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!