Query gi|255764465|ref|YP_003064775.2| Na+/H+ antiporter NhaA [Candidatus Liberibacter asiaticus str. psy62] Match_columns 382 No_of_seqs 122 out of 896 Neff 4.8 Searched_HMMs 23785 Date Mon May 30 09:17:55 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 255764465.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1zcd_A Na(+)/H(+) antiporter 1 100.0 0 0 888.4 15.1 377 1-381 1-386 (388) 2 3bz1_A Photosystem Q(B) protei 27.8 23 0.00095 13.5 5.7 22 49-70 100-124 (344) 3 1q90_G Cytochrome B6F complex 27.3 23 0.00097 13.4 3.7 30 282-311 3-32 (37) 4 1vf5_G Protein PET G; photosyn 22.4 26 0.0011 13.1 1.3 30 282-311 3-32 (37) 5 1vf5_A Cytochrome B6; photosyn 17.4 37 0.0015 12.2 2.5 81 42-129 74-157 (215) 6 1v54_D Cytochrome C oxidase su 8.3 71 0.003 10.5 3.4 27 320-347 77-103 (147) 7 1nkz_A Light-harvesting protei 7.7 76 0.0032 10.3 3.0 39 1-39 1-46 (53) 8 1ijd_A Light-harvesting protei 7.6 76 0.0032 10.3 3.5 39 1-39 1-46 (53) 9 1t77_A Lipopolysaccharide-resp 7.5 77 0.0033 10.3 0.3 18 70-87 135-152 (414) 10 1zke_A Hypothetical protein HP 5.5 1.1E+02 0.0045 9.4 1.3 21 300-320 30-50 (83) No 1 >1zcd_A Na(+)/H(+) antiporter 1; membrane protein; 3.45A {Escherichia coli} PDB: 3fi1_A Probab=100.00 E-value=0 Score=888.41 Aligned_cols=377 Identities=37% Similarity=0.703 Sum_probs=357.5 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH--HH--CCCCCC----CCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 951478985321557999999999999833871243334--31--124335----6769999876799999999999999 Q gi|255764465|r 1 MTKNKFFLYRDNFTGILLISTTFITMILANISFSSAYYF--DA--LEYKIA----NLTLRDWVNDILMILYFFMIGLELK 72 (382) Q Consensus 1 ~~k~k~F~~~e~~~gilLl~aa~~Al~~ANs~~~~~y~~--~~--~~~~~~----~~~l~~wvNDgLMaiFFf~vGLEiK 72 (382) |++.|+|+|+|++||++|+.+|++|++||||||.+.||+ ++ .+.+++ ++|+||||||+||++|||+||||+| T Consensus 1 ~~~l~~f~~~e~~~gilLl~a~~~Ali~ANs~~~~~~Y~~~~~~~~~~~~g~~~~~~~l~~winD~LMalFFflvGLEik 80 (388) T 1zcd_A 1 MKHLHRFFSSDASGGIILIIAAILAMIMANSGATSGWYHDFLETPVQLRVGSLEINKNMLLWINDALMAVFFLLVGLEVK 80 (388) T ss_dssp --------CCSSHHHHHHHHHHHHHHHHHHCSSSHHHHHHHTTCEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 91589998510368999999999999998797045689998606201442752467749999876899999999999998 Q ss_pred HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 99864867899998999999877889999998982379800035045533773789999999842788899999999999 Q gi|255764465|r 73 HELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGWAIPTATDIAFTLGILSWIGPNIPSSLKIFFTALT 152 (382) Q Consensus 73 rE~~~GeLs~~r~a~lP~~AAlGGmi~Paliy~~~n~~~~~~~~GWaIP~ATDiAFalgvl~llg~rvp~~lrvFLlaLA 152 (382) ||++.||||++||+++|.+||+|||++|+++|+.+|.++++..