Query 025046
Match_columns 258
No_of_seqs 186 out of 811
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 09:34:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025046hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00684 Terpene_cyclase_plant_ 100.0 4.1E-69 8.8E-74 516.6 23.9 255 1-255 286-542 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 7.5E-69 1.6E-73 526.2 22.3 255 1-258 519-778 (784)
3 cd00868 Terpene_cyclase_C1 Ter 100.0 6.9E-43 1.5E-47 309.0 21.0 232 1-232 52-284 (284)
4 PF03936 Terpene_synth_C: Terp 100.0 2.1E-39 4.5E-44 284.8 11.4 204 1-204 66-270 (270)
5 PLN02592 ent-copalyl diphospha 100.0 1.8E-38 4E-43 310.9 19.2 217 1-257 567-800 (800)
6 PLN02150 terpene synthase/cycl 100.0 1.5E-35 3.3E-40 221.8 10.0 94 165-258 1-96 (96)
7 cd00687 Terpene_cyclase_nonpla 100.0 1.4E-34 3E-39 259.2 13.9 202 2-208 63-266 (303)
8 cd00385 Isoprenoid_Biosyn_C1 I 99.9 1.2E-21 2.5E-26 166.4 8.7 211 2-226 20-243 (243)
9 cd00686 Terpene_cyclase_cis_tr 98.2 3.4E-05 7.3E-10 69.5 13.3 180 5-206 93-276 (357)
10 PF06330 TRI5: Trichodiene syn 98.0 3.8E-05 8.3E-10 70.1 8.9 184 5-207 93-277 (376)
11 cd00867 Trans_IPPS Trans-Isopr 94.5 0.56 1.2E-05 40.0 11.0 117 73-205 87-214 (236)
12 TIGR02749 prenyl_cyano solanes 90.3 11 0.00023 34.3 13.8 87 72-162 134-220 (322)
13 PF00494 SQS_PSY: Squalene/phy 90.2 3.1 6.6E-05 36.3 9.9 157 7-190 29-192 (267)
14 PLN02857 octaprenyl-diphosphat 88.8 10 0.00022 35.9 12.7 88 72-163 228-315 (416)
15 PLN02890 geranyl diphosphate s 88.3 11 0.00024 35.6 12.6 89 71-163 227-315 (422)
16 cd00685 Trans_IPPS_HT Trans-Is 86.7 6.8 0.00015 34.2 9.7 120 72-205 109-239 (259)
17 TIGR03465 HpnD squalene syntha 86.6 21 0.00046 31.2 13.9 185 8-225 30-227 (266)
18 TIGR02748 GerC3_HepT heptapren 85.9 27 0.00058 31.7 13.6 87 72-163 130-217 (319)
19 PF10776 DUF2600: Protein of u 85.2 27 0.00058 31.9 12.7 101 119-236 195-295 (330)
20 COG3707 AmiR Response regulato 81.4 1.2 2.7E-05 37.3 2.5 50 150-199 126-176 (194)
21 COG0142 IspA Geranylgeranyl py 80.5 31 0.00068 31.3 11.6 107 72-183 135-251 (322)
22 KOG1719 Dual specificity phosp 79.3 1.6 3.4E-05 35.6 2.3 40 166-205 119-165 (183)
23 PF03861 ANTAR: ANTAR domain; 78.5 1.7 3.8E-05 28.7 2.1 31 169-199 14-44 (56)
24 PRK10888 octaprenyl diphosphat 78.4 52 0.0011 29.8 13.6 87 72-163 131-218 (323)
25 CHL00151 preA prenyl transfera 74.2 68 0.0015 29.0 12.1 87 73-163 136-222 (323)
26 cd00683 Trans_IPPS_HH Trans-Is 71.5 68 0.0015 27.9 14.3 186 9-226 37-237 (265)
27 TIGR03464 HpnC squalene syntha 70.1 75 0.0016 27.8 14.8 96 8-125 30-130 (266)
28 PF12368 DUF3650: Protein of u 69.9 3.5 7.5E-05 23.5 1.5 18 176-193 9-26 (28)
29 smart00463 SMR Small MutS-rela 63.1 9.5 0.00021 26.8 3.1 24 181-204 7-30 (80)
30 PLN02632 phytoene synthase 62.3 1.3E+02 0.0027 27.5 14.4 190 7-224 84-287 (334)
31 PF01713 Smr: Smr domain; Int 60.1 11 0.00023 26.8 3.0 27 181-207 4-30 (83)
32 KOG1720 Protein tyrosine phosp 57.4 8.6 0.00019 32.9 2.3 28 168-195 159-187 (225)
33 COG1093 SUI2 Translation initi 56.6 17 0.00038 32.0 4.1 65 160-227 96-170 (269)
34 smart00400 ZnF_CHCC zinc finge 54.3 13 0.00027 24.4 2.4 25 168-192 30-54 (55)
35 PRK10581 geranyltranstransfera 53.4 86 0.0019 28.1 8.3 111 82-205 153-276 (299)
36 COG1308 EGD2 Transcription fac 51.4 14 0.00031 28.7 2.5 21 174-194 88-108 (122)
37 PF00348 polyprenyl_synt: Poly 51.0 1.1E+02 0.0025 26.5 8.6 66 96-164 129-194 (260)
38 PF03701 UPF0181: Uncharacteri 48.7 28 0.0006 22.7 3.1 44 156-201 3-46 (51)
39 PF05772 NinB: NinB protein; 47.4 26 0.00055 27.5 3.4 60 52-115 42-102 (127)
40 COG2443 Sss1 Preprotein transl 43.9 48 0.001 22.8 3.9 22 97-118 25-46 (65)
41 PRK06369 nac nascent polypepti 41.3 24 0.00051 27.2 2.3 27 168-194 74-100 (115)
42 PF10397 ADSL_C: Adenylosuccin 39.3 40 0.00087 23.8 3.2 30 173-202 8-37 (81)
43 TIGR00264 alpha-NAC-related pr 39.2 27 0.00058 26.9 2.3 24 171-194 79-102 (116)
44 PF00156 Pribosyltran: Phospho 38.9 14 0.00029 27.8 0.7 21 8-28 91-111 (125)
45 PRK09177 xanthine-guanine phos 36.2 15 0.00032 29.7 0.5 22 8-29 87-108 (156)
46 PTZ00393 protein tyrosine phos 35.2 31 0.00068 30.1 2.4 28 168-195 182-209 (241)
47 KOG2077 JNK/SAPK-associated pr 34.1 88 0.0019 30.9 5.4 93 132-228 301-405 (832)
48 PF01807 zf-CHC2: CHC2 zinc fi 33.8 34 0.00074 25.2 2.2 29 169-197 62-90 (97)
49 PRK05114 hypothetical protein; 32.7 63 0.0014 21.7 3.0 45 155-201 2-46 (59)
50 PRK14562 haloacid dehalogenase 31.1 1.4E+02 0.0029 25.3 5.6 55 49-104 52-106 (204)
51 COG2236 Predicted phosphoribos 30.6 29 0.00063 29.2 1.4 22 9-30 91-112 (192)
52 PF06239 ECSIT: Evolutionarily 29.6 2.1E+02 0.0045 24.8 6.5 93 10-106 32-142 (228)
53 PF13798 PCYCGC: Protein of un 29.5 59 0.0013 26.5 3.0 33 177-216 126-158 (158)
54 PF13060 DUF3921: Protein of u 29.3 1.6E+02 0.0035 19.0 5.1 44 46-91 6-49 (58)
55 COG2096 cob(I)alamin adenosylt 29.1 1.5E+02 0.0033 24.8 5.4 20 13-32 30-49 (184)
56 PRK05205 bifunctional pyrimidi 28.3 27 0.00058 28.6 0.8 21 8-28 98-118 (176)
57 PF13189 Cytidylate_kin2: Cyti 27.9 25 0.00054 28.8 0.6 35 174-209 128-162 (179)
58 COG0864 NikR Predicted transcr 27.6 88 0.0019 24.8 3.6 37 54-97 16-52 (136)
59 COG4860 Uncharacterized protei 26.3 71 0.0015 25.6 2.8 51 56-114 39-91 (170)
60 PHA02896 A-type inclusion like 25.5 1.2E+02 0.0025 29.6 4.6 46 180-228 3-48 (616)
61 PRK09162 hypoxanthine-guanine 25.2 31 0.00066 28.5 0.7 22 8-29 100-121 (181)
62 TIGR00636 PduO_Nterm ATP:cob(I 25.0 3.9E+02 0.0085 22.0 7.4 21 12-32 22-42 (171)
63 PF02061 Lambda_CIII: Lambda P 24.6 1.9E+02 0.004 18.1 4.2 24 182-205 12-37 (45)
64 PF12550 GCR1_C: Transcription 24.4 49 0.0011 23.5 1.5 27 168-194 53-79 (81)
65 COG3140 Uncharacterized protei 24.3 52 0.0011 21.8 1.5 48 156-205 3-50 (60)
66 KOG3231 Predicted assembly/vac 24.0 53 0.0012 27.0 1.8 22 10-31 144-165 (208)
67 PHA03369 capsid maturational p 23.5 71 0.0015 31.5 2.8 29 216-248 300-328 (663)
68 PRK15423 hypoxanthine phosphor 23.3 40 0.00086 27.9 1.0 22 8-29 95-116 (178)
69 PF06603 UpxZ: UpxZ family of 23.3 1.7E+02 0.0038 22.1 4.3 71 143-221 26-99 (106)
70 TIGR01203 HGPRTase hypoxanthin 23.1 37 0.00081 27.6 0.8 21 8-28 87-107 (166)
71 PRK04946 hypothetical protein; 22.7 1E+02 0.0022 25.7 3.3 36 165-202 87-122 (181)
72 PF05402 PqqD: Coenzyme PQQ sy 22.6 1.6E+02 0.0034 19.5 3.8 31 170-200 32-62 (68)
73 PF02970 TBCA: Tubulin binding 21.3 2.4E+02 0.0052 20.5 4.7 59 146-207 4-68 (90)
74 PF06883 RNA_pol_Rpa2_4: RNA p 21.3 31 0.00067 23.2 -0.1 32 18-49 3-34 (58)
75 PRK02304 adenine phosphoribosy 21.1 50 0.0011 26.9 1.2 22 8-29 117-138 (175)
76 TIGR01090 apt adenine phosphor 21.1 46 0.00099 27.0 0.9 22 8-29 112-133 (169)
77 PRK07322 adenine phosphoribosy 21.0 46 0.001 27.3 0.9 22 7-28 122-143 (178)
78 smart00195 DSPc Dual specifici 20.8 84 0.0018 24.0 2.4 22 172-193 94-116 (138)
79 TIGR00327 secE_euk_arch protei 20.7 1.5E+02 0.0032 20.2 3.2 21 98-118 21-41 (61)
80 PF12668 DUF3791: Protein of u 20.6 96 0.0021 20.7 2.3 23 172-194 6-28 (62)
No 1
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=100.00 E-value=4.1e-69 Score=516.61 Aligned_cols=255 Identities=52% Similarity=0.895 Sum_probs=250.1
Q ss_pred CceeeeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHH
Q 025046 1 MTKTIYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKM 80 (258)
Q Consensus 1 ~tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~ 80 (258)
+||+++|+|++||+||.|||++||+.||+||+|||.++++++|+|||+||.++++++++++.++.++++++++.|++++|
T Consensus 286 ~aK~~~l~~~iDD~fD~~gt~eEl~~ft~ai~rwd~~~~~~lPe~mk~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~ 365 (542)
T cd00684 286 LAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKALLNTVNEIEEELLKEGGSYVVPYLKEAW 365 (542)
T ss_pred HHHHHHHHhhhHhhhccCCCHHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999989999999999
Q ss_pred HHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccc
Q 025046 81 QELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVS 160 (258)
Q Consensus 81 ~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S 160 (258)
++++++|++||+|+++|++||++|||++|.+|+|++++++++++++|+.+|+++++|+..+|+|+++++.++||+|||.|
T Consensus 366 ~~~~~a~l~EA~w~~~g~vPt~eEYl~~~~~S~g~~~~~~~~~~~~g~~l~~e~~e~~~~~~~l~~~~~~i~rL~NDi~S 445 (542)
T cd00684 366 KDLVKAYLVEAKWAHEGYVPTFEEYMENALVSIGLGPLLLTSFLGMGDILTEEAFEWLESRPKLVRASSTIGRLMNDIAT 445 (542)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHhhhhHHhhHHHHHHHHHHhcCCCCCHHHHHHHhccHHHHHHHHHHHHHhcChhh
Confidence 99999999999999999999999999999999999999999999999999999999987779999999999999999999
Q ss_pred hhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCC-CCCcHHHHHHHHHhhhhhhhhhccCCCCC
Q 025046 161 HQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLRP-TAFPVALIERPFNIARVLEFLYKKGDCYT 239 (258)
Q Consensus 161 ~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~~-~~~p~~~~~~~~n~~R~~~~~Y~~~D~~t 239 (258)
|++|+++|+++|+|.|||+|+|+|+|||+++++++++++||++|++++++ +++|++|+++++|++|+++++|+++||||
T Consensus 446 ~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~~~p~~~~~~~~n~~r~~~~~Y~~~D~~t 525 (542)
T cd00684 446 YEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKPSSDVPRPIKQRFLNLARVIDVFYKEGDGFT 525 (542)
T ss_pred hHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 99999999999999999999999999999999999999999999999997 78999999999999999999999999999
Q ss_pred Cc-HHHHHHHHHhcccc
Q 025046 240 HS-HAIKDQIAAVLRDP 255 (258)
Q Consensus 240 ~~-~~~k~~i~~l~~~p 255 (258)
.| +.+|++|++||++|
T Consensus 526 ~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 526 HPEGEIKDHITSLLFEP 542 (542)
T ss_pred CccHHHHHHHHHHhcCC
Confidence 99 78999999999998
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=7.5e-69 Score=526.20 Aligned_cols=255 Identities=22% Similarity=0.349 Sum_probs=243.8
Q ss_pred CceeeeehheecccccCCCCHHHHHHHHHHHHhccCc-ccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHH
Q 025046 1 MTKTIYMASIIDDTFDAYGFFEELKLFVEAVQRWDIG-AMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEK 79 (258)
Q Consensus 1 ~tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~-~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~ 79 (258)
+||++++++++||+||+|||+|||+.||+||+|||.+ .++.+|+|||+||.+++++++|++.++.+.+|+++++|++++
T Consensus 519 ~aK~~~L~tviDD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~~~~~qGr~v~~~l~~a 598 (784)
T PLN02279 519 WAKNGVLTTVVDDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDKAFTWQGRNVTSHIIKI 598 (784)
T ss_pred HHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHH
Confidence 4899999999999999999999999999999999998 569999999999999999999999998766667999999999
Q ss_pred HHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCcc
Q 025046 80 MQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIV 159 (258)
Q Consensus 80 ~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 159 (258)
|++++++|++||+|+.+||+||++|||+++.+|+|+.+++..+++++|..+|+++++| +++|+|+++++.++||+|||+
T Consensus 599 W~~ll~ayl~EAeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~-~~~~~L~~l~s~I~RLlNDI~ 677 (784)
T PLN02279 599 WLDLLKSMLTEAQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDS-PELHKLYKLMSTCGRLLNDIR 677 (784)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhC-cchhHHHHHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999988888888999999999999 699999999999999999999
Q ss_pred chhhhhhcCcccchhhhhhhcC--CCCHHHHHHHHHHHHHHHHHHHHHhhcCC--CCCcHHHHHHHHHhhhhhhhhhccC
Q 025046 160 SHQFEQKRGHVTTGVECYCKQH--GVSEEEVVKVFTEEVENAWKDMNEEFLRP--TAFPVALIERPFNIARVLEFLYKKG 235 (258)
Q Consensus 160 S~~~E~~~g~~~n~V~~ym~e~--g~s~eeA~~~i~~~i~~~~k~ln~e~l~~--~~~p~~~~~~~~n~~R~~~~~Y~~~ 235 (258)
||++|+++|++ |+|+|||+|+ |+|+|||+++++++|+++||+||++++++ +.+|++|+++++|++|++++||+++
T Consensus 678 S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~~~~vp~~~~~~~ln~aR~~~~~Y~~~ 756 (784)
T PLN02279 678 GFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEKGSNVPRECKDLFWKMSKVLHLFYRKD 756 (784)
