Query         gi|254780452|ref|YP_003064865.1| hypothetical protein CLIBASIA_01685 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 259
No_of_seqs    135 out of 1134
Neff          7.3 
Searched_HMMs 33803
Date          Wed Jun  1 13:02:20 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780452.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >1pfi_A Major coat protein of   31.5      25 0.00074   13.4   2.8   26  159-184    15-40  (46)
  2 >2v50_A Multidrug resistance p  24.2      33 0.00099   12.6  11.7   46   15-60     17-62  (248)
  3 >2j3t_D Trafficking protein pa  23.4      25 0.00073   13.5   0.5   16   22-37      2-17  (58)
  4 >3i28_A Epoxide hydrolase 2; a  21.1      36  0.0011   12.4   1.0   31    7-37     19-49  (117)
  5 >1jce_A ROD shape-determining   16.1      42  0.0012   12.0   0.4   20   18-37      2-21  (75)
  6 >3cue_A Transport protein part  15.2      53  0.0016   11.3   2.4   21   17-37    167-187 (219)
  7 >2j8s_A ACRB, acriflavine resi  14.9      53  0.0016   11.3  12.2   47   17-63     19-65  (251)
  8 >3gia_A Uncharacterized protei   9.7      78  0.0023   10.2  14.9   17  193-209   404-420 (444)
  9 >2job_A Antilipopolysaccharide   8.7      85  0.0025   10.0   2.1   22   12-33     65-86  (102)
 10 >3bac_A DNA ligase; adenylatio   7.8      98  0.0029    9.6   1.2   19   19-37      4-22  (134)

No 1  
>>1pfi_A Major coat protein of PF1 virus; complex(viral coat protein/DNA), helical virus; HET: DC; 3.00A {Pseudomonas phage PF1} (A:)
Probab=31.53  E-value=25  Score=13.43  Aligned_cols=26  Identities=19%  Similarity=0.355  Sum_probs=21.1

Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             55555542035789999999999997
Q gi|254780452|r  159 TKRDLGPIGSFMIMGAFGLFLLSLVN  184 (259)
Q Consensus       159 tk~D~s~~g~~L~~~l~~lii~~i~~  184 (259)
                      -|-|.+..|++...++..+.+++++-
T Consensus        15 gk~dm~~iggyivgalvilavagliy   40 (46)
T 1pfi_A           15 GQGDMKAIGGYIVGALVILAVAGLIY   40 (46)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHCCHHHHHHHHHHHHHHHH
T ss_conf             85507763023999999999999999


No 2  
>>2v50_A Multidrug resistance protein MEXB; DDM, RND, membrane, detergent, transport, cell membrane, transmembrane, membrane protein; HET: LMT; 3.00A {Pseudomonas aeruginosa PA01} (A:505-566,A:867-1052)
Probab=24.18  E-value=33  Score=12.59  Aligned_cols=46  Identities=11%  Similarity=0.156  Sum_probs=30.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0024556699999999999999999999999999998545566655
Q gi|254780452|r   15 SGFGSTIDQGLRAYMIRVYNLMALGLGVTGIMSFLVNILATTVDPD   60 (259)
Q Consensus        15 ~~~~~~~d~~lr~Fi~kVY~~la~~L~iT~~~a~~~~~~~~~~~~~   60 (259)
                      .+....-+.+++..+||---.+.+-+++-++..+.....|.-+-|.
T Consensus        17 ~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~f~p~   62 (248)
T 2v50_A           17 LSTTHGYERGVASILKHRAPYLLIYVVIVAGMIWMFTRIPTAFLPD   62 (248)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHHHTSCBCSSCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEHHHCCCCCCCCC
T ss_conf             0134445567777653105456899886556400122287155885


No 3  
>>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate, transport, lipoprotein, ER-golgi transport, alternative splicing, golgi apparatus; HET: P1L; 2.4A {Homo sapiens} PDB: 2zmv_A 2jsn_A (D:162-219)
Probab=23.42  E-value=25  Score=13.46  Aligned_cols=16  Identities=13%  Similarity=0.615  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             6999999999999999
Q gi|254780452|r   22 DQGLRAYMIRVYNLMA   37 (259)
Q Consensus        22 d~~lr~Fi~kVY~~la   37 (259)
                      |+++|.|+++||.+-.
T Consensus         2 ~~~ir~~l~~vyelYv   17 (58)
T 2j3t_D            2 QAGIDSLLRKIYEIYS   17 (58)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH
T ss_conf             5779999999999999


No 4  
>>3i28_A Epoxide hydrolase 2; aromatic hydrocarbons catabolism, cytoplasm, detoxification, magnesium, metal-binding, peroxisome, polymorphism; HET: 34N; 1.95A {Homo sapiens} PDB: 1s8o_A* 1zd2_P* 1vj5_A* 1zd4_A* 1zd5_A* 3i1y_A* 1zd3_A* 1cqz_A 1cr6_A* 1ek1_A* 1ek2_A* (A:365-481)
Probab=21.08  E-value=36  Score=12.38  Aligned_cols=31  Identities=13%  Similarity=0.164  Sum_probs=21.8

Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4210232000245566999999999999999
Q gi|254780452|r    7 YQRVVNSGSGFGSTIDQGLRAYMIRVYNLMA   37 (259)
Q Consensus         7 ~~~~~~~~~~~~~~~d~~lr~Fi~kVY~~la   37 (259)
                      |+--.+..+...+..++++|+++++.|.--+
T Consensus        19 Y~~~Fq~pg~aea~~~~d~~~~l~~~~~~~s   49 (117)
T 3i28_A           19 YQLYFQEPGVAEAELEQNLSRTFKSLFRASD   49 (117)
T ss_dssp             HHHHHHSTTHHHHHHHHCHHHHHHHHSCCTT
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             2444136303566666569999999860365


