Query gi|254780357|ref|YP_003064770.1| hypothetical protein CLIBASIA_01210 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 394 No_of_seqs 195 out of 286 Neff 6.2 Searched_HMMs 33803 Date Wed Jun 1 12:40:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780357.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2e84_A High-molecular-weight 36.1 10 0.00031 15.9 0.4 23 194-216 5-27 (91) 2 >2g04_A Probable fatty-acid-CO 30.6 9.2 0.00027 16.2 -0.6 54 307-364 56-111 (216) 3 >3l07_A Bifunctional protein f 24.3 30 0.0009 13.2 1.1 54 303-365 68-121 (151) 4 >3ge3_E Toluene-4-monooxygenas 20.4 42 0.0012 12.4 1.6 41 319-359 18-58 (92) 5 >1b0a_A Protein (fold bifuncti 18.6 46 0.0014 12.1 1.9 47 310-365 73-119 (149) 6 >2vjq_A Formyl-coenzyme A tran 17.7 49 0.0014 12.0 2.1 56 305-364 63-122 (243) 7 >3cx5_C Cytochrome B-C1 comple 17.1 41 0.0012 12.5 0.5 33 9-42 5-37 (106) 8 >1xk7_A Crotonobetainyl-COA:ca 16.2 53 0.0016 11.8 3.3 55 306-364 66-124 (263) 9 >2qjy_A Cytochrome B; cytochro 14.7 58 0.0017 11.6 2.1 33 10-43 6-38 (104) 10 >1a4i_A Methylenetetrahydrofol 14.4 55 0.0016 11.7 0.6 51 309-368 74-125 (157) No 1 >>2e84_A High-molecular-weight cytochrome C; cytochrome C3 motifs, electron transport; HET: HEM; 2.70A {Desulfovibrio vulgaris str} (A:1-91) Probab=36.08 E-value=10 Score=15.89 Aligned_cols=23 Identities=13% Similarity=0.180 Sum_probs=13.4 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 46378987999999999985234 Q gi|254780357|r 194 KTNIRHIGSIMIGITIIILFTFP 216 (394) Q Consensus 194 ~~~~R~~g~~~~~~~~~~l~~~~ 216 (394) +.++||+|.+....++.++.+++ T Consensus 5 K~~lr~~gil~~~a~v~~~~~~a 27 (91) T 2e84_A 5 KSLLRWAGALVAVAAVTVFGLDA 27 (91) T ss_dssp ----------------------- T ss_pred CHHHHHHHHHHHHHHHHHHHHHH T ss_conf 03999999999999999875653 No 2 >>2g04_A Probable fatty-acid-COA racemase FAR; isomerase; 2.70A {Mycobacterium tuberculosis H37RV} (A:1-216) Probab=30.59 E-value=9.2 Score=16.21 Aligned_cols=54 Identities=19% Similarity=0.129 Sum_probs=35.0 Q ss_pred CCCEEEEE--CCCHHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEE Q ss_conf 78659997--17967866176535099962676677578870886688998509489997 Q gi|254780357|r 307 RSDVIVGV--LKRKDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITI 364 (394) Q Consensus 307 ~~g~~va~--~~~~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l 364 (394) ++...+.+ .+.++.+.+-+..+|++|.+.+.-. -+.+=+|.++|++.-.--|+. T Consensus 56 rgKrsv~ld~~~~~~~~~~Li~~aDVvi~~~~pg~----~~~lGl~~~~L~~~nP~lv~~ 111 (216) T 2g04_A 56 RGKRIVDLDVKTQPQAMLELAAKADVLLDCFRPGT----CERLGIGPDDCASVNPRLIFA 111 (216) T ss_dssp TTCEEEECCC---CCTTHHHHTTCSEEEECSCTTH----HHHSSCSHHHHHHHCTTCEEE T ss_pred CCCEEEEEECCCHHHHHHHHHHHCCHHEEECCCCC----HHHCCCCHHHHHHHCCCCEEE T ss_conf 89859996698979999999752210112024560----541388889987545565678 No 3 >>3l07_A Bifunctional protein fold; structural genomics, IDP01849, methylenetetrahydrofolate dehydrogenase; 1.88A {Francisella tularensis} (A:1-8,A:121-263) Probab=24.33 E-value=30 Score=13.19 Aligned_cols=54 Identities=17% Similarity=0.248 Sum_probs=30.3 Q ss_pred EEECCCCEEEEECCCHHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEEC Q ss_conf 332378659997179678661765350999626766775788708866889985094899974 Q gi|254780357|r 303 VGCHRSDVIVGVLKRKDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITII 365 (394) Q Consensus 303 ~~~~~~g~~va~~~~~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l~ 365 (394) ....++..+...-.+...+.+.|.+|||||+..-.+ -+++.+.+ +.|++-+..