Query         gi|254780408|ref|YP_003064821.1| hypothetical protein CLIBASIA_01465 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 75
No_of_seqs    115 out of 255
Neff          3.2 
Searched_HMMs 33803
Date          Wed Jun  1 12:35:42 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780408.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2k5k_A Uncharacterized protei  99.9 1.6E-25 4.6E-30  154.0   3.4   62   12-75      1-62  (70)
  2 >2qfd_A Probable ATP-dependent  29.7      16 0.00047   18.1   0.5   19   55-73     24-42  (69)
  3 >3eqt_A ATP-dependent RNA heli  17.3      36  0.0011   16.3   0.2   14   60-73     31-44  (69)
  4 >1wpc_A Glucan 1,4-alpha-malto  14.7      62  0.0018   15.1   0.9   15   59-73     29-45  (102)
  5 >1zb9_A OHR, organic hydropero  14.1      65  0.0019   15.0   0.9   10   46-55     34-43  (43)
  6 >1ud2_A Amylase, alpha-amylase  10.6      97  0.0029   14.1   0.9   12   61-72     18-31  (89)
  7 >3c66_C PRE-mRNA polyadenylati  10.2      85  0.0025   14.4   0.5   10   55-64      7-16  (26)
  8 >1hvx_A Alpha-amylase; hydrola   9.6 1.2E+02  0.0036   13.6   1.1   12   61-72     18-31  (121)
  9 >3bc9_A AMYB, alpha amylase, c   9.1 1.2E+02  0.0035   13.6   0.9   12   61-72     18-31  (94)
 10 >3gme_D Ribonuclease E; protei   8.5      87  0.0026   14.3   0.0   10   59-68      1-10  (41)

No 1  
>>2k5k_A Uncharacterized protein RHR2; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Rhodobacter sphaeroides 2} (A:)
Probab=99.91  E-value=1.6e-25  Score=153.95  Aligned_cols=62  Identities=48%  Similarity=0.854  Sum_probs=54.8

Q ss_pred             HCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHCCCCCCCCCCCCCCHHCCCEECCC
Q ss_conf             0046555754458999999999999974122122106510188889986433610007865149
Q gi|254780408|r   12 MNNSTIKTSHDPLSSIAKRALEEAKQRKSANNKDAKLPIEIGGRKGLDPTRFGDWEKNGISIDF   75 (75)
Q Consensus        12 m~~~~~~~~~~~ls~aA~rAL~Ea~~rr~~~~~~~~~pkE~gG~~G~ePtRyGDWE~kG~~~DF   75 (75)
                      |+++ .+++.++|+++|+|||+||++|+.+.. ...+|+|+|||+|||||||||||+|||||||
T Consensus         1 m~~~-~~~~~~~l~~aA~ral~Ea~~rr~~~~-~~~~~~E~GG~~G~EPtRyGDWE~kGr~~DF   62 (70)
T 2k5k_A            1 MRDM-TEETRKDLPPEALRALAEAEERRRRAK-ALDLPKEIGGRNGPEPVRFGDWEKKGIAIDF   62 (70)
T ss_dssp             CCSC-CCSCCCSCCTHHHHHHHHHHTCCTTTT-TCCCCCCSCCCCCCCCCSCCCCCCCSTTCCC
T ss_pred             CCCC-CCCCCCCCCHHHHHHHHHHHHHHHHHH-HCCCCCCCCCCCCCCCCCCCCHHHCCEEEEH
T ss_conf             9876-656667799999999999999886122-0237722389999998655631117876404


No 2  
>>2qfd_A Probable ATP-dependent RNA helicase DDX58; zinc finger, alternative splicing, antiviral defense, ATP- binding, hydrolase, immune response; 2.70A {Homo sapiens} PDB: 2qfb_A 2rmj_A (A:42-110)
Probab=29.71  E-value=16  Score=18.15  Aligned_cols=19  Identities=26%  Similarity=0.462  Sum_probs=14.6

