Query         537021.9.peg.885_1
Match_columns 54
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Wed May 25 01:45:33 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_885.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PHA01623 hypothetical protein   34.9      23  0.0006   18.2   1.7   18   19-36     34-51  (56)
  2 TIGR02103 pullul_strch alpha-1  34.3      12 0.00031   19.7   0.2   36    4-44    570-606 (945)
  3 KOG0054 consensus               24.9      39   0.001   17.1   1.4   19   20-38   1310-1328(1381)
  4 PTZ00243 ABC transporter; Prov  21.6      49  0.0012   16.6   1.4   19   20-38   1481-1499(1560)
  5 pfam07939 DUF1685 Protein of u  19.7      36 0.00091   17.3   0.4   14   29-42      6-19  (64)
  6 TIGR02041 CysI sulfite reducta  16.2 1.1E+02  0.0028   14.7   2.2   26    5-30    381-407 (550)
  7 TIGR01950 SoxR redox-sensitive  12.6 1.4E+02  0.0035   14.2   1.8   26   19-46     91-118 (142)
  8 pfam05326 SVA Seminal vesicle   11.0      52  0.0013   16.4  -0.7   22   29-50     57-78  (124)
  9 KOG3909 consensus               10.4      99  0.0025   14.9   0.5   28    7-37    296-323 (414)
 10 PRK12933 secD preprotein trans   8.2 1.9E+02  0.0049   13.4   1.3   20   23-42    512-531 (604)

No 1  
>PHA01623 hypothetical protein
Probab=34.91  E-value=23  Score=18.23  Aligned_cols=18  Identities=17%  Similarity=0.379  Sum_probs=14.5

Q ss_pred             ECHHHHHHHHHHHHHHHH
Q ss_conf             375899999999721021
Q 537021.9.peg.8   19 FNDKKIQELIREELRGCM   36 (54)
Q Consensus        19 fndkkiqelireelrgcm   36 (54)
                      -||++||..|||.+....
T Consensus        34 ~n~~~~~~~i~ea~~eyl   51 (56)
T PHA01623         34 KNNLQLTQAIEEAIKEYL   51 (56)
T ss_pred             CCCHHHHHHHHHHHHHHH
T ss_conf             364879999999999999


No 2  
>TIGR02103 pullul_strch alpha-1,6-glucosidases, pullulanase-type; InterPro: IPR011839    Members of this protein family include secreted (or membrane-anchored) pullulanases of Gram-negative bacteria and pullulanase-type starch debranching enzymes of plants. Both enzymes hydrolyze alpha-1,6 glycosidic linkages. Pullulan is an unusual, industrially important polysaccharide in which short alpha-1,4 chains (maltotriose) are connected in alpha-1,6 linkages. Enzymes that cleave alpha-1,6 linkages in pullulan and release maltotriose are called pullulanases although pullulan itself may not be the natural substrate. This family is closely homologous to, but architecturally different from the pullulanases of Gram-positive bacteria (IPR011838 from INTERPRO).; GO: 0051060 pullulanase activity, 0005975 carbohydrate metabolic process.
Probab=34.30  E-value=12  Score=19.71  Aligned_cols=36  Identities=39%  Similarity=0.573  Sum_probs=27.2

Q ss_pred             CCCCCCEEEEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             20002025799857-637589999999972102120020002
Q 537021.9.peg.8    4 GKLTSNINLTLTGI-TFNDKKIQELIREELRGCMTIKSGILS   44 (54)
Q Consensus         4 gkltsninltltgi-tfndkkiqelireelrgcmtiksgils   44 (54)
                      |+-.+-+||.=||| ||||.     +|.-+||--..-+|+-|
T Consensus       570 f~~AtQlNL~GTGIGtFsDR-----lRDA~RGGsPFd~Gvds  606 (945)
T TIGR02103       570 FINATQLNLAGTGIGTFSDR-----LRDAVRGGSPFDSGVDS  606 (945)
T ss_pred             CCHHHHHHHCCCCCCCCCHH-----HHHHHHCCCCCCCCCCC
T ss_conf             21035554136764411146-----88764078888877367


