Query gi|254781104|ref|YP_003065517.1| hypothetical protein CLIBASIA_05030 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 125 No_of_seqs 143 out of 371 Neff 5.9 Searched_HMMs 23785 Date Wed Jun 1 00:38:22 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781104.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2wg5_A General control protein 53.6 7.7 0.00032 18.1 2.7 29 33-61 8-36 (109) 2 1dip_A Delta-sleep-inducing pe 47.9 9.6 0.0004 17.5 2.5 28 32-59 15-42 (78) 3 2w6a_A ARF GTPase-activating p 41.0 18 0.00074 15.9 4.9 37 25-61 27-63 (63) 4 1jcd_A Major outer membrane li 35.9 21 0.00089 15.4 6.0 38 22-59 8-45 (52) 5 1hjb_A Ccaat/enhancer binding 35.3 22 0.00091 15.4 5.9 36 23-58 34-69 (87) 6 1u0i_A IAAL-E3; coiled-coil, d 34.6 22 0.00094 15.3 2.7 16 29-44 4-19 (26) 7 1jnm_A Proto-oncogene C-JUN; B 30.0 27 0.0011 14.8 5.7 37 24-60 21-57 (62) 8 2wt7_A Proto-oncogene protein 28.0 29 0.0012 14.6 5.9 36 24-59 22-57 (63) 9 1gu4_A CAAT/enhancer binding p 27.8 29 0.0012 14.6 5.9 36 24-59 35-70 (78) 10 3m9b_A Proteasome-associated A 27.7 29 0.0012 14.6 4.4 29 33-61 69-97 (251) 11 1es6_A Matrix protein VP40; be 26.5 30 0.0013 14.5 2.2 31 54-85 197-227 (296) 12 2xkj_E Topoisomerase IV; type 24.4 33 0.0014 14.2 4.7 40 33-75 697-736 (767) 13 1ci6_A Transcription factor AT 24.2 34 0.0014 14.2 5.9 36 24-59 22-57 (63) 14 2aze_B Transcription factor E2 23.0 36 0.0015 14.1 3.8 29 27-55 8-36 (106) No 1 >2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A Probab=53.57 E-value=7.7 Score=18.13 Aligned_cols=29 Identities=24% Similarity=0.266 Sum_probs=16.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 99999999999999999999999971897 Q gi|254781104|r 33 KLRILENKITSEQNYIDLLKAQWALLIQP 61 (125) Q Consensus 33 ei~~L~~~I~~~~~~i~~LkAEwayL~~P 61 (125) ++.+|+.++...++++..|+.|...|.+| T Consensus 8 r~k~Le~~~~~l~~ei~~Lk~el~~l~~p 36 (109) T 2wg5_A 8 RMKQLEDKVEELLSKNYHLENEVARLRSP 36 (109) T ss_dssp -CHHHHHHHHHHHHHHHHHHHHHHHHHSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 99999999999999999999999985499 No 2 >1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure, leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP: h.1.12.1 Probab=47.91 E-value=9.6 Score=17.54 Aligned_cols=28 Identities=25% Similarity=0.268 Sum_probs=23.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 9999999999999999999999999718 Q gi|254781104|r 32 EKLRILENKITSEQNYIDLLKAQWALLI 59 (125) Q Consensus 32 ~ei~~L~~~I~~~~~~i~~LkAEwayL~ 59 (125) +|+.-|+..|.+..++++.|+.|-++|- T Consensus 15 EEVevLke~I~eL~~~~~~Le~EN~~Lk 42 (78) T 1dip_A 15 EEVEILKEQIRELVEKNSQLERENTLLK 42 (78) T ss_dssp TSCHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999999 No 3 >2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus} Probab=40.99 E-value=18 Score=15.94 Aligned_cols=37 Identities=22% Similarity=0.158 Sum_probs=29.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 9999999999999999999999999999999971897 Q gi|254781104|r 25 HETEGKKEKLRILENKITSEQNYIDLLKAQWALLIQP 61 (125) Q Consensus 25 ~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~~P 61 (125) -+++.+.+--..+..+++..+..+..|+.|-+-|-+| T Consensus 27 akIQqLmkvN~~ls~Elr~mQ~~~~~Lq~ENs~Lr~~ 63 (63) T 2w6a_A 27 AKVQQLMKVNSSLSDELRKLQREIHKLQAENLQLRQP 63 (63) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 9999999997867699999999999999774630498 No 4 >1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A Probab=35.88 E-value=21 Score=15.44 Aligned_cols=38 Identities=11% Similarity=0.013 Sum_probs=30.