T ss_pred ccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHhhhhheeCC
Confidence 99999999998 9999999997 89999999999999999999999999963 5799999999999999999999999
Q ss_pred CCCCCcHHHHHHHHHhcccccCC
Q 025046 236 DCYTHSHAIKDQIAAVLRDPVTI 258 (258)
Q Consensus 236 D~~t~~~~~k~~i~~l~~~p~~~ 258 (258)
||||.+ .||++|++||++||++
T Consensus 757 Dgyt~~-~~k~~i~~ll~ePi~l 778 (784)
T PLN02279 757 DGFTSN-DMMSLVKSVIYEPVSL 778 (784)
T ss_pred CCCChH-HHHHHHHHHhccCCcC
Confidence 999975 7999999999999984
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=6.9e-43 Score=309.00 Aligned_cols=232 Identities=51% Similarity=0.846 Sum_probs=217.7
Q ss_pred CceeeeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHH
Q 025046 1 MTKTIYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKM 80 (258)
Q Consensus 1 ~tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~ 80 (258)
+||+++|+|++||+||.+|+.++++.++++++||+....+.+|+++++++.++.++++++...+.+.++.....++++.|
T Consensus 52 ~a~~~~~~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~r~~~~~ 131 (284)
T cd00868 52 LAKTIALLTVIDDTYDDYGTLEELELFTEAVERWDISAIDELPEYMKPVFKALYDLVNEIEEELAKEGGSESLPYLKEAW 131 (284)
T ss_pred HHHHHHHHHHHHhccccCCCHHHHHHHHHHHHhcChhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHH
Confidence 47899999999999999999999999999999999998999999999999999999999999998877778889999999
Q ss_pred HHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccc
Q 025046 81 QELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVS 160 (258)
Q Consensus 81 ~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S 160 (258)
.++++++.+|++|+..|++||++||+++|+.|+|+.+++.++++++|..+|++.+.+.+..+++++.++.+++|+||++|
T Consensus 132 ~~~~~~~~~e~~~~~~~~~p~~~eYl~~R~~~~g~~~~~~l~~~~~g~~l~~~~~~~~~~~~~l~~~~~~~~~l~NDl~S 211 (284)
T cd00868 132 KDLLRAYLVEAKWANEGYVPSFEEYLENRRVSIGYPPLLALSFLGMGDILPEEAFEWLPSYPKLVRASSTIGRLLNDIAS 211 (284)
T ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHhceehhhHHHHHHHHHHHcCCCCCHHHHHHhhhhHHHHHHHHHHHHHhccchH
Confidence 99999999999999999999999999999999999999999999999999984444458889999999999999999999
Q ss_pred hhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCC-CCCcHHHHHHHHHhhhhhhhhh
Q 025046 161 HQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLRP-TAFPVALIERPFNIARVLEFLY 232 (258)
Q Consensus 161 ~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~~-~~~p~~~~~~~~n~~R~~~~~Y 232 (258)
|+||+.+|+.+|+|.|||+++|+|.|+|++++.++++++|+++++...+. ++.|+.+++.+.|.+|.....|
T Consensus 212 ~~kE~~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 212 YEKEIARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEEVLKLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred HHHHHccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 99999999999999999999999999999999999999999999999874 3678999999999999876654
No 4
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=100.00 E-value=2.1e-39 Score=284.78 Aligned_cols=204 Identities=27% Similarity=0.414 Sum_probs=187.0
Q ss_pred CceeeeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhC-CCcchhhhHHH
Q 025046 1 MTKTIYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEG-RSSYLRYDKEK 79 (258)
Q Consensus 1 ~tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~-~~~~~~~~~~~ 79 (258)
+||+++|+|++||+||..|+.++++.|+++++||+....+.+|++.++++.++.++++++...+.+.+ +.+..++++++
T Consensus 66 ~a~~~~w~f~~DD~~D~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~r~~~~~~~~~~~~~~~~~~~~~ 145 (270)
T PF03936_consen 66 AADWMAWLFIFDDFFDDGGSAEELEALTDAVERWDPNSGDPLPDPDKPLFRALADIWNRIAARMSPAQRRRDQIKRFRNS 145 (270)
T ss_dssp HHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHTSSGGGGGSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhchheeeeeeccccccchHHHHHHHHHHhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhcccHHhhHHHHH
Confidence 37899999999999999999999999999999999888889999999999999999999998887643 32356789999
Q ss_pred HHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCcc
Q 025046 80 MQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIV 159 (258)
Q Consensus 80 ~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 159 (258)
|.+|++++++|++|+..|++||++||+++|+.|+|+++++.+..+++|..+++...+++...|.+.++++.+++|+|||.
T Consensus 146 ~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~NDl~ 225 (270)
T PF03936_consen 146 WREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALIEFALEFALGELPPEVLEHPPMLRRLAADIIRLVNDLY 225 (270)
T ss_dssp HHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHHHHHCSSCHTHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHHHHhCCCccccccHHHHHhchHHHHHHHHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999988777776666666666779999999999999999
Q ss_pred chhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 025046 160 SHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMN 204 (258)
Q Consensus 160 S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln 204 (258)
||+||+++|+.+|+|.|+|+++|+|.|+|++++.+++++++++||
T Consensus 226 S~~KE~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 226 SYKKEIARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhcchhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999998
No 5
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=1.8e-38 Score=310.94 Aligned_cols=217 Identities=17% Similarity=0.164 Sum_probs=191.7
Q ss_pred CceeeeehheecccccCCCCHHHHHHHHHHHH--------hccCcccCCCCh------hHHHHHHHHHHHHHHHHHHHHH
Q 025046 1 MTKTIYMASIIDDTFDAYGFFEELKLFVEAVQ--------RWDIGAMDILPE------YMKVLYKALLDTYNEVEQDLAK 66 (258)
Q Consensus 1 ~tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~--------rWd~~~~~~lp~------~~k~~~~al~~~~~ei~~~~~~ 66 (258)
+||++++++++||+||+|||+|||++||++|+ |||.+++++||+ |||+||.|++++.||++.++.+
T Consensus 567 ~aK~~~LitviDD~fD~yGt~eEl~~ft~~v~~~~~~~~~rWd~~~~~~lp~~~~~~~~mki~f~aLy~tineia~~a~~ 646 (800)
T PLN02592 567 WAKTTVLVEAISSYFNKETSSKQRRAFLHEFGYGYKINGRRSDHHFNDRNMRRSGSVKTGEELVGLLLGTLNQLSLDALE 646 (800)
T ss_pred HHHHHHHHHhhcccccCCCCHHHHHHHHHHHHhcccccccccCchhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999999999999999997 899999999988 9999999999999999999999
Q ss_pred hCCCcchhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHh-hcCCcCChhHHhhhccchHHH
Q 025046 67 EGRSSYLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFL-GMCEVANKEAFEWISKNPKIS 145 (258)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~-~~g~~l~~e~~~~~~~~~~l~ 145 (258)
.||+++.+|++++|.++++ +|..+|+ +|+|.+.++...++ .+|..+|+++++ +|++.
T Consensus 647 ~qGr~v~~~L~~~W~~l~~------~w~~~g~------------~s~~~~~ilv~~~~l~~g~~lsee~l~----~~~~~ 704 (800)
T PLN02592 647 AHGRDISHLLRHAWEMWLL------KWLLEGD------------GRQGEAELLVKTINLTAGRSLSEELLA----HPQYE 704 (800)
T ss_pred HhCccHHHHHHHHHHHHHH------HHHhcCc------------eeccchhhHHHHHHHhcCCCCCHHHcc----chhHH
Confidence 8999999999999999999 5666665 44566666666666 559999999876 58999
Q ss_pred HHHHhHHHHhcCccchhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcC-C-CCCcHHHHHHHHH
Q 025046 146 RASSVISRLMNDIVSHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLR-P-TAFPVALIERPFN 223 (258)
Q Consensus 146 ~~~~~i~rL~NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~-~-~~~p~~~~~~~~n 223 (258)
+.++.+.||+||+.|+++|+.. ..++|+ +|.+++.+.|+.+++++.+.+++ . +.+|++|++.+|+
T Consensus 705 ~l~~li~Rl~nDl~t~~~e~~~------------~~~~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~vp~~cK~~f~~ 771 (800)
T PLN02592 705 QLAQLTNRICYQLGHYKKNKVH------------INTYNP-EEKSKTTPSIESDMQELVQLVLQNSSDDIDPVIKQTFLM 771 (800)
T ss_pred HHHHHHHHHHHhhhHHhhhccc------------CCcccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Confidence 9999999999999999998841 112455 89999999999999999999997 3 4699999999999
Q ss_pred hhhhhhhhhccCCCCCCcHHHHHHHHHhcccccC
Q 025046 224 IARVLEFLYKKGDCYTHSHAIKDQIAAVLRDPVT 257 (258)
Q Consensus 224 ~~R~~~~~Y~~~D~~t~~~~~k~~i~~l~~~p~~ 257 (258)
++| +||.. ||+.|.+|++||.+++++||+
T Consensus 772 ~~k---~fy~~--~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 772 VAK---SFYYA--AYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHH---HHHHh--hcCCHHHHHHHHHHHhCCCCC
Confidence 999 45665 999998999999999999985
No 6
>PLN02150 terpene synthase/cyclase family protein
Probab=100.00 E-value=1.5e-35 Score=221.75 Aligned_cols=94 Identities=35% Similarity=0.674 Sum_probs=91.3
Q ss_pred hhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHhhhhhhhh-hccCCCCCCc-H
Q 025046 165 QKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNIARVLEFL-YKKGDCYTHS-H 242 (258)
Q Consensus 165 ~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~~R~~~~~-Y~~~D~~t~~-~ 242 (258)
|+|||++|+|+|||||||+|+|||+++++++|+++||+||+|+++++++|.+++++++|+||+++++ |+++||||.+ .
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~t~~~~ 80 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIKDVPRPVLVRCLNLARLIDVYCYNEGDGFTYPHG 80 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHhheecCCCCCCCCcH
Confidence 5789999999999999999999999999999999999999999999899999999999999999999 9999999988 7
Q ss_pred HHHHHHHHhcccccCC
Q 025046 243 AIKDQIAAVLRDPVTI 258 (258)
Q Consensus 243 ~~k~~i~~l~~~p~~~ 258 (258)
.+|++|++||++|||+
T Consensus 81 ~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 81 KLKDLITSLFFHPLPL 96 (96)
T ss_pred HHHHHHHHHhccCCCC
Confidence 8999999999999986
No 7
>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=1.4e-34 Score=259.19 Aligned_cols=202 Identities=18% Similarity=0.077 Sum_probs=179.8
Q ss_pred ceeeeehheecccccCC-CCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHH
Q 025046 2 TKTIYMASIIDDTFDAY-GFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKM 80 (258)
Q Consensus 2 tK~~~~~~~~DD~~D~~-gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~ 80 (258)
++++.|+|++||+||.. +++++++.+++.+.++.......-|....++.+++.+++.++...+.+ ...+++++.|
T Consensus 63 ~~~~~w~f~~DD~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~d~~~r~~~~~~~----~~~~r~~~~~ 138 (303)
T cd00687 63 ADLMAWLFVFDDLLDRDQKSPEDGEAGVTRLLDILRGDGLDSPDDATPLEFGLADLWRRTLARMSA----EWFNRFAHYT 138 (303)
T ss_pred HHHHHHHHHhcccCCccccCHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHHHHhccCCCH----HHHHHHHHHH
Confidence 57889999999999987 599999999999998655422211578889999999999999876533 2357899999
Q ss_pred HHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccc
Q 025046 81 QELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVS 160 (258)
Q Consensus 81 ~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S 160 (258)
.+|+.++++|++|+.+|++||++||+++|+.|+|+.+++.+.++++|..+|+++.+. +...++.++++.+++|+|||+|
T Consensus 139 ~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l~~~~~g~~lp~~~~~~-~~~~~l~~~~~~~~~l~NDl~S 217 (303)
T cd00687 139 EDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGLSEFIGGPEVPAAVRLD-PVMRALEALASDAIALVNDIYS 217 (303)
T ss_pred HHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHHHHHhcCCCCCHHHHhC-hHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999998876 5566799999999999999999
Q ss_pred hhhhh-hcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc
Q 025046 161 HQFEQ-KRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFL 208 (258)
Q Consensus 161 ~~~E~-~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l 208 (258)
|+||+ +.|+.+|+|.|+|+++|+|.|+|++++.++++++++++.+..-
T Consensus 218 ~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f~~~~~ 266 (303)
T cd00687 218 YEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQFEELEA 266 (303)
T ss_pred hHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999 8899999999999999999999999999999999988876543
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=99.85 E-value=1.2e-21 Score=166.39 Aligned_cols=211 Identities=27% Similarity=0.318 Sum_probs=168.0
Q ss_pred ceeeeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHH
Q 025046 2 TKTIYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQ 81 (258)
Q Consensus 2 tK~~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~ 81 (258)
+++..+++++||++|..++..+.......+ .....|..+...+..+.+.++++..... .....++.+.|.