No 5  
>>1jce_A ROD shape-determining protein MREB; MBL, actin, HSP-70, FTSZ, structural protein; 2.10A {Thermotoga maritima} (A:178-252)
Probab=16.13  E-value=42  Score=11.98  Aligned_cols=20  Identities=20%  Similarity=0.506  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             45566999999999999999
Q gi|254780452|r   18 GSTIDQGLRAYMIRVYNLMA   37 (259)
Q Consensus        18 ~~~~d~~lr~Fi~kVY~~la   37 (259)
                      +...|+.+..|+|+-|.++-
T Consensus         2 Gd~~D~aIi~yvr~~~~l~I   21 (75)
T 1jce_A            2 GDEXDEAIVQYVRETYRVAI   21 (75)
T ss_dssp             HHHHHHHHHHHHHHHHCEEC
T ss_pred             CCCCCHHHHHHHHHHHHHHH
T ss_conf             76544389999999987872


No 6  
>>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, guanine nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} (A:)
Probab=15.17  E-value=53  Score=11.33  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             245566999999999999999
Q gi|254780452|r   17 FGSTIDQGLRAYMIRVYNLMA   37 (259)
Q Consensus        17 ~~~~~d~~lr~Fi~kVY~~la   37 (259)
                      .....|+.+|.|+|++|.+-.
T Consensus       167 ~~~~~~~~i~~~l~~iy~~Y~  187 (219)
T 3cue_A          167 TSNLAIQIADNFLRKVYCLYS  187 (219)
T ss_dssp             --CHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHH
T ss_conf             432004789999999999998


No 7  
>>2j8s_A ACRB, acriflavine resistance protein B; membrane protein/complex, designed ankyrin repeat protein, multidrug resistance protein; HET: LMT LMU; 2.54A {Escherichia coli} PDB: 2dhh_A 1iwg_A 2dr6_A* 2drd_A* 2hqf_A 2hqg_A 2hqd_A 2hqc_A 2i6w_A 1oy6_A* 1oy9_A* 1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 1t9x_A* 1t9t_A* 1t9v_A* ... (A:505-567,A:868-1055)
Probab=14.88  E-value=53  Score=11.28  Aligned_cols=47  Identities=17%  Similarity=0.128  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             24556699999999999999999999999999998545566655667
Q gi|254780452|r   17 FGSTIDQGLRAYMIRVYNLMALGLGVTGIMSFLVNILATTVDPDAAS   63 (259)
Q Consensus        17 ~~~~~d~~lr~Fi~kVY~~la~~L~iT~~~a~~~~~~~~~~~~~~~~   63 (259)
                      ....-+..++.-+|+---.|.+-+++.+...+.....|.-.-|....
T Consensus        19 ~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~f~p~~~s   65 (251)
T 2j8s_A           19 STHHYTDSVGGILRSTGRYLVLYLIIVVGMAYLFVRLPSSFLPDELS   65 (251)
T ss_dssp             HHHHHHHHHHHHHSSSSTHHHHHHHHHHHHHHHHHHSCBCSSCCCSS
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHH
T ss_conf             43334667642100113331011122211112222001013764099


No 8  
>>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell membrane, membrane, transmembrane, transport protein; HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB: 3gi9_C* 3gi8_C (A:)
Probab=9.67  E-value=78  Score=10.24  Aligned_cols=17  Identities=18%  Similarity=0.475  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999
Q gi|254780452|r  193 DLTMSAMGLVIFSALTA  209 (259)
Q Consensus       193 ~~~~s~~g~~iFs~~i~  209 (259)
                      ...+...+++++..+..
T Consensus       404 ~~~~~~~~~~~~~~~~~  420 (444)
T 3gia_A          404 GIIATFIGVLIFEIIYR  420 (444)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             99999999999999874


No 9  
>>2job_A Antilipopolysaccharide factor; ALF, lipid A binding protein, endotoxin, lipid binding protein; NMR {Penaeus monodon} (A:)
Probab=8.72  E-value=85  Score=9.99  Aligned_cols=22  Identities=5%  Similarity=0.188  Sum_probs=16.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             3200024556699999999999
Q gi|254780452|r   12 NSGSGFGSTIDQGLRAYMIRVY   33 (259)
Q Consensus        12 ~~~~~~~~~~d~~lr~Fi~kVY   33 (259)
                      ..+.+.+..++..+|.|++|-.
T Consensus        65 s~TrSrsgvv~~a~rDFV~KA~   86 (102)
T 2job_A           65 ASTRSQSGVAGKTAKDFVRKAF   86 (102)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHH
T ss_conf             4343311015367999999999


No 10 
>>3bac_A DNA ligase; adenylation domain, DNA damage, DNA repair, DNA replication, NAD; HET: DNA 3B9; 3.00A {Haemophilus influenzae} (A:19-55,A:174-270)
Probab=7.79  E-value=98  Score=9.58  Aligned_cols=19  Identities=16%  Similarity=0.303  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             5566999999999999999
Q gi|254780452|r   19 STIDQGLRAYMIRVYNLMA   37 (259)
Q Consensus        19 ~~~d~~lr~Fi~kVY~~la   37 (259)
                      +..++.+|+|.+||.--+.
T Consensus         4 ~f~~~~~~~~~~r~~~~l~   22 (134)
T 3bac_A            4 AFSDAEFNAFVKRIEDRLI   22 (134)
T ss_dssp             CCSHHHHHHHHHHHHHHSS
T ss_pred             HCCHHHHHHHHHHHHHHHC
T ss_conf             0999999999999998744


Done!