Query gi|254780929|ref|YP_003065342.1| hypothetical protein CLIBASIA_04140 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 408 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 19:59:35 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780929.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2ww8_A RRGA, cell WALL surfac 95.8 0.02 5.8E-07 37.2 5.2 59 326-393 202-267 (269) 2 >1x9d_A Endoplasmic reticulum 41.5 6.4 0.00019 19.3 0.0 63 295-366 155-227 (305) 3 >1pp9_C Cytochrome B; cytochro 39.5 5 0.00015 20.0 -0.8 55 206-278 33-87 (101) 4 >3cx5_C Cytochrome B-C1 comple 35.8 7.4 0.00022 18.9 -0.4 53 205-275 33-85 (106) 5 >3kp1_E D-ornithine aminomutas 31.7 13 0.00039 17.0 0.3 38 34-78 20-57 (76) 6 >2ri9_A Mannosyl-oligosacchari 26.0 15 0.00045 16.6 -0.2 78 285-375 19-98 (100) 7 >2jhn_A ALKA, 3-methyladenine 25.7 39 0.0011 13.7 2.3 33 50-82 6-38 (61) 8 >3kmp_A SMAD1-MH1; protein-DNA 24.6 20 0.00059 15.8 0.2 15 220-234 94-108 (110) 9 >2v6z_M DNA polymerase epsilon 23.0 41 0.0012 13.5 1.6 18 315-332 81-98 (99) 10 >2qjy_A Cytochrome B; cytochro 22.8 18 0.00054 16.1 -0.3 49 207-273 35-83 (104) 11 >3imo_A Integron cassette prot 22.7 44 0.0013 13.3 2.1 16 379-394 46-61 (133) 12 >2odp_A Complement C2; C3/C5 c 21.8 46 0.0014 13.2 2.6 55 339-393 156-213 (224) No 1 >>2ww8_A RRGA, cell WALL surface anchor family protein; IGG, pilus, CNA_B, adhesin, integrin, cell adhesion; HET: EPE; 1.90A {Streptococcus pneumoniae} (A:221-279,A:318-447,A:506-585) Probab=95.76 E-value=0.02 Score=37.21 Aligned_cols=59 Identities=19% Similarity=0.300 Sum_probs=41.7 Q ss_pred HHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCC-------HHHHHHHHCCCCHHEEEECCCCCHHHHHHHHHHHH Q ss_conf 999998599887511476416899740488742-------02678763059032044258765344789877777 Q gi|254780929|r 326 EKVLQDCHYMHKRHRTGRDAITIFSVGFSPDQD-------TRYTLRQCASDPSKYYEINSDENVMPIAKSLARNV 393 (408) Q Consensus 326 ekvlqdchymhkrhrtgrdaitifsvgfspdqd-------trytlrqcasdpskyyeinsdenvmpiakslarnv 393 (408) ...+..|-.+.. ..|+||+|||..+-+ .++-|+.|||+|+.||+... .-.+-+++|+.. T Consensus 202 ~~~~~~c~~~k~------~~i~i~ti~~~~~~~~~~~~~~~~~~l~~cas~~~~y~~~~~---~~~~f~~ia~~~ 267 (269) T 2ww8_A 202 PTRWYYNGNIAP------DGYDVFTVGIGINGDPGTDEATATSFMQSISSKPENYTNVTD---TTKILEQLNRYF 267 (269) T ss_dssp HHHHHHHHHTGG------GCCEEEEEEESCCCTTTSCHHHHHHHHHHTSSSGGGEEEESS---GGGHHHHHHHHH T ss_pred CEEEEEEEECCC------CCCEEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCEEEECC---CCCEECCCCCCC T ss_conf 305788752046------763035776771564210023430577566116653264056---651111335541 No 2 >>1x9d_A Endoplasmic reticulum mannosyl-oligosaccharide 1, 2-alpha-mannosidase; substrate analogue, glycosyl hydrolase; HET: SMD; 