Query 041642
Match_columns 265
No_of_seqs 155 out of 742
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 09:15:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041642.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041642hhsearch_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 1.5E-80 3.2E-85 615.0 21.5 239 23-265 1-245 (542)
2 PLN02279 ent-kaur-16-ene synth 100.0 3.6E-61 7.7E-66 491.9 16.9 191 69-265 267-479 (784)
3 PF01397 Terpene_synth: Terpen 100.0 1.2E-60 2.7E-65 415.5 13.0 175 33-211 1-183 (183)
4 PLN02592 ent-copalyl diphospha 100.0 2.9E-60 6.3E-65 484.6 16.3 194 69-265 307-527 (800)
5 KOG3951 Uncharacterized conser 37.6 51 0.0011 31.0 4.3 57 147-212 264-320 (321)
6 cd07604 BAR_ASAPs The Bin/Amph 36.5 63 0.0014 29.1 4.7 87 48-148 12-100 (215)
7 PF11848 DUF3368: Domain of un 34.2 19 0.0004 24.6 0.7 24 123-146 21-44 (48)
8 PF14164 YqzH: YqzH-like prote 33.1 23 0.00049 26.3 1.0 19 127-145 11-29 (64)
9 PF08373 RAP: RAP domain; Int 26.6 46 0.001 22.8 1.7 26 120-145 17-42 (58)
10 PF11000 DUF2840: Protein of u 24.7 43 0.00093 28.7 1.5 16 75-90 96-111 (149)
11 PF10866 DUF2704: Protein of u 21.8 2.3E+02 0.0051 24.7 5.3 48 53-105 66-113 (168)
12 PF09278 MerR-DNA-bind: MerR, 21.5 90 0.0019 21.7 2.4 23 75-100 2-24 (65)
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=1.5e-80 Score=614.96 Aligned_cols=239 Identities=54% Similarity=0.818 Sum_probs=220.7
Q ss_pred ccCCCCCCCCCcc-CccccCCCCcchhhHHHHHHHHHHHHHHHHHhc--cCCccccchhHHHHHHHhCcccccHHHHHHH
Q 041642 23 RRSANFHPSIWGD-RFLSYTSDSMEKDDGSAKHQELKEEIRRMLKAY--INKPTQNNLDLIDAIQRLGVSYHFESEIDEI 99 (265)
Q Consensus 23 r~~a~~~ps~W~~-~fl~~~~~~~~~~~~~~~~e~LkeeVr~~l~~~--~~d~~~~~L~lID~lqRLGI~~hFe~EI~~~ 99 (265)
||+++|+||+||+ .|+++++++.....+.+++++||++||+||... +.|++ ++|+|||+||||||+|||++||+++
T Consensus 1 r~~~~~~~~~w~~~~~~s~~~~~~~~~~~~~~~~~lk~~v~~~~~~~~~~~~~~-~~l~liD~lqrLGi~~hF~~EI~~~ 79 (542)
T cd00684 1 RPSANFPPSLWGDDHFLSLSSDYSEEDELEEEIEELKEEVRKMLEDSEYPVDLF-ERLWLIDRLQRLGISYHFEDEIKEI 79 (542)
T ss_pred CCCCCCCCCcCCCcceeecCCCcchhHHHHHHHHHHHHHHHHHHHhcccCCCHH-HHHHHHHHHHHcCchhhhHHHHHHH
Confidence 7899999999999 666666655433368899999999999999864 67999 9999999999999999999999999
Q ss_pred HHHHHhhhccCCCCCCCCCchhhHHHHHHHHhhcCccccccccccccccccccccccchhhHHHHHHHHhhccCCCCchH
Q 041642 100 LGKLHEAHQDCGLGDNENDELYYISLQFRLLRQHGCKISADVFKRFKDSDGNFKTSLAKDVGGMLSLYEATHLGVHEENI 179 (265)
Q Consensus 100 L~~i~~~~~~~g~~~~~~~DL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~G~Fk~~l~~Dv~glLsLYeAS~l~~~gE~i 179 (265)
|++||++|...| .....||++|||+|||||||||+||||||++|+|++|+|++++.+||+|||+|||||||+++||+|
T Consensus 80 L~~i~~~~~~~~--~~~~~dl~~~al~FRlLR~~Gy~vs~dvf~~F~~~~g~f~~~~~~d~~g~l~Ly~As~l~~~gE~i 157 (542)
T cd00684 80 LDYIYRYWTERG--ESNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGKFKESLTQDVKGMLSLYEASHLSFPGEDI 157 (542)
