Query 046807
Match_columns 175
No_of_seqs 134 out of 725
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 04:39:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046807hhsearch_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 2.8E-67 6.1E-72 482.3 16.0 173 1-175 66-243 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 5.3E-59 1.1E-63 441.5 16.6 171 1-175 283-477 (784)
3 PLN02592 ent-copalyl diphospha 100.0 4.1E-57 8.8E-62 428.3 15.8 174 1-175 323-525 (800)
4 PF01397 Terpene_synth: Terpen 100.0 1.1E-48 2.5E-53 316.6 13.2 122 1-123 59-183 (183)
5 PF11848 DUF3368: Domain of un 53.5 6.1 0.00013 25.0 0.7 26 34-59 20-45 (48)
6 PF14164 YqzH: YqzH-like prote 51.4 8.2 0.00018 26.5 1.1 19 39-57 11-29 (64)
7 KOG3951 Uncharacterized conser 36.9 52 0.0011 28.7 4.0 42 58-101 263-307 (321)
8 COG5123 TOA2 Transcription ini 36.3 20 0.00043 26.9 1.2 43 69-124 1-43 (113)
9 COG1725 Predicted transcriptio 34.1 76 0.0016 24.4 4.2 55 30-91 47-115 (125)
10 KOG3463 Transcription initiati 34.0 28 0.0006 26.2 1.6 39 72-123 3-41 (109)
11 PF08373 RAP: RAP domain; Int 33.8 29 0.00063 22.0 1.6 26 32-57 17-42 (58)
12 PF07862 Nif11: Nitrogen fixat 27.7 33 0.00072 21.3 1.0 14 40-53 34-47 (49)
13 KOG0835 Cyclin L [General func 27.6 1.6E+02 0.0035 26.6 5.6 85 34-135 121-209 (367)
14 PF00233 PDEase_I: 3'5'-cyclic 22.4 44 0.00095 27.8 1.1 43 2-49 48-90 (237)
15 PF07582 AP_endonuc_2_N: AP en 21.7 50 0.0011 21.7 1.0 12 38-49 5-16 (55)
16 PF03578 HGWP: HGWP repeat; I 21.0 33 0.00073 19.7 0.1 13 41-53 8-20 (28)
17 PRK02047 hypothetical protein; 20.2 1.4E+02 0.0029 21.4 3.2 45 35-79 30-81 (91)
18 PF10775 ATP_sub_h: ATP syntha 20.1 68 0.0015 22.1 1.5 14 161-174 10-23 (67)
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=2.8e-67 Score=482.33 Aligned_cols=173 Identities=52% Similarity=0.843 Sum_probs=160.9
Q ss_pred CCCccccHHHHHHHHHHHHhcCCCcc-cccCChhhhHHHHHHHHhcCCCcccccccccccCCCcc---cccchHHHHHHH
Q 046807 1 LGLAYHFETEIRKILHNIYNSNKDYN-WRKENLYATSLEFRLLRQHGYPVSQDVFNGFKDDKGGF---ICNDFKEIMSLH 76 (175)
Q Consensus 1 LGI~~hF~~EI~~~L~~i~~~~~~~~-~~~~dl~~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F---~~~d~~glL~LY 76 (175)
|||+|||++||+++|++||+.+.... ....||++|||+|||||||||+||||||++|+|++|+| +.+||+||||||
T Consensus 66 LGi~~hF~~EI~~~L~~i~~~~~~~~~~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly 145 (542)
T cd00684 66 LGISYHFEDEIKEILDYIYRYWTERGESNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLY 145 (542)
T ss_pred cCchhhhHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHH
Confidence 89999999999999999998653321 22579999999999999999999999999999999999 789999999999
