Query gi|254780449|ref|YP_003064862.1| hypothetical protein CLIBASIA_01670 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 459 No_of_seqs 4 out of 6 Neff 1.6 Searched_HMMs 23785 Date Mon May 30 11:32:40 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780449.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2wfc_A Peroxiredoxin 5, PRDX5; 47.1 6.7 0.00028 17.9 1.6 26 327-352 122-159 (167) 2 3ixr_A Bacterioferritin comigr 43.8 9.9 0.00041 16.8 2.0 56 297-352 109-173 (179) 3 1tp9_A Peroxiredoxin, PRX D (t 40.0 4 0.00017 19.4 -0.5 15 327-341 126-140 (162) 4 3gkn_A Bacterioferritin comigr 38.8 14 0.00059 15.8 2.2 60 297-357 93-161 (163) 5 1xiy_A Peroxiredoxin, pfaop; a 30.2 15 0.00061 15.7 1.1 66 282-352 91-177 (182) 6 2pwj_A Mitochondrial peroxired 29.0 10 0.00043 16.7 0.2 55 285-341 93-148 (171) 7 1prx_A HORF6; peroxiredoxin, h 22.0 25 0.001 14.2 1.0 58 295-352 97-164 (224) 8 2cr7_A Paired amphipathic heli 21.6 33 0.0014 13.3 4.5 58 338-395 6-75 (80) 9 1g1e_B SIN3A; four-helix bundl 21.4 33 0.0014 13.3 3.2 54 337-390 5-79 (89) 10 1vk5_A Expressed protein; stru 21.4 34 0.0014 13.3 1.7 18 345-362 41-58 (157) No 1 >2wfc_A Peroxiredoxin 5, PRDX5; oxidoreductase, antioxidant enzymes; 1.75A {Arenicola marina} Probab=47.14 E-value=6.7 Score=17.90 Aligned_cols=26 Identities=12% Similarity=0.258 Sum_probs=18.0 Q ss_pred CCCCEEEEEECCEECC------------CCHHHHHHHH Q ss_conf 1472479970945420------------0089999999 Q gi|254780449|r 327 DLNRASFIFNGKKLAR------------DNSAEAIQKL 352 (459) Q Consensus 327 D~NrasFIvNgkkIsv------------dN~~~mL~~l 352 (459) -..|++||+|+++|-. ..+.++|+.| T Consensus 122 ~~~R~tfIiddG~I~~~~ve~~~~~~~~s~a~~vL~~L 159 (167) T 2wfc_A 122 RSKRYSLVIEDGVVTKVNVEPDGKGLTCSLAPNILSQL 159 (167) T ss_dssp EECCEEEEEETTEEEEEEECTTSSSSSTTSHHHHHHHH T ss_pred EEEEEEEEEECCEEEEEEEECCCCCCCCCCHHHHHHHC T ss_conf 68899999979999999997899877777599999976 No 2 >3ixr_A Bacterioferritin comigratory protein; alpha beta protein, oxidoreductase; 1.60A {Xylella fastidiosa} Probab=43.84 E-value=9.9 Score=16.79 Aligned_cols=56 Identities=21% Similarity=0.455 Sum_probs=32.2 Q ss_pred HCCCCHHCCHHHHHHHHHHHCCCCHHHHHHCCCCEEEEEE-CCEEC--------CCCHHHHHHHH Q ss_conf 3133112071678788877256511244411472479970-94542--------00089999999 Q gi|254780449|r 297 EFKMVPLSDQTLFRDFQGLCGKNIDNQFILDLNRASFIFN-GKKLA--------RDNSAEAIQKL 352 (459) Q Consensus 297 e~~~~~~~~~~~frdf~~l~g~n~dn~fllD~NrasFIvN-gkkIs--------vdN~~~mL~~l 352 (459) .|+.+.-.+....|.|.-+--+..+...+....|++|||| +|+|- .++..++|+.