RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780318|ref|YP_003064731.1| ribosomal protein L20 [Candidatus Liberibacter asiaticus str. psy62] (123 letters) >3ofq_Q 50S ribosomal protein L20; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_O 1p86_O 2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q* 2qba_Q* 2qbc_Q* 2qbe_Q 2qbg_Q 2qbi_Q* 2qbk_Q* 2qov_Q 2qox_Q 2qoz_Q* 2qp1_Q* 2rdo_Q 2vhm_Q ... Length = 117 Score = 144 bits (366), Expect = 5e-36 Identities = 62/115 (53%), Positives = 84/115 (73%) Query: 3 RVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWI 62 RVKRGV++ A+HKK+LK AKG+YG R R A AV ++ QYAYRDRR +KR FR LWI Sbjct: 2 RVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQLWI 61 Query: 63 QRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117 RINAA R ++YS+FINGL KA + +DRK+L+D+A+ +F +VE +++ L Sbjct: 62 ARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAAL 116 >2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: a.144.2.1 PDB: 1nwx_O* 1nwy_O* 1sm1_O* 1xbp_O* 1yl3_1 2b66_U 2b9n_U 2b9p_U 2zjp_N* 2zjq_N 1nkw_O 3cf5_N* 3dll_N* 1pnu_O 1pny_O 1vor_R 1vou_R 1vow_R 1voy_R 1vp0_R Length = 118 Score = 142 bits (361), Expect = 1e-35 Identities = 62/117 (52%), Positives = 80/117 (68%) Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60 M R K G+V +HKKVLK AKGF+G R R A + + Y YRDRR KKRDFR L Sbjct: 1 MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRL 60 Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117 WIQRINA R++ +NYS FINGL +A I L+RKVL+D+A + ++FK +V+ SR+ Sbjct: 61 WIQRINAGARLHGMNYSTFINGLKRANIDLNRKVLADIAAREPEAFKALVDASRNAR 117 >3i1n_Q 50S ribosomal protein L20; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_Q 3e1b_J 3e1d_J 1vs6_Q 3i1p_Q 3i1r_Q 3i1t_Q 3i20_Q 3i22_Q 2qam_Q* 1p85_O 1p86_O 2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q* 2qba_Q* 2qbc_Q* ... Length = 118 Score = 141 bits (356), Expect = 5e-35 Identities = 63/117 (53%), Positives = 85/117 (72%) Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60 M RVKRGV++ A+HKK+LK AKG+YG R R A AV ++ QYAYRDRR +KR FR L Sbjct: 1 MARVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQL 60 Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117 WI RINAA R ++YS+FINGL KA + +DRK+L+D+A+ +F +VE +++ L Sbjct: 61 WIARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAAL 117 >2j01_U 50S ribosomal protein L20; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: a.144.2.1 PDB: 1vsp_O 2hgj_T 2hgq_T 2hgu_T 1vsa_O 2j03_U 2jl6_U 2jl8_U 2v47_U 2v49_U 2wdi_U 2wdj_U 2wdl_U 2wdn_U 2wh2_U 2wh4_U 3d5b_U 3d5d_U 3f1f_U 3f1h_U ... Length = 118 Score = 140 bits (355), Expect = 8e-35 Identities = 59/117 (50%), Positives = 79/117 (67%) Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60 M R K GVV KHKK+LK AKG++G R + R A+ + + YAY R+ +KRDFR L Sbjct: 1 MPRAKTGVVRRRKHKKILKLAKGYWGLRSKSFRKARETLFAAGNYAYAHRKRRKRDFRRL 60 Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117 WI RINAA R + LNYS FI+GL KAGI +DRK L+DLA+ + F ++VE +++ Sbjct: 61 WIVRINAACRQHGLNYSTFIHGLKKAGIEVDRKNLADLAVREPQVFAELVERAKAAQ 117 >2ftc_L MRPL20 protein; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} Length = 118 Score = 129 bits (326), Expect = 2e-31 Identities = 41/111 (36%), Positives = 61/111 (54%) Query: 6 RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRI 65 R + ++VLK A+ F GR+ R A V R+ + R +KK++ R+LWI RI Sbjct: 6 RVTDRYFRIQEVLKHARHFRGRKNRCYRLAVRTVIRAFVKCTKARYLKKKNMRTLWINRI 65 Query: 66 NAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSR 116 AA + + L Y I L K + L+RKVL+DLAI + +FK + L+ R Sbjct: 66 TAASQEHGLKYPALIGNLVKCQVELNRKVLADLAIYEPKTFKSLAALASRR 116 >3bbo_S Ribosomal protein L20; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 119 Score = 128 bits (324), Expect = 3e-31 Identities = 45/113 (39%), Positives = 64/113 (56%), Gaps = 2/113 (1%) Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60 MTRVKRG ++ + KK+ A F G R R+ A+RDR +KRDFR L Sbjct: 1 MTRVKRGYIARRRRKKIRFFASSFRGAHSRLTRTIAQQKIRALVSAHRDRDRQKRDFRRL 60 Query: 61 WIQRINAAVRVYDLN--YSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVE 111 WI RINAA+R + YS+FI+ L+K ++L+RK+L+ +AI + I Sbjct: 61 WITRINAAIRERGVYYNYSKFIHDLYKRQLLLNRKILAQIAILNPNCIYMIYN 113 >2ghj_A 50S ribosomal protein L20; folding intermediate, ribosomal protein extension, structural protein; 2.90A {Aquifex aeolicus} PDB: 1gyz_A Length = 118 Score = 127 bits (321), Expect = 6e-31 Identities = 61/112 (54%), Positives = 80/112 (71%) Query: 6 RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRI 65 +G S K KK+LK AKG+ G+R + R AK AV R+ Y YRDR+++KR+FR LWI RI Sbjct: 4 KGPSSRRKKKKILKLAKGYRGQRSRSYRRAKEAVMRALYYQYRDRKLRKREFRRLWIARI 63 Query: 66 NAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117 NAAVR Y LNYS FINGL KAGI LDRK+L+D+A+ +F+++V + L Sbjct: 64 NAAVRAYGLNYSTFINGLKKAGIELDRKILADMAVRDPQAFEQVVNKVKEAL 115 >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 = 25.0 bits (53), Expect = 4.3 Identities = 3/13 (23%), Positives = 11/13 (84%), Gaps = 1/13 (7%) Query: 62 IQRINAAVRVY-D 73 ++++ A++++Y D Sbjct: 22 LKKLQASLKLYAD 34 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 0.323 0.134 0.366 Gapped Lambda K H 0.267 0.0737 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 967,484 Number of extensions: 40489 Number of successful extensions: 140 Number of sequences better than 10.0: 1 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 16 Length of query: 123 Length of database: 5,693,230 Length adjustment: 81 Effective length of query: 42 Effective length of database: 3,729,466 Effective search space: 156637572 Effective search space used: 156637572 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 51 (23.4 bits)