+||+|||||||||++++++++|+|+|+++|+||+++| T Consensus 81 re~l~G~Ls~~~~a~lP~~Aa~GGm~~Pa~iyl~~n~~~~~~~~GWaiP~ATDIAfal~vl~llg~rvp~~lr~fLL~lA 160 (388) T 1zcd_A 81 RELMQGSLASLRQAAFPVIAAIGGMIVPALLYLAFNYADPITREGWAIPAATDIAFALGVLALLGSRVPLALKIFLMALA 160 (388) T ss_dssp HHHHSTTTSSTTTSHHHHHHHHHHTTTTHHHHGGGCCSSTTHHHHTSSSSCCCHHHHHHHHHSSCSSSCSSSHHHHHHHH T ss_pred HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECHHHHHHHHHHHHHCCCCCHHHHHHHHHHH T ss_conf 99873765637899989999985226999999863147875567750440238999999999974668748999999999 Q ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCC Q ss_conf 87544799888864177666799999999999999986259861237899999999999712865678988886317678 Q gi|255764465|r 153 MIDDFSAIAIMAIFYTQSLNLFALQVAITLIFLLFLLNRCGFTNLFIYGFLGFFLWHSIFKSGIHTTVFGVIMALLLPDI 232 (382) Q Consensus 153 IvDDlgaIlVIAifYs~~i~~~~L~~a~~~~~~l~~l~~~~v~~~~~y~~~g~~lW~~~~~sGIHaTiAGV~l~~~iP~~ 232 (382) |+||+|+|+|||+|||+++++.|+..+...+..++.+||+++++.++|.++|+++||++++||||||+|||++|+++|++ T Consensus 161 ivDDlgailvIA~fYt~~i~~~~l~~a~~~~~~~~~~~~~~v~~~~~y~~lg~~~W~~~~~sGVHatlagv~~gl~iP~~ 240 (388) T 1zcd_A 161 IIDDLGAIIIIALFYTNDLSMASLGVAAVAIAVLAVLNLCGARRTGVYILVGVVLWTAVLKSGVHATLAGVIVGFFIPLK 240 (388) T ss_dssp HHHHHHHHHHHHHHSCCCCCHHHHHHHHHHHHHHHHHHHTTCCCTHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHSCCC T ss_pred HHHCCCCHHHEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC T ss_conf 98301024211200166335999999999999999998528871008899999999999860555788877876112466 Q ss_pred CCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 77789400003788763420443247879998851263246764787310269999999864455899999999996175 Q gi|255764465|r 233 KNYHSPSNRISFYLLGDGLKSWVMPLVLPAFVFVNTGLTISTIPYTDISDPIVWGVMLGLFLGKQSGIFLFAFSTVKIGW 312 (382) Q Consensus 233 ~~~~~~~~~~~~~~le~~l~p~v~~~IlPlFAfaNaGV~l~~~~~~~~~~pv~~gI~~gL~iGK~lGI~~~s~lavkl~~ 312 (382) +++ +++|.+|+||.+||||+|+|+|+|||+|+||++++...+..++|+++||++||++|||+||++++|+++|+++ T Consensus 241 ~~~----~~sp~erlE~~l~p~v~~~ilPlFaf~nagv~l~~~~~~~~~~p~~~gI~~gL~vGK~lGI~~~~~la~kl~~ 316 (388) T 1zcd_A 241 EKH----GRSPAKRLEHVLHPWVAYLILPLFAFANAGVSLQGVTLDGLTSILPLGIIAGLLIGKPLGISLFCWLALRLKL 316 (388) T ss_dssp GGG----SSCHHHHHHHHHHHHHHHTHHHHHHHHHCCCCCSSSCCCTHHHHSSTTTTHHHHHTTGGGSTTHHHHTSSCTT T ss_pred CCC----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCHHHHHHHHHHCCCEEEEEEEEEHHHHHCCC T ss_conf 556----7985888999867789999988999986031224540343017278777863121658898621189887054 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 4389998999999999987558999999866406872-57887655999999999999999999414778 Q gi|255764465|r 313 GKLPKDTNWCLLYGGSILCGIGFTMSLFLTLQAFPNA-NNLQEKAKIGIILSSVISIIYAYLVFKIPLRK 381 (382) Q Consensus 313 ~~lP~g~~w~~l~~v~~LaGIGFTmSLfIa~LAF~~~-~~~~~~aKlgIL~~S~~aailG~~~l~~~~~k 381 (382) +++|++++|+|++++|+||||||||||||+++||++. ++++|++|+|||.