Query         gi|254780908|ref|YP_003065321.1| hypothetical protein CLIBASIA_04035 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 35
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 33803
Date          Wed Jun  1 18:53:04 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780908.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >3dkb_A Tumor necrosis factor,  13.8      52  0.0015   16.2   0.3   12   14-25      2-13  (70)
  2 >2w42_A PIWI, putative unchara   9.2      86  0.0025   15.2   0.2   12   17-28     19-30  (51)
  3 >2zze_A Alanyl-tRNA synthetase   6.9 1.4E+02  0.0042   14.2   0.4   27    8-34     20-46  (99)
  4 >1hux_A Activator of (R)-2-hyd   6.7 2.3E+02  0.0068   13.2   1.5   32    2-33      1-32  (127)
  5 >2ddh_A Acyl-COA oxidase; beta   6.4 2.3E+02  0.0068   13.2   1.4   17    7-23     12-28  (142)
  6 >1egd_A Medium chain acyl-COA    5.5 2.8E+02  0.0084   12.8   2.2   20    7-26     13-32  (112)
  7 >2vig_A Short-chain specific a   5.5 2.9E+02  0.0085   12.7   2.3   18    7-24     15-32  (111)
  8 >2dvl_A Acyl-COA dehydrogenase   5.0 3.1E+02  0.0092   12.6   2.2   27    7-33     12-38  (104)
  9 >1rx0_A Acyl-COA dehydrogenase   4.6 3.3E+02  0.0098   12.4   2.3   17    7-23     15-31  (110)
 10 >1k0i_A P-hydroxybenzoate hydr   3.9 3.2E+02  0.0095   12.5   0.7   11   22-32    137-147 (149)

No 1  
>>3dkb_A Tumor necrosis factor, alpha-induced protein 3; OTU domain, DUB domain, apoptosis, cytoplasm, DNA-binding, hydrolase, metal-binding, nucleus; 2.50A {Homo sapiens} PDB: 2vfj_A (A:287-356)
Probab=13.81  E-value=52  Score=16.16  Aligned_cols=12  Identities=50%  Similarity=0.850  Sum_probs=9.4

Q ss_pred             CEEEEEEECCCC
Q ss_conf             012332212553
Q gi|254780908|r   14 QEMRAVPIANTG   25 (35)
Q Consensus        14 qemravpiantg   25 (35)
                      .|.||||..|.+
T Consensus         2 PEIRAVPLv~~~   13 (70)
T 3dkb_A            2 PEIRAVPLVNRD   13 (70)
T ss_dssp             SCBSEEESEEEC
T ss_pred             CCCCEEEEECCC
T ss_conf             876432101477


No 2  
>>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI domain, protein/DNA complex; 1.90A {Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A (A:1-41,A:167-176)
Probab=9.21  E-value=86  Score=15.15  Aligned_cols=12  Identities=50%  Similarity=0.974  Sum_probs=9.2

Q ss_pred             EEEEECCCCEEE
Q ss_conf             332212553034
Q gi|254780908|r   17 RAVPIANTGAIL   28 (35)
Q Consensus        17 ravpiantgail   28 (35)
                      ..|||.|||...
T Consensus        19 asvpisntgeli   30 (51)
T 2w42_A           19 ASVPISNTGELI   30 (51)
T ss_dssp             CEEESSCHHHHH
T ss_pred             CCCCCCCCHHHH
T ss_conf             700454302777


No 3  
>>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A {Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A* (A:504-602)
Probab=6.86  E-value=1.4e+02  Score=14.17  Aligned_cols=27  Identities=11%  Similarity=0.151  Sum_probs=17.2

Q ss_pred             CCCCCCCEEEEEEECCCCEEEECCCEE
Q ss_conf             588552012332212553034215410
Q gi|254780908|r    8 GSDAESQEMRAVPIANTGAILEKSNFI   34 (35)
Q Consensus         8 gsdaesqemravpiantgaileksnfi   34 (35)
                      .+...+.+-+.......+.+|+++.|-
T Consensus        20 ~~~~~~~~~~v~~~~~~~ivld~T~FY   46 (99)
T 2zze_A           20 DPFMXEFDAXVLRVIXDWVILDATAFY   46 (99)
T ss_dssp             CTTCCEEEEEEEEEETTEEEESEECSC
T ss_pred             EEEEEEEEEEEEEEECCEEECCCCEEC
T ss_conf             000234577898765051533774213


No 4  
>>1hux_A Activator of (R)-2-hydroxyglutaryl-COA dehydratase; actin fold, metal binding protein; HET: ADP; 3.00A {Acidaminococcus fermentans} (A:1-95,A:239-270)
Probab=6.69  E-value=2.3e+02  Score=13.18  Aligned_cols=32  Identities=22%  Similarity=0.331  Sum_probs=25.6

Q ss_pred             EEEEEECCCCCCCEEEEEEECCCCEEEECCCE
Q ss_conf             69998458855201233221255303421541
Q gi|254780908|r    2 MLLFLAGSDAESQEMRAVPIANTGAILEKSNF   33 (35)
Q Consensus         2 mllflagsdaesqemravpiantgaileksnf   33 (35)
                      |-.+..|-|.-+...|++-+...|.++.+..+
T Consensus         1 M~~y~LGIDiGtTsvKavl~D~dG~iia~~~~   32 (127)
T 1hux_A            1 MSIYTLGIDVGSTASKCIILKDGKEIVAKSLV   32 (127)
T ss_dssp             -CCEEEEEEECSSEEEEEEEETTTEEEEEEEE
T ss_pred             CCEEEEEECCCCCCEEEEEECCCCEEEEEEEE
T ss_conf             95389853147741137998353023225662


