Query         537021.9.peg.937_1
Match_columns 48
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Wed May 25 08:13:14 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_937.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam05814 DUF843 Baculovirus p  65.9     7.6 0.00019   20.5   3.4   38    5-42     11-49  (83)
  2 TIGR02125 CytB-hydogenase Ni/F  35.0      11 0.00028   19.7   0.0   14   33-46     23-36  (229)
  3 pfam11846 DUF3366 Domain of un  33.8      25 0.00064   17.9   1.7   16   21-36      3-18  (193)
  4 pfam07327 Neuroparsin Neuropar  31.2      25 0.00063   17.9   1.3   15   21-35     10-24  (103)
  5 PRK10171 hydrogenase 1 b-type   22.8      34 0.00087   17.2   0.8   16   28-43     29-44  (235)
  6 KOG4821 consensus               17.8      79   0.002   15.3   1.8   20   18-37     84-103 (287)
  7 pfam09980 DUF2214 Predicted me  16.6      55  0.0014   16.1   0.7   20   25-44     61-80  (150)
  8 TIGR02785 addA_Gpos recombinat  16.0   1E+02  0.0026   14.8   2.0   28   12-43    104-132 (1295)
  9 TIGR02546 III_secr_ATP type II  11.5      87  0.0022   15.1   0.6    8    3-10    320-327 (430)
 10 pfam05704 Caps_synth Capsular   10.8 1.7E+02  0.0043   13.7   2.1   36   12-47    104-139 (279)

No 1  
>pfam05814 DUF843 Baculovirus protein of unknown function (DUF843). This family consists of several Baculovirus proteins of around 85 residues long with no known function.
Probab=65.91  E-value=7.6  Score=20.49  Aligned_cols=38  Identities=29%  Similarity=0.390  Sum_probs=29.4

Q ss_pred             HHHHHHCCCC-HHHHHHHHHHHHHHHHHHCCHHHCCCCE
Q ss_conf             7767641700-1367799999999998500001005851
Q 537021.9.peg.9    5 ILDGFFSNKS-RMSTLHLFILIKVILFHSMTGYYIDNPL   42 (48)
Q Consensus         5 ildgffsnks-rmstlhlfilikvilfhsmtgyyidnpl   42 (48)
                      |+=||.-||. +.|.+-+|+|+-.++|--|..+|.-||-
T Consensus        11 iv~~fi~dk~e~~s~li~~~lllfvlF~~~l~vyyinte   49 (83)
T pfam05814        11 IVLAFIFDKNEGSSELILTLLVLFVLFFCLLNVYYINTE   49 (83)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             999999704566278999999999999998776403897


No 2  
>TIGR02125 CytB-hydogenase Ni/Fe-hydrogenase, b-type cytochrome subunit; InterPro: IPR000516   Bacterial membrane-bound nickel-dependent hydrogenases , ,  seem to be associated with a b-type cytochrome involved in electron transfer from hydrogen to oxygen. This cytochrome is a protein of about 28 kDa that seems to have four transmembrane regions, which include several histidine residues that may be involved in coordination of the haem iron group. The gene coding for this cytochrome is adjacent to that coding for the large subunit of the hydrogenase. It has been assigned a variety of names in different species: hupC, hyaC, hydC or hoxZ.   Every genome which contains a member of this family posesses a Ni/Fe hydrogenase according to Genome Properties (GenProp0177), and most are gene clustered with other hydrogenase components. Some Ni/Fe hydrogenase-containing species lack a member of this family but contain other CytB homologs, which may substitute for it.; GO: 0016491 oxidoreductase activity, 0006118 electron transport, 0016020 membrane.
Probab=34.97  E-value=11  Score=19.70  Aligned_cols=14  Identities=36%  Similarity=0.892  Sum_probs=11.0

