Query         537021.9.peg.509_1
Match_columns 45
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Tue May 24 23:23:45 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_509.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR00269 TIGR00269 conserved   43.7     5.1 0.00013   21.2  -0.6   38    7-44     49-86  (106)
  2 COG1339 Transcriptional regula  28.9      32 0.00082   17.1   1.6   31   10-41      3-33  (214)
  3 pfam11073 NSs Rift valley feve  12.9 1.4E+02  0.0035   13.9   2.1   31   13-43    150-191 (238)
  4 pfam02792 Mago_nashi Mago nash  12.4      67  0.0017   15.5   0.2   14   15-28    130-143 (143)
  5 pfam08279 HTH_11 HTH domain. T  12.0      88  0.0023   14.9   0.8   15   28-42     16-30  (55)
  6 COG5395 Predicted membrane pro   9.2 1.4E+02  0.0035   14.0   0.9   13   17-29     94-106 (131)
  7 KOG2799 consensus                8.9 1.6E+02   0.004   13.7   1.1   21   11-31    327-347 (434)
  8 TIGR02607 antidote_HigA addict   8.1 1.4E+02  0.0035   14.0   0.5   18   24-41     17-34  (81)
  9 pfam03333 PapB Adhesin biosynt   7.6   2E+02   0.005   13.1   1.2   29   11-39     29-65  (91)
 10 pfam10952 DUF2753 Protein of u   7.1 1.8E+02  0.0047   13.3   0.8   14    9-22    102-115 (140)

No 1  
>TIGR00269 TIGR00269 conserved hypothetical protein TIGR00269; InterPro: IPR000541 The following uncharacterised proteins have been shown to share regions of similarities, yeast chromosome VII hypothetical protein YGL211w; Dictyostelium discoideum (Slime mold) protein veg136; and Methanococcus jannaschii hypothetical proteins MJ1157 and MJ1478..
Probab=43.68  E-value=5.1  Score=21.21  Aligned_cols=38  Identities=34%  Similarity=0.520  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             23666666467665334677651998875321776315
Q 537021.9.peg.5    7 ISLKKALIDFSLISAHKKIMAITAKELSKRISISRCIN   44 (45)
Q Consensus         7 islkkalidfslisahkkimaitakelskrisisrcin   44 (45)
                      ++-+|.-+-||..+...||..++-|+|+..+.+.||..
T Consensus        49 le~~~pG~kfsvl~sf~ki~~~~~~~L~~~~~~~~C~~   86 (106)
T TIGR00269        49 LEEKKPGVKFSVLRSFEKIKIILLKELSEKEELRRCER   86 (106)
T ss_pred             HHHCCCCCEEEECCCHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             63038970231000046677776321143355650001


No 2  
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=28.87  E-value=32  Score=17.14  Aligned_cols=31  Identities=29%  Similarity=0.489  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             66666467665334677651998875321776
Q 537021.9.peg.5   10 KKALIDFSLISAHKKIMAITAKELSKRISISR   41 (45)
Q Consensus        10 kkalidfslisahkkimaitakelskrisisr   41 (45)
                      +.+|.+..+.+|+.+ |.++..|++++...|.
T Consensus         3 ~~~lk~l~~~~a~~~-~~~t~~ela~~l~~S~   33 (214)
T COG1339           3 QRLLKKLALRGAVRG-VKVTSSELAKRLGVSS   33 (214)
T ss_pred             HHHHHHHHHHHHHCC-CCCCHHHHHHHHCCCC
T ss_conf             789999987210037-6020899998857470


No 3  
>pfam11073 NSs Rift valley fever virus non structural protein (NSs) like. This family contains several Phlebovirus non structural proteins which act as a major determinant of virulence by antagonising interferon beta gene expression.
Probab=12.89  E-value=1.4e+02  Score=13.93  Aligned_cols=31  Identities=35%  Similarity=0.550  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHC
Q ss_conf             6646766533467765-----------199887532177631
Q 537021.9.peg.5   13 LIDFSLISAHKKIMAI-----------TAKELSKRISISRCI   43 (45)
Q Consensus        13 lidfslisahkkimai-----------takelskrisisrci   43 (45)
                      -+|=++.-+||||+.-           +.-.|.|.|.+-.|+
T Consensus       150 ~lDd~~Ve~Hkkil~E~~~rgl~~e~l~G~Dl~kEIa~vQ~v  191 (238)
T pfam11073       150 GLDDSIVEAHKKILLEASLRGLSDEDLPGYDLIKEIAYVQCV  191 (238)
T ss_pred             CHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHHHHH
T ss_conf             788999999999999999839985436861278889999999


