Query gi|254781121|ref|YP_003065534.1| hypothetical protein CLIBASIA_05115 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 185 No_of_seqs 111 out of 516 Neff 8.5 Searched_HMMs 23785 Date Wed Jun 1 01:32:52 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781121.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3dtd_A Invasion-associated pro 99.9 9.8E-27 4.1E-31 181.8 13.3 142 35-184 21-165 (175) 2 2zf8_A MOTY, component of sodi 47.0 13 0.00053 16.0 9.4 47 138-184 99-147 (278) 3 3if8_A Hzwilch, protein zwilch 31.6 22 0.00094 14.5 2.8 38 45-86 141-178 (339) 4 1xkm_A Distinctin chain A; por 26.8 19 0.00079 15.0 1.2 13 172-184 7-19 (26) 5 2w5v_A Alkaline phosphatase; p 19.9 18 0.00075 15.1 -0.0 17 9-25 1-17 (375) 6 2kqv_A Non-structural protein 12.1 38 0.0016 13.1 0.0 13 139-151 156-168 (198) 7 1txj_A Translationally control 10.2 62 0.0026 11.8 0.6 17 36-52 121-137 (171) 8 2dck_A Xylanase J; family 11, 9.0 76 0.0032 11.3 2.7 28 34-61 28-55 (354) 9 1y0g_A Protein YCEI; lipid bin 9.0 63 0.0026 11.7 0.2 38 11-48 1-40 (191) 10 2qgu_A Probable signal peptide 8.0 67 0.0028 11.6 0.0 28 9-36 1-28 (211) No 1 >3dtd_A Invasion-associated protein B; structural genomics, PSI-2, protein structure initiative, NEW YORK structural genomix research consortium; 2.35A {Bartonella henselae} Probab=99.94 E-value=9.8e-27 Score=181.75 Aligned_cols=142 Identities=16% Similarity=0.200 Sum_probs=116.6 Q ss_pred CCCHHHCCCCCEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCEEEEEEEEECCCCCCCEEEEEC Q ss_conf 01011012377589999359871655664120002344455553057998617877610368983103467772699971 Q gi|254781121|r 35 PEPTLRNQFSRWSVYVYPDLNKKLCFSLSVPVTVEPLEGVRHGVNFFIISLKKEENSAYVSELVMDYPLDEEEMVSLEVK 114 (185) Q Consensus 35 ~~~~~~~~f~dW~v~~~~~~~~~~C~i~s~p~~~~~~~~~~~~~~~~~v~~~~~~~~~~~vs~~~gy~~~~~~~v~l~Id 114 (185) ..+...++||||+++|..++++++|++.|.+...+ .+...++.+.++++++. .+.+..|+++.+.+++.+.|| T Consensus 21 ~~~~~~etfgdW~v~C~~~~~~~~C~~~q~~~~~~-----~~~~~~~~v~~~~~~~~--~~~v~vPlG~~l~~g~~i~vD 93 (175) T 3dtd_A 21 GASSLTETYGLWSINCGIQEGKKVCFMHRQEVNDQ-----NRVVVAMSVVLNADGVV--SGNLTVPFGILVSKPVRLQVD 93 (175) T ss_dssp ---CBCEEETTEEEEECCC---CCEEEEEEEEBTT-----CCEEEEEEEEECTTSCE--EEEEEECSSBCTTSCEEEEET T ss_pred CCCCCCCCCCCCEEEEECCCCCCEEEEEEEEECCC-----CCEEEEEEEEECCCCCE--EEEEEEECCCCCCCCCEEEEE T ss_conf 88001125378527971379997799998775578-----98889999997889863--799999455105999789997 Q ss_pred CCCCCCCCCCEECCCCCCEECCCCCCHHHHHHHHCCCEEEEEEEC---CCCCEEEEEEECCCHHHHHHHHHHC Q ss_conf 665554443100037874102456696789997367769999991---8998899985144289999988734 Q gi|254781121|r 115 GKNASGTIFKMKSYNNRAAFEKRSQDTVLIEEMKRGKELVVSAKS---KRGTNTRYIYSLIGLSDSLADIRKC 184 (185) Q Consensus 115 ~~~~~~~~~~~~~~~~~a~~~~~~~d~~~i~amk~G~~~~v~~~s---~~g~~~~~~~SL~GFt~A~~~~~kc 184 (185) +++. ...