Query 047622
Match_columns 300
No_of_seqs 170 out of 988
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 13:01:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047622.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047622hhsearch_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 8.4E-42 1.8E-46 284.9 7.1 127 8-141 1-129 (129)
2 PHA00692 hypothetical protein 24.6 31 0.00068 25.3 0.5 10 6-15 35-44 (74)
3 PRK14129 heat shock protein Hs 18.7 1.1E+02 0.0025 24.9 2.7 21 36-56 18-38 (105)
4 PF07960 CBP4: CBP4; InterPro 17.9 65 0.0014 27.3 1.1 11 15-25 30-40 (128)
5 smart00265 BH4 BH4 Bcl-2 homol 16.8 1.5E+02 0.0033 18.4 2.3 19 17-35 4-22 (27)
6 PRK02079 pyrroloquinoline quin 16.7 79 0.0017 24.8 1.3 15 1-15 1-15 (88)
7 PF11285 DUF3086: Protein of u 14.1 21 0.00046 33.7 -2.9 25 47-73 129-153 (283)
8 COG3100 Uncharacterized protei 13.7 1.2E+02 0.0027 24.4 1.7 14 154-167 10-23 (103)
9 smart00707 RPEL Repeat in Dros 13.7 1.2E+02 0.0027 18.6 1.3 13 11-23 6-18 (26)
10 PRK14390 hypothetical protein; 13.3 1.1E+02 0.0023 22.8 1.2 20 4-23 9-28 (63)
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=8.4e-42 Score=284.86 Aligned_cols=127 Identities=40% Similarity=0.748 Sum_probs=92.3
Q ss_pred CCCCCeeCCChHHHHHHHHhhhhcCCCCCCccceeecccccCCCCccchhhhcCCCCCCCCCceEEEecCcccCCCCCcc
Q 047622 8 LPLGCKFQPSDELLVQFYLFNKISGTPAPFVDDLVRTENLYGFKEPWQIWRQFGGPDLEDGEDLYFFTPLKKKSVNGSRI 87 (300)
Q Consensus 8 LPpGfRF~PTDeELV~~YL~~Ki~g~~lp~~~~I~d~DdvY~~~~PwdLp~~~~~~~~~~~~ewYFFs~r~~k~~~G~R~ 87 (300)
|||||||+|||+|||.+||++|+.|.+++....|.++| ||+ +|||+|+..+. .++++||||+++.+++.+|.|.
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~D-iy~-~~P~~L~~~~~----~~~~~~yFF~~~~~~~~~~~r~ 74 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVD-IYS-AHPWELPAKFK----GGDEEWYFFSPRKKKYPNGGRP 74 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE---GGG-S-GGGCHHHSS----S-SSEEEEEEE----------S
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecc-cCc-cChHHhhhhcc----CCCceEEEEEecccccCCcccc
Confidence 89999999999999999999999999988755688887 995 89999995432 3567999999999999999999
Q ss_pred ccccccceeeecCCCceEEeCCCCceeeeEEEEEeecCCCC--CCcCeEEEEEEeC
Q 047622 88 DRRVGTGTWQGEDAGKAVVSRKSKKKIGSKKRFRYEKDKSP--HNGCWIMHEYSLN 141 (300)
Q Consensus 88 ~R~~g~G~Wk~tG~~k~I~~~~~g~viG~KktL~Fy~g~~~--~kT~WvMhEY~l~ 141 (300)
+|++++|+||++|+.++|.+. ++.+||+|++|+||.++.+ .+|+|+||||+|.
T Consensus 75 ~R~~~~G~Wk~~g~~~~i~~~-~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 75 NRVTGGGYWKSTGKEKPIKDP-GGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp -EEETTEEEEEECEEEEEEE--TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred cccccceEEeecccccccccc-cceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 999999999999999999975 7899999999999976443 4899999999984
No 2
>PHA00692 hypothetical protein
Probab=24.64 E-value=31 Score=25.35 Aligned_cols=10 Identities=30% Similarity=0.584 Sum_probs=7.9
Q ss_pred CCCCCCCeeC
Q 047622 6 PPLPLGCKFQ 15 (300)
Q Consensus 6 ~~LPpGfRF~ 15 (300)
...||||||-
T Consensus 35 veyppgfrfg 44 (74)
T PHA00692 35 VEYPPGFRFG 44 (74)
T ss_pred EecCCCcccc
Confidence 3579999994
No 3
>PRK14129 heat shock protein HspQ; Provisional
Probab=18.72 E-value=1.1e+02 Score=24.95 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=15.7
Q ss_pred CCccceeecccccCCCCccch
Q 047622 36 PFVDDLVRTENLYGFKEPWQI 56 (300)
Q Consensus 36 p~~~~I~d~DdvY~~~~PwdL 56 (300)
+-...|+|+|.+|+..+||-.
