Query         gi|254780135|ref|YP_003064548.1| hypothetical protein CLIBASIA_00070 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 408
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 33803
Date          Sun May 22 06:23:34 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780135.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2ww8_A RRGA, cell WALL surfac  95.8   0.018 5.4E-07   37.0   5.0   59  326-393   202-267 (269)
  2 >1x9d_A Endoplasmic reticulum   58.2     2.6 7.7E-05   21.8   0.2   63  295-366   155-227 (305)
  3 >2ri9_A Mannosyl-oligosacchari  40.0      10  0.0003   17.6   0.8   78  285-375    19-98  (100)
  4 >2c5u_A RNA ligase, T4 RNA lig  37.1      11 0.00034   17.2   0.7   36  166-201     2-38  (98)
  5 >1nxc_A Mannosyl-oligosacchari  32.9      24 0.00072   14.9   1.8   64  285-359    17-85  (90)
  6 >3kp1_E D-ornithine aminomutas  26.2     8.8 0.00026   18.0  -1.4   38   34-78     20-57  (76)
  7 >3imo_A Integron cassette prot  25.2      38  0.0011   13.5   2.1   35  360-395    28-62  (133)
  8 >1sr4_B CDT B, cytolethal dist  18.8     7.1 0.00021   18.7  -3.1   13  261-273   124-136 (138)
  9 >1shu_X Anthrax toxin receptor  18.5      52  0.0015   12.6   7.5  138  241-392    36-180 (182)
 10 >2waq_B DNA-directed RNA polym  17.4      43  0.0013   13.2   0.7   20  358-377    91-110 (110)

No 1  
>>2ww8_A RRGA, cell WALL surface anchor family protein; IGG, pilus, CNA_B, adhesin, integrin, cell adhesion; HET: EPE; 1.90A {Streptococcus pneumoniae} (A:221-279,A:318-447,A:506-585)
Probab=95.76  E-value=0.018  Score=37.03  Aligned_cols=59  Identities=17%  Similarity=0.253  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCC-------HHHHHHHHCCCCHHEEEECCCCCHHHHHHHHHHHH
Q ss_conf             999998898876313577418999841488743-------02678762059032044258765344789877777
Q gi|254780135|r  326 DRILQDCYYMHKHHRTGRGAITIFSVGFSPDQD-------TRYTLRQCASDPSKYYEINSDENVMPIAKSLARNV  393 (408)
Q Consensus       326 drilqdcyymhkhhrtgrgaitifsvgfspdqd-------trytlrqcasdpskyyeinsdenvmpiakslarnv  393 (408)
                      .+.+..|-.+.      ...|+||+|||..+-+       .++-|+.|||+|+.||+...   .-.+-+++|+..
T Consensus       202 ~~~~~~c~~~k------~~~i~i~ti~~~~~~~~~~~~~~~~~~l~~cas~~~~y~~~~~---~~~~f~~ia~~~  267 (269)
T 2ww8_A          202 PTRWYYNGNIA------PDGYDVFTVGIGINGDPGTDEATATSFMQSISSKPENYTNVTD---TTKILEQLNRYF  267 (269)
T ss_dssp             HHHHHHHHHTG------GGCCEEEEEEESCCCTTTSCHHHHHHHHHHTSSSGGGEEEESS---GGGHHHHHHHHH
T ss_pred             CEEEEEEEECC------CCCCEEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCEEEECC---CCCEECCCCCCC
T ss_conf             30578875204------6763035776771564210023430577566116653264056---651111335541


No 2  
>>1x9d_A Endoplasmic reticulum mannosyl-oligosaccharide 1, 2-alpha-mannosidase; substrate analogue, glycosyl hydrolase; HET: SMD; 1.41A {Homo sapiens} (A:1-125,A:337-516)
Probab=58.20  E-value=2.6  Score=21.77  Aligned_cols=63  Identities=25%  Similarity=0.452  Sum_probs=38.3

Q ss_pred             CCCCCCCCCEEEEEEEECCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCC----------CCCHHHHHH
Q ss_conf             3546766530688676344100111157889999998898876313577418999841488----------743026787
Q gi|254780135|r  295 CFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMHKHHRTGRGAITIFSVGFSP----------DQDTRYTLR  364 (408)
Q Consensus       295 cfphgashskymlmfaignqlsrssvgketidrilqdcyymhkhhrtgrgaitifsvgfsp----------dqdtrytlr  364 (408)
                      ||--|        |||+|.++....---+.-.++...|+.+-+...||-+.- +|+....+          ..|.+|.||
T Consensus       155 cF~gG--------~~aLg~~~~~~~~~l~~a~~l~~~c~~~y~~~~tGl~PE-~~~~~~~~~~~~~~~~~~~~~~~y~LR  225 (305)
T 1x9d_A          155 CFLPG--------TLALGVYHGLPASHMELAQELMETCYQMNRQMETGLSPE-IVHFNLYPQPGRRDVEVKPADRHNLLR  225 (305)
T ss_dssp             GHHHH--------HHHHHHHTTCCHHHHHHHHHHHHHHHHHHHTSTTSCCCS-EEECCSSCCTTCCSCBCCGGGCCBCCC
T ss_pred             HHHHH--------HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCE-EEEECCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             87677--------887601247876799999999999999886241679865-665346687555666557345577889