T ss_pred HHHHHHhhcccc--cccCCCHHHHHHHHHHHHHcCCCcCHHHHhhhcCCCCCcCchhhhhhHHHHHHHHHhhcCCCCcHH
Confidence 999999864322 113579999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhh---cCCCChHHHHHHhccCCcccCchhhHHhhcccccccCCcccHHHHHHHHhhhHHHHHHH
Q 041642 180 LDEALAFTTSHLESIAAH---QIGSPLAERVKHALIQPIHRGLQRLEARHYIPIYQEQSSHNEALLTFAKLDFNKLQKLH 256 (265)
Q Consensus 180 LdeA~~Fs~~~L~~~~~~---~~~~~l~~~V~~aL~~P~h~~l~Rlear~yI~~Y~~~~~~n~~lLelAklDFn~~Qs~h 256 (265)
||||+.||+++|++.+++ ++ ++|+++|++||++|||+++||+|||+||+.|+++.++|++||||||+|||+||++|
T Consensus 158 LdeA~~ft~~~L~~~~~~~~~~~-~~l~~~V~~aL~~P~~~~~~rlear~yi~~Y~~~~~~n~~lLelAkldfn~~Q~~h 236 (542)
T cd00684 158 LDEALSFTTKHLEEKLESNWIID-PDLSGEIEYALEIPLHASLPRLEARWYIEFYEQEDDHNETLLELAKLDFNILQALH 236 (542)
T ss_pred HHHHHHHHHHHHHHHhhccCCCC-chHHHHHHHHccCchhcCCchHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhHhH
Confidence 999999999999999986 77 89999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhC
Q 041642 257 QKELGDISR 265 (265)
Q Consensus 257 q~EL~~lsr 265 (265)
|+||++++|
T Consensus 237 q~El~~~~r 245 (542)
T cd00684 237 QEELKILSR 245 (542)
T ss_pred HHHHHHHhH
Confidence 999999875
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=3.6e-61 Score=491.92 Aligned_cols=191 Identities=30% Similarity=0.469 Sum_probs=176.0
Q ss_pred cCCccccchhHHHHHHHhCcccccHHHHHHHHHHHHhhhccCCCCCCCCCchhhHHHHHHHHhhcCcccccccccccccc
Q 041642 69 INKPTQNNLDLIDAIQRLGVSYHFESEIDEILGKLHEAHQDCGLGDNENDELYYISLQFRLLRQHGCKISADVFKRFKDS 148 (265)
Q Consensus 69 ~~d~~~~~L~lID~lqRLGI~~hFe~EI~~~L~~i~~~~~~~g~~~~~~~DL~~~AL~FRLLRqhGy~VS~DvF~~F~d~ 148 (265)
|.+++ +++++||+||||||+|||++||+++|+.+|++|. .|. .....|+++|||+|||||||||+||||||++|+|+
T Consensus 267 p~~~f-e~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~-~~~-~~~~~Dl~~tAl~FRLLR~hGy~VS~dvf~~F~~~ 343 (784)
T PLN02279 267 PLDQY-ARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWL-QGE-EEIFLDLATCALAFRILRLNGYDVSSDPLKQFAED 343 (784)
T ss_pred cccHH-HHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhc-ccc-cCCCCCHHHHHHHHHHHHHcCCCCChhHHhhcCCC
Confidence 57889 9999999999999999999999999999999863 222 11347999999999999999999999999999965
Q ss_pred cccccccc---chhhHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhh-------cCCCChHHHHHHhccCCcccC
Q 041642 149 DGNFKTSL---AKDVGGMLSLYEATHLGVHEENILDEALAFTTSHLESIAAH-------QIGSPLAERVKHALIQPIHRG 218 (265)
Q Consensus 149 ~G~Fk~~l---~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~-------~~~~~l~~~V~~aL~~P~h~~ 218 (265)
+ |++++ .+||+|||+||||||+++|||+|||||+.||++||++.++. ++ ++|+++|++||++|||++
T Consensus 344 -~-F~~~l~~~~~dv~gmL~LY~AS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~~~~~-~~L~~eV~~AL~~P~~~~ 420 (784)
T PLN02279 344 -H-FSDSLGGYLKDTGAVLELFRASQISYPDESLLEKQNSWTSHFLEQGLSNWSKTADRLR-KYIKKEVEDALNFPYYAN 420 (784)
T ss_pred -c-ccchhcccchhhHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHhcccccccccC-ccHHHHHHHHhcCchhcC
