Query         gi|254780984|ref|YP_003065397.1| hypothetical protein CLIBASIA_04425 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 125
No_of_seqs    2 out of 4
Neff          1.1 
Searched_HMMs 33803
Date          Wed Jun  1 21:29:24 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780984.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2kdd_A Borealin; protein dime  26.0      29 0.00085   16.2   1.2   10   44-53     61-70  (76)
  2 >3hja_A GAPDH, glyceraldehyde-  23.2      19 0.00057   17.2  -0.1   26   28-53    160-185 (189)
  3 >1r9d_A Glycerol dehydratase;   17.8      73  0.0022   13.9   2.2   46   37-82    149-200 (216)
  4 >2ao9_A Phage protein; structu  16.5      60  0.0018   14.4   1.2   13   46-58     29-41  (90)
  5 >1xeq_A Nonstructural protein   12.5   1E+02   0.003   13.0   4.2   52   45-96     45-96  (103)
  6 >1t07_A Hypothetical UPF0269 p  12.2      97  0.0029   13.1   1.3   11   15-25     55-65  (94)
  7 >2d2i_A Glyceraldehyde 3-phosp  12.1      42  0.0012   15.3  -0.6   33   29-61    141-177 (215)
  8 >3g9k_L Capsule biosynthesis p  10.3 1.2E+02  0.0036   12.6   1.3   46    8-53     21-66  (101)
  9 >2vla_A Bpuji, restriction end   9.9 1.2E+02  0.0037   12.5   2.5   21   72-92    108-128 (132)
 10 >2jd6_0 Ferritin homolog, ferr   9.7 1.2E+02  0.0035   12.6   1.1   29   47-75     46-74  (101)

No 1  
>>2kdd_A Borealin; protein dimer, cell cycle, cell division, centromere, chromosomal protein, cytoplasm, mitosis, nucleus, phosphoprotein, polymorphism; NMR {Homo sapiens} (A:)
Probab=26.05  E-value=29  Score=16.23  Aligned_cols=10  Identities=60%  Similarity=1.075  Sum_probs=6.8

Q ss_pred             HHHHHHHHHH
Q ss_conf             3679999963
Q gi|254780984|r   44 YSSRLAQLCA   53 (125)
Q Consensus        44 yssrlaqlca   53 (125)
                      .|+||+|+|.
T Consensus        61 Ls~rL~q~C~   70 (76)
T 2kdd_A           61 LSNRLAQICS   70 (76)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999999987


No 2  
>>3hja_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; niaid, ssgcid, decode, UW, SBRI, LYME disease, non-hodgkin lymphomas, cytoplasm; HET: NAD; 2.20A {Borrelia burgdorferi B31} (A:1-172,A:340-356)
Probab=23.24  E-value=19  Score=17.25  Aligned_cols=26  Identities=27%  Similarity=0.413  Sum_probs=21.4

Q ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             77664345565407763679999963
Q gi|254780984|r   28 PTYGSEERIATCAKPGYSSRLAQLCA   53 (125)
Q Consensus        28 ptygseeriatcakpgyssrlaqlca   53 (125)
                      -+|..+.+|-++|.-|||.|...|..
T Consensus       160 ~~y~~~~~IISnA~~~~~~~~~~~~~  185 (189)
T 3hja_A          160 HDINSDLKAVSNAEFGYSTRVVDLAQ  185 (189)
T ss_dssp             GGCCTTCCEEECCTHHHHHHHHHHHH
T ss_pred             CCCCCCCCEEECCHHHHHHHHHHHHH
T ss_conf             43465541564275999999999999


No 3  
>>1r9d_A Glycerol dehydratase; radical SAM, lyase; 1.80A {Clostridium butyricum} (A:24-128,A:168-278)
Probab=17.83  E-value=73  Score=13.86  Aligned_cols=46  Identities=26%  Similarity=0.393  Sum_probs=32.8