Q ss_pred             HH
Q ss_conf             62
Q gi|254780135|r  365 QC  366 (408)
Q Consensus       365 qc  366 (408)
                      --
T Consensus       226 PE  227 (305)
T 1x9d_A          226 PE  227 (305)
T ss_dssp             CH
T ss_pred             CH
T ss_conf             22


No 3  
>>2ri9_A Mannosyl-oligosaccharide alpha-1,2-mannosidase; alternative conformations, modulation of activity, glycoprotein, glycosidase, hydrolase; HET: NAG NDG MAN MMA; 1.95A {Penicillium citrinum} (A:267-366)
Probab=40.04  E-value=10  Score=17.59  Aligned_cols=78  Identities=15%  Similarity=0.233  Sum_probs=49.7

Q ss_pred             CCEEEECCCC--CCCCCCCCCEEEEEEEECCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCHHHH
Q ss_conf             8426513674--35467665306886763441001111578899999988988763135774189998414887430267
Q gi|254780135|r  285 DGQVLTNTNH--CFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMHKHHRTGRGAITIFSVGFSPDQDTRYT  362 (408)
Q Consensus       285 dgqvltntnh--cfphgashskymlmfaignqlsrssvgketidrilqdcyymhkhhrtgrgaitifsvgfspdqdtryt  362 (408)
                      +|..-....|  ||--|        |||+|-.+....---+.-.++...|+.|...-.||-|.-..   .|.|+++..  
T Consensus        19 ~~~~~p~~~HL~CF~gG--------m~aLGa~~~~~~~~l~~a~~Lt~tC~~~Y~~t~TGl~PE~~---~f~~~~~~~--   85 (100)
T 2ri9_A           19 NRNYDLSSQHLTCFDGG--------SFLLGGTVLDRQDFIDFGLELVDGCEATYNSTLTKIGPDSW---GWDPKKVPS--   85 (100)
T ss_dssp             TTEEECEEETGGGGHHH--------HHHHHHHHHTCHHHHHHHHHHHHHHHHHHHTSSSSCCCSEE---ECCTTCCCG--
T ss_pred             CCCCCCCCCHHHHHHCH--------HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEE---CCCCCCCCC--
T ss_conf             88777640058675042--------66626623350778998999999999999974762478421---466545677--


Q ss_pred             HHHHCCCCHHEEE
Q ss_conf             8762059032044
Q gi|254780135|r  363 LRQCASDPSKYYE  375 (408)
Q Consensus       363 lrqcasdpskyye  375 (408)
                      ...|.-++.+||-
T Consensus        86 ~~~~~~~~~~~yi   98 (100)
T 2ri9_A           86 DQKEFYEKAGFYI   98 (100)
T ss_dssp             GGHHHHHHHSCEE
T ss_pred             CCCHHCCCCCCEE
T ss_conf             5200034677154


No 4  
>>2c5u_A RNA ligase, T4 RNA ligase 1; nucleotidyl transferase, ATP-binding; HET: APC; 2.21A {Bacteriophage T4} (A:102-199)
Probab=37.11  E-value=11  Score=17.22  Aligned_cols=36  Identities=14%  Similarity=0.163  Sum_probs=25.0

Q ss_pred             CEEEEEECCCCEEE-ECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             64886300042253-1255222112357420017789
Q gi|254780135|r  166 GLMIMPFAWDGYWL-ASRGKVADSQVHRPKYLEYSHY  201 (408)
Q Consensus       166 glmimpfawdgywl-asrgkvadsqvhrpkyleyshy  201 (408)
                      |-||.||-++|.|. +|||-....|......+-++.-
T Consensus         2 GSLi~~~~~~g~~~~~Tkgs~~s~qa~~a~~~~~~~~   38 (98)
T 2c5u_A            2 GSLVSTYLDGDEILFKSKGSIKSEQALXANGILXNIN   38 (98)
T ss_dssp             SEEEEEEEETTEEEEEETTBSSSHHHHHHHHHHHSGG
T ss_pred             CEEEEEEEECCEEEEEECCCCCCCHHHHHHHHHHHHH
T ss_conf             4899999999999998478788826799999999987


