Query gi|254780252|ref|YP_003064665.1| 30S ribosomal protein S17 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 79 No_of_seqs 106 out of 1566 Neff 5.4 Searched_HMMs 13730 Date Tue May 24 06:26:51 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780252.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d2uubq1 b.40.4.5 (Q:2-101) Rib 100.0 2.8E-32 2E-36 195.5 8.8 76 2-77 1-76 (100) 2 d2gy9q1 b.40.4.5 (Q:5-82) Ribo 100.0 1.2E-30 8.5E-35 186.5 11.0 75 4-78 1-75 (78) 3 d1ripa_ b.40.4.5 (A:) Ribosoma 100.0 2.5E-31 1.8E-35 190.2 -5.0 76 3-78 2-77 (81) 4 d1a62a2 b.40.4.5 (A:48-125) Rh 30.2 16 0.0012 15.2 3.6 31 49-79 42-72 (78) 5 d1c06a_ d.66.1.2 (A:) Ribosoma 20.5 17 0.0012 15.1 1.2 17 46-62 87-103 (159) 6 d1ah9a_ b.40.4.5 (A:) Translat 17.5 30 0.0022 13.8 4.1 52 4-69 6-63 (71) 7 d1e32a1 b.52.2.3 (A:21-106) Me 17.2 30 0.0022 13.7 2.0 13 50-62 73-85 (86) 8 d2gy9d1 d.66.1.2 (D:2-205) Rib 16.2 21 0.0015 14.7 0.8 24 39-62 118-146 (204) 9 d2ot2a1 b.40.14.1 (A:1-90) Hyd 15.1 29 0.0021 13.9 1.3 19 49-67 40-58 (90) 10 d2z1ca1 b.40.14.1 (A:2-72) Hyd 15.0 24 0.0017 14.3 0.9 18 50-67 34-51 (71) No 1 >d2uubq1 b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus thermophilus [TaxId: 274]} Probab=99.97 E-value=2.8e-32 Score=195.49 Aligned_cols=76 Identities=57% Similarity=0.889 Sum_probs=74.8 Q ss_pred CCEEEEEEEEEECCCCEEEEEEEEEEECCCCCEEECCCEEEEECCCCCCCCCCCEEEEEECCCCCCCEEEEEEEEE Q ss_conf 7347999999608986199999718878641308735103898688660406878999963775432039999764 Q gi|254780252|r 2 PKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAPISKKKSWLVIDSE 77 (79) Q Consensus 2 ~~k~l~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~~~~kk~~vHD~~~~~~~GD~V~i~e~rPiSK~K~~~vve~~ 77 (79) |+|+|.|+|+|++|+|||+|+++|+++||+|+|+++++++|+||||+|+|++||.|.|.|||||||+|+|.|+|+. T Consensus 1 pkr~l~G~Vvs~km~KTv~V~v~r~~~h~ky~K~~~r~kk~~vHD~~n~~k~GD~V~I~e~rPlSK~K~~~v~~Iv 76 (100) T d2uubq1 1 PKKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLV 76 (100) T ss_dssp CCCEEEEEECCCCBTTEEEEEEEEEEEETTTEEEEEEEEEEEEECTTCCCCTTCEEEEEEEEEEETTEEEEEEEEE T ss_pred CCEEEEEEEEECCCCCCEEEEEEEEEECCCCCEEEEEEEEEEEECCCCCCCCCCEEEEEECCCCCCCEEEEEEEEE T ss_conf 9818999999747997399999999954656789874079999998888999999999988678883579999998 No 2 >d2gy9q1 b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherichia coli [TaxId: 562]} Probab=99.97 E-value=1.2e-30 Score=186.55 Aligned_cols=75 Identities=49% Similarity=0.776 Sum_probs=72.9 Q ss_pred EEEEEEEEEECCCCEEEEEEEEEEECCCCCEEECCCEEEEECCCCCCCCCCCEEEEEECCCCCCCEEEEEEEEEE Q ss_conf 479999996089861999997188786413087351038986886604068789999637754320399997640 Q gi|254780252|r 4 RVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAPISKKKSWLVIDSEG 78 (79) Q Consensus 4 k~l~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~~~~kk~~vHD~~~~~~~GD~V~i~e~rPiSK~K~~~vve~~~ 78 (79) ++|.|+|+|++|+||++|+++|+++||+|+|+++++++|+||||+|+|++||.|.|+|||||||+|+|.