Query         gi|254780377|ref|YP_003064790.1| flagellar basal body P-ring biosynthesis protein FlgA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 152
No_of_seqs    127 out of 709
Neff          7.8 
Searched_HMMs 13730
Date          Wed Jun  1 03:47:22 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780377.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1opsa_ b.85.1.1 (A:) Type III  98.1 1.4E-06   1E-10   53.3   4.1   60   28-90      3-62  (64)
  2 d2zdra1 b.85.1.1 (A:282-349) C  98.0   2E-06 1.5E-10   52.3   3.3   58   28-88     11-68  (68)
  3 d1vlia1 b.85.1.1 (A:297-368) S  97.7 1.2E-05   9E-10   48.0   4.1   60   27-89      8-70  (72)
  4 d1ucsa_ b.85.1.1 (A:) Type III  97.4 5.3E-05 3.8E-09   44.6   4.0   60   27-89      3-62  (64)
  5 d1sv6a_ d.177.1.1 (A:) 2-keto-  74.4    0.81 5.9E-05   21.4   2.2   65   47-111   191-258 (261)
  6 d2zjrm1 b.34.5.6 (M:2-109) Rib  65.0       3 0.00022   18.3   3.5   52   84-135    17-74  (108)
  7 d1zq1a1 b.38.3.1 (A:2-75) Glut  54.0     5.8 0.00042   16.7   6.0   60   90-150     8-69  (74)
  8 d1nr9a_ d.177.1.1 (A:) Putativ  41.6     4.2 0.00031   17.5   1.1   51   57-107   163-214 (221)
  9 d1r3ea1 b.122.1.1 (A:238-318)   31.5      12 0.00087   15.0   2.1   53   68-122     6-58  (81)
 10 d1sawa_ d.177.1.1 (A:) FAHD1 (  23.7      19  0.0014   13.9   2.3   48   57-104   155-203 (217)
 11 d2g46a1 b.85.7.2 (A:1-119) Vir  23.6      12 0.00087   15.0   0.9   20   26-45     15-34  (119)
 12 d2ey4a1 b.122.1.1 (A:253-336)   22.2      20  0.0015   13.7   3.2   58   71-130     9-73  (84)

No 1  
>d1opsa_ b.85.1.1 (A:) Type III antifreeze protein, AFP III {Ocean pout (Macrozoarces americanus), different isoforms [TaxId: 8199]}
Probab=98.07  E-value=1.4e-06  Score=53.25  Aligned_cols=60  Identities=12%  Similarity=0.133  Sum_probs=50.4

Q ss_pred             EEEEEEECCCCCCCCHHHEEEEEEEHHHCCCCCCCCHHHHHCEEEECCCCCCCCCCHHHCCCC
Q ss_conf             877520048996618743799996820178421158677303012102270000156640232
Q gi|254780377|r   28 AVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVLHRP   90 (152)
Q Consensus        28 vvVa~r~I~~G~~I~~~Dl~~~~~~~~~~~~~~~~~~~~~iG~~a~r~i~~G~~i~~~~l~~~   90 (152)
                      -+||+++|++|++|+++|+..++..-..++..   +.++++|+.++++|..|++|..+|++..
T Consensus         3 SiVA~~dI~~G~~lt~~~l~~Krp~p~GI~p~---~~~~iIGKk~kkdi~~d~~L~~d~ik~~   62 (64)
T d1opsa_           3 SVVATQLIPMNTALTPAMMEGKVTNPIGIPFA---EMSQLVGKQVNTPVAKGQTLMPNMVKTY   62 (64)
T ss_dssp             EEEESSCBCTTCBCCGGGEEEECCSSCCSBGG---GGGGTTTCBBSSCBCTTCBCCGGGBTTT
T ss_pred             CEEECCCCCCCCCCCHHHEEEEECCCCCCCHH---HHHHHCCHHHHCCCCCCCCCCHHHHHCC
T ss_conf             67867732898892578857871678870988---9999748575233069885189994122


No 2  
>d2zdra1 b.85.1.1 (A:282-349) Capsule biosynthesis protein SiaC, C-terminal domain {Neisseria meningitidis [TaxId: 487]}
Probab=97.97  E-value=2e-06  Score=52.34  Aligned_cols=58  Identities=19%  Similarity=0.213  Sum_probs=47.8

