Query 025559
Match_columns 251
No_of_seqs 175 out of 330
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 07:04:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14299 PP2: Phloem protein 2 100.0 2.3E-65 5.1E-70 430.0 20.2 151 94-246 1-154 (154)
2 PF02018 CBM_4_9: Carbohydrate 88.6 4.9 0.00011 30.8 8.9 67 151-225 58-125 (131)
3 smart00256 FBOX A Receptor for 67.0 3 6.5E-05 25.9 1.0 32 23-54 4-35 (41)
4 PF00646 F-box: F-box domain; 65.2 3.9 8.4E-05 26.7 1.3 30 22-51 8-37 (48)
5 PF12937 F-box-like: F-box-lik 65.2 3.4 7.3E-05 27.2 1.0 30 23-52 7-36 (47)
6 PF13464 DUF4115: Domain of un 20.0 1.1E+02 0.0025 22.1 2.8 25 135-159 6-34 (77)
7 smart00137 MAM Domain in mepri 19.3 5.1E+02 0.011 21.1 13.5 85 156-247 76-160 (161)
8 PF11679 DUF3275: Protein of u 18.6 2.8E+02 0.0061 25.0 5.4 41 201-246 22-73 (214)
9 KOG1702 Nebulin repeat protein 18.3 1E+02 0.0022 28.0 2.5 42 150-204 203-244 (264)
10 KOG3233 RNA polymerase III, su 18.3 19 0.00041 33.7 -2.1 47 93-147 139-187 (297)
No 1
>PF14299 PP2: Phloem protein 2
Probab=100.00 E-value=2.3e-65 Score=430.01 Aligned_cols=151 Identities=50% Similarity=0.980 Sum_probs=145.1
Q ss_pred CCeEEEEecccceeeecCCCCceeeeccCCCCcccccceEEeeeeEEEEEEEEecCcCCCCceEEEEEEEEEeCCCCCce
Q 025559 94 GCNSFMLFSRALLITWAEDNRFWIWTPVKESSDDIVDVAELVQVCWLEIHARLDTTKLSPGISYEVLFVIMLKDPAYGWE 173 (251)
Q Consensus 94 GkkCymLsAR~L~ItWgdd~~YW~Wi~~~~S~~rF~EVAeL~~VcWLEI~Gki~t~~LSP~T~Y~ay~v~kl~~~~~Gw~ 173 (251)
|++|||||||+|+|+||||++||+|+++++| ||.|||||++||||||+|+|++++|||+|+|+||||||+++++|||+
T Consensus 1 G~~cymlsaR~L~I~Wg~~~~yW~w~~~~~s--rf~evAeL~~V~WLeI~G~i~~~~Lsp~t~Y~vy~v~kl~~~~~Gw~ 78 (154)
T PF14299_consen 1 GKKCYMLSARALSITWGDDPRYWKWIPLPDS--RFSEVAELLQVCWLEIRGKINTRMLSPGTTYAVYFVFKLKDDAYGWD 78 (154)
T ss_pred CCEEEEEEhhhCEEecCCCCcceeeccCCcc--cceeeeEEEEEEEEEEEEEEEceEcCCCCEEEEEEEEEecCCCCCCC
Confidence 8999999999999999999999999999988 69999999999999999999999999999999999999999999999
Q ss_pred e-ceEEEEEecCCee--eeeEEeeccCCCCCeEEEeeeeEEcCCCCCeEEEEEEEEEeCCeeeeeEEEEEEEEEec
Q 025559 174 V-PVSLRLLLPNGTK--QEHKENLIVKPRNQWIEIPVGEFKSTPENAGEMEISMYEYEGGKWKKGLVVKGVIIRPK 246 (251)
Q Consensus 174 ~-Pv~~~v~~~~g~~--~~~~~~l~~~~~dgW~EielGeF~~~~~~~~eV~fs~~E~~~~~wK~GLiV~GIeIRPk 246 (251)
. ||+++|+++++.. +.+.++++..+.||||||++|||+++++++++|+|+|+|+++++||+||||+|||||||
T Consensus 79 ~~pv~~~v~~~~~~~~~~~~~~~~~~~r~dgW~Eie~GeF~~~~~~~~ev~f~~~E~~~~~wK~GLiv~GieIRPK 154 (154)
T PF14299_consen 79 SPPVEFSVKVPDGEKYEQERKVCLPKERGDGWMEIELGEFFNEGGDDGEVEFSMYEVDSGHWKGGLIVEGIEIRPK 154 (154)
T ss_pred cCCEEEEEEeCCCccccceeeEEcCCCCCCCEEEEEcceEEecCCCCcEEEEEEEEecCCcccCeEEEEEEEEecC
Confidence 6 9999999998876 56778888889999999999999999889999999999999999999999999999998
No 2