T Consensus 18 ~yrGVV~DVDP~fs~~e~w~~ 38 (105)
T PRK14129 18 GYLGVVVDIDPEYSLEEPSPD 38 (105)
T ss_pred CCCeEEEeeCCCcCCCchhHH
Confidence 344679999999976788843
No 4
>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=17.86 E-value=65 Score=27.27 Aligned_cols=11 Identities=36% Similarity=0.691 Sum_probs=9.8
Q ss_pred CCChHHHHHHH
Q 047622 15 QPSDELLVQFY 25 (300)
Q Consensus 15 ~PTDeELV~~Y 25 (300)
.||||||+..|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 89999999865
No 5
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=16.77 E-value=1.5e+02 Score=18.38 Aligned_cols=19 Identities=26% Similarity=0.205 Sum_probs=15.4
Q ss_pred ChHHHHHHHHhhhhcCCCC
Q 047622 17 SDELLVQFYLFNKISGTPA 35 (300)
Q Consensus 17 TDeELV~~YL~~Ki~g~~l 35 (300)
+-.|||.+|+.-|+..+..
T Consensus 4 ~nRelV~~yv~yKLsQrgy 22 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGY 22 (27)
T ss_pred chHHHHHHHHHHHHhhcCC
Confidence 5579999999999976544
No 6
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=16.68 E-value=79 Score=24.78 Aligned_cols=15 Identities=33% Similarity=0.505 Sum_probs=11.9
Q ss_pred CCCCCCCCCCCCeeC
Q 047622 1 MERTRPPLPLGCKFQ 15 (300)
Q Consensus 1 M~~~~~~LPpGfRF~ 15 (300)
|..+.|.||+||||+
T Consensus 1 ~~~~~p~l~~~~rl~ 15 (88)
T PRK02079 1 DRNQVPTLRPGYRFQ 15 (88)
T ss_pred CCCCCcccCCCcccc
Confidence 345678999999987
No 7
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=14.10 E-value=21 Score=33.69 Aligned_cols=25 Identities=44% Similarity=0.869 Sum_probs=16.0
Q ss_pred ccCCCCccchhhhcCCCCCCCCCceEE
Q 047622 47 LYGFKEPWQIWRQFGGPDLEDGEDLYF 73 (300)
Q Consensus 47 vY~~~~PwdLp~~~~~~~~~~~~ewYF 73 (300)
.|+ +||.|-..+.+.....-+.|||
T Consensus 129 yYg--~PWqLRRtfe~~hae~v~~WFF 153 (283)
T PF11285_consen 129 YYG--PPWQLRRTFEPIHAERVEDWFF 153 (283)
T ss_pred ccC--ChHHHHhcccHHHHHHHHHHHh
Confidence 574 9999987665433333355776
No 8
>COG3100 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=13.72 E-value=1.2e+02 Score=24.38 Aligned_cols=14 Identities=36% Similarity=0.532 Sum_probs=11.4
Q ss_pred eEEEEEEEcCCCCC
Q 047622 154 LVLCRIRKNEDIDQ 167 (300)
Q Consensus 154 ~VLCrI~kk~~~~~ 167 (300)
-.||-|||+++.++
T Consensus 10 ~mlCaIYkS~kk~~ 23 (103)
T COG3100 10 SMLCAIYKSPKKDG 23 (103)
T ss_pred eeeeeeeecCcCCc
Confidence 46899999998664
No 9
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=13.67 E-value=1.2e+02 Score=18.57 Aligned_cols=13 Identities=23% Similarity=0.253 Sum_probs=10.9
Q ss_pred CCeeCCChHHHHH
Q 047622 11 GCKFQPSDELLVQ 23 (300)
Q Consensus 11 GfRF~PTDeELV~ 23 (300)
...++|+-+|||.
T Consensus 6 kl~~RP~~eeLv~ 18 (26)
T smart00707 6 KLSQRPTREELEE 18 (26)
T ss_pred HHHcCCCHHHHHH
Confidence 4568999999997
No 10
>PRK14390 hypothetical protein; Provisional
Probab=13.33 E-value=1.1e+02 Score=22.77 Aligned_cols=20 Identities=25% Similarity=0.293 Sum_probs=15.6
Q ss_pred CCCCCCCCCeeCCChHHHHH
Q 047622 4 TRPPLPLGCKFQPSDELLVQ 23 (300)
Q Consensus 4 ~~~~LPpGfRF~PTDeELV~ 23 (300)
.++-+|+-+||.||=.|=-.
T Consensus 9 iSp~~~~~CRf~PTCS~Ya~ 28 (63)
T PRK14390 9 FSPFFGPRCRFIPSCSSYGY 28 (63)
T ss_pred hCCCCCCCCCcCccHHHHHH
Confidence 46778999999999766443
Done!