Query 015853
Match_columns 399
No_of_seqs 207 out of 1010
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 01:30:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015853.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015853hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 6.2E-43 1.3E-47 302.8 7.1 127 15-144 1-129 (129)
2 PHA00692 hypothetical protein 21.3 37 0.00081 27.0 0.4 9 14-22 36-44 (74)
3 PF07960 CBP4: CBP4; InterPro 20.6 66 0.0014 29.0 1.9 20 19-38 26-49 (128)
4 PF04700 Baculo_gp41: Structur 17.8 1.1E+02 0.0024 29.2 2.8 20 24-43 6-27 (186)
5 cd00490 Met_repressor_MetJ Met 16.8 1.3E+02 0.0029 25.7 2.7 39 22-64 50-88 (103)
6 smart00265 BH4 BH4 Bcl-2 homol 16.7 1.5E+02 0.0032 20.0 2.4 20 24-43 4-23 (27)
7 COG3060 MetJ Transcriptional r 14.6 1.2E+02 0.0026 25.8 1.9 39 22-64 51-89 (105)
8 PRK05264 transcriptional repre 14.5 1.6E+02 0.0035 25.4 2.7 39 22-64 51-89 (105)
9 KOG3238 Chloride ion current i 14.5 1.9E+02 0.0042 28.1 3.5 62 15-77 109-170 (216)
10 PLN02417 dihydrodipicolinate s 12.7 1.3E+02 0.0028 29.6 1.9 20 13-33 101-120 (280)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=6.2e-43 Score=302.84 Aligned_cols=127 Identities=51% Similarity=1.071 Sum_probs=97.2
Q ss_pred CCCCceeCCChHHHHHHHHHHHhcCCCCCC-CceecCCCCCCCCcchhhhhccCCCCCCeEEEEecCCCCCCCCCccccc
Q 015853 15 VPPGFRFHPTEEELLHYYLRKKVSSEKIDL-DVIRDVDLNKLEPWDIQEKCKIGSTPQSDWYFFSHKDKKYPTGTRTNRA 93 (399)
Q Consensus 15 LPPGFRF~PTDEELV~~YLr~Kv~g~pl~~-~vI~evDVY~~ePWeL~~~~~~G~~~e~eWYFFspr~kKyp~G~R~nRa 93 (399)
|||||||+|||+|||.+||++|+.|++++. ++|+++|||.++||+|++... ..+++||||+++++++.+|.|++|+
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~~~---~~~~~~yFF~~~~~~~~~~~r~~R~ 77 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAKFK---GGDEEWYFFSPRKKKYPNGGRPNRV 77 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHHSS---S-SSEEEEEEE----------S-EE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhhcc---CCCceEEEEEecccccCCccccccc
Confidence 899999999999999999999999999887 799999999999999995332 2467999999999999999999999
Q ss_pred CCCceeeeCCCCeEEec-CCeEeeEEEEEEeecCCCCCCCCcCeEEEEEEeC
Q 015853 94 TAAGFWKATGRDKVIHS-NCRRIGMRKTLVFYKGRAPHGQKSDWIMHEYRLD 144 (399)
Q Consensus 94 tg~G~WKatG~dK~I~s-~g~~IG~KKtLvFYkgrap~g~KT~WiMhEYrL~ 144 (399)
+++|+||++|+++.|.+ ++++||+||+|+||.++.+++.||+|+||||+|.
T Consensus 78 ~~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 78 TGGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp ETTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred ccceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 99999999999999987 8999999999999999888999999999999984
No 2
>PHA00692 hypothetical protein
Probab=21.27 E-value=37 Score=26.96 Aligned_cols=9 Identities=67% Similarity=1.468 Sum_probs=7.4
Q ss_pred CCCCCceeC
Q 015853 14 QVPPGFRFH 22 (399)
Q Consensus 14 ~LPPGFRF~ 22 (399)
..||||||-
T Consensus 36 eyppgfrfg 44 (74)
T PHA00692 36 EYPPGFRFG 44 (74)
T ss_pred ecCCCcccc
Confidence 579999985
No 3
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=20.57 E-value=66 Score=29.02 Aligned_cols=20 Identities=50% Similarity=0.874 Sum_probs=14.8
Q ss_pred cee-CCChHHHHHHH---HHHHhc
Q 015853 19 FRF-HPTEEELLHYY---LRKKVS 38 (399)
Q Consensus 19 FRF-~PTDEELV~~Y---Lr~Kv~ 38 (399)
|++ .||||||+..| |+++..
T Consensus 26 ~~y~tPTeEeL~~r~sPELrkr~~ 49 (128)
T PF07960_consen 26 VKYTTPTEEELFKRYSPELRKRYL 49 (128)
T ss_pred heecCCCHHHHHHhcCHHHHHHHH
Confidence 444 39999999987 666653
No 4
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=17.82 E-value=1.1e+02 Score=29.21 Aligned_cols=20 Identities=40% Similarity=0.796 Sum_probs=15.2
Q ss_pred ChHHHHHHH--HHHHhcCCCCC
Q 015853 24 TEEELLHYY--LRKKVSSEKID 43 (399)
Q Consensus 24 TDEELV~~Y--Lr~Kv~g~pl~ 43 (399)
+|||||.|| |.+|..|...+
T Consensus 6 sDe~Li~yY~~L~K~~g~~~~~ 27 (186)
T PF04700_consen 6 SDEELIEYYANLEKKYGGSDVP 27 (186)
T ss_pred cHHHHHHHHHHHHHHhCCCCCC
Confidence 799999999 66777766544
No 5
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=16.78 E-value=1.3e+02 Score=25.74 Aligned_cols=39 Identities=28% Similarity=0.314 Sum_probs=32.0
Q ss_pred CCChHHHHHHHHHHHhcCCCCCCCceecCCCCCCCCcchhhhh
Q 015853 22 HPTEEELLHYYLRKKVSSEKIDLDVIRDVDLNKLEPWDIQEKC 64 (399)
Q Consensus 22 ~PTDEELV~~YLr~Kv~g~pl~~~vI~evDVY~~ePWeL~~~~ 64 (399)
|-|..||++.-...-..|+|+|.+ .|+-+..|.+||+..
