Query gi|254780339|ref|YP_003064752.1| hypothetical protein CLIBASIA_01120 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 88 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 12:05:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780339.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1qmh_A RNA 3'-terminal phosph 11.3 64 0.0019 14.8 0.2 25 12-36 27-51 (254) 2 >2qx5_A Nucleoporin NIC96; mRN 10.2 86 0.0025 14.0 0.5 12 42-53 24-35 (85) 3 >3dw8_B Serine/threonine-prote 9.6 1.2E+02 0.0036 13.2 1.1 23 59-85 69-91 (151) 4 >1avy_A Fibritin, gpwac M; coi 9.5 99 0.0029 13.7 0.6 12 76-87 62-73 (74) 5 >1wq6_A AML1-ETO; NHR2, oncopr 9.3 1.1E+02 0.0034 13.4 0.9 18 43-60 22-39 (72) 6 >2k9j_B Integrin beta-3; trans 8.9 1.1E+02 0.0034 13.4 0.7 10 42-51 29-38 (43) 7 >2waq_C DNA-directed RNA polym 8.0 50 0.0015 15.3 -1.4 16 7-22 29-44 (63) 8 >1df6_A Cycloviolacin O1; cycl 4.9 2E+02 0.0059 12.0 0.3 10 47-56 9-18 (30) 9 >1f32_A Major pepsin inhibitor 4.7 1.9E+02 0.0056 12.2 0.0 9 62-70 8-16 (50) 10 >2qp2_A Unknown protein; toxin 4.3 2.5E+02 0.0073 11.5 0.4 9 2-10 25-33 (154) No 1 >>1qmh_A RNA 3'-terminal phosphate cyclase; 2'3'cyclic phosphate RNA; HET: CIT; 2.1A {Escherichia coli} (A:1-186,A:280-347) Probab=11.33 E-value=64 Score=14.77 Aligned_cols=25 Identities=28% Similarity=0.304 Sum_probs=19.9 Q ss_pred HHHCCCCEEEEEEEECCCCCEEEEE Q ss_conf 6520481377444312667616730 Q gi|254780339|r 12 EAITNNRVEIANIRADMSGTSMKIQ 36 (88) Q Consensus 12 eaitnnrveianiradmsgtsmkiq 36 (88) -++++..|+|.|||+.-+....+-| T Consensus 27 S~ltgkpv~I~nIRa~R~~PGL~~q 51 (254) T 1qmh_A 27 SMITGQPFTITSIRAGRAKPGLLRQ 51 (254) T ss_dssp HHHHCCCEEEESTTTTBSSCSCCHH T ss_pred HHHHCCCEEEEEECCCCCCCCCHHH T ss_conf 9975897799984689989885699 No 2 >>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A (A:54-88,A:296-345) Probab=10.25 E-value=86 Score=14.04 Aligned_cols=12 Identities=50% Similarity=0.745 Sum_probs=8.9 Q ss_pred CHHHHHHHHHCC Q ss_conf 125456666402 Q gi|254780339|r 42 MSWKILTTMIGC 53 (88) Q Consensus 42 mswkilttmigc 53 (88) -|||||..|-.- T Consensus 24 ~~~~~~~~~~~~ 35 (85) T 2qx5_A 24 ESWKILESMKSK 35 (85) T ss_dssp HHHHHHHTTTTS T ss_pred HHHHHHHHHHCC T ss_conf 999999998704 No 3 >>3dw8_B Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform...; PP2A, holoenzyme, PR55, acetylation, polymorphism, WD repeat, cytoplasm, hydrolase, iron, manganese, metal- binding, methylation; HET: ADD; 2.85A {Homo sapiens} (B:26-176) Probab=9.58 E-value=1.2e+02 Score=13.21 Aligned_cols=23 Identities=43% Similarity=0.522 Sum_probs=13.5 Q ss_pred CCCCEEEEEECCCCCCCCEEEEEECCC Q ss_conf 030036898505655410057871133 Q gi|254780339|r 59 GTINQVLVLNVPTANSLQNWFLLSTNL 85 (88) Q Consensus 59 gtinqvlvlnvptanslqnwfllstnl 85 (88) ..||++-- +|++| .+.||||||- T Consensus 69 EKINkIkW--l~~~n--~a~fLLSTND 91 (151) T 3dw8_B 69 EKINKIRW--LPQKN--AAQFLLSTND 91 (151) T ss_dssp CCCCEEEE--CCCCS--SSEEEEEECS T ss_pred CCEEEEEE--ECCCC--CCEEEEEECC T ss_conf 98889998--35899--8789999289 No 4 >>1avy_A Fibritin, gpwac M; coiled coil, structural protein, chaperone, bacteriophage assembly, protein folding; 1.85A {Bacteriophage T4} (A:) Probab=9.50 E-value=99 Score=13.72 Aligned_cols=12 Identities=58% Similarity=0.819 Sum_probs=10.1 Q ss_pred CEEEEEECCCCC Q ss_conf 005787113344 Q gi|254780339|r 76 QNWFLLSTNLSE 87 (88) Q Consensus 76 qnwfllstnlse 87 (88) -.