Query 537021.9.peg.1120_1
Match_columns 40
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Wed May 25 08:32:21 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i peg_1120.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00331 hrcA heat-inducible 51.4 3.1 8E-05 21.9 -0.7 21 1-21 8-28 (343)
2 TIGR02719 repress_PhaQ poly-be 36.2 14 0.00036 19.0 0.7 23 17-39 61-83 (138)
3 pfam10124 Mu-like_gpT Mu-like 32.9 20 0.00051 18.3 1.1 23 4-26 41-63 (291)
4 COG1420 HrcA Transcriptional r 24.7 18 0.00046 18.5 -0.3 23 1-23 12-34 (346)
5 COG0757 AroQ 3-dehydroquinate 22.6 20 0.00051 18.3 -0.5 22 9-30 16-37 (146)
6 PRK00082 hrcA heat-inducible t 21.6 23 0.00059 18.0 -0.3 22 1-22 12-33 (339)
7 TIGR02630 xylose_isom_A xylose 18.4 32 0.00081 17.4 -0.1 12 22-33 228-239 (437)
8 pfam04716 ETC_C1_NDUFA5 ETC co 17.3 70 0.0018 15.9 1.4 23 14-36 9-31 (57)
9 TIGR01088 aroQ 3-dehydroquinat 16.4 41 0.001 16.9 0.0 22 9-30 15-36 (144)
10 PRK04326 methionine synthase; 15.6 74 0.0019 15.8 1.2 27 2-28 11-37 (330)
No 1
>TIGR00331 hrcA heat-inducible transcription repressor HrcA; InterPro: IPR002571 In response to elevated temperature, both prokaryotic and eukaryotic cells increase expression of a small family of chaperones. The regulatory network that functions to control the transcription of the heat shock genes in bacteria includes unique structural motifs in the promoter region of these genes and the expression of alternate sigma factors. One of the conserved structural motifs, the inverted repeat CIRCE element, is found in the 5' region of many heat shock operons . For Bacillus subtilis three classes of heat shock genes regulated by different mechanisms have been described. Regulation of class I heat shock genes (dnaK and groE operons) involves an inverted repeat (CIRCE element) which most probably serves as an operator for a repressor .; GO: 0006355 regulation of transcription DNA-dependent.
Probab=51.40 E-value=3.1 Score=21.91 Aligned_cols=21 Identities=43% Similarity=0.643 Sum_probs=18.5
Q ss_pred CCHHHCCCCCHHHHHHHHHHH
Q ss_conf 921320385223454445566
Q 537021.9.peg.1 1 LKSIIGNFPREKEVVGSRTLR 21 (40)
Q Consensus 1 lksiignfprekevvgsrtlr 21 (40)
|+.||-.|-+..+-||||||-
T Consensus 8 L~~Iv~~Y~~~~~PVGSk~L~ 28 (343)
T TIGR00331 8 LKAIVEEYIKTGEPVGSKTLL 28 (343)
T ss_pred HHHHHHHHHHCCCCCHHHHHH
T ss_conf 999999973348962047677
No 2
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor; InterPro: IPR014091 Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family..
Probab=36.20 E-value=14 Score=19.01 Aligned_cols=23 Identities=52% Similarity=0.507 Sum_probs=20.2
Q ss_pred HHHHHHHHHCCHHHHHHHHHCCC
Q ss_conf 45566665361023333432057
Q 537021.9.peg.1 17 SRTLRNIEKKPKESSTRKSSLEG 39 (40)
Q Consensus 17 srtlrniekkpkesstrkssleg 39 (40)
-||||.+||.---+|+-..|-||
T Consensus 61 YRTLR~LEK~NLI~S~WDTS~~G 83 (138)
T TIGR02719 61 YRTLRKLEKDNLISSTWDTSDEG 83 (138)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCC
T ss_conf 78988876651355666468878
No 3
>pfam10124 Mu-like_gpT Mu-like prophage major head subunit gpT. Members of this family of proteins comprise various caudoviral prophage proteins, including the Mu-like prophage major head subunit gpT.
Probab=32.88 E-value=20 Score=18.34 Aligned_cols=23 Identities=26% Similarity=0.687 Sum_probs=19.6
Q ss_pred HHCCCCCHHHHHHHHHHHHHHHC
Q ss_conf 32038522345444556666536
Q 537021.9.peg.1 4 IIGNFPREKEVVGSRTLRNIEKK 26 (40)
Q Consensus 4 iignfprekevvgsrtlrniekk 26 (40)
-.|.||+-+|-+|.|.++|+...
T Consensus 41 WLg~~P~mrEWiG~R~i~~l~~~ 63 (291)
T pfam10124 41 WLGQFPGLREWIGDRVIQDLSAH 63 (291)
T ss_pred HHCCCCCCHHHCCHHHHHHHHHC
T ss_conf 01268851443266876104226
No 4
>COG1420 HrcA Transcriptional regulator of heat shock gene [Transcription]
Probab=24.74 E-value=18 Score=18.54 Aligned_cols=23 Identities=35% Similarity=0.567 Sum_probs=18.0
Q ss_pred CCHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 92132038522345444556666
Q 537021.9.peg.1 1 LKSIIGNFPREKEVVGSRTLRNI 23 (40)
Q Consensus 1 lksiignfprekevvgsrtlrni 23 (40)
|+.|+-.|-...|-||||+|-.-
T Consensus 12 L~aIV~~Yi~t~ePVGSk~L~e~ 34 (346)
T COG1420 12 LRAIVEDYLATGEPVGSKTLSEK 34 (346)
T ss_pred HHHHHHHHHCCCCCCCHHHHHHH
T ss_conf 99999999604991663999987
No 5
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=22.57 E-value=20 Score=18.33 Aligned_cols=22 Identities=41% Similarity=0.552 Sum_probs=18.7
Q ss_pred CCHHHHHHHHHHHHHHHCCHHH
Q ss_conf 5223454445566665361023
Q 537021.9.peg.1 9 PREKEVVGSRTLRNIEKKPKES 30 (40)
Q Consensus 9 prekevvgsrtlrniekkpkes 30 (40)
-||.++-|+.||..|++.-++.