+|++|+++|+.++|+++|- T Consensus 317 ~~lP~g~~~~~l~~v~~LaGIGFTmSLfI~~lAf~~~~~~~~~~aK~giL~~S~~sa~~g~~~l~~~~rp 386 (388) T 1zcd_A 317 AHLPEGTTYQQIMVVGILCGIGFTMSIFIASLAFGSVDPELINWAKLGILVGSISSAVIGYSWLRVRLRP 386 (388) T ss_dssp TCCCCSCCGGGGTTHHHHTTCCHHHHHHHHHHHSTTSSCSSHHHHHHHHHHHHHTTTSTTTGGGTTTC-- T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 7799999899999999999899999999999866799867771169999999999999999999724689 No 2 >3bz1_A Photosystem Q(B) protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1s5l_A* 2axt_A* 3bz2_A* 3kzi_A* 1w5c_A* 1izl_A* 3a0b_A* 3a0h_A* Probab=27.83 E-value=23 Score=13.50 Aligned_cols=22 Identities=23% Similarity=0.761 Sum_probs=18.8 Q ss_pred CCHHHHHHHH---HHHHHHHHHHHH Q ss_conf 7699998767---999999999999 Q gi|255764465|r 49 LTLRDWVNDI---LMILYFFMIGLE 70 (382) Q Consensus 49 ~~l~~wvNDg---LMaiFFf~vGLE 70 (382) -++.+|-||| +++.||+.+|.- T Consensus 100 ~s~deWL~~GG~w~i~~f~~lisv~ 124 (344) T 3bz1_A 100 ASLDEWLYNGGPYQLIIFHFLLGAS 124 (344) T ss_dssp SCHHHHHHTTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 4378999859809999999999999 No 3 >1q90_G Cytochrome B6F complex subunit PETG; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.26.1 Probab=27.32 E-value=23 Score=13.45 Aligned_cols=30 Identities=30% Similarity=0.623 Sum_probs=25.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 026999999986445589999999999617 Q gi|255764465|r 282 DPIVWGVMLGLFLGKQSGIFLFAFSTVKIG 311 (382) Q Consensus 282 ~pv~~gI~~gL~iGK~lGI~~~s~lavkl~ 311 (382) +|+-.||++||+-=...|.|..+|+--|.+ T Consensus 3 E~ll~GiVlGlipvTl~Glfv~AylQYrrG 32 (37) T 1q90_G 3 EPLLCGIVLGLVPVTIAGLFVTAYLQYLRG 32 (37) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHC-- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 079877898638999999999999999753 No 4 >1vf5_G Protein PET G; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.23.26.1 PDB: 2d2c_G* 2e74_G* 2e75_G* 2e76_G* 2zt9_G* Probab=22.39 E-value=26 Score=13.09 Aligned_cols=30 Identities=30% Similarity=0.619 Sum_probs=23.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 026999999986445589999999999617 Q gi|255764465|r 282 DPIVWGVMLGLFLGKQSGIFLFAFSTVKIG 311 (382) Q Consensus 282 ~pv~~gI~~gL~iGK~lGI~~~s~lavkl~ 311 (382) +|+-.||++||+-=...|.|..+|+--|.