Query gi|254780906|ref|YP_003065319.1| hypothetical protein CLIBASIA_04025 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 96 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 18:24:18 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780906.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1c0m_A Protein (integrase); H 27.0 16 0.00048 18.3 0.1 16 64-86 4-19 (67) 2 >3cai_A Possible aminotransfer 12.7 84 0.0025 14.5 1.1 13 73-85 50-62 (118) 3 >1ifw_A Polyadenylate-binding 9.6 91 0.0027 14.3 0.4 10 11-20 43-52 (92) 4 >1zq7_A Hypothetical protein M 8.0 1.4E+02 0.004 13.4 0.8 75 19-93 81-159 (207) 5 >1yfn_E Sigma-E factor negativ 6.8 1.4E+02 0.004 13.4 0.3 11 73-83 1-11 (32) 6 >1q16_B Respiratory nitrate re 6.1 1.3E+02 0.0039 13.5 -0.1 16 70-85 25-49 (89) 7 >3fz3_A Prunin; TREE NUT aller 6.0 1.8E+02 0.0052 12.8 0.5 48 13-60 80-219 (365) 8 >1b3t_A Protein (nuclear prote 5.9 1.9E+02 0.0057 12.6 0.7 7 74-80 89-95 (147) 9 >2jpj_A Bacteriocin lactococci 5.9 1.4E+02 0.004 13.4 -0.1 16 25-40 24-39 (39) 10 >3g7u_A Cytosine-specific meth 5.7 69 0.002 15.0 -1.7 20 53-72 23-42 (44) No 1 >>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} (A:172-238) Probab=27.01 E-value=16 Score=18.29 Aligned_cols=16 Identities=44% Similarity=1.103 Sum_probs=11.6 Q ss_pred EEEECCCCCCCCCCCCCCCCCCC Q ss_conf 17840230078998322357767 Q gi|254780906|r 64 SIKIKNNIIEPQPGPSRWEGGWN 86 (96) Q Consensus 64 sikiknniiepqpgpsrweggwn 86 (96) .++|||++ ..||+||+ T Consensus 4 ~V~vk~el-------g~WE~GW~ 19 (67) T 1c0m_A 4 PVKIRIET-------GEWEKGWN 19 (67) T ss_dssp EEEEECTT-------SCEEEEEE T ss_pred EEEEECCC-------CCCCCCCE T ss_conf 07850687-------76558711 No 2 >>3cai_A Possible aminotransferase; RV3778C; 1.80A {Mycobacterium tuberculosis H37RV} (A:36-85,A:255-322) Probab=12.72 E-value=84 Score=14.51 Aligned_cols=13 Identities=38% Similarity=0.562 Sum_probs=10.5 Q ss_pred CCCCCCCCCCCCC Q ss_conf 7899832235776 Q gi|254780906|r 73 EPQPGPSRWEGGW 85 (96) Q Consensus 73 epqpgpsrweggw 85 (96) ++.+.|.|||.|- T Consensus 50 ~~~~~P~rfEaGT 62 (118) T 3cai_A 50 DYATGPARLEIGV 62 (118) T ss_dssp CTCCGGGGGCCSC T ss_pred CCCCCCCCCCCCC T ss_conf 9256400001023 No 3 >>1ifw_A Polyadenylate-binding protein, cytoplasmic and nuclear; all-helical domain, RNA binding protein; NMR {Saccharomyces cerevisiae} (A:) Probab=9.55 E-value=91 Score=14.32 Aligned_cols=10 Identities=60% Similarity=0.511 Sum_probs=6.9 Q ss_pred EEHHHHHHHH Q ss_conf 1226589853 Q gi|254780906|r 11 FFITGMILSS 20 (96) Q Consensus 11 ffitgmilss 20 (96) --||||+|-- T Consensus 43 ~KITGMLLE~ 52 (92) T 1ifw_A 43 GKITGMILDL 52 (92) T ss_dssp HHHHHHHTTS T ss_pred CCEEEEEECC T ss_conf 5400112348 No 4 >>1zq7_A Hypothetical protein MM0484; X-RAY, NESG, MAR9, Q8PZK8, structural genomics, PSI, protein structure initiative; 2.11A {Methanosarcina mazei} (A:) Probab=7.95 E-value=1.4e+02 Score=13.39 Aligned_cols=75 