Query gi|254780448|ref|YP_003064861.1| hypothetical protein CLIBASIA_01665 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 311 No_of_seqs 5 out of 7 Neff 2.1 Searched_HMMs 23785 Date Mon May 30 11:32:18 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780448.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2zwi_A Alpha-/beta-galactoside 47.1 14 0.00058 16.4 4.1 66 145-212 194-260 (373) 2 1cii_A Colicin IA; bacteriocin 38.3 18 0.00077 15.6 2.7 15 7-23 533-547 (602) 3 1g1e_B SIN3A; four-helix bundl 32.0 23 0.00099 14.9 2.5 17 231-247 64-80 (89) 4 1x9y_A Cysteine proteinase; ha 28.0 27 0.0012 14.4 5.5 28 197-228 225-252 (367) 5 3ixr_A Bacterioferritin comigr 26.4 19 0.00078 15.5 1.1 58 153-211 109-176 (179) 6 3h93_A Thiol:disulfide interch 20.4 29 0.0012 14.2 1.1 28 185-212 152-179 (192) 7 2p35_A Trans-aconitate 2-methy 19.4 40 0.0017 13.3 2.1 14 80-93 73-86 (259) 8 3l9v_A Putative thiol-disulfid 19.4 40 0.0017 13.3 3.2 36 181-216 141-186 (189) 9 3gn3_A Putative protein-disulf 18.1 33 0.0014 13.9 1.0 30 182-211 151-180 (182) 10 2rem_A Disulfide oxidoreductas 17.6 44 0.0018 13.1 3.5 25 188-212 158-183 (193) No 1 >2zwi_A Alpha-/beta-galactoside alpha-2,3- sialyltransferase; alpha-2,3-sialyltransfease, JT-ISH-467, glycosyltransferase; HET: C5P; 2.01A {Photobacterium phosphoreum} Probab=47.13 E-value=14 Score=16.40 Aligned_cols=66 Identities=20% Similarity=0.233 Sum_probs=53.7 Q ss_pred HHHCCCHHHCCCCHHCCCHHHHHHHHHCCCCHH-HHHHHHHCCCEEEECCCEECCCCHHHHHHHHHHHC Q ss_conf 654088667434301180023234442667046-78876305767998381322368899999999751 Q gi|254780448|r 145 IFQKMPLEEYPRLQKIGINYFRDFKLLGTNKVY-KNLLDASRATEFIIDGKKINIDSAQNMLAELNKIF 212 (311) Q Consensus 145 i~~k~p~~e~~~~~~~~~~~frdf~Llg~nk~~-q~~LD~~ra~~FiiNGKKIs~Dsa~~mL~dfkt~v 212 (311) -.|+||+..|+.++--.+.+|- +++|=|.-+ |..++++..+.|+|-|--..--++..-++.+.+.. T Consensus 194 ~~kqm~w~~f~~l~~eqk~~f~--~i~~F~~e~~q~~~~~s~~~nfiFtGTts~~~~aeqQinv~~~~~ 260 (373) T 2zwi_A 194 NIKQMKWDYFTTFNSQQKNKFY--NFTGFNPEKIKEQYKASPHENFIFIGTNSGTATAEQQIDILTEAK 260 (373) T ss_dssp SEEECCCCGGGTCCHHHHHHHH--HHHTCCTHHHHHHHHSSSSCEEEEECCCTTTCCHHHHHHHHHHHT T ss_pred HHHCCCHHHHHHCCHHHHHHHH--HHHCCCHHHHHHHHHCCCCCEEEEEECCCCCCCHHHHHHHHHHHH T ss_conf 0331885766548999999999--986689999998975475770799940666742889999998520 No 2 >1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1 Probab=38.34 E-value=18 Score=15.60 Aligned_cols=15 Identities=20% Similarity=0.359 Sum_probs=7.7 Q ss_pred CHHHHCCCCCCCCHHHH Q ss_conf 07763167744204666 Q gi|254780448|r 7 TIQEFKKGNYGWGALGI 23 (311) Q Consensus 7 t~~efkkgnygwg~~g~ 23 (311) .+..|..|| |+.+.. T Consensus 533 ~~~~~~~~~--~~~~~~ 547 (602) T 1cii_A 533 FGKAVRTEN--WRPLFV 547 (602) T ss_dssp HHHHHHSTT--CHHHHH T ss_pred HHHHHCCCC--CCHHHH T ss_conf 874231788--713899 No 3 >1g1e_B SIN3A; four-helix bundle, protein-peptide complex, transcription; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1s5q_B 1s5r_B Probab=32.03 E-value=23 Score=14.86 Aligned_cols=17 Identities=6% Similarity=-0.080 Sum_probs=11.2 Q ss_pred HHHHHHHHHHHCCCHHC Q ss_conf 54589999883723100 Q gi|254780448|r 231 FCKPFTKDLLNLANKNI 247 (311) Q Consensus 231 f~qs~~~L~s~hPe~~k 247 (311) +..