R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~--------rWd~~~~~~~lp~------~mk~~~~~l~~~~~e~~ 66 (280)
+|+++||.++|++++||+||+|||+|||+.||++|+ |||.+ .+++||+ |||+||.+|++++||++
T Consensus 563 ~Ri~~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~-~~~~lp~~~~~~~~mki~f~aLy~tineia 641 (800)
T PLN02592 563 ERLAWAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHH-FNDRNMRRSGSVKTGEELVGLLLGTLNQLS 641 (800)
T ss_pred HHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCch-hhhcccccccchhHHHHHHHHHHHHHHHHH
Confidence 699999999999999999999999999999999997 89999 9999988 99999999999999999
Q ss_pred HHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHH-hcCCCCCHHHHhhccc
Q 038218 67 DYILKQQDSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYI-SATNPIIEKELEYLES 145 (280)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~-~~g~~l~~e~~~~~~~ 145 (280)
.++.++||+++++|++++|.++++ +|..+|+ +|+|++.+++..++ .+|..+|+++++
T Consensus 642 ~~a~~~qGr~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~~l~~g~~lsee~l~---- 699 (800)
T PLN02592 642 LDALEAHGRDISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTINLTAGRSLSEELLA---- 699 (800)
T ss_pred HHHHHHhCccHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHHHHhcCCCCCHHHcc----
Confidence 999999999999999999999999 5666665 44566656666666 569999999876
Q ss_pred ChHHHHHHHHHHHHhcCCCCChhhhhcCCCchhHHHHHhhCC-CCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCc
Q 038218 146 NPDLIQWSSRILRLLNDLGTSSDEIQRGDVSKSIQCYMHETG-ASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLF 224 (280)
Q Consensus 146 ~~~l~~~~~~i~rL~NDi~S~~~E~~~G~~~n~V~~yM~e~g-~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p 224 (280)
+|++.+.++.+.||+||++|+++|+.. .| +++ +|.+++.+.|+..++++ .+.+++..++ .+|
T Consensus 700 ~~~~~~l~~li~Rl~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~eL--~~lvl~~~~~-~vp 762 (800)
T PLN02592 700 HPQYEQLAQLTNRICYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQEL--VQLVLQNSSD-DID 762 (800)
T ss_pred chhHHHHHHHHHHHHHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHHHH--HHHHhhcCCC-CCC
Confidence 678999999999999999999998841 23 455 89999999999999999 9999974332 799
Q ss_pred hhHHHHHHhHHhhhhhhcccCCCCCCCChhHHHHHHhhcccccc
Q 038218 225 QTKNEIILNPLRVAHFIYLHGDGHGAQKQETMDEVFALLFQPIP 268 (280)
Q Consensus 225 ~~~~~~~~n~~R~~~~~Y~~~Dg~t~~~~~~k~~i~~l~~~pi~ 268 (280)
++|++++++++| +||.. ||+.| .+|++||.++++|||+
T Consensus 763 ~~cK~~f~~~~k---~fy~~--~~~~~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 763 PVIKQTFLMVAK---SFYYA--AYCDP-GTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHHHHHHHHH---HHHHh--hcCCH-HHHHHHHHHHhCCCCC
Confidence 999999999999 55655 99977 6899999999999985
No 5
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=100.00 E-value=7.3e-39 Score=287.25 Aligned_cols=207 Identities=32% Similarity=0.418 Sum_probs=191.0
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCc-chHHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDS-DQLLR 80 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~-~~~~~ 80 (280)
|+++||+++|+|++||+||..|+.++++.|+++++||++. ..+.+|++.++++.++.++++++...+.+.+++ +..++
T Consensus 63 l~~~a~~~~w~f~~DD~~D~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~ 141 (270)
T PF03936_consen 63 LLAAADWMAWLFIFDDFFDDGGSAEELEALTDAVERWDPN-SGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKR 141 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHTSSG-GGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhchheeeeeeccccccchHHHHHHHHHHhccccc-ccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhH
Confidence 5789999999999999999999999999999999999986 888999999999999999999998887776544 37889
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHh
Q 038218 81 IKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLL 160 (280)
Q Consensus 81 ~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~ 160 (280)
|+++|.+|++++++|++|+..|++||++||+++|+.|+|+++++.+..+++|..+++...+++.+.+.+.++++.+++|+
T Consensus 142 ~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~ 221 (270)
T PF03936_consen 142 FRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLV 221 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999898877667666666666677999999999999
Q ss_pred cCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhhhh
Q 038218 161 NDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVMMD 211 (280)
Q Consensus 161 NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n 211 (280)
|||.||+||+++|+.+|.|.|+|+++|+|.|+|++++.+|+++++++| |
T Consensus 222 NDl~S~~KE~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~ef--n 270 (270)
T PF03936_consen 222 NDLYSYKKEIARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREF--N 270 (270)
T ss_dssp HHHHHHHHHHHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH--H
T ss_pred cccchhhcchhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhc--C
Confidence 999999999999999999999999999999999999999999999998 7
No 6
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=100.00 E-value=5.8e-34 Score=260.73 Aligned_cols=199 Identities=17% Similarity=0.132 Sum_probs=179.7
Q ss_pred hhhhhhhhHhhhhhcccCC-CCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHHH
Q 038218 4 VLTIAGALVTVIDDIYDIY-GTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRIK 82 (280)
Q Consensus 4 ~~aK~~~l~~~iDD~yD~~-gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~ 82 (280)
..++++.|+|++||+||.. +++++++.+++.+.++......+. |+...++..++.+++.++.... +.....+|+
T Consensus 61 l~~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~~~~~~d~~~r~~~~~----~~~~~~r~~ 135 (303)
T cd00687 61 LAADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILRGDGLDS-PDDATPLEFGLADLWRRTLARM----SAEWFNRFA 135 (303)
T ss_pred HHHHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccCCCCCCC-CCCCCHHHHHHHHHHHHhccCC----CHHHHHHHH
Confidence 5679999999999999987 599999999999988654412222 5788899999999999997653 345678899
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHhcC
Q 038218 83 NSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLLND 162 (280)
Q Consensus 83 ~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~ND 162 (280)
+.|.+++.++++|++|+.+|++||++||+++|+.|+|+.+++.++++++|..+|+++.++ +.+.++.++++.+++|+||
T Consensus 136 ~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~ND 214 (303)
T cd00687 136 HYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVND 214 (303)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999887 4578899999999999999
Q ss_pred CCCChhhh-hcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 163 LGTSSDEI-QRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 163 i~S~~~E~-~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
|+||+||+ +.|+.+|+|.|+|+++|+|.|+|++++.+++++.++++
T Consensus 215 l~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f 261 (303)
T cd00687 215 IYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQF 261 (303)
T ss_pred HHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999 89998999999999999999999999999999999998
No 7
>PLN02150 terpene synthase/cyclase family protein
Probab=100.00 E-value=3.8e-34 Score=219.39 Aligned_cols=95 Identities=27% Similarity=0.469 Sum_probs=91.8
Q ss_pred hhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHHHHHHhHHhhhhhh-cccCCCC
Q 038218 170 IQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKNEIILNPLRVAHFI-YLHGDGH 248 (280)
Q Consensus 170 ~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~~~~~n~~R~~~~~-Y~~~Dg~ 248 (280)
++|||++|+|+|||||||+|+|||++++++||+++||++ |+|+|+++ ++|.+++++++|+||+++++ |+++|||
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~i--N~e~l~~~---~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~ 75 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIV--MEEFLTIK---DVPRPVLVRCLNLARLIDVYCYNEGDGF 75 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHH--HHHHcCCC---CCCHHHHHHHHHHHHHHHhheecCCCCC
Confidence 478999999999999999999999999999999999999 99999987 89999999999999999999 9999999
Q ss_pred CCCChhHHHHHHhhccccccc
Q 038218 249 GAQKQETMDEVFALLFQPIPV 269 (280)
Q Consensus 249 t~~~~~~k~~i~~l~~~pi~~ 269 (280)
|.+++.+|++|++||++|||+
T Consensus 76 t~~~~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 76 TYPHGKLKDLITSLFFHPLPL 96 (96)
T ss_pred CCCcHHHHHHHHHHhccCCCC
Confidence 988889999999999999985
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=99.87 E-value=1.3e-21 Score=169.36 Aligned_cols=215 Identities=27% Similarity=0.270 Sum_probs=170.3
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRI 81 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~ 81 (280)
|..++++..+++++||++|..++..+.......+. ....|..+...+..+.+.++++.... ...+..++
T Consensus 16 ~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~ 84 (243)
T cd00385 16 RAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVA-------IDGLPEAILAGDLLLADAFEELAREG----SPEALEIL 84 (243)
T ss_pred HHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHH-------hcCchHHHHHHHHHHHHHHHHHHhCC----CHHHHHHH
Confidence 67899999999999999998887666555443331 23456778888888889998886542 24567889
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHhc
Q 038218 82 KNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLLN 161 (280)
Q Consensus 82 ~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~N 161 (280)
.+.|.+++.++.+|+.|+.. +.||++||++++..++|.. +...+..+++...|+ ..+.....++...++.+.+|.|
T Consensus 85 ~~~~~~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t~~~-~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~g~~~ql~n 160 (243)
T cd00385 85 AEALLDLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKTAGL-VGALCLLGAGLSGGE--AELLEALRKLGRALGLAFQLTN 160 (243)
T ss_pred HHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHHHH-HHHHHHHHHHHhCCC--HHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999876 8999999999999988444 444555555666665 2333456788999999999999
Q ss_pred CCCCChhhhhcC-CCchhHHHHHhhCCC------------CHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHH
Q 038218 162 DLGTSSDEIQRG-DVSKSIQCYMHETGA------------SEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKN 228 (280)
Q Consensus 162 Di~S~~~E~~~G-~~~n~V~~yM~e~g~------------s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~ 228 (280)
|+.|+.+|.++| +..|++.++|+++|+ +.++|.+++.++++++|+++ ++...... ..+..++
T Consensus 161 Dl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~---~~~~~~~ 235 (243)
T cd00385 161 DLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKEL--NELILSLP---DVPRALL 235 (243)
T ss_pred HHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHH--hcCCCCcH---HHHHHHH
Confidence 999999999986 668999999999999 88999999999999999999 76655332 3566777
Q ss_pred HHHHhHHh
Q 038218 229 EIILNPLR 236 (280)
Q Consensus 229 ~~~~n~~R 236 (280)
+.+.++.|
T Consensus 236 ~~~~~~~~ 243 (243)
T cd00385 236 ALALNLYR 243 (243)
T ss_pred HHHHHHhC
Confidence 77776643
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=98.15 E-value=2.9e-05 Score=71.65 Aligned_cols=191 Identities=15% Similarity=0.048 Sum_probs=114.3
Q ss_pred hhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHHHHH
Q 038218 5 LTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRIKNS 84 (280)
Q Consensus 5 ~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~ 84 (280)
++-..+.++++||.=|... +.|+.|.+-+..= -.... |+-..+.+.+..+ .+--|+..-.-+.++
T Consensus 89 isi~~tY~~~lDD~~~e~~--~~m~~f~~dL~~G----~~qkh-----P~l~~v~~~l~~~----lr~fGpF~s~~IikS 153 (357)
T cd00686 89 LSIHYTYTLVLDDSKDDPY--PTMVNYFDDLQAG----REQAH-----PWWALVNEHFPNV----LRHFGPFCSLNLIRS 153 (357)
T ss_pred HHHHHheeeEecccccccc--hHHHHHHHHHhcC----CCCCC-----cHHHHHHHHHHHH----HHHhhhhhHHHHHHH
Confidence 4556778899999977543 3677777666541 11112 2222222222222 222344455567777
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHhcCCC
Q 038218 85 WLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLLNDLG 164 (280)
Q Consensus 85 ~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 164 (280)
--+++.+..-|... -+..|.-.+|-...+.=+|..=..+.+.+ -.+..|+... ...++..+-.....+-++|||.