Identities=12% Similarity=0.158 Sum_probs=48.7 Q ss_pred HHHHHHHHHHHHHCCCCCCCCEEEEE---EEECCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCC-CCCCCHHHHHHH Q ss_conf 53100110012210124543215888---7405555668621289844178402300789983223-577675567675 Q gi|254780906|r 19 SSCGDTLSDSKQHNKINNTKNHLDLL---FPIDDSHNQKPTEKKPNTSSIKIKNNIIEPQPGPSRW-EGGWNGERYVRE 93 (96) Q Consensus 19 sscgdtlsdskqhnkinntknhldll---fpiddshnqkptekkpntssikiknniiepqpgpsrw-eggwngeryvre 93 (96) +.+.|.---.-+.....+..-...+| -||+++...-+-.-.|..-.+-|+-+------=|.-| |.+|+.+.+++. T Consensus 81 AA~~DpRF~Pl~~~EL~~l~ieVsvLs~~e~i~~~~~~~~~~~~~G~~Glii~~g~~~g~~LPqV~~E~~w~~~~fl~~ 159 (207) T 1zq7_A 81 AATRDPRFPTVEQDEXKNILVEVTILTQPEKINASPKELPDKVEIGKHGLIVKQGYCQGLLLPQVAPENDXDSIDFLSH 159 (207) T ss_dssp HHHSCTTSCCCCGGGGGGCEEEEEEECCCEECCSCTTTHHHHCCTTTCEEEEEETTEEEEECTTHHHHTTCCHHHHHHH T ss_pred HHHCCCCCCCCCHHHHCCCEEEEEECCCCEECCCCHHHHHHHHCCCCCEEEEEECCCCEEECCCCHHHCCCCHHHHHHH T ss_conf 9848999899996795378899997788578368745639970456635999848834688987310129999999999 No 5 >>1yfn_E Sigma-E factor negative regulatory protein; protein-peptide complex, SSPB, RSEA, protein binding; 1.80A {Escherichia coli} (E:) Probab=6.84 E-value=1.4e+02 Score=13.41 Aligned_cols=11 Identities=45% Similarity=1.162 Sum_probs=8.9 Q ss_pred CCCCCCCCCCC Q ss_conf 78998322357 Q gi|254780906|r 73 EPQPGPSRWEG 83 (96) Q Consensus 73 epqpgpsrweg 83 (96) |.||-|+.|.. T Consensus 1 EsQP~P~~W~~ 11 (32) T 1yfn_E 1 EAQPAPHQWQK 11 (32) T ss_pred CCCCCHHHHHH T ss_conf 99887167763 No 6 >>1q16_B Respiratory nitrate reductase 1 beta chain; membrane protein, electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA 3PH; 1.90A {Escherichia coli} (B:18-78,B:157-184) Probab=6.08 E-value=1.3e+02 Score=13.47 Aligned_cols=16 Identities=56% Similarity=1.562 Sum_probs=0.0 Q ss_pred CCCCCCCC---CCCC------CCCC Q ss_conf 30078998---3223------5776 Q gi|254780906|r 70 NIIEPQPG---PSRW------EGGW 85 (96) Q Consensus 70 niiepqpg---psrw------eggw 85 (96) |-+|..|| |.+| .||| T Consensus 25 NNVETkPG~GYPr~WEdqe~~~GGW 49 (89) T 1q16_B 25 NNVETKPGQGFPTDWENQEKYKGGW 49 (89) T ss_dssp SEEEEESSCTTTTTTTCHHHHCCSE T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCE T ss_conf 2545778778874401344457864 No 7 >>3fz3_A Prunin; TREE NUT allergen, allergy, amandin, almond, 11S SEED storage protein; 2.40A {Prunus dulcis} PDB: 3ehk_A (A:1-365) Probab=5.97 E-value=1.8e+02 Score=12.78 Aligned_cols=48 Identities=17% Similarity=0.302 Sum_probs=0.0 Q ss_pred HHHHHHH--------------------HHHHHHHHH-------------------------------------------- Q ss_conf 2658985--------------------310011001-------------------------------------------- Q gi|254780906|r 13 ITGMILS--------------------SCGDTLSDS-------------------------------------------- 28 (96) Q Consensus 13 itgmils--------------------scgdtlsds-------------------------------------------- 28 (96) |.||++. .|++|.