>PF02018 CBM_4_9: Carbohydrate binding domain; InterPro: IPR003305 The 1,4-beta-glucanase CenC from Cellulomonas fimi contains two cellulose-binding domains, CBD(N1) and CBD(N2), arranged in tandem at its N terminus. These homologous CBDs are distinct in their selectivity for binding amorphous and not crystalline cellulose []. Multidimensional heteronuclear nuclear magnetic resonance (NMR) spectroscopy was used to determine the tertiary structure of the 152 amino acid N-terminal cellulose-binding domain from C. fimi 1,4-beta-glucanase CenC (CBDN1) []. The tertiary structure of CBDN1 is strikingly similar to that of the bacterial 1,3-1,4-beta-glucanases, as well as other sugar-binding proteins with jelly-roll folds.; GO: 0016798 hydrolase activity, acting on glycosyl bonds; PDB: 3OEA_B 2ZEX_B 3OEB_A 2ZEY_A 2ZEW_A 1GUI_A 2W5F_A 2WZE_A 2WYS_A 2ZEZ_B ....
Probab=88.55 E-value=4.9 Score=30.83 Aligned_cols=67 Identities=21% Similarity=0.350 Sum_probs=43.9
Q ss_pred CCCCceEEEEEEEEEeCCCCCceeceEEEEEecCCe-eeeeEEeeccCCCCCeEEEeeeeEEcCCCCCeEEEEEEE
Q 025559 151 LSPGISYEVLFVIMLKDPAYGWEVPVSLRLLLPNGT-KQEHKENLIVKPRNQWIEIPVGEFKSTPENAGEMEISMY 225 (251)
Q Consensus 151 LSP~T~Y~ay~v~kl~~~~~Gw~~Pv~~~v~~~~g~-~~~~~~~l~~~~~dgW~EielGeF~~~~~~~~eV~fs~~ 225 (251)
|-||.+|.+.|-++.... .++.+.+...++. ...-... .....+.|.+++ ++|... .+...+.|.+.
T Consensus 58 l~~G~~Y~~s~~vk~~~~-----~~~~~~~~~~~~~~~~~~~~~-~~~~~~~W~~~s-~~ft~~-~~~~~~~l~~~ 125 (131)
T PF02018_consen 58 LKPGKTYTVSFWVKADSG-----GTVSVSLRDEDGSPYNWYTGQ-TVTITGEWTKYS-GTFTAP-SDDDTVRLYFE 125 (131)
T ss_dssp E-TTSEEEEEEEEEESSS-----EEEEEEEEESSTTTEEEEEEE-EEEETSSEEEEE-EEEEEE-SSCEEEEEEEE
T ss_pred ecCCCEEEEEEEEEeCCC-----CEEEEEEEEcCCCCcEEEEEE-EEECCCCcEEEE-EEEEEC-CCCceEEEEEE
Confidence 569999999999999874 6777777776662 1111110 112358999998 589877 44556666553
No 3
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=66.97 E-value=3 Score=25.89 Aligned_cols=32 Identities=13% Similarity=0.043 Sum_probs=26.6
Q ss_pred hhhhhhhhhcCchhhhhhhhcchhhhhcCcCC
Q 025559 23 NESQNFAIAAKPADNTKETKVCEAKEAEVKLP 54 (251)
Q Consensus 23 ~~~~~~~~~~~P~d~cr~a~~~~a~~~~~fLP 54 (251)
..+..|..+++|.|.++++.||+.++.....+
T Consensus 4 ~ll~~I~~~l~~~d~~~~~~vc~~~~~~~~~~ 35 (41)
T smart00256 4 EILEEILSKLPPKDLLRLRKVSRRWRSLIDSH 35 (41)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCh
Confidence 45667889999999999999999999775544
No 4
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=65.18 E-value=3.9 Score=26.69 Aligned_cols=30 Identities=17% Similarity=0.061 Sum_probs=24.7
Q ss_pred chhhhhhhhhcCchhhhhhhhcchhhhhcC
Q 025559 22 QNESQNFAIAAKPADNTKETKVCEAKEAEV 51 (251)
Q Consensus 22 ~~~~~~~~~~~~P~d~cr~a~~~~a~~~~~ 51 (251)
.+...||..++++.|.++++.||+.++...