T Consensus 154 TLdFv~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~FiF-Pk~~FpE~~~--~~qi~~AIp~~~~~i~~~NDIL 228 (357)
T cd00686 154 TLDFFEGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASLW-PKEQFNERSL--FLEITSAIAQMENWMVWVNDLM 228 (357)
T ss_pred HHHHHHHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEec-chhhCchHhh--HHHhhHHHHHHHHHHHhhhhhh
Confidence 88999999999764 34466555566655555554433232222 1222333211 1112223333335566999999
Q ss_pred CChhhhhc-CCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhhhhhhhccCC
Q 038218 165 TSSDEIQR-GDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVMMDVCRASND 218 (280)
Q Consensus 165 S~~~E~~~-G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~ 218 (280)
||=||--. ++..|.|.-|.+.||+|..+|...+.+-.-.+-+++ ...|.+.
T Consensus 229 SFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv---~~VLse~ 280 (357)
T cd00686 229 SFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQM---VAVFSDK 280 (357)
T ss_pred heehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHH---HHHhcCC
Confidence 99998754 556799999999999999999998888777777777 5556544
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=98.09 E-value=2.2e-05 Score=73.38 Aligned_cols=184 Identities=17% Similarity=0.126 Sum_probs=108.2
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRI 81 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~ 81 (280)
++.++-..++++++||.++.. .++++.|.+.+-. . . .+ | .++...+.+.+. ++.+.-++..-+-+
T Consensus 86 qv~IaiyT~yvi~iDD~~~~~--~~~l~~F~~~l~~---G-q-~Q-~---~p~L~~~~~~L~----~~~~~fgpf~anmI 150 (376)
T PF06330_consen 86 QVAIAIYTTYVIIIDDSSQEP--SDDLRTFHQRLIL---G-Q-PQ-K---HPLLDGFASLLR----EMWRHFGPFCANMI 150 (376)
T ss_dssp HHHHHHHHHHHHHHTT--S-S--HHHHTTHHHHHHH---T------S---SHHHHHHHHHHH----HHHTTS-HHHHHHH
T ss_pred HHHHHHHHHHHHhcccccccc--cHHHHHHHHHHhc---C-C-CC-C---CHHHHHHHHHHH----HHHHHcchHHHHHH
Confidence 456777889999999998765 4777777766543 1 1 11 1 133333333333 33444566666778
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCC---CHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHH
Q 038218 82 KNSWLGLLQAFLVEAKWYHNKYAP---TLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILR 158 (280)
Q Consensus 82 ~~~~~~~~~a~l~Ea~w~~~g~~P---s~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~r 158 (280)
.++--+++.+..-|++.. +..| .+-+|+ +.=+|..-..+.+.+ -....|+.. ....+-.++--....+-
T Consensus 151 ~~STLdFi~g~~LE~~~f--~~~p~A~~FP~fL---R~ktGlsEaYA~FiF-Pk~~fpe~~--~~~~y~~AIpdl~~fi~ 222 (376)
T PF06330_consen 151 VKSTLDFINGCWLEQKNF--HGSPGAPDFPDFL---RRKTGLSEAYAFFIF-PKALFPEVE--YFIQYTPAIPDLMRFIN 222 (376)
T ss_dssp HHHHHHHHHHHHHHTTT------TT-TTHHHHH---HHHHH-HHHHHHHT---TTTS-TTT--THHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhcccC--CCCCCCccccHHH---HhccCcchhheeeec-ccccCChHH--HHHHHHHHHHHHHHHHH
Confidence 888889999999998643 2234 555555 444454444333222 122233321 11111123344455667
Q ss_pred HhcCCCCChhhhh-cCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 159 LLNDLGTSSDEIQ-RGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 159 L~NDi~S~~~E~~-~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
++|||.||=||.- .|+..|.|.-+-.-+|+|.-+|...+.+-.-++-+++
T Consensus 223 ~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv 273 (376)
T PF06330_consen 223 YVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERV 273 (376)
T ss_dssp HHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence 9999999999976 7888999988888889999999999876666666666
No 11
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=96.70 E-value=0.075 Score=46.50 Aligned_cols=116 Identities=14% Similarity=0.112 Sum_probs=77.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcch-hcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHH
Q 038218 77 QLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAAL-SISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSR 155 (280)
Q Consensus 77 ~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~-s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~ 155 (280)
....+.+....++.+...+..|... ..||.++|++.... |.+.....+..-...+. -+++..+. ..++.+..+.
T Consensus 86 ~~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~lG~ 160 (236)
T cd00867 86 ALELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAEA---LKDYGRALGL 160 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHHH---HHHHHHHHHH
Confidence 3556778889999999999998654 57999999999887 65544333322222222 23333333 3467788889
Q ss_pred HHHHhcCCCCChhhh----------hcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 156 ILRLLNDLGTSSDEI----------QRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 156 i~rL~NDi~S~~~E~----------~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
..-+.||+..+.... ++|.. +...+++ .+.+.+..++.++.+
T Consensus 161 a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~ 212 (236)
T cd00867 161 AFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAAL 212 (236)
T ss_pred HHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHH
Confidence 999999999887654 45553 5555555 556666677776666
No 12
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=94.26 E-value=2.9 Score=37.40 Aligned_cols=120 Identities=14% Similarity=0.065 Sum_probs=77.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHH
Q 038218 75 SDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSS 154 (280)
Q Consensus 75 ~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~ 154 (280)
...+..+.+.....+.+-..+..|... ..||.++|++....-+|.....+....++--..+++..+. ..++.+..+
T Consensus 107 ~~~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG 182 (259)
T cd00685 107 PRALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLG 182 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHH
Confidence 345667778888899999999988654 5799999999987777655443332222111124444433 346778888
Q ss_pred HHHHHhcCCCCChhhh-----------hcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 155 RILRLLNDLGTSSDEI-----------QRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 155 ~i~rL~NDi~S~~~E~-----------~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
...-+.||+..+.... ..|. .|..-+|.. .+.+..+++++++.+
T Consensus 183 ~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk-~T~~~~~~l---------~~~~~~~~~~a~~~l 237 (259)
T cd00685 183 LAFQIQDDILDLFGDPETLGKPVGSDLREGK-CTLPVLLAL---------RELAREYEEKALEAL 237 (259)
T ss_pred HHHHHHHHhhcccCChHHHCCCcchHHHcCC-chHHHHHHH---------HHHHHHHHHHHHHHH
Confidence 8999999988775432 2233 245444443 566777777777776
No 13
>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=93.69 E-value=0.97 Score=40.38 Aligned_cols=165 Identities=16% Similarity=0.146 Sum_probs=87.6
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHH----HHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcch
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDE----LDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQ 77 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eE----l~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~ 77 (280)
|..+.-+..+.-.+||+-|.....++ |+-+-+++++.-.+ ..+..+....++..++..+..+..
T Consensus 20 R~~~~alyaf~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~-~~~~~~~~~~pv~~~l~~~~~~~~----------- 87 (267)
T PF00494_consen 20 RPAVFALYAFCRELDDIVDEPSDPEEARARLQWWRDALNSIFAS-YEDSLPEPSHPVARALADLVRRYG----------- 87 (267)
T ss_dssp HHHHHHHHHHHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH--TSTHHHSSHHHHHHHHHHHHCCSH-----------
T ss_pred HHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhh-hhhccCCCcCHHHHHHHHHHHHHh-----------
Confidence 44555667778889999997764332 44444444442211 111233445566666655544332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCH-HHHhhcccChHHHHHHHHH
Q 038218 78 LLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIE-KELEYLESNPDLIQWSSRI 156 (280)
Q Consensus 78 ~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~-e~~~~~~~~~~l~~~~~~i 156 (280)
--++.+.++++++.+... ...++|++|+..+...+.|....+.+-.++.. -++ +..+.. ...+..
T Consensus 88 --l~~~~l~~li~~~~~dl~---~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~~~~~~~a-------~~lG~a 153 (267)
T PF00494_consen 88 --LPREPLLELIDGMEMDLE---FTPYETFADLERYCYYVAGSVGLLLLQLLGAH--DPDEAARDAA-------RALGRA 153 (267)
T ss_dssp --HHHHHHHHHHHHHHHCTT----S--SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSHHHHHHHH-------HHHHHH
T ss_pred --hhHHHHHHHHHHhccccc---CCCCCCHHHHHHHHHHHHHHHHHHHHHHhccc--cchhhHHHHH-------HHHHHH
Confidence 134456788888854333 35578999999998888887665555545432 222 333332 222333
Q ss_pred HHHhcCCCCChhh-hhcCCC--chhHHHHHhhCCCCHHHHHH
Q 038218 157 LRLLNDLGTSSDE-IQRGDV--SKSIQCYMHETGASEEAARE 195 (280)
Q Consensus 157 ~rL~NDi~S~~~E-~~~G~~--~n~V~~yM~e~g~s~eeA~~ 195 (280)
+-+.|=+...... ..+|-+ +.-+ |.+||+|.++-.+
T Consensus 154 lql~nilRd~~~D~~~~gR~ylP~d~---l~~~gv~~~dl~~ 192 (267)
T PF00494_consen 154 LQLTNILRDIPEDALRRGRIYLPLDD---LRRFGVTPEDLLA 192 (267)
T ss_dssp HHHHHHHHTHHHH-HHTT---S-HHH---HHHTTSSHHHHHH
T ss_pred HHHHHHHHHhHHHHHhcccccCCchh---HHHcCCCHHHHHh
Confidence 3333333333455 456643 4433 6789999887543
No 14
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=92.50 E-value=8.7 Score=35.72 Aligned_cols=109 Identities=16% Similarity=0.128 Sum_probs=71.8
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHH
Q 038218 76 DQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSR 155 (280)
Q Consensus 76 ~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~ 155 (280)
.....+.+....++.+-..+-.+.... +|.++|++.-..=+|.-+..+...-++--..+++..+.+ ..+.+..+.