Q ss_pred             CCCCCCCCCCCHHCCCEEC
Q ss_conf             8899864336100078651
Q gi|254780408|r   55 RKGLDPTRFGDWEKNGISI   73 (75)
Q Consensus        55 ~~G~ePtRyGDWE~kG~~~   73 (75)
                      +.-|.|..|+||+..|..+
T Consensus        24 ~~~p~~k~f~d~~~~~kI~   42 (69)
T 2qfd_A           24 RPHPKPKQFSSFEKRAKIF   42 (69)
T ss_dssp             EECSSCCCCSSEEEEEEEE
T ss_pred             CCCCCCCCCCCCCCCCEEE
T ss_conf             2367673312413275799


No 3  
>>3eqt_A ATP-dependent RNA helicase DHX58; innate immunity, RIG-I-like helicases, viral RNA detection, LGP2/dsRNA complex, ATP-binding, coiled coil; 2.00A {Homo sapiens} PDB: 2w4r_A 2rqa_A (A:28-96)
Probab=17.27  E-value=36  Score=16.32  Aligned_cols=14  Identities=29%  Similarity=0.693  Sum_probs=11.1

Q ss_pred             CCCCCCHHCCCEEC
Q ss_conf             64336100078651
Q gi|254780408|r   60 PTRFGDWEKNGISI   73 (75)
Q Consensus        60 PtRyGDWE~kG~~~   73 (75)
                      |-.|+||+..|..+
T Consensus        31 ~k~f~d~~~~gkI~   44 (69)
T 3eqt_A           31 NKVFKDWKPGGVIS   44 (69)
T ss_dssp             SSCCSSEEEEEEEE
T ss_pred             CCHHHCCEECCEEE
T ss_conf             54010212177899


No 4  
>>1wpc_A Glucan 1,4-alpha-maltohexaosidase; maltohexaose-producing amylase, alpha-amylase, acarbose, hydrolase; HET: ACI GLC GAL; 1.90A {Bacillus SP} (A:384-485)
Probab=14.67  E-value=62  Score=15.09  Aligned_cols=15  Identities=27%  Similarity=0.297  Sum_probs=11.5

Q ss_pred             CCCCCCCHHCC--CEEC
Q ss_conf             86433610007--8651
Q gi|254780408|r   59 DPTRFGDWEKN--GISI   73 (75)
Q Consensus        59 ePtRyGDWE~k--G~~~   73 (75)
                      -=+||||.|+.  |.+.
T Consensus        29 g~vR~G~~~~p~sGlav   45 (102)
T 1wpc_A           29 GWTREGNTAHPNSGLAT   45 (102)
T ss_dssp             EEEECCCTTSTTCCEEE
T ss_pred             EEEECCCCCCCCCEEEE
T ss_conf             99984787777840899


No 5  
>>1zb9_A OHR, organic hydroperoxide resistance protein; oxidoreductase; HET: PE4; 1.80A {Xylella fastidiosa 9A5C} PDB: 1zb8_A* (A:1-43)
Probab=14.12  E-value=65  Score=14.95  Aligned_cols=10  Identities=30%  Similarity=0.690  Sum_probs=7.3

Q ss_pred             HCCCHHCCCC
Q ss_conf             1065101888
Q gi|254780408|r   46 AKLPIEIGGR   55 (75)
Q Consensus        46 ~~~pkE~gG~   55 (75)
                      -..|+|.|||
T Consensus        34 L~~PkelGGp   43 (43)
T 1zb9_A           34 LSVPQGLGGP   43 (43)
T ss_dssp             ECCCGGGTSC
T ss_pred             ECCCHHHCCC
T ss_conf             0552531899


No 6  
>>1ud2_A Amylase, alpha-amylase; calcium-free, alkaline, hydrolase; 2.13A {Bacillus SP} (A:392-480)
Probab=10.63  E-value=97  Score=14.06  Aligned_cols=12  Identities=33%  Similarity=0.545  Sum_probs=9.0