No 5  
>>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle, oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus} (A:132-273)
Probab=6.43  E-value=2.3e+02  Score=13.18  Aligned_cols=17  Identities=18%  Similarity=0.102  Sum_probs=13.0

Q ss_pred             ECCCCCCCEEEEEEECC
Q ss_conf             45885520123322125
Q gi|254780908|r    7 AGSDAESQEMRAVPIAN   23 (35)
Q Consensus         7 agsdaesqemravpian   23 (35)
                      +|||+.+-+.+|++-..
T Consensus        12 aGSD~~~~~t~A~~~~~   28 (142)
T 2ddh_A           12 HGTHLRGLETTATYDPK   28 (142)
T ss_dssp             BSSCGGGCCCEEEEETT
T ss_pred             CCCCCCCCCCEEEECCC
T ss_conf             77873447416897588


No 6  
>>1egd_A Medium chain acyl-COA dehydrogenase; flavoprotein, electron transfer; HET: FAD; 2.40A {Homo sapiens} (A:128-239)
Probab=5.54  E-value=2.8e+02  Score=12.77  Aligned_cols=20  Identities=25%  Similarity=0.225  Sum_probs=13.3

Q ss_pred             ECCCCCCCEEEEEEECCCCE
Q ss_conf             45885520123322125530
Q gi|254780908|r    7 AGSDAESQEMRAVPIANTGA   26 (35)
Q Consensus         7 agsdaesqemravpiantga   26 (35)
                      +|||+.+-+.+|++-...-.
T Consensus        13 ~GSD~~~~~t~A~~~~~~~~   32 (112)
T 1egd_A           13 AGSDVAGIKTKAEKKGDEYI   32 (112)
T ss_dssp             BSSSGGGCCCEEEECSSEEE
T ss_pred             CCCCCCCCEEEEEEECCEEE
T ss_conf             78766575479999688679


No 7  
>>2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid metabolism, FAD, polymorphism, flavoprotein, mitochondrion, disease mutation; HET: FAD COS; 1.9A {Homo sapiens} PDB: 1jqi_A* (A:117-227)
Probab=5.46  E-value=2.9e+02  Score=12.74  Aligned_cols=18  Identities=28%  Similarity=0.322  Sum_probs=13.1

Q ss_pred             ECCCCCCCEEEEEEECCC
Q ss_conf             458855201233221255
Q gi|254780908|r    7 AGSDAESQEMRAVPIANT   24 (35)
Q Consensus         7 agsdaesqemravpiant   24 (35)
                      +|||+.+-+++|.+-...
T Consensus        15 ~Gsd~~~~~t~a~~~~~~   32 (111)
T 2vig_A           15 NGSDAGAASTTARAEGDS   32 (111)
T ss_dssp             BSSSGGGCCCEEEEETTE
T ss_pred             CCCCCCCCEEEEEEECCE
T ss_conf             565555432699994997


No 8  
>>2dvl_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: FAD; 2.50A {Thermus thermophilus HB8} (A:117-220)
Probab=4.96  E-value=3.1e+02  Score=12.58  Aligned_cols=27  Identities=26%  Similarity=0.230  Sum_probs=18.0

Q ss_pred             ECCCCCCCEEEEEEECCCCEEEECCCE
Q ss_conf             458855201233221255303421541
Q gi|254780908|r    7 AGSDAESQEMRAVPIANTGAILEKSNF   33 (35)
Q Consensus         7 agsdaesqemravpiantgaileksnf   33 (35)
                      +|||.-+-+.+|+|..+--.|.-...|
T Consensus        12 ~Gsd~~~~~T~a~~~~dg~~i~g~K~~   38 (104)
T 2dvl_A           12 AGSDAKSLRAEARRVKGGFVLNGVKSW   38 (104)
T ss_dssp             CSSCGGGCCCEEEEETTEEEEEEEEEE
T ss_pred             CCCCCCCCEEEEEEECCEEEEEEEEEE
T ss_conf             788755632599995998999989996


No 9  
>>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial; flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC; 1.77A {Homo sapiens} (A:129-238)
Probab=4.61  E-value=3.3e+02  Score=12.45  Aligned_cols=17  Identities=35%  Similarity=0.294  Sum_probs=12.0

Q ss_pred             ECCCCCCCEEEEEEECC
Q ss_conf             45885520123322125
Q gi|254780908|r    7 AGSDAESQEMRAVPIAN   23 (35)
Q Consensus         7 agsdaesqemravpian   23 (35)
                      +|||..+-+.+|.|-..
T Consensus        15 ~GsD~~~~~t~A~~~~d   31 (110)
T 1rx0_A           15 SGSDAASLLTSAKKQGD   31 (110)
T ss_dssp             BSSSGGGCCCEEEEETT
T ss_pred             CCCCCCCCEEEEEEECC
T ss_conf             88872136479999799


No 10 
>>1k0i_A P-hydroxybenzoate hydroxylase; PHBH, FAD, mechanism, structure, P-OHB, hydrolase; HET: FAD PHB; 1.80A {Pseudomonas aeruginosa} (A:40-102,A:182-267)
Probab=3.94  E-value=3.2e+02  Score=12.51  Aligned_cols=11  Identities=55%  Similarity=0.437  Sum_probs=7.7

Q ss_pred             CCCCEEEECCC
Q ss_conf             25530342154
Q gi|254780908|r   22 ANTGAILEKSN   32 (35)
Q Consensus        22 antgaileksn   32 (35)
                      -+||.|+|||-
T Consensus       137 L~~Gp~ieKsI  147 (149)
T 1k0i_A          137 LVTGPSLEKSI  147 (149)
T ss_dssp             CCCCCEEEEEE
T ss_pred             CCCCCCHHCCC
T ss_conf             14562011133


Done!