1.41A {Homo sapiens} (A:1-125,A:337-516) Probab=41.51 E-value=6.4 Score=19.28 Aligned_cols=63 Identities=25% Similarity=0.434 Sum_probs=38.5 Q ss_pred CCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCC----------CCCHHHHHH Q ss_conf 3446766770799997345100333028999999998599887511476416899740488----------742026787 Q gi|254780929|r 295 CFPHGASQNKYMLMLAIGNQLSRSSVEKEKIEKVLQDCHYMHKRHRTGRDAITIFSVGFSP----------DQDTRYTLR 364 (408) Q Consensus 295 cfphgasqnkymlmlaignqlsrssvekekiekvlqdchymhkrhrtgrdaitifsvgfsp----------dqdtrytlr 364 (408) ||--| |+|+|.++....-.-+--++....|+.+-++..||--. .+|+....+ ..|.+|-|| T Consensus 155 cF~gG--------~~aLg~~~~~~~~~l~~a~~l~~~c~~~y~~~~tGl~P-E~~~~~~~~~~~~~~~~~~~~~~~y~LR 225 (305) T 1x9d_A 155 CFLPG--------TLALGVYHGLPASHMELAQELMETCYQMNRQMETGLSP-EIVHFNLYPQPGRRDVEVKPADRHNLLR 225 (305) T ss_dssp GHHHH--------HHHHHHHTTCCHHHHHHHHHHHHHHHHHHHTSTTSCCC-SEEECCSSCCTTCCSCBCCGGGCCBCCC T ss_pred HHHHH--------HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC-EEEEECCCCCCCCCCCCCCCCCCCCCCC T ss_conf 87677--------88760124787679999999999999988624167986-5665346687555666557345577889 Q ss_pred HH Q ss_conf 63 Q gi|254780929|r 365 QC 366 (408) Q Consensus 365 qc 366 (408) -- T Consensus 226 PE 227 (305) T 1x9d_A 226 PE 227 (305) T ss_dssp CH T ss_pred CH T ss_conf 22 No 3 >>1pp9_C Cytochrome B; cytochrome BC1, membrane protein, heme protein, rieske iron sulfur protein, cytochrome B; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} (C:108-208) Probab=39.46 E-value=5 Score=20.05 Aligned_cols=55 Identities=36% Similarity=0.582 Sum_probs=39.5 Q ss_pred HCHHHHHHHHHHHCCCCCEECCCCHHHHHHHEEEEEEEEEECCCCCHHHHHCCCCCCCHHCCHHHHHHHHHHH Q ss_conf 0522578988761874320027202344341221125786258621256541864211000608999888741 Q gi|254780929|r 206 LNRNTLVKNFLSQIPYKNFCMAPYHYSSILYWAVGTLTYSVDNKTTTREYYKDPYYATWDHFPYSFIKNVFDM 278 (408) Q Consensus 206 lnrntlvknflsqipyknfcmapyhyssilywavgtltysvdnktttreyykdpyyatwdhfpysfiknvfdm 278 (408) .=..|...|.||.|||-. ..+..|.-|. +||||.|-||-+- -||-..||---..| T Consensus 33 FWGAtVITNLlSAiPYiG--------~~lV~WiWGG--fsvdnaTLtRFF~--------fHF~lPFii~~~~~ 87 (101) T 1pp9_C 33 FWGATVITNLLSAIPYIG--------TNLVEWIWGG--FSVDKATLTRFFA--------FHFILPFIIMAIAM 87 (101) T ss_dssp HHHHHHHHGGGGGSTTTH--------HHHHHHHHTS--SSSCHHHHHHHHH--------HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCC--------CCHHHHEECC--CCCCCCHHHHHHH--------HHHHHHHHHHHHHH T ss_conf 889999999898756587--------5423010357--5787412778999--------99999999999999 No 4 >>3cx5_C Cytochrome B-C1 complex subunit 8; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} (C:108-213) Probab=35.79 E-value=7.4 Score=18.86 Aligned_cols=53 Identities=30% Similarity=0.491 Sum_probs=38.8 Q ss_pred HHCHHHHHHHHHHHCCCCCEECCCCHHHHHHHEEEEEEEEEECCCCCHHHHHCCCCCCCHHCCHHHHHHHH Q ss_conf 70522578988761874320027202344341221125786258621256541864211000608999888 Q gi|254780929|r 205 YLNRNTLVKNFLSQIPYKNFCMAPYHYSSILYWAVGTLTYSVDNKTTTREYYKDPYYATWDHFPYSFIKNV 275 (408) Q Consensus 205 ylnrntlvknflsqipyknfcmapyhyssilywavgtltysvdnktttreyykdpyyatwdhfpysfiknv 275 (408) -.