+ T Consensus 3 Epll~GiVLGlipvTl~GLFvaAy~QYrRg 32 (37) T 1vf5_G 3 EPLLDGLVLGLVFATLGGLFYAAYQQYKRP 32 (37) T ss_dssp ------CHHHHHHHHHHHHTHHHHHHTCC- T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 058751678638999999999999997202 No 5 >1vf5_A Cytochrome B6; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.21.1.2 PDB: 2d2c_A* 2e74_A* 2e75_A* 2e76_A* 2zt9_A* 1q90_B* Probab=17.39 E-value=37 Score=12.22 Aligned_cols=81 Identities=11% Similarity=0.143 Sum_probs=46.1 Q ss_pred CCCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCEE Q ss_conf 1243356--76999987679999999999999999864867899998999999877889999998-98237980003504 Q gi|255764465|r 42 LEYKIAN--LTLRDWVNDILMILYFFMIGLELKHELIHGELSSWTKRSLPLLGAIGGITFPACIY-MIINCHTEIYLKGW 118 (382) Q Consensus 42 ~~~~~~~--~~l~~wvNDgLMaiFFf~vGLEiKrE~~~GeLs~~r~a~lP~~AAlGGmi~Paliy-~~~n~~~~~~~~GW 118 (382) .+...|. -.+|.|-.+. ||+.+.+.+-|.+..|.-+.+|+..==.--.+..+..-...- ..+-+ + ...-| T Consensus 74 ~~v~~G~liR~lH~~gAs~----~~~~~~lHm~r~~~~gsYk~pRe~~W~~Gv~l~~l~~~~aftGY~Lpw--d-q~s~w 146 (215) T 1vf5_A 74 NEVSFGWLIRSIHRWSASM----MVLMMILHVFRVYLTGGFKKPRELTWISGVILAVITVSFGVTGYSLPW--D-QVGYW 146 (215) T ss_dssp TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHHTTSSSSSCSHHHHHHHHHHHHHHHHHHHHTTTTC--B-HHHHH T ss_pred CCCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCH--H-HHHHH T ss_conf 4182389999988989999----999999999899887420674556413119999999999981100648--7-75243 Q ss_pred EEECCCCHHHH Q ss_conf 55337737899 Q gi|255764465|r 119 AIPTATDIAFT 129 (382) Q Consensus 119 aIP~ATDiAFa 129 (382) |....|.++=+ T Consensus 147 a~~V~~~l~~~ 157 (215) T 1vf5_A 147 AVKIVSGVPEA 157 (215) T ss_dssp HHHHHHSGGGS T ss_pred HHHHHHHHHCC T ss_conf 55576521005 No 6 >1v54_D Cytochrome C oxidase subunit IV isoform 1; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.1.1 PDB: 1oco_D* 1occ_D* 1ocz_D* 1ocr_D* 1v55_D* 2dyr_D* 2dys_D* 2eij_D* 2eik_D* 2eil_D* 2eim_D* 2ein_D* 2occ_D* 2zxw_D* 3abk_D* 3abl_D* 3abm_D* 3ag1_D* 3ag2_D* 3ag3_D* ... Probab=8.27 E-value=71 Score=10.49 Aligned_cols=27 Identities=26% Similarity=0.485 Sum_probs=15.8 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999999875589999998664068 Q gi|255764465|r 320 NWCLLYGGSILCGIGFTMSLFLTLQAFP 347 (382) Q Consensus 320 ~w~~l~~v~~LaGIGFTmSLfIa~LAF~ 347 (382) .|+.++| +.+.+||||..+|+..-.|- T Consensus 77 ewK~v~g-~~~~~i~~s~~i~~~~r~~v 103 (147) T 1v54_D 77 EWKTVVG-AAMFFIGFTALLLIWEKHYV 103 (147) T ss_dssp HHHHHHH-HHHHHHHHHHHHHHHHHHHT T ss_pred CHHHHHH-HHHHHHHHHHHHHHHHHHHC T ss_conf 4146899-99999999999999999972 No 7 >1nkz_A Light-harvesting protein B-800/850, alpha chain; light harvesting complex II, trans-membrane helices, rhodopin glucoside; HET: CXM RG1 BOG BCL; 2.00A {Rhodoblastus acidophilus} SCOP: f.3.1.1 PDB: 1kzu_A* 2fkw_A* Probab=7.69 E-value=76 Score=10.33 Aligned_cols=39 Identities=21% Similarity=0.329 Sum_probs=24.7 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHH-------HHHHHCCCHHHHHHH Q ss_conf 951478985321557999999999-------999833871243334 Q gi|255764465|r 1 MTKNKFFLYRDNFTGILLISTTFI-------TMILANISFSSAYYF 39 (382) Q Consensus 1 ~~k~k~F~~~e~~~gilLl~aa~~-------Al~~ANs~~~~~y~~ 39 (382) |...