Confidence 4 99888 59999999999999999999999999999999999998874 45 789999999999999999
Q ss_pred chhhHHhhcccccccCCc------------ccHHHHHHHHhhhHHHHHHHHHHHHhhhC
Q 041642 219 LQRLEARHYIPIYQEQSS------------HNEALLTFAKLDFNKLQKLHQKELGDISR 265 (265)
Q Consensus 219 l~Rlear~yI~~Y~~~~~------------~n~~lLelAklDFn~~Qs~hq~EL~~lsr 265 (265)
|||||||+||+.|++++. +|++||||||+|||+||++||+||++|+|
T Consensus 421 l~RlEaR~yI~~Y~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFN~~Qs~hq~EL~~l~r 479 (784)
T PLN02279 421 LERLANRRSIENYAVDDTRILKTSYRCSNICNQDFLKLAVEDFNFCQSIHREELKQLER 479 (784)
T ss_pred ccHHHHHHHHHHhccccchhccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhCe
Confidence 999999999999998875 79999999999999999999999999986
No 3
>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=1.2e-60 Score=415.54 Aligned_cols=175 Identities=53% Similarity=0.837 Sum_probs=146.8
Q ss_pred CccCcccc-CCCCc-----chhhHHHHHHHHHHHHHHHHHhccCCccccchhHHHHHHHhCcccccHHHHHHHHHHHHhh
Q 041642 33 WGDRFLSY-TSDSM-----EKDDGSAKHQELKEEIRRMLKAYINKPTQNNLDLIDAIQRLGVSYHFESEIDEILGKLHEA 106 (265)
Q Consensus 33 W~~~fl~~-~~~~~-----~~~~~~~~~e~LkeeVr~~l~~~~~d~~~~~L~lID~lqRLGI~~hFe~EI~~~L~~i~~~ 106 (265)
|||+|++. ++.+. ..+++.+++++||++||.||.....|++ ++|+|||+||||||+|||++||+++|++||+.
T Consensus 1 W~d~fl~s~s~~~~~~~~~~~~~~~~~~~~Lk~~v~~~l~~~~~d~~-~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~ 79 (183)
T PF01397_consen 1 WGDDFLQSLSPSYTACMQSEDEKCKERAEELKEEVRNMLPASYPDPL-EKLELIDTLQRLGISYHFEDEIKEILDSIYRS 79 (183)
T ss_dssp TTHHHHHHTBHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHSSSSHHH-HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHT
T ss_pred CCCceecCCCCcchhccchhHHHHHHHHHHHHHHHHHHHhhcCCCHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhh
Confidence 99999942 22221 1257889999999999999987444799 99999999999999999999999999999998
Q ss_pred hccCCCCCCCCCchhhHHHHHHHHhhcCccccccccccccccccccccccchhhHHHHHHHHhhccCCCCchHHHHHHHH
Q 041642 107 HQDCGLGDNENDELYYISLQFRLLRQHGCKISADVFKRFKDSDGNFKTSLAKDVGGMLSLYEATHLGVHEENILDEALAF 186 (265)
Q Consensus 107 ~~~~g~~~~~~~DL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~G~Fk~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~F 186 (265)
|... .....|||+|||+|||||||||+||||||++|+|++|+|+.++++||+|||+|||||||+++||+|||+|+.|
T Consensus 80 ~~~~---~~~~~dL~~~AL~FRLLRqhGy~VS~DvF~~F~d~~g~F~~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~F 156 (183)
T PF01397_consen 80 WDED---NEEIDDLYTTALRFRLLRQHGYYVSSDVFNKFKDEKGNFKESLSNDVKGLLSLYEASHLRFHGEDILDEARAF 156 (183)
T ss_dssp TTTT---SHTSSCHHHHHHHHHHHHHTT----GGGGGGGBETTSSBSGGGGGHHHHHHHHHHHHTT--TT-HHHHHHHHH
T ss_pred cccc---ccccCchhHHHHHHHHHHHcCCcccHHHHhCcccCCCccchhhhHhHHHHHHHHHHHHccCCChHHHHHHHHH
Confidence 6421 1123599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCC--CChHHHHHHhc
Q 041642 187 TTSHLESIAAHQIG--SPLAERVKHAL 211 (265)
Q Consensus 187 s~~~L~~~~~~~~~--~~l~~~V~~aL 211 (265)