Q ss_pred             EEEEEEECCCCCCCCHHHEEEEEEEHHHCCCCCCCCHHHHHCEEEECCCCCCCCCCHHHCC
Q ss_conf             8775200489966187437999968201784211586773030121022700001566402
Q gi|254780377|r   28 AVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVLH   88 (152)
Q Consensus        28 vvVa~r~I~~G~~I~~~Dl~~~~~~~~~~~~~~~~~~~~~iG~~a~r~i~~G~~i~~~~l~   88 (152)
                      -+||+++|.+|++|+.+|+.+.+-....++   ..+.++++|+.+.+++.+|++|..+|++
T Consensus        11 Siva~~~I~kG~~i~~~dl~~~RP~~ggi~---p~~~~~viGk~~~~~i~~~~~I~~~dl~   68 (68)
T d2zdra1          11 SVVADKDIKKGELLSGDNLWVKRPGNGDFS---VNEYETLFGKVAACNIRKGAQIKKTDIE   68 (68)
T ss_dssp             EEEESSCBCTTCBCCTTTEEEESCSCSSSB---GGGGGGGTTCBBSSCBCTTCBCCGGGBC
T ss_pred             EEEECCCCCCCCEECHHHEEEECCCCCCCC---HHHHHHHCCCEECCCCCCCCCCCHHHCC
T ss_conf             489904348999952799679888799489---8599886592264445894928979878


No 3  
>d1vlia1 b.85.1.1 (A:297-368) Spore coat polysaccharide biosynthesis protein SpsE, C-terminal domain {Bacillus subtilis [TaxId: 1423]}
Probab=97.73  E-value=1.2e-05  Score=48.02  Aligned_cols=60  Identities=13%  Similarity=0.209  Sum_probs=47.2

Q ss_pred             EEEEEEEECCCCCCCCHHHEEEEEEEH--HHCCCCCCCCHHHHH-CEEEECCCCCCCCCCHHHCCC
Q ss_conf             887752004899661874379999682--017842115867730-301210227000015664023
Q gi|254780377|r   27 HAVVPSVVINAGEVLNESRLKEMQVTN--SNIRGNYAHSIKDVV-GLVTRRVLLPDHVIPLSVLHR   89 (152)
Q Consensus        27 ~vvVa~r~I~~G~~I~~~Dl~~~~~~~--~~~~~~~~~~~~~~i-G~~a~r~i~~G~~i~~~~l~~   89 (152)
                      .-++|+++|++|++|+.+|+...+.-.  ..++   -...++++ |+.+++++.+|++|..+++-.
T Consensus         8 RSi~a~kdi~kG~~it~~di~~~RPg~~~~Gi~---p~~~~~ii~Gkk~~~~i~~g~~i~~~di~~   70 (72)
T d1vlia1           8 RGIFTTAPIQKGEAFSEDNIAVLRPGQKPQGLH---PRFFELLTSGVRAVRDIPADTGIVWDDILL   70 (72)
T ss_dssp             CEEEESSCBCTTCBCCTTTEEEECCTTSCCCBC---GGGHHHHHTTCBCSSCBCTTCBCCGGGTSC
T ss_pred             EEEEEECCCCCCCCCCHHHEEEECCCCCCCCCC---HHHHHHHHCCCEECCCCCCCCCCCHHHCCC
T ss_conf             538891422888991678867877888888859---899999767948846338969369999020


No 4  
>d1ucsa_ b.85.1.1 (A:) Type III antifreeze protein, AFP III {Antarctic eel pout (Lycodichthys dearborni), RD1 isoform [TaxId: 8201]}
Probab=97.44  E-value=5.3e-05  Score=44.55  Aligned_cols=60  Identities=22%  Similarity=0.247  Sum_probs=50.8

Q ss_pred             EEEEEEEECCCCCCCCHHHEEEEEEEHHHCCCCCCCCHHHHHCEEEECCCCCCCCCCHHHCCC
Q ss_conf             887752004899661874379999682017842115867730301210227000015664023
Q gi|254780377|r   27 HAVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVLHR   89 (152)
Q Consensus        27 ~vvVa~r~I~~G~~I~~~Dl~~~~~~~~~~~~~~~~~~~~~iG~~a~r~i~~G~~i~~~~l~~   89 (152)
                      .-+||++.|+.|+.|+.+|++.+-..-..+|   ..+..+++|++..+++..|++|..+|++.
T Consensus         3 ~SVVA~q~ip~gt~LT~~mm~~KV~eP~Gip---ae~~~~iVGkqvn~~V~edetim~~mvk~   62 (64)
T d1ucsa_           3 ASVVANQLIPINTALTLIMMKAEVVTPMGIP---AEEIPKLVGMQVNRAVPLGTTLMPDMVKN   62 (64)
T ss_dssp             CEEEESSCBCTTCBCCGGGEEEECCSSCCSB---GGGHHHHTTCBBSSCBCTTCBCCGGGBTT
T ss_pred             CCEEEEEEECCCCCCCHHHHHEEECCCCCCC---HHHHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf             4157741207875434767412312788889---89999987488710516898533665630


