Query         gi|254781072|ref|YP_003065485.1| hypothetical protein CLIBASIA_04870 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 190
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 23785
Date          Wed Jun  1 00:24:46 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781072.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2gsv_A Hypothetical protein YV  80.9     2.1 8.8E-05   22.4   4.7   48   89-140    26-73  (80)
  2 2kp7_A Crossover junction endo  26.2      31  0.0013   14.4   5.3   71   25-98      6-83  (87)
  3 2asw_A Hypothetical protein AF  26.1      31  0.0013   14.4   2.2   50   93-142     5-56  (56)
  4 3lb6_A Interleukin-13, IL-13;   16.1      49  0.0021   13.0   2.0   17  135-151    27-43  (132)
  5 3bpo_A Interleukin 13; IL4, IL  15.4      51  0.0021   12.9   2.1   11   90-100    97-107 (127)
  6 2cpg_A REPA protein, transcrip  14.6      53  0.0022   12.7   3.2   27   98-135    15-41  (45)
  7 1e8o_B SRP14, signal recogniti  12.8      60  0.0025   12.4   2.1   18   33-50      4-21  (106)
  8 1u84_A Hypothetical protein; s  11.1      68  0.0028   12.0   2.5   59  100-163    16-76  (90)
  9 1q1v_A DEK protein; winged-hel  11.0      68  0.0029   12.0   2.5   18  130-147    51-68  (70)
 10 1jy2_P Fibrinogen gamma-B chai  10.0      65  0.0027   12.2   0.6   19    9-27      4-22  (48)

No 1  
>2gsv_A Hypothetical protein YVFG; alpha-helical protein, structural genomics, PSI, protein structure initiative; 1.90A {Bacillus subtilis} SCOP: a.23.7.1 PDB: 2js1_A
Probab=80.86  E-value=2.1  Score=22.44  Aligned_cols=48  Identities=33%  Similarity=0.531  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHEEHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999951567102019999999999999888999999999
Q gi|254781072|r   89 YFKALTKYYKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIREL  140 (190)
Q Consensus        89 yfkaltkyyksvvaelrefglgksaieieeitkavdtltrayneykkeirel  140 (190)
                      -..|+..||+|||..|-.-.|.|.|.-|..    ...|..|||.-++|-..|
T Consensus        26 KIhAmNaYYrsVvstlvqDqltKNA~vlkR----iqHLdEAYqKVk~ee~~~   73 (80)
T 2gsv_A           26 KIHAMNSYYRSVVSTLVQDQLTKNAVVLKR----IQHLDEAYNKVKRGESKL   73 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSSCHHHHHHH----HHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999999730799999----999999999998888754


No 2  
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=26.22  E-value=31  Score=14.40  Aligned_cols=71  Identities=17%  Similarity=0.031  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             222044444399999999999999998776666554455533----11---36978634655465687889999999999
Q gi|254781072|r   25 QIRSKESVINKEFVTKVEELYEKAQKAHKKRDKVYGAYDKVS----SH---KKSPKELSKAFYIDFRTELKYFKALTKYY   97 (190)
Q Consensus        25 qirskesvinkefvtkveelyekaqkahkkrdkvygaydkvs----sh---kkspkelskafyidfrtelkyfkaltkyy   97 (190)
                      ++|.--|-.|..|+.-++++.+.++.-.   ++..-+|.+.-    ++   -.|++++..-=.|.-+.--+.-.-|.+|+
T Consensus         6 ~~r~~Ps~~N~lfi~~L~e~~~~~~~k~---~k~~~aY~kA~~sLk~~p~~I~s~~~l~~l~GIG~~i~~ki~e~L~~yc   82 (87)
T 2kp7_A            6 SVRPLPVCPNPLFVRWLTEWRDEAASRG---RHTRFVFQKALRSLQRYPLPLRSGKEAKILQHFGDRLCRMLDEKLKQHL   82 (87)
T ss_dssp             --CCCCCSCCCHHHHHHHHHHHHHHHHT---CTTHHHHHHHHHHHHHCCSCCCSHHHHHTCTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             8899999988999999999999998707---3579999999999997899888899997279977899999999999999


