RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780236|ref|YP_003064649.1| 50S ribosomal protein L17 [Candidatus Liberibacter asiaticus str. psy62] (136 letters) >3ofq_N 50S ribosomal protein L17; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 3fik_N 2wwq_N 3ofr_N* 3i1n_N 1p85_L 1p86_L 1vs8_N 1vs6_N 2aw4_N 2awb_N 1vt2_N 2i2v_N 2j28_N 2i2t_N* 2qao_N* 2qba_N* 2qbc_N* 2qbe_N 2qbg_N 2qbi_N* ... Length = 120 Score = 168 bits (428), Expect = 3e-43 Identities = 69/119 (57%), Positives = 87/119 (73%) Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60 MRH SGR+LNR SSHR+AMF NMA S++ HE I TTLPKAKELR +VE L+TL K + Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60 Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRD 119 + RLA ++ D ++V KLF + R++ R+GGY RI+K GFR GD+APMA IE VDR Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRS 119 >3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Nicotiana tabacum} SCOP: i.1.1.2 Length = 205 Score = 166 bits (422), Expect = 1e-42 Identities = 46/116 (39%), Positives = 69/116 (59%) Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60 MRH KLNR R+A+ + ++ H +I TT +A+ +R V+K++T+ K G L Sbjct: 90 MRHGRKVPKLNRPPDQRRALLRGLTTQLLKHGRIKTTKARARAVRKYVDKMITMAKDGSL 149 Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFV 116 H R A+ I + +V+ LF + RY +R+GGY RI++ R GD+APMA IE V Sbjct: 150 HKRRQALGFIYEKQIVHALFAEVPDRYGERNGGYTRIIRTLPRRGDNAPMAYIELV 205 >3i1n_N 50S ribosomal protein L17; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1p85_L 1p86_L 1vs8_N 2aw4_N 2awb_N 1vs6_N 2i2v_N 2j28_N 2i2t_N* 2qao_N* 2qba_N* 2qbc_N* 2qbe_N 2qbg_N 2qbi_N* 2qbk_N* 2qov_N 2qox_N 2qoz_N* 2qp1_N* ... Length = 127 Score = 160 bits (407), Expect = 8e-41 Identities = 70/124 (56%), Positives = 89/124 (71%) Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60 MRH SGR+LNR SSHR+AMF NMA S++ HE I TTLPKAKELR +VE L+TL K + Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60 Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDL 120 + RLA ++ D ++V KLF + R++ R+GGY RI+K GFR GD+APMA IE VDR Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE 120 Query: 121 SAKG 124 A+ Sbjct: 121 KAEA 124 >1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein S8-like domain, Trp repressor-like domain, helix-turn-helix motif; 2.30A {Thermus thermophilus} SCOP: d.188.1.1 PDB: 1vsa_L 1vsp_L 1yl3_0 2b66_R 2b9n_R 2b9p_R 2hgj_Q 2hgq_Q 2hgu_Q 2j01_R 2j03_R 2jl6_R 2jl8_R 2v47_R 2v49_R 2wdi_R 2wdj_R 2wdl_R 2wdn_R 2wh2_R ... Length = 118 Score = 157 bits (399), Expect = 7e-40 Identities = 63/118 (53%), Positives = 82/118 (69%), Gaps = 1/118 (0%) Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60 MRH SGRKLNR SSHR A++ N A S++ H +I TT+PKAKELR V+ L+ L K+G L Sbjct: 1 MRHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDL 60 Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRG-FRYGDSAPMAVIEFVD 117 H+ RL + + DV +V KLF IA RY DR GGY R++K R GD AP+A++E V+ Sbjct: 61 HARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKLAERRRGDGAPLALVELVE 118 >2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.188.1.1 PDB: 1nwx_L* 1nwy_L* 1sm1_L* 1xbp_L* 2zjp_K* 2zjq_K 1nkw_L 3cf5_K* 3dll_K* 1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O 1voy_O 1vp0_O Length = 116 Score = 149 bits (377), Expect = 2e-37 Identities = 59/116 (50%), Positives = 75/116 (64%) Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60 MRH +GRKLNR SS R A+ A +++ +I TTL KAKELRP VE+L+T K G L Sbjct: 1 MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDL 60 Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFV 116 HS RL I D DVV K+ +A +Y++R GGY RI++ G R GD MA+IE V Sbjct: 61 HSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV 116 >2cqm_A Ribosomal protein L17 isolog; alpha and beta (A+B), structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.188.1.1 PDB: 2ftc_J 3iy9_S Length = 122 Score = 131 bits (331), Expect = 4e-32 Identities = 39/120 (32%), Positives = 62/120 (51%), Gaps = 2/120 (1%) Query: 14 SSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHS--LRLAISKIG 71 SS + N+ ++ HE+I + E+R EKL+ GK G + +R+A + Sbjct: 2 SSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLT 61 Query: 72 DVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDLSAKGTPVSRKS 131 + D++ KLF ++A RY D++GGY R+++ R D A MAVIE+ L P S Sbjct: 62 EKDLIPKLFQVLAPRYKDQTGGYTRMLQIPNRSLDRAKMAVIEYKGNCLPPLPLPSGPSS 121 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 