T Consensus 134 ~~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l---~~~g~~lGl 208 (322)
T COG0142 134 EAIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEAL---EDYGRNLGL 208 (322)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHhhH
Confidence 356678888999999999888886544 999999998766555444333222221112235666654 367788899
Q ss_pred HHHHhcCCCCChhhh-hcCCC---------chhHHHHHhhCCCC
Q 038218 156 ILRLLNDLGTSSDEI-QRGDV---------SKSIQCYMHETGAS 189 (280)
Q Consensus 156 i~rL~NDi~S~~~E~-~~G~~---------~n~V~~yM~e~g~s 189 (280)
.+-+.||+..+..+. .-|.. .+...+|.-+++-.
T Consensus 209 aFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~ 252 (322)
T COG0142 209 AFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANE 252 (322)
T ss_pred HHHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCch
Confidence 999999999888542 22322 46676777666433
No 15
>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=91.93 E-value=11 Score=35.15 Aligned_cols=89 Identities=8% Similarity=0.051 Sum_probs=58.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHH
Q 038218 75 SDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSS 154 (280)
Q Consensus 75 ~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~ 154 (280)
..+...+.+....++.+-+.+..|.. ...+|.++|++.-..=+|.-+..++..-++--..+++..+.+ .++-+..+
T Consensus 132 ~~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l---~~~G~~lG 207 (322)
T TIGR02749 132 LEVVKLISKVITDFAEGEIKQGLNQF-DSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDL---YEYGKHLG 207 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccc-CCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHH
Confidence 34566778888889999888877653 345799999987655445443332221111123455555543 36778889
Q ss_pred HHHHHhcCCCCCh
Q 038218 155 RILRLLNDLGTSS 167 (280)
Q Consensus 155 ~i~rL~NDi~S~~ 167 (280)
...-+.||+..+.
T Consensus 208 ~aFQi~DDild~~ 220 (322)
T TIGR02749 208 LAFQVVDDILDFT 220 (322)
T ss_pred HHHHHHHHhccCC
Confidence 9999999999876
No 16
>PLN02890 geranyl diphosphate synthase
Probab=91.45 E-value=10 Score=36.78 Aligned_cols=91 Identities=4% Similarity=0.007 Sum_probs=62.3
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHH
Q 038218 74 DSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWS 153 (280)
Q Consensus 74 ~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~ 153 (280)
...++..+.++...++.+-+.+..|.. ...+|.++|++....-+|.-+..++..-++--..+++..+.+ .++-+..
T Consensus 225 ~~~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~l 300 (422)
T PLN02890 225 NTEVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNL 300 (422)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHH
Confidence 344677788889999999999999864 456899999987665555443333222111112356665543 3677888
Q ss_pred HHHHHHhcCCCCChh
Q 038218 154 SRILRLLNDLGTSSD 168 (280)
Q Consensus 154 ~~i~rL~NDi~S~~~ 168 (280)
+...-+.||+..+.-
T Consensus 301 GlAFQI~DDiLD~~g 315 (422)
T PLN02890 301 GLAFQLIDDVLDFTG 315 (422)
T ss_pred HHHHHHHHHHHhhcC
Confidence 899999999998864
No 17
>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=91.03 E-value=11 Score=33.73 Aligned_cols=173 Identities=14% Similarity=0.163 Sum_probs=87.0
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchh--hhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDIN--FAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLL 79 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~--~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~ 79 (280)
|..+.-+-++.-.+||+=|..++.++-+ ..++.|... .....-| -.++..++.+++.+. +.
T Consensus 20 R~~~~alYaf~r~~d~i~D~~~~~~~~~---~~L~~w~~~l~~~~~g~~--~~pv~~al~~~~~~~--------~l---- 82 (266)
T TIGR03465 20 RRAMTALYAFCREVDDIVDEDSDPEVAQ---AKLAWWRAEIDRLYAGAP--SHPVARALADPARRF--------DL---- 82 (266)
T ss_pred HHHHHHHHHHHHHHHhhhcCCCCchHHH---HHHHHHHHHHHHHhCCCC--CChHHHHHHHHHHHc--------CC----
Confidence 4445566677778999999755443322 223334321 0111112 235556665554332 11
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHH
Q 038218 80 RIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRL 159 (280)
Q Consensus 80 ~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL 159 (280)
-++.+.++++++.+... ....+|++|+..+...+.|....+++-.+ |.. ++....... .+ -.+.-++-+
T Consensus 83 -~~~~~~~li~g~~~Dl~---~~~~~t~~dL~~Y~~~vAg~vg~l~~~ll--g~~-~~~~~~~a~---~l-G~Alqltni 151 (266)
T TIGR03465 83 -PQEDFLEVIDGMEMDLE---QTRYPDFAELDLYCDRVAGAVGRLSARIF--GAT-DARTLEYAH---HL-GRALQLTNI 151 (266)
T ss_pred -CHHHHHHHHHHHHHHcC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCC-ChhHHHHHH---HH-HHHHHHHHH
Confidence 12446778888754333 34578999988888777775544444333 421 222222211 11 222233333
Q ss_pred hcCCCCChhhhhcCCC--chhHHHHHhhCCCCHHH---------HHHHHHHHHHHHHHHh
Q 038218 160 LNDLGTSSDEIQRGDV--SKSIQCYMHETGASEEA---------AREHIKDLIRQMWKKV 208 (280)
Q Consensus 160 ~NDi~S~~~E~~~G~~--~n~V~~yM~e~g~s~ee---------A~~~i~~~i~~~~k~l 208 (280)
+-|+ ....++|-+ +--+ |.++|+|.++ ...-+..+++.+...+
T Consensus 152 lRdv---~eD~~~gR~ylP~~~---l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l 205 (266)
T TIGR03465 152 LRDV---GEDARRGRIYLPAEE---LQRFGVPAADILEGRYSPALAALCRFQAERARAHY 205 (266)
T ss_pred HHHh---HHHHhCCCeecCHHH---HHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 3444 334556653 3222 5678988763 3344555555555444
No 18
>PLN02857 octaprenyl-diphosphate synthase
Probab=90.43 E-value=8.1 Score=37.35 Aligned_cols=89 Identities=11% Similarity=0.063 Sum_probs=58.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHH
Q 038218 76 DQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSR 155 (280)
Q Consensus 76 ~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~ 155 (280)
.++..+.+...+++.+-+.+..+.. +..+|.++|++....=+|.-+..++..-++--..+++..+.+ .++-+..+.
T Consensus 227 ~~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l---~~fG~~LGi 302 (416)
T PLN02857 227 EVIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQM---YEYGKNLGL 302 (416)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHHHH
Confidence 4566777788888888877777754 445799999998766555444333221111122455555543 467788889
Q ss_pred HHHHhcCCCCChh
Q 038218 156 ILRLLNDLGTSSD 168 (280)
Q Consensus 156 i~rL~NDi~S~~~ 168 (280)
..-+.||+..+..
T Consensus 303 AFQI~DDiLD~~~ 315 (416)
T PLN02857 303 AFQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHHhhcC
Confidence 9999999998763
No 19
>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=86.83 E-value=22 Score=31.67 Aligned_cols=157 Identities=18% Similarity=0.181 Sum_probs=78.0
Q ss_pred chhhhhhhhhHhhhhhcccCCCCH-----HHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcc
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTL-----DELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSD 76 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~-----eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~ 76 (280)
|..+.-+-++.-.+||+=|..... ..|+-+.+.+++-.. +.-| -.++..++.++..+. +.
T Consensus 26 R~~~~alYaf~r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~----~~~~--~~pv~~al~~~~~~~--------~l- 90 (265)
T cd00683 26 RRAVCALYAFCRAADDIVDDPAAPPDEKLALLDAFRAELDAAYW----GGAP--THPVLRALADLARRY--------GI- 90 (265)
T ss_pred HHHHHHHHHHHHHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHc----CCCC--CChHHHHHHHHHHHc--------CC-
Confidence 334455566667799999975432 233333333332110 0111 125666666655421 11
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHH
Q 038218 77 QLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRI 156 (280)
Q Consensus 77 ~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 156 (280)
-++.+.++++++..... ....||++|...+...+.|..-.+++..+ |..-+++......+.-.. --+
T Consensus 91 ----~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~--~~~~~~~~~~~A~~lG~A----lql 157 (265)
T cd00683 91 ----PREPFRDLLAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVF--GASSDEAALERARALGLA----LQL 157 (265)
T ss_pred ----CHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHh--CCCCChHHHHHHHHHHHH----HHH
Confidence 23456788888865444 45678998887777776665444444333 321123333222111112 222
Q ss_pred HHHhcCCCCChhhhhcCC--CchhHHHHHhhCCCCHHH
Q 038218 157 LRLLNDLGTSSDEIQRGD--VSKSIQCYMHETGASEEA 192 (280)
Q Consensus 157 ~rL~NDi~S~~~E~~~G~--~~n~V~~yM~e~g~s~ee 192 (280)
+.++-|+. ...++|- .+.-+ |.++|+|.++
T Consensus 158 tnilRdv~---eD~~~gR~YlP~d~---l~~~gv~~~~ 189 (265)
T cd00683 158 TNILRDVG---EDARRGRIYLPREE---LARFGVTLED 189 (265)
T ss_pred HHHHHHHH---HHHccCCCcCCHHH---HHHcCCCHHH
Confidence 33333443 3345554 33333 6788988865
No 20
>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=86.50 E-value=27 Score=32.32 Aligned_cols=87 Identities=9% Similarity=0.024 Sum_probs=57.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhc-CCCCCHHHHhhcccChHHHHHHH
Q 038218 76 DQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISA-TNPIIEKELEYLESNPDLIQWSS 154 (280)
Q Consensus 76 ~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~-g~~l~~e~~~~~~~~~~l~~~~~ 154 (280)
..+..+.+....++.+-..+..|.. +..+|.++|++.-..-+|.-+..++ ..|. --..+++..+.+ .++-+..+
T Consensus 129 ~~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~ag~~~~~~~~l---~~~g~~lG 203 (319)
T TIGR02748 129 RAHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIASGANEAIVKKL---YWFGYYVG 203 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHHH---HHHHHHHH
Confidence 4566778888899999888888753 3457999999887666664443322 2221 012344444433 36777888
Q ss_pred HHHHHhcCCCCCh
Q 038218 155 RILRLLNDLGTSS 167 (280)
Q Consensus 155 ~i~rL~NDi~S~~ 167 (280)
...-+.||+..+.
T Consensus 204 ~aFQI~DDilD~~ 216 (319)
T TIGR02748 204 MSYQITDDILDFV 216 (319)
T ss_pred HHHHHHHHHHHcc
Confidence 8999999998775
No 21
>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=82.16 E-value=37 Score=30.40 Aligned_cols=156 Identities=21% Similarity=0.240 Sum_probs=78.3
Q ss_pred chhhhhhhhhHhhhhhcccCC-CCHHH----HHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcc
Q 038218 2 RRVLTIAGALVTVIDDIYDIY-GTLDE----LDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSD 76 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~-gt~eE----l~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~ 76 (280)
|..+.-+-++.=.+||+-|.. ++.++ |+.+-+.++. ....-| -.|+..++.+++.+. +..
