Query gi|254780515|ref|YP_003064928.1| hypothetical protein CLIBASIA_02010 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 42 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 17:07:31 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780515.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2gb7_A R.ECL18KI; ECL18KI-DNA 95.9 0.0055 1.6E-07 34.7 2.8 38 1-38 27-64 (90) 2 >1na6_A Ecorii, restriction en 94.7 0.0077 2.3E-07 34.0 0.4 36 2-37 59-94 (121) 3 >2wwb_L 60S ribosomal protein 5.6 1.7E+02 0.005 13.4 0.3 11 29-39 10-20 (29) 4 >3jsz_A LGT1, putative unchara 4.9 2.5E+02 0.0073 12.6 0.7 34 7-40 61-99 (303) 5 >1fs1_B SKP1, cyclin A/CDK2-as 3.9 2.7E+02 0.0079 12.5 0.3 14 1-14 1-14 (44) 6 >1nvp_C Transcription initiati 3.1 4.3E+02 0.013 11.5 0.7 22 17-38 25-46 (76) 7 >1qex_A Protein (bacteriophage 2.8 4.7E+02 0.014 11.3 0.6 25 13-37 34-58 (117) 8 >1haq_A Complement factor H; i 2.7 4.5E+02 0.013 11.4 0.5 14 19-32 5-18 (64) 9 >2hje_A Autoinducer 2 sensor k 2.7 4.9E+02 0.015 11.2 1.8 31 2-32 53-83 (84) 10 >1nh2_C Transcription initiati 2.7 4.9E+02 0.014 11.2 0.6 22 17-38 27-48 (79) No 1 >>2gb7_A R.ECL18KI; ECL18KI-DNA complex, type II restriction endonuclease, nucleotide flipping, base extrusion, hydrolase/DNA complex; HET: DNA; 1.70A {Enterobacter cloacae} PDB: 2fqz_A* (A:175-264) Probab=95.87 E-value=0.0055 Score=34.66 Aligned_cols=38 Identities=21% Similarity=0.286 Sum_probs=33.2 Q ss_pred CCEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHHH Q ss_conf 97179998500322105532033538999852011334 Q gi|254780515|r 1 MPTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKEK 38 (42) Q Consensus 1 mptihlltvdseiaenkaeridkhniilvvldkvkkek 38 (42) .|.+||+|+|..|.+|+..-...|||+|||-..+++-. T Consensus 27 i~~~hL~TL~~gIS~~q~~eM~~~~i~LVvP~~l~~~y 64 (90) T 2gb7_A 27 IREMYLATLDDSFSEETINILYEANVVVVTTVENKNFK 64 (90) T ss_dssp CSCEEEEECCSCCCHHHHHHHHHTTEEEEECHHHHHHH T ss_pred CCCEEEEECCCCCCHHHHHHHHHCCCEEEECHHHCCHH T ss_conf 76258986068888899999997693899545641414 No 2 >>1na6_A Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli} (A:284-404) Probab=94.70 E-value=0.0077 Score=33.96 Aligned_cols=36 Identities=19% Similarity=0.372 Sum_probs=32.4 Q ss_pred CEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHH Q ss_conf 717999850032210553203353899985201133 Q gi|254780515|r 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKE 37 (42) Q Consensus 2 ptihlltvdseiaenkaeridkhniilvvldkvkke 37 (42) +.+||+|+|..|.+|+..-+..|||+|||-+.+.