T Consensus 20 ~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~ 89 (243)
T cd00385 20 EKLHAASLVHDDIVDDSGTRRGLPTAHLAV------AIDGLPEAILAGDLLLADAFEELAREGS----PEALEILAEALL 89 (243)
T ss_pred HHHHHHHHHHhhcccCCCCCCCchhhhhhH------HhcCchHHHHHHHHHHHHHHHHHHhCCC----HHHHHHHHHHHH
Confidence 567789999999999888776665554433 2345678888888999999998875432 234678999999
Q ss_pred HHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccch
Q 025046 82 ELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSH 161 (258)
Q Consensus 82 ~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~ 161 (258)
+++.++.+|+.|+.. +.||++||++++..++| .++..+...+++...++ ..+.+...++....+.+.+|.||+.|+
T Consensus 90 ~~~~g~~~d~~~~~~-~~~t~~ey~~~~~~~t~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~g~~~ql~nDl~~~ 165 (243)
T cd00385 90 DLLEGQLLDLKWRRE-YVPTLEEYLEYCRYKTA-GLVGALCLLGAGLSGGE--AELLEALRKLGRALGLAFQLTNDLLDY 165 (243)
T ss_pred HHHHHHHHHHHhccC-CCCCHHHHHHHHHHhHH-HHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999876 88999999999999984 44445555666666665 333355677889999999999999999
Q ss_pred hhhhhcC-cccchhhhhhhcCCC------------CHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHhhh
Q 025046 162 QFEQKRG-HVTTGVECYCKQHGV------------SEEEVVKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNIAR 226 (258)
Q Consensus 162 ~~E~~~g-~~~n~V~~ym~e~g~------------s~eeA~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~~R 226 (258)
.+|.++| +..|++.++|+++|+ +.++|.+++.++++++++++++.....+..+..+++.+.+++|
T Consensus 166 ~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (243)
T cd00385 166 EGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLPDVPRALLALALNLYR 243 (243)
T ss_pred cCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhC
Confidence 9999986 668999999999999 8899999999999999999988776533456677777777653
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=98.21 E-value=3.4e-05 Score=69.54 Aligned_cols=180 Identities=15% Similarity=0.063 Sum_probs=111.3
Q ss_pred eeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHHH
Q 025046 5 IYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQELV 84 (258)
Q Consensus 5 ~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~ 84 (258)
.+.++++||.=|... +.++.|.+-+.. ...- + .|+.+.+.+.+..+.+. -|++.-.-+.++--+++
T Consensus 93 ~tY~~~lDD~~~e~~--~~m~~f~~dL~~--G~~q----k--hP~l~~v~~~l~~~lr~----fGpF~s~~IikSTLdFv 158 (357)
T cd00686 93 YTYTLVLDDSKDDPY--PTMVNYFDDLQA--GREQ----A--HPWWALVNEHFPNVLRH----FGPFCSLNLIRSTLDFF 158 (357)
T ss_pred HheeeEecccccccc--hHHHHHHHHHhc--CCCC----C--CcHHHHHHHHHHHHHHH----hhhhhHHHHHHHHHHHH
Confidence 456789999976544 567777766653 1111 1 14434444444433322 23344456677888999
Q ss_pred HHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHH---HhHHHHhcCccch
Q 025046 85 QMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRAS---SVISRLMNDIVSH 161 (258)
Q Consensus 85 ~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~---~~i~rL~NDi~S~ 161 (258)
.+..-|... .+.-|.-.+|-...+.=+|..-..+.+. -|++.|.-...+..+..+. ....-++|||.||
T Consensus 159 ~g~~iEq~n--f~~~p~A~~fP~ylR~ksGl~E~yA~Fi------FPk~~FpE~~~~~qi~~AIp~~~~~i~~~NDILSF 230 (357)
T cd00686 159 EGCWIEQYN--FGGFPGSHDYPQFLRRMNGLGHCVGASL------WPKEQFNERSLFLEITSAIAQMENWMVWVNDLMSF 230 (357)
T ss_pred HHHHHhhhc--cCCCCCCcccchHHHhccCCcceeEEEe------cchhhCchHhhHHHhhHHHHHHHHHHHhhhhhhhe
Confidence 999999763 3446766666666666666554433222 2443332211122222233 3455689999999
Q ss_pred hhhhhc-CcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 025046 162 QFEQKR-GHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEE 206 (258)
Q Consensus 162 ~~E~~~-g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e 206 (258)
=||--. ++..|.|.-|.+.||+|..+|++.+.+-.-.+-+++.+-
T Consensus 231 YKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~V 276 (357)
T cd00686 231 YKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAV 276 (357)
T ss_pred ehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 998754 556788888888999999999998887777777777554
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=97.97 E-value=3.8e-05 Score=70.15 Aligned_cols=184 Identities=14% Similarity=0.078 Sum_probs=105.2
Q ss_pred eeehheecccccCCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHHH
Q 025046 5 IYMASIIDDTFDAYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQELV 84 (258)
Q Consensus 5 ~~~~~~~DD~~D~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~ 84 (258)
.++++.+||.++.. .++++.|.+.+-. .+. ++ .++..++.+.+.++ .+.-++.+-+-+.++--+++
T Consensus 93 T~yvi~iDD~~~~~--~~~l~~F~~~l~~--Gq~----Q~--~p~L~~~~~~L~~~----~~~fgpf~anmI~~STLdFi 158 (376)
T PF06330_consen 93 TTYVIIIDDSSQEP--SDDLRTFHQRLIL--GQP----QK--HPLLDGFASLLREM----WRHFGPFCANMIVKSTLDFI 158 (376)
T ss_dssp HHHHHHHTT--S-S--HHHHTTHHHHHHH--T-------S--SHHHHHHHHHHHHH----HTTS-HHHHHHHHHHHHHHH
T ss_pred HHHHHhcccccccc--cHHHHHHHHHHhc--CCC----CC--CHHHHHHHHHHHHH----HHHcchHHHHHHHHHHHHHH
Confidence 45788999998765 4777888776653 111 11 14444444444443 33334455567788888999
Q ss_pred HHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchhhh
Q 025046 85 QMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQFE 164 (258)
Q Consensus 85 ~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~E 164 (258)
.+...|++.. .-.|.-..|-...+.=+|.....+.+.+ -....|+... ...+-..+--....+-++|||.||=||
T Consensus 159 ~g~~LE~~~f--~~~p~A~~FP~fLR~ktGlsEaYA~FiF-Pk~~fpe~~~--~~~y~~AIpdl~~fi~~~NDILSFYKE 233 (376)
T PF06330_consen 159 NGCWLEQKNF--HGSPGAPDFPDFLRRKTGLSEAYAFFIF-PKALFPEVEY--FIQYTPAIPDLMRFINYVNDILSFYKE 233 (376)
T ss_dssp HHHHHHTTT------TT-TTHHHHHHHHHH-HHHHHHHT---TTTS-TTTT--HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhcccC--CCCCCCccccHHHHhccCcchhheeeec-ccccCChHHH--HHHHHHHHHHHHHHHHhhhhHHHHHHh
Confidence 9999997642 2235433444444555555555444332 1222332211 111112333444556699999999999
Q ss_pred hh-cCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 025046 165 QK-RGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEF 207 (258)
Q Consensus 165 ~~-~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~ 207 (258)
.- .|+..|.|.-+-.-+|+|.-+|...+.+-.-++-+++.+-.
T Consensus 234 ~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~vL 277 (376)
T PF06330_consen 234 ELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRVL 277 (376)
T ss_dssp HTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 76 78889999878877899999999998777777766665543
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=94.54 E-value=0.56 Score=40.02 Aligned_cols=117 Identities=19% Similarity=0.183 Sum_probs=74.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccc-cccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhH
Q 025046 73 LRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLV-SGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVI 151 (258)
Q Consensus 73 ~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~-s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 151 (258)
...+.+....++.+...+..|... ..||.++|+++... |.+..-..+......+. -+++..+. ..++-+..+..
T Consensus 87 ~~~~~~~~~~~~~Gq~~Dl~~~~~-~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~lG~a 161 (236)
T cd00867 87 LELFAEALRELLEGQALDLEFERD-TYETLDEYLEYCRYKTAGLVGLLCLLGAGLSG-ADDEQAEA---LKDYGRALGLA 161 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccC-CCCCHHHHHHHHHhccHHHHHHHHHHHHHHcC-cCHHHHHH---HHHHHHHHHHH
Confidence 455677788999999999888544 57899999999887 65554333222222222 22222222 24567788889
Q ss_pred HHHhcCccchhhhh----------hcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 025046 152 SRLMNDIVSHQFEQ----------KRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNE 205 (258)
Q Consensus 152 ~rL~NDi~S~~~E~----------~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~ 205 (258)
..+.||+..+.... ++|.. +....++ .+.+.+..+++++.+..
T Consensus 162 ~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 162 FQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 99999999886644 44543 5444455 55666666666655543
No 12
>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=90.30 E-value=11 Score=34.28 Aligned_cols=87 Identities=7% Similarity=0.056 Sum_probs=54.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhH
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVI 151 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 151 (258)
....+.+....++.+-+.+..+.. +..+|.++|++.-..=+|.-+..++..-++--..+++..+.+ .++-+.....
T Consensus 134 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l---~~~G~~lG~a 209 (322)
T TIGR02749 134 VVKLISKVITDFAEGEIKQGLNQF-DSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDL---YEYGKHLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccc-CCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHHH
Confidence 355666777788888877777643 345799999987665555444322221111112344444433 4567788889
Q ss_pred HHHhcCccchh
Q 025046 152 SRLMNDIVSHQ 162 (258)
Q Consensus 152 ~rL~NDi~S~~ 162 (258)
.-+.||+..+.
T Consensus 210 FQi~DDild~~ 220 (322)
T TIGR02749 210 FQVVDDILDFT 220 (322)
T ss_pred HHHHHHhccCC
Confidence 99999998875
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=90.24 E-value=3.1 Score=36.32 Aligned_cols=157 Identities=20% Similarity=0.173 Sum_probs=82.6
Q ss_pred ehheecccccCCCCHH----HHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHH
Q 025046 7 MASIIDDTFDAYGFFE----ELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQE 82 (258)
Q Consensus 7 ~~~~~DD~~D~~gt~~----El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~ 82 (258)
|.-.+||+-|...... .|+-+-+++++.-....+..+....++..++..+..+.. --++.+.+
T Consensus 29 f~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~~~~~~~~~~~~~pv~~~l~~~~~~~~-------------l~~~~l~~ 95 (267)
T PF00494_consen 29 FCRELDDIVDEPSDPEEARARLQWWRDALNSIFASYEDSLPEPSHPVARALADLVRRYG-------------LPREPLLE 95 (267)
T ss_dssp HHHHHHHHHHCTSS-HSCHHHHHHHHHHHHHHHH-TSTHHHSSHHHHHHHHHHHHCCSH-------------HHHHHHHH
T ss_pred HHHHHhhccccchhhHHHHHHHHHHHHHHHHHhhhhhhccCCCcCHHHHHHHHHHHHHh-------------hhHHHHHH
Confidence 3445677777655322 355555555543221112234445567666665553322 23455677
Q ss_pred HHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCCh-hHHhhhccchHHHHHHHhHHHHhcCccch
Q 025046 83 LVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANK-EAFEWISKNPKISRASSVISRLMNDIVSH 161 (258)
Q Consensus 83 ~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~-e~~~~~~~~~~l~~~~~~i~rL~NDi~S~ 161 (258)
+++++.+. ......+|++|+..+...+.|....+.+..++..+ ++ +..+ .....+...-+.|=+...
