Query gi|254780692|ref|YP_003065105.1| hypothetical protein CLIBASIA_02895 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 72 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Tue May 31 16:35:33 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780692.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3drz_A BTB/POZ domain-containi 16.0 62 0.0026 14.0 2.7 49 6-62 58-106 (107) 2 1v54_J Cytochrome C oxidase po 14.7 66 0.0028 13.8 1.9 18 4-21 40-57 (59) 3 2ys8_A RAB-related GTP-binding 8.7 1.1E+02 0.0046 12.7 1.7 15 54-68 74-88 (90) 4 1xrs_B D-lysine 5,6-aminomutas 5.5 1.1E+02 0.0046 12.7 0.0 18 20-38 6-23 (262) 5 3faj_A ORF131, putative unchar 4.4 1.9E+02 0.0082 11.4 2.7 53 2-65 30-84 (151) 6 3c01_A Surface presentation of 3.4 2.4E+02 0.01 10.9 0.9 16 56-71 6-21 (48) 7 2w8a_A Glycine betaine transpo 3.4 2.4E+02 0.01 10.9 6.5 22 4-25 495-516 (566) 8 2czr_A TBP-interacting protein 3.3 1.9E+02 0.0082 11.4 -0.1 18 2-19 129-146 (226) 9 3bzy_A ESCU; auto cleavage pro 3.1 2.6E+02 0.011 10.8 0.9 16 56-71 12-27 (54) 10 3l15_A Transcriptional enhance 2.6 2.1E+02 0.009 11.2 -0.5 21 13-33 164-184 (231) No 1 >3drz_A BTB/POZ domain-containing protein KCTD5; potassium channel domain T1, pentamer, unknown function; 1.90A {Homo sapiens} Probab=15.95 E-value=62 Score=13.96 Aligned_cols=49 Identities=24% Similarity=0.310 Sum_probs=32.2 Q ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH Q ss_conf 899999999983132567877888773368877338987303245566999999875 Q gi|254780692|r 6 GIIFTIICLYMMNGYQKEKKDIERTRLNIERTRLTCEEARHTQDENLTKACKDELKN 62 (72) Q Consensus 6 giiftiiclymmngyqkekkdiertrlniertrltceearhtqdenltkackdelkn 62 (72) +-+|..|--|+-.|--....++ ...+| .+||+--+=+.|.+.|++.++. T Consensus 58 p~~F~~IL~ylr~g~l~~~~~~-------~~~~L-l~eA~yy~l~~L~~~~~~~l~~ 106 (107) T 3drz_A 58 PTYFGPVLNYLRHGKLVINKDL-------AEEGV-LEEAEFYNITSLIKLVKDKIRE 106 (107) T ss_dssp HHHHHHHHHHHHHSCCCCCTTS-------CHHHH-HHHHHHHTCHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHCCCCCCCCCHH-------HHHHH-HHHHHHCCCHHHHHHHHHHHHC T ss_conf 8899999999807985898300-------18889-9999886988999999999855 No 2 >1v54_J Cytochrome C oxidase polypeptide VIIA-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.4.1 PDB: 1oco_J* 1occ_J* 1ocz_J* 1ocr_J* 1v55_J* 2dyr_J* 2dys_J* 2eij_J* 2eik_J* 2eil_J* 2eim_J* 2ein_J* 2occ_J* 2zxw_J* 3abk_J* 3abl_J* 3abm_J* 3ag1_J* 3ag2_J* 3ag3_J* ... Probab=14.68 E-value=66 Score=13.81 Aligned_cols=18 Identities=28% Similarity=0.587 Sum_probs=14.1 Q ss_pred HHHHHHHHHHHHHHCCHH Q ss_conf 778999999999831325 Q gi|254780692|r 4 LGGIIFTIICLYMMNGYQ 21 (72) Q Consensus 4 lggiiftiiclymmngyq 21 (72) ++|+++.+.+|||+.