Query         gi|254781209|ref|YP_003065622.1| hypothetical protein CLIBASIA_05580 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 175
No_of_seqs    109 out of 402
Neff          7.9 
Searched_HMMs 13730
Date          Wed Jun  1 11:48:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781209.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 d2joza1 b.60.1.1 (A:2-127) Hyp   4.8      76  0.0055   10.1   2.7   30   64-93     49-78  (126)
  2 d3bzka5 c.55.3.13 (A:325-473)    4.1      91  0.0067    9.7   1.2   25  112-138   111-135 (149)
  3 d1jlia_ a.26.1.2 (A:) Interleu   4.0      92  0.0067    9.7   3.3   42    5-46      5-47  (112)
  4 d1p2za2 b.121.2.2 (A:651-962)    3.6 1.1E+02  0.0077    9.3   1.2   14   47-60     41-54  (312)
  5 d1wxxa1 b.122.1.9 (A:1-64) Hyp   3.5 1.1E+02  0.0079    9.2   0.6   16   41-56     11-26  (64)
  6 d1k3ia1 b.1.18.2 (A:538-639) G   3.4 1.1E+02  0.0081    9.2   1.3   30   46-76     43-72  (102)
  7 d2fpna1 d.129.10.1 (A:1-214) H   3.2 1.2E+02   0.009    8.9   2.2  114   39-156    11-152 (214)
  8 d1k8ib2 d.19.1.1 (B:1-94) Clas   3.2 1.2E+02   0.009    8.9   4.5   36  124-159    48-83  (94)
  9 d1rp3a3 a.177.1.1 (A:0-86) Sig   3.0 1.3E+02  0.0095    8.8   3.7   43  125-167    22-64  (87)
 10 d1m0sa1 c.124.1.4 (A:1-126,A:1   3.0 1.3E+02  0.0095    8.8   2.7   35    1-35      1-39  (147)

No 1  
>d2joza1 b.60.1.1 (A:2-127) Hypothetical protein YxeF {Bacillus subtilis [TaxId: 1423]}
Probab=4.83  E-value=76  Score=10.15  Aligned_cols=30  Identities=17%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             CCCCCEEEECCCCCEEEEECCCCCCCCCCE
Q ss_conf             767650465485500023204566312312
Q gi|254781209|r   64 TYNGELKYYIPLKCLKVLNTSEETQLRGRC   93 (175)
Q Consensus        64 ~~~~~~~y~lP~D~lrv~~v~~~~~~~~~~   93 (175)
                      .-......++|.+..+|+..+.++.++-..
T Consensus        49 v~~grgev~~p~~~ykvisq~tdgsiei~y   78 (126)
T d2joza1          49 VMEGRGEVQLPFMAYKVISQSTDGSIEIQY   78 (126)
T ss_dssp             EETTTEEEECCCEEEEEEECCSSSEEEEEE
T ss_pred             HHCCCCEEECHHHHHHHHHCCCCCEEEEEE
T ss_conf             550674040504656640026887188897


No 2  
>d3bzka5 c.55.3.13 (A:325-473) Transcriptional accessory factor Tex {Pseudomonas aeruginosa [TaxId: 287]}
Probab=4.05  E-value=91  Score=9.68  Aligned_cols=25  Identities=24%  Similarity=0.305  Sum_probs=17.2

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             786675599999999999999957752
Q gi|254781209|r  112 VPLSDCDPLYQEAFALKLAGELCPPLI  138 (175)
Q Consensus       112 ~~~~~~p~~f~~~i~~~lA~~~A~~it  138 (175)
                      .+|.++|+.++.+|+  +|+.+..|+.
T Consensus       111 ~EfP~~~~~~R~AVs--iaRrlQdPL~  135 (149)
T d3bzka5         111 KEFPELDVSLRGAVS--IARRLQDPLA  135 (149)
T ss_dssp             HHCTTSCHHHHHHHH--HHHHHHCHHH
T ss_pred             HHCCCCCHHHHHHHH--HHHHHHCHHH
T ss_conf             877899863747788--8997558799


No 3  
>d1jlia_ a.26.1.2 (A:) Interleukin-3 (IL-3) {Human (Homo sapiens) [TaxId: 9606]}
Probab=4.04  E-value=92  Score=9.67  Aligned_cols=42  Identities=14%  Similarity=0.105  Sum_probs=27.0

Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCHHH-HHHHHHHHHHHHHHHHH
Q ss_conf             9999999971821124336889789-99999967999988640
Q gi|254781209|r    5 EICNWALLKLGQRPLENWNERSLKA-DYCRLLLPPIHKGLLRS   46 (175)
Q Consensus         5 ~i~N~aL~~iG~~~I~sl~e~t~~A-~~~~~~y~~~r~~~L~~   46 (175)
                      .+++-++.++.+.|..|.++++-.. .....+=...|+..|..
T Consensus         5 ~~~~EIi~~L~~pp~p~~~~~~lNs~dk~~L~~~~Lrr~NL~~   47 (112)
T d1jlia_           5 IMIDEIIHHLKRPPNPLLDPNNLNSEDMDILMERNLRTPNLLA   47 (112)
T ss_dssp             HHHHHHHHHSCCCCCCCCCSCCCCHHHHHHHHSSTTHHHHHHH
T ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHH
T ss_conf             8999999866899998778787673889999887524102999