T Consensus 96 li~~~~~d---l~~~~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~~--~~~~~~~-------~a~~lG~alql~nilRd~ 163 (267)
T PF00494_consen 96 LIDGMEMD---LEFTPYETFADLERYCYYVAGSVGLLLLQLLGAHD--PDEAARD-------AARALGRALQLTNILRDI 163 (267)
T ss_dssp HHHHHHHC---TT-S--SSHHHHHHHHHHHTHHHHHHHHHHHHSST--SHHHHHH-------HHHHHHHHHHHHHHHHTH
T ss_pred HHHHhccc---ccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc--chhhHHH-------HHHHHHHHHHHHHHHHHh
Confidence 77777433 33345789999998888888877666655555421 22 2222 234444444444444444
Q ss_pred hhh-hhcCcccchh-hhhhhcCCCCHHHHHH
Q 025046 162 QFE-QKRGHVTTGV-ECYCKQHGVSEEEVVK 190 (258)
Q Consensus 162 ~~E-~~~g~~~n~V-~~ym~e~g~s~eeA~~ 190 (258)
... ..+|.+ .+ .=.|.+||+|.++-.+
T Consensus 164 ~~D~~~~gR~--ylP~d~l~~~gv~~~dl~~ 192 (267)
T PF00494_consen 164 PEDALRRGRI--YLPLDDLRRFGVTPEDLLA 192 (267)
T ss_dssp HHH-HHTT-----S-HHHHHHTTSSHHHHHH
T ss_pred HHHHHhcccc--cCCchhHHHcCCCHHHHHh
Confidence 566 556653 22 1257889999886543
No 14
>PLN02857 octaprenyl-diphosphate synthase
Probab=88.84 E-value=10 Score=35.89 Aligned_cols=88 Identities=10% Similarity=0.083 Sum_probs=55.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhH
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVI 151 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 151 (258)
....+.+...+++.+-+.+..+.. +..+|.++|++....=+|.-+..++..-++--..+++..+.+ .++-+...+.
T Consensus 228 ~~~~~s~~~~~l~~Gei~q~~~~~-~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l---~~fG~~LGiA 303 (416)
T PLN02857 228 VIKLISQVIKDFASGEIKQASSLF-DCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQM---YEYGKNLGLA 303 (416)
T ss_pred HHHHHHHHHHHHHhhHHHHHhccc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHHHHH
Confidence 345566677777888777777654 445799999998766555544322211111112344544433 5566788888
Q ss_pred HHHhcCccchhh
Q 025046 152 SRLMNDIVSHQF 163 (258)
Q Consensus 152 ~rL~NDi~S~~~ 163 (258)
.-+.||+..+..
T Consensus 304 FQI~DDiLD~~~ 315 (416)
T PLN02857 304 FQVVDDILDFTQ 315 (416)
T ss_pred HHHHHHHHhhcC
Confidence 999999998763
No 15
>PLN02890 geranyl diphosphate synthase
Probab=88.34 E-value=11 Score=35.62 Aligned_cols=89 Identities=10% Similarity=0.030 Sum_probs=58.7
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHh
Q 025046 71 SYLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSV 150 (258)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~ 150 (258)
..+..+.+....++.+-+.+..|.. +..+|.++|++....-+|.-+..++..-++--..+++..+.+ ..+-+...+
T Consensus 227 ~~~~~~s~a~~~l~~Gq~ld~~~~~-~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l---~~fG~~lGl 302 (422)
T PLN02890 227 EVVSLLATAVEHLVTGETMQITSSR-EQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLA---FEYGRNLGL 302 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHH---HHHHHHHHH
Confidence 3456778888899999999988864 456899999987665555544332222111112345544443 456678888
Q ss_pred HHHHhcCccchhh
Q 025046 151 ISRLMNDIVSHQF 163 (258)
Q Consensus 151 i~rL~NDi~S~~~ 163 (258)
..-+.||+..|.-
T Consensus 303 AFQI~DDiLD~~g 315 (422)
T PLN02890 303 AFQLIDDVLDFTG 315 (422)
T ss_pred HHHHHHHHHhhcC
Confidence 8899999998864
No 16
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX
Probab=86.74 E-value=6.8 Score=34.19 Aligned_cols=120 Identities=18% Similarity=0.101 Sum_probs=73.6
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhH
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVI 151 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 151 (258)
....+.+.+...+.+-..+..|... ..||.++|++....-+|.....+....++--..+++..+- ..++-+.....
T Consensus 109 ~~~~~~~~~~~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~---l~~~g~~lG~a 184 (259)
T cd00685 109 ALELFSEAILELVEGQLLDLLSEYD-TDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEA---LKRFGRNLGLA 184 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHH
Confidence 4556677778888888888888654 5799999999987766666443332222111113333332 25577788888
Q ss_pred HHHhcCccchhhhh-----------hcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 025046 152 SRLMNDIVSHQFEQ-----------KRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNE 205 (258)
Q Consensus 152 ~rL~NDi~S~~~E~-----------~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~ 205 (258)
.-+.||+..+.... ..|.. |..-++.. .+.+...++++++.+..
T Consensus 185 fQi~DD~ld~~~~~~~~gK~~~~Di~~gk~-T~~~~~~l---------~~~~~~~~~~a~~~l~~ 239 (259)
T cd00685 185 FQIQDDILDLFGDPETLGKPVGSDLREGKC-TLPVLLAL---------RELAREYEEKALEALKA 239 (259)
T ss_pred HHHHHHhhcccCChHHHCCCcchHHHcCCc-hHHHHHHH---------HHHHHHHHHHHHHHHHc
Confidence 89999988775432 12322 44434433 55666677777766543
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=86.56 E-value=21 Score=31.19 Aligned_cols=185 Identities=15% Similarity=0.106 Sum_probs=88.5
Q ss_pred hheecccccCCCCHH----HHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFE----ELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQEL 83 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~----El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~ 83 (258)
.-.+||+=|..++++ .|+-+-+++..-. ..-| -.++..++.+++.+. + --+..+.++
T Consensus 30 ~r~~d~i~D~~~~~~~~~~~L~~w~~~l~~~~----~g~~--~~pv~~al~~~~~~~--------~-----l~~~~~~~l 90 (266)
T TIGR03465 30 CREVDDIVDEDSDPEVAQAKLAWWRAEIDRLY----AGAP--SHPVARALADPARRF--------D-----LPQEDFLEV 90 (266)
T ss_pred HHHHHhhhcCCCCchHHHHHHHHHHHHHHHHh----CCCC--CChHHHHHHHHHHHc--------C-----CCHHHHHHH
Confidence 345788888754433 3333333333211 1112 236666665554331 1 123456777
Q ss_pred HHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchhh
Q 025046 84 VQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQF 163 (258)
Q Consensus 84 ~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~ 163 (258)
++++.+.. .....+|++|+..+...+.|.-..+++..++.. ++.... .....+...-|.|=+.....
T Consensus 91 i~g~~~Dl---~~~~~~t~~dL~~Y~~~vAg~vg~l~~~llg~~---~~~~~~-------~a~~lG~AlqltnilRdv~e 157 (266)
T TIGR03465 91 IDGMEMDL---EQTRYPDFAELDLYCDRVAGAVGRLSARIFGAT---DARTLE-------YAHHLGRALQLTNILRDVGE 157 (266)
T ss_pred HHHHHHHc---CCCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC---ChhHHH-------HHHHHHHHHHHHHHHHHhHH
Confidence 77774333 334567999888877766665555444444321 122222 22222333333332222234
Q ss_pred hhhcCcccchhhhhhhcCCCCHHH---------HHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHhh
Q 025046 164 EQKRGHVTTGVECYCKQHGVSEEE---------VVKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNIA 225 (258)
Q Consensus 164 E~~~g~~~n~V~~ym~e~g~s~ee---------A~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~~ 225 (258)
..++|.+ -.=.=.|.++|+|.++ ..+-+..+++.+...+.+..-.-..+|......++-.+
T Consensus 158 D~~~gR~-ylP~~~l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~~p~~~~~~~~~~~ 227 (266)
T TIGR03465 158 DARRGRI-YLPAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQRAARAMA 227 (266)
T ss_pred HHhCCCe-ecCHHHHHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhCCHhhhHHHHHHH
Confidence 4556654 1112246788988763 34445556666655444433223457764444444333
No 18
>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=85.91 E-value=27 Score=31.65 Aligned_cols=87 Identities=13% Similarity=0.026 Sum_probs=55.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhc-CCcCChhHHhhhccchHHHHHHHh
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGM-CEVANKEAFEWISKNPKISRASSV 150 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~-g~~l~~e~~~~~~~~~~l~~~~~~ 150 (258)
.+..+.+.....+.+-..+..|.. +..+|.++|++.-..-+|.-+..++ ..|. --..+++..+.+ .++-+...+
T Consensus 130 ~~~~~~~~~~~~~~Gq~~~~~~~~-~~~~~~~~Y~~~i~~KTa~L~~~~~-~~ga~~ag~~~~~~~~l---~~~g~~lG~ 204 (319)
T TIGR02748 130 AHQILSHTIVEVCRGEIEQIKDKY-NFDQNLRTYLRRIKRKTALLIAASC-QLGAIASGANEAIVKKL---YWFGYYVGM 204 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHHH---HHHHHHHHH
Confidence 355677778888888888887743 3457999999887766665443222 2221 001234433332 456677888
Q ss_pred HHHHhcCccchhh
Q 025046 151 ISRLMNDIVSHQF 163 (258)
Q Consensus 151 i~rL~NDi~S~~~ 163 (258)
..-+.||+..+..
T Consensus 205 aFQI~DDilD~~~ 217 (319)
T TIGR02748 205 SYQITDDILDFVG 217 (319)
T ss_pred HHHHHHHHHHccC
Confidence 8999999987753
No 19
>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=85.21 E-value=27 Score=31.93 Aligned_cols=101 Identities=17% Similarity=0.093 Sum_probs=65.5
Q ss_pred HHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHH
Q 025046 119 ATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVEN 198 (258)
Q Consensus 119 ~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~ 198 (258)
+++.-++..+.++++..+.+. ..-.-..+-+..|++=....+.+.+.|+. |.|..|- +.+++.+.+.-.+++
T Consensus 195 F~L~a~A~~p~~t~~~a~~i~--~aYFPwI~gLHILLDy~IDq~EDr~~GdL-NFv~YY~-----~~~~~~~Rl~~f~~~ 266 (330)
T PF10776_consen 195 FALFAYAADPDLTPEDAEKIK--DAYFPWICGLHILLDYFIDQEEDREGGDL-NFVFYYP-----DEEEMEERLKYFVEK 266 (330)
T ss_pred HHHHHHHcCCCCCHHHHHHHH--HcccHHHHHHHHHHHHHhhhHhHhcCCCc-eeeeeCC-----CHHHHHHHHHHHHHH
Confidence 334444556778877666542 11222455666777777777777777776 9897554 789999999999999
Q ss_pred HHHHHHHhhcCCCCCcHHHHHHHHHhhhhhhhhhccCC
Q 025046 199 AWKDMNEEFLRPTAFPVALIERPFNIARVLEFLYKKGD 236 (258)
Q Consensus 199 ~~k~ln~e~l~~~~~p~~~~~~~~n~~R~~~~~Y~~~D 236 (258)
+-+...+ +|.+--.+.++-+ +--||-.++
T Consensus 267 A~~~~~~-------Lp~~~fHr~iv~G--Lla~YLSD~ 295 (330)
T PF10776_consen 267 ALEQASR-------LPYPKFHRMIVRG--LLAMYLSDP 295 (330)
T ss_pred HHHHHHh-------CCCchHHHHHHHH--HHHHHhCCH
Confidence 9977654 6665544444443 334675443
No 20
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=81.35 E-value=1.2 Score=37.33 Aligned_cols=50 Identities=16% Similarity=0.197 Sum_probs=35.0
Q ss_pred hHHHHhcCccchhhhhhcCc-ccchhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 025046 150 VISRLMNDIVSHQFEQKRGH-VTTGVECYCKQHGVSEEEVVKVFTEEVENA 199 (258)
Q Consensus 150 ~i~rL~NDi~S~~~E~~~g~-~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~ 199 (258)
..-.|--++..+++..+.-. ..-+=.++|++||+|++||+++++++-=+.
T Consensus 126 ~~~~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM~R 176 (194)
T COG3707 126 ERRALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAMDR 176 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence 35556667777776654333 233445799999999999999999875443
No 21
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]
Probab=80.51 E-value=31 Score=31.27 Aligned_cols=107 Identities=15% Similarity=0.114 Sum_probs=68.1
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhH
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVI 151 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i 151 (258)
....+.+.....+.+-..+-.+.... +|.++|+++-..=+|.-...+...-++--..+++..+.+ ...-+...+.
T Consensus 135 ~~~~~~~~~~~~~~GQ~lDl~~~~~~--~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l---~~~g~~lGla 209 (322)
T COG0142 135 AIKALAEAINGLCGGQALDLAFENKP--VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEAL---EDYGRNLGLA 209 (322)
T ss_pred HHHHHHHHHHHHHHhHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHhhHH
Confidence 34567778888888888888875544 999999998776666555433322222111234545443 4567888899
Q ss_pred HHHhcCccchhhhhh-cCcc---------cchhhhhhhcCCC
Q 025046 152 SRLMNDIVSHQFEQK-RGHV---------TTGVECYCKQHGV 183 (258)
Q Consensus 152 ~rL~NDi~S~~~E~~-~g~~---------~n~V~~ym~e~g~ 183 (258)
.-+.||+..+..+.+ -|.. .+...++.-+++-
T Consensus 210 FQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~ 251 (322)
T COG0142 210 FQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKAN 251 (322)
T ss_pred HHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCc
Confidence 999999998876422 2221 3566666655543
No 22
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=79.30 E-value=1.6 Score=35.58 Aligned_cols=40 Identities=28% Similarity=0.417 Sum_probs=29.8
Q ss_pred hcCcccchhhhhhhcC-CCCHHHHHHHHHHH------HHHHHHHHHH
Q 025046 166 KRGHVTTGVECYCKQH-GVSEEEVVKVFTEE------VENAWKDMNE 205 (258)
Q Consensus 166 ~~g~~~n~V~~ym~e~-g~s~eeA~~~i~~~------i~~~~k~ln~ 205 (258)
.||..+..|.||+-|| +.|.++|++++++. ....|+-+++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~e 165 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKE 165 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHHHH
Confidence 4667789999996665 99999999999873 3445555543
No 23
>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=78.52 E-value=1.7 Score=28.75 Aligned_cols=31 Identities=13% Similarity=0.234 Sum_probs=23.2
Q ss_pred cccchhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 025046 169 HVTTGVECYCKQHGVSEEEVVKVFTEEVENA 199 (258)
Q Consensus 169 ~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~ 199 (258)
-+.-++.+.|..+|+|+++|.+.+++.-.+.