|+++|++.+++... ++|+++|+|||
T Consensus 157 t~~~L~~~~~~~~~~~~~L~~~V~~AL 183 (183)
T PF01397_consen 157 TTKHLKSLLSNLSIPDPHLAKEVKHAL 183 (183)
T ss_dssp HHHHHHHHHTTTCTTSCHHHHHHHHHH
T ss_pred HHHHHHHHhccCCCCcHHHHHHHHHhC
Confidence 99999999986541 24999999997
No 4
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=2.9e-60 Score=484.57 Aligned_cols=194 Identities=34% Similarity=0.498 Sum_probs=176.5
Q ss_pred cCCccccchhHHHHHHHhCcccccHHHHHHHHHHHHhhhccCCCCCC---CCCchhhHHHHHHHHhhcCccccccccccc
Q 041642 69 INKPTQNNLDLIDAIQRLGVSYHFESEIDEILGKLHEAHQDCGLGDN---ENDELYYISLQFRLLRQHGCKISADVFKRF 145 (265)
Q Consensus 69 ~~d~~~~~L~lID~lqRLGI~~hFe~EI~~~L~~i~~~~~~~g~~~~---~~~DL~~~AL~FRLLRqhGy~VS~DvF~~F 145 (265)
|.+++ ++|+|||+||||||+|||++||+++|+.+|++|...|.++. ...|+++|||+|||||||||+||||||++|
T Consensus 307 P~d~f-E~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~~~~~~Dld~TALaFRLLRqhGy~VS~DvF~~F 385 (800)
T PLN02592 307 PVDLF-EHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWARNSHVHDIDDTAMGFRLLRLHGHQVSADVFKHF 385 (800)
T ss_pred CCcHH-HHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCcccccCCCcCCHHHHHHHHHHHHHcCCCCChHHHHhh
Confidence 57899 99999999999999999999999999999998754343221 247999999999999999999999999999
Q ss_pred ccccccccccc---chhhHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHh--h------cCCCChHHHHHHhccCC
Q 041642 146 KDSDGNFKTSL---AKDVGGMLSLYEATHLGVHEENILDEALAFTTSHLESIAA--H------QIGSPLAERVKHALIQP 214 (265)
Q Consensus 146 ~d~~G~Fk~~l---~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~--~------~~~~~l~~~V~~aL~~P 214 (265)
++ +|+|++.+ .+|++|||+||||||++++||.|||+|+.||+++|++.+. + ++ ++|+++|+|||++|
T Consensus 386 ~~-~g~F~~~~ge~~~Dv~glL~LYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~l~d~~~~~-~~L~~eV~~AL~~P 463 (800)
T PLN02592 386 EK-GGEFFCFAGQSTQAVTGMFNLYRASQVLFPGEKILENAKEFSSKFLREKQEANELLDKWIIM-KDLPGEVGFALEIP 463 (800)
T ss_pred cC-CCCccccccccccchHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHHHHhhccccccccccC-ccHHHHHHHhccCh
Confidence 86 89998655 7999999999999999999999999999999999999863 2 34 68999999999999
Q ss_pred cccCchhhHHhhcccccccCCcc-------------cHHHHHHHHhhhHHHHHHHHHHHHhhhC
Q 041642 215 IHRGLQRLEARHYIPIYQEQSSH-------------NEALLTFAKLDFNKLQKLHQKELGDISR 265 (265)
Q Consensus 215 ~h~~l~Rlear~yI~~Y~~~~~~-------------n~~lLelAklDFn~~Qs~hq~EL~~lsr 265 (265)
||++|||+||||||+.|++++++ |+.||||||+|||+||++||+||++++|
T Consensus 464 ~~~~l~RlEaR~yI~~Y~~~~~~~i~Kt~yr~~~~~n~~lLeLAklDFn~~Qs~hq~EL~~lsr 527 (800)
T PLN02592 464 WYASLPRVETRFYIEQYGGEDDVWIGKTLYRMPYVNNNEYLELAKLDYNNCQALHQLEWDNFQK 527 (800)
T ss_pred hhcCcchHHHHHHHHHhcCCcccchhhhhccccccCCHHHHHHHHHHHHHHHHHhHHHHHHHhH
Confidence 99999999999999999987664 9999999999999999999999999986
No 5
>KOG3951 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.65 E-value=51 Score=31.01 Aligned_cols=57 Identities=26% Similarity=0.409 Sum_probs=40.7