T Consensus 20 R~~~~alYAf~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~-----~~~g~~--~~pv~~aL~~~~~~~--------~l~ 84 (266)
T TIGR03464 20 RAPIHAVYAFARTADDIADEGDGSAEERLALLDDFRAELDA-----IYSGEP--AAPVFVALARTVQRH--------GLP 84 (266)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHHHHHHHH-----HhCCCC--CChHHHHHHHHHHHc--------CCC
Confidence 344555666777899999975 44443 3333333322 111112 235666666665543 111
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHH
Q 038218 77 QLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRI 156 (280)
Q Consensus 77 ~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 156 (280)
++.+.+++.++.... .....+|++|...+...+.|....+++..+ |..-+ +...... .+-. +--+
T Consensus 85 -----~~~~~~li~~~~~Dl---~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~--g~~~~-~~~~~A~---~lG~-AlQl 149 (266)
T TIGR03464 85 -----IEPFLDLLDAFRQDV---VVTRYATWAELLDYCRYSANPVGRLVLDLY--GASDP-ENVALSD---AICT-ALQL 149 (266)
T ss_pred -----hHHHHHHHHHHHHhc---cCCCCCCHHHHHHHHHHhHHHHHHHHHHHc--CCCCh-hHHHHHH---HHHH-HHHH
Confidence 234566777764332 244567999888888777776555444434 32212 2222211 1222 2222
Q ss_pred HHHhcCCCCChhhhhcCCC--chhHHHHHhhCCCCHHHH
Q 038218 157 LRLLNDLGTSSDEIQRGDV--SKSIQCYMHETGASEEAA 193 (280)
Q Consensus 157 ~rL~NDi~S~~~E~~~G~~--~n~V~~yM~e~g~s~eeA 193 (280)
+-++-|+. ...++|-+ +-- .|.++|+|.|+-
T Consensus 150 tniLRDl~---eD~~~gR~YLP~~---~l~~~Gv~~edl 182 (266)
T TIGR03464 150 INFWQDVG---VDYRKGRVYLPRD---DLARFGVSEEDL 182 (266)
T ss_pred HHHHHhhH---HHHhcCCccCCHH---HHHHcCCCHHHH
Confidence 33334443 33445643 222 257899998664
No 22
>PLN02632 phytoene synthase
Probab=80.78 E-value=49 Score=30.88 Aligned_cols=158 Identities=13% Similarity=0.133 Sum_probs=79.2
Q ss_pred chhhhhhhhhHhhhhhcccCCCCH----HHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcch
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTL----DELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQ 77 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~----eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~ 77 (280)
|..+.-+-.|.-.+||+=|..... ..|+.+-+.+++ ..+.-|. .++..++.++..+.. -
T Consensus 75 R~ai~alYAf~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~-----~~~g~~~--~pv~~aL~~~~~~~~--------L-- 137 (334)
T PLN02632 75 RKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLED-----LFDGRPY--DMLDAALADTVSKFP--------L-- 137 (334)
T ss_pred HHHHHHHHHHHHHHhHHhcCCCCChhhHHHHHHHHHHHHH-----HhCCCCC--ChHHHHHHHHHHHCC--------C--
Confidence 344555667778899999965432 223333333322 1111121 255666666554332 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCC---HHHHhhcccChHHHHHHH
Q 038218 78 LLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPII---EKELEYLESNPDLIQWSS 154 (280)
Q Consensus 78 ~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~---~e~~~~~~~~~~l~~~~~ 154 (280)
-++.+.+++.++..... ....+|++|+..+...+.|..-.+++..++.....+ ++...... .+- .+-
T Consensus 138 ---~~~~~~~li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~A~---~lG-~Al 207 (334)
T PLN02632 138 ---DIQPFRDMIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAAL---ALG-IAN 207 (334)
T ss_pred ---ChHHHHHHHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCccccchHHHHHHHH---HHH-HHH
Confidence 12345778888754433 346779888888877777754444444343222111 11122111 111 122
Q ss_pred HHHHHhcCCCCChhhhhcCCC--chhHHHHHhhCCCCHHH
Q 038218 155 RILRLLNDLGTSSDEIQRGDV--SKSIQCYMHETGASEEA 192 (280)
Q Consensus 155 ~i~rL~NDi~S~~~E~~~G~~--~n~V~~yM~e~g~s~ee 192 (280)
-+.-++-|+ ....++|-+ +-- -|.++|+|.++
T Consensus 208 QltNILRDv---~eD~~~GRvYLP~e---~L~~~Gv~~ed 241 (334)
T PLN02632 208 QLTNILRDV---GEDARRGRVYLPQD---ELAQFGLTDED 241 (334)
T ss_pred HHHHHHHHH---HHHHhCCceeCCHH---HHHHcCCCHHH
Confidence 233334455 344566653 222 26789999887
No 23
>CHL00151 preA prenyl transferase; Reviewed
Probab=80.51 E-value=49 Score=30.68 Aligned_cols=88 Identities=6% Similarity=-0.022 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHH
Q 038218 77 QLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRI 156 (280)
Q Consensus 77 ~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 156 (280)
....+.+....++.+-+.+..|.. ..-+|.++|++....=+|..+.+++..-++--..+++..+. ..++-+..+..
T Consensus 135 ~~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~---l~~~G~~lG~a 210 (323)
T CHL00151 135 VVKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHND---FYLYGKHLGLA 210 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHH
Confidence 456677788888888877776643 34579999999754444433332222111111234554444 34677888999
Q ss_pred HHHhcCCCCChh
Q 038218 157 LRLLNDLGTSSD 168 (280)
Q Consensus 157 ~rL~NDi~S~~~ 168 (280)
.-+.||+..+.-
T Consensus 211 FQi~DDilD~~~ 222 (323)
T CHL00151 211 FQIIDDVLDITS 222 (323)
T ss_pred HHHHHHHhhccc
Confidence 999999998753
No 24
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=77.03 E-value=63 Score=30.01 Aligned_cols=91 Identities=10% Similarity=-0.002 Sum_probs=59.6
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHH
Q 038218 74 DSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWS 153 (280)
Q Consensus 74 ~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~ 153 (280)
....+..+.+....++.+-..+..|.. +.-+|.++|++....-+|..+..++..-++--..+++..+. ..++-+..
T Consensus 128 ~~~~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~---l~~~g~~l 203 (323)
T PRK10888 128 SLKVLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKG---LQDYGRYL 203 (323)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHH
Confidence 334566778888889999888888753 34589999999877655544433322111111234444443 34677888
Q ss_pred HHHHHHhcCCCCChh
Q 038218 154 SRILRLLNDLGTSSD 168 (280)
Q Consensus 154 ~~i~rL~NDi~S~~~ 168 (280)
+...-+.||+..+..
T Consensus 204 G~aFQi~DD~ld~~~ 218 (323)
T PRK10888 204 GTAFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHHHhhcccC
Confidence 889999999998853
No 25
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=75.94 E-value=2.4 Score=35.39 Aligned_cols=38 Identities=24% Similarity=0.525 Sum_probs=29.8
Q ss_pred hcCCCchhHHHHHhhC-CCCHHHHHHHHHHH------HHHHHHHh
Q 038218 171 QRGDVSKSIQCYMHET-GASEEAAREHIKDL------IRQMWKKV 208 (280)
Q Consensus 171 ~~G~~~n~V~~yM~e~-g~s~eeA~~~i~~~------i~~~~k~l 208 (280)
.||..+..|.||+-+| +.|.++|++++++. ....|+.+
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l 163 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVL 163 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHH
Confidence 4666788999998887 99999999999873 34455555
No 26
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=75.23 E-value=2.6 Score=36.26 Aligned_cols=49 Identities=18% Similarity=0.251 Sum_probs=32.2
Q ss_pred HHHHHhcCCCCChhhhhcCC-CchhHHHHHhhCCCCHHHHHHHHHHHHHH
Q 038218 155 RILRLLNDLGTSSDEIQRGD-VSKSIQCYMHETGASEEAAREHIKDLIRQ 203 (280)
Q Consensus 155 ~i~rL~NDi~S~~~E~~~G~-~~n~V~~yM~e~g~s~eeA~~~i~~~i~~ 203 (280)
..-.|--++..+++..+.-. ..-+=.+.|+++|+|++||.++++++-=+
T Consensus 126 ~~~~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM~ 175 (194)
T COG3707 126 ERRALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAMD 175 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence 33445555555565443222 23445579999999999999999986543
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=73.85 E-value=3.6 Score=27.91 Aligned_cols=30 Identities=17% Similarity=0.197 Sum_probs=22.9
Q ss_pred CchhHHHHHhhCCCCHHHHHHHHHHHHHHH
Q 038218 175 VSKSIQCYMHETGASEEAAREHIKDLIRQM 204 (280)
Q Consensus 175 ~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~ 204 (280)
+.-++.+.|..+|+|+++|.+.+++.-.+.
T Consensus 15 I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~~ 44 (56)
T PF03861_consen 15 IEQAKGILMARYGLSEDEAYRLLRRQAMRR 44 (56)
T ss_dssp HHHHHHHHHHHHT--HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHHHHHc
Confidence 456788999999999999999998865543
No 28
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=73.53 E-value=81 Score=29.57 Aligned_cols=124 Identities=19% Similarity=0.212 Sum_probs=74.7
Q ss_pred CCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHhcCCCCChhhhhcCCCchhHH
Q 038218 101 NKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLLNDLGTSSDEIQRGDVSKSIQ 180 (280)
Q Consensus 101 ~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~E~~~G~~~n~V~ 180 (280)
.+..|.++=| +.+..|.+.--++++.-++....++++..+.+.+ .-.-..+-+-.|++=....+.+...||. |.|.
T Consensus 173 ~~~~p~l~W~-EfaAatGSTLgIF~L~a~A~~p~~t~~~a~~i~~--aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv~ 248 (330)
T PF10776_consen 173 RDKYPELEWW-EFAAATGSTLGIFALFAYAADPDLTPEDAEKIKD--AYFPWICGLHILLDYFIDQEEDREGGDL-NFVF 248 (330)
T ss_pred hhcCCCccHH-HHHHHhccHHHHHHHHHHHcCCCCCHHHHHHHHH--cccHHHHHHHHHHHHHhhhHhHhcCCCc-eeee
Confidence 4455654333 3444433333333444455567788877766432 2223445556666666666767777776 9996
Q ss_pred HHHhhCCCCHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCCchhHHHHHHhHHhhhhhhcccCCC
Q 038218 181 CYMHETGASEEAAREHIKDLIRQMWKKVMMDVCRASNDKDPPLFQTKNEIILNPLRVAHFIYLHGDG 247 (280)
Q Consensus 181 ~yM~e~g~s~eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~p~~~~~~~~n~~R~~~~~Y~~~Dg 247 (280)
.|- +.+++.+.+.-.++++-+.. . .+|.+--.+.++ |.+--+|-.++.