No 5  
>d1sv6a_ d.177.1.1 (A:) 2-keto-4-pentenoate hydratase MhpD {Escherichia coli [TaxId: 562]}
Probab=74.35  E-value=0.81  Score=21.44  Aligned_cols=65  Identities=11%  Similarity=0.095  Sum_probs=42.3

Q ss_pred             EEEEEEHHHCCCCCCCCHHHHHCEEEE--CCCCCCCCCCHHHCCCCCCCCCCCEEEEEEE-CCCEEEE
Q ss_conf             999968201784211586773030121--0227000015664023210037987999997-6978999
Q gi|254780377|r   47 KEMQVTNSNIRGNYAHSIKDVVGLVTR--RVLLPDHVIPLSVLHRPYVISRGAKVRIILT-QGNMTIS  111 (152)
Q Consensus        47 ~~~~~~~~~~~~~~~~~~~~~iG~~a~--r~i~~G~~i~~~~l~~~~~V~~G~~V~i~~~-~g~~~i~  111 (152)
                      ...+........+++....-++...++  .+|.+|++|..-...++.-++.||.+.+.+. -|.++++
T Consensus       191 ~~~~g~~~~~~g~P~~al~wL~~~l~~~g~~L~~G~iV~TGs~~~~~~i~~Gd~v~~~f~glG~vs~~  258 (261)
T d1sv6a_         191 EVSSGRGSECLGHPLNAAVWLARKMASLGEPLRTGDIILTGALGPMVAVNAGDRFEAHIEGIGSVAAT  258 (261)
T ss_dssp             EEEEEEGGGTTTSHHHHHHHHHHHHHHTTCCBCTTCEEEEEESSCCEECCTTCEEEEEETTTEEEEEE
T ss_pred             EEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCEECCCCCEEEEEECCCCEEEEE
T ss_conf             58721564566885999999999999749987999999889878887789998999998578479999


No 6  
>d2zjrm1 b.34.5.6 (M:2-109) Ribosomal protein L19 {Deinococcus radiodurans [TaxId: 1299]}
Probab=65.04  E-value=3  Score=18.28  Aligned_cols=52  Identities=17%  Similarity=0.173  Sum_probs=37.1

Q ss_pred             HHHCCCCCCCCCCCEEEEEEEC--C---CEE-EEEEEEECCCCCCCCEEEEEECCCCC
Q ss_conf             6640232100379879999976--9---789-99999992448889779999889988
Q gi|254780377|r   84 LSVLHRPYVISRGAKVRIILTQ--G---NMT-ISTAGIALSDASIGDVIAVKNIDTGV  135 (152)
Q Consensus        84 ~~~l~~~~~V~~G~~V~i~~~~--g---~~~-i~~~g~Al~~g~~Gd~IrV~N~~S~k  135 (152)
                      ...++.-|.++.||.|.+.+..  |   .+. ...-.+|..++..+..+.|||...|-
T Consensus        17 ~~~~k~iP~f~~GDtV~V~~~i~Eg~k~RiQ~FeGvvI~~~~~g~~~tftvRki~~g~   74 (108)
T d2zjrm1          17 QDHTRQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGE   74 (108)
T ss_dssp             GGGCCCCCCCSSSEEEEEECCTTSSSCCCCEEEECCEEECCCCGGGCEEEEEEEETTE
T ss_pred             HHHCCCCCCCCCCCEEEEEEEECCCCCCCEEEEEEEEEEEECCCCCCEEEEEEEECCC
T ss_conf             9857679984899899999997589865057888999998278863059989973684


No 7  
>d1zq1a1 b.38.3.1 (A:2-75) Glutamyl-tRNA(Gln) amidotransferase subunit D, GatD {Pyrococcus abyssi [TaxId: 29292]}
Probab=54.02  E-value=5.8  Score=16.75  Aligned_cols=60  Identities=20%  Similarity=0.314  Sum_probs=41.9