-+..|+..||+++. T Consensus 64 v~~~V~~Lf~~hpdLi~ 80 (89) T 1g1e_B 64 VYAQVARLFKNQEDLLS 80 (89) T ss_dssp HHHHHHHHTTTCHHHHH T ss_pred HHHHHHHHHCCCHHHHH T ss_conf 99999999845879999 No 4 >1x9y_A Cysteine proteinase; half-barrel, barrel-sandwich-hybrid, hydrolase; 2.50A {Staphylococcus aureus} SCOP: d.3.1.1 d.17.1.4 Probab=28.03 E-value=27 Score=14.42 Aligned_cols=28 Identities=11% Similarity=0.351 Sum_probs=18.7 Q ss_pred CCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCH Q ss_conf 23688999999997512697465556654074 Q gi|254780448|r 197 NIDSAQNMLAELNKIFPKDFEKVQLISSYAHE 228 (311) Q Consensus 197 s~Dsa~~mL~dfkt~vPkd~e~~QLISSYAhQ 228 (311) ...+++.+|+. .+| |..-.||=+.=+.+ T Consensus 225 ~~~sA~~imr~---~yP-N~s~~ql~~~s~~~ 252 (367) T 1x9y_A 225 DTYNAHDIMRT---LYP-EVSEQDLPNCATFP 252 (367) T ss_dssp SCCCHHHHHHH---HCT-TSCTTTGGGCCCCH T ss_pred CCCCHHHHHHH---HCC-CCCCCCCCCCCCCH T ss_conf 33559999997---675-65600057777899 No 5 >3ixr_A Bacterioferritin comigratory protein; alpha beta protein, oxidoreductase; 1.60A {Xylella fastidiosa} Probab=26.37 E-value=19 Score=15.53 Aligned_cols=58 Identities=16% Similarity=0.374 Sum_probs=31.6 Q ss_pred HCCCCHHCCCHHHHHHHHHCCCCHHHHHH-HHHCCCEEEEC--CCEECC-------CCHHHHHHHHHHH Q ss_conf 74343011800232344426670467887-63057679983--813223-------6889999999975 Q gi|254780448|r 153 EYPRLQKIGINYFRDFKLLGTNKVYKNLL-DASRATEFIID--GKKINI-------DSAQNMLAELNKI 211 (311) Q Consensus 153 e~~~~~~~~~~~frdf~Llg~nk~~q~~L-D~~ra~~FiiN--GKKIs~-------Dsa~~mL~dfkt~ 211 (311) .||.+.-.+....|.|.+.+....+...+ ...|+ +|+|| |+-+.. +++.++|+.++.. T Consensus 109 ~fpllsD~~~~v~k~ygv~~~~~~~g~~~~~~~R~-tfvID~~G~I~~~~~~~~~~~~~eevL~~Lka~ 176 (179) T 3ixr_A 109 TFPLVSDSDAILCKAFDVIKEKTMYGRQVIGIERS-TFLIGPTHRIVEAWRQVKVPGHAEEVLNKLKAH 176 (179) T ss_dssp CSCEEECTTCHHHHHTTCEEEECCC--CEEEECCE-EEEECTTSBEEEEECSCCSTTHHHHHHHHHHHH T ss_pred EEEEEECCCCHHHHHCCCEECCCCCCCCCCCCCCE-EEEECCCCEEEEEEECCCCCCCHHHHHHHHHHH T ss_conf 78764479853899849722444357545750567-999899998999881899886899999999863 No 6 >3h93_A Thiol:disulfide interchange protein DSBA; disulfide bond, periplasm, redox-active center, transcription regulator; HET: MSE GOL; 1.50A {Pseudomonas aeruginosa PAO1} Probab=20.41 E-value=29 Score=14.23 Aligned_cols=28 Identities=14% Similarity=0.033 Sum_probs=15.2 Q ss_pred CCCEEEECCCEECCCCHHHHHHHHHHHC Q ss_conf 5767998381322368899999999751 Q gi|254780448|r 185 RATEFIIDGKKINIDSAQNMLAELNKIF 212 (311) Q Consensus 185 ra~~FiiNGKKIs~Dsa~~mL~dfkt~v 212 (311) ---+|+|||+.+..-+.-..+++|...