Query         gi|255764488|ref|YP_003065099.2| flagellar motor protein MotA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 290
No_of_seqs    138 out of 898
Neff          7.0 
Searched_HMMs 33803
Date          Wed Jun  1 14:39:05 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 255764488.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >3kv0_A HET-C2; GLTP, glycolip  45.7      18 0.00052   15.5   4.1  102   24-150    38-139 (209)
  2 >3cbl_A C-FES, proto-oncogene   44.0      19 0.00055   15.4   2.7   34  254-287   147-182 (183)
  3 >2r9r_B Paddle chimera voltage  39.3      22 0.00065   14.9   4.2   86  185-271    64-152 (194)
  4 >1mp8_A Focal adhesion kinase   35.8      18 0.00054   15.4   1.6   38  252-289   144-183 (184)
  5 >2gs4_A Protein YCIF; stress p  32.8      28 0.00082   14.3   9.0   96  129-227    27-127 (166)
  6 >2ivs_A Proto-oncogene tyrosin  28.1      33 0.00099   13.8   3.0   38  251-288   168-207 (207)
  7 >1mtz_A Proline iminopeptidase  25.1      35   0.001   13.6   1.5   18  259-276     7-24  (50)
  8 >2d0t_A Indoleamine 2,3-dioxyg  24.5      31 0.00093   13.9   1.2   33  242-274    14-49  (54)
  9 >2dpy_A FLII, flagellum-specif  23.6      25 0.00073   14.6   0.5   14  103-116    37-50  (78)
 10 >2obl_A ESCN; ATPase, hydrolas  21.4      32 0.00094   13.9   0.7   22  103-130    37-58  (76)
 11 >1yvj_A Janus kinase 3, tyrosi  21.2      45  0.0013   12.9   3.1   44  243-286   150-195 (197)
 12 >1lkv_X Flagellar motor switch  21.1      45  0.0013   12.9   2.7   26  243-269    14-39  (65)

No 1  
>>3kv0_A HET-C2; GLTP, glycolipid transfer protein, transport protein; HET: MLY; 1.90A {Podospora anserina} (A:)
Probab=45.72  E-value=18  Score=15.54  Aligned_cols=102  Identities=10%  Similarity=0.067  Sum_probs=52.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             81124248999999999999999858989999999999996357889966689999999999999974104744764207
Q gi|255764488|r   24 NPYILIQPFEIVIVAGAGLGGFVMANPLKVIKDSGVSLLEIFGYKALGQDTYCDVLKLLYILMYNLKKGSRNETENHIDD  103 (290)
Q Consensus        24 ~l~~f~~~~sllIV~GGtlaA~li~~p~~~i~~~~~~l~~~f~~~~~~~~~~~eli~~l~el~~~~Rk~GllaLE~~ie~  103 (290)
                      +...|++...-++-+-+.+|.+..++=-+|+..-...++..+...+...+...++++                  .+++.
T Consensus        38 ~t~~fL~a~~~i~~~~~~lG~~~F~~v~~Di~~nI~kl~~~~~~~~~~~~TL~~li~------------------~E~~~   99 (209)
T 3kv0_A           38 STAEFLEAAESLTTMFDVLGSIAFSPVXTDMLGNVEXIRXRMLAAPLESQNIQDLVR------------------NELXT   99 (209)
T ss_dssp             BHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHSGGGCSBHHHHHH------------------HHTCC
T ss_pred             CHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH------------------HHHHC
T ss_conf             749999999999999998086341115988864599999888608278899999999------------------87441