Q ss_pred             CCCCCCCCEEEEEEECCCEEEEEEEEECCCC--CCCCEEEEEECCCCCEEEEEEEECCEEEEE
Q ss_conf             2100379879999976978999999992448--889779999889988899999729989999
Q gi|254780377|r   90 PYVISRGAKVRIILTQGNMTISTAGIALSDA--SIGDVIAVKNIDTGVMVSGSVVDTGTVRVV  150 (152)
Q Consensus        90 ~~~V~~G~~V~i~~~~g~~~i~~~g~Al~~g--~~Gd~IrV~N~~S~k~v~g~V~~~~~V~V~  150 (152)
                      ..-+.-||.|++..+.++=.++.+|..|.+-  +-.+.|-++ ++||==+.=.+..-..++++
T Consensus         8 ~~~~~~GD~Vri~~~~~~~~~~~eGilmP~~e~s~~~~ivlK-L~nGYNiGi~~~~i~~ievl   69 (74)
T d1zq1a1           8 ERNINVGDFVRITKEEDGEEVTYEGYIMPPYELSAGDTLVLK-LENGYNIGIALEKIRRIEVL   69 (74)
T ss_dssp             HTTCCTTCEEEEEEESSSSEEECCEEECCCCTTCCCSEEEEE-ETTSCEEEEEGGGEEEEEEE
T ss_pred             HCCCCCCCEEEEEEECCCCCEEEEEEECCCCCCCCCCEEEEE-ECCCEEECCCHHHEEEEEEE
T ss_conf             739999998999991488855899998488545899879999-44862241336670489997


No 8  
>d1nr9a_ d.177.1.1 (A:) Putative isomerase YcgM {Escherichia coli [TaxId: 562]}
Probab=41.57  E-value=4.2  Score=17.47  Aligned_cols=51  Identities=10%  Similarity=0.182  Sum_probs=34.9

Q ss_pred             CCCCCCCHHHHHCEEEE-CCCCCCCCCCHHHCCCCCCCCCCCEEEEEEECCC
Q ss_conf             84211586773030121-0227000015664023210037987999997697
Q gi|254780377|r   57 RGNYAHSIKDVVGLVTR-RVLLPDHVIPLSVLHRPYVISRGAKVRIILTQGN  107 (152)
Q Consensus        57 ~~~~~~~~~~~iG~~a~-r~i~~G~~i~~~~l~~~~~V~~G~~V~i~~~~g~  107 (152)
                      .++++.+..+++-...+ .+|.+|.+|..---...-.++.||.|.+.+.+++
T Consensus       163 t~~Mi~~~~elI~~lS~~~tL~pGDiI~TGTP~Gvg~l~~GD~v~~~ieG~~  214 (221)
T d1nr9a_         163 TADMIHKIVPLIAYMSKFFTLKAGDVVLTGTPDGVGPLQSGDELTVTFDGHS  214 (221)
T ss_dssp             GGGBSSCHHHHHHHHTTTSCBCTTCEEECCCCSCCEEECTTCEEEEEETTEE
T ss_pred             CCCCCCCHHHHHHHHHCCCEECCCCEEECCCCCCCCCCCCCCEEEEEEECCE
T ss_conf             0034689999999984799789997899589898715899999999998998


No 9  
>d1r3ea1 b.122.1.1 (A:238-318) Pseudouridine synthase II TruB, C-terminal domain {Thermotoga maritima [TaxId: 2336]}
Probab=31.53  E-value=12  Score=14.98  Aligned_cols=53  Identities=21%  Similarity=0.261  Sum_probs=39.6

Q ss_pred             HCEEEECCCCCCCCCCHHHCCCCCCCCCCCEEEEEEECCCEEEEEEEEECCCCCC
Q ss_conf             0301210227000015664023210037987999997697899999999244888
Q gi|254780377|r   68 VGLVTRRVLLPDHVIPLSVLHRPYVISRGAKVRIILTQGNMTISTAGIALSDASI  122 (152)
Q Consensus        68 iG~~a~r~i~~G~~i~~~~l~~~~~V~~G~~V~i~~~~g~~~i~~~g~Al~~g~~  122 (152)
                      +...|...|..|..+...-+....-+++||.|.+....|.+  -.-|+|+-+..-
T Consensus         6 V~~~A~~~i~~Ga~l~~pGI~~~d~~~~Gd~V~I~~~~g~~--iaiG~a~~~S~e   58 (81)
T d1r3ea1           6 VHQESTKMILNGSQIHLEMLKEWDGFKKGEVVRVFNEEGRL--LALAEAERNSSF   58 (81)
T ss_dssp             CCTTTHHHHTTTCCEESSSCCEECCCCTTCEEEEECSSSCE--EEEEEESSCTTC
T ss_pred             ECCCHHHHHHCCCCCCCCCCEEECCCCCCCEEEEEECCCCE--EEEEEEECCHHH
T ss_conf             95125889866975465420454212799989999379977--899998329999