T Consensus 249 YY~-----~~~~~~~Rl~~f~~~A~~~~--~----------~Lp~~~fHr~iv--~GLla~YLSD~K 296 (330)
T PF10776_consen 249 YYP-----DEEEMEERLKYFVEKALEQA--S----------RLPYPKFHRMIV--RGLLAMYLSDPK 296 (330)
T ss_pred eCC-----CHHHHHHHHHHHHHHHHHHH--H----------hCCCchHHHHHH--HHHHHHHhCCHh
Confidence 553 88999999999999998877 3 466544444444 345567866544
No 29
>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=66.61 E-value=4.8 Score=23.59 Aligned_cols=18 Identities=39% Similarity=0.593 Sum_probs=14.9
Q ss_pred HHHhhCCCCHHHHHHHHH
Q 038218 181 CYMHETGASEEAAREHIK 198 (280)
Q Consensus 181 ~yM~e~g~s~eeA~~~i~ 198 (280)
-|.++||+|.||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 588999999999776654
No 30
>PRK10581 geranyltranstransferase; Provisional
Probab=63.74 E-value=1.2e+02 Score=27.88 Aligned_cols=111 Identities=13% Similarity=0.076 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHh-cCCCCCHHHHhhcccChHHHHHHHHHHHHhcCCC
Q 038218 86 LGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYIS-ATNPIIEKELEYLESNPDLIQWSSRILRLLNDLG 164 (280)
Q Consensus 86 ~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~-~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 164 (280)
..++.+-..+..|. +..+|.++|++.-..=+|..+..++..-+ ++..-+++..+.+ .++-+..+...-+.||+.
T Consensus 152 ~~l~~GQ~ld~~~~--~~~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l---~~~g~~lG~aFQI~DDil 226 (299)
T PRK10581 152 AGMCGGQALDLEAE--GKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVL---DRYAESIGLAFQVQDDIL 226 (299)
T ss_pred chhhHhhHHHHhcc--CCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHH---HHHHHHHHHHHHHHHHHc
Confidence 45777777777775 34689999998765444433332221111 1221123344443 367788889999999999
Q ss_pred CChhh-----------hhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 165 TSSDE-----------IQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 165 S~~~E-----------~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
.+... .+.|. .+.+.+| ..|.|.+.+++.++++.+.+
T Consensus 227 D~~g~~~~~GK~~g~Dl~~gk-~T~p~l~------~~e~a~~~a~~~~~~A~~~l 274 (299)
T PRK10581 227 DVVGDTATLGKRQGADQQLGK-STYPALL------GLEQARKKARDLIDDARQSL 274 (299)
T ss_pred cccCChHHHCCCcchhhhcCC-CCHHHHH------HHHHHHHHHHHHHHHHHHHH
Confidence 88532 22233 2454443 24788888999999888887
No 31
>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=59.79 E-value=1.1e+02 Score=27.24 Aligned_cols=79 Identities=18% Similarity=0.136 Sum_probs=48.1
Q ss_pred HHHHHHHHHHH-HhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCCCCCHHHHhhcccChHHHHHHHHHHHHhcCCCC
Q 038218 87 GLLQAFLVEAK-WYHNKYAPTLEEYLKNAALSISGPLITITAYISATNPIIEKELEYLESNPDLIQWSSRILRLLNDLGT 165 (280)
Q Consensus 87 ~~~~a~l~Ea~-w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S 165 (280)
..+++..-+.. ....+..+|.++|++.-..-+|..+.+++..-++--..+++..+.+ .++.+..+...-+.||+..
T Consensus 114 ~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l---~~~g~~lG~afQi~DD~~d 190 (260)
T PF00348_consen 114 ALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEAL---REFGRHLGIAFQIRDDLLD 190 (260)
T ss_dssp HHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred hcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHH---HHHHHHHHHHHhhhhhhhh
Confidence 34444433332 2233448899999999887777654433332222122345555543 4788888899999999987
Q ss_pred Chh
Q 038218 166 SSD 168 (280)
Q Consensus 166 ~~~ 168 (280)
+..
T Consensus 191 ~~~ 193 (260)
T PF00348_consen 191 LFG 193 (260)
T ss_dssp HHS
T ss_pred ccC
Confidence 764
No 32
>smart00400 ZnF_CHCC zinc finger.
Probab=52.67 E-value=17 Score=24.32 Aligned_cols=25 Identities=20% Similarity=0.108 Sum_probs=20.6
Q ss_pred CCCchhHHHHHhhCCCCHHHHHHHH
Q 038218 173 GDVSKSIQCYMHETGASEEAAREHI 197 (280)
Q Consensus 173 G~~~n~V~~yM~e~g~s~eeA~~~i 197 (280)
|...+.|..+|+-+|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 3335789999998899999999876
No 33
>smart00463 SMR Small MutS-related domain.
Probab=52.47 E-value=18 Score=25.94 Aligned_cols=23 Identities=17% Similarity=0.186 Sum_probs=20.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHh
Q 038218 186 TGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 186 ~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
||++.++|+..+...++++++.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 79999999999999999888664
No 34
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=50.72 E-value=17 Score=28.96 Aligned_cols=22 Identities=27% Similarity=0.462 Sum_probs=19.0
Q ss_pred hHHHHHhhCCCCHHHHHHHHHH
Q 038218 178 SIQCYMHETGASEEAAREHIKD 199 (280)
Q Consensus 178 ~V~~yM~e~g~s~eeA~~~i~~ 199 (280)
=|.+.|.|.|+|.++|++.+.+
T Consensus 87 DIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 87 DIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHhCCCHHHHHHHHHH
Confidence 3888999999999999988764
No 35
>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=50.36 E-value=20 Score=25.98 Aligned_cols=23 Identities=13% Similarity=0.286 Sum_probs=20.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHh
Q 038218 186 TGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 186 ~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
||++.++|+..+.+.++++++.-
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~ 26 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRG 26 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTT
T ss_pred CCCcHHHHHHHHHHHHHHHHHcC
Confidence 79999999999999999998665
No 36
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=48.04 E-value=38 Score=30.63 Aligned_cols=65 Identities=12% Similarity=0.079 Sum_probs=48.8
Q ss_pred ChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhh--------hhhhhccCCCCCCCchhHHHHHHhHHh
Q 038218 166 SSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKVM--------MDVCRASNDKDPPLFQTKNEIILNPLR 236 (280)
Q Consensus 166 ~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l~--------~n~~~l~~~~~~~~p~~~~~~~~n~~R 236 (280)
|++||+ .++.++..+...|.+.++|..++.--+.+.+-+++ -+.+.|.+. .+|...+..+.++||
T Consensus 97 wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~---~~~~~~~~~l~e~a~ 169 (269)
T COG1093 97 WKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDE---GVPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccC---CCCHHHHHHHHHHHH
Confidence 356665 46888899989999999999999988888776653 133445444 688888888888887
No 37
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase. This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
Probab=47.58 E-value=2.4e+02 Score=26.40 Aligned_cols=238 Identities=13% Similarity=0.106 Sum_probs=107.2
Q ss_pred chhhhhhhhhHhhhhhcccCCC-C----HHHHHHHHHHHHh--cchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCC
Q 038218 2 RRVLTIAGALVTVIDDIYDIYG-T----LDELDLFTYAVER--WDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQD 74 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~g-t----~eEl~~~~~ai~r--Wd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~ 74 (280)
|..+.-+-.+.=.+||+=|... . ++.++.|.+.+.. |..+ .-. -| ..+.+..-+.........- .
T Consensus 28 R~aV~~~Yl~cR~~DdIeDd~~~~~~~kl~~l~~~~~~l~~~~~~~~-~~~-~~-----~~~~L~~~~~~v~~~~~~l-~ 99 (336)
T TIGR01559 28 RNAVCIFYLVLRALDTVEDDMTISVDKKIPLLRDFHEKIYDPDWRFT-ESD-NE-----KDRQVLDDFPVVSLEFLKL-K 99 (336)
T ss_pred HHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHhccCcccC-CCC-Ch-----hhHHHHHhchHHHHHHHhc-C
Confidence 3445555666678899988532 2 2334555555543 4322 100 11 2223333333332221111 1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhcCCCC--CCHHHHHhhcchhcch-HHHHHHHHHhcCCCCCH--HHHhhcccChHH
Q 038218 75 SDQLLRIKNSWLGLLQAFLVEAKWYHNKYA--PTLEEYLKNAALSISG-PLITITAYISATNPIIE--KELEYLESNPDL 149 (280)
Q Consensus 75 ~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~--Ps~eEYl~~~~~s~g~-~~~~~~~~~~~g~~l~~--e~~~~~~~~~~l 149 (280)
.....-+++..+++..++. .+...... +|++||..+-....|. ..+++..+...|..-+. +..+...+.-..
T Consensus 100 ~~~~~~I~~~~~~M~~GMa---~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~~~~~~~~~~A~~lG~a 176 (336)
T TIGR01559 100 PKYQEVIADITRRMGNGMA---DFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFEDPSLGESEALSNSMGLF 176 (336)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCCcchhhhHHHHHHHHHH
Confidence 1123345555666778873 33322222 7888877776655553 33333333322221111 112221222233
Q ss_pred HHHHHHHHHHhcCCCCChhhhhcCC--CchhHHHHHhhCCCC---------HHHHHHHHHHHHHHHHHHhhhhhhh--cc
Q 038218 150 IQWSSRILRLLNDLGTSSDEIQRGD--VSKSIQCYMHETGAS---------EEAAREHIKDLIRQMWKKVMMDVCR--AS 216 (280)
Q Consensus 150 ~~~~~~i~rL~NDi~S~~~E~~~G~--~~n~V~~yM~e~g~s---------~eeA~~~i~~~i~~~~k~l~~n~~~--l~ 216 (280)
++.++++==...| .++|- .+--+ +.++|++ .+.+..-+..|+..++.-+ .... +.