Q ss_pred ccccccccccchhhHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHhcc
Q 041642 147 DSDGNFKTSLAKDVGGMLSLYEATHLGVHEENILDEALAFTTSHLESIAAHQIGSPLAERVKHALI 212 (265)
Q Consensus 147 d~~G~Fk~~l~~Dv~glLsLYeAS~l~~~gE~iLdeA~~Fs~~~L~~~~~~~~~~~l~~~V~~aL~ 212 (265)
+.+|-|...-.-|++|...|-.+-- .... +-|=.|..||++||.. .+-.+++++-|+
T Consensus 264 hp~GAFv~~s~iDmkgcvrllk~q~-p~~~-e~LLnaLRfTTKHlNd-------esTpK~ir~ll~ 320 (321)
T KOG3951|consen 264 HPNGAFVSNSSIDMKGCVRLLKLQP-PEQS-ECLLNALRFTTKHLND-------ESTPKSIRHLLE 320 (321)
T ss_pred cccccccccCcCcHHHHHHHHHcCC-chhh-HHHHHHHHHHHhhcCC-------CCChHHHHHHhc
Confidence 4678888888889999999988753 2223 4566789999999852 344566666553
No 6
>cd07604 BAR_ASAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ASAPs (ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) with similarity to ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins) in that they contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and ankyrin (ANK) repeats. However, ASAPs contain an additional C-terminal SH3 domain. ASAPs function in regulating cell growth, migration, and invasion. Vertebrates contain at least three members, ASAP1, ASAP2, and ASAP3. ASAP1 and ASAP2 shows GTPase activating protein (GAP) activity towards Arf1 and Arf5. They do not show GAP activity towards Arf6, but is able to mediate
Probab=36.52 E-value=63 Score=29.09 Aligned_cols=87 Identities=16% Similarity=0.169 Sum_probs=57.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCccccchhHHHHHHHhCcccc--cHHHHHHHHHHHHhhhccCCCCCCCCCchhhHHH
Q 041642 48 DDGSAKHQELKEEIRRMLKAYINKPTQNNLDLIDAIQRLGVSYH--FESEIDEILGKLHEAHQDCGLGDNENDELYYISL 125 (265)
Q Consensus 48 ~~~~~~~e~LkeeVr~~l~~~~~d~~~~~L~lID~lqRLGI~~h--Fe~EI~~~L~~i~~~~~~~g~~~~~~~DL~~~AL 125 (265)
+.+..+.++++.-+|.|..+ ..+.+.....++++|+.||=..- .+.+|..+|...-. -+..++=
T Consensus 12 ~~~~~~l~Kl~K~~k~~~~~-g~~~~~~~~~F~~aL~~~g~~~~~~~~~~i~~~l~kF~~-------------~l~El~~ 77 (215)
T cd07604 12 EGDRVGLQKLKKAVKAIHNS-GLAHVENELQFAEALEKLGSKALSREEEDLGAAFLKFSV-------------FTKELAA 77 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHhccccCcccHHHHHHHHHHHH-------------HHHHHHH
Confidence 35577889999999999865 33322257889999999993221 23357777755422 1334455
Q ss_pred HHHHHhhcCcccccccccccccc
Q 041642 126 QFRLLRQHGCKISADVFKRFKDS 148 (265)
Q Consensus 126 ~FRLLRqhGy~VS~DvF~~F~d~ 148 (265)
.+-.|++|=-++-...+.+|..+
T Consensus 78 ~~~~L~~~~~~~i~~pL~~f~k~ 100 (215)
T cd07604 78 LFKNLMQNLNNIIMFPLDSLLKG 100 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667777666666777888654
No 7
>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=34.21 E-value=19 Score=24.63 Aligned_cols=24 Identities=21% Similarity=0.349 Sum_probs=16.8
Q ss_pred HHHHHHHHhhcCcccccccccccc
Q 041642 123 ISLQFRLLRQHGCKISADVFKRFK 146 (265)
Q Consensus 123 ~AL~FRLLRqhGy~VS~DvF~~F~ 146 (265)
+.=.+.-|+++||++|+++++.+.