|+|+.. T Consensus 1 r~l~G~Vvs~km~KTv~V~v~r~~~h~ky~K~~~~~kky~aHDe~~~~~~GD~V~I~e~rPlSK~K~~~v~~iv~ 75 (78) T d2gy9q1 1 RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECRPLSKTKSWTLVRVVE 75 (78) T ss_dssp CEEEEEEEECCSSSEEEEEEEEEEECSSSCCEEEEEEEEEEECTTCCCCTTCEEEEEECSCSSSSCCEEEEEEEE T ss_pred CEEEEEEEECCCCCCEEEEEEEEEECCCCCEEEEEEEEEEEECCCCCCCCCCEEEEEECCCCCCCEEEEEEEEEE T ss_conf 979999996689971999999999758667898853799999989777646499999867689928799999991 No 3 >d1ripa_ b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stearothermophilus [TaxId: 1422]} Probab=99.95 E-value=2.5e-31 Score=190.24 Aligned_cols=76 Identities=45% Similarity=0.675 Sum_probs=73.7 Q ss_pred CEEEEEEEEEECCCCEEEEEEEEEEECCCCCEEECCCEEEEECCCCCCCCCCCEEEEEECCCCCCCEEEEEEEEEE Q ss_conf 3479999996089861999997188786413087351038986886604068789999637754320399997640 Q gi|254780252|r 3 KRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAPISKKKSWLVIDSEG 78 (79) Q Consensus 3 ~k~l~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~~~~kk~~vHD~~~~~~~GD~V~i~e~rPiSK~K~~~vve~~~ 78 (79) ||+|.|+|+|++|+||++|+++|+++||+|+|+++++++|+||||+|+|++||.|.|.|||||||+|+|.|+|+.. T Consensus 2 rk~~~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~kr~kk~~aHd~~~~~~~GD~V~I~e~rPlSK~K~~~v~~Ii~ 77 (81) T d1ripa_ 2 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETRPLSATKRFRLVEIVE 77 (81) T ss_dssp CSCBCCEESCCCSSSCSCCCBCCSCCCSCSSSCCCCSBCCCCCCCSTTCSSCEECCBCCCCCSSSCCCCCCCCCBS T ss_pred CCEEEEEEEECCCCCCEEEEEEEEEECCCCCEEEEEEEEEEEECCCCCCCCCCEEEEEECCCCCCCEEEEEEEEEH T ss_conf 8599999996179973999999999757467898860899999999888648899999866789976599999855 No 4 >d1a62a2 b.40.4.5 (A:48-125) Rho termination factor, RNA-binding domain {Escherichia coli [TaxId: 562]} Probab=30.20 E-value=16 Score=15.20 Aligned_cols=31 Identities=16% Similarity=0.276 Sum_probs=27.2 Q ss_pred CCCCCCCEEEEEECCCCCCCEEEEEEEEEEC Q ss_conf 6040687899996377543203999976409 Q gi|254780252|r 49 NKYKVGDFVSIEESAPISKKKSWLVIDSEGV 79 (79) Q Consensus 49 ~~~~~GD~V~i~e~rPiSK~K~~~vve~~~~ 79 (79) ..++.||.|.=.-..|...-|.|-++.++.| T Consensus 42 fgLR~GD~V~G~vr~p~~~ek~~~L~~V~~V 72 (78) T d1a62a2 42 FNLRTGDTISGKIRPPKEGERYFALLKVNEV 72 (78) T ss_dssp TTCCTTCEEEEEEECCCTTCCSEEEEEEEEE T ss_pred HCCCCCCEEEEEEECCCCCCCCEEEEEEEEE T ss_conf 2998675899988889888875105899646 No 5 >d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} Probab=20.50 E-value=17 Score=15.11 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=13.8 Q ss_pred CCCCCCCCCCEEEEEEC Q ss_conf 88660406878999963 Q gi|254780252|r 46 DENNKYKVGDFVSIEES 62 (79) Q Consensus 46 D~~~~~~~GD~V~i~e~ 62 (79) =|+-.|++||.|.+.+- T Consensus 87 iPSy~vk~GDvIsvkek 103 (159) T d1c06a_ 87 IPSYRVKPGQTIAVREK 103 (159) T ss_dssp CSSCCCCSSCEEEECGG T ss_pred ECCEEECCCCEEEECCC T ss_conf 51215227848861200 No 6 >d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]} Probab=17.55 E-value=30 Score=13.78 Aligned_cols=52 Identities=23% Similarity=0.256 Sum_probs=36.6 Q ss_pred EEEEEEEEEECCCCEEEEEEEEEEECCCCCEEECCCEEEEECCC------CCCCCCCCEEEEEECCCCCCCE Q ss_conf 47999999608986199999718878641308735103898688------6604068789999637754320 Q gi|254780252|r 4 RVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDE------NNKYKVGDFVSIEESAPISKKK 69 (79) Q Consensus 4 k~l~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~~~~kk~~vHD~------~~~~~~GD~V~i~e~rPiSK~K 69 (79) ..