T Consensus 177 LQlTNIlRDv~ED-------~~~GR~YlP~e~---l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~--~~al~yl~ 244 (336)
T TIGR01559 177 LQKTNIIRDYLED-------INEGRMFWPREI---WSKYAKKLGDFKKPENSDKALQCLNELVTNALHHA--TDCLTYLS 244 (336)
T ss_pred HHHHHHHHHHHhH-------HhCCCCCCCHHH---HHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 3333333223333 34443 23322 4455654 3566777888888888777 3322 21
Q ss_pred --CCCCCCCchhHHHHHHhHHhhhhhhcccCCCCCCCChhH-HHHHHhhccc
Q 038218 217 --NDKDPPLFQTKNEIILNPLRVAHFIYLHGDGHGAQKQET-MDEVFALLFQ 265 (280)
Q Consensus 217 --~~~~~~~p~~~~~~~~n~~R~~~~~Y~~~Dg~t~~~~~~-k~~i~~l~~~ 265 (280)
+.. .+-..|.-..+-..-++..+|+..+-|.. +-++ |..+..++.+
T Consensus 245 ~l~~~--~~~~fcaip~~mAi~TL~~~~~n~~~~~~-~VKi~r~~~~~~~~~ 293 (336)
T TIGR01559 245 RLRDQ--SIFNFCAIPQVMAIATLALCYNNPQVFQG-NVKIRKGTTVKLILD 293 (336)
T ss_pred hCCCc--chhHHHHHHHHHHHHHHHHHhcChhhcCC-CceecHHHHHHHHHH
Confidence 111 23333333332223345566877765543 2233 6666666653
No 38
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=42.87 E-value=90 Score=22.08 Aligned_cols=21 Identities=38% Similarity=0.453 Sum_probs=16.4
Q ss_pred CCCCHHHHHhhcchhcchHHH
Q 038218 103 YAPTLEEYLKNAALSISGPLI 123 (280)
Q Consensus 103 ~~Ps~eEYl~~~~~s~g~~~~ 123 (280)
..||-|||.+.+.++..+-.+
T Consensus 26 rKP~~eEy~~~aKi~~~Gi~l 46 (65)
T COG2443 26 RKPDWEEYSKIAKITGLGILL 46 (65)
T ss_pred hCCCHHHHHHHHHHHHHHHHH
Confidence 469999999999887655443
No 39
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=41.16 E-value=54 Score=21.95 Aligned_cols=45 Identities=31% Similarity=0.339 Sum_probs=31.7
Q ss_pred hcCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHH
Q 038218 160 LNDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWK 206 (280)
Q Consensus 160 ~NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k 206 (280)
.||+-++.-|+..--+ -=|+-+| ..|+|--||+..+...|++..+
T Consensus 2 ~~~lp~LtHeeQQ~Av-E~Iq~LM-aqGmSsgEAI~~VA~~iRe~~~ 46 (51)
T PF03701_consen 2 FNDLPSLTHEEQQQAV-ERIQELM-AQGMSSGEAIAIVAQEIREEHQ 46 (51)
T ss_pred CCCCCCCCHHHHHHHH-HHHHHHH-HhcccHHHHHHHHHHHHHHHHH
Confidence 3677776666554333 3366677 5799999999999998887654
No 40
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=36.93 E-value=35 Score=26.96 Aligned_cols=27 Identities=30% Similarity=0.406 Sum_probs=22.0
Q ss_pred CCCchhHHHHHhhCCCCHHHHHHHHHH
Q 038218 173 GDVSKSIQCYMHETGASEEAAREHIKD 199 (280)
Q Consensus 173 G~~~n~V~~yM~e~g~s~eeA~~~i~~ 199 (280)
|-...-|...|.+.|+|.++|++.+.+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 334567999999999999999988765
No 41
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=34.91 E-value=40 Score=26.65 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=20.4
Q ss_pred chhHHHHHhhCCCCHHHHHHHHHH
Q 038218 176 SKSIQCYMHETGASEEAAREHIKD 199 (280)
Q Consensus 176 ~n~V~~yM~e~g~s~eeA~~~i~~ 199 (280)
..-|...|.+.|+|.++|++.+.+
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHH
Confidence 466899999999999999987764
No 42
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=32.97 E-value=1.5e+02 Score=25.58 Aligned_cols=54 Identities=15% Similarity=0.159 Sum_probs=31.9
Q ss_pred HHHHHhhHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHH
Q 038218 55 FFALYNFVSEVADYILKQQDSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEE 109 (280)
Q Consensus 55 ~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eE 109 (280)
+...-+.++++...+....-.....++....++|+.|..- ..|...|.+||.+|
T Consensus 53 l~~a~~~~~~l~~~~~~~~~~~y~~~~~~~lQEyvEA~~f-~~~l~~~~l~s~ee 106 (204)
T PRK14562 53 LKEAEELVKELKELLKDHPELYYAGYVGTALQEYVEALLV-YSLLFENKIPSPEE 106 (204)
T ss_pred HHHHHHHHHHHHHHhccCchhhhhhhcchHHHHHHHHHHH-HHHHcCCCCCCHHH
Confidence 3344445555544443322222234566677788877654 67888888999888
No 43
>PF06603 UpxZ: UpxZ family of transcription anti-terminator antagonists; InterPro: IPR010570 This family consists of several hypothetical proteins of unknown function and seems to be specific to Bacteroides species.
Probab=32.83 E-value=70 Score=24.77 Aligned_cols=71 Identities=15% Similarity=0.260 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHhcCCCCChhhhhcCCCchh-HHHHHhhCCCCH---HHHHHHHHHHHHHHHHHhhhhhhhccCCCCCCC
Q 038218 148 DLIQWSSRILRLLNDLGTSSDEIQRGDVSKS-IQCYMHETGASE---EAAREHIKDLIRQMWKKVMMDVCRASNDKDPPL 223 (280)
Q Consensus 148 ~l~~~~~~i~rL~NDi~S~~~E~~~G~~~n~-V~~yM~e~g~s~---eeA~~~i~~~i~~~~k~l~~n~~~l~~~~~~~~ 223 (280)
.+.+.-..+.+.+||+++.+-+-...+ +|. +.+.| -+++|. -+--++++..++.+|..+ . .+
T Consensus 26 ~~~rLN~ev~~~~~~Ly~~~G~t~Eee-A~lCLaLLm-GYnat~yd~geke~~~Q~vL~Rs~~vL--~----------~L 91 (106)
T PF06603_consen 26 DFSRLNKEVYEQSNDLYSQHGSTPEEE-ANLCLALLM-GYNATIYDNGEKEEKKQEVLDRSWEVL--D----------KL 91 (106)
T ss_pred HHHHHhHHHHHHHHHHHhccCCCHHHH-HHHHHHHHH-hccchhhhCccHHHHHHHHHHHHHHHH--H----------hC
Confidence 466777788899999988643221111 232 33333 233332 233457889999999888 3 58
Q ss_pred chhHHHHHH
Q 038218 224 FQTKNEIIL 232 (280)
Q Consensus 224 p~~~~~~~~ 232 (280)
|.++++.-+
T Consensus 92 p~SlLK~~L 100 (106)
T PF06603_consen 92 PASLLKVQL 100 (106)
T ss_pred CcHHHHHHH
Confidence 887777644
No 44
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=32.38 E-value=64 Score=23.34 Aligned_cols=30 Identities=17% Similarity=0.416 Sum_probs=24.5
Q ss_pred hHHHHHhhCCCCHHHHHHHHHHHHHHHHHH
Q 038218 178 SIQCYMHETGASEEAAREHIKDLIRQMWKK 207 (280)
Q Consensus 178 ~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~ 207 (280)
.|...+-+.|++.|+|.+.+++...++|+.
T Consensus 8 ~v~~~L~~~G~gR~~Ah~lv~~~a~~a~~~ 37 (81)
T PF10397_consen 8 RVMLALAEKGLGRQEAHELVQEAAMEAWEN 37 (81)
T ss_dssp HHHHHHHHTTH-HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 355566688999999999999999999965
No 45
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=32.28 E-value=4e+02 Score=25.61 Aligned_cols=96 Identities=8% Similarity=-0.028 Sum_probs=65.3
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhcCCCC--C-CHHHHHhhcchhcchHHHHHHHHH-hcCCCCCHHHHhhcccChH
Q 038218 73 QDSDQLLRIKNSWLGLLQAFLVEAKWYHNKYA--P-TLEEYLKNAALSISGPLITITAYI-SATNPIIEKELEYLESNPD 148 (280)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~--P-s~eEYl~~~~~s~g~~~~~~~~~~-~~g~~l~~e~~~~~~~~~~ 148 (280)
++..++..+..+.++++++-..|.....+|.- + .+|+|...-....|.-+..++-.. -+| .-++++.+.+. +
T Consensus 193 ~n~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILg-g~s~ev~e~~~---~ 268 (384)
T KOG0776|consen 193 ENPVVVELMASAIADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILG-GGSEEVIEAAF---E 268 (384)
T ss_pred cCchHHHHHHHHHHHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHc-CCCHHHHHHHH---H
Confidence 45567788999999999999888775543333 3 577777766666664432222111 123 34677777754 6
Q ss_pred HHHHHHHHHHHhcCCCCChhhhhc
Q 038218 149 LIQWSSRILRLLNDLGTSSDEIQR 172 (280)
Q Consensus 149 l~~~~~~i~rL~NDi~S~~~E~~~ 172 (280)
.-|..++..-+++||..|.+....
T Consensus 269 yGR~lGL~fQvvDDildftkss~e 292 (384)
T KOG0776|consen 269 YGRCLGLAFQVVDDILDFTKSSEE 292 (384)
T ss_pred HHHHHHHHHHHhhcccCcccchhh
Confidence 778889999999999999987554
No 46
>PF00156 Pribosyltran: Phosphoribosyl transferase domain; InterPro: IPR000836 The name PRT comes from phosphoribosyltransferase (PRTase) enzymes, which carry out phosphoryl transfer reactions on 5-phosphoribosyl-alpha1-pyrophosphate PRPP, an activated form of ribose-5-phosphate. Members of Phosphoribosyltransferase (PRT) are catalytic and are regulatory proteins involved in nucleotide synthesis and salvage []. This includes a range of diverse phosphoribosyl transferase enzymes including adenine phosphoribosyltransferase (2.4.2.7 from EC); hypoxanthine-guanine-xanthine phosphoribosyltransferase; hypoxanthine phosphoribosyltransferase (2.4.2.8 from EC); ribose-phosphate pyrophosphokinase (2.7.6.1 from EC); amidophosphoribosyltransferase (2.4.2.14 from EC); orotate phosphoribosyltransferase (2.4.2.10 from EC);uracil phosphoribosyltransferase (2.4.2.9 from EC); and xanthine-guanine phosphoribosyltransferase (2.4.2.22 from EC). Not all PRT proteins are enzymes. For example, in some bacteria PRT proteins regulate the expression of purine and pyrimidine synthetic genes. Members of PRT are defined by the protein fold and by a short 13-residue sequence motif, The motif consists of four hydrophobic amino acids, two acidic amino acids and seven amino acids of variable character, usually including glycine and threonine. The motif has been predicted to be a PRPP-binding site in advance of structural information [, ]. Apart of this motif, different PRT proteins have a low level of sequence identity, less than 15%. The PRT sequence motif is only found in PRTases from the nucleotide synthesis and salvage pathways. Other PRTases, from the tryptophan, histidine and nicotinamide synthetic and salvage pathways, lack the PRT sequence motif and appear to be unrelated to each other and unrelated to the PRT family.; GO: 0009116 nucleoside metabolic process; PDB: 2JBH_A 1Y0B_D 2FXV_B 1GPH_1 1AO0_D 1ORO_B 1VCH_C 2WNS_A 2PRZ_B 2PS1_A ....