+.|.+|++.||++....|+++|++||+|++++|.+.. .+|+.++++|||+||++||+++++| T Consensus 94 ~g~~-~~~l~~~~C~~~gC~a~~~~~~~~i~amk~G~~~~v~~~~~~~~~~~~~~~~~SL~Gft~Al~~L~e~ 165 (175) T 3dtd_A 94 EGKA-VIETGIRTCVPAGCIVPIVFDKNYVAALRAGKHLKLAMTIAAPGEPPLNDLFVQLNGFSNALNRLIAL 165 (175) T ss_dssp TSSC-EEEECCCEEETTEEEEEEEECHHHHHHHHHCSEEEEEEEBSSTTCCEEEEEEEECTTHHHHHHHHHHH T ss_pred CCCC-EEEEEEEEECCCCEEEECCCCHHHHHHHHHCCCCEEEEEECCCCCCCEEEEEECCHHHHHHHHHHHHH T ss_conf 6984-05776788747852988368989999998188447999974688897788778424599999999998 No 2 >2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta barrel, 2-layer sandwich, flagellum, structural protein; 2.85A {Vibrio alginolyticus} Probab=46.98 E-value=13 Score=16.00 Aligned_cols=47 Identities=13% Similarity=0.244 Sum_probs=39.6 Q ss_pred CCCHHHHHHHHCCCEEEEEEEC--CCCCEEEEEEECCCHHHHHHHHHHC Q ss_conf 6696789997367769999991--8998899985144289999988734 Q gi|254781121|r 138 SQDTVLIEEMKRGKELVVSAKS--KRGTNTRYIYSLIGLSDSLADIRKC 184 (185) Q Consensus 138 ~~d~~~i~amk~G~~~~v~~~s--~~g~~~~~~~SL~GFt~A~~~~~kc 184 (185) .....++.+|-+|...++...+ .++..+....|-..|.++|+..+.| T Consensus 99 ~~a~~ll~~L~~G~~~t~~~~~~~~~~~~v~v~ls~v~f~~~y~~f~~C 147 (278) T 2zf8_A 99 QTAWGILSELEKGRYPTFSYQDWQSRDQRIEVALSSVLFQNKYNAFSDC 147 (278) T ss_dssp HHHHHHHHHHHHTCCCEEEBCCSSSSCCEEEEBCCCSSHHHHHHHHHHH T ss_pred CCHHHHHHHHHCCCEEEEEEECCCCCCCEEEEECCCCCHHHHHHHHHHH T ss_conf 4489999999789901672304457786179973730057777889999 No 3 >3if8_A Hzwilch, protein zwilch homolog; incomplete beta-barrel, alternative splicing, cell cycle, CE division, kinetochore, mitosis, polymorphism; 2.55A {Homo sapiens} Probab=31.60 E-value=22 Score=14.51 Aligned_cols=38 Identities=18% Similarity=0.343 Sum_probs=27.5 Q ss_pred CEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCEEEEEEEC Q ss_conf 758999935987165566412000234445555305799861 Q gi|254781121|r 45 RWSVYVYPDLNKKLCFSLSVPVTVEPLEGVRHGVNFFIISLK 86 (185) Q Consensus 45 dW~v~~~~~~~~~~C~i~s~p~~~~~~~~~~~~~~~~~v~~~ 86 (185) =| |.|-..+..-+||+.+.|+++. +.-.|..++.