T Consensus 8 ~~il~~Il~~l~~~~~~~l~~vsk~~~~~~ 37 (48)
T PF00646_consen 8 DEILQEILSYLDPKDLLRLSLVSKRWRSLV 37 (48)
T ss_dssp HHHHHHHHHTS-HHHHHHHCTT-HHHHHHH
T ss_pred HHHHHHHHHHCcHHHHHHHHHHhhHHHHHH
Confidence 457899999999999999999999998653
No 5
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=65.16 E-value=3.4 Score=27.23 Aligned_cols=30 Identities=13% Similarity=0.061 Sum_probs=24.7
Q ss_pred hhhhhhhhhcCchhhhhhhhcchhhhhcCc
Q 025559 23 NESQNFAIAAKPADNTKETKVCEAKEAEVK 52 (251)
Q Consensus 23 ~~~~~~~~~~~P~d~cr~a~~~~a~~~~~f 52 (251)
.-...|.++++|.|.++++.||+.++....
T Consensus 7 Eil~~If~~L~~~dl~~~~~vcr~w~~~~~ 36 (47)
T PF12937_consen 7 EILLEIFSYLDPRDLLRLSLVCRRWRRIAN 36 (47)
T ss_dssp HHHHHHHTTS-HHHHHHHTTSSHHHHHHHT
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHC
Confidence 356788899999999999999999996654
No 6
>PF13464 DUF4115: Domain of unknown function (DUF4115)
Probab=20.04 E-value=1.1e+02 Score=22.11 Aligned_cols=25 Identities=20% Similarity=0.332 Sum_probs=17.3
Q ss_pred eeeeEEEEE---E-EEecCcCCCCceEEE
Q 025559 135 VQVCWLEIH---A-RLDTTKLSPGISYEV 159 (251)
Q Consensus 135 ~~VcWLEI~---G-ki~t~~LSP~T~Y~a 159 (251)
..-||++|+ | .+-..+|.+|.+|+.
T Consensus 6 ~~~sWv~V~d~dG~~~~~~~l~~G~~~~~ 34 (77)
T PF13464_consen 6 TGDSWVEVTDADGKVLFSGTLKAGETKTF 34 (77)
T ss_pred eCCeEEEEEeCCCcEeeeeeeCCCcEEEE
Confidence 356999998 4 344556778877765
No 7
>smart00137 MAM Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others). Likely to have an adhesive function. Mutations in the meprin MAM domain affect noncovalent associations within meprin oligomers. In receptor tyrosine phosphatase mu-like molecules the MAM domain is important for homophilic cell-cell interactions.
Probab=19.28 E-value=5.1e+02 Score=21.11 Aligned_cols=85 Identities=9% Similarity=0.129 Sum_probs=45.4
Q ss_pred eEEEEEEEEEeCCCCCceeceEEEEEecCCeeeeeEEeeccCCCCCeEEEeeeeEEcCCCCCeEEEEEEEEEeCCeeeee
Q 025559 156 SYEVLFVIMLKDPAYGWEVPVSLRLLLPNGTKQEHKENLIVKPRNQWIEIPVGEFKSTPENAGEMEISMYEYEGGKWKKG 235 (251)
Q Consensus 156 ~Y~ay~v~kl~~~~~Gw~~Pv~~~v~~~~g~~~~~~~~l~~~~~dgW~EielGeF~~~~~~~~eV~fs~~E~~~~~wK~G 235 (251)
.+-+.|-|.|.....| .+.+.+...++.....--.......+.|...++ .... ...+.++.+.-+.+....+.
T Consensus 76 ~~cl~F~Y~m~G~~~g---~L~V~~~~~~~~~~~~lw~~~g~~~~~W~~~~v---~l~~-~~~~fqi~fe~~~g~~~~g~ 148 (161)
T smart00137 76 THCLTFWYYMYGSGSG---TLNVYVRENNGSQDTLLWSRSGTQGGQWLQAEV---ALSK-WQQPFQVVFEGTRGKGHSGY 148 (161)
T ss_pred CeEEEEEEEecCCCCC---EEEEEEEeCCCCCceEeEEEcCCCCCceEEEEE---EecC-CCCcEEEEEEEEEcCCccce
Confidence 4556677777633333 133333322333211101111234578988764 2221 12345555555566678999
Q ss_pred EEEEEEEEEecC
Q 025559 236 LVVKGVIIRPKN 247 (251)
Q Consensus 236 LiV~GIeIRPk~ 247 (251)
+-|+.|.|++..