| T Consensus 109 ~fpllsD~~~~v~k~ygv~~~~~~~g~~~~~~~R~tfvID~~G~I~~~~~~~~~~~~~eevL~~L 173 (179) T 3ixr_A 109 TFPLVSDSDAILCKAFDVIKEKTMYGRQVIGIERSTFLIGPTHRIVEAWRQVKVPGHAEEVLNKL 173 (179) T ss_dssp CSCEEECTTCHHHHHTTCEEEECCC--CEEEECCEEEEECTTSBEEEEECSCCSTTHHHHHHHHH T ss_pred EEEEEECCCCHHHHHCCCEECCCCCCCCCCCCCCEEEEECCCCEEEEEEECCCCCCCHHHHHHHH T ss_conf 78764479853899849722444357545750567999899998999881899886899999999 No 3 >1tp9_A Peroxiredoxin, PRX D (type II); oligomer, thioredoxin fold, oxidoreductase; 1.62A {Populus trichocarpa} SCOP: c.47.1.10 Probab=40.00 E-value=4 Score=19.41 Aligned_cols=15 Identities=13% Similarity=0.248 Sum_probs=10.6 Q ss_pred CCCCEEEEEECCEEC Q ss_conf 147247997094542 Q gi|254780449|r 327 DLNRASFIFNGKKLA 341 (459) Q Consensus 327 D~NrasFIvNgkkIs 341 (459) -+.|++||+|+++|. T Consensus 126 ~s~R~~fiIddg~I~ 140 (162) T 1tp9_A 126 RSRRFALLVDDLKVK 140 (162) T ss_dssp EECCEEEEEETTEEE T ss_pred EEEEEEEEEECCEEE T ss_conf 479999999899999 No 4 >3gkn_A Bacterioferritin comigratory protein; BCP, PRX, atypical 2-Cys, oxidoreductase; HET: BIH; 1.47A {Xanthomonas campestris PV} PDB: 3gkk_A 3gkm_A Probab=38.82 E-value=14 Score=15.77 Aligned_cols=60 Identities=22% Similarity=0.428 Sum_probs=33.1 Q ss_pred HCCCCHHCCHHHHHHHHHHHCCCCHHHHHHCCCCEEEEEE-CCEEC--------CCCHHHHHHHHHHHHC Q ss_conf 3133112071678788877256511244411472479970-94542--------0008999999985506 Q gi|254780449|r 297 EFKMVPLSDQTLFRDFQGLCGKNIDNQFILDLNRASFIFN-GKKLA--------RDNSAEAIQKLMNQFA 357 (459) Q Consensus 297 e~~~~~~~~~~~frdf~~l~g~n~dn~fllD~NrasFIvN-gkkIs--------vdN~~~mL~~l~k~f~ 357 (459) .|+.+...+..+.|.|.-+--+..+........|.+||+| .|+|- .++..++|+.+ +..+ T Consensus 93 ~~~~l~d~~~~~~~~~gv~~~~~~~~~~~~~~~~~tflID~~G~I~~~~~~~~~~~~~~~iL~~l-ka~~ 161 (163) T 3gkn_A 93 AFPLVSDGDEALCRAFDVIKEKNMYGKQVLGIERSTFLLSPEGQVVQAWRKVKVAGHADAVLAAL-KAHA 161 (163) T ss_dssp SSCEEECTTCHHHHHTTCEEEEEETTEEEEEECCEEEEECTTSCEEEEECSCCSTTHHHHHHHHH-HHHC T ss_pred CCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCCEEEEEEECCCCCCCHHHHHHHH-HHHC T ss_conf 86643483278999719400355467534555638999918998999981999786999999999-9753 No 5 >1xiy_A Peroxiredoxin, pfaop; alpha-aneurysm, thioredoxin fold, peroxiredoxin fold, oxidoreductase; 1.80A {Plasmodium falciparum} SCOP: c.47.1.10 Probab=30.22 E-value=15 Score=15.68 Aligned_cols=66 Identities=15% Similarity=0.192 Sum_probs=37.8 Q ss_pred CCCCCCCCCCCCCHHHCCCCHHCCHHHHHHHHHHHCCCCH--HHHH-HCCCCEEEEEECCEEC----------------- Q ss_conf 6544332223321343133112071678788877256511--2444-1147247997094542----------------- Q gi|254780449|r 282 PFIGNQWRDINTAHSEFKMVPLSDQTLFRDFQGLCGKNID--NQFI-LDLNRASFIFNGKKLA----------------- 341 (459) Q Consensus 282 p~~~~~~~~~~~~~~e~~~~~~~~~~~frdf~~l~g~n~d--n~fl-lD~NrasFIvNgkkIs----------------- 341 (459) ||.-+.|..-+.+ ...+|++-.+ .+|--.+|-..| ..+| .-..|+.