Q ss_pred             H
Q ss_conf             9
Q gi|254781072|r   98 K   98 (190)
Q Consensus        98 k   98 (190)
                      +
T Consensus        83 ~   83 (87)
T 2kp7_A           83 A   83 (87)
T ss_dssp             H
T ss_pred             H
T ss_conf             8


No 3  
>2asw_A Hypothetical protein AF1503; homodimer, parallel coiled-coil, complementary X-DA packing, unknown function; NMR {Archaeoglobus fulgidus} SCOP: a.274.1.1 PDB: 2asx_A
Probab=26.10  E-value=31  Score=14.40  Aligned_cols=50  Identities=10%  Similarity=0.248  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHCCCCCHHEEHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999515671020199999--9999999988899999999999
Q gi|254781072|r   93 LTKYYKSVVAELREFGLGKSAIEIEEIT--KAVDTLTRAYNEYKKEIRELIE  142 (190)
Q Consensus        93 ltkyyksvvaelrefglgksaieieeit--kavdtltrayneykkeirelie  142 (190)
                      +++--..+....++.+-|.-...+.+..  .-+..|.+++|.....++++|+
T Consensus         5 I~~Pl~~l~~~~~~i~~Gd~~~~i~~~~~~dEig~La~~fn~M~~~l~~~ie   56 (56)
T 2asw_A            5 ITRPIIELSNTADKIAEGNLEAEVPHQNRADEIGILAKSIERLRRSLKVAME   56 (56)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTCCCTTTTCCSHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             9999999999999998799988379899965999999999999999999739


No 4  
>3lb6_A Interleukin-13, IL-13; cytokine, decoy, decoy receptor, glycoprotein; HET: MLY NAG; 3.05A {Homo sapiens} PDB: 3lb6_B*
Probab=16.14  E-value=49  Score=12.99  Aligned_cols=17  Identities=41%  Similarity=0.714  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHCHHC
Q ss_conf             99999999999712102
Q gi|254781072|r  135 KEIRELIEEFIELGFDQ  151 (190)
Q Consensus       135 keirelieefielgfdq  151 (190)
                      ++.+|||||...+.-+|
T Consensus        27 ~aLkELIeeLvnitqnq   43 (132)
T 3lb6_A           27 TALRELIEELVNITQNQ   43 (132)
T ss_dssp             HHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHCCCCC
T ss_conf             88999999998606556


No 5  
>3bpo_A Interleukin 13; IL4, IL13, IL4R, IL13R, cytokine, alternative splicing, glycoprotein, immune response, membrane; HET: NAG; 3.00A {Homo sapiens} PDB: 1ijz_A 1ik0_A 3g6d_A 3l5w_I 3l5x_A* 3l5y_A 1ga3_A
Probab=15.39  E-value=51  Score=12.86  Aligned_cols=11  Identities=27%  Similarity=0.199  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999999
Q gi|254781072|r   90 FKALTKYYKSV  100 (190)
Q Consensus        90 fkaltkyyksv  100 (190)
                      .|.|-.|++.+
T Consensus        97 vK~LL~~~r~~  107 (127)
T 3bpo_A           97 VKDLLLHLKKL  107 (127)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 6  
>2cpg_A REPA protein, transcriptional repressor COPG; DNA-binding protein, plasmid, gene regulation; 1.60A {Streptococcus agalactiae} SCOP: a.43.1.3 PDB: 1b01_A* 1ea4_A*
Probab=14.64  E-value=53  Score=12.73  Aligned_cols=27  Identities=41%  Similarity=0.621  Sum_probs=16.6

Q ss_pred             HHHHHHHHHCCCCCHHEEHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999515671020199999999999998889999
Q gi|254781072|r   98 KSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKK  135 (190)
Q Consensus        98 ksvvaelrefglgksaieieeitkavdtltrayneykk  135 (190)
                      +..----+|-||.|||+           ++-|..+|++
T Consensus        15 ~~L~~~akekGlSKSal-----------ltvALe~y~k   41 (45)
T 2cpg_A           15 ENLEKMAREMGLSKSAM-----------ISVALENYKK   41 (45)
T ss_dssp             HHHHHHHHHHTCCHHHH-----------HHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHH-----------HHHHHHHHHH
T ss_conf             99999999748519999-----------9999999872