No 5  
>>1nxc_A Mannosyl-oligosaccharide 1,2-alpha-mannosidase IA; glycosidase, structural genomics, PSI, protein structure initiative; HET: NAG BMA MAN; 1.51A {Mus musculus} (A:273-362)
Probab=32.91  E-value=24  Score=14.92  Aligned_cols=64  Identities=22%  Similarity=0.361  Sum_probs=39.2

Q ss_pred             CCEEEECCCC--CCCCCCCCCEEEEEEEECCCCCHHHCCH---HHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCH
Q ss_conf             8426513674--3546766530688676344100111157---8899999988988763135774189998414887430
Q gi|254780135|r  285 DGQVLTNTNH--CFPHGASHSKYMLMFAIGNQLSRSSVGK---ETIDRILQDCYYMHKHHRTGRGAITIFSVGFSPDQDT  359 (408)
Q Consensus       285 dgqvltntnh--cfphgashskymlmfaignqlsrssvgk---etidrilqdcyymhkhhrtgrgaitifsvgfspdqdt  359 (408)
                      +|..-..-.|  ||--|        |||+|-......-.+   +.-..+..-||.+...-.||-|.-..   .|.++.++
T Consensus        17 ~g~~~~~~~HL~CF~gG--------m~aLGa~~~~~~~~~~~~~~a~~Lt~tC~~~Y~~tpTGl~PE~~---~f~~~~~~   85 (90)
T 1nxc_A           17 GGLLEHKMGHLTCFAGG--------MFALGADGAPEARAQHYLELGAEIARTCHESYNRTYVKLGPEAF---RFDGGVEA   85 (90)
T ss_dssp             TTEEECEEETGGGGHHH--------HHHHTSTTSCTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCCSEE---ESSTTCSS
T ss_pred             CCCCCCCCCHHHHHHHH--------HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEE---ECCCCCCC
T ss_conf             98566541117887865--------99870644514456789999999999999999844102587514---30587676


No 6  
>>3kp1_E D-ornithine aminomutase S component; 5 aminomutase (OAM); HET: PLP B12 5AD; 2.01A {Clostridium sticklandii} PDB: 3kow_E* 3koy_E* 3koz_E* 3kp0_E* 3kox_E* (E:46-121)
Probab=26.20  E-value=8.8  Score=18.03  Aligned_cols=38  Identities=34%  Similarity=0.544  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCHH
Q ss_conf             999999876777777888899998776410684323667741223
Q gi|254780135|r   34 VAIVDVVVDQVTVMQKTALLQEVLDHVIYRTSPKNLYDLREAGRD   78 (408)
Q Consensus        34 vaivdvvvdqvtvmqktallqevldhviyrtspknlydlreagrd   78 (408)
                      -+||+-|++. -.|-|-      -.|+.||-+.+.--|.||||+.
T Consensus        20 k~iVe~v~~~-gLlgKG------AGhvV~kiak~~~i~i~eAG~~   57 (76)
T 3kp1_E           20 KAIVDKTMDR-GLMGKG------AGHIVYKIAKEKNISVREAGLA   57 (76)
T ss_dssp             HHHHHHHHHT-TCGGGC------HHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHH-CCCCCC------CCHHHHHHHHHCCCCHHHHHHH
T ss_conf             9999999980-544577------5532235797629988999999


No 7  
>>3imo_A Integron cassette protein; novel, integron protein, argentinean O139 strain, unknown function; 1.80A {Vibrio cholerae O139} (A:)
Probab=25.18  E-value=38  Score=13.51  Aligned_cols=35  Identities=26%  Similarity=0.155  Sum_probs=20.4

Q ss_pred             HHHHHHHCCCCHHEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             267876205903204425876534478987777787
Q gi|254780135|r  360 RYTLRQCASDPSKYYEINSDENVMPIAKSLARNVIT  395 (408)
Q Consensus       360 rytlrqcasdpskyyeinsdenvmpiakslarnvit  395 (408)
                      --||+|.++.--.--| ..-+||||||+.|+-.|+-
T Consensus        28 ~~tL~~y~~~Vm~rA~-hh~g~V~~IalAL~gAIlw   62 (133)
T 3imo_A           28 VNILSQYISGVMARAD-HHAGNVEEIALALAGAILW   62 (133)
T ss_dssp             HHHHHHHHHHHHHHHH-HHCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH-HCCCCCHHHHHHHHHHEEE
T ss_conf             7999999999987755-3615421789986112157


No 8  
>>1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} (B:1-105,B:229-261)
Probab=18.80  E-value=7.1  Score=18.69  Aligned_cols=13  Identities=62%  Similarity=1.124  Sum_probs=10.6