Q ss_pred             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             42114555323553062027999999999996378989999999999
Q gi|255764488|r  104 PYNSTIFTSIPTVLENNELTTFICDYMRMIIVGNARSYEIENLMDEE  150 (290)
Q Consensus       104 p~~s~i~~~~~~~~~~~~~~~fl~~~l~~~v~g~~~~~~i~~~L~~e  150 (290)
                      ..+|.    -..++.-+....|++..++-++++..+   ++.....-
T Consensus       100 ~~~S~----t~~LLwL~RaL~Fi~~fl~~l~~~~~~---~~~~~~~A  139 (209)
T 3kv0_A          100 XSHTA----TEGLLWLVRGLEFTCIALSXNIGSTEE---LADSFRGS  139 (209)
T ss_dssp             -CCHH----HHHHHHHHHHHHHHHHHHHHHHTSCCC---HHHHHHHH
T ss_pred             CCCHH----HHHHHHHHHHHHHHHHHHHHHHCCCHH---HHHHHHHH
T ss_conf             77748----799999999999999999986178457---99999999


No 2  
>>3cbl_A C-FES, proto-oncogene tyrosine-protein kinase FES/FPS; V-FES, fujinami, avian sarcoma, viral, feline sarcoma virus, SGC; HET: STU; 1.75A {Homo sapiens} PDB: 3bkb_A* 3cd3_A* (A:195-377)
Probab=43.96  E-value=19  Score=15.38  Aligned_cols=34  Identities=18%  Similarity=0.304  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHCC--CHHHCCCHHHHHHHHHHCCCCC
Q ss_conf             689999983119--9676838899999997024345
Q gi|255764488|r  254 PQVAIEYGRKVL--PLSERPSIEIVAQEVLQYNHNK  287 (290)
Q Consensus       254 P~~~~e~l~~~l--p~~~r~~~~e~~~~~~~~~~~~  287 (290)
                      |.-+.+.++.-+  .|++||+++|.-+.+++....+
T Consensus       147 ~~~l~~Li~~cl~~dP~~RPs~~~i~~~l~~i~~~~  182 (183)
T 3cbl_A          147 PDAVFRLMEQCWAYEPGQRPSFSTIYQELQSIRKRH  182 (183)
T ss_dssp             CHHHHHHHHHHTCSSGGGSCCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHHC
T ss_conf             399999999975889668929999999999999854


No 3  
>>2r9r_B Paddle chimera voltage gated potassium channel KV1.2-KV2.1; voltage sensor, voltage dependent, ION channel, shaker, membrane protein; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 2a79_B* (B:321-514)
Probab=39.34  E-value=22  Score=14.92  Aligned_cols=86  Identities=8%  Similarity=0.021  Sum_probs=59.7

Q ss_pred             HHHHHHCC--C-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             99996148--9-78999866689999999999999999999999999999999999999999999995799968999998
Q gi|255764488|r  185 IKAMGNLS--Q-SPKILGTAIGVSLTGTLLGIILSYSLCNPLTSQIKSTRLKQHRLYIIVKKALIAYMNGAIPQVAIEYG  261 (290)
Q Consensus       185 I~ml~~l~--d-~p~~lG~~iA~ALitTlYGv~lAn~i~~Pia~kl~~~~~~e~~~~~~i~egi~~i~~g~~P~~~~e~l  261 (290)
                      +.+|...+  | .|.+- .+...+.+..+-|+++--.+++-++.-+.....++...++.+..--........|.-..++.
T Consensus        64 ~~tlttvGyGDi~p~t~-~e~~~~~~~~l~G~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~v  142 (194)
T 2r9r_B           64 VVSMTTVGYGDMVPTTI-GGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRETEGEEQAQYLQVTSSPKIPSSPDLKKS  142 (194)
T ss_dssp             HHHHTTCCCSSSCCCSH-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHC--------------------------
T ss_pred             EEEECCCCCCCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             88741214768776676-76677203889989999999999999999999999999999999986410101006889999


Q ss_pred             HHCCCHHHCC
Q ss_conf             3119967683
Q gi|255764488|r  262 RKVLPLSERP  271 (290)
Q Consensus       262 ~~~lp~~~r~  271 (290)
                      +.|.....+.
T Consensus       143 ~~~~~~~~~~  152 (194)
T 2r9r_B          143 RSASTISKSD  152 (194)
T ss_dssp             ----------
T ss_pred             HHHHHHCHHH
T ss_conf             7776533004