+.|+|+....+..-.|+.+- -....+|-+ .....+||.|.++ -+|..-+| T Consensus 6 ie~~G~V~e~lg~~~f~V~l~n-------------g~~~~a~i~Gkmrk~ri~i~~GD~V~Ve-l~pyd~~k 63 (71) T d1ah9a_ 6 IEMQGTVLETLPNTMFRVELEN-------------GHVVTAHISGKMRKNYIRILTGDKVTVE-LTPYDLSK 63 (71) T ss_dssp EECCEEEEEECSSSEEEEEETT-------------SCEEEEEECSSGGGTTCCCCTTCEECCE-ECSSCTTE T ss_pred EEEEEEEEEECCCCEEEEEECC-------------CCEEEEECCCHHHEEEEEECCCCEEEEE-ECCCCCCC T ss_conf 8999999998699889999679-------------9799998464343027996499999999-77667993 No 7 >d1e32a1 b.52.2.3 (A:21-106) Membrane fusion ATPase p97 N-terminal domain , P97-Nn {Mouse (Mus musculus) [TaxId: 10090]} Probab=17.20 E-value=30 Score=13.73 Aligned_cols=13 Identities=31% Similarity=0.721 Sum_probs=7.5 Q ss_pred CCCCCCEEEEEEC Q ss_conf 0406878999963 Q gi|254780252|r 50 KYKVGDFVSIEES 62 (79) Q Consensus 50 ~~~~GD~V~i~e~ 62 (79) -+.+||.|.|.+| T Consensus 73 gv~iGD~V~V~p~ 85 (86) T d1e32a1 73 RVRLGDVISIQPC 85 (86) T ss_dssp TCCTTCEEEEEEC T ss_pred CCCCCCEEEEEEC T ss_conf 9689999999969 No 8 >d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} Probab=16.19 E-value=21 Score=14.65 Aligned_cols=24 Identities=29% Similarity=0.264 Sum_probs=16.5 Q ss_pred CEEEEEC-----CCCCCCCCCCEEEEEEC Q ss_conf 1038986-----88660406878999963 Q gi|254780252|r 39 SKRYAVH-----DENNKYKVGDFVSIEES 62 (79) Q Consensus 39 ~kk~~vH-----D~~~~~~~GD~V~i~e~ 62 (79) +.+++|. =|+-.|++||+|.+.|- T Consensus 118 Hghi~VNgk~VnIPSy~vk~GDvIsvkek 146 (204) T d2gy9d1 118 HKAIMVNGRVVNIASYQVSPNDVVSIREK 146 (204) T ss_dssp TTCEEESSSBCCCTTCBCCTTCBEEECTT T ss_pred HCCEECCCEEEEECCEEECCCCEEEECCC T ss_conf 51164198899750076058977886221 No 9 >d2ot2a1 b.40.14.1 (A:1-90) Hydrogenase expression/formation protein HypC {Escherichia coli [TaxId: 562]} Probab=15.15 E-value=29 Score=13.87 Aligned_cols=19 Identities=21% Similarity=0.357 Sum_probs=14.4 Q ss_pred CCCCCCCEEEEEECCCCCC Q ss_conf 6040687899996377543 Q gi|254780252|r 49 NKYKVGDFVSIEESAPISK 67 (79) Q Consensus 49 ~~~~~GD~V~i~e~rPiSK 67 (79) -+.++||+|.+.-.--+|| T Consensus 40 ~e~~vGDyVLVH~G~Ai~~ 58 (90) T d2ot2a1 40 GQPRVGQWVLVHVGFAMSV 58 (90) T ss_dssp SCBCTTCEEEEETTEEEEE T ss_pred CCCCCCCEEEEEHHHHHHH T ss_conf 6468788999952177775 No 10 >d2z1ca1 b.40.14.1 (A:2-72) Hydrogenase expression/formation protein HypC {Thermococcus kodakaraensis [TaxId: 311400]} Probab=14.99 E-value=24 Score=14.31 Aligned_cols=18 Identities=33% Similarity=0.477 Sum_probs=13.8 Q ss_pred CCCCCCEEEEEECCCCCC Q ss_conf 040687899996377543 Q gi|254780252|r 50 KYKVGDFVSIEESAPISK 67 (79) Q Consensus 50 ~~~~GD~V~i~e~rPiSK 67 (79) ++++||+|.+...--++| T Consensus 34 e~~vGDyVLVh~G~Ai~~ 51 (71) T d2z1ca1 34 DTKPGDWVIVHTGFAIEK 51 (71) T ss_dssp TCCTTCEEEEETTEEEEE T ss_pred CCCCCCEEEEEECHHHHH T ss_conf 999998999960324555 Done!