No 10 
>d1sawa_ d.177.1.1 (A:) FAHD1 (Flj36880, YISKL) {Human (Homo sapiens) [TaxId: 9606]}
Probab=23.73  E-value=19  Score=13.90  Aligned_cols=48  Identities=10%  Similarity=0.071  Sum_probs=31.0

Q ss_pred             CCCCCCCHHHHHCEEE-ECCCCCCCCCCHHHCCCCCCCCCCCEEEEEEE
Q ss_conf             8421158677303012-10227000015664023210037987999997
Q gi|254780377|r   57 RGNYAHSIKDVVGLVT-RRVLLPDHVIPLSVLHRPYVISRGAKVRIILT  104 (152)
Q Consensus        57 ~~~~~~~~~~~iG~~a-~r~i~~G~~i~~~~l~~~~~V~~G~~V~i~~~  104 (152)
                      .++++.+..+++-..+ ..+|.+|.+|..---.-...++.||.|.+...
T Consensus       155 t~~mi~~~~eli~~lS~~~tL~pGDvI~TGTP~Gvg~l~~GD~v~~~i~  203 (217)
T d1sawa_         155 TSSMIFSIPYIISYVSKIITLEEGDIILTGTPKGVGPVKENDEIEAGIH  203 (217)
T ss_dssp             GGGBSSCHHHHHHHHHTTSCBCTTCEEECCCCSCCEEECTTCEEEEEET
T ss_pred             HHHHCCCHHHHHHHHHCCCEECCCCEEECCCCCCCCCCCCCCEEEEEEC
T ss_conf             6873206999999986896679994898289898753899989999987


No 11 
>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}
Probab=23.61  E-value=12  Score=14.98  Aligned_cols=20  Identities=25%  Similarity=0.393  Sum_probs=15.2

Q ss_pred             EEEEEEEEECCCCCCCCHHH
Q ss_conf             88877520048996618743
Q gi|254780377|r   26 GHAVVPSVVINAGEVLNESR   45 (152)
Q Consensus        26 ~~vvVa~r~I~~G~~I~~~D   45 (152)
                      +--+.|+++|++|++|..-.
T Consensus        15 G~GvfA~~~i~~g~~i~~~~   34 (119)
T d2g46a1          15 GYGVFARKSFEKGELVEECL   34 (119)
T ss_dssp             SSCEEECSCBCTTCCCEEEE
T ss_pred             CEEEEECCHHHCCCEEECCC
T ss_conf             40999895243797772442


No 12 
>d2ey4a1 b.122.1.1 (A:253-336) Pseudouridine synthase II TruB, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Probab=22.20  E-value=20  Score=13.73  Aligned_cols=58  Identities=16%  Similarity=0.211  Sum_probs=41.5

Q ss_pred             EEECCCCCCCCCCHHHCCC-CCCCCCCCEEEEEEECCCEEEEEEEEECCCC------CCCCEEEEEE
Q ss_conf             1210227000015664023-2100379879999976978999999992448------8897799998
Q gi|254780377|r   71 VTRRVLLPDHVIPLSVLHR-PYVISRGAKVRIILTQGNMTISTAGIALSDA------SIGDVIAVKN  130 (152)
Q Consensus        71 ~a~r~i~~G~~i~~~~l~~-~~~V~~G~~V~i~~~~g~~~i~~~g~Al~~g------~~Gd~IrV~N  130 (152)
                      .|...|..|..+...-+.. ...+++||.|.+....|.+  -..|+|+-++      ..|..+++++
T Consensus         9 ~A~~ai~~Ga~l~~~GV~~~~~~f~~Gd~V~I~~~~g~~--iavG~a~~ss~ei~~~~kG~av~~~~   73 (84)
T d2ey4a1           9 SAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDEL--VALGKAMMTSQEMLEKTKGIAVDVEK   73 (84)
T ss_dssp             HHHHHHTTTCCEEGGGEEEEETTCCTTCEEEEEETTSCE--EEEEEESSCHHHHHHCCSSEEEEEEE
T ss_pred             HHHHHHHCCCCCCCCEEEEECCCCCCCCEEEEEECCCCE--EEEEEEEECHHHHHHHCCCEEEEEEE
T ss_conf             199999869984788079972898899999999588755--89999952999998755986999888


Done!