No 4  
>>1mp8_A Focal adhesion kinase 1; tyrosine protein kinase, transferase; HET: ADP; 1.60A {Homo sapiens} (A:98-281)
Probab=35.76  E-value=18  Score=15.41  Aligned_cols=38  Identities=18%  Similarity=0.177  Sum_probs=27.6

Q ss_pred             CCHHHHHHHHHHCC--CHHHCCCHHHHHHHHHHCCCCCCC
Q ss_conf             99689999983119--967683889999999702434568
Q gi|255764488|r  252 AIPQVAIEYGRKVL--PLSERPSIEIVAQEVLQYNHNKKA  289 (290)
Q Consensus       252 ~~P~~~~e~l~~~l--p~~~r~~~~e~~~~~~~~~~~~~a  289 (290)
                      .-|..+.+-++.-|  .|++||++.|..+.+.+....++|
T Consensus       144 ~~~~~l~~Li~~cl~~dP~~Rps~~ei~~~l~~~~~~~~~  183 (184)
T 1mp8_A          144 NCPPTLYSLMTKCWAYDPSRRPRFTELKAQLSTILEEEKA  183 (184)
T ss_dssp             TCCHHHHHHHHHHTCSSGGGSCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHHHHC
T ss_conf             7899999999997687976892999999999999888637


No 5  
>>2gs4_A Protein YCIF; stress proteins, rubrerythrin, metal binding protein; 2.00A {Escherichia coli} (A:)
Probab=32.85  E-value=28  Score=14.27  Aligned_cols=96  Identities=8%  Similarity=0.086  Sum_probs=52.0

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCCHHHHHHHH-H
Q ss_conf             9999996378989999999999999999962128999999999888----8899999999999961489789998666-8
Q gi|255764488|r  129 YMRMIIVGNARSYEIENLMDEEIDIILYEKLKPYHAISHMGESLPA----IGIVGAILGIIKAMGNLSQSPKILGTAI-G  203 (290)
Q Consensus       129 ~l~~~v~g~~~~~~i~~~L~~ei~~~~~~~~~~~~~~~~~a~~aPa----fGmiGTviGLI~ml~~l~d~p~~lG~~i-A  203 (290)
                      .++-+..--..| ++++.++..++..+..-..-..+|+.+|+..|.    .||-|-+-..-.++... .+++++-.++ +
T Consensus        27 al~~l~~~a~~p-eLk~~l~~H~~eT~~qi~rLe~~~~~lg~~~~~~~~c~am~Gli~e~~~~~~~~-~~~~v~d~~li~  104 (166)
T 2gs4_A           27 ALAKLARATSNE-KLSQAFHAHLEETHGQIERIDQVVESESNLKIKRXKCVAXEGLIEEANEVIEST-EKNEVRDAALIA  104 (166)
T ss_dssp             HHHHHHHSCSCH-HHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCCCCCCHHHHHHHHHHHHHHTSC-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
T ss_conf             999999986899-999999999999999999999999874899986687479999999999998603-774889999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999999999
Q gi|255764488|r  204 VSLTGTLLGIILSYSLCNPLTSQI  227 (290)
Q Consensus       204 ~ALitTlYGv~lAn~i~~Pia~kl  227 (290)
                      .|--..=|.+ -+|.-...+|..+
T Consensus       105 ~aq~~EhyEI-A~Y~tL~~~A~~l  127 (166)
T 2gs4_A          105 AAQKVEHYEI-ASYGTLATLAEQL  127 (166)
T ss_dssp             HHHHHHHHHH-HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHC
T ss_conf             9999999999-9999999999985