T Consensus 14 ~I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~~ 44 (56)
T PF03861_consen 14 VIEQAKGILMARYGLSEDEAYRLLRRQAMRR 44 (56)
T ss_dssp HHHHHHHHHHHHHT--HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHhCcCHHHHHHHHHHHHHHc
Confidence 3456778899999999999999998865543
No 24
>PRK10888 octaprenyl diphosphate synthase; Provisional
Probab=78.44 E-value=52 Score=29.85 Aligned_cols=87 Identities=14% Similarity=-0.018 Sum_probs=55.5
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhc-CCcCChhHHhhhccchHHHHHHHh
Q 025046 72 YLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGM-CEVANKEAFEWISKNPKISRASSV 150 (258)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~-g~~l~~e~~~~~~~~~~l~~~~~~ 150 (258)
.+..+.+.....+.+-..+..|.. +.-+|.++|++....-+|..+..++ ..|. --..+++..+. ...+-+....
T Consensus 131 ~~~~~~~~~~~~~~Gq~~d~~~~~-~~~~s~~~y~~~i~~KTa~lf~~~~-~~ga~lag~~~~~~~~---l~~~g~~lG~ 205 (323)
T PRK10888 131 VLEVMSEAVNVIAEGEVLQLMNVN-DPDITEENYMRVIYSKTARLFEAAA-QCSGILAGCTPEQEKG---LQDYGRYLGT 205 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHcCCCHHHHHH---HHHHHHHHHH
Confidence 345667777888888888877743 3457999999987765555543322 2221 01123443332 2456778888
Q ss_pred HHHHhcCccchhh
Q 025046 151 ISRLMNDIVSHQF 163 (258)
Q Consensus 151 i~rL~NDi~S~~~ 163 (258)
..-+.||+..+..
T Consensus 206 aFQi~DD~ld~~~ 218 (323)
T PRK10888 206 AFQLIDDLLDYSA 218 (323)
T ss_pred HHHHHHHhhcccC
Confidence 8999999988853
No 25
>CHL00151 preA prenyl transferase; Reviewed
Probab=74.19 E-value=68 Score=29.04 Aligned_cols=87 Identities=6% Similarity=0.013 Sum_probs=52.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHH
Q 025046 73 LRYDKEKMQELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVIS 152 (258)
Q Consensus 73 ~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~ 152 (258)
...+.+....++.+-+.+..+.. ..-+|.++|++....=+|.-+..++..-++--..+++..+. ..++-+......
T Consensus 136 ~~~~~~~~~~l~~G~~~~~~~~~-~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~---l~~~G~~lG~aF 211 (323)
T CHL00151 136 VKLISKVITDFAEGEIRQGLVQF-DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHND---FYLYGKHLGLAF 211 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHHHH
Confidence 45667777788888777766642 34578999999755444444432222211101133443333 245677888899
Q ss_pred HHhcCccchhh
Q 025046 153 RLMNDIVSHQF 163 (258)
Q Consensus 153 rL~NDi~S~~~ 163 (258)
-+.||+..+..
T Consensus 212 Qi~DDilD~~~ 222 (323)
T CHL00151 212 QIIDDVLDITS 222 (323)
T ss_pred HHHHHHhhccc
Confidence 99999998764
No 26
>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=71.48 E-value=68 Score=27.87 Aligned_cols=186 Identities=18% Similarity=0.142 Sum_probs=90.1
Q ss_pred heecccccCCCCH-----HHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHH
Q 025046 9 SIIDDTFDAYGFF-----EELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQEL 83 (258)
Q Consensus 9 ~~~DD~~D~~gt~-----~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~ 83 (258)
-.+||+=|..... ..|+.+.+++++-... .-|. .++..++..+..+. + --++.+.++
T Consensus 37 r~~Ddi~D~~~~~~~~~~~~L~~w~~~l~~~~~~---~~~~--~pv~~al~~~~~~~--------~-----l~~~~~~~l 98 (265)
T cd00683 37 RAADDIVDDPAAPPDEKLALLDAFRAELDAAYWG---GAPT--HPVLRALADLARRY--------G-----IPREPFRDL 98 (265)
T ss_pred HHHHhhhhCCCCCchhHHHHHHHHHHHHHHHHcC---CCCC--ChHHHHHHHHHHHc--------C-----CCHHHHHHH
Confidence 3578888865422 2455555555432111 1122 26667766655411 1 223557777
Q ss_pred HHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchhh
Q 025046 84 VQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQF 163 (258)
Q Consensus 84 ~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~ 163 (258)
++++..... ....||++|...+...+.|..-.+++..++.+ -+++... .....+...-|.|=+.....
T Consensus 99 i~g~~~Dl~---~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~~~~--~~~~~~~-------~A~~lG~AlqltnilRdv~e 166 (265)
T cd00683 99 LAGMAMDLD---KRRYETLDELDEYCYYVAGVVGLMLLRVFGAS--SDEAALE-------RARALGLALQLTNILRDVGE 166 (265)
T ss_pred HHHHHHhCC---CCCCCCHHHHHHHHHHhHHHHHHHHHHHhCCC--CChHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence 888754444 45678988777777766665544444444321 1222222 22222333333332222233
Q ss_pred hhhcCcccchh-hhhhhcCCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHhhh
Q 025046 164 EQKRGHVTTGV-ECYCKQHGVSEEEV---------VKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNIAR 226 (258)
Q Consensus 164 E~~~g~~~n~V-~~ym~e~g~s~eeA---------~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~~R 226 (258)
..++|-+ .+ .=-|.++|+|.++- ..-+..+++.+.+.+....-.-..+|....-.++-++.
T Consensus 167 D~~~gR~--YlP~d~l~~~gv~~~~l~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~~~~~~~~~~ 237 (265)
T cd00683 167 DARRGRI--YLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSRFCVRAAAM 237 (265)
T ss_pred HHccCCC--cCCHHHHHHcCCCHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHhhHHHHHHHHH
Confidence 4455542 11 11367889888652 23445555555544443332234577654444444443
No 27
>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=70.07 E-value=75 Score=27.77 Aligned_cols=96 Identities=21% Similarity=0.151 Sum_probs=51.3
Q ss_pred hheecccccCC-CCHHH----HHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHH
Q 025046 8 ASIIDDTFDAY-GFFEE----LKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQE 82 (258)
Q Consensus 8 ~~~~DD~~D~~-gt~~E----l~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~ 82 (258)
.=..||+=|.. .+.++ |+.+-+.++.= ...-| -.|+..++.+++.+. +. -++.+.+
T Consensus 30 ~R~~Ddi~D~~~~~~~~~~~~L~~wr~~l~~~----~~g~~--~~pv~~aL~~~~~~~--------~l-----~~~~~~~ 90 (266)
T TIGR03464 30 ARTADDIADEGDGSAEERLALLDDFRAELDAI----YSGEP--AAPVFVALARTVQRH--------GL-----PIEPFLD 90 (266)
T ss_pred HHHHHHhccCCCCChHHHHHHHHHHHHHHHHH----hCCCC--CChHHHHHHHHHHHc--------CC-----ChHHHHH
Confidence 34578888875 44443 44444444321 11112 236667776666532 11 1234556
Q ss_pred HHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhh
Q 025046 83 LVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLG 125 (258)
Q Consensus 83 ~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~ 125 (258)
++.++... ......+|++|...+...+.|+.-.+++..++
T Consensus 91 li~~~~~D---l~~~~~~t~~eL~~Y~~~vAg~vg~l~~~i~g 130 (266)
T TIGR03464 91 LLDAFRQD---VVVTRYATWAELLDYCRYSANPVGRLVLDLYG 130 (266)
T ss_pred HHHHHHHh---ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHcC
Confidence 66666322 22345679888888877777666555544443
No 28
>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=69.93 E-value=3.5 Score=23.51 Aligned_cols=18 Identities=50% Similarity=0.800 Sum_probs=14.6
Q ss_pred hhhhcCCCCHHHHHHHHH
Q 025046 176 CYCKQHGVSEEEVVKVFT 193 (258)
Q Consensus 176 ~ym~e~g~s~eeA~~~i~ 193 (258)
-|.++||+|.||.-+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 588999999999766554
No 29
>smart00463 SMR Small MutS-related domain.
Probab=63.08 E-value=9.5 Score=26.82 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=21.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 025046 181 HGVSEEEVVKVFTEEVENAWKDMN 204 (258)
Q Consensus 181 ~g~s~eeA~~~i~~~i~~~~k~ln 204 (258)
||++.+||+..+...++++++.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999997643
No 30
>PLN02632 phytoene synthase
Probab=62.28 E-value=1.3e+02 Score=27.52 Aligned_cols=190 Identities=15% Similarity=0.154 Sum_probs=87.9
Q ss_pred ehheecccccCCCCH----HHHHHHHHHHHhccCcccCCCChhHHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHH
Q 025046 7 MASIIDDTFDAYGFF----EELKLFVEAVQRWDIGAMDILPEYMKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQE 82 (258)
Q Consensus 7 ~~~~~DD~~D~~gt~----~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~ 82 (258)
|.-.+||+=|..... ..|+.+-+.+++- .+.-|. .++..++.++..+.. --++.+.+
T Consensus 84 f~R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~----~~g~~~--~pv~~aL~~~~~~~~-------------L~~~~~~~ 144 (334)
T PLN02632 84 WCRRTDELVDGPNASHITPAALDRWEARLEDL----FDGRPY--DMLDAALADTVSKFP-------------LDIQPFRD 144 (334)
T ss_pred HHHHHhHHhcCCCCChhhHHHHHHHHHHHHHH----hCCCCC--ChHHHHHHHHHHHCC-------------CChHHHHH
Confidence 344578888864422 2344444444431 111122 256666666554321 12344567
Q ss_pred HHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchh
Q 025046 83 LVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQ 162 (258)
Q Consensus 83 ~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~ 162 (258)
++.++..... ....+|++|+..+...+.|.--.+++..++.....+. ..++. .+.-...+...-|.|=+....
T Consensus 145 li~g~~~Dl~---~~~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~~~~~~~-~~~~~---~~~A~~lG~AlQltNILRDv~ 217 (334)
T PLN02632 145 MIEGMRMDLV---KSRYENFDELYLYCYYVAGTVGLMSVPVMGIAPESKA-STESV---YNAALALGIANQLTNILRDVG 217 (334)
T ss_pred HHHHHHHHhc---cCCCCCHHHHHHHHHHhhHHHHHHHHHHhCCCCcccc-chHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence 7777754332 3456788888877766666555444444443221110 00110 111222233333333222223
Q ss_pred hhhhcCcccchh-hhhhhcCCCCHHHH---------HHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHh
Q 025046 163 FEQKRGHVTTGV-ECYCKQHGVSEEEV---------VKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNI 224 (258)
Q Consensus 163 ~E~~~g~~~n~V-~~ym~e~g~s~eeA---------~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~ 224 (258)
....+|.+ .+ .=-|.++|+|.++- ..-+..++..+..-+.+..-.-..+|..+.-.+.=.
T Consensus 218 eD~~~GRv--YLP~e~L~~~Gv~~edl~~~~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r~~v~~a 287 (334)
T PLN02632 218 EDARRGRV--YLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASRWPVWAS 287 (334)
T ss_pred HHHhCCce--eCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhHHHHHHH
Confidence 44566653 11 12467899998872 233444454444333332211234776554333333
No 31
>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=60.07 E-value=11 Score=26.76 Aligned_cols=27 Identities=26% Similarity=0.428 Sum_probs=21.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 025046 181 HGVSEEEVVKVFTEEVENAWKDMNEEF 207 (258)
Q Consensus 181 ~g~s~eeA~~~i~~~i~~~~k~ln~e~ 207 (258)
||++.+||+..+.+.++++++.-...+
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~ 30 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIREL 30 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEE
Confidence 799999999999999999996654433
No 32
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=57.41 E-value=8.6 Score=32.86 Aligned_cols=28 Identities=21% Similarity=0.381 Sum_probs=22.7
Q ss_pred Ccccchhhhh-hhcCCCCHHHHHHHHHHH
Q 025046 168 GHVTTGVECY-CKQHGVSEEEVVKVFTEE 195 (258)
Q Consensus 168 g~~~n~V~~y-m~e~g~s~eeA~~~i~~~ 195 (258)
|....+|.|| |+++|+|..||++.++.+
T Consensus 159 GRTG~liAc~lmy~~g~ta~eaI~~lR~~ 187 (225)
T KOG1720|consen 159 GRTGTLIACYLMYEYGMTAGEAIAWLRIC 187 (225)
T ss_pred CchhHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 4556788997 688899999999988753
No 33
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=56.58 E-value=17 Score=31.98 Aligned_cols=65 Identities=22% Similarity=0.186 Sum_probs=49.7
Q ss_pred chhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHh----------hcCCCCCcHHHHHHHHHhhhh
Q 025046 160 SHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNEE----------FLRPTAFPVALIERPFNIARV 227 (258)
Q Consensus 160 S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e----------~l~~~~~p~~~~~~~~n~~R~ 227 (258)
.|++||+ .++.++..+...|.+.++|..++.--+.+.+-++-.. .|....+|...+..+.++||-
T Consensus 96 ~wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~~~~~~~~~l~e~a~e 170 (269)
T COG1093 96 EWKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEGVPEEWKEVLKEIARE 170 (269)
T ss_pred HHHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCCCCHHHHHHHHHHHHh
Confidence 3567776 3577888899999999999999999888877665333 333446888888888888873
No 34
>smart00400 ZnF_CHCC zinc finger.