Q ss_pred HhhcCCCCCccHHHHHHHHHHHHHHHHHhhc-CCCCChhHHHHHHHhcCCCccCCchHHHHHhhHHHhhccCcccHHHHH
Q 046807 77 EASYYSFEGESIMEEAWQFTSKHLKEVMISK-SKQGDVFVAEQAKRALELPLHWKVPMLEARWFIDVYEKREDKNHLLLE 155 (175)
Q Consensus 77 eAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~-~~~~~~~l~~~V~~aL~~P~~~~l~Rlear~yI~~Y~~~~~~n~~lLe 155 (175)
||||+++|||+|||||++||++||++++.++ .+ +++|+++|++||++||||++||+||||||++|++++++|++||+
T Consensus 146 ~As~l~~~gE~iLdeA~~ft~~~L~~~~~~~~~~--~~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLe 223 (542)
T cd00684 146 EASHLSFPGEDILDEALSFTTKHLEEKLESNWII--DPDLSGEIEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLE 223 (542)
T ss_pred HHhhcCCCCcHHHHHHHHHHHHHHHHHhhccCCC--CchHHHHHHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHH
Confidence 9999999999999999999999999999332 15 78999999999999999999999999999999999999999999
Q ss_pred HHHhhhHHHHHHHHHHhhcC
Q 046807 156 LAKMEFNVLQAIYQEELKDF 175 (175)
Q Consensus 156 lAklDFn~~Q~~hq~EL~~l 175 (175)
|||+|||+||++||+||+++
T Consensus 224 lAkldfn~~Q~~hq~El~~~ 243 (542)
T cd00684 224 LAKLDFNILQALHQEELKIL 243 (542)
T ss_pred HHHHHHHHHhHhHHHHHHHH
Confidence 99999999999999999874
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=5.3e-59 Score=441.46 Aligned_cols=171 Identities=31% Similarity=0.463 Sum_probs=155.8
Q ss_pred CCCccccHHHHHHHHHHHHhcCCC-cccccCChhhhHHHHHHHHhcCCCcccccccccccCCCcc---c---ccchHHHH
Q 046807 1 LGLAYHFETEIRKILHNIYNSNKD-YNWRKENLYATSLEFRLLRQHGYPVSQDVFNGFKDDKGGF---I---CNDFKEIM 73 (175)
Q Consensus 1 LGI~~hF~~EI~~~L~~i~~~~~~-~~~~~~dl~~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F---~---~~d~~glL 73 (175)
|||+|||++||+++|+.+|+.+.. ......|+++|||+|||||||||+||||||++|+|++ | + .+||+|||
T Consensus 283 lGi~~hF~~EI~~~L~~~~~~~~~~~~~~~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~~--F~~~l~~~~~dv~gmL 360 (784)
T PLN02279 283 LGIDRHFRKEIKSVLDETYRYWLQGEEEIFLDLATCALAFRILRLNGYDVSSDPLKQFAEDH--FSDSLGGYLKDTGAVL 360 (784)
T ss_pred hCCccccHHHHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHHHcCCCCChhHHhhcCCCc--ccchhcccchhhHHHH
Confidence 799999999999999999986532 1223579999999999999999999999999999765 7 4 58999999
Q ss_pred HHHHhhcCCCCCccHHHHHHHHHHHHHHHHHhhcC-----CCCChhHHHHHHHhcCCCccCCchHHHHHhhHHHhhccCc
Q 046807 74 SLHEASYYSFEGESIMEEAWQFTSKHLKEVMISKS-----KQGDVFVAEQAKRALELPLHWKVPMLEARWFIDVYEKRED 148 (175)
Q Consensus 74 ~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~-----~~~~~~l~~~V~~aL~~P~~~~l~Rlear~yI~~Y~~~~~ 148 (175)
|||||||+++|||.|||||+.||++||++.+.++. + +++|+++|++||++|||+++||+|||+||++|++++.
