RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780481|ref|YP_003064894.1| 50S ribosomal protein L34 [Candidatus Liberibacter asiaticus str. psy62] (44 letters) >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 ... (2:) Length = 46 Score = 42.3 bits (100), Expect = 3e-05 Identities = 24/44 (54%), Positives = 33/44 (75%) Query: 1 MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLSA 44 MKRT+ PS + R R GF ARM+T++G ++L RRR+KGR RL+ Sbjct: 1 MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLTV 44 >2j01_7 50S ribosomal protein L34; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (7:) Length = 49 Score = 41.5 bits (98), Expect = 4e-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 >3bbo_4 Ribosomal protein L34; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (4:) Length = 152 Score = 35.8 bits (82), Expect = 0.002 Identities = 20/44 (45%), Positives = 23/44 (52%), Gaps = 1/44 (2%) Query: 1 MKRTYNP-SNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43 + T S R GF RMST SG +L RRR+KGRK L Sbjct: 96 LCLTKRSRSRKSLARTHGFRLRMSTTSGRALLKRRRAKGRKILC 139 >2ftc_Q L34MT, MRP-L34, 39S ribosomal protein L34, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} (Q:) Length = 38 Score = 31.9 bits (73), Expect = 0.032 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 >3hid_A Adenylosuccinate synthetase; niaid structural genomics, virulence associated factor, PURA, purine ribonucleotide biosynthesis, cytoplasm; 1.60A {Yersinia pestis CO92} PDB: 1kjx_A* 1kkb_A* 1kkf_A* 1ade_A 1adi_A 1cg0_A* 1ch8_A* 1cib_A* 1gim_A* 1gin_A* 1hon_A* 1hoo_A* 1hop_A* 1juy_A* 1ksz_A* 1nht_A* 1qf4_A* 1qf5_A* 1son_A* 1soo_A* ... (A:1-71,A:217-432) Length = 287 Score = 25.2 bits (55), Expect = 3.4 Identities = 7/19 (36%), Positives = 12/19 (63%) Query: 12 RKRRCGFLARMSTRSGIRI 30 R RR G+L ++ R ++I Sbjct: 159 RSRRTGWLDIVAVRRAVQI 177 >2fi9_A Outer membrane protein; PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.80A {Bartonella henselae str} (A:) Length = 128 Score = 24.4 bits (53), Expect = 6.0 Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 1/29 (3%) Query: 12 RKRRCGFLARMSTRSGIRILNRRRSKGRK 40 ++R MST + +R N ++ R Sbjct: 92 WEKRISSDT-MSTGAAVRTFNVLLAEDRA 119 >1p9b_A Adenylosuccinate synthetase; ligase; HET: IMO GDP; 2.00A {Plasmodium falciparum} (A:) Length = 442 Score = 24.1 bits (52), Expect = 6.5 Identities = 7/19 (36%), Positives = 8/19 (42%) Query: 12 RKRRCGFLARMSTRSGIRI 30 R RRCG+L I Sbjct: 311 RPRRCGWLDIPMLLYVKCI 329 >2gm2_A Conserved hypothetical protein; MTH938-like fold, structural genomics, PSI, protein structure initiative; NMR {Xanthomonas campestris PV} (A:) Length = 132 Score = 24.0 bits (52), Expect = 7.5 Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 1/29 (3%) Query: 12 RKRRCGFLARMSTRSGIRILNRRRSKGRK 40 R G A M+ + R N S+GR+ Sbjct: 88 LTRGIGLEA-MTNAAAARTYNVLASEGRR 115 >2ab1_A Hypothetical protein; HS.95870, DUF498, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; 2.59A {Homo sapiens} (A:) Length = 122 Score = 23.6 bits (51), Expect = 9.6 Identities = 4/30 (13%), Positives = 12/30 (40%), Gaps = 1/30 (3%) Query: 11 VRKRRCGFLARMSTRSGIRILNRRRSKGRK 40 ++K + T ++ N ++G + Sbjct: 85 LKKHGIDVRV-LQTEQAVKEYNALVAQGVR 113 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.329 0.136 0.388 Gapped Lambda K H 0.267 0.0733 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 332,675 Number of extensions: 9577 Number of successful extensions: 24 Number of sequences better than 10.0: 1 Number of HSP's gapped: 23 Number of HSP's successfully gapped: 9 Length of query: 44 Length of database: 4,956,049 Length adjustment: 16 Effective length of query: 28 Effective length of database: 4,415,169 Effective search space: 123624732 Effective search space used: 123624732 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)