Query 018835
Match_columns 350
No_of_seqs 168 out of 968
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 04:26:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018835.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018835hhsearch_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 3.1E-42 6.8E-47 294.1 6.1 128 6-135 1-129 (129)
2 cd00933 barnase Barnase, a mem 16.3 3.7E+02 0.0081 23.0 5.4 25 15-42 2-26 (107)
3 PHA00692 hypothetical protein 16.3 58 0.0013 25.2 0.4 9 5-13 36-44 (74)
4 smart00265 BH4 BH4 Bcl-2 homol 16.3 1.6E+02 0.0034 19.3 2.4 20 15-34 4-23 (27)
5 KOG3238 Chloride ion current i 15.1 1.7E+02 0.0037 27.8 3.2 47 6-52 109-155 (216)
6 PF07960 CBP4: CBP4; InterPro 12.1 1.1E+02 0.0025 26.9 1.1 11 13-23 30-40 (128)
7 PF13822 ACC_epsilon: Acyl-CoA 11.9 1.1E+02 0.0024 23.2 1.0 9 13-21 10-18 (62)
8 PF08338 DUF1731: Domain of un 11.8 1.5E+02 0.0033 21.3 1.6 16 8-23 31-47 (48)
9 smart00707 RPEL Repeat in Dros 11.1 1.6E+02 0.0035 19.0 1.3 14 9-22 6-19 (26)
10 COG2326 Uncharacterized conser 9.1 2.3E+02 0.005 28.0 2.2 31 6-36 99-133 (270)
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=3.1e-42 Score=294.10 Aligned_cols=128 Identities=53% Similarity=1.066 Sum_probs=96.7
Q ss_pred CCCCceeCCChHHHHHHHHHHHHcCCCCCC-CceeeccCCCCCCCCCCcccCCCCCCCceEEecccCCCCCCCCcccccc
Q 018835 6 LPPGFRFHPTDEELVGYYLKRKVDGLQIEL-EVIPVVELYKFDPWELPEKSFLPKRDMEWFFFCPRDRKYPNGSRTNRAT 84 (350)
Q Consensus 6 LPpGfRF~PTDEELV~~YL~~Ki~G~pl~~-~~I~evDVY~~ePweLp~~~~~~~~d~ewYFFt~r~rK~~nG~R~~Rat 84 (350)
|||||||+|||+|||.+||++|+.|.+++. .+|+++|||++|||+|++. ...++.+||||+++.+++.++.|++|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~--~~~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAK--FKGGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHH--SSS-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhh--ccCCCceEEEEEecccccCCcccccccc
Confidence 899999999999999999999999999887 7899999999999999953 3346779999999999999999999999
Q ss_pred ccceeeeCCCcceEecCCcceEEEEEEEEEeeCCCCCCCCcCeEEEEEEeC
Q 018835 85 KAGYWKATGKDRKVVCQSTSATGYRKTLVFYRGRAPLGDRTDWVMHEYRLC 135 (350)
Q Consensus 85 ~gG~WK~tG~~k~I~~~~g~vIG~KKtL~FY~g~~p~g~kT~WvMhEY~L~ 135 (350)
++|+||++|+.+.|...++.+||+|++|+||.++.+.+.+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 999999999999999977779999999999998888889999999999984
No 2
>cd00933 barnase Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a 2', 3'-cyclic phosphate intermediate, followed by hydrolysis to yield a 3' nucleotide. The active site residues His and Glu act as general acid-base groups during catalysis, while the Arg and Lys residues are important in binding the reactive phosphate, the latter probably binding the phosphate in the transition state. Barstar, a small 89 residue intracellular protein is a natural inhibitor of Barnase.
Probab=16.34 E-value=3.7e+02 Score=22.98 Aligned_cols=25 Identities=16% Similarity=0.090 Sum_probs=15.5
Q ss_pred ChHHHHHHHHHHHHcCCCCCCCceeecc
Q 018835 15 TDEELVGYYLKRKVDGLQIELEVIPVVE 42 (350)
Q Consensus 15 TDEELV~~YL~~Ki~G~pl~~~~I~evD 42 (350)
|++|-|..||.. .+ .||..+|....