=..|...|++|.|||.. .+|..|.-|- +||||.|-+|-|- -||-..|+--. T Consensus 33 SfWgATVITNL~SaiP~iG--------~~iV~wlWGG--fsV~n~TL~RFfs--------lHfllPFii~~ 85 (106) T 3cx5_C 33 SHWGATVITNLFSAIPFVG--------NDIVSWLWGG--FSVSNPTIQRFFA--------LHYLVPFIIAA 85 (106) T ss_dssp HHHHHHHHHHGGGGSTTTH--------HHHHHHHHTS--SSSCHHHHHHHHH--------HHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHCCCCC--------CCCHHHHCCC--CCCCCCHHHHHHH--------HHHHHHHHHHH T ss_conf 2249999998998728273--------0019886188--7789614759999--------99998999999 No 5 >>3kp1_E D-ornithine aminomutase S component; 5 aminomutase (OAM); HET: PLP B12 5AD; 2.01A {Clostridium sticklandii} PDB: 3kow_E* 3koy_E* 3koz_E* 3kp0_E* 3kox_E* (E:46-121) Probab=31.67 E-value=13 Score=17.03 Aligned_cols=38 Identities=37% Similarity=0.575 Sum_probs=29.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCHH Q ss_conf 999999876677776667899998776520683323667741223 Q gi|254780929|r 34 VAIVDVVVDQVTVMQKTAWLQEVLDHVIYRTSPKNLYDLREAGRD 78 (408) Q Consensus 34 vaivdvvvdqvtvmqktawlqevldhviyrtspknlydlreagrd 78 (408) -+||+-|++. -.|-|-| .|+.||-+.+.--|.||||+. T Consensus 20 k~iVe~v~~~-gLlgKGA------GhvV~kiak~~~i~i~eAG~~ 57 (76) T 3kp1_E 20 KAIVDKTMDR-GLMGKGA------GHIVYKIAKEKNISVREAGLA 57 (76) T ss_dssp HHHHHHHHHT-TCGGGCH------HHHHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHHHH-CCCCCCC------CHHHHHHHHHCCCCHHHHHHH T ss_conf 9999999980-5445775------532235797629988999999 No 6 >>2ri9_A Mannosyl-oligosaccharide alpha-1,2-mannosidase; alternative conformations, modulation of activity, glycoprotein, glycosidase, hydrolase; HET: NAG NDG MAN MMA; 1.95A {Penicillium citrinum} (A:267-366) Probab=25.99 E-value=15 Score=16.62 Aligned_cols=78 Identities=13% Similarity=0.211 Sum_probs=49.9 Q ss_pred CCEEEECCCC--CCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHH Q ss_conf 8426413674--34467667707999973451003330289999999985998875114764168997404887420267 Q gi|254780929|r 285 DGQVLTNTNH--CFPHGASQNKYMLMLAIGNQLSRSSVEKEKIEKVLQDCHYMHKRHRTGRDAITIFSVGFSPDQDTRYT 362 (408) Q Consensus 285 dgqvltntnh--cfphgasqnkymlmlaignqlsrssvekekiekvlqdchymhkrhrtgrdaitifsvgfspdqdtryt 362 (408) +|..-....| ||--| |+|+|-.+....-.-+--++....|+.|..+-.||--.- || .|.