T Consensus 361 ~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~--~~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~~~~~ 438 (784)
T PLN02279 361 ELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRL--RKYIKKEVEDALNFPYYANLERLANRRSIENYAVDDT 438 (784)
T ss_pred HHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhccccccccc--CccHHHHHHHHhcCchhcCccHHHHHHHHHHhccccc
Confidence 99999999999999999999999999999885432 4 6789999999999999999999999999999998875
Q ss_pred ------------ccHHHHHHHHhhhHHHHHHHHHHhhcC
Q 046807 149 ------------KNHLLLELAKMEFNVLQAIYQEELKDF 175 (175)
Q Consensus 149 ------------~n~~lLelAklDFn~~Q~~hq~EL~~l 175 (175)
+|++||||||+|||+||++||+||+++
T Consensus 439 ~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l 477 (784)
T PLN02279 439 RILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQL 477 (784)
T ss_pred hhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 899999999999999999999999975
No 3
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=4.1e-57 Score=428.26 Aligned_cols=174 Identities=33% Similarity=0.476 Sum_probs=155.5
Q ss_pred CCCccccHHHHHHHHHHHHhcCCC--cc----cccCChhhhHHHHHHHHhcCCCcccccccccccCCCcc------cccc
Q 046807 1 LGLAYHFETEIRKILHNIYNSNKD--YN----WRKENLYATSLEFRLLRQHGYPVSQDVFNGFKDDKGGF------ICND 68 (175)
Q Consensus 1 LGI~~hF~~EI~~~L~~i~~~~~~--~~----~~~~dl~~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F------~~~d 68 (175)
|||+|||++||+++|+.+|+.+.. .. ....|+++|||+|||||||||+||||||++|++ +|.| ..+|
T Consensus 323 LGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F~~-~g~F~~~~ge~~~D 401 (800)
T PLN02592 323 LGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHFEK-GGEFFCFAGQSTQA 401 (800)
T ss_pred cCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhhcC-CCCccccccccccc
Confidence 799999999999999999985422 11 124799999999999999999999999999997 7999 2789
Q ss_pred hHHHHHHHHhhcCCCCCccHHHHHHHHHHHHHHHHHhhcCCC----CChhHHHHHHHhcCCCccCCchHHHHHhhHHHhh
Q 046807 69 FKEIMSLHEASYYSFEGESIMEEAWQFTSKHLKEVMISKSKQ----GDVFVAEQAKRALELPLHWKVPMLEARWFIDVYE 144 (175)
Q Consensus 69 ~~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~----~~~~l~~~V~~aL~~P~~~~l~Rlear~yI~~Y~ 144 (175)
++|||+||||||+++|||.|||+|+.||+++|++.+..+++. .+++|+++|+|||++||||+|||+||||||++|+
T Consensus 402 v~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~~~L~~eV~~AL~~P~~~~l~RlEaR~yI~~Y~ 481 (800)
T PLN02592 402 VTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIMKDLPGEVGFALEIPWYASLPRVETRFYIEQYG 481 (800)
T ss_pred hHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccCccHHHHHHHhccChhhcCcchHHHHHHHHHhc
Confidence 999999999999999999999999999999999987423221 1568999999999999999999999999999999
Q ss_pred ccCcc-------------cHHHHHHHHhhhHHHHHHHHHHhhcC
Q 046807 145 KREDK-------------NHLLLELAKMEFNVLQAIYQEELKDF 175 (175)
Q Consensus 145 ~~~~~-------------n~~lLelAklDFn~~Q~~hq~EL~~l 175 (175)
+++++ |+.||||||+|||+||++||+||+++
T Consensus 482 ~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~l 525 (800)
T PLN02592 482 GEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNF 525 (800)
T ss_pred CCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 87764 99999999999999999999999875
No 4
>PF01397 Terpene_synth: Terpene synthase, N-terminal domain; InterPro: IPR001906 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: 0016829 lyase activity, 0008152 metabolic process; PDB: 2ONH_A 2ONG_B 3P5R_A 3P5P_A 3N0F_A 3N0G_B 3PYB_A 3PYA_A 3G4F_A 3G4D_B ....
Probab=100.00 E-value=1.1e-48 Score=316.64 Aligned_cols=122 Identities=53% Similarity=0.839 Sum_probs=103.3