Q ss_pred             HHHHCCCHHHHHHHHHH------HHHHHHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             65407763679999963------00799999999999876248367899998
Q gi|254780984|r   37 ATCAKPGYSSRLAQLCA------ENEKRLKEFDKITRELNTLSENEKKAFFE   82 (125)
Q Consensus        37 atcakpgyssrlaqlca------enekrlkefdkITR~~~~L~~~~KKAFF~   82 (125)
                      +.-+--.|..|.|++|.      .+++|.+|...|-.-+.++|.+.-+.|.+
T Consensus       149 ~l~aii~~a~rya~lA~~~Ae~e~d~~rk~EL~~iA~~~~~vp~~pp~TF~E  200 (216)
T 1r9d_A          149 SCEAAITYVNRYAKKAKEIADNTSDAKRKAELNEIAKICSKVSGEGAKSFYE  200 (216)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHTTSCCCSHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCCHHH
T ss_conf             9999999999999999999875538899999999999975464568878999


No 4  
>>2ao9_A Phage protein; structural genomics, nine-fold NCS., PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.90A {Bacillus cereus atcc 14579} (A:1-90)
Probab=16.53  E-value=60  Score=14.36  Aligned_cols=13  Identities=38%  Similarity=0.233  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             7999996300799
Q gi|254780984|r   46 SRLAQLCAENEKR   58 (125)
Q Consensus        46 srlaqlcaenekr   58 (125)
                      -+-||||++||--
T Consensus        29 r~AA~llv~NEl~   41 (90)
T 2ao9_A           29 IQAAYLLVENELM   41 (90)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999988760


No 5  
>>1xeq_A Nonstructural protein NS1; RNA binding domain, NS1B, structural genomics, PSI, protein structure initiative; 2.10A {Influenza b virus} (A:)
Probab=12.52  E-value=1e+02  Score=13.01  Aligned_cols=52  Identities=29%  Similarity=0.241  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             6799999630079999999999987624836789999878777751686732
Q gi|254780984|r   45 SSRLAQLCAENEKRLKEFDKITRELNTLSENEKKAFFEHEKKVTSNLNYNAR   96 (125)
Q Consensus        45 ssrlaqlcaenekrlkefdkITR~~~~L~~~~KKAFF~HEKKV~~~LNYNA~   96 (125)
                      ..||..|-..-+.|+|.-.||.-+..|.|-.++||.=-.--||---.|-.||
T Consensus        45 q~rl~rlk~kl~s~ikt~nk~epe~kr~sle~~kaigvkm~k~llf~~psag   96 (103)
T 1xeq_A           45 QDRLHRLKRKLESRIKTHNKSEPENKRMSLEERKAIGVKMMKVLLFMDPSAG   96 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCGGGCCCHHHHHHHHHHHHHHHTTCCCCSS
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHEEECCCCC
T ss_conf             5579999999987535877677103331377754231746544205466657


No 6  
>>1t07_A Hypothetical UPF0269 protein PA5148; structural genomics, APC5047, conserved hypothetical protein, PSI, protein structure initiative; HET: MSE; 1.80A {Pseudomonas aeruginosa} (A:)
Probab=12.24  E-value=97  Score=13.12  Aligned_cols=11  Identities=36%  Similarity=0.494  Sum_probs=3.6

Q ss_pred             HHHHHHHHHHH
Q ss_conf             77777533332
Q gi|254780984|r   15 NVLNLYDAKAR   25 (125)
Q Consensus        15 nvlnlydakar   25 (125)
                      +-||+.|+++|
T Consensus        55 ~rLnl~dp~~R   65 (94)
T 1t07_A           55 RRLNXXNAEDR   65 (94)
T ss_dssp             HTCCTTSHHHH
T ss_pred             CCCCCCCHHHH
T ss_conf             35787987899


No 7  
>>2d2i_A Glyceraldehyde 3-phosphate dehydrogenase; rossmann fold, protein-NADP+ complex, oxidoreductase; HET: NAP; 2.50A {Synechococcus SP} PDB: 2duu_A (A:1-153,A:319-380)
Probab=12.11  E-value=42  Score=15.26  Aligned_cols=33  Identities=36%  Similarity=0.528  Sum_probs=23.5