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999999999718 Q gi|254781104|r 22 SIKHETEGKKEKLRILENKITSEQNYIDLLKAQWALLI 59 (125) Q Consensus 22 ~iK~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~ 59 (125) .+..+++.+..++.+|..+|...+..+.-.|-|++.-| T Consensus 8 qlssdvqtln~Kvdqls~Dina~rsdvqaaKdeAaRaN 45 (52) T 1jcd_A 8 QASSDAQTANAKADQASNDANAARSDAQAAKDDAARAN 45 (52) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99889999989999998889998899999889999998 No 5 >1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1 Probab=35.34 E-value=22 Score=15.39 Aligned_cols=36 Identities=17% Similarity=0.125 Sum_probs=27.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999999999999999971 Q gi|254781104|r 23 IKHETEGKKEKLRILENKITSEQNYIDLLKAQWALL 58 (125) Q Consensus 23 iK~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL 58 (125) -|.....++.++..|+.+...++..+..|+.|..+| T Consensus 34 kk~~~~~Le~~~~~L~~en~~L~~~~~~L~~E~~~l 69 (87) T 1hjb_A 34 AKMRNLETQHKVLELTAENERLQKKVEQLSRELSTL 69 (87) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999999999 No 6 >1u0i_A IAAL-E3; coiled-coil, de novo protein; NMR {Synthetic} SCOP: k.6.1.1 Probab=34.58 E-value=22 Score=15.32 Aligned_cols=16 Identities=19% Similarity=0.333 Sum_probs=8.4 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999999999999 Q gi|254781104|r 29 GKKEKLRILENKITSE 44 (125) Q Consensus 29 ~~~~ei~~L~~~I~~~ 44 (125) .++++|..|+++|... T Consensus 4 alekeiaalekeiaal 19 (26) T 1u0i_A 4 ALEKEIAALEKEIAAL 19 (26) T ss_dssp HHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHH T ss_conf 8999999999999999 No 7 >1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A Probab=29.97 E-value=27 Score=14.85 Aligned_cols=37 Identities=22% Similarity=0.223 Sum_probs=28.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999999999999999999999999999997189 Q gi|254781104|r 24 KHETEGKKEKLRILENKITSEQNYIDLLKAQWALLIQ 60 (125) Q Consensus 24 K~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~~ 60 (125) |.....++.++..|+.+....+..+..|+.|-..|-. T Consensus 21 k~~~~~Le~~~~~L~~~n~~L~~~~~~L~~e~~~Lk~ 57 (62) T 1jnm_A 21 LERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQ 57 (62) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999999999999999 No 8 >2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D Probab=28.02 E-value=29 Score=14.64 Aligned_cols=36 Identities=19% Similarity=0.098 Sum_probs=25.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999999999999999999999999999999718 Q gi|254781104|r 24 KHETEGKKEKLRILENKITSEQNYIDLLKAQWALLI 59 (125) Q Consensus 24 K~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~ 59 (125) |-.+..++.++..|+.+....+..+..|+.|-.+|. T Consensus 22 k~~~~~Le~~~~~l~~~~~~L~~e~~~l~~e~~~Lk 57 (63) T 2wt7_A 22 RELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLE 57 (63) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999999999 No 9 >1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA complex, transcription factor, BZIP, C/EBP; 1.80A {Homo sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A 1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A Probab=27.82 E-value=29 Score=14.62 Aligned_cols=36 Identities=17% Similarity=0.111 Sum_probs=26.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999999999999999999999999999999718 Q gi|254781104|r 24 KHETEGKKEKLRILENKITSEQNYIDLLKAQWALLI 59 (125) Q Consensus 24 K~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~ 59 (125) |.....++.++..|+.+....+..