Query         gi|254781213|ref|YP_003065626.1| head-to-tail joining protein, putative [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 556
No_of_seqs    167 out of 535
Neff          7.6 
Searched_HMMs 13730
Date          Wed Jun  1 12:06:41 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781213.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 d1vgya1 c.56.5.4 (A:2-180,A:29  38.4     5.4 0.00039   15.6   1.2   56  253-308    77-132 (262)
  2 d1yt3a2 a.60.8.3 (A:295-375) R  32.1      11 0.00077   13.8   3.9   30  479-508    16-45  (81)
  3 d2p06a1 a.204.1.3 (A:1-84) Hyp  17.2      20  0.0015   11.9   4.9   27   50-76      7-36  (84)
  4 d1dvka_ a.72.1.1 (A:) Function  16.1      22  0.0016   11.7   4.3   38   99-140    81-118 (169)
  5 d1x4pa1 a.217.1.1 (A:8-60) Arg  13.1      24  0.0018   11.4   0.5   29  183-211     4-32  (53)
  6 g1q7l.1 c.56.5.4 (A:,B:) Amino  12.8      26  0.0019   11.2   1.2   28  265-292    96-123 (280)
  7 d1uala_ c.116.1.4 (A:) tRNA(m1  12.4      13 0.00091   13.3  -1.2   42  120-174    12-53  (252)
  8 d1sb0a_ a.12.1.1 (A:) Kix doma  10.1      32  0.0024   10.6   5.4   62   44-120     4-66  (87)
  9 d2diia1 a.240.1.1 (A:8-55) TFI   9.0      35  0.0026   10.3   1.9   15  119-133    19-33  (48)
 10 d2cqqa1 a.4.1.3 (A:8-66) DnaJ    8.8      30  0.0022   10.8  -0.3   25  261-287    26-50  (59)

No 1  
>d1vgya1 c.56.5.4 (A:2-180,A:294-376) Succinyl-diaminopimelate desuccinylase, catalytic domain {Neisseria meningitidis [TaxId: 487]}
Probab=38.37  E-value=5.4  Score=15.65  Aligned_cols=56  Identities=13%  Similarity=-0.009  Sum_probs=32.7

Q ss_pred             CCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECC
Q ss_conf             65874555114148721020269975889999999999999999975198689327
Q gi|254781213|r  253 ATFPYIVGRYRVRADEIYGRSPAMEALPTIRRLNETVNELAQFGRLSLHPPTIAVS  308 (556)
Q Consensus       253 ~e~P~~~~Rw~~~~ge~YGrgp~~~aL~D~k~Ln~l~~~~l~~~~~~~~p~~~v~~  308 (556)
                      ..|++-++.....+|-.||||-+..--+-.-+|..+............+..++...
T Consensus        77 ~~w~~~p~~~~~~dg~iyGrGa~D~Kg~~a~~l~a~~~l~~~~~~~~~~~~l~~~~  132 (262)
T d1vgya1          77 EKWDSPPFEPAERDGRLYGRGAADMKTSIACFVTACERFVAKHPNHQGSIALLITS  132 (262)
T ss_dssp             GGSSSCTTSCEEETTEEESTTTTTTHHHHHHHHHHHHHHHHHCTTCSSEEEEEEES
T ss_pred             CCCCCCCCCCEEECCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEE
T ss_conf             34334666629981745750441466347999999999997364678875999996


No 2  
>d1yt3a2 a.60.8.3 (A:295-375) Ribonuclease D {Escherichia coli [TaxId: 562]}
Probab=32.13  E-value=11  Score=13.76  Aligned_cols=30  Identities=7%  Similarity=0.034  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHCCCCHHHCCCHHHHHHHHH
Q ss_conf             899999999970998546199899999999
Q gi|254781213|r  479 TDRVSRFSLWATNTPAVLIRDTAEVEDIRQ  508 (556)
Q Consensus       479 ~d~~~~~~a~~~Gvp~~~~r~~eev~~~rq  508 (556)
                      ...+++..|+.+|||++++-+..++.++-.
T Consensus        16 lk~~v~~~Ae~~~IapelLaskkdle~ll~   45 (81)
T d1yt3a2          16 IKSLITDVSETHKISAELLASRRQINQLLN   45 (81)
T ss_dssp             HHHHHHHHHHHHTCCHHHHCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHCCHHHHHHHHH
T ss_conf             999999999883999999438999999999