+ T Consensus 152 gTPtfiInGk~~~~~~~~~~~e~l~~~i 179 (192) T 3h93_A 152 GVPTMVVNGKYRFDIGSAGGPEETLKLA 179 (192) T ss_dssp SSSEEEETTTEEEEHHHHTSHHHHHHHH T ss_pred CCCEEEECCEEEECCCCCCCHHHHHHHH T ss_conf 2788999898860775678999999999 No 7 >2p35_A Trans-aconitate 2-methyltransferase; SAM dependent methyltransferase, structural genomics, PSI-2, protein structure initiative; HET: SAH; 1.95A {Agrobacterium tumefaciens str} Probab=19.39 E-value=40 Score=13.33 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=5.3 Q ss_pred HHCCCCEEEEEECC Q ss_conf 43064225787167 Q gi|254780448|r 80 AKEGIEATHIMEGG 93 (311) Q Consensus 80 ~kegi~~~~~~eg~ 93 (311) +++....++..++. T Consensus 73 A~~~~~~v~~~~~d 86 (259) T 2p35_A 73 AADRLPNTNFGKAD 86 (259) T ss_dssp HHHHSTTSEEEECC T ss_pred HHHHCCCCCCEEEE T ss_conf 99725663120142 No 8 >3l9v_A Putative thiol-disulfide isomerase or thioredoxin; thioredoxin-fold, SRGA, thiol-disulfide oxidoreductase, plasmid, oxidoreductase; HET: PE8 P4C P6G; 2.15A {Salmonella enterica subsp} Probab=19.36 E-value=40 Score=13.33 Aligned_cols=36 Identities=11% Similarity=0.063 Sum_probs=19.0 Q ss_pred HHHHCCCEEEECCCEECC------CCH----HHHHHHHHHHCCCCH Q ss_conf 763057679983813223------688----999999997512697 Q gi|254780448|r 181 LDASRATEFIIDGKKINI------DSA----QNMLAELNKIFPKDF 216 (311) Q Consensus 181 LD~~ra~~FiiNGKKIs~------Dsa----~~mL~dfkt~vPkd~ 216 (311) ++.+---+|+||||.+.. .+. ++|.+.++-...|.+ T Consensus 141 ~gI~gTPt~~INGky~i~~~~~~~~~~~~~~~~~~~~v~~ll~k~~ 186 (189) T 3l9v_A 141 YGVRGTPSVYVRGRYHINNAAFGAFSVENFRSRYAAVVRKLLAGNP 186 (189) T ss_dssp TTCCSSSEEEETTTEEECGGGCCCSSHHHHHHHHHHHHHHHHCC-- T ss_pred CCCCCCCEEEECCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCC T ss_conf 4996356799989987465335665789999999999999983597 No 9 >3gn3_A Putative protein-disulfide isomerase; MCSG, PSI, structural genomics, protein structure initiative; 2.50A {Pseudomonas syringae PV} Probab=18.14 E-value=33 Score=13.92 Aligned_cols=30 Identities=13% Similarity=0.069 Sum_probs=18.9 Q ss_pred HHHCCCEEEECCCEECCCCHHHHHHHHHHH Q ss_conf 630576799838132236889999999975 Q gi|254780448|r 182 DASRATEFIIDGKKINIDSAQNMLAELNKI 211 (311) Q Consensus 182 D~~ra~~FiiNGKKIs~Dsa~~mL~dfkt~ 211 (311) ...---+|+|||+.+.--++.+.+.++-+. T Consensus 151 Gv~gtPt~~VnG~~~~~~~s~~~~~~wi~~ 180 (182) T 3gn3_A 151 GIHVSPTFMINGLVQPGMSSGDPVSKWVSD 180 (182) T ss_dssp TCCSSSEEEETTEECTTCCTTSCHHHHHHH T ss_pred CCCCCCEEEECCEEECCCCCHHHHHHHHHH T ss_conf 985388798999994599980679999997 No 10 >2rem_A Disulfide oxidoreductase; disulfide oxidoreductase, DSBA, thioredoxin fold, redox- active center; 1.90A {Xylella fastidiosa} Probab=17.60 E-value=44 Score=13.07 Aligned_cols=25 Identities=8% Similarity=0.276 Sum_probs=0.0 Q ss_pred EEEECCC-EECCCCHHHHHHHHHHHC Q ss_conf 7998381-322368899999999751 Q gi|254780448|r 188 EFIIDGK-KINIDSAQNMLAELNKIF 212 (311) Q Consensus 188 ~FiiNGK-KIs~Dsa~~mL~dfkt~v 212 (311) +|+|||| .+.-.+..+++.-....+ T Consensus 158 T~iInGk~~v~~~~~~~~~~~i~~li 183 (193) T 2rem_A 158 TIVVNGRYMVTGHDFEDTLRITDYLV 183 (193) T ss_dssp EEEETTTEEECCSSHHHHHHHHHHHH T ss_pred EEEECCEEECCCCCHHHHHHHHHHHH T ss_conf 79999999658999999999999999 Done!