|+-. T Consensus 141 LW-vrCD~sDpe~tcWlGaE~~~t~---n~itGi~~~~VtC~ 178 (339) T 3if8_A 141 LW-VRCDSSDPEGTCWLGAELITTN---NSITGIVLYVVSCK 178 (339) T ss_dssp EE-EEBCCCSTTCEEEEEEEEEEET---TEEEEEEEEEEEEE T ss_pred EE-EECCCCCCCCCEEECCEEEECC---CCCEEEEEEEEEEC T ss_conf 27-7637889763124321466527---86103799999964 No 4 >1xkm_A Distinctin chain A; pore-forming peptide, heterodimer, structure, homodimer, disulfide, four-helix bundle, antibiotic; NMR {Synthetic} SCOP: j.4.1.6 Probab=26.78 E-value=19 Score=14.96 Aligned_cols=13 Identities=31% Similarity=0.761 Sum_probs=11.3 Q ss_pred CCHHHHHHHHHHC Q ss_conf 4289999988734 Q gi|254781121|r 172 IGLSDSLADIRKC 184 (185) Q Consensus 172 ~GFt~A~~~~~kc 184 (185) -|||+-++.++|| T Consensus 7 pgftaliktlrkc 19 (26) T 1xkm_A 7 PGFTALIKTLRKC 19 (26) T ss_dssp HHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHC T ss_conf 7689999998746 No 5 >2w5v_A Alkaline phosphatase; psychrophiles, cold adaptation, hydrolase; HET: SEP; 1.78A {Antarctic bacterium TAB5} PDB: 2w5w_A* 2w5x_A* 2iuc_A 2iuc_B Probab=19.92 E-value=18 Score=15.11 Aligned_cols=17 Identities=12% Similarity=0.163 Sum_probs=8.3 Q ss_pred HHHHHHHHHHHHHHHHH Q ss_conf 89999999999999999 Q gi|254781121|r 9 FFVPRIRFLIVLMVSSV 25 (185) Q Consensus 9 ~~m~~~~~~~~~~~~~~ 25 (185) |.|+++.+++++++++. T Consensus 1 m~~~~~~~~l~~l~~~~ 17 (375) T 2w5v_A 1 MKLKKIVFTLIALGLFS 17 (375) T ss_dssp ----------------- T ss_pred CCCHHHHHHHHHHHHHH T ss_conf 96159999999999999 No 6 >2kqv_A Non-structural protein 3; severe acute respiratory syndrome (SARS), macrodomains, RNA-binding proteins, structural genomics, PSI-2, JCSG; NMR {Sars coronavirus} PDB: 2kqw_A Probab=12.15 E-value=38 Score=13.10 Aligned_cols=13 Identities=31% Similarity=0.498 Sum_probs=4.6 Q ss_pred CCHHHHHHHHCCC Q ss_conf 6967899973677 Q gi|254781121|r 139 QDTVLIEEMKRGK 151 (185) Q Consensus 139 ~d~~~i~amk~G~ 151 (185) ....-+.-.|+|. T Consensus 156 ~t~~~V~~~KrGd 168 (198) T 2kqv_A 156 RTELGVEFLKRGD 168 (198) T ss_dssp ------------- T ss_pred EEEEEEEEEECCC T ss_conf 5898878984598 No 7 >1txj_A Translationally controlled tumour-associated protein (TCTP) from plasmodium knowlesi,...; structural genomics consortium, SGC; 2.00A {Plasmodium knowlesi} SCOP: b.88.1.2 Probab=10.19 E-value=62 Score=11.77 Aligned_cols=17 Identities=12% Similarity=0.280 Sum_probs=13.0 Q ss_pred CCHHHCCCCCEEEEEEE Q ss_conf 10110123775899993 Q gi|254781121|r 36 EPTLRNQFSRWSVYVYP 52 (185) Q Consensus 36 ~~~~~~~f~dW~v~~~~ 52 (185) -...+++|+||+.|+.