Query gi|254781034|ref|YP_003065447.1| hypothetical protein CLIBASIA_04680 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 344 No_of_seqs 130 out of 162 Neff 6.2 Searched_HMMs 23785 Date Wed Jun 1 01:13:10 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781034.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3bee_A Putative YFRE protein; 61.5 6.2 0.00026 16.7 5.0 67 251-324 21-92 (93) 2 1m1j_B Fibrinogen beta chain; 44.3 12 0.0005 15.0 11.4 12 265-276 255-266 (464) 3 2uwj_G Type III export protein 29.1 21 0.00087 13.5 3.6 53 283-338 42-94 (115) 4 2p58_C Putative type III secre 28.1 21 0.0009 13.4 4.7 56 283-341 43-98 (116) 5 3k7c_A Putative NTF2-like tran 28.1 22 0.00091 13.4 5.3 45 277-321 6-53 (114) 6 2wsc_L Photosystem I reaction 25.7 24 0.001 13.1 1.9 36 24-59 173-208 (216) 7 3kez_A Putative sugar binding 19.9 31 0.0013 12.4 3.4 27 280-306 338-364 (461) 8 1m1j_C Fibrinogen gamma chain; 19.6 32 0.0013 12.3 10.9 38 127-164 80-117 (409) 9 2p90_A Hypothetical protein CG 16.5 37 0.0016 11.9 3.3 71 133-203 231-301 (319) 10 1deb_A APC protein, adenomatou 16.5 37 0.0016 11.9 5.6 41 135-175 7-47 (54) No 1 >3bee_A Putative YFRE protein; putaive YFRE protein, structural genomics, PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633} Probab=61.49 E-value=6.2 Score=16.72 Aligned_cols=67 Identities=10% Similarity=0.143 Sum_probs=46.1 Q ss_pred CCCHHHHHHHHHHHHHEEECCCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-----CHHHHHHHHHHHHHHHHH Q ss_conf 78889999999987632412788778889888999999999829989999989719-----988899999999999999 Q gi|254781034|r 251 DSGFANYLLFQLTRLVKVRPIGGNIEGDAITDVIARIENNLKTGDLVKAAAEWDKI-----PEKARQPSMFLRNALEAH 324 (344) Q Consensus 251 ~~g~~~~l~~~~~slv~vR~~~~~~~G~~~dailaRae~aL~~GdL~~Al~el~~L-----p~~a~~~~~~w~~~~eaR 324 (344) ++-+.+.....+...+...| +.+.+..-..-.+.+.||+..|+..|..+ |...+......+.+++.+ T Consensus 21 ~~~~t~ea~~~l~~aL~~~P-------~~~~al~~lg~~~~~~g~y~~Ai~~w~~lL~~~p~~~~r~~i~~~I~~A~~~ 92 (93) T 3bee_A 21 KQAMTDEVSLLLEQALQLEP-------YNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNLDRVTIIESINKAKKL 92 (93) T ss_dssp TTCCCHHHHHHHHHHHHHCT-------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTCCHHHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHHCC-------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHC T ss_conf 99889999999999997786-------9899999999999986899999999999984289981199999999999863 No 2 >1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B* Probab=44.34 E-value=12 Score=15.00 Aligned_cols=12 Identities=8% Similarity=0.169 Sum_probs=7.8 Q ss_pred HHEEECCCCCCC Q ss_conf 632412788778 Q gi|254781034|r 265 LVKVRPIGGNIE 276 (344) Q Consensus 265 lv~vR~~~~~~~ 276 (344) .|.-||.+|.+. T Consensus 255 tViQrR~dGsv~ 266 (464) T 1m1j_B 255 TLIQNRQDGSVN 266 (464) T ss_dssp EEEEEESSCCSC T ss_pred EEEEECCCCCCC T ss_conf 999836788668 No 3 >2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa} Probab=29.12 E-value=21 Score=13.48 Aligned_cols=53 Identities=21% Similarity=0.077 Sum_probs=28.3 Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999982998999998971998889999999999999999999999999753 Q gi|254781034|r 283 VIARIENNLKTGDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAILKEEMAKI 338 (344) Q Consensus 283 ilaRae~aL~~GdL~~Al~el~~Lp~~a~~~~~~w~~~~eaRl~ad~~~~~~~a~~ 338 (344) .