No 4  
>pfam02792 Mago_nashi Mago nashi protein. This family was originally identified in Drosophila and called mago nashi, it is a strict maternal effect, grandchildless-like, gene. The human homologue has been shown to interact with an RNA binding protein. An RNAi knockout of the C. elegans homologue causes masculinization of the germ line (Mog phenotype) hermaphrodites, suggesting it is involved in hermaphrodite germ-line sex determination. Mago nashi has been found to be part of the exon-exon junction complex that binds 20 nucleotides upstream of exon-exon junctions.
Probab=12.38  E-value=67  Score=15.51  Aligned_cols=14  Identities=64%  Similarity=0.669  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             46766533467765
Q 537021.9.peg.5   15 DFSLISAHKKIMAI   28 (45)
Q Consensus        15 dfslisahkkimai   28 (45)
                      -||||+.|-||-.|
T Consensus       130 vfsLi~lHfkIkPi  143 (143)
T pfam02792       130 VFSLISLHFKIKPI  143 (143)
T ss_pred             HHHHHHHHCCCCCC
T ss_conf             99997640012369


No 5  
>pfam08279 HTH_11 HTH domain. This family includes helix-turn-helix domains in a wide variety of proteins.
Probab=12.04  E-value=88  Score=14.92  Aligned_cols=15  Identities=33%  Similarity=0.691  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             519988753217763
Q 537021.9.peg.5   28 ITAKELSKRISISRC   42 (45)
Q Consensus        28 itakelskrisisrc   42 (45)
                      +|+++|+++..+||-
T Consensus        16 vt~~~La~~l~VSr~   30 (55)
T pfam08279        16 ISGQELAEKLGVSRR   30 (55)
T ss_pred             CCHHHHHHHHCCCHH
T ss_conf             189999999698899


No 6  
>COG5395 Predicted membrane protein [Function unknown]
Probab=9.23  E-value=1.4e+02  Score=13.97  Aligned_cols=13  Identities=46%  Similarity=0.562  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             7665334677651
Q 537021.9.peg.5   17 SLISAHKKIMAIT   29 (45)
Q Consensus        17 slisahkkimait   29 (45)
                      .-|++|.|||.-+
T Consensus        94 G~i~~HRr~mq~~  106 (131)
T COG5395          94 GKISAHRRIMQGV  106 (131)
T ss_pred             CCHHHHHHHHHHH
T ss_conf             6478999998763


No 7  
>KOG2799 consensus
Probab=8.93  E-value=1.6e+02  Score=13.66  Aligned_cols=21  Identities=43%  Similarity=0.578  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             666646766533467765199
Q 537021.9.peg.5   11 KALIDFSLISAHKKIMAITAK   31 (45)
Q Consensus        11 kalidfslisahkkimaitak   31 (45)
                      ..--+||+|...+|.|||-..
T Consensus       327 ~v~eaf~litsd~kv~ailvn  347 (434)
T KOG2799         327 QVREAFSLITSDKKVMAILVN  347 (434)
T ss_pred             HHHHHHHHHHCCHHHHHHHHH
T ss_conf             898888887258049999999


No 8  
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family; InterPro: IPR013430    Proteins in this entry form a distinct group of helix-turn-helix proteins, which are strictly bacterial and nearly always shorter than 110 amino acids. They include the characterised member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is encoded by the upstream member of the gene pair.; GO: 0003677 DNA binding.
Probab=8.12  E-value=1.4e+02  Score=13.96  Aligned_cols=18  Identities=22%  Similarity=0.554  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             677651998875321776
Q 537021.9.peg.5   24 KIMAITAKELSKRISISR   41 (45)
Q Consensus        24 kimaitakelskrisisr   41 (45)
                      .-|.||+.+|.|.+.+||
T Consensus        17 ~PLg~s~~~LA~~LgVsr   34 (81)
T TIGR02607        17 EPLGLSVRALAKALGVSR   34 (81)
T ss_pred             HCCCHHHHHHHHHCCCCH
T ss_conf             104706899998709997


No 9  
>pfam03333 PapB Adhesin biosynthesis transcription regulatory protein. This family includes PapB, DaaA, FanA, FanB, and AfaA.
Probab=7.63  E-value=2e+02  Score=13.15  Aligned_cols=29  Identities=34%  Similarity=0.418  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH--------HHHHHHHHHH
Q ss_conf             6666467665334677651--------9988753217
Q 537021.9.peg.5   11 KALIDFSLISAHKKIMAIT--------AKELSKRISI   39 (45)
Q Consensus        11 kalidfslisahkkimait--------akelskrisi   39 (45)
                      .-||++|-|...|.|+|.-        .||...|..+
T Consensus        29 ~LLieiS~IrS~kvI~AL~dylV~G~srkevCe~~~V   65 (91)
T pfam03333        29 WLLIEISPIHSEKVINALRDYLVDGYSRKEVCERHNV   65 (91)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHCCC
T ss_conf             9999872436389999999998768649999987297


No 10 
>pfam10952 DUF2753 Protein of unknown function (DUF2753). This bacterial family of proteins has no known function.
Probab=7.14  E-value=1.8e+02  Score=13.30  Aligned_cols=14  Identities=36%  Similarity=0.403  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             66666646766533
Q 537021.9.peg.5    9 LKKALIDFSLISAH   22 (45)
Q Consensus         9 lkkalidfslisah   22 (45)
                      -|+|||||---...
T Consensus       102 Ck~ALi~FmKRHPN  115 (140)
T pfam10952       102 CQSALIDFLKRHPN  115 (140)
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             89999999984999


Done!