Probab=54.31 E-value=13 Score=24.36 Aligned_cols=25 Identities=24% Similarity=0.133 Sum_probs=20.5
Q ss_pred CcccchhhhhhhcCCCCHHHHHHHH
Q 025046 168 GHVTTGVECYCKQHGVSEEEVVKVF 192 (258)
Q Consensus 168 g~~~n~V~~ym~e~g~s~eeA~~~i 192 (258)
|...++|..+|+-.|+|-.||++.+
T Consensus 30 g~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 30 GAGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCCHHHHHHHHHCcCHHHHHHHh
Confidence 3334789999998899999999875
No 35
>PRK10581 geranyltranstransferase; Provisional
Probab=53.37 E-value=86 Score=28.14 Aligned_cols=111 Identities=11% Similarity=0.088 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHhhCCCCCChhhhhccccccccchhHHHHHHhh--cCCcCChhHHhhhccchHHHHHHHhHHHHhcCcc
Q 025046 82 ELVQMYFVQAKWSSEGYVPTWEEYYPVGLVSGGYFMLATNSFLG--MCEVANKEAFEWISKNPKISRASSVISRLMNDIV 159 (258)
Q Consensus 82 ~~~~~~~~Ea~w~~~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~--~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~ 159 (258)
.++.+-..+..|.. ..+|.++|++.-..=+|.-+..+. ..| ++..-+++..+.+ .++-+......-+.||+.
T Consensus 153 ~l~~GQ~ld~~~~~--~~~~~~~y~~i~~~KTa~L~~~~~-~~gailag~~~~~~~~~l---~~~g~~lG~aFQI~DDil 226 (299)
T PRK10581 153 GMCGGQALDLEAEG--KQVPLDALERIHRHKTGALIRAAV-RLGALSAGDKGRRALPVL---DRYAESIGLAFQVQDDIL 226 (299)
T ss_pred hhhHhhHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHH-HHHHHHcCCCcHHHHHHH---HHHHHHHHHHHHHHHHHc
Confidence 46667666777743 468999999876544443333222 121 1111122333332 457788888999999999
Q ss_pred chhhh-h----------hcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 025046 160 SHQFE-Q----------KRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNE 205 (258)
Q Consensus 160 S~~~E-~----------~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~ 205 (258)
.+... . ..|.. +.+.++ ..|+|.+.+++.++++.+.+..
T Consensus 227 D~~g~~~~~GK~~g~Dl~~gk~-T~p~l~------~~e~a~~~a~~~~~~A~~~l~~ 276 (299)
T PRK10581 227 DVVGDTATLGKRQGADQQLGKS-TYPALL------GLEQARKKARDLIDDARQSLDQ 276 (299)
T ss_pred cccCChHHHCCCcchhhhcCCC-CHHHHH------HHHHHHHHHHHHHHHHHHHHHh
Confidence 88532 1 22222 444333 2478888889999988877654
No 36
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=51.43 E-value=14 Score=28.66 Aligned_cols=21 Identities=38% Similarity=0.567 Sum_probs=18.3
Q ss_pred hhhhhhcCCCCHHHHHHHHHH
Q 025046 174 VECYCKQHGVSEEEVVKVFTE 194 (258)
Q Consensus 174 V~~ym~e~g~s~eeA~~~i~~ 194 (258)
|.+.|.|.|+|.++|++.+.+
T Consensus 88 IkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 88 IKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 678999999999999987754
No 37
>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=50.99 E-value=1.1e+02 Score=26.48 Aligned_cols=66 Identities=18% Similarity=0.208 Sum_probs=42.4
Q ss_pred CCCCCChhhhhccccccccchhHHHHHHhhcCCcCChhHHhhhccchHHHHHHHhHHHHhcCccchhhh
Q 025046 96 EGYVPTWEEYYPVGLVSGGYFMLATNSFLGMCEVANKEAFEWISKNPKISRASSVISRLMNDIVSHQFE 164 (258)
Q Consensus 96 ~~~~Pt~eEYl~~~~~s~g~~~~~~~~~~~~g~~l~~e~~~~~~~~~~l~~~~~~i~rL~NDi~S~~~E 164 (258)
.+..+|.++|+++-..-+|..+..++..-++--..+++..+.+ .++-+......-+.||+..+...
T Consensus 129 ~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l---~~~g~~lG~afQi~DD~~d~~~~ 194 (260)
T PF00348_consen 129 EDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEAL---REFGRHLGIAFQIRDDLLDLFGD 194 (260)
T ss_dssp TTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHH---HHHHHHHHHHHHHHHHHHHHHSH
T ss_pred ccccccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHH---HHHHHHHHHHHhhhhhhhhccCc
Confidence 3447899999999887777664433222221111234444333 56778889999999999988753
No 38
>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=48.71 E-value=28 Score=22.72 Aligned_cols=44 Identities=20% Similarity=0.386 Sum_probs=30.6
Q ss_pred cCccchhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 025046 156 NDIVSHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWK 201 (258)
Q Consensus 156 NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k 201 (258)
||+-++..|+..--+ -=|+-+| ..|+|--||+..+.+.|.+.-+
T Consensus 3 ~~lp~LtHeeQQ~Av-E~Iq~LM-aqGmSsgEAI~~VA~~iRe~~~ 46 (51)
T PF03701_consen 3 NDLPSLTHEEQQQAV-ERIQELM-AQGMSSGEAIAIVAQEIREEHQ 46 (51)
T ss_pred CCCCCCCHHHHHHHH-HHHHHHH-HhcccHHHHHHHHHHHHHHHHH
Confidence 677776666543222 2255677 4799999999999998887654
No 39
>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=47.41 E-value=26 Score=27.52 Aligned_cols=60 Identities=20% Similarity=0.343 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHhhCCCCCChh-hhhccccccccc
Q 025046 52 ALLDTYNEVEQDLAKEGRSSYLRYDKEKMQELVQMYFVQAKWSSEGYVPTWE-EYYPVGLVSGGY 115 (258)
Q Consensus 52 al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~e-EYl~~~~~s~g~ 115 (258)
.++....+|++.+.-.|+ .+-.+.|++++.+.+.-++.....-+|.++ |+...+..|+-+
T Consensus 42 ~lwa~l~dIs~qv~~~G~----k~~~e~WK~~~~~~~~~~~~~~~~~~~gl~Gg~v~~g~sTskm 102 (127)
T PF05772_consen 42 KLWAMLGDISRQVEWNGR----KLDPEDWKELFTAAFLIATGEEQRVVPGLDGGFVVLGESTSKM 102 (127)
T ss_dssp HHHHHHHHHHHH--BTTB-------HHHHHHHHHHHH-----S--EEEE-TTSSEEEE---TTT-
T ss_pred HHHHHHHHHHHHhHhcCc----cCCHHHHHHHHHHHHhhhccchhhhccCCCCCeEEEeeechhh
Confidence 345577888776544333 477899999999998777766666678777 666666555543
No 40
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=43.91 E-value=48 Score=22.85 Aligned_cols=22 Identities=32% Similarity=0.658 Sum_probs=16.9
Q ss_pred CCCCChhhhhccccccccchhH
Q 025046 97 GYVPTWEEYYPVGLVSGGYFML 118 (258)
Q Consensus 97 ~~~Pt~eEYl~~~~~s~g~~~~ 118 (258)
-..||-|||.+.+.++..+..+
T Consensus 25 arKP~~eEy~~~aKi~~~Gi~l 46 (65)
T COG2443 25 ARKPDWEEYSKIAKITGLGILL 46 (65)
T ss_pred HhCCCHHHHHHHHHHHHHHHHH
Confidence 3479999999999887655544
No 41
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=41.26 E-value=24 Score=27.23 Aligned_cols=27 Identities=37% Similarity=0.411 Sum_probs=21.5
Q ss_pred CcccchhhhhhhcCCCCHHHHHHHHHH
Q 025046 168 GHVTTGVECYCKQHGVSEEEVVKVFTE 194 (258)
Q Consensus 168 g~~~n~V~~ym~e~g~s~eeA~~~i~~ 194 (258)
|-...-|...|.|.|+|.++|++.+.+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 334566889999999999999887764
No 42
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=39.33 E-value=40 Score=23.82 Aligned_cols=30 Identities=20% Similarity=0.395 Sum_probs=24.4
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHHHHHHH
Q 025046 173 GVECYCKQHGVSEEEVVKVFTEEVENAWKD 202 (258)
Q Consensus 173 ~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ 202 (258)
.|...+-+.|++.|+|.+.+++...++|+.
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 345566678999999999999999999964
No 43
>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=39.16 E-value=27 Score=26.94 Aligned_cols=24 Identities=33% Similarity=0.398 Sum_probs=19.9
Q ss_pred cchhhhhhhcCCCCHHHHHHHHHH
Q 025046 171 TTGVECYCKQHGVSEEEVVKVFTE 194 (258)
Q Consensus 171 ~n~V~~ym~e~g~s~eeA~~~i~~ 194 (258)
..-|...|.+.|+|.++|++.+.+
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHH
Confidence 355888999999999999987764
No 44
>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=38.90 E-value=14 Score=27.84 Aligned_cols=21 Identities=29% Similarity=0.409 Sum_probs=16.8
Q ss_pred hheecccccCCCCHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFV 28 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~ 28 (258)
+.++||++|.++|+.++..+.
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 458999999999988865544
No 45
>PRK09177 xanthine-guanine phosphoribosyltransferase; Validated
Probab=36.18 E-value=15 Score=29.71 Aligned_cols=22 Identities=18% Similarity=0.237 Sum_probs=18.1
Q ss_pred hheecccccCCCCHHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFVE 29 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~~ 29 (258)
+-++||+.|.++|+.++.....
T Consensus 87 VLIVDDIiDTG~Tl~~v~~~l~ 108 (156)
T PRK09177 87 FLVVDDLVDTGGTARAVREMYP 108 (156)
T ss_pred EEEEeeeeCCHHHHHHHHHHHh
Confidence 4578999999999999876654
No 46
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=35.23 E-value=31 Score=30.09 Aligned_cols=28 Identities=7% Similarity=0.154 Sum_probs=23.2
Q ss_pred CcccchhhhhhhcCCCCHHHHHHHHHHH
Q 025046 168 GHVTTGVECYCKQHGVSEEEVVKVFTEE 195 (258)
Q Consensus 168 g~~~n~V~~ym~e~g~s~eeA~~~i~~~ 195 (258)
|-...++.+||-++|+|.+||++.+++.
T Consensus 182 GRTGtl~AayLI~~GmspeeAI~~VR~~ 209 (241)
T PTZ00393 182 GRAPVLASIVLIEFGMDPIDAIVFIRDR 209 (241)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4445778899989999999999999864
No 47
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=34.07 E-value=88 Score=30.87 Aligned_cols=93 Identities=22% Similarity=0.257 Sum_probs=52.0
Q ss_pred hhHHhhhccchHHHHHHHhHHHHhcCcc------chhhhhhcCcccch--hhhhhhcCCCCHHHHHHHHHHHHHHHHHHH
Q 025046 132 KEAFEWISKNPKISRASSVISRLMNDIV------SHQFEQKRGHVTTG--VECYCKQHGVSEEEVVKVFTEEVENAWKDM 203 (258)
Q Consensus 132 ~e~~~~~~~~~~l~~~~~~i~rL~NDi~------S~~~E~~~g~~~n~--V~~ym~e~g~s~eeA~~~i~~~i~~~~k~l 203 (258)
.|+-+-+..+..|+..-+.+...-||+. +.+++.-||..-.. +..=|.+.---.||-++.++....++.++
T Consensus 301 rEVeNLilENsqLLetKNALNiVKNDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ea~~ar~~- 379 (832)
T KOG2077|consen 301 REVENLILENSQLLETKNALNIVKNDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKAEAEDARQK- 379 (832)
T ss_pred HHHHHHHHhhHHHHhhhhHHHHHHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence 3444445556677776666666677764 44566666765221 12223222222344444454444444433
Q ss_pred HHhhcC--CCCCcHHHHHHH--HHhhhhh
Q 025046 204 NEEFLR--PTAFPVALIERP--FNIARVL 228 (258)
Q Consensus 204 n~e~l~--~~~~p~~~~~~~--~n~~R~~ 228 (258)
... .+.+|.+-.++| ..|+|++
T Consensus 380 ---~~~~e~ddiPmAqRkRFTRvEMaRVL 405 (832)
T KOG2077|consen 380 ---AKDDEDDDIPMAQRKRFTRVEMARVL 405 (832)
T ss_pred ---hcccccccccHHHHhhhHHHHHHHHH
Confidence 332 467999988888 6788886
No 48
>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=33.85 E-value=34 Score=25.21 Aligned_cols=29 Identities=28% Similarity=0.240 Sum_probs=20.6
Q ss_pred cccchhhhhhhcCCCCHHHHHHHHHHHHH
Q 025046 169 HVTTGVECYCKQHGVSEEEVVKVFTEEVE 197 (258)
Q Consensus 169 ~~~n~V~~ym~e~g~s~eeA~~~i~~~i~ 197 (258)
...|+|..+|+-.|+|-.||++.+.++..
T Consensus 62 ~~Gd~i~~v~~~~~~~f~eAv~~l~~~~~ 90 (97)
T PF01807_consen 62 KGGDVIDFVMKYEGCSFKEAVKWLAEEFG 90 (97)
T ss_dssp -EE-HHHHHHHHHT--HHHHHHHHHHHHT
T ss_pred CCCcHHhHHHHHhCCCHHHHHHHHHHHhC
Confidence 33477988998889999999999887654
No 49
>PRK05114 hypothetical protein; Provisional
Probab=32.67 E-value=63 Score=21.68 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=30.0
Q ss_pred hcCccchhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 025046 155 MNDIVSHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWK 201 (258)
Q Consensus 155 ~NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k 201 (258)
.||+-++..|+..--+ -=|+-+| ..|+|--||+..+.+.|++..+
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 3566555555443222 2256677 4799999999999998887654
No 50
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=31.07 E-value=1.4e+02 Score=25.31 Aligned_cols=55 Identities=25% Similarity=0.270 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHhhCCCCCChhh
Q 025046 49 LYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQELVQMYFVQAKWSSEGYVPTWEE 104 (258)
Q Consensus 49 ~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ea~w~~~~~~Pt~eE 104 (258)
.....-+.++++...+.+..-.....++..+.++|+.|..- ..|...|.+||.+|
T Consensus 52 ~l~~a~~~~~~l~~~~~~~~~~~y~~~~~~~lQEyvEA~~f-~~~l~~~~l~s~ee 106 (204)
T PRK14562 52 LLKEAEELVKELKELLKDHPELYYAGYVGTALQEYVEALLV-YSLLFENKIPSPEE 106 (204)
T ss_pred HHHHHHHHHHHHHHHhccCchhhhhhhcchHHHHHHHHHHH-HHHHcCCCCCCHHH
Confidence 34444555666655544322111134556677888877654 67888999999988
No 51
>COG2236 Predicted phosphoribosyltransferases [General function prediction only]
Probab=30.64 E-value=29 Score=29.23 Aligned_cols=22 Identities=23% Similarity=0.117 Sum_probs=18.2
Q ss_pred heecccccCCCCHHHHHHHHHH
Q 025046 9 SIIDDTFDAYGFFEELKLFVEA 30 (258)
Q Consensus 9 ~~~DD~~D~~gt~~El~~~~~a 30 (258)
.++||+.|.+.|++....+.+.