Probab=31.97 E-value=13 Score=28.60 Aligned_cols=21 Identities=38% Similarity=0.482 Sum_probs=16.2
Q ss_pred HhhhhhcccCCCCHHHHHHHH
Q 038218 12 VTVIDDIYDIYGTLDELDLFT 32 (280)
Q Consensus 12 ~~~iDD~yD~~gt~eEl~~~~ 32 (280)
+.++||++|.++|+.++..+.
T Consensus 91 vliVDDvi~tG~Tl~~~~~~L 111 (125)
T PF00156_consen 91 VLIVDDVIDTGGTLKEAIELL 111 (125)
T ss_dssp EEEEEEEESSSHHHHHHHHHH
T ss_pred EEEEeeeEcccHHHHHHHHHH
Confidence 357999999999987765443
No 47
>PF01807 zf-CHC2: CHC2 zinc finger; InterPro: IPR002694 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents CycHisCysCys (CHC2) type zinc finger domains, which are found in bacteria and viruses. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0003896 DNA primase activity, 0008270 zinc ion binding, 0006260 DNA replication; PDB: 1D0Q_B 2AU3_A.
Probab=31.18 E-value=46 Score=25.10 Aligned_cols=28 Identities=18% Similarity=0.138 Sum_probs=20.7
Q ss_pred CchhHHHHHhhCCCCHHHHHHHHHHHHH
Q 038218 175 VSKSIQCYMHETGASEEAAREHIKDLIR 202 (280)
Q Consensus 175 ~~n~V~~yM~e~g~s~eeA~~~i~~~i~ 202 (280)
..|+|..+|+-.|+|-.||++.+.++..
T Consensus 63 ~Gd~i~~v~~~~~~~f~eAv~~l~~~~~ 90 (97)
T PF01807_consen 63 GGDVIDFVMKYEGCSFKEAVKWLAEEFG 90 (97)
T ss_dssp EE-HHHHHHHHHT--HHHHHHHHHHHHT
T ss_pred CCcHHhHHHHHhCCCHHHHHHHHHHHhC
Confidence 3478999998889999999999887654
No 48
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=30.77 E-value=46 Score=29.75 Aligned_cols=27 Identities=22% Similarity=0.181 Sum_probs=23.0
Q ss_pred CCCchhHHHHHhhCCCCHHHHHHHHHH
Q 038218 173 GDVSKSIQCYMHETGASEEAAREHIKD 199 (280)
Q Consensus 173 G~~~n~V~~yM~e~g~s~eeA~~~i~~ 199 (280)
|-.+-.+.+||-++|++.++|++.++.
T Consensus 182 GRTGtl~AayLI~~GmspeeAI~~VR~ 208 (241)
T PTZ00393 182 GRAPVLASIVLIEFGMDPIDAIVFIRD 208 (241)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 444578889999999999999999876
No 49
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=30.22 E-value=1.6e+02 Score=26.13 Aligned_cols=37 Identities=16% Similarity=0.143 Sum_probs=28.6
Q ss_pred hhHHHHHhhCCCCHHHHHHHHHHHHH--HHHHHhhhhhhh
Q 038218 177 KSIQCYMHETGASEEAAREHIKDLIR--QMWKKVMMDVCR 214 (280)
Q Consensus 177 n~V~~yM~e~g~s~eeA~~~i~~~i~--~~~k~l~~n~~~ 214 (280)
-.++.|. ++|+|.++|......+.+ +.|.+.||.+|.
T Consensus 102 el~~iy~-~~G~~~~~a~~~~~~l~~~~~~~~~~~~~~e~ 140 (234)
T cd02433 102 ELALIYR-AKGLDEEEAKRVASQLMNDPEQALDTLAREEL 140 (234)
T ss_pred HHHHHHH-HcCCCHHHHHHHHHHHHhCcchhHHHHHHHhc
Confidence 4577786 569999999988888886 557777766665
No 50
>PF02061 Lambda_CIII: Lambda Phage CIII; InterPro: IPR013056 Bacteriophage lambda regulatory protein CIII is a small protein that plays a role in stabilising the CII transcriptional activator, via a mechanism that is not yet fully understood [, ]. Stabilised CII activates CI, the gene for the repressor protein that prevents transcription of proteins required for lytic development. The central portion of the protein is well conserved and is both necessary and sufficient for the activity of the protein []. Comparative analysis of the CIII sequence in lambda, Bacteriophage HK022 and the lambdoid Enterobacteria phage P22 has led to the suggestion that this central region assumes an amphipathic alpha-helical structure []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=29.29 E-value=1.3e+02 Score=19.23 Aligned_cols=27 Identities=22% Similarity=0.400 Sum_probs=20.8
Q ss_pred CCC--HHHHHHHHHHHHHHHHHHhhhhhhhcc
Q 038218 187 GAS--EEAAREHIKDLIRQMWKKVMMDVCRAS 216 (280)
Q Consensus 187 g~s--~eeA~~~i~~~i~~~~k~l~~n~~~l~ 216 (280)
|++ -|.-.+.|..-+.+.||++ .+.|.
T Consensus 12 G~~ql~ESLLdrItRklr~gwKRl---~~iLn 40 (45)
T PF02061_consen 12 GCPQLSESLLDRITRKLRDGWKRL---WDILN 40 (45)
T ss_pred CCchhhHHHHHHHHHHHHHHHHHH---HHHHc
Confidence 555 4667888999999999998 56653
No 51
>PRK09177 xanthine-guanine phosphoribosyltransferase; Validated
Probab=28.80 E-value=20 Score=29.69 Aligned_cols=24 Identities=25% Similarity=0.267 Sum_probs=18.9
Q ss_pred HhhhhhcccCCCCHHHHHHHHHHH
Q 038218 12 VTVIDDIYDIYGTLDELDLFTYAV 35 (280)
Q Consensus 12 ~~~iDD~yD~~gt~eEl~~~~~ai 35 (280)
+.++||+.|.++|+.++..+...+
T Consensus 87 VLIVDDIiDTG~Tl~~v~~~l~~v 110 (156)
T PRK09177 87 FLVVDDLVDTGGTARAVREMYPKA 110 (156)
T ss_pred EEEEeeeeCCHHHHHHHHHHHhhC
Confidence 357899999999999987665543
No 52
>KOG3730 consensus Acyl-CoA:dihydroxyactetone-phosphate acyltransferase DHAPAT [Lipid transport and metabolism]
Probab=27.57 E-value=1.3e+02 Score=29.79 Aligned_cols=35 Identities=20% Similarity=0.420 Sum_probs=28.4
Q ss_pred CCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 174 DVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 174 ~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
.+.+.|+=|-+|.|+|.+.-.+++++++++.-.++
T Consensus 76 ~~~sVi~~~~kes~~s~d~~r~ea~eIlDEmsh~~ 110 (685)
T KOG3730|consen 76 KLRSVIEHYAKESGTSLDQMRREAREILDEMSHDR 110 (685)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhhhc
Confidence 35688999999999999998888888887665555
No 53
>PRK05114 hypothetical protein; Provisional
Probab=27.18 E-value=1.1e+02 Score=21.04 Aligned_cols=45 Identities=24% Similarity=0.271 Sum_probs=30.8
Q ss_pred hcCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHH
Q 038218 160 LNDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWK 206 (280)
Q Consensus 160 ~NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k 206 (280)
.||+-++..|+.+--+ -=|+-+| ..|+|--||++-+.+.|++..+
T Consensus 2 ~~~lp~LtHeeQQ~AV-ErIq~LM-aqGmSsgEAI~~VA~eiRe~~~ 46 (59)
T PRK05114 2 FAGLPSLTHEQQQKAV-ERIQELM-AQGMSSGEAIALVAEELRANHQ 46 (59)
T ss_pred CCCcccCCHHHHHHHH-HHHHHHH-HccccHHHHHHHHHHHHHHHHh
Confidence 3566565555444333 3366677 4799999999999998887654
No 54
>PF05772 NinB: NinB protein; InterPro: IPR008711 The ninR region of Bacteriophage lambda contains two recombination genes, orf (ninB) and rap (ninG), that have roles when the RecF and RecBCD recombination pathways of Escherichia coli, respectively, operate on phage lambda []. Genetic recombination in phage lambda relies on DNA end processing by Exo to expose 3'-tailed strands for annealing and exchange by beta protein. Phage lambda encodes an additional recombinase, NinB (Orf), which participates in the early stages of recombination by supplying a function equivalent to the E. coli RecFOR complex. These host enzymes assist loading of the RecA strand exchange protein onto ssDNA coated with ssDNA-binding protein. NinB has two structural domains with unusual folds, and exists as an intertwined dimer [].; PDB: 1PC6_B.
Probab=26.94 E-value=46 Score=26.72 Aligned_cols=59 Identities=12% Similarity=0.206 Sum_probs=29.8
Q ss_pred HHHhhHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHH-HHHhhcchhcc
Q 038218 57 ALYNFVSEVADYILKQQDSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLE-EYLKNAALSIS 119 (280)
Q Consensus 57 ~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~e-EYl~~~~~s~g 119 (280)
.++..+.+|++.+.- .|+ .+-.+.|++++.+.+.-++.....-+|.++ |+...+..|+-
T Consensus 42 ~lwa~l~dIs~qv~~-~G~---k~~~e~WK~~~~~~~~~~~~~~~~~~~gl~Gg~v~~g~sTsk 101 (127)
T PF05772_consen 42 KLWAMLGDISRQVEW-NGR---KLDPEDWKELFTAAFLIATGEEQRVVPGLDGGFVVLGESTSK 101 (127)
T ss_dssp HHHHHHHHHHHH--B-TTB------HHHHHHHHHHHH-----S--EEEE-TTSSEEEE---TTT
T ss_pred HHHHHHHHHHHHhHh-cCc---cCCHHHHHHHHHHHHhhhccchhhhccCCCCCeEEEeeechh
Confidence 355677888776443 343 457788999999988666665555577776 56555544443
No 55
>PRK13694 hypothetical protein; Provisional
Probab=26.81 E-value=45 Score=24.70 Aligned_cols=21 Identities=19% Similarity=0.213 Sum_probs=16.9
Q ss_pred CCC-CHHHHHHHHHHHHhcchh
Q 038218 21 IYG-TLDELDLFTYAVERWDIN 41 (280)
Q Consensus 21 ~~g-t~eEl~~~~~ai~rWd~~ 41 (280)
.+| +.++|+.|++.|+|....
T Consensus 6 ~~~va~~~Lr~fIERIERLEeE 27 (83)
T PRK13694 6 AEVVAKEQLRAFIERIERLEEE 27 (83)
T ss_pred HhHHHHHHHHHHHHHHHHHHHH
Confidence 344 788999999999997654
No 56
>COG2236 Predicted phosphoribosyltransferases [General function prediction only]
Probab=26.42 E-value=26 Score=30.21 Aligned_cols=22 Identities=27% Similarity=0.111 Sum_probs=18.1
Q ss_pred hhhhhcccCCCCHHHHHHHHHH
Q 038218 13 TVIDDIYDIYGTLDELDLFTYA 34 (280)
Q Consensus 13 ~~iDD~yD~~gt~eEl~~~~~a 34 (280)
.++||+.|++.|++.+..+.+.