T Consensus 149 IAiDDI~i~~g~ 160 (161)
T smart00137 149 IALDDILLSNGP 160 (161)
T ss_pred EEEeEEEeeccC
Confidence 999999999864
No 8
>PF11679 DUF3275: Protein of unknown function (DUF3275); InterPro: IPR021693 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=18.57 E-value=2.8e+02 Score=25.03 Aligned_cols=41 Identities=24% Similarity=0.294 Sum_probs=26.9
Q ss_pred CeEEEeeeeEEcCC--------C-CCeEEEEEEEEE--eCCeeeeeEEEEEEEEEec
Q 025559 201 QWIEIPVGEFKSTP--------E-NAGEMEISMYEY--EGGKWKKGLVVKGVIIRPK 246 (251)
Q Consensus 201 gW~EielGeF~~~~--------~-~~~eV~fs~~E~--~~~~wK~GLiV~GIeIRPk 246 (251)
|=+.-++|+|.+.. | -+|+ |-+.++ .+..|.+|++ +|||-.
T Consensus 22 G~L~T~iG~F~VKD~~LdQy~EGkY~G~--F~I~~I~p~sY~~~G~~~---~EIRA~ 73 (214)
T PF11679_consen 22 GRLATSIGEFVVKDAELDQYPEGKYDGE--FVITEIFPSSYPAGGRMV---VEIRAR 73 (214)
T ss_pred eEEEeeeeeEEecCHHHhccccCccccE--EEEEEEeecceecCCcEE---EEEEEE
Confidence 77888889988742 1 2343 444443 3667889998 678865
No 9
>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]
Probab=18.28 E-value=1e+02 Score=27.97 Aligned_cols=42 Identities=14% Similarity=0.292 Sum_probs=24.5
Q ss_pred cCCCCceEEEEEEEEEeCCCCCceeceEEEEEecCCeeeeeEEeeccCCCCCeEE
Q 025559 150 KLSPGISYEVLFVIMLKDPAYGWEVPVSLRLLLPNGTKQEHKENLIVKPRNQWIE 204 (251)
Q Consensus 150 ~LSP~T~Y~ay~v~kl~~~~~Gw~~Pv~~~v~~~~g~~~~~~~~l~~~~~dgW~E 204 (251)
.-+||.+|.|++-|.-.|. -.|++.||.+... .....||||-
T Consensus 203 ~~~~gktyra~ydysaqde---------devsF~dgd~ivn----vq~iddGWmy 244 (264)
T KOG1702|consen 203 KSCTGKTYRAFYDYSAQDE---------DEVSFVDGDYIVN----VQSIDDGWMY 244 (264)
T ss_pred cCCCCccchhhccCcccCc---------ceeEEecCCeEEE----EEeccCCcee
Confidence 4568888998887766542 1234456654321 1234688985
No 10
>KOG3233 consensus RNA polymerase III, subunit C34 [Transcription]
Probab=18.28 E-value=19 Score=33.71 Aligned_cols=47 Identities=17% Similarity=0.268 Sum_probs=32.2
Q ss_pred cCCeEEEEec--ccceeeecCCCCceeeeccCCCCcccccceEEeeeeEEEEEEEEe
Q 025559 93 SGCNSFMLFS--RALLITWAEDNRFWIWTPVKESSDDIVDVAELVQVCWLEIHARLD 147 (251)
Q Consensus 93 sGkkCymLsA--R~L~ItWgdd~~YW~Wi~~~~S~~rF~EVAeL~~VcWLEI~Gki~ 147 (251)
+++|||||.- -+.+||.| .|.+..+-..-| |+-|+++||.=+.-+-.
T Consensus 139 ~~~KvYmLy~leP~~elTGG------~WytDqdlDvEf--Ie~L~~~c~~fl~~~~~ 187 (297)
T KOG3233|consen 139 SRKKVYMLYDLEPDSELTGG------TWYTDQDLDVEF--IEVLKQICVRFLESKRF 187 (297)
T ss_pred CCceEEEEecccccccccCC------cccccccccHHH--HHHHHHHHHHHHHhccc
Confidence 8899999986 45788888 487755432235 55689999864444443
Done!