No 3  
>d2p06a1 a.204.1.3 (A:1-84) Hypothetical protein AF0060 {Archaeoglobus fulgidus [TaxId: 2234]}
Probab=17.17  E-value=20  Score=11.92  Aligned_cols=27  Identities=11%  Similarity=0.385  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHCCCCC---CCCEEEE
Q ss_conf             79999999999876418878---8760111
Q gi|254781213|r   50 GSEACIKLSSLLSSLITPPG---QKWHGLA   76 (556)
Q Consensus        50 ~~~a~~~lAs~L~~~ltPp~---~~WF~l~   76 (556)
                      +-.-++...++.|--..-|+   +|||.+.
T Consensus         7 aekflremhakymkrvsrpgntprpwfdfs   36 (84)
T d2p06a1           7 AEKFLREMHAKYMKRVSRPGNTPRPWFDFS   36 (84)
T ss_dssp             HHHHHHHHHHHHHHHHTSTTCCSCHHHHSC
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             999999999999987069999999754552


No 4  
>d1dvka_ a.72.1.1 (A:) Functional domain of the splicing factor Prp18 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=16.07  E-value=22  Score=11.75  Aligned_cols=38  Identities=8%  Similarity=0.103  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHEEC
Q ss_conf             999999999987502314738899999999875410332221
Q gi|254781213|r   99 WCDQVTDTLFGFRERSRSGFVGCLQSFYTSVVEFGTGCFYME  140 (556)
Q Consensus        99 ~L~~v~~~i~~~~~~~~snf~~~~~e~~~dL~~~Gta~l~i~  140 (556)
                      -|..+..+|+.   ......|...+.+|++|. +|||+.=|+
T Consensus        81 il~~L~~Iv~~---~~~~r~y~~A~d~Yl~La-IGNA~WPIG  118 (169)
T d1dvka_          81 LLISLATVLYH---LQQPKEINLAVQSYMKLS-IGNVAWPIG  118 (169)
T ss_dssp             HHHHHHHHHHH---HTSGGGHHHHHHHHHHHH-HTBCCCCSC
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHHHHHHHHH-CCCCCCCCC
T ss_conf             99999999999---986500889999999987-057887633


No 5  
>d1x4pa1 a.217.1.1 (A:8-60) Arginine/serine-rich-splicing factor 14 {Human (Homo sapiens) [TaxId: 9606]}
Probab=13.07  E-value=24  Score=11.40  Aligned_cols=29  Identities=28%  Similarity=0.368  Sum_probs=15.7

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHCCCCCCCE
Q ss_conf             77866631522357256654103555715
Q gi|254781213|r  183 VDQIVSKWGDKVLSSKMKSALARNENERF  211 (556)
Q Consensus       183 ~~ql~~~fg~~~l~~~~~~~~~~~~~~~~  211 (556)
                      ..|++...-...+|.+-+...+++|.-+|
T Consensus         4 IeqlV~~ii~G~LspkeR~~~k~~P~yWF   32 (53)
T d1x4pa1           4 IDQLVKRVIEGSLSPKERTLLKEDPAYWF   32 (53)
T ss_dssp             HHHHHHHHHHTCSCHHHHHHHHHSGGGCT
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHCCCCEEE
T ss_conf             99999999837788888888643987388


No 6  
>g1q7l.1 c.56.5.4 (A:,B:) Aminoacylase-1, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=12.79  E-value=26  Score=11.17  Aligned_cols=28  Identities=18%  Similarity=0.115  Sum_probs=21.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4872102026997588999999999999
Q gi|254781213|r  265 RADEIYGRSPAMEALPTIRRLNETVNEL  292 (556)
Q Consensus       265 ~~ge~YGrgp~~~aL~D~k~Ln~l~~~~  292 (556)
                      .+|-+||||-+.+--+-.-.|..+....
T Consensus        96 ~dg~iyGRGa~D~K~~~~~~l~a~~~l~  123 (280)
T g1q7l.1          96 SEGYIYARGAQDMKCVSIQYLEAVRRLK  123 (280)
T ss_dssp             TTSEEECTTTTTTHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             2342125665555403789999999999