-.. T Consensus 40 v~Gt~~~~~~l~~as~Pk 57 (59) T 1v54_J 40 LGGTLYSLYCLGWASFPH 57 (59) T ss_dssp HHHHHHHHHHHHHHTSCC T ss_pred HHHHHHHHHHHHHHHCCC T ss_conf 998999999999986779 No 3 >2ys8_A RAB-related GTP-binding protein RABJ; DNAJ domain, RAS-associated protein RAP1, structural genomics, NPPSFA; NMR {Homo sapiens} Probab=8.72 E-value=1.1e+02 Score=12.69 Aligned_cols=15 Identities=53% Similarity=0.589 Sum_probs=10.8 Q ss_pred HHHHHHHHHHHCCHH Q ss_conf 999999875102867 Q gi|254780692|r 54 KACKDELKNIKSNPK 68 (72) Q Consensus 54 kackdelkniksnpk 68 (72) .|-..-||||||.|. T Consensus 74 nartallkniksgps 88 (90) T 2ys8_A 74 NARTALLKNIKSGPS 88 (90) T ss_dssp HHHHHHHHHHCCSCC T ss_pred HHHHHHHHHCCCCCC T ss_conf 999999985235889 No 4 >1xrs_B D-lysine 5,6-aminomutase beta subunit; TIM barrel, rossmann domain, PLP, cobalamin, 5'- deoxyadenosine, radical, adenosylcobalamin; HET: B12 PLP 5AD; 2.80A {Clostridium sticklandii} SCOP: c.23.6.1 d.230.4.1 Probab=5.47 E-value=1.1e+02 Score=12.70 Aligned_cols=18 Identities=39% Similarity=0.846 Sum_probs=12.6 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 2567877888773368877 Q gi|254780692|r 20 YQKEKKDIERTRLNIERTR 38 (72) Q Consensus 20 yqkekkdiertrlniertr 38 (72) |+-|||++|+| +++.|.| T Consensus 6 ~~~e~k~~~k~-~~~~~ik 23 (262) T 1xrs_B 6 YSMEKKEFDKV-LDLERVK 23 (262) T ss_dssp ------------------- T ss_pred CCCCHHHHHHH-CCHHHCC T ss_conf 33004335554-2365515 No 5 >3faj_A ORF131, putative uncharacterized protein; archaeal virus, extremophiles, bicaudavirus, structural protein, DNA-binding protein; 1.70A {Acidianus two-tailed virus} Probab=4.43 E-value=1.9e+02 Score=11.39 Aligned_cols=53 Identities=25% Similarity=0.338 Sum_probs=31.3 Q ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHHHHC Q ss_conf 2577899999999983132567877888773368877338987--303245566999999875102 Q gi|254780692|r 2 EFLGGIIFTIICLYMMNGYQKEKKDIERTRLNIERTRLTCEEA--RHTQDENLTKACKDELKNIKS 65 (72) Q Consensus 2 eflggiiftiiclymmngyqkekkdiertrlniertrltceea--rhtqdenltkackdelkniks 65 (72) ++.||.+ .|.-.||-+-|-- -.-.-||+-||| +.+-+||+..+...-+|-|+. T Consensus 30 dYagg~i-kIL~~f~sg~~gy----------P~vSLRLaGeEAn~~~sG~e~~k~~IHemiK~I~E 84 (151) T 3faj_A 30 DYAGGAV-KILDMFENGQLGY----------PEVTLKLAGEEANARRAGDERTKEAIHAIVKMISD 84 (151) T ss_dssp CHHHHHH-HHHHHHHTTCCEE----------THHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH T ss_pred HHHHHHH-HHHHHHHCCCCCC----------CEEEEEECCHHHHHHHCCHHHHHHHHHHHHHHHHH T ss_conf 3788999-9999997587788----------63453213303202120147899999999999999 No 6 >3c01_A Surface presentation of antigens protein SPAS; auto cleavage protein, flagella, ESCU, YSCU, intein, T3SS, membrane, inner membrane; 2.60A {Salmonella typhimurium} SCOP: d.367.1.1 Probab=3.44 E-value=2.4e+02 Score=10.93 Aligned_cols=16 Identities=38% Similarity=0.586 Sum_probs=8.7 Q ss_pred HHHHHHHHHCCHHHHC Q ss_conf 9999875102867631 Q gi|254780692|r 56 CKDELKNIKSNPKEKA 71 (72) Q Consensus 56 ckdelkniksnpkeka 71 (72) -|||.