Q ss_pred             EEEECCCCHHHHH
Q ss_conf             7550007089998
Q gi|254780135|r  261 RITWDHFPYSFIK  273 (408)
Q Consensus       261 ritwdhfpysfik  273 (408)
                      .||-||||-||.|
T Consensus       124 ~~~~~~~~~~~~~  136 (138)
T 1sr4_B          124 QITSDHFPVSFVR  136 (138)
T ss_dssp             CCSSSBCCEEEEE
T ss_pred             CCCCCCCCEEEEE
T ss_conf             8518650728986


No 9  
>>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane protein; 1.50A {Homo sapiens} (X:)
Probab=18.52  E-value=52  Score=12.60  Aligned_cols=138  Identities=10%  Similarity=0.042  Sum_probs=74.7

Q ss_pred             CCEEECCCCEEEEEECCCEEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEC-----CCCCCC-CCCCCCEEEEEEEECCC
Q ss_conf             511303585899995173687550007089998887410234678426513-----674354-67665306886763441
Q gi|254780135|r  241 NFQYHQDNNMLIFYSHRDFYRITWDHFPYSFIKNVFDMTSNQFGDGQVLTN-----TNHCFP-HGASHSKYMLMFAIGNQ  314 (408)
Q Consensus       241 nfqyhqdnnmlifyshrdfyritwdhfpysfiknvfdmtsnqfgdgqvltn-----tnhcfp-hgashskymlmfaignq  314 (408)
                      .+.-..+.-.++.|+.....-..|..++.+--.........++|.|.-+..     ..+-+. ......+.++.+.-|..
T Consensus        36 ~~~~~~~~~~iv~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~al~~a~~~~~~~~~~~~~~~~ilitdg~~  115 (182)
T 1shu_X           36 RFVSPEMRLSFIVFSSQATIILPLTGDRGKISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKL  115 (182)
T ss_dssp             HCCCTTEEEEEEEESSSEEEEEEEECCHHHHHHHHHHHHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCC
T ss_pred             HHCCCCCEEEEEEECCCEEECCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCC
T ss_conf             73589977999995154026278778799999998776530467862578999999987642113688617999147877


Q ss_pred             CCHHHCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCHHHHHHHHCCCCH-HEEEECCCCCHHHHHHHHHHH
Q ss_conf             001111578899999988988763135774189998414887430267876205903-204425876534478987777
Q gi|254780135|r  315 LSRSSVGKETIDRILQDCYYMHKHHRTGRGAITIFSVGFSPDQDTRYTLRQCASDPS-KYYEINSDENVMPIAKSLARN  392 (408)
Q Consensus       315 lsrssvgketidrilqdcyymhkhhrtgrgaitifsvgfspdqdtrytlrqcasdps-kyyeinsdenvmpiakslarn  392 (408)
                      -...   .+.+....+.+         ..-.+.+|.+|+.+..+  ..|++.|+.+. +|+.+.+......+-..+.+.
T Consensus       116 ~~~~---~~~~~~~~~~~---------~~~~i~i~~ig~g~~~~--~~l~~ia~~~~g~~~~~~~~~~l~~~~~~i~~~  180 (182)
T 1shu_X          116 DGLV---PSYAEKEAKIS---------RSLGASVYCVGVLDFEQ--AQLERIADSKEQVFPVKGGFQALKGIINSILAQ  180 (182)
T ss_dssp             CTTH---HHHHHHHHHHH---------HHTTCEEEEEECSSCCH--HHHHHHSSSGGGEEESSSTTHHHHHHHHHHHHT
T ss_pred             CCCC---CHHHHHHHHHH---------HHCCCEEEEEEECCCCH--HHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHH
T ss_conf             8886---38999999999---------97798899999785599--999998689997499349999999999999863


No 10 
>>2waq_B DNA-directed RNA polymerase RPO2 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_B 2pmz_B 3hkz_B (B:49-158)
Probab=17.45  E-value=43  Score=13.19  Aligned_cols=20  Identities=25%  Similarity=0.521  Sum_probs=15.1

Q ss_pred             CHHHHHHHHCCCCHHEEEEC
Q ss_conf             30267876205903204425
Q gi|254780135|r  358 DTRYTLRQCASDPSKYYEIN  377 (408)
Q Consensus       358 dtrytlrqcasdpskyyein  377 (408)
                      ..+..+.||..||.-|+-||
T Consensus        91 ~e~v~~~E~~~d~GGYFIiN  110 (110)
T 2waq_B           91 DKLIEIGEDPKDPGGYFIVN  110 (110)
T ss_dssp             HHHHHHTSCTTCCCCCEEET
T ss_pred             HHHHHCCCCCCCCCCEEEEC
T ss_conf             89986288878998289968


Done!