+. T Consensus 59 ~~~~L~TL~~~IS~~q~~eM~~~~i~LVVp~~i~~s 94 (121) T 1na6_A 59 HQVHLFTLQEGVSLAQYREMRESGVRLVVPSSLHKK 94 (121) T ss_dssp ---CEEECCSCCCHHHHHHHHTTTCCEECCHHHHTT T ss_pred HHHEEEECCCCCCHHHHHHHHHCCEEEEECHHHHHC T ss_conf 300467416888889999998779299970477313 No 3 >>2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_L 2ww9_L 1s1i_U (L:71-99) Probab=5.64 E-value=1.7e+02 Score=13.41 Aligned_cols=11 Identities=64% Similarity=0.700 Sum_probs=8.1 Q ss_pred EEEHHHHHHHH Q ss_conf 98520113343 Q gi|254780515|r 29 VVLDKVKKEKH 39 (42) Q Consensus 29 vvldkvkkekh 39 (42) +-.||+.|||. T Consensus 10 vqvdk~tkeks 20 (29) T 2wwb_L 10 VQVDKVTKEKV 20 (29) T ss_dssp EEESSCCCCBT T ss_pred EEEECEEEEEC T ss_conf 99918389963 No 4 >>3jsz_A LGT1, putative uncharacterized protein; glucosyltransferase, legionnaire'S disease; HET: MSE UPG; 1.70A {Legionella pneumophila} PDB: 2wzg_A* 3jt1_A* 2wzf_A* (A:110-328,A:442-525) Probab=4.86 E-value=2.5e+02 Score=12.62 Aligned_cols=34 Identities=32% Similarity=0.408 Sum_probs=22.5 Q ss_pred EEECCHHHHHHH-----HHHCCCCEEEEEEHHHHHHHHH Q ss_conf 985003221055-----3203353899985201133430 Q gi|254780515|r 7 LTVDSEIAENKA-----ERIDKHNIILVVLDKVKKEKHL 40 (42) Q Consensus 7 ltvdseiaenka-----eridkhniilvvldkvkkekhl 40 (42) |..||.+-..+| +--++++|+++-+|.++.|+.| T Consensus 61 LVYsSt~Ln~~a~~ql~~faken~IsllDids~e~e~~L 99 (303) T 3jsz_A 61 LIYSSSLLNPEANRQXKAFAKKQNISLIDIDSVKTDSPL 99 (303) T ss_dssp EEECSTTSCHHHHHHHHHHHHHTTEEEEEGGGCCCCCTH T ss_pred EEEEHHHCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHH T ss_conf 996113238899999999987569337632113321778 No 5 >>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} (B:1-44) Probab=3.91 E-value=2.7e+02 Score=12.46 Aligned_cols=14 Identities=50% Similarity=0.745 Sum_probs=9.6 Q ss_pred CCEEEEEEECCHHH Q ss_conf 97179998500322 Q gi|254780515|r 1 MPTIHLLTVDSEIA 14 (42) Q Consensus 1 mptihlltvdseia 14 (42) ||+|.|..-|.++- T Consensus 1 m~~I~L~SSDge~F 14 (44) T 1fs1_B 1 MPSIKLQSSDGEIF 14 (44) T ss_dssp -CEEEEECTTSCEE T ss_pred CCCEEEEECCCCEE T ss_conf 98537771589767 No 6 >>1nvp_C Transcription initiation factor IIA beta chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} (C:) Probab=3.09 E-value=4.3e+02 Score=11.50 Aligned_cols=22 Identities=27% Similarity=0.521 Sum_probs=16.4 Q ss_pred HHHHHCCCCEEEEEEHHHHHHH Q ss_conf 5532033538999852011334 Q gi|254780515|r 17 KAERIDKHNIILVVLDKVKKEK 38 (42) Q Consensus 17 kaeridkhniilvvldkvkkek 38 (42) ..+--+-.|++|...|||.