T Consensus 16 ~REp~iYG~~Tl~di~~~~~~~ 37 (146)
T COG0757 16 KREPGIYGSTTLEDIEADLEEE 37 (146)
T ss_pred CCCCCCCCCCCHHHHHHHHHHH
T ss_conf 7888735745399999999999
No 6
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=21.65 E-value=23 Score=18.03 Aligned_cols=22 Identities=36% Similarity=0.620 Sum_probs=18.2
Q ss_pred CCHHHCCCCCHHHHHHHHHHHH
Q ss_conf 9213203852234544455666
Q 537021.9.peg.1 1 LKSIIGNFPREKEVVGSRTLRN 22 (40)
Q Consensus 1 lksiignfprekevvgsrtlrn 22 (40)
|+.||-+|-+..+-||||+|-.
T Consensus 12 L~aiVe~Yi~tg~PVGSk~L~~ 33 (339)
T PRK00082 12 LRAIVEDYIATGEPVGSKTLSE 33 (339)
T ss_pred HHHHHHHHHCCCCCCCHHHHHH
T ss_conf 9999999851498556799997
No 7
>TIGR02630 xylose_isom_A xylose isomerase; InterPro: IPR013452 Xylose isomerase (5.3.1.5 from EC) is an enzyme which interconverts D-xylose and D-xylulose.; GO: 0009045 xylose isomerase activity.
Probab=18.38 E-value=32 Score=17.41 Aligned_cols=12 Identities=50% Similarity=0.672 Sum_probs=8.8
Q ss_pred HHHHCCHHHHHH
Q ss_conf 665361023333
Q 537021.9.peg.1 22 NIEKKPKESSTR 33 (40)
Q Consensus 22 niekkpkesstr 33 (40)
-||-||||.++.
T Consensus 228 LIEPKPkEPTKH 239 (437)
T TIGR02630 228 LIEPKPKEPTKH 239 (437)
T ss_pred CCCCCCCCCCCC
T ss_conf 116763121888
No 8
>pfam04716 ETC_C1_NDUFA5 ETC complex I subunit conserved region. Family of eukaryotic NADH-ubiquinone oxidoreductase subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N-terminus of the member proteins.
Probab=17.28 E-value=70 Score=15.89 Aligned_cols=23 Identities=30% Similarity=0.515 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf 54445566665361023333432
Q 537021.9.peg.1 14 VVGSRTLRNIEKKPKESSTRKSS 36 (40)
Q Consensus 14 vvgsrtlrniekkpkesstrkss 36 (40)
..-.++|+.+.+-|++|.-|++.
T Consensus 9 ~lY~~~L~~l~~iP~~s~YRk~t 31 (57)
T pfam04716 9 ALYTKTLKKLKKIPEDSVYRKYT 31 (57)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHH
T ss_conf 99999999998679820899999
No 9
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales , and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity, 0009073 aromatic amino acid family biosynthetic process.
Probab=16.35 E-value=41 Score=16.94 Aligned_cols=22 Identities=41% Similarity=0.421 Sum_probs=18.3
Q ss_pred CCHHHHHHHHHHHHHHHCCHHH
Q ss_conf 5223454445566665361023
Q 537021.9.peg.1 9 PREKEVVGSRTLRNIEKKPKES 30 (40)
Q Consensus 9 prekevvgsrtlrniekkpkes 30 (40)
-||+.+-|+-||-.|++.-++.
T Consensus 15 ~REP~~YG~~tle~i~~~~~~~ 36 (144)
T TIGR01088 15 LREPGVYGSQTLEEIEEILETF 36 (144)
T ss_pred CCCCCCCCCCCHHHHHHHHHHH
T ss_conf 7465324786878999999999
No 10
>PRK04326 methionine synthase; Provisional
Probab=15.64 E-value=74 Score=15.78 Aligned_cols=27 Identities=26% Similarity=0.601 Sum_probs=18.6
Q ss_pred CHHHCCCCCHHHHHHHHHHHHHHHCCH
Q ss_conf 213203852234544455666653610
Q 537021.9.peg.1 2 KSIIGNFPREKEVVGSRTLRNIEKKPK 28 (40)
Q Consensus 2 ksiignfprekevvgsrtlrniekkpk 28 (40)
.++||.|||-++..-.+..++..+-++
T Consensus 11 Tt~vGS~pRp~~L~~a~~~~~~g~i~~ 37 (330)
T PRK04326 11 TTVVGSYPKPKWLLEAIKLREAGKIPE 37 (330)
T ss_pred CCEECCCCCCHHHHHHHHHHHCCCCCH
T ss_conf 551268969999999999977599999
Done!