No 6  
>>2ivs_A Proto-oncogene tyrosine-protein kinase receptor RET; nucleotide-binding, hirschsprung disease, phosphorylation, disease mutation; HET: ACK; 2.00A {Homo sapiens} PDB: 2ivt_A* 2ivu_A* 2ivv_A* (A:108-314)
Probab=28.12  E-value=33  Score=13.76  Aligned_cols=38  Identities=5%  Similarity=0.100  Sum_probs=26.5

Q ss_pred             CCCHHHHHHHHHHCC--CHHHCCCHHHHHHHHHHCCCCCC
Q ss_conf             999689999983119--96768388999999970243456
Q gi|255764488|r  251 GAIPQVAIEYGRKVL--PLSERPSIEIVAQEVLQYNHNKK  288 (290)
Q Consensus       251 g~~P~~~~e~l~~~l--p~~~r~~~~e~~~~~~~~~~~~~  288 (290)
                      ..-|.-+.+-++.-+  .|++||+++|.-+.+.+..+++|
T Consensus       168 ~~~~~~~~~li~~cl~~dP~~Rps~~eil~~l~~~~~~~k  207 (207)
T 2ivs_A          168 DNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRR  207 (207)
T ss_dssp             TTCCHHHHHHHHHHTCSSGGGSCCHHHHHHHHHHHHHTC-
T ss_pred             CCCHHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             5445999999999768896689399999999999987679


No 7  
>>1mtz_A Proline iminopeptidase; alpha-beta hydrolase, CAP domain, caged active site, prolyl peptidase; 1.80A {Thermoplasma acidophilum} (A:136-185)
Probab=25.10  E-value=35  Score=13.64  Aligned_cols=18  Identities=22%  Similarity=0.110  Sum_probs=7.4

Q ss_pred             HHHHHCCCHHHCCCHHHH
Q ss_conf             998311996768388999
Q gi|255764488|r  259 EYGRKVLPLSERPSIEIV  276 (290)
Q Consensus       259 e~l~~~lp~~~r~~~~e~  276 (290)
                      .+|+++||++.+..+.+.
T Consensus         7 ~RL~~~Lp~~~q~ai~~~   24 (50)
T 1mtz_A            7 NRLIDELPAKYRDAIKKY   24 (50)
T ss_dssp             HHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
T ss_conf             431223267789998876


No 8  
>>2d0t_A Indoleamine 2,3-dioxygenase; helix bundle, riken structural genomics/proteomics initiative, RSGI, structural genomics, oxidoreductase; HET: HEM PIM NHE; 2.30A {Homo sapiens} (A:263-316)
Probab=24.46  E-value=31  Score=13.93  Aligned_cols=33  Identities=12%  Similarity=0.123  Sum_probs=17.5

Q ss_pred             HHHHHHHHCC---CCHHHHHHHHHHCCCHHHCCCHH
Q ss_conf             9999999579---99689999983119967683889
Q gi|255764488|r  242 KKALIAYMNG---AIPQVAIEYGRKVLPLSERPSIE  274 (290)
Q Consensus       242 ~egi~~i~~g---~~P~~~~e~l~~~lp~~~r~~~~  274 (290)
                      +|.++.|.+.   ++-.-..+..|.|.|+..|.=++
T Consensus        14 ~D~lLgI~h~~~~~~~~~fl~emR~YMP~~HR~FL~   49 (54)
T 2d0t_A           14 FDVLLGIQQTAGGGHAAQFLQDMRRYMPPAHRNFLC   49 (54)
T ss_dssp             HHHHTTCCSSCSSSHHHHHHHHHGGGSCHHHHHHHH
T ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHH
T ss_conf             999958845688860799999999857499999999


No 9  
>>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} (A:361-438)
Probab=23.58  E-value=25  Score=14.61  Aligned_cols=14  Identities=29%  Similarity=0.427  Sum_probs=4.9