Q ss_pred             CCCCHH-HHHHHHCCCHHHHH---HHHHHHHHHHHHH
Q ss_conf             766434-55654077636799---9996300799999
Q gi|254780984|r   29 TYGSEE-RIATCAKPGYSSRL---AQLCAENEKRLKE   61 (125)
Q Consensus        29 tygsee-riatcakpgyssrl---aqlcaenekrlke   61 (125)
                      .|..++ +|-.+|.-|||.|.   |.|.|....||.-
T Consensus       141 ~yd~~~h~IISnA~~~~~~~~~~~~~~~~~~~~~~~~  177 (215)
T 2d2i_A          141 EYRHEDFAVISNAEWGYSQRVVDLAELAARKSGRLGL  177 (215)
T ss_dssp             GCCTTTCSEEECCTHHHHHHHHHHHHHHHTTCC----
T ss_pred             EECCCCCEEEECCHHHHHHHHHHHHHHHHHHHHHCCE
T ss_conf             2303551389548289999999999999975520462


No 8  
>>3g9k_L Capsule biosynthesis protein CAPD; CAPD protein, the great lakes regional center of excellence, GLRCE, capsule biogenesis/degradation; HET: GLU; 1.79A {Bacillus anthracis} PDB: 3ga9_L* (L:223-323)
Probab=10.27  E-value=1.2e+02  Score=12.57  Aligned_cols=46  Identities=13%  Similarity=0.080  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             9999998777775333320777664345565407763679999963
Q gi|254780984|r    8 LTVLLISNVLNLYDAKARRFPTYGSEERIATCAKPGYSSRLAQLCA   53 (125)
Q Consensus         8 ltvllisnvlnlydakarrfptygseeriatcakpgyssrlaqlca   53 (125)
                      .+++.+-|+|.-++...--+-....-.+++.+.|-+|..|...++-
T Consensus        21 ~~~l~~L~ile~~~~~~~~~~~~~~~h~~~Ea~k~A~~~R~~~lgD   66 (101)
T 3g9k_L           21 VTLLQXLKLAEKKEVYKDVDHTATYXSKXEEISRIAYQDRKKNLGD   66 (101)
T ss_dssp             HHHHHHHHHHHHTTGGGGTTSHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9999999975237843358998999999999999999999985779


No 9  
>>2vla_A Bpuji, restriction endonuclease R.bpuji; hydrolase, DNA recognition, helix-turn-helix; HET: PG6; 1.30A {Bacillus pumilus} (A:1-100,A:254-285)
Probab=9.92  E-value=1.2e+02  Score=12.49  Aligned_cols=21  Identities=43%  Similarity=0.632  Sum_probs=13.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHCC
Q ss_conf             483678999987877775168
Q gi|254780984|r   72 LSENEKKAFFEHEKKVTSNLN   92 (125)
Q Consensus        72 L~~~~KKAFF~HEKKV~~~LN   92 (125)
                      .|+|.||.||..-...-+|.|
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~  128 (132)
T 2vla_A          108 TSEDDKKSFFKDWQQYYSNVN  128 (132)
T ss_dssp             TCHHHHHHHHHHHHHHHHCC-
T ss_pred             CCHHHHHHHHHHHHHHHHHCC
T ss_conf             748889989999999986013


No 10 
>>2jd6_0 Ferritin homolog, ferritin; metal transport, iron, pores, archaeon, entry channels, thermostability, hyperthermophIle, ferroxidase center; 2.75A {Pyrococcus furiosus} PDB: 2jd7_0 2jd8_0 (0:74-174)
Probab=9.74  E-value=1.2e+02  Score=12.60  Aligned_cols=29  Identities=17%  Similarity=0.142  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf             99999630079999999999987624836
Q gi|254780984|r   47 RLAQLCAENEKRLKEFDKITRELNTLSEN   75 (125)
Q Consensus        47 rlaqlcaenekrlkefdkITR~~~~L~~~   75 (125)
                      -|-....|.-+..+++..|-.-+.+..++
T Consensus        46 FL~~Fi~EQvee~~~~~~~l~~l~~~g~~   74 (101)
T 2jd6_0           46 FLEWFINEQVEEEASVKKILDKLKFAKDS   74 (101)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999999999999999970787


Done!