No 7  
>1e8o_B SRP14, signal recognition particle 14 kDa protein; ALU ribonucleoprotein particle, protein recognition of AN RNA U-turn, translational control; HET: GDP; 3.20A {Homo sapiens} SCOP: d.49.1.1 PDB: 1e8s_B 1ry1_D*
Probab=12.83  E-value=60  Score=12.39  Aligned_cols=18  Identities=22%  Similarity=0.589  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             439999999999999999
Q gi|254781072|r   33 INKEFVTKVEELYEKAQK   50 (190)
Q Consensus        33 inkefvtkveelyekaqk   50 (190)
                      -|.+|.+++.+||+++..
T Consensus         4 ~nd~FL~~Lt~Lf~~~k~   21 (106)
T 1e8o_B            4 ESEQFLTELTRLFQKCRT   21 (106)
T ss_dssp             CHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHCCC
T ss_conf             738999999999985676


No 8  
>1u84_A Hypothetical protein; structural genomics, protein structure initiative, MCSG, PSI midwest center for structural genomics; 1.60A {Geobacillus stearothermophilus} SCOP: a.230.1.1
Probab=11.07  E-value=68  Score=12.02  Aligned_cols=59  Identities=24%  Similarity=0.345  Sum_probs=38.5

Q ss_pred             HHHHHHHCCCCCHHEE--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHCCCCCCCHHHHHH
Q ss_conf             9999995156710201--999999999999988899999999999999712102330101246788
Q gi|254781072|r  100 VVAELREFGLGKSAIE--IEEITKAVDTLTRAYNEYKKEIRELIEEFIELGFDQCDECDLCSEKAD  163 (190)
Q Consensus       100 vvaelrefglgksaie--ieeitkavdtltrayneykkeirelieefielgfdqcdecdlcsekad  163 (190)
                      .++..--||+|...-+  +.+|..||-...     --+++-+-|....+..|+++---.-|-+.|.
T Consensus        16 ~i~~WDPf~~G~d~YetE~~dvv~av~~~d-----d~~~LA~~IQ~Iye~SFee~~P~e~C~k~A~   76 (90)
T 1u84_A           16 WIGAWDPFGLGKDAYDVEAASVLQAVYETE-----DARTLAARIQSIYEFAFDEPIPFPHCLKLAR   76 (90)
T ss_dssp             HHHHHCTTSSCGGGGHHHHHHHHHHHTTCS-----CHHHHHHHHHHHHHHHHSSCCCHHHHHHHHH
T ss_pred             HHHCCCCCCCCCCCCCHHHHHHHHHHHHCC-----CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             998069877897645437999999999418-----8899999999999987413476899999999


No 9  
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=11.01  E-value=68  Score=12.00  Aligned_cols=18  Identities=33%  Similarity=0.473  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             889999999999999971
Q gi|254781072|r  130 YNEYKKEIRELIEEFIEL  147 (190)
Q Consensus       130 yneykkeirelieefiel  147 (190)
                      ..++|..|+++|++|+-+
T Consensus        51 Ls~rK~~I~~~I~~~Ls~   68 (70)
T 1q1v_A           51 LTERKDFIKTTVKELISL   68 (70)
T ss_dssp             CSHHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHHHHC
T ss_conf             388999999999999844


No 10 
>1jy2_P Fibrinogen gamma-B chain; fragment E, disulfide bonds, asymmetry, coiled- coil, beta-sheet, blood clotting; 1.40A {Bos taurus} SCOP: h.1.8.1 PDB: 1jy3_P 2a45_I*
Probab=10.05  E-value=65  Score=12.15  Aligned_cols=19  Identities=32%  Similarity=0.541  Sum_probs=13.4

Q ss_pred             CCCCCCCCCCHHHHHHHHH
Q ss_conf             7751218620000234222
Q gi|254781072|r    9 NNDTSKIPDAKFGSFLQIR   27 (190)
Q Consensus         9 nndtskipdakfgsflqir   27 (190)
                      +.|.--|||..||||-.-.
T Consensus         4 t~~ncCild~rFGsYCPTT   22 (48)
T 1jy2_P            4 TRDNCCILDERFGSYCPTT   22 (48)
T ss_dssp             -CCSSCCSBTTTBCEEECH
T ss_pred             CCCCCCCCCCCCCCCCCCC
T ss_conf             6465414751013769851


Done!