No 7  
>d1uala_ c.116.1.4 (A:) tRNA(m1G37)-methyltransferase TrmD {Haemophilus influenzae [TaxId: 727]}
Probab=12.37  E-value=13  Score=13.27  Aligned_cols=42  Identities=10%  Similarity=-0.011  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHEECCCCCCCCCCCCEEEEEEEHHHEEEEECCCCCEEE
Q ss_conf             8999999998754103322216766654446605888655446661089888715
Q gi|254781213|r  120 GCLQSFYTSVVEFGTGCFYMEADVDEKGLEEGIRYISVPLSNVYMSVNHQNVVDS  174 (556)
Q Consensus       120 ~~~~e~~~dL~~~Gta~l~i~~d~~~~~~~~~~rf~~~pl~~~~i~~d~~G~vd~  174 (556)
                      .++++.+++..+.|-|+-           ++.+.+.++.+-+|.  .|.+++||.
T Consensus        12 Pe~f~~~l~~sIigrA~~-----------~~lv~i~~~nlRdfs--~dkhr~VDD   53 (252)
T d1uala_          12 PEMFKAITEFGVTGRAVK-----------HNLLKVECWNPRDFT--FDKHKTVDD   53 (252)
T ss_dssp             GGGGHHHHSSHHHHHHHH-----------TTSEEEEEECGGGGC--CSTTCCCEE
T ss_pred             HHHHHHHHHCCHHHHHHH-----------CCCEEEEEECHHHHC--CCCCCCCCC
T ss_conf             464011222438999998-----------796699998816617--898867277


No 8  
>d1sb0a_ a.12.1.1 (A:) Kix domain of CBP (creb binding protein) {Mouse (Mus musculus) [TaxId: 10090]}
Probab=10.07  E-value=32  Score=10.60  Aligned_cols=62  Identities=16%  Similarity=0.272  Sum_probs=35.7

Q ss_pred             CCCCCHHHHH-HHHHHHHHHHHCCCCCCCCEEEEECCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHH
Q ss_conf             7525427999-9999999876418878876011108114444202322334899999999999999875023147388
Q gi|254781213|r   44 RMWDTTGSEA-CIKLSSLLSSLITPPGQKWHGLAESFSAYQAFLYKEDARSKKVREWCDQVTDTLFGFRERSRSGFVG  120 (556)
Q Consensus        44 ~i~dst~~~a-~~~lAs~L~~~ltPp~~~WF~l~~~~~~~~~~~~~~~~~~~ev~~~L~~v~~~i~~~~~~~~snf~~  120 (556)
                      +-|-++-+.. -+.|.-+|.+++||+..|--        +      -+..-.....+...||.-+|.- +.+++.+|.
T Consensus         4 ~~wh~~Vt~~lRnhlV~KLv~aIfP~pdp~a--------~------~D~RM~~L~~YarkvE~~~ye~-a~sr~EYY~   66 (87)
T d1sb0a_           4 KGWHEHVTQDLRSHLVHKLVQAIFPTPDPAA--------L------KDRRMENLVAYAKKVEGDMYES-ANSRDEYYH   66 (87)
T ss_dssp             STTGGGCCHHHHHHHHHHHHHHHSCCSCGGG--------G------GSHHHHHHHHHHHHHHHHHHHH-CSSHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHCCCCCHHH--------H------HHHHHHHHHHHHHHHHHHHHHH-HCCHHHHHH
T ss_conf             1788882499999999999987569998577--------7------0788999999999999999998-736999999


No 9  
>d2diia1 a.240.1.1 (A:8-55) TFIIH basal transcription factor complex p62 subunit, BTF2 {Human (Homo sapiens) [TaxId: 9606]}
Probab=9.02  E-value=35  Score=10.34  Aligned_cols=15  Identities=20%  Similarity=0.157  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             889999999987541
Q gi|254781213|r  119 VGCLQSFYTSVVEFG  133 (556)
Q Consensus       119 ~~~~~e~~~dL~~~G  133 (556)
                      ...+++.|+||++.|
T Consensus        19 np~L~qLYkdLVvs~   33 (48)
T d2diia1          19 DPVLFQLYKDLVVSQ   33 (48)
T ss_dssp             CHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHHHHC
T ss_conf             989999999999953


No 10 
>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=8.78  E-value=30  Score=10.85  Aligned_cols=25  Identities=28%  Similarity=0.508  Sum_probs=0.0

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             114148721020269975889999999
Q gi|254781213|r  261 RYRVRADEIYGRSPAMEALPTIRRLNE  287 (556)
Q Consensus       261 Rw~~~~ge~YGrgp~~~aL~D~k~Ln~  287 (556)
                      ||.+++..+ ||++ .+++--.|.|..
T Consensus        26 RW~~IA~~v-gkt~-~ev~~~~k~l~e   50 (59)
T d2cqqa1          26 RWEKIAHEL-GRSV-TDVTTKAKQLKD   50 (59)
T ss_dssp             HHHHHHHHH-TSCH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHH-CCCH-HHHHHHHHHHHH
T ss_conf             999999998-9799-999999999998


Done!