Q ss_pred CCCccccHHHHHHHHHHHHhcCCCcccccCChhhhHHHHHHHHhcCCCcccccccccccCCCcc---cccchHHHHHHHH
Q 046807 1 LGLAYHFETEIRKILHNIYNSNKDYNWRKENLYATSLEFRLLRQHGYPVSQDVFNGFKDDKGGF---ICNDFKEIMSLHE 77 (175)
Q Consensus 1 LGI~~hF~~EI~~~L~~i~~~~~~~~~~~~dl~~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F---~~~d~~glL~LYe 77 (175)
|||+|||++||+++|++||+.+........||++|||+|||||||||+||||||++|+|++|+| +++||+|||+|||
T Consensus 59 LGi~yhFe~EI~~~L~~i~~~~~~~~~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYe 138 (183)
T PF01397_consen 59 LGISYHFEDEIKEILDSIYRSWDEDNEEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYE 138 (183)
T ss_dssp TTCGGGGHHHHHHHHHHHHHTTTTTSHTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHH
T ss_pred cCCcHHHHHHHHHHHHHHhhhccccccccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHH
Confidence 8999999999999999999876544333459999999999999999999999999999999999 8899999999999
Q ss_pred hhcCCCCCccHHHHHHHHHHHHHHHHHhhcCCCCChhHHHHHHHhc
Q 046807 78 ASYYSFEGESIMEEAWQFTSKHLKEVMISKSKQGDVFVAEQAKRAL 123 (175)
Q Consensus 78 AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~l~~~V~~aL 123 (175)
|||++++||+|||+|+.||+++|++++.+...+ +++|+++|+|||
T Consensus 139 AS~l~~~gE~iLdeA~~Ft~~~L~~~~~~~~~~-~~~L~~~V~~AL 183 (183)
T PF01397_consen 139 ASHLRFHGEDILDEARAFTTKHLKSLLSNLSIP-DPHLAKEVKHAL 183 (183)
T ss_dssp HHTT--TT-HHHHHHHHHHHHHHHHHHTTTCTT-SCHHHHHHHHHH
T ss_pred HHHccCCChHHHHHHHHHHHHHHHHHhccCCCC-cHHHHHHHHHhC
Confidence 999999999999999999999999999444332 346999999997
No 5
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=53.47 E-value=6.1 Score=25.02 Aligned_cols=26 Identities=15% Similarity=0.256 Sum_probs=19.4
Q ss_pred hhHHHHHHHHhcCCCccccccccccc
Q 046807 34 ATSLEFRLLRQHGYPVSQDVFNGFKD 59 (175)
Q Consensus 34 ~~AL~FRLLRqhGy~VS~Dvf~~F~d 59 (175)
.+.=.+.-|+++|+++|+++++.+..
T Consensus 20 ~~~~~l~~l~~~g~~is~~l~~~~L~ 45 (48)
T PF11848_consen 20 EVKPLLDRLQQAGFRISPKLIEEILR 45 (48)
T ss_pred hHHHHHHHHHHcCcccCHHHHHHHHH
Confidence 44445666799999999999877653
No 6
>PF14164 YqzH: YqzH-like protein
Probab=51.38 E-value=8.2 Score=26.46 Aligned_cols=19 Identities=32% Similarity=0.321 Sum_probs=15.4
Q ss_pred HHHHHhcCCCccccccccc
Q 046807 39 FRLLRQHGYPVSQDVFNGF 57 (175)
Q Consensus 39 FRLLRqhGy~VS~Dvf~~F 57 (175)
=+-|||.||++.++.+...
T Consensus 11 ~~~l~QYg~d~~~~pls~~ 29 (64)
T PF14164_consen 11 INCLRQYGYDVECMPLSDE 29 (64)
T ss_pred HHHHHHhCCcccCCCCCHH
Confidence 3568999999999987664
No 7
>KOG3951 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.94 E-value=52 Score=28.71 Aligned_cols=42 Identities=29% Similarity=0.373 Sum_probs=30.8
Q ss_pred ccCCCcc---cccchHHHHHHHHhhcCCCCCccHHHHHHHHHHHHHH
Q 046807 58 KDDKGGF---ICNDFKEIMSLHEASYYSFEGESIMEEAWQFTSKHLK 101 (175)
Q Consensus 58 ~d~~G~F---~~~d~~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~ 101 (175)
-+.+|.| ..-|+||...|-.+-- ....| -|=.|..||++||+
T Consensus 263 Vhp~GAFv~~s~iDmkgcvrllk~q~-p~~~e-~LLnaLRfTTKHlN 307 (321)
T KOG3951|consen 263 VHPNGAFVSNSSIDMKGCVRLLKLQP-PEQSE-CLLNALRFTTKHLN 307 (321)
T ss_pred ccccccccccCcCcHHHHHHHHHcCC-chhhH-HHHHHHHHHHhhcC
Confidence 3567888 5669999999988753 33334 45578999999995
No 8
>COG5123 TOA2 Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=36.32 E-value=20 Score=26.88 Aligned_cols=43 Identities=12% Similarity=0.050 Sum_probs=27.2
Q ss_pred hHHHHHHHHhhcCCCCCccHHHHHHHHHHHHHHHHHhhcCCCCChhHHHHHHHhcC
Q 046807 69 FKEIMSLHEASYYSFEGESIMEEAWQFTSKHLKEVMISKSKQGDVFVAEQAKRALE 124 (175)