No 4  
>d1p2za2 b.121.2.2 (A:651-962) Adenovirus hexon {Human adenovirus type 2 [TaxId: 10515]}
Probab=3.59  E-value=1.1e+02  Score=9.30  Aligned_cols=14  Identities=21%  Similarity=0.520  Sum_probs=9.0

Q ss_pred             CCCCCEEEEEECCC
Q ss_conf             47751111000034
Q gi|254781209|r   47 FSWSFATQSMDLLP   60 (175)
Q Consensus        47 ~~W~Fa~~r~~L~~   60 (175)
                      .||+|+.-++..+|
T Consensus        41 RGWSFtRlKa~ETP   54 (312)
T d1p2za2          41 RGWAFTRLKTKETP   54 (312)
T ss_dssp             CEEEEEEEEGGGCC
T ss_pred             CCCCEEEECCCCCC
T ss_conf             37332556033566


No 5  
>d1wxxa1 b.122.1.9 (A:1-64) Hypothetical protein TTHA1280, N-terminal domain {Thermus thermophilus [TaxId: 274]}
Probab=3.52  E-value=1.1e+02  Score=9.23  Aligned_cols=16  Identities=25%  Similarity=0.520  Sum_probs=11.8

Q ss_pred             HHHHHHCCCCCEEEEE
Q ss_conf             9886404775111100
Q gi|254781209|r   41 KGLLRSFSWSFATQSM   56 (175)
Q Consensus        41 ~~~L~~~~W~Fa~~r~   56 (175)
                      +.+++.|||=|.-.-.
T Consensus        11 ~rl~~gHPWVf~~~i~   26 (64)
T d1wxxa1          11 ARLLSRHLWVFRRDVV   26 (64)
T ss_dssp             HHHHTTCCEECGGGEE
T ss_pred             HHHHCCCCCCHHHHHH
T ss_conf             4766489610122441


No 6  
>d1k3ia1 b.1.18.2 (A:538-639) Galactose oxidase, C-terminal domain {Fungi (Fusarium sp.) [TaxId: 29916]}
Probab=3.44  E-value=1.1e+02  Score=9.17  Aligned_cols=30  Identities=7%  Similarity=0.083  Sum_probs=14.9

Q ss_pred             HCCCCCEEEEEECCCCCCCCCCCEEEECCCC
Q ss_conf             0477511110000345677676504654855
Q gi|254781209|r   46 SFSWSFATQSMDLLPLYFTYNGELKYYIPLK   76 (175)
Q Consensus        46 ~~~W~Fa~~r~~L~~~~~~~~~~~~y~lP~D   76 (175)
                      .|.+++..|+..|.- +...++.+....|.|
T Consensus        43 THs~~~~QR~v~L~~-~~~~~~~~~v~~P~~   72 (102)
T d1k3ia1          43 THTVNTDQRRIPLTL-TNNGGNSYSFQVPSD   72 (102)
T ss_dssp             ETTBCSSCCEEECCE-EEEETTEEEEECCSC
T ss_pred             CCCCCCCCCEEECEE-EECCCCEEEEECCCC
T ss_conf             406768877885505-853898899984999


No 7  
>d2fpna1 d.129.10.1 (A:1-214) Hypothetical protein YwmB {Bacillus subtilis [TaxId: 1423]}
Probab=3.18  E-value=1.2e+02  Score=8.92  Aligned_cols=114  Identities=14%  Similarity=0.136  Sum_probs=46.5

Q ss_pred             HHHHHHHHCCCCCEEEEEECCC-------------CCCCCCCCEEEECCCCCEE-EEECC--CCCCC-CCC-EEEECCCC
Q ss_conf             9998864047751111000034-------------5677676504654855000-23204--56631-231-25430478
Q gi|254781209|r   39 IHKGLLRSFSWSFATQSMDLLP-------------LYFTYNGELKYYIPLKCLK-VLNTS--EETQL-RGR-CIVARGDT  100 (175)
Q Consensus        39 ~r~~~L~~~~W~Fa~~r~~L~~-------------~~~~~~~~~~y~lP~D~lr-v~~v~--~~~~~-~~~-~~~~~~~~  100 (175)
                      .++.-..-..|.+.+|......             ..+.+.|.  + .+.++.. +...+  ..... +.- ...+...+
T Consensus        11 ~~~~~~~i~~Wt~~are~~~~s~~~~~~k~~~l~~~~~~~~w~--~-~~~~~~~k~~g~~t~~~~~~~~~i~~v~t~~~~   87 (214)
T d2fpna1          11 MERQDVSIDKWTLHAKQNLSLTEKEFYQKVQRLKQEYRQYDWV--I-AREDKMIKAIGTYTDKKNRTSFRLQLVTTLKKH   87 (214)
T ss_dssp             HHHTTEEEEEEEEEEEEEECCCHHHHHHHHHHHHHHCTTCEEE--E-ECCSSEEEEEEEEEETTTTEEEEEEEEEESSCS
T ss_pred             HHHCCCEEEEEEEEEEEEEEECCHHHHHHHHHHHHHCCCCEEE--E-CCCCCCEEEEEEEECCCCCEEEEEEEEEEECCC
T ss_conf             9864846877676545437626388999999997555452424--4-135671278877754887403689999974279


