Query         gi|254780520|ref|YP_003064933.1| flagellar basal body rod modification protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 131
No_of_seqs    110 out of 613
Neff          5.5 
Searched_HMMs 33803
Date          Wed Jun  1 18:04:00 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780520.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >1xf1_A C5A peptidase, SCP; hy  99.4 7.4E-18 2.2E-22  122.4 -16.0   77   18-94      2-81  (213)
  2 >2h1r_A Dimethyladenosine tran  74.7     2.2 6.5E-05   21.7   2.5   17   18-34     71-87  (98)
  3 >1zq9_A Probable dimethyladeno  73.5     2.4 7.2E-05   21.4   2.5   18   18-35     72-89  (97)
  4 >1pm3_A MTH1895; unknown funct  66.3     8.9 0.00026   18.2   7.2   54   78-131    20-88  (97)
  5 >3c12_A FLGD, flagellar protei  62.7      10 0.00031   17.8   4.4   32   98-130   106-138 (138)
  6 >1rzh_H Reaction center protei  41.2      24  0.0007   15.7   4.7   37   80-116    28-66  (145)
  7 >1eys_H Photosynthetic reactio  36.2      28 0.00084   15.3   4.8   37   80-116    29-67  (142)
  8 >2wjn_H Reaction center protei  34.7      30 0.00089   15.1   4.8   37   81-117    36-74  (146)
  9 >2jk8_A BEPA, putative cell fi  25.3      44  0.0013   14.2   2.6   34   24-57     35-68  (79)
 10 >2e70_A Transcription elongati  25.0      32 0.00095   15.0   1.3   41   83-123    17-59  (71)
 11 >3htr_A Uncharacterized PRC-ba  24.2      46  0.0014   14.0   5.1   32   85-116     1-34  (101)
 12 >1a4p_A S100A10; S100 family,   22.3      43  0.0013   14.2   1.5   37   17-53     19-57  (63)

No 1  
>>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {Streptococcus pyogenes} PDB: 3eif_A* (A:616-828)
Probab=99.44  E-value=7.4e-18  Score=122.44  Aligned_cols=77  Identities=5%  Similarity=-0.003  Sum_probs=67.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHCCCEEECCC
Q ss_conf             7733338899999999983299899988978999999999999999999999999999---9997645532261466389
Q gi|254780520|r   18 KSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLK---SNNLAQASSYIGKNITNAD   94 (131)
Q Consensus        18 ~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~---~~~~~~a~sliGk~V~~~~   94 (131)
                      +.++.++++.||+||++||+||||++|||+++|++|+|||+++|++.++++.+..+..   ..+..++.+++|+.+...+
T Consensus         2 ~~~~~~~~~~Fl~ll~~q~~nqdp~~p~~~~~f~~q~aq~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~   81 (213)
T 1xf1_A            2 PIYDSKDGSSYYHEANSDAKDQLDGDGLQFYALKNNFTALTTESNPWTIIKAVKEGVENIEDIESSEITETIFAGTFAKQ   81 (213)
T ss_dssp             CGGGCSSSCCSSCCCCTTCTTBCCCSTTSCCTTSSCSSEEEEEECCHHHHHHHHHTCSCSTTSSCCCCCEEEETTEEECS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEC
T ss_conf             33235666531024566665554554431234555446441223454212222344211244555555542112410001


No 2  
>>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum} (A:202-299)
Probab=74.69  E-value=2.2  Score=21.69  Aligned_cols=17  Identities=41%  Similarity=0.669  Sum_probs=13.9

Q ss_pred             CCCCCCCHHHHHHHHHH
Q ss_conf             77333388999999999
Q gi|254780520|r   18 KSKKTLGQDAFLKLLIT   34 (131)
Q Consensus        18 ~~~~~l~~d~FLkLL~a   34 (131)
                      +-...||.||||+||.+
T Consensus        71 kRa~kmDidDfL~LL~~   87 (98)
T 2h1r_A           71 KRSINLDENDFLKLLLE   87 (98)
T ss_dssp             CBGGGCCHHHHHHHHHH
T ss_pred             CCHHHCCHHHHHHHHHH
T ss_conf             58133999999999999


No 3  
>>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} (A:189-285)
Probab=73.48  E-value=2.4  Score=21.41  Aligned_cols=18  Identities=28%  Similarity=0.497  Sum_probs=14.2