+-| T Consensus 25 ~~d~~~~~n~vlc~ydKV~R~k 46 (76) T 1nvp_C 25 GQELFDTENVVVCQYDKIHRSK 46 (76) T ss_dssp -----CCCCEEEEEEEEEEEET T ss_pred CCCCCCCCCEEEEEEEEEEEEC T ss_conf 4456676748999988886305 No 7 >>1qex_A Protein (bacteriophage T4 gene product 9 (GP9)); baseplate, oligomerization, X-RAY crystallography, viral protein; HET: EPE; 2.30A {Enterobacteria phage T4} (A:172-288) Probab=2.79 E-value=4.7e+02 Score=11.29 Aligned_cols=25 Identities=24% Similarity=0.252 Sum_probs=19.9 Q ss_pred HHHHHHHHHCCCCEEEEEEHHHHHH Q ss_conf 2210553203353899985201133 Q gi|254780515|r 13 IAENKAERIDKHNIILVVLDKVKKE 37 (42) Q Consensus 13 iaenkaeridkhniilvvldkvkke 37 (42) -|+|-+.++-|-.-+|+.+|.+.++ T Consensus 34 ~a~N~~Gtv~K~sE~li~iD~v~~~ 58 (117) T 1qex_A 34 TCQSVDGRKIKTAEINILVDTVNSE 58 (117) T ss_dssp EEEETTSSCEEEEEEEEEEETTTTE T ss_pred EEECCCCEEEEEEEEEEEECCCCCC T ss_conf 9733787034311302221123761 No 8 >>1haq_A Complement factor H; immunology, glycoprotein, repeat, complement alternate pathway, SCR, CCP; NMR {Homo sapiens} PDB: 3gau_A 3gav_A 3gaw_A 2qfh_A 2qfg_A 1hfh_A 2kms_A 1hfi_A 1hcc_A (A:1150-1213) Probab=2.72 E-value=4.5e+02 Score=11.37 Aligned_cols=14 Identities=29% Similarity=0.235 Sum_probs=8.7 Q ss_pred HHHCCCCEEEEEEH Q ss_conf 32033538999852 Q gi|254780515|r 19 ERIDKHNIILVVLD 32 (42) Q Consensus 19 eridkhniilvvld 32 (42) +..++|||.|---+ T Consensus 5 ~~M~knNI~LKw~~ 18 (64) T 1haq_A 5 EIMENYNIALRWTA 18 (64) T ss_pred HHHHHCCCEEEEHH T ss_conf 87640122033033 No 9 >>2hje_A Autoinducer 2 sensor kinase/phosphatase LUXQ; PER/ARNT/simple-minded (PAS) fold, autoinducer-2 (AI-2), quorum sensing, histidine sensor kinase; 1.70A {Vibrio harveyi} (A:61-144) Probab=2.66 E-value=4.9e+02 Score=11.20 Aligned_cols=31 Identities=23% Similarity=0.246 Sum_probs=20.6 Q ss_pred CEEEEEEECCHHHHHHHHHHCCCCEEEEEEH Q ss_conf 7179998500322105532033538999852 Q gi|254780515|r 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLD 32 (42) Q Consensus 2 ptihlltvdseiaenkaeridkhniilvvld 32 (42) -+.|||--.+.|-+++.-++--.--+-|||+ T Consensus 53 g~~hlLvRRtpii~~~tGeV~g~ly~~vVLn 83 (84) T 2hje_A 53 GSRHMLVRRVPILDPSTGEVLGFSFNAVVLD 83 (84) T ss_dssp EEEEEEEEEEEEEETTTTEEEEEEEEEEECT T ss_pred CCEEEEEEEEEEECCCCCCEEEEEEEEEEEC T ss_conf 7358999831126089870788998878962 No 10 >>1nh2_C Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} (C:) Probab=2.66 E-value=4.9e+02 Score=11.21 Aligned_cols=22 Identities=32% Similarity=0.456 Sum_probs=16.4 Q ss_pred HHHHHCCCCEEEEEEHHHHHHH Q ss_conf 5532033538999852011334 Q gi|254780515|r 17 KAERIDKHNIILVVLDKVKKEK 38 (42) Q Consensus 17 kaeridkhniilvvldkvkkek 38 (42) -.+-.+-.|++|...|||.+-| T Consensus 27 ~e~~~~~~n~vlc~ydKV~R~k 48 (79) T 1nh2_C 27 GEEDGPDENLMLCLYDKVTRTK 48 (79) T ss_dssp -------CCEEEEEEEEEEEET T ss_pred CCCCCCCCCEEEEEEEEEEECC T ss_conf 4456665758999988874116 Done!