+..|+.|..+|- T Consensus 35 k~~~~~le~~~~~l~~en~~L~~~~~~L~~E~~~Lr 70 (78) T 1gu4_A 35 KMRNLETQHKVLELTAENERLQKKVEQLSRELSTLR 70 (78) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999999999 No 10 >3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A Probab=27.69 E-value=29 Score=14.60 Aligned_cols=29 Identities=17% Similarity=0.171 Sum_probs=11.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 99999999999999999999999971897 Q gi|254781104|r 33 KLRILENKITSEQNYIDLLKAQWALLIQP 61 (125) Q Consensus 33 ei~~L~~~I~~~~~~i~~LkAEwayL~~P 61 (125) +-.+|...+...+++|..|+.|-.-|.+| T Consensus 69 ~NekL~~~L~~AR~ei~~Lr~el~~L~~P 97 (251) T 3m9b_A 69 RNSKLMETLKEARQQLLALREEVDRLGQP 97 (251) T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 99999999999999999999999974599 No 11 >1es6_A Matrix protein VP40; beta sandwich, anti-parallel strands, beta sheet, helix, viral protein; 2.00A {Ebola virus SP} SCOP: b.31.1.1 b.31.1.1 PDB: 1h2d_A Probab=26.48 E-value=30 Score=14.55 Aligned_cols=31 Identities=19% Similarity=0.413 Sum_probs=25.3 Q ss_pred HHHHHCCHHHHHHHHHHHHHHHCCEECCHHHC Q ss_conf 99971897999999998776418540588883 Q gi|254781104|r 54 QWALLIQPDRIKDLVSLYQKELQLQATNPINL 85 (125) Q Consensus 54 EwayL~~P~RL~~La~~y~~~L~L~Pi~p~qi 85 (125) .-+-|++|+.++.+.+... .++..|+.|..- T Consensus 197 ~~sdltspdkiq~i~~~~~-d~kivpidptk~ 227 (296) T 1es6_A 197 NSADLTSPEKIQAIMTSLQ-DFKIVPIDPTKN 227 (296) T ss_dssp CHHHHSCHHHHHHHHHHGG-GCEEEEEEGGGT T ss_pred CCCCCCCHHHHHHHHHHCC-CCEEEECCCCCC T ss_conf 5234678789999997602-450661277555 No 12 >2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Probab=24.42 E-value=33 Score=14.24 Aligned_cols=40 Identities=15% Similarity=0.173 Sum_probs=26.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999997189799999999877641 Q gi|254781104|r 33 KLRILENKITSEQNYIDLLKAQWALLIQPDRIKDLVSLYQKEL 75 (125) Q Consensus 33 ei~~L~~~I~~~~~~i~~LkAEwayL~~P~RL~~La~~y~~~L 75 (125) ++.+|++++...++++..|+ ..|++++++.++...+.++| T Consensus 697 e~~kL~~E~~el~~ei~eL~---~iL~s~~~l~~~i~~EL~el 736 (767) T 2xkj_E 697 EEMEIRHEQDELSAKAAIIR---EQLENPESLKNLIISELKED 736 (767) T ss_dssp CHHHHHHHHHHHHHHHHHHH---HHHHCHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHH---HHHCCHHHHHHHHHHHHHHH T ss_conf 79999999999999999999---99789999999999999999 No 13 >1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1 Probab=24.21 E-value=34 Score=14.21 Aligned_cols=36 Identities=22% Similarity=0.194 Sum_probs=27.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999999999999999999999999999999718 Q gi|254781104|r 24 KHETEGKKEKLRILENKITSEQNYIDLLKAQWALLI 59 (125) Q Consensus 24 K~~t~~~~~ei~~L~~~I~~~~~~i~~LkAEwayL~ 59 (125) |.....++.++..|+.+....+..+..|+.|-.+|- T Consensus 22 k~~~~~le~~~~~L~~~n~~L~~~~~~L~~E~~~Lk 57 (63) T 1ci6_A 22 RAEQEALTGECKELEKKNEALKERADSLAKEIQYLK 57 (63) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999999999 No 14 >2aze_B Transcription factor E2F1; coiled coil, beta sandwich, cell cycle, transcription; 2.55A {Homo sapiens} SCOP: e.63.1.2 Probab=23.05 E-value=36 Score=14.07 Aligned_cols=29 Identities=21% Similarity=0.324 Sum_probs=12.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999999999999999 Q gi|254781104|r 27 TEGKKEKLRILENKITSEQNYIDLLKAQW 55 (125) Q Consensus 27 t~~~~~ei~~L~~~I~~~~~~i~~LkAEw 55 (125) .+.+..++..|+.+-....+.|..++..+ T Consensus 8 ~~~L~~El~~L~~~E~~LD~li~~~~~~L 36 (106) T 2aze_B 8 LEGLTQDLRQLQESEQQLDHLMNICTTQL 36 (106) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999999999999999 Done!