|+++.. T Consensus 19 ~~~~~p~~~HL~CF~gG--------m~aLGa~~~~~~~~l~~a~~Lt~tC~~~Y~~t~TGl~PE-~~--~f~~~~~~~-- 85 (100) T 2ri9_A 19 NRNYDLSSQHLTCFDGG--------SFLLGGTVLDRQDFIDFGLELVDGCEATYNSTLTKIGPD-SW--GWDPKKVPS-- 85 (100) T ss_dssp TTEEECEEETGGGGHHH--------HHHHHHHHHTCHHHHHHHHHHHHHHHHHHHTSSSSCCCS-EE--ECCTTCCCG-- T ss_pred CCCCCCCCCHHHHHHCH--------HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-EE--CCCCCCCCC-- T ss_conf 88777640058675042--------666266233507789989999999999999747624784-21--466545677-- Q ss_pred HHHHCCCCHHEEE Q ss_conf 8763059032044 Q gi|254780929|r 363 LRQCASDPSKYYE 375 (408) Q Consensus 363 lrqcasdpskyye 375 (408) ...|--++..||- T Consensus 86 ~~~~~~~~~~~yi 98 (100) T 2ri9_A 86 DQKEFYEKAGFYI 98 (100) T ss_dssp GGHHHHHHHSCEE T ss_pred CCCHHCCCCCCEE T ss_conf 5200034677154 No 7 >>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A (A:235-295) Probab=25.68 E-value=39 Score=13.71 Aligned_cols=33 Identities=15% Similarity=0.286 Sum_probs=24.1 Q ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHCCHHHHHH Q ss_conf 678999987765206833236677412235789 Q gi|254780929|r 50 TAWLQEVLDHVIYRTSPKNLYDLREAGRDNFIR 82 (408) Q Consensus 50 tawlqevldhviyrtspknlydlreagrdnfir 82 (408) |.|...++.+.-......+.-++++.+|+.|-+ T Consensus 6 tVWIkrim~~~Y~~~~~~s~~~i~~f~r~~FG~ 38 (61) T 2jhn_A 6 DLGVRRAVSRLYFNGEIQSAEKVREIARERFGR 38 (61) T ss_dssp CHHHHHHHHHHHSTTCCCCHHHHHHHHHHHTGG T ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCC T ss_conf 799999999970888899999999999875666 No 8 >>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta hairpin, nucleus, transcription; 2.70A {Mus musculus} (A:15-124) Probab=24.58 E-value=20 Score=15.77 Aligned_cols=15 Identities=40% Similarity=1.061 Sum_probs=11.5 Q ss_pred CCCCEECCCCHHHHH Q ss_conf 743200272023443 Q gi|254780929|r 220 PYKNFCMAPYHYSSI 234 (408) Q Consensus 220 pyknfcmapyhyssi 234 (408) .....|.-|||||-| T Consensus 94 ~~~~VC~NPyHy~Rv 108 (110) T 3kmp_A 94 KQKEVCINPYHYKRV 108 (110) T ss_dssp CCSEEECCGGGEEEC T ss_pred CCCEEEECCCCHHHC T ss_conf 998088487217540 No 9 >>2v6z_M DNA polymerase epsilon subunit 2; DNA replication, DPOE2, transferase, AAA protein family; HET: DNA; NMR {Homo sapiens} (M:) Probab=22.98 E-value=41 Score=13.50 Aligned_cols=18 Identities=28% Similarity=0.503 Sum_probs=8.1 Q ss_pred CCHHHHHHHHHHHHHHHH Q ss_conf 003330289999999985 Q gi|254780929|r 315 LSRSSVEKEKIEKVLQDC 332 (408) Q Consensus 315 lsrssvekekiekvlqdc 332 (408) |+-+-||++-||+.