+ T Consensus 68 lL~~~ga~Vtv~~~~t~~l~e~~~~ADIVVsAtG~~--------~~i~~~~i-k~GaividvG 121 (151) T 3l07_A 68 LLLNAKATVTTCHRFTTDLKSHTTKADILIVAVGKP--------NFITADMV-KEGAVVIDVG 121 (151) T ss_dssp HHHHTTCEEEEECTTCSSHHHHHTTCSEEEECCCCT--------TCBCGGGS-CTTCEEEECC T ss_pred HHHCCCCEEEEEECCCCCHHHHHHHCCHHHHHCCCC--------CCCCCCCC-CCCCEEEEEC T ss_conf 985589749998358999899865067666633897--------76643336-8997899925 No 4 >>3ge3_E Toluene-4-monooxygenase system protein D; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} PDB: 3dhh_E* 3dhi_E 3ge8_E 3i5j_E 3i63_E 1g10_A 1g11_A 2bf2_A 2bf5_A 2bf3_A* 2bf3_B* (E:12-103) Probab=20.39 E-value=42 Score=12.37 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=27.4 Q ss_pred HHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCC Q ss_conf 78661765350999626766775788708866889985094 Q gi|254780357|r 319 DMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGS 359 (394) Q Consensus 319 ~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga 359 (394) |+..+++-.+.++|...+..-...+.+.++++++++.+.-. T Consensus 18 eai~~dnP~~~i~V~d~~~~vrI~a~g~l~i~~~tieE~LG 58 (92) T 3ge3_E 18 ETAEIDNPGKEITVEDRRAYVRIAAEGELILTRKTLEEQLG 58 (92) T ss_dssp HHHHHHCTTSCCEEEECSSEEEEEEESEEEEEHHHHHHHHT T ss_pred HHHHHHCCCCEEEEEECCCEEEEECCCEEEEEHHHHHHHHC T ss_conf 99985798976899635868999229849998789799858 No 5 >>1b0a_A Protein (fold bifunctional protein); folate, dehydrogenase, cyclcohydrolase, channeling; 2.56A {Escherichia coli} (A:1-7,A:120-261) Probab=18.62 E-value=46 Score=12.14 Aligned_cols=47 Identities=17% Similarity=0.238 Sum_probs=25.8 Q ss_pred EEEEECCCHHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEEC Q ss_conf 59997179678661765350999626766775788708866889985094899974 Q gi|254780357|r 310 VIVGVLKRKDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITII 365 (394) Q Consensus 310 ~~va~~~~~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l~ 365 (394) .+...-.+...+.+.+.+|||||+....+ -+++.+.+ +.|++-+..+ T Consensus 73 tVt~~~~~t~~l~e~~~~ADIVVsA~G~~--------~~i~~~~i-k~gavViDvG 119 (149) T 1b0a_A 73 TTTVTHRFTKNLRHHVENADLLIVAVGKP--------GFIPGDWI-KEGAIVIDVG 119 (149) T ss_dssp EEEEECSSCSCHHHHHHHCSEEEECSCCT--------TCBCTTTS-CTTCEEEECC T ss_pred CCCCCCCCCCCHHHHHCCHHHHHHHCCCC--------CCCCCCCC-CCCCEEEEEC T ss_conf 42333224530122301024554420577--------75540222-6787899803 No 6 >>2vjq_A Formyl-coenzyme A transferase; cytoplasm, class III COA transferase; HET: EPE; 1.8A {Oxalobacter formigenes} PDB: 2vjp_A 2vjm_A* 2vjl_A* 2vjk_A* 1p5h_A 1p5r_A* 2vjn_A* 1t4c_A* 2vjo_A* 2vjm_B* 1vgr_A* 1t3z_A* 1t4c_B* 1vgq_A* (A:1-209,A:395-428) Probab=17.67 E-value=49 Score=12.01 Aligned_cols=56 Identities=11% Similarity=0.081 Sum_probs=36.6 Q ss_pred ECCCCEEEEECCC----HHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEE Q ss_conf 2378659997179----67866176535099962676677578870886688998509489997 Q gi|254780357|r 305 CHRSDVIVGVLKR----KDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITI 364 (394) Q Consensus 305 ~~~~g~~va~~~~----~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l 364 (394) ..++...+.+--+ .+.+.+-+..||++|.|.+...- ..+=+|.++|++.-.--|+. T Consensus 63 ~NrgKrsv~LDLk~~eGr~~l~~Li~~ADVli~n~rpg~l----~rlGl~~e~L~~~nP~LIy~ 122 (243) T 2vjq_A 63 FNCNKRSIELDMKTPEGKELLEQMIKKADVMVENFGPGAL----DRMGFTWEYIQELNPRVILA 122 (243) T ss_dssp TCTTCEEEEECTTSHHHHHHHHHHHHHCSEEEECCCTTHH----HHTTCCHHHHHHHCTTCEEE T ss_pred HCCCCEEEEEECCCHHHHHHHHHHHHHCCEEEECCCCCHH----HHCCCCCHHHHHHCCCCCEE T ss_conf 6799849998693978999999999639965778887448----65388704467658664011 No 7 >>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=17.08 E-value=41 Score=12.47 Aligned_cols=33 Identities=6% Similarity=-0.191 Sum_probs=24.5 Q ss_pred CCHHHHHHHHHHHHCCCCHHHHCCHHHHHHHHHH Q ss_conf 8555899988888204855671521358799999 Q gi|254780357|r 9 DPFPAETTIEGIARLSPPSGPAFPGLFDFNFSSY 42 (394) Q Consensus 9 ~p~~~g~~i~~~v~L~~P~~p~~PGlFD~SF~as 42 (394) .