|.||||-||. T Consensus 62 GeWVlLsTflsp 73 (74) T 1avy_A 62 GEWVLLSTFLSP 73 (74) T ss_dssp TEEEEGGGGSSC T ss_pred CCEEEEEECCCC T ss_conf 838986612468 No 5 >>1wq6_A AML1-ETO; NHR2, oncoprotein; 2.00A {Homo sapiens} (A:) Probab=9.31 E-value=1.1e+02 Score=13.38 Aligned_cols=18 Identities=22% Similarity=0.659 Sum_probs=15.5 Q ss_pred HHHHHHHHHCCCHHHHCC Q ss_conf 254566664020233303 Q gi|254780339|r 43 SWKILTTMIGCSSAMLGT 60 (88) Q Consensus 43 swkilttmigcssamlgt 60 (88) .||-+.+|..|-..|... T Consensus 22 eWkhl~~~LnCI~~MveK 39 (72) T 1wq6_A 22 EWKHLDHLLNCIXDXVEK 39 (72) T ss_dssp HHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 999899999999999999 No 6 >>2k9j_B Integrin beta-3; transmembrane complex, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues, disease mutation; NMR {Homo sapiens} PDB: 2rmz_A 2rn0_A (B:) Probab=8.86 E-value=1.1e+02 Score=13.35 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=7.1 Q ss_pred CHHHHHHHHH Q ss_conf 1254566664 Q gi|254780339|r 42 MSWKILTTMI 51 (88) Q Consensus 42 mswkilttmi 51 (88) +.||+++|+- T Consensus 29 ~iWKll~tih 38 (43) T 2k9j_B 29 LIWKLLITIH 38 (43) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999998875 No 7 >>2waq_C DNA-directed RNA polymerase RPO1C subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_C 3hkz_C 2pmz_C (C:1-63) Probab=8.01 E-value=50 Score=15.35 Aligned_cols=16 Identities=31% Similarity=0.443 Sum_probs=12.5 Q ss_pred CCHHHHHHCCCCEEEE Q ss_conf 3105665204813774 Q gi|254780339|r 7 DSNLKEAITNNRVEIA 22 (88) Q Consensus 7 dsnlkeaitnnrveia 22 (88) -+.|+++|+|+.+++. T Consensus 29 i~dLr~~i~n~~i~~T 44 (63) T 2waq_C 29 VEDLKNLISNKEVLVT 44 (63) T ss_dssp CTHHHHHHHHHHHTTT T ss_pred HHHHHHHHCCCCEECC T ss_conf 9999987435525428 No 8 >>1df6_A Cycloviolacin O1; cyclic cystine knot, backbone cyclic, 3-10 helix, double- stranded anti- parallel beta-sheet, hairpin bends, loops; NMR {Viola odorata} (A:) Probab=4.86 E-value=2e+02 Score=12.01 Aligned_cols=10 Identities=40% Similarity=1.065 Sum_probs=6.5 Q ss_pred HHHHHCCCHH Q ss_conf 6666402023 Q gi|254780339|r 47 LTTMIGCSSA 56 (88) Q Consensus 47 lttmigcssa 56 (88) .|.++|||-. T Consensus 9 vtallgcsc~ 18 (30) T 1df6_A 9 VTALLGCSCS 18 (30) T ss_dssp SSGGGTCEEE T ss_pred EEEEECCCCC T ss_conf 1035536646 No 9 >>1f32_A Major pepsin inhibitor PI-3; proteinase inhibitor, hydrolase inhibitor; 1.75A {Ascaris suum} (A:11-60) Probab=4.73 E-value=1.9e+02 Score=12.16 Aligned_cols=9 Identities=67% Similarity=1.010 Sum_probs=0.0 Q ss_pred CEEEEEECC Q ss_conf 036898505 Q gi|254780339|r 62 NQVLVLNVP 70 (88) Q Consensus 62 nqvlvlnvp 70 (88) |||.|-|.| T Consensus 8 nqvfvanlp 16 (50) T 1f32_A 8 NQVFVANLP 16 (50) T ss_dssp TEEEETTEE T ss_pred CEEEECCCE T ss_conf 898855744 No 10 >>2qp2_A Unknown protein; toxin, unknown function; 2.00A {Photorhabdus luminescens subsp} (A:358-511) Probab=4.34 E-value=2.5e+02 Score=11.50 Aligned_cols=9 Identities=78% Similarity=0.984 Sum_probs=0.0 Q ss_pred CCCCCCCHH Q ss_conf 544433105 Q gi|254780339|r 2 IKSTKDSNL 10 (88) Q Consensus 2 ikstkdsnl 10 (88) .|||||.|| T Consensus 25 lkstkdenl 33 (154) T 2qp2_A 25 LKSTKDENL 33 (154) T ss_dssp CBSSSBCCS T ss_pred CCCCHHHCC T ss_conf 657033212 Done!