T Consensus 91 LIVDDI~DTG~Tl~~a~~~l~~ 112 (192)
T COG2236 91 LIVDDIVDTGETLELALEELKK 112 (192)
T ss_pred EEEecccCchHhHHHHHHHHHh
Confidence 4799999999999887766654
No 57
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=23.83 E-value=4.9e+02 Score=24.21 Aligned_cols=121 Identities=17% Similarity=0.299 Sum_probs=61.3
Q ss_pred hhHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHHhcCC-CC-CH
Q 038218 60 NFVSEVADYILKQQDSDQLLRIKNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYISATN-PI-IE 137 (280)
Q Consensus 60 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~~~g~-~l-~~ 137 (280)
.++.|.+..+....|. |-++-.++++++ +...+.--| |+.++--.++++....--|. +. +.
T Consensus 231 GvIRECGGKMHlreg~-----fe~AhTDFFEAF----KNYDEsGsp--------RRttCLKYLVLANMLmkS~iNPFDsQ 293 (440)
T KOG1464|consen 231 GVIRECGGKMHLREGE-----FEKAHTDFFEAF----KNYDESGSP--------RRTTCLKYLVLANMLMKSGINPFDSQ 293 (440)
T ss_pred hHHHHcCCccccccch-----HHHHHhHHHHHH----hcccccCCc--------chhHHHHHHHHHHHHHHcCCCCCccc
Confidence 4445554444333332 666667777777 544444445 33333333444444333332 22 33
Q ss_pred HHHhhcccChHHHHHHHHHHHHh-cCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHHHHh
Q 038218 138 KELEYLESNPDLIQWSSRILRLL-NDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMWKKV 208 (280)
Q Consensus 138 e~~~~~~~~~~l~~~~~~i~rL~-NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~k~l 208 (280)
|+- -.++-|+|+-..+.+...- |||..|++=.+.... | | +.-.--++|+.++++.-..++
T Consensus 294 EAK-PyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~-~-I--------M~DpFIReh~EdLl~niRTQV 354 (440)
T KOG1464|consen 294 EAK-PYKNDPEILAMTNLVAAYQNNDIIEFERILKSNRS-N-I--------MDDPFIREHIEDLLRNIRTQV 354 (440)
T ss_pred ccC-CCCCCHHHHHHHHHHHHHhcccHHHHHHHHHhhhc-c-c--------cccHHHHHHHHHHHHHHHHHH
Confidence 332 2356689998888877764 677766654443321 2 1 122334555666666555444
No 58
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism]
Probab=23.14 E-value=2.9e+02 Score=25.29 Aligned_cols=111 Identities=14% Similarity=0.021 Sum_probs=59.1
Q ss_pred chhhhhhhhhHhhhhhcccCCCCHHHHHHHHHHHHhcchhhhhhcCchHHHHHHHHHHhhHHHHHHHHHhcCCcchHHHH
Q 038218 2 RRVLTIAGALVTVIDDIYDIYGTLDELDLFTYAVERWDINFAIKQLPDYMKICFFALYNFVSEVADYILKQQDSDQLLRI 81 (280)
Q Consensus 2 R~~~aK~~~l~~~iDD~yD~~gt~eEl~~~~~ai~rWd~~~~~~~lp~~mk~~~~~l~~~~~e~~~~~~~~~~~~~~~~~ 81 (280)
|..++.+.++.=.+||+-|..+.++.+..+-+.++|=-.. ..+.-|..-.++-.++-.+..+ .+. -
T Consensus 36 R~av~alYa~~R~~Ddv~D~~~~~~~~~e~~~~~~~~~~~-~~~~~~~~~~pv~~al~~~~~~--------~~~-----~ 101 (288)
T COG1562 36 REAVWALYAFCREADDVVDGVSDPDLPAEILLAWRRELDG-DFSGQPASDHPVLAALVEVARR--------FGL-----P 101 (288)
T ss_pred HHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHhc-cccCCCcccCHHHHHHHHHHHH--------cCC-----C
Confidence 5566777888889999999988775666666666551111 1111111123444444444433 121 3
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCHHHHHhhcchhcchHHHHHHHHH
Q 038218 82 KNSWLGLLQAFLVEAKWYHNKYAPTLEEYLKNAALSISGPLITITAYI 129 (280)
Q Consensus 82 ~~~~~~~~~a~l~Ea~w~~~g~~Ps~eEYl~~~~~s~g~~~~~~~~~~ 129 (280)
++.+.+++.++.....+.. -++++|...+-..+.|+--.+++..+
T Consensus 102 ~~~~~~~~da~~~Dl~~~~---y~~~~eL~~Yc~~vAg~vG~l~~~Il 146 (288)
T COG1562 102 REAFPALIDAMRMDLDRTR---YLDFEELEEYCYGVAGAVGLLLARIL 146 (288)
T ss_pred HHHHHHHHHHHHHHhhhcc---ccCHHHHHHHHHHhHHHHHHHHHHHh
Confidence 4556777788776666533 33444444444455554433333333
No 59
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.10 E-value=67 Score=27.05 Aligned_cols=23 Identities=30% Similarity=0.364 Sum_probs=17.8
Q ss_pred hhhhhcccCCCCHHHHHHHHHHH
Q 038218 13 TVIDDIYDIYGTLDELDLFTYAV 35 (280)
Q Consensus 13 ~~iDD~yD~~gt~eEl~~~~~ai 35 (280)
-.+||++|+.|.-||-+..++-|
T Consensus 143 DTLDdild~sgDeeEs~aiVNqV 165 (208)
T KOG3231|consen 143 DTLDDILDGSGDEEESQAIVNQV 165 (208)
T ss_pred hhHHHHhcCCCcHHHHHHHHHHH
Confidence 35899999999999876665544
No 60
>PRK05205 bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase; Provisional
Probab=22.64 E-value=27 Score=29.25 Aligned_cols=21 Identities=19% Similarity=0.066 Sum_probs=16.5
Q ss_pred HhhhhhcccCCCCHHHHHHHH
Q 038218 12 VTVIDDIYDIYGTLDELDLFT 32 (280)
Q Consensus 12 ~~~iDD~yD~~gt~eEl~~~~ 32 (280)
+.++||+.|.++|+.++....
T Consensus 98 VLIVDDIidTG~Tl~~~~~~L 118 (176)
T PRK05205 98 VILVDDVLYTGRTIRAALDAL 118 (176)
T ss_pred EEEEecccCcHHHHHHHHHHH
Confidence 467999999999988765443
No 61
>PRK09162 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=22.58 E-value=27 Score=29.54 Aligned_cols=22 Identities=36% Similarity=0.298 Sum_probs=17.7
Q ss_pred HhhhhhcccCCCCHHHHHHHHH
Q 038218 12 VTVIDDIYDIYGTLDELDLFTY 33 (280)
Q Consensus 12 ~~~iDD~yD~~gt~eEl~~~~~ 33 (280)
+.++||++|.+.|+.++.....
T Consensus 100 VLIVDDIidTG~Tl~~~~~~Lk 121 (181)
T PRK09162 100 VLVVDDILDEGHTLAAIRDRCL 121 (181)
T ss_pred EEEEccccCcHHHHHHHHHHHH
Confidence 4568999999999888766654
No 62
>COG2096 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]
Probab=20.94 E-value=3.1e+02 Score=23.51 Aligned_cols=19 Identities=42% Similarity=0.586 Sum_probs=15.0
Q ss_pred cccCCCCHHHHHHHHHHHH
Q 038218 18 IYDIYGTLDELDLFTYAVE 36 (280)
Q Consensus 18 ~yD~~gt~eEl~~~~~ai~ 36 (280)
.-..|||+||+..|.-...
T Consensus 31 rVeayGtlDElNs~IG~A~ 49 (184)
T COG2096 31 RVEAYGTLDELNSFIGLAR 49 (184)
T ss_pred eeeeeccHHHHHHHHHHHH
Confidence 4568999999999986554
No 63
>COG4860 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.55 E-value=1.2e+02 Score=24.93 Aligned_cols=60 Identities=23% Similarity=0.307 Sum_probs=35.8
Q ss_pred HHHHHHHHh---hHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHh--cCCCCCCHHHHHhhcchhcc
Q 038218 52 KICFFALYN---FVSEVADYILKQQDSDQLLRIKNSWLGLLQAFLVEAKWY--HNKYAPTLEEYLKNAALSIS 119 (280)
Q Consensus 52 k~~~~~l~~---~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~Ea~w~--~~g~~Ps~eEYl~~~~~s~g 119 (280)
+.+|.+|.. |..++++..-+++.+ ...++ =++=+-|++|+ ..|..|.-+-+-....+++-
T Consensus 27 rKl~~aLstgW~T~~eiee~iG~eg~R-aL~iL-------kkagmlEtqWr~p~~G~kPeKeYHtsYt~VqiN 91 (170)
T COG4860 27 RKLLLALSTGWITLPEIEEKIGKEGRR-ALLIL-------KKAGMLETQWRTPSNGQKPEKEYHTSYTNVQIN 91 (170)
T ss_pred HHHHHHHhhcceeHHHHHHHhchhhHH-HHHHH-------HhhcchhheeeccCCCCCchhhhhhheeeEEEE
Confidence 345555544 456666666665544 33333 35567899998 46778986665555555543
No 64
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=20.46 E-value=1.2e+02 Score=20.71 Aligned_cols=49 Identities=20% Similarity=0.315 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhcCCCCChhhhhcCCCchhHHHHHhhCCCCHHHHHHHHHHHHHHHH
Q 038218 148 DLIQWSSRILRLLNDLGTSSDEIQRGDVSKSIQCYMHETGASEEAAREHIKDLIRQMW 205 (280)
Q Consensus 148 ~l~~~~~~i~rL~NDi~S~~~E~~~G~~~n~V~~yM~e~g~s~eeA~~~i~~~i~~~~ 205 (280)
.+-..+..|..++|- ...+..++.....+++++.+++.+.+...+++..
T Consensus 14 ~Ln~~a~~Iw~~~~g---------~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~ 62 (68)
T PF05402_consen 14 TLNETAAFIWELLDG---------PRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLR 62 (68)
T ss_dssp ---THHHHHHHH--S---------SS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHccC---------CCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 344556666666631 1234567777788889999999888888887654
No 65
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=20.32 E-value=1.2e+02 Score=21.95 Aligned_cols=27 Identities=30% Similarity=0.319 Sum_probs=20.2
Q ss_pred CCCchhHHHHHhhCCCCHHHHHHHHHH
Q 038218 173 GDVSKSIQCYMHETGASEEAAREHIKD 199 (280)
Q Consensus 173 G~~~n~V~~yM~e~g~s~eeA~~~i~~ 199 (280)
-.+-+.|.-+..+.|.|.++|++.+..
T Consensus 53 K~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 53 KVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 334566666677889999999988764
Done!