T Consensus 50 HATNSELLCEAFLHAfTGQPLP~D----~Dl~K~~~d~iP~~a 88 (103)
T cd00490 50 HATNSELLCEAFLHAFTGQPLPDD----ADLRKERSDEIPEAA 88 (103)
T ss_pred hcccHHHHHHHHHHHhcCCCCCCh----hhhhhcCcccccHHH
Confidence 567889988777778899999865 789888999998764
No 6
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=16.70 E-value=1.5e+02 Score=20.00 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=15.6
Q ss_pred ChHHHHHHHHHHHhcCCCCC
Q 015853 24 TEEELLHYYLRKKVSSEKID 43 (399)
Q Consensus 24 TDEELV~~YLr~Kv~g~pl~ 43 (399)
+-.|||.+|+.-|+.-...+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999999755433
No 7
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=14.58 E-value=1.2e+02 Score=25.84 Aligned_cols=39 Identities=28% Similarity=0.337 Sum_probs=31.7
Q ss_pred CCChHHHHHHHHHHHhcCCCCCCCceecCCCCCCCCcchhhhh
Q 015853 22 HPTEEELLHYYLRKKVSSEKIDLDVIRDVDLNKLEPWDIQEKC 64 (399)
Q Consensus 22 ~PTDEELV~~YLr~Kv~g~pl~~~vI~evDVY~~ePWeL~~~~ 64 (399)
|-|..||++.-...-..|+|+|.+ .|+.+.-|.+||+..
T Consensus 51 hatnsellceaflhaftgqplptd----~dl~ker~deipe~a 89 (105)
T COG3060 51 HATNSELLCEAFLHAFTGQPLPTD----ADLRKERSDEIPEAA 89 (105)
T ss_pred hhhhHHHHHHHHHHHHcCCCCCCc----HHHHHhccccchHHH
Confidence 567888888777778899999864 788888899998765
No 8
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=14.54 E-value=1.6e+02 Score=25.40 Aligned_cols=39 Identities=28% Similarity=0.297 Sum_probs=31.8
Q ss_pred CCChHHHHHHHHHHHhcCCCCCCCceecCCCCCCCCcchhhhh
Q 015853 22 HPTEEELLHYYLRKKVSSEKIDLDVIRDVDLNKLEPWDIQEKC 64 (399)
Q Consensus 22 ~PTDEELV~~YLr~Kv~g~pl~~~vI~evDVY~~ePWeL~~~~ 64 (399)
|-|..||++.-...-..|+|+|.+ .|+-+..|-+||+..
T Consensus 51 HATNSELLCEAFLHA~TGQPLP~D----~Dl~Kd~~d~ip~~a 89 (105)
T PRK05264 51 HATNSELLCEAFLHAFTGQPLPDD----EDLRKERSDEIPEAA 89 (105)
T ss_pred hcccHHHHHHHHHHHHcCCCCCCh----hhhhhcCcccchHHH
Confidence 567889988777778899999865 788888999998654
No 9
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=14.46 E-value=1.9e+02 Score=28.13 Aligned_cols=62 Identities=19% Similarity=0.328 Sum_probs=34.6
Q ss_pred CCCCceeCCChHHHHHHHHHHHhcCCCCCCCceecCCCCCCCCcchhhhhccCCCCCCeEEEE
Q 015853 15 VPPGFRFHPTEEELLHYYLRKKVSSEKIDLDVIRDVDLNKLEPWDIQEKCKIGSTPQSDWYFF 77 (399)
Q Consensus 15 LPPGFRF~PTDEELV~~YLr~Kv~g~pl~~~vI~evDVY~~ePWeL~~~~~~G~~~e~eWYFF 77 (399)
.--+|||+|+|.--+.-----......+.++...+.+-|+-+=|+.-+. ..|-+....||=+
T Consensus 109 ~i~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~~~~dgee~~mea~-d~~~gDs~~~~t~ 170 (216)
T KOG3238|consen 109 PITEFRFVPSDKSALEAMFTQFCECQELNPDPDEDEDDYDGEEYDMEAH-DAGQGDSPNSYTY 170 (216)
T ss_pred ccccceecCCchhHHHHHHHHHHhhhhcCCCccccccccccchhhhhhh-hccCCCCcccccc
Confidence 3458999999987666422223334444444455666677666776443 3333334445443
No 10
>PLN02417 dihydrodipicolinate synthase
Probab=12.69 E-value=1.3e+02 Score=29.58 Aligned_cols=20 Identities=15% Similarity=0.354 Sum_probs=15.7
Q ss_pred CCCCCCceeCCChHHHHHHHH
Q 015853 13 SQVPPGFRFHPTEEELLHYYL 33 (399)
Q Consensus 13 s~LPPGFRF~PTDEELV~~YL 33 (399)
..+|| |.|.||++||+.||-
T Consensus 101 ~~~~P-~y~~~~~~~i~~~f~ 120 (280)
T PLN02417 101 LHINP-YYGKTSQEGLIKHFE 120 (280)
T ss_pred EEcCC-ccCCCCHHHHHHHHH
Confidence 34666 558999999999874
Done!