Q Consensus 69 ~~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~l~~~V~~aL~ 124 (175)
+.|+.+||+-|-++--=|++||+ .++.+.+ +|+++..|-...+
T Consensus 1 v~~yYElYRrs~ig~~L~dalD~-----------lis~g~i--sp~lam~vLetFD 43 (113)
T COG5123 1 VPGYYELYRRSMIGKVLEDALDE-----------LISAGVI--SPNLAMHVLETFD 43 (113)
T ss_pred CccHHHHHHHHHHHHHHHHHHHH-----------HHhcCCc--CHHHHHHHHHHhh
Confidence 35889999999775333444443 4545677 7777766655443
No 9
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=34.12 E-value=76 Score=24.38 Aligned_cols=55 Identities=27% Similarity=0.389 Sum_probs=34.3
Q ss_pred CChhhhHHHHHHHHhcCCCcccccccccccCCCcccccchHHHH------------H--HHHhhcCCCCCccHHHH
Q 046807 30 ENLYATSLEFRLLRQHGYPVSQDVFNGFKDDKGGFICNDFKEIM------------S--LHEASYYSFEGESIMEE 91 (175)
Q Consensus 30 ~dl~~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F~~~d~~glL------------~--LYeAS~l~~~gE~iLde 91 (175)
-+.+|++=+|+.|.+.||=-+-- ..|.|.+.|.+.++ + +.+|..++++-|.|++=
T Consensus 47 VNpnTv~raY~eLE~eG~i~t~r-------g~G~fV~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~G~s~eei~~~ 115 (125)
T COG1725 47 VNPNTVQRAYQELEREGIVETKR-------GKGTFVTEDAKEILDQLKRELAEEELEEFIEEAKALGLSLEEILEL 115 (125)
T ss_pred CCHHHHHHHHHHHHHCCCEEEec-------CeeEEEcCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 48999999999999999754433 34556555533222 1 45556666655555443
No 10
>KOG3463 consensus Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=33.97 E-value=28 Score=26.24 Aligned_cols=39 Identities=10% Similarity=0.029 Sum_probs=25.0
Q ss_pred HHHHHHhhcCCCCCccHHHHHHHHHHHHHHHHHhhcCCCCChhHHHHHHHhc
Q 046807 72 IMSLHEASYYSFEGESIMEEAWQFTSKHLKEVMISKSKQGDVFVAEQAKRAL 123 (175)
Q Consensus 72 lL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~l~~~V~~aL 123 (175)
+.+|||.+-++-.=+++ |.++++.+.+ +|+|+.+|-...
T Consensus 3 ~YelYR~ttlG~~L~~t-----------LDe~v~~g~i--tp~la~~VL~~F 41 (109)
T KOG3463|consen 3 YYELYRRTTLGNALQKT-----------LDELVSDGVI--TPSLAKKVLEQF 41 (109)
T ss_pred HHHHHHHhhHHHHHHHH-----------HHHHHHcCCC--CHHHHHHHHHHH
Confidence 56899999875322233 5556666777 777877664433
No 11
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=33.76 E-value=29 Score=21.99 Aligned_cols=26 Identities=27% Similarity=0.353 Sum_probs=20.5
Q ss_pred hhhhHHHHHHHHhcCCCccccccccc
Q 046807 32 LYATSLEFRLLRQHGYPVSQDVFNGF 57 (175)
Q Consensus 32 l~~~AL~FRLLRqhGy~VS~Dvf~~F 57 (175)
...++|.=|+|+..||.|-+=.|-.+
T Consensus 17 ~g~t~lk~r~L~~~G~~Vi~Ip~~eW 42 (58)
T PF08373_consen 17 TGSTKLKHRHLKALGYKVISIPYYEW 42 (58)
T ss_pred chHHHHHHHHHHHCCCEEEEecHHHH
Confidence 46899999999999999965544443
No 12
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=27.65 E-value=33 Score=21.33 Aligned_cols=14 Identities=29% Similarity=0.610 Sum_probs=11.1
Q ss_pred HHHHhcCCCccccc
Q 046807 40 RLLRQHGYPVSQDV 53 (175)
Q Consensus 40 RLLRqhGy~VS~Dv 53 (175)
.+-|.+||.+|++-
T Consensus 34 ~lA~~~Gy~ft~~e 47 (49)
T PF07862_consen 34 ALAREAGYDFTEEE 47 (49)
T ss_pred HHHHHcCCCCCHHH
Confidence 35699999999763
No 13
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=27.59 E-value=1.6e+02 Score=26.55 Aligned_cols=85 Identities=19% Similarity=0.312 Sum_probs=54.7
Q ss_pred hhHHHHHHHHhcCCCcccccccccccCCCcccccchHHHHHHHHhhcCCCCCccHHHHHHHHHHHHHHHHHhhcCCCCCh
Q 046807 34 ATSLEFRLLRQHGYPVSQDVFNGFKDDKGGFICNDFKEIMSLHEASYYSFEGESIMEEAWQFTSKHLKEVMISKSKQGDV 113 (175)
Q Consensus 34 ~~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F~~~d~~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~ 113 (175)
.+=..-|+||.-||.|+ | .++.+++--|=+.-=..++..|+..|++|...-|..-+ =....+.