+-|.....++||+..|+.-...++-+ -..+|+.-.+-|+.--..+......+ T Consensus 42 ~lIR~sSLmNrG~Yq~Al~l~~~~~~p---dlepw~ALce~rlGl~~~le~Rl~~l 94 (115) T 2uwj_G 42 RLIRISSLANQGRYQEALAFAHGNPWP---ALEPWFALCEWHLGLGAALDRRLAGL 94 (115) T ss_dssp HHHHHHHHHHTTCHHHHHGGGTTCCCG---GGHHHHHHHHHHTTCHHHHHHHHHHH T ss_pred HHHHHHHHHCCCHHHHHHHHCCCCCCC---HHHHHHHHHHHHHCCHHHHHHHHHHH T ss_conf 999999987340389999855888883---18999999988614188999999998 No 4 >2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis} Probab=28.13 E-value=21 Score=13.38 Aligned_cols=56 Identities=13% Similarity=0.175 Sum_probs=29.8 Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999982998999998971998889999999999999999999999999753340 Q gi|254781034|r 283 VIARIENNLKTGDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAILKEEMAKIPQT 341 (344) Q Consensus 283 ilaRae~aL~~GdL~~Al~el~~Lp~~a~~~~~~w~~~~eaRl~ad~~~~~~~a~~~~~ 341 (344) .+-|.....++||+..|+.....++-+. ..+|++-++-|+.--..+..-+..+-++ T Consensus 43 ~lIR~sSLmNrG~Yq~Al~l~~~~~~pD---lepw~ALce~rlGl~s~le~rL~rla~s 98 (116) T 2p58_C 43 QLIRLSSLMNRGDYASALQQGNKLAYPD---LEPWLALCEYRLGLGSALESRLNRLARS 98 (116) T ss_dssp HHHHHHHHHHTTCHHHHHHHHTTSCCGG---GHHHHHHHHHHHTCHHHHHHHHHHHTTC T ss_pred HHHHHHHHHCCHHHHHHHHHCCCCCCCC---HHHHHHHHHHHHCCHHHHHHHHHHHHHC T ss_conf 9999999873304899998477778841---8999999988614188999999999877 No 5 >3k7c_A Putative NTF2-like transpeptidase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: PGE; 2.00A {Campylobacter jejuni} Probab=28.06 E-value=22 Score=13.37 Aligned_cols=45 Identities=9% Similarity=0.071 Sum_probs=32.3 Q ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHH---HHCCHHHHHHHHHHHHHH Q ss_conf 889888999999999829989999989---719988899999999999 Q gi|254781034|r 277 GDAITDVIARIENNLKTGDLVKAAAEW---DKIPEKARQPSMFLRNAL 321 (344) Q Consensus 277 G~~~dailaRae~aL~~GdL~~Al~el---~~Lp~~a~~~~~~w~~~~ 321 (344) +++|+.+.-+-=.+|.+||++.+++-+ +..|+..+.-+.+++... T Consensus 6 ~~sP~~~ak~f~~~l~~GD~e~a~~~~~~~~~~~~~~~~~~~~~l~~~ 53 (114) T 3k7c_A 6 SSNPEDLAKNFTKDLYSGDTKSVMSYIDLSEAKSDEEKTFVSDKITQV 53 (114) T ss_dssp -CCHHHHHHHHHHHHTTTCHHHHHHTBCCSSCCSHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHH T ss_conf 999699999999999828999998545776556778999999999998 No 6 >2wsc_L Photosystem I reaction center subunit XI, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Spinacia oleracea} PDB: 2wse_L* 2wsf_L* 2o01_L* Probab=25.72 E-value=24 Score=13.11 Aligned_cols=36 Identities=8% Similarity=-0.140 Sum_probs=22.8 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 886554543301466777642346789999975332 Q gi|254781034|r 24 PPSCDVKKITWRKFFWEKILSNKTFFKILALVCVIV 59 (344) Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~ggiial~~~~~ 59 (344) .++.+..+...-..|.+|+|++++.|.+.|+.