Q ss_pred             CHHHHHHHHHHHHH
Q ss_conf             74211455532355
Q gi|255764488|r  103 DPYNSTIFTSIPTV  116 (290)
Q Consensus       103 ~p~~s~i~~~~~~~  116 (290)
                      ||+.....+++|.+
T Consensus        37 d~~~D~Ai~~~~~I   50 (78)
T 2dpy_A           37 DPMLDKAITLWPQL   50 (78)
T ss_dssp             CHHHHHHHTTHHHH
T ss_pred             CHHHHHHHHHHHHH
T ss_conf             98999999989999


No 10 
>>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* (A:272-347)
Probab=21.37  E-value=32  Score=13.89  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=9.7

Q ss_pred             CHHHHHHHHHHHHHHHCHHHHHHHHHHH
Q ss_conf             7421145553235530620279999999
Q gi|255764488|r  103 DPYNSTIFTSIPTVLENNELTTFICDYM  130 (290)
Q Consensus       103 ~p~~s~i~~~~~~~~~~~~~~~fl~~~l  130 (290)
                      ||+......++|.+.      .|++.++
T Consensus        37 d~~~D~Ai~~~~~i~------~FL~Q~~   58 (76)
T 2obl_A           37 DPEADKAIKNRKLIQ------NFIQQST   58 (76)
T ss_dssp             CHHHHHHHHTHHHHH------HHHCCCT
T ss_pred             CHHHHHHHHHHHHHH------HHCCCCC
T ss_conf             999999998259999------9828999


No 11 
>>1yvj_A Janus kinase 3, tyrosine-protein kinase JAK3, JAK-3, JAK3, leukocyte janus; tyrosine kinase, SCID, severe combined immunodeficiency, STAT5, STAT6; HET: PTR 4ST; 2.55A {Homo sapiens} (A:94-290)
Probab=21.16  E-value=45  Score=12.93  Aligned_cols=44  Identities=14%  Similarity=0.063  Sum_probs=28.4

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHCC--CHHHCCCHHHHHHHHHHCCCC
Q ss_conf             99999957999689999983119--967683889999999702434
Q gi|255764488|r  243 KALIAYMNGAIPQVAIEYGRKVL--PLSERPSIEIVAQEVLQYNHN  286 (290)
Q Consensus       243 egi~~i~~g~~P~~~~e~l~~~l--p~~~r~~~~e~~~~~~~~~~~  286 (290)
                      .+...-....-|..+.+.+..-+  .|++||++.|..+++.+....
T Consensus       150 ~~~~~~~~~~~~~~l~~li~~C~~~dP~~RPt~~ei~~~L~~i~~~  195 (197)
T 1yvj_A          150 EGQRLPAPPACPAEVHELMKLCWAPSPQDRPSFSALGPQLDMLWSG  195 (197)
T ss_dssp             TTCCCCCCTTCCHHHHHHHHHHTCSSGGGSCCHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHC
T ss_conf             2567888814479999999997688966892999999999999734


No 12 
>>1lkv_X Flagellar motor switch protein FLIG; chemotaxis, flagellar motion, structural protein; 2.80A {Thermotoga maritima} (X:1-65)
Probab=21.15  E-value=45  Score=12.93  Aligned_cols=26  Identities=15%  Similarity=0.178  Sum_probs=13.6

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHCCCHHH
Q ss_conf             999999579996899999831199676
Q gi|255764488|r  243 KALIAYMNGAIPQVAIEYGRKVLPLSE  269 (290)
Q Consensus       243 egi~~i~~g~~P~~~~e~l~~~lp~~~  269 (290)
                      +-+..+.++|+|+++.=. .+||||+.
T Consensus        14 ~~l~~~l~~EhPQ~iAli-Ls~L~p~~   39 (65)
T 1lkv_X           14 VQLVNFLQSEHPQTIAVV-LSYLDPPV   39 (65)
T ss_dssp             THHHHHHHTSCHHHHHHH-HTTSCHHH
T ss_pred             HHHHHHHHHCCHHHHHHH-HHCCCHHH
T ss_conf             999999982899999999-97199899


Done!