T Consensus 121 ~ir~e~~ILr~LGF~~H------v---------~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v--~vry~pe 183 (367)
T KOG0835|consen 121 VIRAERRILRELGFDVH------V---------EHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDV--FVRYSPE 183 (367)
T ss_pred HHHHHHHHHHHhCCeee------e---------eccHHHHHHHHHHhcCCCchhHHHHHHHhhhhccccce--eeecCHH
Confidence 33344589999999883 2 45666777777764445788899999999887776533 1111011
Q ss_pred hH----HHHHHHhcCCCccCCchHHH
Q 046807 114 FV----AEQAKRALELPLHWKVPMLE 135 (175)
Q Consensus 114 ~l----~~~V~~aL~~P~~~~l~Rle 135 (175)
.+ .-.-.+.++.|++.+.+++.
T Consensus 184 ~iACaciyLaAR~~eIpLp~~P~Wf~ 209 (367)
T KOG0835|consen 184 SIACACIYLAARNLEIPLPFQPHWFK 209 (367)
T ss_pred HHHHHHHHHHHhhhcCCCCCCccHHH
Confidence 22 23345678888888887654
No 14
>PF00233 PDEase_I: 3'5'-cyclic nucleotide phosphodiesterase; InterPro: IPR002073 The cyclic nucleotide phosphodiesterases (PDE) comprise a group of enzymes that degrade the phosphodiester bond in the second messenger molecules cAMP and cGMP. They are divided into 11 families. They regulate the localisation, duration and amplitude of cyclic nucleotide signalling within subcellular domains. PDEs are therefore important for signal transduction. PDE enzymes are often targets for pharmacological inhibition due to their unique tissue distribution, structural properties, and functional properties. Inhibitors include: Roflumilast for chronic obstructive pulmonary disease and asthma [], Sildenafil for erectile dysfunction [] and Cilostazol for peripheral arterial occlusive disease [], amongst others. Retinal 3',5'-cGMP phosphodiesterase is located in photoreceptor outer segments: it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion. This entry represents the catalytic domain of PDE which is multihelical and can be divided into three subdomains.; GO: 0004114 3',5'-cyclic-nucleotide phosphodiesterase activity, 0007165 signal transduction; PDB: 3I8V_A 3TVX_A 2QYK_A 1ZKL_A 3G3N_A 4DFF_B 2OUS_B 3SNL_A 2OUY_A 2OUP_B ....
Probab=22.39 E-value=44 Score=27.80 Aligned_cols=43 Identities=23% Similarity=0.336 Sum_probs=28.8
Q ss_pred CCccccHHHHHHHHHHHHhcCCCcccccCChhhhHHHHHHHHhcCCCc
Q 046807 2 GLAYHFETEIRKILHNIYNSNKDYNWRKENLYATSLEFRLLRQHGYPV 49 (175)
Q Consensus 2 GI~~hF~~EI~~~L~~i~~~~~~~~~~~~dl~~~AL~FRLLRqhGy~V 49 (175)
|++--|....+..|-.+|...+ .-.-+.+|+.|+||+..|+++
T Consensus 48 G~~N~flv~~~~~LA~~Y~d~S-----vLE~~H~~~~~~lL~~~~~ni 90 (237)
T PF00233_consen 48 GVNNAFLVKTNSPLAILYNDRS-----VLENHHCALAFQLLRKEECNI 90 (237)
T ss_dssp SSCHHHHHHTTSHHHHHTTTSS-----HHHHHHHHHHHHHHTSTTTTT
T ss_pred ccccchhhccccchhhhcCccC-----CccccHHHHHHHHHHhhhhhh
Confidence 5555566666666666664211 224678899999999988765
No 15
>PF07582 AP_endonuc_2_N: AP endonuclease family 2 C terminus; InterPro: IPR011418 DNA damaging agents such as the anti-tumour drugs bleomycin and neocarzinostatin or those that generate oxygen radicals produce a variety of lesions in DNA. Amongst these is base-loss which forms apurinic/apyrimidinic (AP) sites or strand breaks with atypical 3' termini. DNA repair at the AP sites is initiated by specific endonuclease cleavage of the phosphodiester backbone. Such endonucleases are also generally capable of removing blocking groups from the 3' terminus of DNA strand breaks. AP endonucleases can be classified into two families based on sequence similarity []. This entry represents a highly-conserved sequence found at the C terminus of several apurinic/apyrimidinic (AP) endonucleases in a range of Gram-positive and Gram-negative bacteria. ; PDB: 3LMZ_A 2ZDS_D.