|-+.--..+-|+.|+.+++. .-+..|..|-..|+. T Consensus 1 MnqgkiW~VV~PtVGlPl~LgaVav~a~~VH~avl~nTtW~~~y~~ 46 (53) T 1nkz_A 1 MNQGKIWTVVNPAIGIPALLGSVTVIAILVHLAILSHTTWFPAYWQ 46 (53) T ss_dssp CCCTTGGGTSCHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHH T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHC T ss_conf 9875389998887770389999999999999999806804798848 No 8 >1ijd_A Light-harvesting protein B-800/820, alpha chain; pigment-protein complex, alpha-helix apoproteins, intergral membrane protein; HET: FME RPA BCL; 3.00A {Rhodoblastus acidophilus} SCOP: f.3.1.1 Probab=7.64 E-value=76 Score=10.32 Aligned_cols=39 Identities=15% Similarity=0.272 Sum_probs=25.9 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHH-------HHHHHCCCHHHHHHH Q ss_conf 951478985321557999999999-------999833871243334 Q gi|255764465|r 1 MTKNKFFLYRDNFTGILLISTTFI-------TMILANISFSSAYYF 39 (382) Q Consensus 1 ~~k~k~F~~~e~~~gilLl~aa~~-------Al~~ANs~~~~~y~~ 39 (382) |...|-+.--..+-|+.|+.+++. .-+..|..|-..|+. T Consensus 1 MnqgkiW~VV~PtVGlPl~LgaVav~a~~VH~avl~nTtW~~~y~~ 46 (53) T 1ijd_A 1 MNQGKIWTVVPPAFGLPLMLGAVAITALLVHAAVLTHTTWYAAFLQ 46 (53) T ss_dssp CTTGGGGGTSCHHHHHHHHHHHHHHHHHHHHHHHHHSCSHHHHHTC T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHC T ss_conf 9875389998887770389999999999999999806804798848 No 9 >1t77_A Lipopolysaccharide-responsive and beige-like anchor protein, CDC4-like protein; PH-beach domains, vesicle trafficking, signal transduction; 2.40A {Homo sapiens} SCOP: a.169.1.1 b.55.1.6 PDB: 1mi1_A Probab=7.48 E-value=77 Score=10.27 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=11.1 Q ss_pred HHHHHHHCCCCCCHHHHH Q ss_conf 999998648678999989 Q gi|255764465|r 70 ELKHELIHGELSSWTKRS 87 (382) Q Consensus 70 EiKrE~~~GeLs~~r~a~ 87 (382) ++.+--..|++|+....+ T Consensus 135 ~~T~kW~~g~iSNfeYLm 152 (414) T 1t77_A 135 NMTQRWQHREISNFEYLM 152 (414) T ss_dssp SHHHHHHTTSSCHHHHHH T ss_pred HHHHHHHCCCCCHHHHHH T ss_conf 899998738865899999 No 10 >1zke_A Hypothetical protein HP1531; layer of helix-turn-helix, structural genomics, PSI, protein structure initiative; 1.60A {Helicobacter pylori 26695} SCOP: a.30.6.1 Probab=5.53 E-value=1.1e+02 Score=9.42 Aligned_cols=21 Identities=33% Similarity=0.403 Sum_probs=0.0 Q ss_pred HHHHHHHHHHCCCCCCCCCCC Q ss_conf 999999999617543899989 Q gi|255764465|r 300 IFLFAFSTVKIGWGKLPKDTN 320 (382) Q Consensus 300 I~~~s~lavkl~~~~lP~g~~ 320 (382) |.+.-|+.+|.|.-.+|++++ T Consensus 30 iS~vDyImIKRGS~DMPe~l~ 50 (83) T 1zke_A 30 LSLGDFIEIKRGSMDMPKGVN 50 (83) T ss_dssp CCHHHHHHHHTTSSCCCTTCC T ss_pred HHHHHHHEEECCCCCCCCCCC T ss_conf 223565012237665852127 Done!