No 3  
>KOG0054 consensus
Probab=24.88  E-value=39  Score=17.07  Aligned_cols=19  Identities=42%  Similarity=0.767  Sum_probs=16.4

Q ss_pred             CHHHHHHHHHHHHHHHHHH
Q ss_conf             7589999999972102120
Q 537021.9.peg.8   20 NDKKIQELIREELRGCMTI   38 (54)
Q Consensus        20 ndkkiqelireelrgcmti   38 (54)
                      .|..||+-||++...|-.+
T Consensus      1310 TD~lIQ~tIR~~F~dcTVL 1328 (1381)
T KOG0054        1310 TDALIQKTIREEFKDCTVL 1328 (1381)
T ss_pred             HHHHHHHHHHHHHCCCEEE
T ss_conf             8999999999983789699


No 4  
>PTZ00243 ABC transporter; Provisional
Probab=21.64  E-value=49  Score=16.56  Aligned_cols=19  Identities=21%  Similarity=0.319  Sum_probs=15.8

Q ss_pred             CHHHHHHHHHHHHHHHHHH
Q ss_conf             7589999999972102120
Q 537021.9.peg.8   20 NDKKIQELIREELRGCMTI   38 (54)
Q Consensus        20 ndkkiqelireelrgcmti   38 (54)
                      .|+.||+.||++.++|-.|
T Consensus      1481 TD~lIQ~tIr~~F~~~TVI 1499 (1560)
T PTZ00243       1481 LDRQIQATVMSAFSAYTVI 1499 (1560)
T ss_pred             HHHHHHHHHHHHHCCCEEE
T ss_conf             9999999999982899899


No 5  
>pfam07939 DUF1685 Protein of unknown function (DUF1685). The members of this family are hypothetical eukaryotic proteins of unknown function. The region in question is approximately 100 amino acid residues long.
Probab=19.73  E-value=36  Score=17.27  Aligned_cols=14  Identities=43%  Similarity=0.900  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99721021200200
Q 537021.9.peg.8   29 REELRGCMTIKSGI   42 (54)
Q Consensus        29 reelrgcmtiksgi   42 (54)
                      -+|||||+..--|.
T Consensus         6 l~ELkGc~dLGFGF   19 (64)
T pfam07939         6 LEELKGCFELGFGF   19 (64)
T ss_pred             HHHHHCCCCCCCCC
T ss_conf             89972431015675


No 6  
>TIGR02041 CysI sulfite reductase (NADPH) hemoprotein, beta-component; InterPro: IPR011786    Sulphite reductase (NADPH) catalyzes a six electron reduction of sulphite to sulphide in prokaryotic organisms. It is a complex oligomeric enzyme composed of two different peptides with a subunit composition of alpha(8)-beta(4). The alpha component, encoded by cysJ, is a flavoprotein containing both FMN and FAD, while the beta component, encoded by cysI, is a siroheme, iron-sulphur protein.; GO: 0004783 sulfite reductase (NADPH) activity, 0050661 NADP binding, 0051539 4 iron 4 sulfur cluster binding, 0008652 amino acid biosynthetic process, 0009337 sulfite reductase complex (NADPH).
Probab=16.18  E-value=1.1e+02  Score=14.71  Aligned_cols=26  Identities=38%  Similarity=0.572  Sum_probs=21.5

Q ss_pred             CCCCCEEEEEEEEEECHH-HHHHHHHH
Q ss_conf             000202579985763758-99999999
Q 537021.9.peg.8    5 KLTSNINLTLTGITFNDK-KIQELIRE   30 (54)
Q Consensus         5 kltsninltltgitfndk-kiqelire   30 (54)
                      .+|||-||-..+++-..| ||.+|+++
T Consensus       381 RiT~NQNlIiA~V~e~~K~~Ie~l~~~  407 (550)
T TIGR02041       381 RITSNQNLIIANVPEGGKAKIEALARQ  407 (550)
T ss_pred             EECCCCCEEEECCCCHHHHHHHHHHHH
T ss_conf             344776378842784236889999998