+|+| T Consensus 81 Lss~~Ier~~iE~AVkEC 98 (99) T 2v6z_M 81 LSSNMIERSVVEAAVQES 98 (99) T ss_dssp CSSSEECHHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHHC T ss_conf 981040399999999862 No 10 >>2qjy_A Cytochrome B; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM TM helix rieske; HET: BGL HEM SMA LOP UQ2; 2.40A {Rhodobacter sphaeroides} PDB: 2fyn_A* 2qjk_A* 2qjp_A* 1zrt_C* (A:123-226) Probab=22.81 E-value=18 Score=16.05 Aligned_cols=49 Identities=29% Similarity=0.409 Sum_probs=36.3 Q ss_pred CHHHHHHHHHHHCCCCCEECCCCHHHHHHHEEEEEEEEEECCCCCHHHHHCCCCCCCHHCCHHHHHH Q ss_conf 5225789887618743200272023443412211257862586212565418642110006089998 Q gi|254780929|r 207 NRNTLVKNFLSQIPYKNFCMAPYHYSSILYWAVGTLTYSVDNKTTTREYYKDPYYATWDHFPYSFIK 273 (408) Q Consensus 207 nrntlvknflsqipyknfcmapyhyssilywavgtltysvdnktttreyykdpyyatwdhfpysfik 273 (408) =..|...|++|.|||- -.+|..|--|- |||||.|-+|-+- -||-..||- T Consensus 35 WgAtVITnL~saiP~i--------G~~iv~wlwGG--fsV~n~TLnRFFs--------lH~llPfii 83 (104) T 2qjy_A 35 WGATVITGLFGAIPGI--------GHSIQTWLLGG--PAVDNATLNRFFS--------LHYLLPFVI 83 (104) T ss_dssp HHHHHHHHHHHTSTTT--------HHHHHHHHHTS--SSSCHHHHHHHHH--------HHHHHHHHH T ss_pred HHHHHHHHHHHHCCCC--------CCCHHHEEECC--CCCCCCCHHHHHH--------HHHHHHHHH T ss_conf 4889998764116868--------87401012365--5578874227899--------999889999 No 11 >>3imo_A Integron cassette protein; novel, integron protein, argentinean O139 strain, unknown function; 1.80A {Vibrio cholerae O139} (A:) Probab=22.73 E-value=44 Score=13.33 Aligned_cols=16 Identities=38% Similarity=0.418 Sum_probs=10.3 Q ss_pred CCCHHHHHHHHHHHHH Q ss_conf 7653447898777778 Q gi|254780929|r 379 DENVMPIAKSLARNVI 394 (408) Q Consensus 379 denvmpiakslarnvi 394 (408) -+||||||+.|+-.|+ T Consensus 46 ~g~V~~IalAL~gAIl 61 (133) T 3imo_A 46 AGNVEEIALALAGAIL 61 (133) T ss_dssp CGGGHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHEE T ss_conf 1542178998611215 No 12 >>2odp_A Complement C2; C3/C5 convertase, complement serine protease, human complement system, glycoprotein, SP, VWFA, hydrolase; HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A* 2i6s_A* (A:1-224) Probab=21.80 E-value=46 Score=13.20 Aligned_cols=55 Identities=9% Similarity=0.191 Sum_probs=37.4 Q ss_pred HCCCCCEEEEEEEECCCCCCHHHHHHHHCCCCH---HEEEECCCCCHHHHHHHHHHHH Q ss_conf 114764168997404887420267876305903---2044258765344789877777 Q gi|254780929|r 339 HRTGRDAITIFSVGFSPDQDTRYTLRQCASDPS---KYYEINSDENVMPIAKSLARNV 393 (408) Q Consensus 339 hrtgrdaitifsvgfspdqdtrytlrqcasdps---kyyeinsdenvmpiakslarnv 393 (408) -+.....|.||.+|+..+....-.|++.|+.+. .|+.+.+....-.+...+...+ T Consensus 156 ~~~~~~gi~i~~i~ig~~~~~~~~l~~ia~~~~g~~~~~~~~~~~~l~~~~~~i~~~i 213 (224) T 2odp_A 156 NQKRNDYLDIYAIGVGKLDVDWRELNELGSKKDGERHAFILQDTKALHQVFEHMLDVS 213 (224) T ss_dssp CSTTGGGEEEEEEEESSSCCCHHHHHHHSCCCTTCCCEEEESSHHHHHHHHHHHEECT T ss_pred HHHHHCCCEEEEEEECCCCCCHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHCCC T ss_conf 9998669779999505865599999998638898724999589899999998750221 Done!