+... T Consensus 173 ~~p~~L~T~eGWs~Ft~GF~iGG~GGa~fAyfLl~~ 208 (216) T 2wsc_L 173 KQPDQLQSADGWAKFTGGFFFGGVSGVTWACFLMYV 208 (216) T ss_dssp TCSSCCCCHHHHHHHHHHHHHHHBTTTHHHHHSCCC T ss_pred CCHHHCCCCCCHHHHCCCEEECCCHHHHHHHHHHHC T ss_conf 883442272258885030000134089999999963 No 7 >3kez_A Putative sugar binding protein; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.90A {Bacteroides vulgatus atcc 8482} Probab=19.88 E-value=31 Score=12.38 Aligned_cols=27 Identities=26% Similarity=0.288 Sum_probs=23.8 Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHC Q ss_conf 888999999999829989999989719 Q gi|254781034|r 280 ITDVIARIENNLKTGDLVKAAAEWDKI 306 (344) Q Consensus 280 ~dailaRae~aL~~GdL~~Al~el~~L 306 (344) .|..|-+||++++.|+...|+..++.+ T Consensus 338 aE~~L~~AEA~~~~g~~~~A~~~lN~v 364 (461) T 3kez_A 338 SEAYLNAAEAAVQTGDNAKAVKYLNSI 364 (461) T ss_dssp HHHHHHHHHHHHHTTCHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHH T ss_conf 999999999999869989999999999 No 8 >1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C Probab=19.56 E-value=32 Score=12.34 Aligned_cols=38 Identities=16% Similarity=0.128 Sum_probs=15.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 98888876336789999999999999999999999999 Q gi|254781034|r 127 NTQNFNIKPLLEEIASLKQLISDLSKNYQDIVTRLTKM 164 (344) Q Consensus 127 ~~~~~~~~~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~ 164 (344) ++.......+.+++..++..+.....++.++...+... T Consensus 80 e~l~q~~~el~eei~~lk~~I~~~e~qI~eLq~~l~~~ 117 (409) T 1m1j_C 80 EQLTQKSKKIIEEIIRYENTILAHENTIQQLTDMHIMN 117 (409) T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999999999998999999999877 No 9 >2p90_A Hypothetical protein CGL1923; structural genomics, PSI-2, MCSG, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032} SCOP: c.56.8.1 Probab=16.51 E-value=37 Score=11.90 Aligned_cols=71 Identities=8% Similarity=0.101 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 76336789999999999999999999999999950012476699999999999999996699628999999 Q gi|254781034|r 133 IKPLLEEIASLKQLISDLSKNYQDIVTRLTKMETLTANPLRNPNTQRMVSLLILKNALDKGEYSSLNTTMQ 203 (344) Q Consensus 133 ~~~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~e~~~~~~~~~~~~~~~~A~~~L~~Ai~~G~pf~~eL~~l 203 (344) +..+.++....++.++++..+..++..-+..+|.+...............+.....-+-+|.-++.+++.+ T Consensus 231 ~~~L~e~A~~~e~~i~e~~~~~~El~~~v~~LE~~yD~~~~~~~~~~~~~~~~~~~~~ps~d~l~~e~E~f 301 (319) T 2p90_A 231 LLALERDAEKVHRQLMEQTEESSEIQRVVGALEQQYDSELERYRNRHPQAVMPGESELPSGDEIGAEFEKF 301 (319) T ss_dssp CHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCC--------------------------- T ss_pred HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHH T ss_conf 79999999999999999986099999999999997737765212333100245567899989999999999 No 10 >1deb_A APC protein, adenomatous polyposis coli protein; coiled coil, tumor suppressor, structural protein; 2.40A {Homo sapiens} SCOP: h.1.18.1 Probab=16.50 E-value=37 Score=11.90 Aligned_cols=41 Identities=32% Similarity=0.347 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH Q ss_conf 33678999999999999999999999999995001247669 Q gi|254781034|r 135 PLLEEIASLKQLISDLSKNYQDIVTRLTKMETLTANPLRNP 175 (344) Q Consensus 135 ~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~e~~~~~~~~~~ 175 (344) .+..+|..|..+-.-++.+..+.++.+.++|..+.+.++.. T Consensus 7 QL~~QVe~Lk~ENshLr~EL~dNS~~lskLe~ets~mKevl 47 (54) T 1deb_A 7 QLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVL 47 (54) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999998606999998822788888875640399999 Done!