Q ss_pred             CCHHHCCCCEECCC
Q ss_conf             00010058511234
Q 537021.9.peg.9   33 MTGYYIDNPLFCSE   46 (48)
Q Consensus        33 mtgyyidnplfcse   46 (48)
                      .|||||-+|+-...
T Consensus        23 ~TGfYIA~Pf~~~~   36 (229)
T TIGR02125        23 VTGFYIAYPFLSPP   36 (229)
T ss_pred             HHHHHHHCCCCCCC
T ss_conf             99998740037897


No 3  
>pfam11846 DUF3366 Domain of unknown function (DUF3366). This domain is functionally uncharacterized. This domain is found in bacteria. This presumed domain is about 200 amino acids in length.
Probab=33.84  E-value=25  Score=17.87  Aligned_cols=16  Identities=44%  Similarity=0.746  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHCCHH
Q ss_conf             9999999998500001
Q 537021.9.peg.9   21 LFILIKVILFHSMTGY   36 (48)
Q Consensus        21 lfilikvilfhsmtgy   36 (48)
                      ++-++-+|+.|||+-|
T Consensus         3 llall~pI~lHSmlEy   18 (193)
T pfam11846         3 LLALLAPIVLHSMLEY   18 (193)
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             9999999999996638


No 4  
>pfam07327 Neuroparsin Neuroparsin. This family consists of several locust specific neuroparsin proteins. Neuroparsins are produced by the A1 type of protocerebral median neurosecretory cells of the PI-CC system and display pleiotropic activities: inhibition of the effect of juvenile hormone, stimulation of fluid reabsorption of isolated recta, induction of an increase in hemolymph lipid and trehalose levels, and neurotrophic effects.
Probab=31.23  E-value=25  Score=17.90  Aligned_cols=15  Identities=47%  Similarity=0.687  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHCCH
Q ss_conf             999999999850000
Q 537021.9.peg.9   21 LFILIKVILFHSMTG   35 (48)
Q Consensus        21 lfilikvilfhsmtg   35 (48)
                      --.||.|||||....
T Consensus        10 atlliavilfhraea   24 (103)
T pfam07327        10 ATLLIAVILFHRAEA   24 (103)
T ss_pred             HHHHHHHHHHHHHCC
T ss_conf             999999998535016


No 5  
>PRK10171 hydrogenase 1 b-type cytochrome subunit; Provisional
Probab=22.79  E-value=34  Score=17.18  Aligned_cols=16  Identities=38%  Similarity=0.717  Sum_probs=11.7

Q ss_pred             HHHHHCCHHHCCCCEE
Q ss_conf             9985000010058511
Q 537021.9.peg.9   28 ILFHSMTGYYIDNPLF   43 (48)
Q Consensus        28 ilfhsmtgyyidnplf   43 (48)
                      |.--+.|||||.+|+.
T Consensus        29 I~vL~iTG~yIg~P~~   44 (235)
T PRK10171         29 MAVLMVTGYFIGKPLP   44 (235)
T ss_pred             HHHHHHHHHHHCCCCC
T ss_conf             9999999985337887


No 6  
>KOG4821 consensus
Probab=17.81  E-value=79  Score=15.32  Aligned_cols=20  Identities=45%  Similarity=0.668  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHCCHHH
Q ss_conf             77999999999985000010
Q 537021.9.peg.9   18 TLHLFILIKVILFHSMTGYY   37 (48)
Q Consensus        18 tlhlfilikvilfhsmtgyy   37 (48)
                      .|||||+|-..+|..-+-|.
T Consensus        84 ~LhLFilI~~Ll~tPs~~~L  103 (287)
T KOG4821          84 RLHLFILILSLLITPSIVYL  103 (287)
T ss_pred             CHHHHHHHHHHHHHHHHHHH
T ss_conf             13799999999972899999


No 7  
>pfam09980 DUF2214 Predicted membrane protein (DUF2214). This domain, found in various hypothetical bacterial proteins, has no known function.
Probab=16.61  E-value=55  Score=16.14  Aligned_cols=20  Identities=35%  Similarity=0.833  Sum_probs=14.4