||+++++|- T Consensus 91 pfVm~AW~~~~~~-~~i~~lsD~~----g~ftk~lGl~~d~~~~g~g~Rs~Rya~iiddg~I~~~~vE~~~~~~~~~dp~ 165 (182) T 1xiy_A 91 IYVLKSWFKSMDI-KKIKYISDGN----SSFTDSMNMLVDKSNFFMGMRPWRFVAIVENNILVKMFQEKDKQHNIQTDPY 165 (182) T ss_dssp HHHHHHHHHHTTC-CSSEEEECTT----SHHHHHTTCEEECGGGTCCEEECCEEEEEETTEEEEEEECSSCCTTCSSCCC T ss_pred HHHHHHHHHHCCC-CCCEEEECCC----HHHHHHCCCEECCCCCCCEEEEEEEEEEEECCEEEEEEEECCCCCCCCCCCC T ss_conf 9999999974663-4366811787----8999864981435668880877779999989989999983798778889875 Q ss_pred -CCCHHHHHHHH Q ss_conf -00089999999 Q gi|254780449|r 342 -RDNSAEAIQKL 352 (459) Q Consensus 342 -vdN~~~mL~~l 352 (459) +-++.+||+.| T Consensus 166 ~vSsae~iL~~L 177 (182) T 1xiy_A 166 DISTVNNVKEFL 177 (182) T ss_dssp STTSHHHHHHHH T ss_pred CCCCHHHHHHHH T ss_conf 667999999988 No 6 >2pwj_A Mitochondrial peroxiredoxin; alpha and beta protein, oxidoreductase; 2.80A {Pisum sativum} Probab=29.04 E-value=10 Score=16.65 Aligned_cols=55 Identities=15% Similarity=0.196 Sum_probs=25.7 Q ss_pred CCCCCCCCCCHHHCCCCHHCCHHHHHHHHHHHCCCCHHHHHH-CCCCEEEEEECCEEC Q ss_conf 433222332134313311207167878887725651124441-147247997094542 Q gi|254780449|r 285 GNQWRDINTAHSEFKMVPLSDQTLFRDFQGLCGKNIDNQFIL-DLNRASFIFNGKKLA 341 (459) Q Consensus 285 ~~~~~~~~~~~~e~~~~~~~~~~~frdf~~l~g~n~dn~fll-D~NrasFIvNgkkIs 341 (459) -..|+.-.-.+..++++.-.+..+-+.+. +. .+....+|- -..|++||+++++|- T Consensus 93 ~~a~~~~~~~~~~~~~l~D~~~~~~~~~g-~~-~~~~~~g~g~rs~R~afIIddG~I~ 148 (171) T 2pwj_A 93 VNAWAEKIQAKDAIEFYGDFDGSFHKSLE-LT-TDLSAGLLGIRSERWSAYVVDGKVK 148 (171) T ss_dssp HHHHHHHTTCTTTSEEEECTTCHHHHHHT-CE-EECTTTTCCEEECCEEEEEETTEEE T ss_pred HHHHHHHCCCCCEEEECCCCCHHHHHHHC-CE-ECCCCCCCCCEEEEEEEEEECCEEE T ss_conf 99887633555235533686318998607-30-6244267774368999999999999 No 7 >1prx_A HORF6; peroxiredoxin, hydrogen peroxide, redox regulation, cellular signaling, antioxidant; 2.00A {Homo sapiens} SCOP: c.47.1.10 Probab=21.97 E-value=25 Score=14.15 Aligned_cols=58 Identities=19% Similarity=0.182 Sum_probs=36.3 Q ss_pred HHHCCCCHHCCHHHHHHHHHHHCCCCHHHHHHCCCCEEEEEECCE-E---------CCCCHHHHHHHH Q ss_conf 343133112071678788877256511244411472479970945-4---------200089999999 Q gi|254780449|r 295 HSEFKMVPLSDQTLFRDFQGLCGKNIDNQFILDLNRASFIFNGKK-L---------ARDNSAEAIQKL 352 (459) Q Consensus 295 ~~e~~~~~~~~~~~frdf~~l~g~n~dn~fllD~NrasFIvNgkk-I---------svdN~~~mL~~l 352 (459) +-+||++.-.+..+-+.|--+.....+.+-+.=+.|++||||-.. | .--|..|.|.-+ T Consensus 97 ~l~fpLlsD~~~~ia~~yGv~~~~~~~~~~~~~~~RatFIIDpdg~Ir~~~~~~~~~gR~~~EiLR~l 164 (224) T 1prx_A 97 KLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVV 164 (224) T ss_dssp CCSSCEEECTTCHHHHHTTSSCSCTTCSSSCCTTCCEEEEECTTSBEEEEEECCTTBCCCHHHHHHHH T ss_pred CCCCCEEECCCCHHHHHHCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHH T ss_conf 75436661686689998398334224566654023579998899979999980799897879999999 No 8 >2cr7_A Paired amphipathic helix protein SIN3B; paired amphipathic helix repeat, transcriptional repressor, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rmr_A 2rms_A