+ T Consensus 121 vK~il~~Fkd~qFf~GE 137 (171) T 1txj_A 121 IKHILTNFDDFEFYMGE 137 (171) T ss_dssp HHHHHHTGGGCEEEECT T ss_pred HHHHHHHCCCCEEECCC T ss_conf 99998657564385258 No 8 >2dck_A Xylanase J; family 11, xylan binding domain (XBM), beta-jelly roll, alkaliphilic xylanase, hydrolase; 2.10A {Bacillus SP} PDB: 2dcj_A Probab=9.01 E-value=76 Score=11.26 Aligned_cols=28 Identities=4% Similarity=-0.024 Sum_probs=14.8 Q ss_pred HCCCHHHCCCCCEEEEEEECCCCCEEEE Q ss_conf 1010110123775899993598716556 Q gi|254781121|r 34 QPEPTLRNQFSRWSVYVYPDLNKKLCFS 61 (185) Q Consensus 34 ~~~~~~~~~f~dW~v~~~~~~~~~~C~i 61 (185) +..+...+++..+...-..+.++..|+- T Consensus 28 ~~t~n~~g~~~gy~y~~W~d~~g~~~~t 55 (354) T 2dck_A 28 AITSNEIGTHDGYDYEFWKDSGGSGSMT 55 (354) T ss_dssp CBCSCEEEEETTEEEEEEECSSSEEEEE T ss_pred CCCCCCCEEECCEEEEEEECCCCCEEEE T ss_conf 0056761526898999995699847999 No 9 >1y0g_A Protein YCEI; lipid binding protein, lipocalin, cofactor, coenzyme, dehydrogenase, hydrolase, predicted, structural genomics; HET: 8PP; 2.20A {Escherichia coli} SCOP: b.61.6.1 Probab=9.01 E-value=63 Score=11.74 Aligned_cols=38 Identities=16% Similarity=0.157 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHC--CCCCEEE Q ss_conf 9999999999999999865433210101101--2377589 Q gi|254781121|r 11 VPRIRFLIVLMVSSVSAGYANASQPEPTLRN--QFSRWSV 48 (185) Q Consensus 11 m~~~~~~~~~~~~~~~~~~a~a~~~~~~~~~--~f~dW~v 48 (185) |+++.+.+.++.+++....+.++........ +.=.|.+ T Consensus 1 Mkk~~~~l~~~~l~~~~~~a~a~~~~id~~~~hS~v~F~~ 40 (191) T 1y0g_A 1 MKKSLLGLTFASLMFSAGSAVAADYKIDKEGQHAFVNFRI 40 (191) T ss_dssp ----------------------CEEEECTTTTCEEEEEEE T ss_pred CCHHHHHHHHHHHHHHHCCCCCCCEEECCCCCEEEEEEEE T ss_conf 9336999999999976022036537976888648999999 No 10 >2qgu_A Probable signal peptide protein; NESG, RSR89, Q8XV73, X-RAY, structural genomics, PSI-2, protein structure initiative; HET: MSE PEF; 1.50A {Ralstonia solanacearum GMI1000} Probab=7.97 E-value=67 Score=11.58 Aligned_cols=28 Identities=14% Similarity=0.129 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 8999999999999999998654332101 Q gi|254781121|r 9 FFVPRIRFLIVLMVSSVSAGYANASQPE 36 (185) Q Consensus 9 ~~m~~~~~~~~~~~~~~~~~~a~a~~~~ 36 (185) |+++.++.+++.++++......++.+++ T Consensus 1 M~k~~~~~l~~~l~~~~~~~~~~a~a~~ 28 (211) T 2qgu_A 1 MFKKLLHSLVAGLTFVAAVAAVPAHAQE 28 (211) T ss_dssp ---------------------------- T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 9489999999999999998456533231 Done!