Query gi|254780507|ref|YP_003064920.1| hypothetical protein CLIBASIA_01970 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 176 No_of_seqs 109 out of 111 Neff 6.2 Searched_HMMs 23785 Date Tue May 31 22:05:42 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780507.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1qrj_B HTLV-I capsid protein; 44.0 6 0.00025 18.7 1.0 73 86-158 98-177 (199) 2 2j7a_C Cytochrome C quinol deh 33.3 7 0.00029 18.3 -0.1 25 2-26 13-37 (159) 3 1use_A VAsp, vasodilator-stimu 19.2 43 0.0018 13.8 1.8 20 107-126 6-25 (45) 4 3owq_A LIN1025 protein; struct 19.1 42 0.0018 13.8 1.7 19 44-62 66-84 (321) 5 1yiz_A Kynurenine aminotransfe 13.4 62 0.0026 12.8 5.9 11 113-123 324-334 (429) 6 2zkr_t 60S ribosomal protein L 10.3 79 0.0033 12.2 1.5 42 131-175 102-143 (145) 7 1win_A Flotillin 2; BAND 7 dom 9.7 83 0.0035 12.1 9.6 92 55-152 24-134 (143) 8 2fp4_B Succinyl-COA ligase [GD 9.7 62 0.0026 12.9 0.4 41 95-138 286-326 (395) 9 1o65_A Hypothetical protein YI 9.2 53 0.0022 13.2 -0.1 46 85-132 181-228 (246) 10 1cf7_B Protein (transcription 9.1 88 0.0037 12.0 3.4 48 84-132 32-79 (95) No 1 >1qrj_B HTLV-I capsid protein; retrovirus, two-domain protein, alpha helical protein, heteronuclear spectroscopy; NMR {Human t-cell lymphotrophic virus TYPE1} SCOP: a.28.3.1 a.73.1.1 Probab=44.02 E-value=6 Score=18.69 Aligned_cols=73 Identities=8% Similarity=0.099 Sum_probs=58.0 Q ss_pred HHHHHHHHHHCC-------CHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCHHHHHHHHHHCCCCCC Q ss_conf 999999998458-------2345303013698999999999999995867145523201113699999742421367876 Q gi|254780507|r 86 ATDYLYTLLSGP-------PMGDFVQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNYLSIVDMRSNCLRLGSNAS 158 (176) Q Consensus 86 i~D~~~~~L~~~-------~~~D~~~~~~~~l~~lk~~I~~~vN~~lG~~~V~DVLi~~f~y~~k~~ir~~~~r~~~~~~ 158 (176) ++-.+++.+... +..++.......+..+=+++.+.+....+.+-.++.++++|-|=+-.++....+|..+.+. T Consensus 98 ~~~~~l~a~~~~~~~~~~~~~~~i~Qgp~E~~~~fv~RL~~a~~~~~~~~~~~~~l~~~l~~qnAn~~ck~~lr~~~~~~ 177 (199) T 1qrj_B 98 YQQLWLAAFAALPGSAKDPSWASILQGLEEPYHAFVERLNIALDNGLPEGTPKDPILRSLAYSNANKECQKLLQARGHTN 177 (199) T ss_dssp HHHHHHHHHHTSSSSCCCCSGGGCCBCTTSCHHHHHHHHHHHHHTTCCTTSCCHHHHHHHHTTTBCHHHHHHHHHTTCSS T ss_pred HHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCC T ss_conf 99999999983778888634888652899998999999999998775988788999999999736399999987168999 No 2 >2j7a_C Cytochrome C quinol dehydrogenase NRFH; cytochrome C nitrite reductase, NRFA, NAPC/NIRT family, membrane complex, oxidoreductase; HET: HEM LMT; 2.3A {Desulfovibrio vulgaris} PDB: 2vr0_C* Probab=33.31 E-value=7 Score=18.32 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=17.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 9999999999999999999997402 Q gi|254780507|r 2 LKFLFSGIWISVVTLISFYMLFLRS 26 (176) Q Consensus 2 iklii~gvwi~~Vtlga~Yf~~~~~ 26 (176) +++|++|+.+.++.+++.++.+.+. T Consensus 13 l~lvl~g~~~g~~~~~~~~~~~~~t 37 (159) T 2j7a_C 13 LKLVLGGATLGVVALATVAFGMKYT 37 (159) T ss_dssp -CCSTTTHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 1448999999999999999998743 No 3 >1use_A VAsp, vasodilator-stimulated phosphoprotein; signaling protein, null; 1.3A {Homo sapiens} SCOP: h.1.29.1 PDB: 1usd_A Probab=19.16 E-value=43 Score=13.77 Aligned_cols=20 Identities=10% Similarity=0.312 Sum_probs=12.9 Q ss_pred CCCHHHHHHHHHHHHHHHHC Q ss_conf 36989999999999999958 Q gi|254780507|r 107 AFGFDNLRKKIKEDLNSRLG 126 (176) Q Consensus 107 ~~~l~~lk~~I~~~vN~~lG 126 (176) ..