Q ss_pred             CCCCCCCHHHHHHHHHHH
Q ss_conf             773333889999999998
Q gi|254780520|r   18 KSKKTLGQDAFLKLLITQ   35 (131)
Q Consensus        18 ~~~~~l~~d~FLkLL~aQ   35 (131)
                      +-...||.||||+||.+=
T Consensus        72 kRa~kmD~dDfL~LL~~F   89 (97)
T 1zq9_A           72 KRARSMDIDDFIRLLHGF   89 (97)
T ss_dssp             CBGGGCCHHHHHHHHHHH
T ss_pred             CCHHHCCHHHHHHHHHHH
T ss_conf             880449999999999999


No 4  
>>1pm3_A MTH1895; unknown function, structural genomics, PSI, protein structure initiative; 3.15A {Methanothermobacterthermautotrophicus} (A:)
Probab=66.28  E-value=8.9  Score=18.18  Aligned_cols=54  Identities=13%  Similarity=0.345  Sum_probs=39.1

Q ss_pred             HHHHHHHHCCCEEECCCCEEEEEEEEEEEC-CCCEE-EEEEC--CE-----------EEECCCCEEEEC
Q ss_conf             976455322614663897189999788862-79669-99978--97-----------896231058609
Q gi|254780520|r   78 NLAQASSYIGKNITNADGSISGVVNAIQVS-STGLT-AITVD--NT-----------EIPITTGIRISN  131 (131)
Q Consensus        78 ~~~~a~sliGk~V~~~~~~~~G~v~~V~~~-~~g~~-~~~v~--~~-----------~v~~~~v~~V~d  131 (131)
                      ....+..|+||.|...+|..-|.|..+.+. +.|.+ .+.+.  +.           .+|.+.+..|+|
T Consensus        20 ~~~~~s~L~gk~V~~~~G~~iG~V~Dv~iD~~~G~i~~lvv~~~g~~~~l~~~~~~v~IP~~~V~~vgd   88 (97)
T 1pm3_A           20 HMRIVEEMVGKEVLDSSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPYEMVKKIGD   88 (97)
T ss_dssp             CEETTTTSSSCEEECTTSCEEEEEEEEEEETTTTEEEEEEEECCC---------CEEEEEGGGEEEESS
T ss_pred             CEEEHHHHCCCEEECCCCCEEEEEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCEEEEEHHHEEEECC
T ss_conf             247889828997799999898899889997899999999991698403100289479999687449898


No 5  
>>3c12_A FLGD, flagellar protein; HOOK capping, IG-like domain, FN-III domain, tudor-like domain, flagellar biogenesis, flagellum; 2.51A {Xanthomonas campestris PV} (A:)
Probab=62.69  E-value=10  Score=17.78  Aligned_cols=32  Identities=13%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             EEEEEEEEECCCCEEEEEE-CCEEEECCCCEEEE
Q ss_conf             9999788862796699997-89789623105860
Q gi|254780520|r   98 SGVVNAIQVSSTGLTAITV-DNTEIPITTGIRIS  130 (131)
Q Consensus        98 ~G~v~~V~~~~~g~~~~~v-~~~~v~~~~v~~V~  130 (131)
                      .|.|++|.+ ++|.+.+.+ ++..+++..|.+|+
T Consensus       106 ~~~V~~V~~-~~g~~~l~l~~~~~v~~~~i~~is  138 (138)
T 3c12_A          106 DAPVDSVTI-GSDGLYLNLTGLGTSPLANVLRVS  138 (138)
T ss_dssp             EEEEEEEEE-ETTEEEEEETTTEEEETTSCCBCC
T ss_pred             EEEEEEEEE-CCCEEEEEECCCCEEEHHHEEECC
T ss_conf             999999997-599179998699599589909839


No 6  
>>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton transfer pathway, revertant, X-RAY crystallography; HET: BCL BPH BPB U10 SPO LDA HTO CDL; 1.80A {Rhodobacter sphaeroides} (H:116-260)
Probab=41.23  E-value=24  Score=15.73  Aligned_cols=37  Identities=24%  Similarity=0.286  Sum_probs=27.9

