RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780481|ref|YP_003064894.1| 50S ribosomal protein L34 [Candidatus Liberibacter asiaticus str. psy62] (44 letters) >3ofq_2 50S ribosomal protein L34; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1vs8_2 1vs6_2 2aw4_2 2awb_2 1vt2_2 2i2v_2 2j28_2 2i2t_2* 2qao_2* 2qba_2* 2qbc_2* 2qbe_2 2qbg_2 2qbi_2* 2qbk_2* 2qov_2 2qox_2 2qoz_2* 2qp1_2* 2rdo_2 ... Length = 46 Score = 42.7 bits (101), Expect = 2e-05 Identities = 24/43 (55%), Positives = 33/43 (76%) Query: 1 MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43 MKRT+ PS + R R GF ARM+T++G ++L RRR+KGR RL+ Sbjct: 1 MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLT 43 >3i1n_2 50S ribosomal protein L34; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_2 2aw4_2 2awb_2 1vs6_2 2i2v_2 2j28_2 2i2t_2* 2qao_2* 2qba_2* 2qbc_2* 2qbe_2 2qbg_2 2qbi_2* 2qbk_2* 2qov_2 2qox_2 2qoz_2* 2qp1_2* 2rdo_2 2vhm_2 ... Length = 46 Score = 41.1 bits (97), Expect = 7e-05 Identities = 24/43 (55%), Positives = 33/43 (76%) Query: 1 MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43 MKRT+ PS + R R GF ARM+T++G ++L RRR+KGR RL+ Sbjct: 1 MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLT 43 >2j01_7 50S ribosomal protein L34; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: j.118.1.1 PDB: 1vsp_Z 2hgj_6 2hgq_6 2hgu_6 1vsa_Z 2j03_7 2jl6_7 2jl8_7 2v47_7 2v49_7 2wdi_7 2wdj_7 2wdl_7 2wdn_7 2wh2_7 2wh4_7 3d5b_7 3d5d_7 3f1f_7 3f1h_7 ... Length = 49 Score = 40.8 bits (96), Expect = 7e-05 Identities = 22/44 (50%), Positives = 28/44 (63%) Query: 1 MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLSA 44 MKRT+ P+ R + GF ARM T G ++L RRR KGR RL+ Sbjct: 1 MKRTWQPNRRKRAKTHGFRARMRTPGGRKVLKRRRQKGRWRLTP 44 >2ftc_Q L34MT, MRP-L34, 39S ribosomal protein L34, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} Length = 38 Score = 32.0 bits (73), Expect = 0.033 Identities = 19/38 (50%), Positives = 28/38 (73%) Query: 5 YNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRL 42 Y PSNI RK + G++ R+ST +G++++ RR KGRK L Sbjct: 1 YQPSNIKRKNKHGWVRRLSTPAGVQVILRRMLKGRKSL 38 >3bbo_4 Ribosomal protein L34; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 152 Score = 25.8 bits (56), Expect = 2.2 Identities = 19/37 (51%), Positives = 22/37 (59%) Query: 6 NPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRL 42 + S R GF RMST SG +L RRR+KGRK L Sbjct: 102 SRSRKSLARTHGFRLRMSTTSGRALLKRRRAKGRKIL 138 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 0.329 0.136 0.388 Gapped Lambda K H 0.267 0.0738 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 382,735 Number of extensions: 11677 Number of successful extensions: 40 Number of sequences better than 10.0: 1 Number of HSP's gapped: 40 Number of HSP's successfully gapped: 5 Length of query: 44 Length of database: 5,693,230 Length adjustment: 17 Effective length of query: 27 Effective length of database: 5,281,082 Effective search space: 142589214 Effective search space used: 142589214 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 50 (23.0 bits)