|++.+|++|.+.+.+.|. T Consensus 6 ~~dl~rlKqeIL~EvRkEl~ 25 (45) T 1use_A 6 YSDLQRVKQELLEEVKKELQ 25 (45) T ss_dssp HHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHH T ss_conf 51589999999999999999 No 4 >3owq_A LIN1025 protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, unknown function; 2.61A {Listeria innocua} PDB: 3nro_A Probab=19.07 E-value=42 Score=13.82 Aligned_cols=19 Identities=11% Similarity=0.111 Sum_probs=11.7 Q ss_pred CCCCCCCEEEEEECCCCEE Q ss_conf 4111585078764068623 Q gi|254780507|r 44 NIIKSELVSIPSVSNGVLQ 62 (176) Q Consensus 44 eyVkl~~i~VPvI~dg~v~ 62 (176) +..+-++++|-+++-+... T Consensus 66 ~~~~~~~~niLl~G~D~~~ 84 (321) T 3owq_A 66 DLEKKKPFSVLLMGSDARP 84 (321) T ss_dssp ----CCCEEEEEEECC--- T ss_pred CCCCCCCEEEEEEEECCCC T ss_conf 5456886799999965899 No 5 >1yiz_A Kynurenine aminotransferase; glutamine transaminase; kynurenic acid, mosquito, PLP-enzyme, pyridoxal phosphate, PLP; HET: LLP; 1.55A {Aedes aegypti} SCOP: c.67.1.1 PDB: 1yiy_A* 2r5c_A* 2r5e_A* Probab=13.37 E-value=62 Score=12.83 Aligned_cols=11 Identities=18% Similarity=0.084 Sum_probs=4.3 Q ss_pred HHHHHHHHHHH Q ss_conf 99999999999 Q gi|254780507|r 113 LRKKIKEDLNS 123 (176) Q Consensus 113 lk~~I~~~vN~ 123 (176) .|+.+.+.+++ T Consensus 324 ~r~~l~~~L~~ 334 (429) T 1yiz_A 324 KRDYMASFLAE 334 (429) T ss_dssp HHHHHHHHHHH T ss_pred HHHHHHHHHHH T ss_conf 99999999986 No 6 >2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Probab=10.29 E-value=79 Score=12.24 Aligned_cols=42 Identities=26% Similarity=0.347 Sum_probs=21.5 Q ss_pred EEEEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCC Q ss_conf 552320111369999974242136787664533435111026888 Q gi|254780507|r 131 SEVLIDELNYLSIVDMRSNCLRLGSNASDLMTQKGSLIEKNKEPL 175 (176) Q Consensus 131 ~DVLi~~f~y~~k~~ir~~~~r~~~~~~~~~~~~~~~~~~~~~p~ 175 (176) .+|.|+.+| ++++ |...+-+.+.+.-....+|+..|.+.+++ T Consensus 102 Snv~ItkL~-lDk~--Rk~~Lerk~~~~~~~~~kgk~~e~~~~~~ 143 (145) T 2zkr_t 102 SKVVITRLK-LDKD--RKKILERKAKSRQVGKEKGKYKEETIEKM 143 (145) T ss_dssp GGEEECC-C-CCHH--HHHHHHC---------------------- T ss_pred CCEEEEEEC-CCHH--HHHHHHHHCCCCCCCCCCCCCCHHHHHHH T ss_conf 106999862-6816--89986011012321000268767677664 No 7 >1win_A Flotillin 2; BAND 7 domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, cell adhesion; NMR {Mus musculus} SCOP: d.43.2.1 Probab=9.73 E-value=83 Score=12.12 Aligned_cols=92 Identities=13% Similarity=0.082 Sum_probs=56.0 Q ss_pred EECCCCEEEEEEEEEEEEECHHH-----------------HHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHH Q ss_conf 64068623699999999827579-----------------9764439999999999845823453030136989999999 Q gi|254780507|r 55 SVSNGVLQAYFLVKLSFIVNDSQ-----------------ERSYLKEIATDYLYTLLSGPPMGDFVQIKAFGFDNLRKKI 117 (176) Q Consensus 55 vI~dg~v~~yv~~~l~~eV~~~~-----------------~~~~~~p~i~D~~~~~L~~~~~~D~~~~~~~~l~~lk~~I 117 (176) ++..+++.=-+-+.+.|-|.+.. ....+.+.+...+=..+...+..++-. ++ +.+.