|.-..+|.-|+ T Consensus 6 vK~E~Ke~EGdP~vK~ 21 (48) T 3c01_A 6 VKREMKEQEGNPEVKS 21 (48) T ss_pred HHHHHHHCCCCHHHHH T ss_conf 9999986419999999 No 7 >2w8a_A Glycine betaine transporter BETP; chemosensor and osmosensor, trimer, membrane, cell membrane, membrane protein; 3.35A {Corynebacterium glutamicum} PDB: 2wit_A Probab=3.37 E-value=2.4e+02 Score=10.89 Aligned_cols=22 Identities=14% Similarity=0.231 Sum_probs=16.0 Q ss_pred HHHHHHHHHHHHHHCCHHHHHH Q ss_conf 7789999999998313256787 Q gi|254780692|r 4 LGGIIFTIICLYMMNGYQKEKK 25 (72) Q Consensus 4 lggiiftiiclymmngyqkekk 25 (72) ++|+-|.+|.+.|+-+.-|+-+ T Consensus 495 i~alPf~~i~~l~~~sl~K~l~ 516 (566) T 2w8a_A 495 VAATPFLFVVIGLMFALVKDLS 516 (566) T ss_dssp HHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHH T ss_conf 9998899999999999999998 No 8 >2czr_A TBP-interacting protein; tata-binding protein (TBP), hyperthermophilic archaeon, Zn-finger motif, transcription regulator; 2.30A {Thermococcus kodakarensis KOD1} SCOP: c.52.4.1 Probab=3.31 E-value=1.9e+02 Score=11.40 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=14.3 Q ss_pred HHHHHHHHHHHHHHHHCC Q ss_conf 257789999999998313 Q gi|254780692|r 2 EFLGGIIFTIICLYMMNG 19 (72) Q Consensus 2 eflggiiftiiclymmng 19 (72) |+|||-...-|---|+|| T Consensus 129 EYLGgrlieHiK~nm~~G 146 (226) T 2czr_A 129 EYLGAALVNHIKNNALAG 146 (226) T ss_dssp EECHHHHHHHHHTTCCBT T ss_pred HHHHHHHHHHHHHCCCCC T ss_conf 885379999987365457 No 9 >3bzy_A ESCU; auto cleavage protein, flagella, intein, T3SS, membrane, membrane protein, protein transport; 1.20A {Escherichia coli} SCOP: d.367.1.1 PDB: 3bzl_A 3bzv_A 3bzx_A 3bzo_A 3bzz_A 3c03_B 3c00_A Probab=3.14 E-value=2.6e+02 Score=10.77 Aligned_cols=16 Identities=38% Similarity=0.513 Sum_probs=9.5 Q ss_pred HHHHHHHHHCCHHHHC Q ss_conf 9999875102867631 Q gi|254780692|r 56 CKDELKNIKSNPKEKA 71 (72) Q Consensus 56 ckdelkniksnpkeka 71 (72) -|||.|.-..+|.-|+ T Consensus 12 vKdE~Ke~EGdP~vK~ 27 (54) T 3bzy_A 12 VKREAKDTDGNPEIKG 27 (54) T ss_pred HHHHHHHCCCCHHHHH T ss_conf 9999986529999999 No 10 >3l15_A Transcriptional enhancer factor TEF-4; activator, DNA-binding, nucleus, transcriptio regulation; HET: MSE GOL; 2.00A {Homo sapiens} Probab=2.62 E-value=2.1e+02 Score=11.18 Aligned_cols=21 Identities=33% Similarity=0.477 Sum_probs=0.0 Q ss_pred HHHHHCCHHHHHHHHHHHHHH Q ss_conf 999831325678778887733 Q gi|254780692|r 13 CLYMMNGYQKEKKDIERTRLN 33 (72) Q Consensus 13 clymmngyqkekkdiertrln 33 (72) |-||.|.-+|-|+--|+--+| T Consensus 164 CeYminFi~kLk~LpekymMN 184 (231) T 3l15_A 164 CEYLVNFLHKLRQLPERYMMN 184 (231) T ss_dssp CHHHHHHHHHHTTCSCHHHHH T ss_pred HHHHHHHHHHHHCCCHHHHHH T ss_conf 999999999874377888898 Done!