Probab=21.69 E-value=50 Score=21.75 Aligned_cols=12 Identities=42% Similarity=0.598 Sum_probs=8.4
Q ss_pred HHHHHHhcCCCc
Q 046807 38 EFRLLRQHGYPV 49 (175)
Q Consensus 38 ~FRLLRqhGy~V 49 (175)
.|+-||+.||+=
T Consensus 5 i~~~L~~~GYdG 16 (55)
T PF07582_consen 5 IFSALREIGYDG 16 (55)
T ss_dssp HHHHHHHTT--S
T ss_pred HHHHHHHcCCCc
Confidence 488999999974
No 16
>PF03578 HGWP: HGWP repeat; InterPro: IPR005213 This short (30 amino acids) repeat is found in a number of plant proteins. It contains a conserved HGWP motif, hence its name. The function of these proteins is unknown.
Probab=20.97 E-value=33 Score=19.73 Aligned_cols=13 Identities=38% Similarity=0.833 Sum_probs=10.4
Q ss_pred HHHhcCCCccccc
Q 046807 41 LLRQHGYPVSQDV 53 (175)
Q Consensus 41 LLRqhGy~VS~Dv 53 (175)
-||.||..|+|-.
T Consensus 8 c~rLhGW~i~ppl 20 (28)
T PF03578_consen 8 CLRLHGWPIMPPL 20 (28)
T ss_pred heeeccCcccCcc
Confidence 3789999998754
No 17
>PRK02047 hypothetical protein; Provisional
Probab=20.20 E-value=1.4e+02 Score=21.41 Aligned_cols=45 Identities=9% Similarity=0.160 Sum_probs=31.8
Q ss_pred hHHHHHHHHhcCCCcccccccccccCCCcc-------cccchHHHHHHHHhh
Q 046807 35 TSLEFRLLRQHGYPVSQDVFNGFKDDKGGF-------ICNDFKEIMSLHEAS 79 (175)
Q Consensus 35 ~AL~FRLLRqhGy~VS~Dvf~~F~d~~G~F-------~~~d~~glL~LYeAS 79 (175)
.+--..++++|...++.+....=.-.+|+| ...+-.-+.++|++-
T Consensus 30 ~~~v~~iv~~~~~~~~~~~i~~k~Ss~GkY~Svtv~v~v~s~eq~~~iY~~L 81 (91)
T PRK02047 30 ADTIFKVVSVHDPEFDLEKIEERPSSGGNYTGLTITVRATSREQLDNIYRAL 81 (91)
T ss_pred HHHHHHHHHHhCCCCccCceEEccCCCCeEEEEEEEEEECCHHHHHHHHHHH
Confidence 445567788887777666554444567999 457888899999874
No 18
>PF10775 ATP_sub_h: ATP synthase complex subunit h; InterPro: IPR019711 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit H found in the F0 complex of F-ATPases from fungal mitochondria. Subunit H is homologous to the mammalian factor F6, and is essential for the correct assembly and/or functioning of F-ATPases, since yeast cells lacking it are not able to grow on non-fermentable carbon sources. Subunit H occupies a central place in the peripheral stalk between the F1 sector and the membrane [].
Probab=20.13 E-value=68 Score=22.09 Aligned_cols=14 Identities=36% Similarity=0.634 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHhhc
Q 046807 161 FNVLQAIYQEELKD 174 (175)
Q Consensus 161 Fn~~Q~~hq~EL~~ 174 (175)
=|++|-+|-+|||.
T Consensus 10 ~d~VQDLYLkELKa 23 (67)
T PF10775_consen 10 ADLVQDLYLKELKA 23 (67)
T ss_pred ccHHHHHHHHHHHh
Confidence 36899999999985
Done!