-+-+|-.|.......+-.+-+.|= =|||||.- T Consensus 5 ~~W~~Gv~i~ll~maTAF~GYVLPw-GQMSfWgA 37 (106) T 3cx5_C 5 TLWNVGVIIFILTIATAFLGYCCVY-GQMSHWGA 37 (106) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHC-BHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHEECCCCC-CCCCCHHH T ss_conf 6159989999999999871033788-64422499 No 8 >>1xk7_A Crotonobetainyl-COA:carnitine COA-transferase; CAIB, montreal-kingston bacterial structural genomics initiative, BSGI, structural genomics; 1.60A {Escherichia coli} (A:1-224,A:370-408) Probab=16.24 E-value=53 Score=11.81 Aligned_cols=55 Identities=15% Similarity=0.092 Sum_probs=34.5 Q ss_pred CCCCEEEEECCC----HHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEE Q ss_conf 378659997179----67866176535099962676677578870886688998509489997 Q gi|254780357|r 306 HRSDVIVGVLKR----KDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITI 364 (394) Q Consensus 306 ~~~g~~va~~~~----~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l 364 (394) .++...+++--+ .+.+.+-+..+|++|.|.+...- +.+=+|.++|++.-.--|+. T Consensus 66 NrgK~si~LDLk~~eGr~~l~~Li~~ADVvIen~rPg~l----~rlGL~~e~L~~~nP~LI~~ 124 (263) T 1xk7_A 66 RRNLHALSLNIFKDEGREAFLKLXETTDIFIEASKGPAF----ARRGITDEVLWQHNPKLVIA 124 (263) T ss_dssp TTTCEEEEECTTSHHHHHHHHHHHTTCSEEEEECSSSHH----HHTTCCHHHHHHHCTTCEEE T ss_pred CCCCEEEEEECCCHHHHHHHHHHHHHCCCCEECCCCCCC----CCCCCCCCCCCCCCCCCEEE T ss_conf 699759998798714289999998635876011222332----22232322100222221022 No 9 >>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=14.67 E-value=58 Score=11.56 Aligned_cols=33 Identities=12% Similarity=-0.048 Sum_probs=24.8 Q ss_pred CHHHHHHHHHHHHCCCCHHHHCCHHHHHHHHHHH Q ss_conf 5558999888882048556715213587999999 Q gi|254780357|r 10 PFPAETTIEGIARLSPPSGPAFPGLFDFNFSSYY 43 (394) Q Consensus 10 p~~~g~~i~~~v~L~~P~~p~~PGlFD~SF~asF 43 (394) -+-+|-.|.....-.+-.+-+.|= =|||||.-- T Consensus 6 ~W~~Gv~I~ll~maTAF~GYvLPW-GQMSfWgAt 38 (104) T 2qjy_A 6 TWIVGMLIYLAMMATAFMGYVLPW-GQMSFWGAT 38 (104) T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTC-BHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHH T ss_conf 346669999999999982232406-530024889 No 10 >>1a4i_A Methylenetetrahydrofolate dehydrogenase / methenyltetrahydrofolate cyclohydrolase...; THF, bifunctional, oxidoreductase; HET: NDP; 1.50A {Homo sapiens} (A:1-8,A:124-272) Probab=14.44 E-value=55 Score=11.71 Aligned_cols=51 Identities=16% Similarity=0.173 Sum_probs=29.2 Q ss_pred CEEEE-ECCCHHHHHHCCCCCEEEEECCCCCCCCCCCCCEEECHHHHHHHCCEEEEECCCC Q ss_conf 65999-7179678661765350999626766775788708866889985094899974776 Q gi|254780357|r 309 DVIVG-VLKRKDMIRLSCQLSDILITTIRDINTKLCNVSLLITPEILQKQGSLEITIIPPS 368 (394) Q Consensus 309 g~~va-~~~~~~~~~~~C~~adivI~~~~~~~~~~~~~~lvid~~~L~~~Ga~ai~l~~~~ 368 (394) |..|. .-.+...+.+.+.+|||||+..--+ -.++.+.+ +.|++-+..+-+. T Consensus 74 ga~Vtv~~~~t~~l~~~~~~ADIvVta~G~~--------~~i~~~~i-k~gaiviDvG~~~ 125 (157) T 1a4i_A 74 NATVTTCHSKTAHLDEEVNKGDILVVATGQP--------EMVKGEWI-KPGAIVIDCGINY 125 (157) T ss_dssp TCEEEEECTTCSSHHHHHTTCSEEEECCCCT--------TCBCGGGS-CTTCEEEECCCBC T ss_pred CCEEEEEECCCCCHHHHHHCCCCCCCCCCCC--------CCCCHHHC-CCCCCEEECCCCC T ss_conf 8769985134530366752123200013665--------50013123-7898354026633 Done!