Q ss_pred             CCCCCHHCC--CEE
Q ss_conf             433610007--865
Q gi|254780408|r   61 TRFGDWEKN--GIS   72 (75)
Q Consensus        61 tRyGDWE~k--G~~   72 (75)
                      ||+||.|+.  |.+
T Consensus        18 ~R~G~~~~p~sGla   31 (89)
T 1ud2_A           18 TREGSSSRPNSGLA   31 (89)
T ss_dssp             EECCCTTSTTCCEE
T ss_pred             EEECCCCCCCCCEE
T ss_conf             99478887685089


No 7  
>>3c66_C PRE-mRNA polyadenylation factor FIP1; peptide-protein complex, mRNA processing, nucleus, RNA- binding, transferase, phosphoprotein; HET: MES; 2.60A {Saccharomyces cerevisiae} (C:)
Probab=10.18  E-value=85  Score=14.37  Aligned_cols=10  Identities=50%  Similarity=0.787  Sum_probs=7.2

Q ss_pred             CCCCCCCCCC
Q ss_conf             8899864336
Q gi|254780408|r   55 RKGLDPTRFG   64 (75)
Q Consensus        55 ~~G~ePtRyG   64 (75)
                      --||+|||..
T Consensus         7 slgpdptrld   16 (26)
T 3c66_C            7 SLGPDPTRLD   16 (26)
T ss_dssp             CSSSSTTEEE
T ss_pred             EECCCCCHHH
T ss_conf             6089920452


No 8  
>>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, alpha-1,4-glucan-4-glucanohydrolase, thermostability, calcium, sodium; 2.00A {Geobacillus stearothermophilus} (A:395-515)
Probab=9.55  E-value=1.2e+02  Score=13.56  Aligned_cols=12  Identities=50%  Similarity=0.554  Sum_probs=8.5

Q ss_pred             CCCCCHHCC--CEE
Q ss_conf             433610007--865
Q gi|254780408|r   61 TRFGDWEKN--GIS   72 (75)
Q Consensus        61 tRyGDWE~k--G~~   72 (75)
                      ||+||+++.  |.+
T Consensus        18 vR~G~~~hp~sGlA   31 (121)
T 1hvx_A           18 TREGVTEKPGSGLA   31 (121)
T ss_dssp             EECCBTTBTTCCEE
T ss_pred             ECCCCCCCCCCCEE
T ss_conf             41786556798649


No 9  
>>3bc9_A AMYB, alpha amylase, catalytic region; acarbose, thermostable, halophilic, N domain, RAW starch binding, hydrolase; HET: G6D GLC ACI BGC ACR; 1.35A {Halothermothrix orenii h 168} PDB: 3bcd_A* 3bcf_A (A:506-599)
Probab=9.10  E-value=1.2e+02  Score=13.58  Aligned_cols=12  Identities=25%  Similarity=0.227  Sum_probs=8.8

Q ss_pred             CCCCCHHCC--CEE
Q ss_conf             433610007--865
Q gi|254780408|r   61 TRFGDWEKN--GIS   72 (75)
Q Consensus        61 tRyGDWE~k--G~~   72 (75)
                      ||+||.++.  |.+
T Consensus        18 ~R~G~~~hp~sGla   31 (94)
T 3bc9_A           18 VRSGFPDVAGDGLV   31 (94)
T ss_dssp             EECCCTTSTTCCEE
T ss_pred             EECCCCCCCCCEEE
T ss_conf             96786666797399


No 10 
>>3gme_D Ribonuclease E; protein-RNA complex, cytoplasm, nucleotidyltransferase, RNA- binding, transferase, hydrolase; 2.40A {Escherichia coli E24377A} PDB: 3gcm_D 3h1c_D (D:)
Probab=8.52  E-value=87  Score=14.30  Aligned_cols=10  Identities=30%  Similarity=1.046  Sum_probs=0.0

Q ss_pred             CCCCCCCHHC
Q ss_conf             8643361000
Q gi|254780408|r   59 DPTRFGDWEK   68 (75)
Q Consensus        59 ePtRyGDWE~   68 (75)
                      ||.|-+||++
T Consensus         1 e~~~~sdW~R   10 (41)
T 3gme_D            1 EAPRHSDWQR   10 (41)
T ss_dssp             ----------
T ss_pred             CCCCCCCCCC
T ss_conf             9854465317


Done!