T Consensus 2 ~~~~~V~~y~~~--~~-~LP~~yiTK~e 26 (107)
T cd00933 2 NTFQGVADYLQT--YH-RLPDNYITKSQ 26 (107)
T ss_pred chHHHHHHHHHH--hC-cCCcceEeHHH
Confidence 455566678887 33 37777766543
No 3
>PHA00692 hypothetical protein
Probab=16.29 E-value=58 Score=25.16 Aligned_cols=9 Identities=67% Similarity=1.453 Sum_probs=7.6
Q ss_pred CCCCCceeC
Q 018835 5 SLPPGFRFH 13 (350)
Q Consensus 5 ~LPpGfRF~ 13 (350)
..||||||-
T Consensus 36 eyppgfrfg 44 (74)
T PHA00692 36 EYPPGFRFG 44 (74)
T ss_pred ecCCCcccc
Confidence 579999995
No 4
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=16.29 E-value=1.6e+02 Score=19.26 Aligned_cols=20 Identities=30% Similarity=0.315 Sum_probs=15.7
Q ss_pred ChHHHHHHHHHHHHcCCCCC
Q 018835 15 TDEELVGYYLKRKVDGLQIE 34 (350)
Q Consensus 15 TDEELV~~YL~~Ki~G~pl~ 34 (350)
+-.|||.+|+.-|+.-+..+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999999855443
No 5
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=15.07 E-value=1.7e+02 Score=27.81 Aligned_cols=47 Identities=13% Similarity=0.222 Sum_probs=25.2
Q ss_pred CCCCceeCCChHHHHHHHHHHHHcCCCCCCCceeeccCCCCCCCCCC
Q 018835 6 LPPGFRFHPTDEELVGYYLKRKVDGLQIELEVIPVVELYKFDPWELP 52 (350)
Q Consensus 6 LPpGfRF~PTDEELV~~YL~~Ki~G~pl~~~~I~evDVY~~ePweLp 52 (350)
.-.+|||+|+|.--+..--.....+..+-+....+.+-|.-+=|+.-
T Consensus 109 ~i~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~~~~dgee~~me 155 (216)
T KOG3238|consen 109 PITEFRFVPSDKSALEAMFTQFCECQELNPDPDEDEDDYDGEEYDME 155 (216)
T ss_pred ccccceecCCchhHHHHHHHHHHhhhhcCCCccccccccccchhhhh
Confidence 44689999999887775333333343332222333444444444443
No 6
>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=12.07 E-value=1.1e+02 Score=26.88 Aligned_cols=11 Identities=55% Similarity=0.869 Sum_probs=9.4
Q ss_pred CCChHHHHHHH
Q 018835 13 HPTDEELVGYY 23 (350)
Q Consensus 13 ~PTDEELV~~Y 23 (350)
.||||||+..|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 39999999875
No 7
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=11.90 E-value=1.1e+02 Score=23.18 Aligned_cols=9 Identities=67% Similarity=1.029 Sum_probs=7.7
Q ss_pred CCChHHHHH
Q 018835 13 HPTDEELVG 21 (350)
Q Consensus 13 ~PTDEELV~ 21 (350)
+||||||-.
T Consensus 10 nPt~eElAA 18 (62)
T PF13822_consen 10 NPTDEELAA 18 (62)
T ss_pred CCCHHHHHH
Confidence 799999865
No 8
>PF08338 DUF1731: Domain of unknown function (DUF1731); InterPro: IPR013549 This domain of unknown function appears towards the C terminus of proteins of the NAD dependent epimerase/dehydratase family (IPR001509 from INTERPRO) in bacteria, eukaryotes and archaea. Many of the proteins in which it is found are involved in cell-division inhibition. ; PDB: 3OH8_A.
Probab=11.79 E-value=1.5e+02 Score=21.34 Aligned_cols=16 Identities=44% Similarity=0.690 Sum_probs=9.6
Q ss_pred CCceeC-CChHHHHHHH
Q 018835 8 PGFRFH-PTDEELVGYY 23 (350)
Q Consensus 8 pGfRF~-PTDEELV~~Y 23 (350)
-||+|+ |+=++.+.+.
T Consensus 31 ~GF~F~~p~l~~AL~~l 47 (48)
T PF08338_consen 31 AGFQFRYPTLEEALRDL 47 (48)
T ss_dssp TT---S-SSHHHHHHH-
T ss_pred CCCcccCCCHHHHHhcc
Confidence 599998 8888887763
No 9
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=11.06 E-value=1.6e+02 Score=19.02 Aligned_cols=14 Identities=36% Similarity=0.363 Sum_probs=11.3
Q ss_pred CceeCCChHHHHHH
Q 018835 9 GFRFHPTDEELVGY 22 (350)
Q Consensus 9 GfRF~PTDEELV~~ 22 (350)
....+|+-||||..
T Consensus 6 kl~~RP~~eeLv~r 19 (26)
T smart00707 6 KLSQRPTREELEER 19 (26)
T ss_pred HHHcCCCHHHHHHc
Confidence 45689999999973
No 10
>COG2326 Uncharacterized conserved protein [Function unknown]
Probab=9.14 E-value=2.3e+02 Score=27.98 Aligned_cols=31 Identities=39% Similarity=0.485 Sum_probs=24.9
Q ss_pred CCCCceeC----CChHHHHHHHHHHHHcCCCCCCC
Q 018835 6 LPPGFRFH----PTDEELVGYYLKRKVDGLQIELE 36 (350)
Q Consensus 6 LPpGfRF~----PTDEELV~~YL~~Ki~G~pl~~~ 36 (350)
=|.|+|=. |||+|+-..||.|-+.-.|-..+
T Consensus 99 NPR~~rvval~aPt~~E~~qwY~qRy~~~lPa~Ge 133 (270)
T COG2326 99 NPRGARVVALPAPTDRERGQWYFQRYVAHLPAAGE 133 (270)
T ss_pred CCceeEEeecCCCChHhhccHHHHHHHHhCCCCCe
Confidence 36777754 99999999999999997776543
Done!