Probab=21.63 E-value=33 Score=13.29 Aligned_cols=58 Identities=16% Similarity=0.389 Sum_probs=40.1 Q ss_pred CEECCCCHHHHHHHHHHHHCCCH----HHHHHHHHHHCCCH----HHHHHHHHHHHCHHH----HHHHCC Q ss_conf 45420008999999985506885----46445565420402----222689998726003----333113 Q gi|254780449|r 338 KKLARDNSAEAIQKLMNQFAKNP----KQLQLISSYANQSI----FADSVVHLMQSIPEF----AKYASK 395 (459) Q Consensus 338 kkIsvdN~~~mL~~l~k~f~kN~----e~~QLISSYAnQ~I----F~qsyi~L~sehPe~----~kYq~K 395 (459) ....++.+..-+.+.-..|.-++ +|+.++..|.++.+ +++-+..||..||++ +.|-|+ T Consensus 6 ~~~~v~dA~~fl~kVK~~f~d~p~~Y~~FL~il~~~~~~~~~~~~v~~~v~~Lf~~~pdLl~~F~~FLP~ 75 (80) T 2cr7_A 6 SGVHVEDALTYLDQVKIRFGSDPATYNGFLEIMKEFKSQSIDTPGVIRRVSQLFHEHPDLIVGFNAFLPS 75 (80) T ss_dssp CCCCSCCSHHHHHHHHHHTSSCHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHGGGCHHHHHHHHHHSSC T ss_pred CCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHCCC T ss_conf 9987899999999999998238599999999999998679989999999999985388999999978899 No 9 >1g1e_B SIN3A; four-helix bundle, protein-peptide complex, transcription; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1s5q_B 1s5r_B Probab=21.44 E-value=33 Score=13.27 Aligned_cols=54 Identities=15% Similarity=0.362 Sum_probs=32.4 Q ss_pred CCEECCCCHHHHHHHHHHHHCCCH----HHHHHHHHHHCCCH-----------------HHHHHHHHHHHCHHHH Q ss_conf 945420008999999985506885----46445565420402-----------------2226899987260033 Q gi|254780449|r 337 GKKLARDNSAEAIQKLMNQFAKNP----KQLQLISSYANQSI-----------------FADSVVHLMQSIPEFA 390 (459) Q Consensus 337 gkkIsvdN~~~mL~~l~k~f~kN~----e~~QLISSYAnQ~I-----------------F~qsyi~L~sehPe~~ 390 (459) ++.+..+.+-.-+.+....|.-+| +|+.+...|-++.| ...-+..||..||++- T Consensus 5 ~~p~~~~dA~~yl~kVK~rF~d~p~~Y~~FL~il~~f~~~~i~~~~~~~~~~~~~~~~ev~~~V~~Lf~~hpdLi 79 (89) T 1g1e_B 5 NQPVEFNHAINYVNKIKNRFQGQPDIYKAFLEILHTYQKEQRNAKEAGGNYTPALTEQEVYAQVARLFKNQEDLL 79 (89) T ss_dssp CCTHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCSCCHHHHHHHHHHHTTTCHHHH T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHH T ss_conf 799858999999999999982492999999999999986566742212223223339999999999984587999 No 10 >1vk5_A Expressed protein; structural genomics, unknown function, protein structure initiative, center for eukaryotic structural genomics, CESG; HET: CPS; 1.60A {Arabidopsis thaliana} SCOP: a.220.1.1 PDB: 2q3t_A* 3gan_A* Probab=21.43 E-value=34 Score=13.27 Aligned_cols=18 Identities=28% Similarity=0.283 Sum_probs=9.4 Q ss_pred HHHHHHHHHHHHCCCHHH Q ss_conf 899999998550688546 Q gi|254780449|r 345 SAEAIQKLMNQFAKNPKQ 362 (459) Q Consensus 345 ~~~mL~~l~k~f~kN~e~ 362 (459) ++||-|+.||++|--... T Consensus 41 rAEmYQ~yMkqiPIP~~~ 58 (157) T 1vk5_A 41 RAEMYQDYMKQVPIPTNR 58 (157) T ss_dssp HHHHHHHHHHTSCCCSSC T ss_pred HHHHHHHHHHHCCCCCCC T ss_conf 999999998738988566 Done!