T Consensus 91 LIVDDI~DTG~Tl~~a~~~l~~ 112 (192)
T COG2236 91 LIVDDIVDTGETLELALEELKK 112 (192)
T ss_pred EEEecccCchHhHHHHHHHHHh
Confidence 4799999999999987766654
No 52
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=29.64 E-value=2.1e+02 Score=24.79 Aligned_cols=93 Identities=22% Similarity=0.252 Sum_probs=58.5
Q ss_pred eeccccc-CCCCHHHHHHHHHHHHhccCcccCCCChhHHHHHHHH-----------HHHHHHHHHHHHHhCCCcchhhhH
Q 025046 10 IIDDTFD-AYGFFEELKLFVEAVQRWDIGAMDILPEYMKVLYKAL-----------LDTYNEVEQDLAKEGRSSYLRYDK 77 (258)
Q Consensus 10 ~~DD~~D-~~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~~~al-----------~~~~~ei~~~~~~~~~~~~~~~~~ 77 (258)
..++.|. +.+...+-+.|.++|+.|.... ..--+++..++.|| +.+|+.+-+-++| |+.-..+.+.
T Consensus 32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~-~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fvp~n~fQ 109 (228)
T PF06239_consen 32 PHEELFERAPGQAKDKATFLEAVDIFKQRD-VRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFVPRNFFQ 109 (228)
T ss_pred chHHHHHHHhhccccHHHHHHHHHHHHhcC-CCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcccccHHH
Confidence 3445555 3455556688999999987655 34567899999887 3466666655555 3322234444
Q ss_pred HHH------HHHHHHHHHHHHHhhCCCCCChhhhh
Q 025046 78 EKM------QELVQMYFVQAKWSSEGYVPTWEEYY 106 (258)
Q Consensus 78 ~~~------~~~~~~~~~Ea~w~~~~~~Pt~eEYl 106 (258)
..| ++.+-..|.+=++ .|-+|+.|-|-
T Consensus 110 ~~F~hyp~Qq~c~i~lL~qME~--~gV~Pd~Et~~ 142 (228)
T PF06239_consen 110 AEFMHYPRQQECAIDLLEQMEN--NGVMPDKETEQ 142 (228)
T ss_pred HHhccCcHHHHHHHHHHHHHHH--cCCCCcHHHHH
Confidence 445 3344555655665 68899887764
No 53
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=29.50 E-value=59 Score=26.48 Aligned_cols=33 Identities=24% Similarity=0.465 Sum_probs=21.8
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHH
Q 025046 177 YCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLRPTAFPVA 216 (258)
Q Consensus 177 ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~~~~~p~~ 216 (258)
-|++.|.|. .+|++.|++.||+ -+.+|++-|.|
T Consensus 126 ~~~~~Gks~----~eIR~~ID~kYk~---g~~~pTpTp~P 158 (158)
T PF13798_consen 126 QMYQEGKSP----KEIRQYIDEKYKE---GYAKPTPTPMP 158 (158)
T ss_pred HHHHcCCCH----HHHHHHHHHHHHh---CCCCCCCCCCC
Confidence 355666664 4588999999964 26677665543
No 54
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=29.28 E-value=1.6e+02 Score=19.00 Aligned_cols=44 Identities=16% Similarity=0.278 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHH
Q 025046 46 MKVLYKALLDTYNEVEQDLAKEGRSSYLRYDKEKMQELVQMYFVQA 91 (258)
Q Consensus 46 ~k~~~~al~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ea 91 (258)
|..+-+|+..+++|++.++..+|- ..+-+.++-++|+.+.-.|.
T Consensus 6 lsmiqkaih~tydelgkei~~~g~--~~d~i~kaqeeylsals~et 49 (58)
T PF13060_consen 6 LSMIQKAIHRTYDELGKEIDLQGV--IADEIQKAQEEYLSALSHET 49 (58)
T ss_pred HHHHHHHHHHhHHHHhHHhhhcch--HHHHHHHHHHHHHHHhhHHH
Confidence 556778999999999999876543 35556666667777665553
No 55
>COG2096 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]
Probab=29.11 E-value=1.5e+02 Score=24.80 Aligned_cols=20 Identities=30% Similarity=0.620 Sum_probs=16.4
Q ss_pred ccccCCCCHHHHHHHHHHHH
Q 025046 13 DTFDAYGFFEELKLFVEAVQ 32 (258)
Q Consensus 13 D~~D~~gt~~El~~~~~ai~ 32 (258)
..-..|||+||+-.|+-...
T Consensus 30 ~rVeayGtlDElNs~IG~A~ 49 (184)
T COG2096 30 PRVEAYGTLDELNSFIGLAR 49 (184)
T ss_pred ceeeeeccHHHHHHHHHHHH
Confidence 34568999999999987765
No 56
>PRK05205 bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase; Provisional
Probab=28.29 E-value=27 Score=28.63 Aligned_cols=21 Identities=10% Similarity=-0.001 Sum_probs=16.6
Q ss_pred hheecccccCCCCHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFV 28 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~ 28 (258)
+.++||+.|.++|+.++....
T Consensus 98 VLIVDDIidTG~Tl~~~~~~L 118 (176)
T PRK05205 98 VILVDDVLYTGRTIRAALDAL 118 (176)
T ss_pred EEEEecccCcHHHHHHHHHHH
Confidence 467999999999988865443
No 57
>PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A.
Probab=27.93 E-value=25 Score=28.79 Aligned_cols=35 Identities=23% Similarity=0.344 Sum_probs=23.2
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHhhcC
Q 025046 174 VECYCKQHGVSEEEVVKVFTEEVENAWKDMNEEFLR 209 (258)
Q Consensus 174 V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~ 209 (258)
|.-.|+++|+|+++|.+.+.+ .+...+.+-+.+..
T Consensus 128 v~ri~~~~~~s~~~A~~~i~~-~D~~R~~~~~~~~~ 162 (179)
T PF13189_consen 128 VERIMEREGISEEEAEKLIKK-EDKRRRAYYKYYTG 162 (179)
T ss_dssp HHHHHHHHT--HHHHHHHHHH-HHHHHHHHHHHH-S
T ss_pred HHHHHHHcCCCHHHHHHHHHH-HHHHHHHHHHHHhC
Confidence 455677789999999988877 56666666666654
No 58
>COG0864 NikR Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]
Probab=27.65 E-value=88 Score=24.81 Aligned_cols=37 Identities=22% Similarity=0.443 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHhhCC
Q 025046 54 LDTYNEVEQDLAKEGRSSYLRYDKEKMQELVQMYFVQAKWSSEG 97 (258)
Q Consensus 54 ~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ea~w~~~~ 97 (258)
++-++++.. +.|...+- +...+.++.|++|.+|...+
T Consensus 16 l~elD~~i~---~rg~~sRS----E~IrdAir~yl~e~~~~~~~ 52 (136)
T COG0864 16 LEELDELIE---ERGYSSRS----ELIRDALREYLEEYRWLEDI 52 (136)
T ss_pred HHHHHHHHH---HcCCCcHH----HHHHHHHHHHHHHhhhhccc
Confidence 555555543 23333332 44667778889999998654
No 59
>COG4860 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.32 E-value=71 Score=25.63 Aligned_cols=51 Identities=27% Similarity=0.368 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHh--hCCCCCChhhhhcccccccc
Q 025046 56 TYNEVEQDLAKEGRSSYLRYDKEKMQELVQMYFVQAKWS--SEGYVPTWEEYYPVGLVSGG 114 (258)
Q Consensus 56 ~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ea~w~--~~~~~Pt~eEYl~~~~~s~g 114 (258)
|..+|++..-++|+ +++..+=++=+-|++|+ .+|..|.-+-+-.+..+++-
T Consensus 39 T~~eiee~iG~eg~--------RaL~iLkkagmlEtqWr~p~~G~kPeKeYHtsYt~VqiN 91 (170)
T COG4860 39 TLPEIEEKIGKEGR--------RALLILKKAGMLETQWRTPSNGQKPEKEYHTSYTNVQIN 91 (170)
T ss_pred eHHHHHHHhchhhH--------HHHHHHHhhcchhheeeccCCCCCchhhhhhheeeEEEE
Confidence 33455554444443 24444556778899998 46788986655555555443
No 60
>PHA02896 A-type inclusion like protein; Provisional
Probab=25.53 E-value=1.2e+02 Score=29.62 Aligned_cols=46 Identities=13% Similarity=0.239 Sum_probs=37.7
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHhhhhh
Q 025046 180 QHGVSEEEVVKVFTEEVENAWKDMNEEFLRPTAFPVALIERPFNIARVL 228 (258)
Q Consensus 180 e~g~s~eeA~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~~~~n~~R~~ 228 (258)
..|+.+|.-+..++.+|++.|.+ +.-+.+.+|+....++=|+.|-.
T Consensus 3 ~~~~giEKcV~eFkSlVertWnk---~Lns~SCIpRk~RKiIRNILR~Y 48 (616)
T PHA02896 3 RDGCGIDKCIRKFESLIIRTWDH---DLNERSFLNRKDRKIIRNIFRCF 48 (616)
T ss_pred ccccChHHHHHHHHHHHHHhhCC---ccccccCcCHHHHHHHHHHHHHH
Confidence 45888999999999999999932 22236789999999999999964
No 61
>PRK09162 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=25.23 E-value=31 Score=28.49 Aligned_cols=22 Identities=14% Similarity=0.147 Sum_probs=17.4
Q ss_pred hheecccccCCCCHHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFVE 29 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~~ 29 (258)
+.++||+.|.+.|+.++.....
T Consensus 100 VLIVDDIidTG~Tl~~~~~~Lk 121 (181)
T PRK09162 100 VLVVDDILDEGHTLAAIRDRCL 121 (181)
T ss_pred EEEEccccCcHHHHHHHHHHHH
Confidence 4568999999999998765543
No 62
>TIGR00636 PduO_Nterm ATP:cob(I)alamin adenosyltransferase. This model represents as ATP:cob(I)alamin adenosyltransferase family corresponding to the N-terminal half of Salmonella PduO, a 1,2-propanediol utilization protein that probably is bifunctional. PduO represents one of at least three families of ATP:corrinoid adenosyltransferase: others are CobA (which partially complements PduO) and EutT. It was not clear originally whether ATP:cob(I)alamin adenosyltransferase activity resides in the N-terminal region of PduO, modeled here, but this has now become clear from the characterization of MeaD from Methylobacterium extorquens.
Probab=24.97 E-value=3.9e+02 Score=21.95 Aligned_cols=21 Identities=29% Similarity=0.570 Sum_probs=18.3
Q ss_pred cccccCCCCHHHHHHHHHHHH
Q 025046 12 DDTFDAYGFFEELKLFVEAVQ 32 (258)
Q Consensus 12 DD~~D~~gt~~El~~~~~ai~ 32 (258)
|..++.|||.|||..++-.+.
T Consensus 22 d~riea~Gt~DElns~iGl~~ 42 (171)
T TIGR00636 22 SPRVEAYGTLDELNSFIGVAL 42 (171)
T ss_pred CccceehhhHHHHHHHHHHHH
Confidence 567899999999999998865
No 63
>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=24.58 E-value=1.9e+02 Score=18.07 Aligned_cols=24 Identities=21% Similarity=0.585 Sum_probs=18.9
Q ss_pred CCC--HHHHHHHHHHHHHHHHHHHHH
Q 025046 182 GVS--EEEVVKVFTEEVENAWKDMNE 205 (258)
Q Consensus 182 g~s--~eeA~~~i~~~i~~~~k~ln~ 205 (258)
|++ -|--.+.+..-+.+.||++-+
T Consensus 12 G~~ql~ESLLdrItRklr~gwKRl~~ 37 (45)
T PF02061_consen 12 GCPQLSESLLDRITRKLRDGWKRLWD 37 (45)
T ss_pred CCchhhHHHHHHHHHHHHHHHHHHHH
Confidence 555 466788899999999999854
No 64
>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=24.41 E-value=49 Score=23.48 Aligned_cols=27 Identities=26% Similarity=0.470 Sum_probs=20.2
Q ss_pred CcccchhhhhhhcCCCCHHHHHHHHHH
Q 025046 168 GHVTTGVECYCKQHGVSEEEVVKVFTE 194 (258)
Q Consensus 168 g~~~n~V~~ym~e~g~s~eeA~~~i~~ 194 (258)
-.+-+.|.-+..+.|.|.++|++.+..