T Consensus 21 ~~~~l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 21 VKPLLDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred HHHHHHHHHHcCcccCHHHHHHHH
Confidence 333345568889999998887664
No 8
>PF14164 YqzH: YqzH-like protein
Probab=33.09 E-value=23 Score=26.29 Aligned_cols=19 Identities=21% Similarity=0.221 Sum_probs=15.6
Q ss_pred HHHHhhcCccccccccccc
Q 041642 127 FRLLRQHGCKISADVFKRF 145 (265)
Q Consensus 127 FRLLRqhGy~VS~DvF~~F 145 (265)
=+-|||.||++.++.+...
T Consensus 11 ~~~l~QYg~d~~~~pls~~ 29 (64)
T PF14164_consen 11 INCLRQYGYDVECMPLSDE 29 (64)
T ss_pred HHHHHHhCCcccCCCCCHH
Confidence 3569999999999887764
No 9
>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=26.58 E-value=46 Score=22.80 Aligned_cols=26 Identities=19% Similarity=0.235 Sum_probs=20.6
Q ss_pred hhhHHHHHHHHhhcCccccccccccc
Q 041642 120 LYYISLQFRLLRQHGCKISADVFKRF 145 (265)
Q Consensus 120 L~~~AL~FRLLRqhGy~VS~DvF~~F 145 (265)
+-.++|.=|+|+..||.|-+=.|-.+
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 36799999999999999976444444
No 10
>PF11000 DUF2840: Protein of unknown function (DUF2840); InterPro: IPR021263 This bacterial family of proteins have no known function.
Probab=24.72 E-value=43 Score=28.72 Aligned_cols=16 Identities=44% Similarity=0.607 Sum_probs=13.5
Q ss_pred cchhHHHHHHHhCccc
Q 041642 75 NNLDLIDAIQRLGVSY 90 (265)
Q Consensus 75 ~~L~lID~lqRLGI~~ 90 (265)
.-|..||+|+.|||+-
T Consensus 96 ~VL~~IDaiEalGidp 111 (149)
T PF11000_consen 96 RVLQAIDAIEALGIDP 111 (149)
T ss_pred HHHHHHhHHHHcCCCh
Confidence 3478999999999985
No 11
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=21.81 E-value=2.3e+02 Score=24.67 Aligned_cols=48 Identities=23% Similarity=0.268 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHhccCCccccchhHHHHHHHhCcccccHHHHHHHHHHHHh
Q 041642 53 KHQELKEEIRRMLKAYINKPTQNNLDLIDAIQRLGVSYHFESEIDEILGKLHE 105 (265)
Q Consensus 53 ~~e~LkeeVr~~l~~~~~d~~~~~L~lID~lqRLGI~~hFe~EI~~~L~~i~~ 105 (265)
-..+|-|-+|..|++ +|+ +||+...-.+|..+--|.++|-.+|+....
T Consensus 66 l~rqLyE~lr~~FVd---ePf--KlWle~Na~qLaad~efrd~i~K~l~~~L~ 113 (168)
T PF10866_consen 66 LGRQLYEILRGDFVD---EPF--KLWLEQNAAQLAADAEFRDKIHKILQDQLQ 113 (168)
T ss_pred HHHHHHHHHHHHhcC---Cch--HHHHHhhHHHHhhhHHHHHHHHHHHHHHHH
Confidence 445666777777763 455 899999999999999999999888887654
No 12
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=21.53 E-value=90 Score=21.75 Aligned_cols=23 Identities=39% Similarity=0.677 Sum_probs=19.2
Q ss_pred cchhHHHHHHHhCcccccHHHHHHHH
Q 041642 75 NNLDLIDAIQRLGVSYHFESEIDEIL 100 (265)
Q Consensus 75 ~~L~lID~lqRLGI~~hFe~EI~~~L 100 (265)
++|.+|=.++.||.+- +||+++|
T Consensus 2 ~rL~~I~~~r~lGfsL---~eI~~~l 24 (65)
T PF09278_consen 2 ERLQFIRRLRELGFSL---EEIRELL 24 (65)
T ss_dssp HHHHHHHHHHHTT--H---HHHHHHH
T ss_pred hHHHHHHHHHHcCCCH---HHHHHHH
Confidence 6899999999999987 8999998
Done!