Q ss_pred             HHHHHHHHCCHHHCCCCEEC
Q ss_conf             99999850000100585112
Q 537021.9.peg.9   25 IKVILFHSMTGYYIDNPLFC   44 (48)
Q Consensus        25 ikvilfhsmtgyyidnplfc   44 (48)
                      ..|.-|-.-..||..||+|-
T Consensus        61 lRv~~~~KG~~fY~~nP~Fh   80 (150)
T pfam09980        61 LRVFYFGKGSEFYLHNPLFH   80 (150)
T ss_pred             HHHHHHCCHHHHHHCCHHHH
T ss_conf             99999154089996390999


No 8  
>TIGR02785 addA_Gpos recombination helicase AddA; InterPro: IPR014152   AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologues between the Firmicutes and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species..
Probab=16.03  E-value=1e+02  Score=14.78  Aligned_cols=28  Identities=57%  Similarity=0.839  Sum_probs=17.5

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCHHHCC-CCEE
Q ss_conf             7001367799999999998500001005-8511
Q 537021.9.peg.9   12 NKSRMSTLHLFILIKVILFHSMTGYYID-NPLF   43 (48)
Q Consensus        12 nksrmstlhlfilikvilfhsmtgyyid-nplf   43 (48)
                      |+...||||-|.| +||-=|   +|-|| +|-|
T Consensus       104 ~~A~ISTlhsFCL-~Vir~~---YYllDlDP~F  132 (1295)
T TIGR02785       104 NKANISTLHSFCL-KVIRKH---YYLLDLDPSF  132 (1295)
T ss_pred             CCCCCHHHHHHHH-HHHHHH---CCEEECCCCC
T ss_conf             6765104578999-997666---0435537887


No 9  
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase; InterPro: IPR013380    Proteins in this entry are found in a variety of bacteria, and are predicted to be ATPases involved in type III secretion systems. One example is YscN (P40290 from SWISSPROT) from Yersinia enterocolitica, which is thought to energise the YOP (Yersinia outer protein) secretion system .; GO: 0046961 hydrogen ion transporting ATPase activity rotational mechanism, 0030254 protein secretion by the type III secretion system.
Probab=11.54  E-value=87  Score=15.10  Aligned_cols=8  Identities=63%  Similarity=1.045  Sum_probs=0.0

Q ss_pred             HHHHHHHH
Q ss_conf             66776764
Q 537021.9.peg.9    3 KSILDGFF   10 (48)
Q Consensus         3 ksildgff   10 (48)
                      +|||||.|
T Consensus       320 RSILDGHI  327 (430)
T TIGR02546       320 RSILDGHI  327 (430)
T ss_pred             HHHHHHHH
T ss_conf             44542368


No 10 
>pfam05704 Caps_synth Capsular polysaccharide synthesis protein. This family consists of several capsular polysaccharide proteins. Capsular polysaccharide (CPS) is a major virulence factor in Streptococcus pneumoniae.
Probab=10.83  E-value=1.7e+02  Score=13.67  Aligned_cols=36  Identities=19%  Similarity=0.555  Sum_probs=0.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCHHHCCCCEECCCC
Q ss_conf             700136779999999999850000100585112347
Q 537021.9.peg.9   12 NKSRMSTLHLFILIKVILFHSMTGYYIDNPLFCSEK   47 (48)
Q Consensus        12 nksrmstlhlfilikvilfhsmtgyyidnplfcsek   47 (48)
                      ++..++--|+-=+|.+-|...-.|..+|..+||+..
T Consensus       104 ~~~~i~~~~~SDilR~~LL~~yGG~W~DaTv~~T~~  139 (279)
T pfam05704       104 ESGKISRAHFSDILRLNLLAKYGGLWIDATIYCTGD  139 (279)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCEEEEEEEEECCC
T ss_conf             749876478999999999998397887447887688


Done!