T Consensus 53 K~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 53 KVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 334566666677889999999998764
No 65
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.33 E-value=52 Score=21.83 Aligned_cols=48 Identities=21% Similarity=0.301 Sum_probs=32.1
Q ss_pred cCccchhhhhhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 025046 156 NDIVSHQFEQKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKDMNE 205 (258)
Q Consensus 156 NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ln~ 205 (258)
+++.|+-.|+.+.-+ --|+=+|. .|+|--||+..+.+.+.+.-+.-|+
T Consensus 3 ~~lp~LtHeqQQ~AV-E~Iq~lMa-eGmSsGEAIa~VA~elRe~hk~~~~ 50 (60)
T COG3140 3 AGLPSLTHEQQQKAV-ERIQELMA-EGMSSGEAIALVAQELRENHKGENR 50 (60)
T ss_pred CccccccHHHHHHHH-HHHHHHHH-ccccchhHHHHHHHHHHHHhccccc
Confidence 556666666554333 22555674 5899999999998888876665543
No 66
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.99 E-value=53 Score=26.97 Aligned_cols=22 Identities=36% Similarity=0.431 Sum_probs=17.5
Q ss_pred eecccccCCCCHHHHHHHHHHH
Q 025046 10 IIDDTFDAYGFFEELKLFVEAV 31 (258)
Q Consensus 10 ~~DD~~D~~gt~~El~~~~~ai 31 (258)
.+||++|+.|.-||-+..++-|
T Consensus 144 TLDdild~sgDeeEs~aiVNqV 165 (208)
T KOG3231|consen 144 TLDDILDGSGDEEESQAIVNQV 165 (208)
T ss_pred hHHHHhcCCCcHHHHHHHHHHH
Confidence 4799999999999976665544
No 67
>PHA03369 capsid maturational protease; Provisional
Probab=23.55 E-value=71 Score=31.54 Aligned_cols=29 Identities=28% Similarity=0.432 Sum_probs=21.0
Q ss_pred HHHHHHHHhhhhhhhhhccCCCCCCcHHHHHHH
Q 025046 216 ALIERPFNIARVLEFLYKKGDCYTHSHAIKDQI 248 (258)
Q Consensus 216 ~~~~~~~n~~R~~~~~Y~~~D~~t~~~~~k~~i 248 (258)
.+.+.+.|+.|++..+|+++|+ ...|+|+
T Consensus 300 ~~~~ql~~~~k~l~~~~~~kde----~v~~~yl 328 (663)
T PHA03369 300 ALADQLNNLYKLLRTIYKHKDE----TVIEQYL 328 (663)
T ss_pred HHHHHHHHHHHHHHHhccCccc----hHHHHHH
Confidence 3455678888999999999988 3455554
No 68
>PRK15423 hypoxanthine phosphoribosyltransferase; Provisional
Probab=23.32 E-value=40 Score=27.89 Aligned_cols=22 Identities=14% Similarity=0.320 Sum_probs=17.8
Q ss_pred hheecccccCCCCHHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFVE 29 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~~ 29 (258)
+.++||+.|.+.|+..+..+..
T Consensus 95 VLlVDDIiDTG~TL~~l~~~l~ 116 (178)
T PRK15423 95 VLIVEDIIDSGNTLSKVREILS 116 (178)
T ss_pred EEEEeeecCchHHHHHHHHHHH
Confidence 3579999999999998776654
No 69
>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=23.30 E-value=1.7e+02 Score=22.06 Aligned_cols=71 Identities=14% Similarity=0.179 Sum_probs=42.0
Q ss_pred HHHHHHHhHHHHhcCccchhhhhhcCcccchhhhhhhcCCCCH---HHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHH
Q 025046 143 KISRASSVISRLMNDIVSHQFEQKRGHVTTGVECYCKQHGVSE---EEVVKVFTEEVENAWKDMNEEFLRPTAFPVALIE 219 (258)
Q Consensus 143 ~l~~~~~~i~rL~NDi~S~~~E~~~g~~~n~V~~ym~e~g~s~---eeA~~~i~~~i~~~~k~ln~e~l~~~~~p~~~~~ 219 (258)
.+.+.-..+.+.+||+++.+-+-..- -+|.-.....-+++|. -|.-++++..++.+|.-+.+ +|.++++
T Consensus 26 ~~~rLN~ev~~~~~~Ly~~~G~t~Ee-eA~lCLaLLmGYnat~yd~geke~~~Q~vL~Rs~~vL~~-------Lp~SlLK 97 (106)
T PF06603_consen 26 DFSRLNKEVYEQSNDLYSQHGSTPEE-EANLCLALLMGYNATIYDNGEKEEKKQEVLDRSWEVLDK-------LPASLLK 97 (106)
T ss_pred HHHHHhHHHHHHHHHHHhccCCCHHH-HHHHHHHHHHhccchhhhCccHHHHHHHHHHHHHHHHHh-------CCcHHHH
Confidence 46677788889999999875332211 1343222222233332 13345688889999977654 7776665
Q ss_pred HH
Q 025046 220 RP 221 (258)
Q Consensus 220 ~~ 221 (258)
.-
T Consensus 98 ~~ 99 (106)
T PF06603_consen 98 VQ 99 (106)
T ss_pred HH
Confidence 43
No 70
>TIGR01203 HGPRTase hypoxanthine phosphoribosyltransferase. Sequence differences as small as a single residue can affect whether members of this family act on hypoxanthine and guanine or hypoxanthine only. The designation of this model as equivalog reflects hypoxanthine specificity and does not reflect whether or not guanine can replace hypoxanthine.
Probab=23.13 E-value=37 Score=27.58 Aligned_cols=21 Identities=19% Similarity=0.151 Sum_probs=17.0
Q ss_pred hheecccccCCCCHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFV 28 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~ 28 (258)
+.++||+.|.++|+.++....
T Consensus 87 vlivDDii~TG~Tl~~~~~~l 107 (166)
T TIGR01203 87 VLIVEDIVDTGLTLQYLLDLL 107 (166)
T ss_pred EEEEeeeeCcHHHHHHHHHHH
Confidence 467999999999988875544
No 71
>PRK04946 hypothetical protein; Provisional
Probab=22.73 E-value=1e+02 Score=25.67 Aligned_cols=36 Identities=17% Similarity=0.337 Sum_probs=26.8
Q ss_pred hhcCcccchhhhhhhcCCCCHHHHHHHHHHHHHHHHHH
Q 025046 165 QKRGHVTTGVECYCKQHGVSEEEVVKVFTEEVENAWKD 202 (258)
Q Consensus 165 ~~~g~~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~k~ 202 (258)
.++|+.. ++.-..=||++.+||.+.+.+.|.++.+.
T Consensus 87 Lr~G~~~--~~~~LDLhG~~~eeA~~~L~~fl~~a~~~ 122 (181)
T PRK04946 87 LRRGDYS--PELFLDLHGLTQLQAKQELGALIAACRKE 122 (181)
T ss_pred hhCCCCC--CceEEECCCCCHHHHHHHHHHHHHHHHHc
Confidence 5678753 22223348999999999999999999863
No 72
>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=22.57 E-value=1.6e+02 Score=19.51 Aligned_cols=31 Identities=23% Similarity=0.182 Sum_probs=22.8
Q ss_pred ccchhhhhhhcCCCCHHHHHHHHHHHHHHHH
Q 025046 170 VTTGVECYCKQHGVSEEEVVKVFTEEVENAW 200 (258)
Q Consensus 170 ~~n~V~~ym~e~g~s~eeA~~~i~~~i~~~~ 200 (258)
+..++.....+++++.+++.+.+...+++-.
T Consensus 32 ~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~ 62 (68)
T PF05402_consen 32 VEEIVDALAEEYDVDPEEAEEDVEEFLEQLR 62 (68)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 4566777888889999999888888887655
No 73
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=21.33 E-value=2.4e+02 Score=20.48 Aligned_cols=59 Identities=19% Similarity=0.263 Sum_probs=37.5
Q ss_pred HHHHhHHHHhcCccchhhhhhcCcccchhhhhhhcCCCC------HHHHHHHHHHHHHHHHHHHHHhh
Q 025046 146 RASSVISRLMNDIVSHQFEQKRGHVTTGVECYCKQHGVS------EEEVVKVFTEEVENAWKDMNEEF 207 (258)
Q Consensus 146 ~~~~~i~rL~NDi~S~~~E~~~g~~~n~V~~ym~e~g~s------~eeA~~~i~~~i~~~~k~ln~e~ 207 (258)
-.++.+-||+.|..+|++|..... .-|. =|+..|-. -++++++...||-++-+++...+
T Consensus 4 Ikt~~vkRL~KE~~~Y~kE~~~q~--~rle-~~k~~~~de~~iKkq~~vl~Et~~mipd~~~RL~~a~ 68 (90)
T PF02970_consen 4 IKTGVVKRLLKEEASYEKEVEEQE--ARLE-KMKAEGEDEYDIKKQEEVLEETKMMIPDCQQRLEKAV 68 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--HHHH-HHHHCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHH--HHHH-HHHhcCCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 346788999999999999965321 1121 22223322 25677888888888877776543
No 74
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=21.26 E-value=31 Score=23.16 Aligned_cols=32 Identities=13% Similarity=0.156 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHHHHHhccCcccCCCChhHHHH
Q 025046 18 YGFFEELKLFVEAVQRWDIGAMDILPEYMKVL 49 (258)
Q Consensus 18 ~gt~~El~~~~~ai~rWd~~~~~~lp~~~k~~ 49 (258)
+-+.++++.+.+.+.+|....-..+|..+.+.
T Consensus 3 ~~~~~~a~~~~~~LR~~Kv~~~~~vP~~lEI~ 34 (58)
T PF06883_consen 3 YVSPEEAEQIADQLRYLKVEGEHGVPPTLEIG 34 (58)
T ss_pred eecHHHHHHHHHHHHHHHHcCCCCCCCceEEE
Confidence 45788999999999999887777888777654
No 75
>PRK02304 adenine phosphoribosyltransferase; Provisional
Probab=21.13 E-value=50 Score=26.91 Aligned_cols=22 Identities=27% Similarity=0.357 Sum_probs=17.0
Q ss_pred hheecccccCCCCHHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFVE 29 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~~ 29 (258)
+.++||+++.++|+.++....+
T Consensus 117 VLIVDDivtTG~Tl~~~~~~l~ 138 (175)
T PRK02304 117 VLIVDDLLATGGTLEAAIKLLE 138 (175)
T ss_pred EEEEeCCccccHHHHHHHHHHH
Confidence 4579999999999887755543
No 76
>TIGR01090 apt adenine phosphoribosyltransferase. A phylogenetic analysis suggested omitting the bi-directional best hit homologs from the spirochetes from the seed for this model and making only tentative predictions of adenine phosphoribosyltransferase function for this lineage.
Probab=21.07 E-value=46 Score=26.99 Aligned_cols=22 Identities=23% Similarity=0.291 Sum_probs=17.5
Q ss_pred hheecccccCCCCHHHHHHHHH
Q 025046 8 ASIIDDTFDAYGFFEELKLFVE 29 (258)
Q Consensus 8 ~~~~DD~~D~~gt~~El~~~~~ 29 (258)
+.++||+++.++|+.++.....
T Consensus 112 VLIVDDIitTG~Tl~~a~~~L~ 133 (169)
T TIGR01090 112 VLIVDDLLATGGTAEATDELIR 133 (169)
T ss_pred EEEEeccccchHHHHHHHHHHH
Confidence 4578999999999888765554
No 77
>PRK07322 adenine phosphoribosyltransferase; Provisional
Probab=20.99 E-value=46 Score=27.33 Aligned_cols=22 Identities=27% Similarity=0.424 Sum_probs=17.3
Q ss_pred ehheecccccCCCCHHHHHHHH
Q 025046 7 MASIIDDTFDAYGFFEELKLFV 28 (258)
Q Consensus 7 ~~~~~DD~~D~~gt~~El~~~~ 28 (258)
-+.++||+++.++|+.++....
T Consensus 122 ~VLIVDDiitTG~Tl~aa~~~L 143 (178)
T PRK07322 122 RVAIVDDVVSTGGTLTALERLV 143 (178)
T ss_pred EEEEEeccccccHHHHHHHHHH
Confidence 3568999999999988765443
No 78
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=20.84 E-value=84 Score=24.00 Aligned_cols=22 Identities=18% Similarity=0.199 Sum_probs=17.2
Q ss_pred chhhhh-hhcCCCCHHHHHHHHH
Q 025046 172 TGVECY-CKQHGVSEEEVVKVFT 193 (258)
Q Consensus 172 n~V~~y-m~e~g~s~eeA~~~i~ 193 (258)
..+.+| |+..|.|.++|++.++
T Consensus 94 ~v~~~yl~~~~~~~~~~A~~~v~ 116 (138)
T smart00195 94 TLIIAYLMKYRNLSLNDAYDFVK 116 (138)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHH
Confidence 445565 7778999999999885
No 79
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=20.74 E-value=1.5e+02 Score=20.17 Aligned_cols=21 Identities=33% Similarity=0.455 Sum_probs=16.0
Q ss_pred CCCChhhhhccccccccchhH
Q 025046 98 YVPTWEEYYPVGLVSGGYFML 118 (258)
Q Consensus 98 ~~Pt~eEYl~~~~~s~g~~~~ 118 (258)
..||-+||.+.+.++.-+..+
T Consensus 21 ~KPd~~Ef~~iak~t~iG~~i 41 (61)
T TIGR00327 21 KKPDLEEYLKVAKVTGIGIII 41 (61)
T ss_pred cCCCHHHHHHHHHHHHHHHHH
Confidence 479999999998876654443
No 80
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=20.55 E-value=96 Score=20.73 Aligned_cols=23 Identities=26% Similarity=0.381 Sum_probs=18.4
Q ss_pred chhhhhhhcCCCCHHHHHHHHHH
Q 025046 172 TGVECYCKQHGVSEEEVVKVFTE 194 (258)
Q Consensus 172 n~V~~ym~e~g~s~eeA~~~i~~ 194 (258)
..|+.|.+.+|+|.++|.+.+.+
T Consensus 6 ~~Ie~~A~~~~~s~~ea~~~~~~ 28 (62)
T PF12668_consen 6 FCIEEFAKKLNISGEEAYNYFKR 28 (62)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHH
Confidence 35677888889999999887764
Done!