33.8 bits (76), Expect = 0.014 Identities = 18/80 (22%), Positives = 21/80 (26%), Gaps = 55/80 (68%) Query: 49 EK--LVTLGKKGGLH-SLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYG 105 EK L KK L SL+L Y+D Sbjct: 18 EKQAL----KK--LQASLKL---------------------YAD---------------- 34 Query: 106 DSAPMAVIEFVDRDLSAKGT 125 DSAP L+ K T Sbjct: 35 DSAPA---------LAIKAT 45 >3bow_A Calpain-2 catalytic subunit; cysteine protease, calcium, inhibitor, cell membrane, cytoplasm, hydrolase, membrane, protease, thiol protease; 2.40A {Rattus norvegicus} PDB: 3df0_A 1df0_A 1u5i_A 1kfu_L 1kfx_L Length = 714 Score = 28.9 bits (64), Expect = 0.38 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 12/66 (18%) Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGY-----------LRIMKRGFRYGDSAP 109 + +R A+ + G + +L +I R++D L I+ + F+ D Sbjct: 625 YEMRKALEEAG-FKLPCQLHQVIVARFADDELIIDFDNFVRCLVRLEILFKIFKQLDPEN 683 Query: 110 MAVIEF 115 I+ Sbjct: 684 TGTIQL 689 >2v4n_A Multifunctional protein SUR E; hydrolase, surviVal protein, stationary phase, phosphatase, mononucleotidase, divalent metal ION; 1.7A {Salmonella typhimurium} PDB: 2v4o_A Length = 254 Score = 25.4 bits (55), Expect = 5.1 Identities = 7/18 (38%), Positives = 11/18 (61%) Query: 59 GLHSLRLAISKIGDVDVV 76 G+ +L A+ + DV VV Sbjct: 16 GIQTLAKALREFADVQVV 33 >2e6c_A 5'-nucleotidase SURE; SURE protein, cowith manganese ION and AMP, hydrolase; 2.05A {Thermus thermophilus HB8} PDB: 2e6b_A 2e69_A 2e6e_A 2e6g_A 2e6h_A Length = 244 Score = 25.1 bits (54), Expect = 5.3 Identities = 8/18 (44%), Positives = 11/18 (61%) Query: 59 GLHSLRLAISKIGDVDVV 76 GL +L A S+ G+V V Sbjct: 15 GLWALAEAASQFGEVFVA 32 >1za0_A Possible acyl-[acyl-carrier protein] desaturase DESA2 (acyl-[ACP] desaturase) (stearoyl-ACP...; four-helix bundle; 2.00A {Mycobacterium tuberculosis H37RV} SCOP: a.25.1.2 Length = 275 Score = 24.8 bits (54), Expect = 6.4 Identities = 10/56 (17%), Positives = 19/56 (33%), Gaps = 1/56 (1%) Query: 69 KIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDLSAKG 124 +I + ++ L IA+ + ++ Y +A I DL G Sbjct: 172 QIEE-PILAGLIDRIARDEVRHEEFFANLVTHCLDYTRDETIAAIAARAADLDVLG 226 >1l5x_A SurviVal protein E; structural genomics, putative acid phosphatase, mixed alpha/beta protein, N-terminal rossmann-fold like; 2.00A {Pyrobaculum aerophilum} SCOP: c.106.1.1 Length = 280 Score = 24.6 bits (53), Expect = 6.8 Identities = 9/18 (50%), Positives = 10/18 (55%) Query: 59 GLHSLRLAISKIGDVDVV 76 GL L +GDVDVV Sbjct: 15 GLRLLYQFALSLGDVDVV 32 >2r2j_A Thioredoxin domain-containing protein 4; CRFS motif, chaperone, endoplasmic reticulum, stress response; 2.60A {Homo sapiens} Length = 382 Score = 24.4 bits (52), Expect = 9.6 Identities = 14/80 (17%), Positives = 35/80 (43%), Gaps = 10/80 (12%) Query: 42 KELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRG 101 + L PI E+ + K+ + ++ +++ D D + + A+RY L++ + G Sbjct: 38 QMLHPIFEEASDVIKEEFPNENQVVFARV-DCDQHSDI----AQRYRISKYPTLKLFRNG 92 Query: 102 -----FRYGDSAPMAVIEFV 116 G + A+ +++ Sbjct: 93 MMMKREYRGQRSVKALADYI 112 >2phj_A 5'-nucleotidase SURE; SURE protein, putative acid phosphatase, structural genomics, 3-D structure, mixed alpha/beta protein, NPPSFA; 1.50A {Aquifex aeolicus VF5} Length = 251 Score = 24.3 bits (52), Expect = 9.9 Identities = 8/18 (44%), Positives = 13/18 (72%) Query: 59 GLHSLRLAISKIGDVDVV 76 G+++LR A+ +G V VV Sbjct: 16 GINALREALKSLGRVVVV 33 >3g5b_A Netrin receptor UNC5B; ZU5, death domain, UPA, apoptosis, developmental protein, glycoprotein, immunoglobulin domain, membrane, phosphoprotein; 2.00A {Rattus norvegicus} Length = 405 Score = 24.4 bits (52), Expect = 9.9 Identities = 6/25 (24%), Positives = 14/25 (56%) Query: 55 GKKGGLHSLRLAISKIGDVDVVNKL 79 G L+SL A+ ++G +++ + Sbjct: 375 QDDGDLNSLASALEEMGKSEMLVAM 399 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.321 0.135 0.382 Gapped Lambda K H 0.267 0.0648 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,131,426 Number of extensions: 48798 Number of successful extensions: 111 Number of sequences better than 10.0: 1 Number of HSP's gapped: 108 Number of HSP's successfully gapped: 20 Length of query: 136 Length of database: 5,693,230 Length adjustment: 83 Effective length of query: 53 Effective length of database: 3,680,978 Effective search space: 195091834 Effective search space used: 195091834 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 51 (23.6 bits)