+++ T Consensus 24 v~T~D~v~i~V~a~v~~rI~d~~~~v~~a~~~~~~~~~~~~~~~i~~~~~~~lR~vi~~~~~~el~~-~R---~~i~~~v 99 (143) T 1win_A 24 VETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNVVLQTLEGHLRSILGTLTVEQIYQ-DR---DQFAKLV 99 (143) T ss_dssp EECSSSCEEEECCEEEEEECCCSSCCHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHSCHHHHHH-TH---HHHHHHH T ss_pred EECCCCCEEEEEEEEEEEECCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH-CH---HHHHHHH T ss_conf 7858897797436999999495999999999862477889999999999999999998637888860-89---9999999 Q ss_pred HHHHHHHHCC--CCEEEEEEEEECCCCHHHHHHHHHH Q ss_conf 9999999586--7145523201113699999742421 Q gi|254780507|r 118 KEDLNSRLGS--QFISEVLIDELNYLSIVDMRSNCLR 152 (176) Q Consensus 118 ~~~vN~~lG~--~~V~DVLi~~f~y~~k~~ir~~~~r 152 (176) ++.+++.+.. =.|.+|.|+++++ + .++.++..+ T Consensus 100 ~~~i~~~l~~~Gi~V~~v~I~dI~~-~-~~~~~a~~~ 134 (143) T 1win_A 100 REVAAPDVGRMGIEILSFTIKDVYD-K-VDYLSSLGK 134 (143) T ss_dssp HHHHHHHHTTTTEEEEEEECCCEEC-T-TCHHHHHCC T ss_pred HHHHHHHHHHCCEEEEEEEEEEECC-C-HHHHHHHHH T ss_conf 9999999876594999999996078-2-899999999 No 8 >2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B* 2fpp_B* 1euc_B* 1eud_B* Probab=9.66 E-value=62 Score=12.86 Aligned_cols=41 Identities=7% Similarity=0.182 Sum_probs=22.3 Q ss_pred HCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEE Q ss_conf 45823453030136989999999999999958671455232011 Q gi|254780507|r 95 SGPPMGDFVQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDEL 138 (176) Q Consensus 95 ~~~~~~D~~~~~~~~l~~lk~~I~~~vN~~lG~~~V~DVLi~~f 138 (176) +|-+...|-..+.- +=.+++.+...-.+..+.|+-+||-=| T Consensus 286 ~Gg~pANFlD~GG~---a~~e~v~~a~~iil~d~~vk~iliNIf 326 (395) T 2fp4_B 286 NGGKPANFLDLGGG---VKESQVYQAFKLLTADPKVEAILVNIF 326 (395) T ss_dssp TTCCBCEEEECCSS---CCHHHHHHHHHHHHHCTTCCEEEEEEE T ss_pred CCCCCCEEEECCCC---CCHHHHHHHHHHHHCCCCCCEEEEEEE T ss_conf 15773315641788---878999999999963999878999980 No 9 >1o65_A Hypothetical protein YIIM; structural genomics, unknown function; 2.33A {Escherichia coli} SCOP: b.58.1.2 PDB: 1o67_A Probab=9.16 E-value=53 Score=13.21 Aligned_cols=46 Identities=13% Similarity=0.145 Sum_probs=28.7 Q ss_pred HHHHHHHHHHHCCCH--HHHHCCCCCCHHHHHHHHHHHHHHHHCCCCEEE Q ss_conf 999999999845823--453030136989999999999999958671455 Q gi|254780507|r 85 IATDYLYTLLSGPPM--GDFVQIKAFGFDNLRKKIKEDLNSRLGSQFISE 132 (176) Q Consensus 85 ~i~D~~~~~L~~~~~--~D~~~~~~~~l~~lk~~I~~~vN~~lG~~~V~D 132 (176) .....+++++|.+.. ..+.. ..+++.|-++.++.+.+||-.+.|.| T Consensus 181 ~tv~~~~~~~~~~~~~~~~l~~--ll~~~~L~~~wr~~~~kRL~~g~~ed 228 (246) T 1o65_A 181 VTVQEAAAIAWHMPFDDDQYHR--LLSAAGLSKSWTRTMQKRRLSGKIED 228 (246) T ss_dssp CBHHHHHHHHHTSCCCHHHHHH--HHTSTTCCHHHHHHHHHHHHHTSCCC T ss_pred CCHHHHHHHHHCCCCCHHHHHH--HHCCCCCCHHHHHHHHHHHHCCCCCC T ss_conf 9899999998548889999999--86687668999999999987098757 No 10 >1cf7_B Protein (transcription factor DP-2); E2F, winged-helix, DNA-binding domain, cell cycle, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: a.4.5.17 Probab=9.11 E-value=88 Score=11.98 Aligned_cols=48 Identities=19% Similarity=0.313 Sum_probs=35.2 Q ss_pred HHHHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCEEE Q ss_conf 9999999999845823453030136989999999999999958671455 Q gi|254780507|r 84 EIATDYLYTLLSGPPMGDFVQIKAFGFDNLRKKIKEDLNSRLGSQFISE 132 (176) Q Consensus 84 p~i~D~~~~~L~~~~~~D~~~~~~~~l~~lk~~I~~~vN~~lG~~~V~D 132 (176) -.+.|+++..+.+. .........++...+|.++=+.+|--.+-++|.. T Consensus 32 neVAdeLV~e~~~~-~~~~~~~~~~deKNi~RRvYD~~nVl~~~~~i~k 79 (95) T 1cf7_B 32 NEVADELVSEFTNS-NNHLAADSAYDQKNIRRRVYDALNVLMAMNIISK 79 (95) T ss_dssp HHHHHHHHHHHHTC-TTCCGGGSHHHHHHHHHHHHHHHHHHHHTTSBCC T ss_pred HHHHHHHHHHHHHC-CCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHC T ss_conf 99999999997503-2578861000102478899999999998738860 Done!