Q ss_pred             CCEEEEEEEEC-CCH-HHHHHHHHHHHHHHHHHHHH------HHHCC--CHHHHHHHHHHHHHHHH
Q ss_conf             77089999971-786-67559999999999999995------77529--68999999999999999
Q gi|254781209|r  101 PRPLSLKYIGE-VPL-SDCDPLYQEAFALKLAGELC------PPLIM--DDQMRSYLKGESERVLA  156 (175)
Q Consensus       101 ~~~~~~~yv~~-~~~-~~~p~~f~~~i~~~lA~~~A------~~itg--~~~l~~~l~q~~~~~l~  156 (175)
                      ....|+-|-.. ..+ +.|..... -+..++...|.      .-|+|  ++.+...+.+.....+.
T Consensus        88 ~~~syllye~~g~~~~~~~~~~~~-~~~r~~~~lf~~~p~i~tci~G~~~~kl~~~l~~~~~~~l~  152 (214)
T d2fpna1          88 NPTSYLLYEQMSLETPDSWNDTYE-QFERETLGIFQEKVVIFTCLNGHLDDNMNIVLQKKANQLLN  152 (214)
T ss_dssp             SCCEEEEEEEEESSCCSCHHHHHH-HHHHHHHHHHSSCCCEEEEEEEEECCCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEEECCCCCHHHHHHHHH-HHHHHHHHHHCCCCEEEEEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             961899999548894177789999-99999877743895499999888577422799999999999


No 8  
>d1k8ib2 d.19.1.1 (B:1-94) Class II MHC beta chain, N-terminal domain {Mouse (Mus musculus), H2-DM [TaxId: 10090]}
Probab=3.16  E-value=1.2e+02  Score=8.90  Aligned_cols=36  Identities=11%  Similarity=0.050  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999957752968999999999999999999
Q gi|254781209|r  124 AFALKLAGELCPPLIMDDQMRSYLKGESERVLAVAM  159 (175)
Q Consensus       124 ~i~~~lA~~~A~~itg~~~l~~~l~q~~~~~l~~A~  159 (175)
                      -+-+.+|..++.-+-.+.++.|.+++.-+..-..++
T Consensus        48 g~L~~~A~~is~~LN~~~~lvqRl~~glq~C~~htq   83 (94)
T d1k8ib2          48 GVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQ   83 (94)
T ss_dssp             STTHHHHHHHHHHHHTCHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             889999999999974670899999865777899888


No 9  
>d1rp3a3 a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]}
Probab=3.02  E-value=1.3e+02  Score=8.76  Aligned_cols=43  Identities=9%  Similarity=0.062  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9999999995775296899999999999999999983221787
Q gi|254781209|r  125 FALKLAGELCPPLIMDDQMRSYLKGESERVLAVAMDMDGVEIP  167 (175)
Q Consensus       125 i~~~lA~~~A~~itg~~~l~~~l~q~~~~~l~~A~~~Da~q~~  167 (175)
                      ++.+.|.++...+..+-+..+..+......+..+..+|...+.
T Consensus        22 LV~~ia~~~~~~~~~~~e~eDL~q~G~igL~~A~~~yd~~~g~   64 (87)
T d1rp3a3          22 LVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPK   64 (87)
T ss_dssp             HHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTH
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             9999999986658899988999989999999999964877899


No 10 
>d1m0sa1 c.124.1.4 (A:1-126,A:199-219) D-ribose-5-phosphate isomerase (RpiA), catalytic domain {Haemophilus influenzae [TaxId: 727]}
Probab=3.02  E-value=1.3e+02  Score=8.76  Aligned_cols=35  Identities=20%  Similarity=0.136  Sum_probs=0.0

Q ss_pred             CCHHH----HHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             98899----999999971821124336889789999999
Q gi|254781209|r    1 MTELE----ICNWALLKLGQRPLENWNERSLKADYCRLL   35 (175)
Q Consensus         1 ~T~l~----i~N~aL~~iG~~~I~sl~e~t~~A~~~~~~   35 (175)
                      |++++    |+-.|+.+|.+..+--|+.||.....++.+
T Consensus         1 m~~~e~K~~IA~~A~~lI~dg~~I~LdsGTT~~~la~~L   39 (147)
T d1m0sa1           1 MNQLEMKKLAAQAALQYVKADRIVGVGSGSTVNCFIEAL   39 (147)
T ss_dssp             CCHHHHHHHHHHHHGGGCCTTSEEEECCSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHH
T ss_conf             986999999999999768999999988863699999998


Done!