-+. T Consensus 80 i~G~v~P~~~e~~~~~~~~~~~~~~~~gc~eT~~~~~~~~~~~~~~~g~~g~~~g~s~e~~~~~~~~~~~~~~~~~~~q~ 159 (365) T 3fz3_A 80 VLGAVFSGCPETFEESQQSSQQGRQQEQEQERQQQQQGEQGRQQGQQEQQQERQGRQQGRQQQEEGRQQEQQQGQQGRPQ 159 (365) T ss_dssp EEEECCTTCCCCEECCCC-------------------------------------------------------------- T ss_pred EEEEECCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 67646689910210631123444445443333322233332222210000023222222332222333333211123343 Q ss_pred --------HHHCCC--------------------CCCCCEEEEEEEECCCCCCCCCCCCC Q ss_conf --------221012--------------------45432158887405555668621289 Q gi|254780906|r 29 --------KQHNKI--------------------NNTKNHLDLLFPIDDSHNQKPTEKKP 60 (96) Q Consensus 29 --------kqhnki--------------------nntknhldllfpiddshnqkptekkp 60 (96) .+|-|| |+...-|.+++-+|-|.++..-+..| T Consensus 160 ~~~~~~~~D~hQKV~~~r~GDViAiPaGva~W~YNdGd~pLV~V~l~DtsN~~NQLD~~~ 219 (365) T 3fz3_A 160 QQQQFRQLDRHQKTRRIREGDVVAIPAGVAYWSYNDGDQELVAVNLFHVSSDHNQLDQNP 219 (365) T ss_dssp -----CCSCEESCCEEEETTEEEEECTTCCEEEECCSSSCEEEEEEEETTCTTCCSCSSC T ss_pred CCCCCCCCCHHHEEEECCCCCEEEECCCCEEEEEECCCCCEEEEEEECCCCCCCCCCCCC T ss_conf 323445676102356425578898789875998858998479999963667444477762 No 8 >>1b3t_A Protein (nuclear protein EBNA1); nuclear protein, protein-DNA complex, DNA-binding, activator; HET: DNA; 2.20A {Epstein-barr virus} (A:) Probab=5.89 E-value=1.9e+02 Score=12.59 Aligned_cols=7 Identities=86% Similarity=1.649 Sum_probs=0.0 Q ss_pred CCCCCCC Q ss_conf 8998322 Q gi|254780906|r 74 PQPGPSR 80 (96) Q Consensus 74 pqpgpsr 80 (96) |||||-| T Consensus 89 PqPgPl~ 95 (147) T 1b3t_A 89 PQPGPLR 95 (147) T ss_dssp CCCCTTC T ss_pred CCCCCCH T ss_conf 9897620 No 9 >>2jpj_A Bacteriocin lactococcin-G subunit alpha; peptide, anti-microbial, membrane bound, antimicrobial protein; NMR {Lactococcus lactis} PDB: 2jpl_A (A:) Probab=5.85 E-value=1.4e+02 Score=13.41 Aligned_cols=16 Identities=50% Similarity=0.717 Sum_probs=0.0 Q ss_pred HHHHHHHCCCCCCCCE Q ss_conf 1001221012454321 Q gi|254780906|r 25 LSDSKQHNKINNTKNH 40 (96) Q Consensus 25 lsdskqhnkinntknh 40 (96) +||-.|...||..|.| T Consensus 24 msdvnqasrinrkkkh 39 (39) T 2jpj_A 24 LSDVNQASRINRKKKH 39 (39) T ss_dssp CSHHHHHHHHHGGGCC T ss_pred HHHHHHHHHHHHHCCC T ss_conf 5343378874130059 No 10 >>3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding, structural genomics, protein structure initiative, PSI; 1.75A {Escherichia coli O157} (A:211-254) Probab=5.73 E-value=69 Score=14.98 Aligned_cols=20 Identities=45% Similarity=0.504 Sum_probs=0.0 Q ss_pred CCCCCCCCCCCEEEECCCCC Q ss_conf 68621289844178402300 Q gi|254780906|r 53 QKPTEKKPNTSSIKIKNNII 72 (96) Q Consensus 53 qkptekkpntssikiknnii 72 (96) |-|..--...|-.|+||||| T Consensus 23 qiprnvgdtesiaklknnii 42 (44) T 3g7u_A 23 QIPRNVGDTESIAKLKNNII 42 (44) T ss_dssp CCCTTCSCHHHHHHHHTTEE T ss_pred CCCCCCCCHHHHHHHHHCCC T ss_conf 26656540788987640235 Done!