Q ss_pred             HHHHHHCCCEEECCCCEEEEEEEEEEECC-CCEE-EEEE
Q ss_conf             64553226146638971899997888627-9669-9997
Q gi|254780520|r   80 AQASSYIGKNITNADGSISGVVNAIQVSS-TGLT-AITV  116 (131)
Q Consensus        80 ~~a~sliGk~V~~~~~~~~G~v~~V~~~~-~g~~-~~~v  116 (131)
                      ..+..|+|+.|...+|..-|.|..+-+.. +|.+ .+++
T Consensus        28 ~~a~~l~G~~V~~~~ge~IG~V~dl~id~~~g~v~~~vV   66 (145)
T 1rzh_H           28 SAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEV   66 (145)
T ss_dssp             EESCCCTTCEEEETTSCEEEEEEEEEEETTTTEEEEEEE
T ss_pred             ECCCCCCCCEEECCCCCCCCEEEEEEEECCCCEEEEEEE
T ss_conf             068885678448689985127889898188785889999


No 7  
>>1eys_H Photosynthetic reaction center; membrane protein complex, electron transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A {Thermochromatium tepidum} (H:118-259)
Probab=36.24  E-value=28  Score=15.27  Aligned_cols=37  Identities=22%  Similarity=0.316  Sum_probs=27.8

Q ss_pred             HHHHHHCCCEEECCCCEEEEEEEEEEEC-CCCEE-EEEE
Q ss_conf             6455322614663897189999788862-79669-9997
Q gi|254780520|r   80 AQASSYIGKNITNADGSISGVVNAIQVS-STGLT-AITV  116 (131)
Q Consensus        80 ~~a~sliGk~V~~~~~~~~G~v~~V~~~-~~g~~-~~~v  116 (131)
                      ..+..|+|+.|...+|..-|.|+.+-+. .+|.+ .+++
T Consensus        29 ~~a~~l~G~~V~~~dge~IG~V~div~d~~~g~v~~vvv   67 (142)
T 1eys_H           29 EGDPDPRGMTVVGLDGEVAGTVSDVWVDRSEPQIRYLEV   67 (142)
T ss_dssp             TTSCCCTTCEEECSSSCEEEEEEEEEEETTTTEEEEEEE
T ss_pred             CCCCCCCCCEEECCCCCEEEEEEEEEEECCCCEEEEEEE
T ss_conf             899899989868689996778989999899892889999


No 8  
>>2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 3d38_H* 3prc_H* 5prc_H* 6prc_H* 7prc_H* 3g7f_H* (H:113-258)
Probab=34.73  E-value=30  Score=15.12  Aligned_cols=37  Identities=19%  Similarity=0.212  Sum_probs=28.0

Q ss_pred             HHHHHCCCEEECCCCEEEEEEEEEEECC-CCEE-EEEEC
Q ss_conf             4553226146638971899997888627-9669-99978
Q gi|254780520|r   81 QASSYIGKNITNADGSISGVVNAIQVSS-TGLT-AITVD  117 (131)
Q Consensus        81 ~a~sliGk~V~~~~~~~~G~v~~V~~~~-~g~~-~~~v~  117 (131)
                      .+..|+|++|...+|..-|.|..+-+.. +|.+ .++++
T Consensus        36 ~~~~l~G~~V~~~~G~~iG~V~dv~~d~~~g~v~~~Vv~   74 (146)
T 2wjn_H           36 GDVDPRGLPVVAADGVEAGTVTDLWVDRSEHYFRYLELS   74 (146)
T ss_dssp             TSCCCTTCEEECTTSCEEEEEEEEEEETTTTEEEEEEEE
T ss_pred             CCCCCCCCEEECCCCCCCCEEEEEEEECCCCEEEEEEEE
T ss_conf             889855673486899860457689997898848999999


No 9  
>>2jk8_A BEPA, putative cell filamentation protein (BEPA protein); T4SS, OB fold, FIC domain, substrate protein, protein translocation; 2.8A {Bartonella henselae} PDB: 2vy3_A 2vza_A* (A:84-162)
Probab=25.30  E-value=44  Score=14.16  Aligned_cols=34  Identities=9%  Similarity=0.033  Sum_probs=30.1

Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             8899999999983299899988978999999999
Q gi|254780520|r   24 GQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVF   57 (131)
Q Consensus        24 ~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqf   57 (131)
                      ..+.-|+-+..+|+..+.+.-+|-.||+.++|.+
T Consensus        35 ~I~~~l~~~~~~l~~~~~l~gl~~~ef~~~lA~~   68 (79)
T 2jk8_A           35 EIQEGLQRLDQTLAEKNNLQGLTREEFNSEAIEL   68 (79)
T ss_dssp             HHHHHHHHHHHHHHHTGGGCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             9999999999999976431358825699999999


No 10 
>>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:)
Probab=25.02  E-value=32  Score=14.96  Aligned_cols=41  Identities=12%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             HHHCCCEEECCCCEEEEEEEEEEECCCCEEEEEECC--EEEEC
Q ss_conf             532261466389718999978886279669999789--78962
Q gi|254780520|r   83 SSYIGKNITNADGSISGVVNAIQVSSTGLTAITVDN--TEIPI  123 (131)
Q Consensus        83 ~sliGk~V~~~~~~~~G~v~~V~~~~~g~~~~~v~~--~~v~~  123 (131)
                      -.||||+|....|...|..-.|.-..+..+.+....  +.|.+
T Consensus        17 d~liGktV~I~~G~yKG~~G~Vkd~t~~~~rVeLhs~~K~v~V   59 (71)
T 2e70_A           17 NELIGQTVRISQGPYKGYIGVVKDATESTARVELHSTCQTISV   59 (71)
T ss_dssp             TSSTTSEEEECSSTTTTCEEEEEEECSSCEEEEESSSCCEEEE
T ss_pred             CCCCCCEEEEEECCCCCEEEEEEECCCCEEEEEECCCCEEEEE
T ss_conf             4445888999652768878899965288699998368849998


No 11 
>>3htr_A Uncharacterized PRC-barrel domain protein; beta-barrel, photo-reaction-center domain, structural genomics, PSI-2; HET: MSE; 2.06A {Rhodopseudomonas palustris} (A:20-120)
Probab=24.23  E-value=46  Score=14.04  Aligned_cols=32  Identities=16%  Similarity=0.346  Sum_probs=24.6

Q ss_pred             HCCCEEECCCCEEEEEEEEEEECC-CCEE-EEEE
Q ss_conf             226146638971899997888627-9669-9997
Q gi|254780520|r   85 YIGKNITNADGSISGVVNAIQVSS-TGLT-AITV  116 (131)
Q Consensus        85 liGk~V~~~~~~~~G~v~~V~~~~-~g~~-~~~v  116 (131)
                      |+|++|...+|..-|.|..+-+.. +|.+ .+++
T Consensus         1 L~G~~V~~~dge~iG~V~dv~id~~~g~v~~~vv   34 (101)
T 3htr_A            1 VQGTAVYGPDGEKIGSIERVXIEKVSGRVSYAVL   34 (101)
T ss_dssp             HTTCEEECTTSCEEEEEEEEEEETTTCBEEEEEE
T ss_pred             CCCCEEECCCCCEEEEEEEEEEECCCCCEEEEEE
T ss_conf             3488889899898888889999889897889999


No 12 
>>1a4p_A S100A10; S100 family, EF-hand protein, ligand of annexin II, calcium/phospholipid binding protein; 2.25A {Homo sapiens} (A:1-63)
Probab=22.26  E-value=43  Score=14.23  Aligned_cols=37  Identities=11%  Similarity=0.263  Sum_probs=25.4

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCC--CCCCCCCCHHHHHHH
Q ss_conf             6773333889999999998329--989998897899999
Q gi|254780520|r   17 SKSKKTLGQDAFLKLLITQIKH--QDPTEPMKASEQVAQ   53 (131)
Q Consensus        17 ~~~~~~l~~d~FLkLL~aQL~n--QDP~~P~d~~e~isQ   53 (131)
                      +....+|.+.+|-+||-.||.+  +.|-+|-.-.+++..
T Consensus        19 aG~~~tLsk~Elk~Ll~~El~~fl~~~~d~~~vd~~m~~   57 (63)
T 1a4p_A           19 AGDKGYLTKEDLRVLMEKEFPGFLENQKDPLAVDKIMKD   57 (63)
T ss_dssp             HGGGCSBCHHHHHHHHHHHCHHHHHHSCCTTHHHHHHHH
T ss_pred             CCCCCEEEHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHH
T ss_conf             699998709999999998342102233899999999999


Done!