No 7  
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR; InterPro: IPR010211   SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulphur cluster activates SoxR. The physiological role in Escherichia coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In Escherichia coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0005506 iron ion binding, 0006118 electron transport, 0006355 regulation of transcription DNA-dependent, 0006979 response to oxidative stress.
Probab=12.60  E-value=1.4e+02  Score=14.24  Aligned_cols=26  Identities=42%  Similarity=0.755  Sum_probs=16.2

Q ss_pred             ECHHHHHHH--HHHHHHHHHHHHHHHCCCC
Q ss_conf             375899999--9997210212002000264
Q 537021.9.peg.8   19 FNDKKIQEL--IREELRGCMTIKSGILSNR   46 (54)
Q Consensus        19 fndkkiqel--ireelrgcmtiksgilsnr   46 (54)
                      +=|..|+.|  .|++|-||  |--|-||-.
T Consensus        91 ~LdeRI~~L~~LRD~LdgC--IGCGCLSLe  118 (142)
T TIGR01950        91 ELDERIEQLNALRDQLDGC--IGCGCLSLE  118 (142)
T ss_pred             HHHHHHHHHHHHHHHCCCC--CCCCCCCCC
T ss_conf             8899999997677641686--236755402


No 8  
>pfam05326 SVA Seminal vesicle autoantigen (SVA). This family consists of seminal vesicle autoantigen and prolactin-inducible (PIP) proteins. Seminal vesicle autoantigen (SVA) is specifically present in the seminal plasma of mice. This 19-kDa secretory glycoprotein suppresses the motility of spermatozoa by interacting with phospholipid. PIP, has several known functions. In saliva, this protein plays a role in host defence by binding to microorganisms such as Streptococcus. PIP is an aspartyl proteinase and it acts as a factor capable of suppressing T-cell apoptosis through its interaction with CD4.
Probab=10.95  E-value=52  Score=16.40  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9972102120020002642113
Q 537021.9.peg.8   29 REELRGCMTIKSGILSNRSAKI   50 (54)
Q Consensus        29 reelrgcmtiksgilsnrsaki   50 (54)
                      ..+++-||.+|--+.||+.-|.
T Consensus        57 ~~~v~eCmVVK~~l~sn~~i~~   78 (124)
T pfam05326        57 KTNVKECMVVKAYLESNPPIKG   78 (124)
T ss_pred             ECCCCEEEEEEEEEECCCCEEE
T ss_conf             7032246999999713884442


No 9  
>KOG3909 consensus
Probab=10.37  E-value=99  Score=14.95  Aligned_cols=28  Identities=32%  Similarity=0.527  Sum_probs=20.8

Q ss_pred             CCCEEEEEEEEEECHHHHHHHHHHHHHHHHH
Q ss_conf             0202579985763758999999997210212
Q 537021.9.peg.8    7 TSNINLTLTGITFNDKKIQELIREELRGCMT   37 (54)
Q Consensus         7 tsninltltgitfndkkiqelireelrgcmt   37 (54)
                      .|.|.+   |+.|+|+|++|-...-++||.-
T Consensus       296 ~skie~---~ld~~dekfaeDftpl~sgC~C  323 (414)
T KOG3909         296 NSKIEL---GLDMWDEKFAEDFTPLQSGCVC  323 (414)
T ss_pred             HHCEEE---EECCCHHHHHHHCCCCCCCCCE
T ss_conf             431233---3214256655315411158514


No 10 
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=8.20  E-value=1.9e+02  Score=13.43  Aligned_cols=20  Identities=25%  Similarity=0.302  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999721021200200
Q 537021.9.peg.8   23 KIQELIREELRGCMTIKSGI   42 (54)
Q Consensus        23 kiqelireelrgcmtiksgi   42 (54)
                      -|-|-||||+|--.++++.|
T Consensus       512 lifERirEElr~G~~~~~Ai  531 (604)
T PRK12933        512 LIFERIKDKLKEGRSFALAI  531 (604)
T ss_pred             HHHHHHHHHHHCCCCHHHHH
T ss_conf             37488899997699879999


Done!