RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780647|ref|YP_003065060.1| 50S ribosomal protein L27 [Candidatus Liberibacter asiaticus str. psy62] (90 letters) >2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (T:) Length = 91 Score = 125 bits (315), Expect = 3e-30 Identities = 45/84 (53%), Positives = 61/84 (72%), Gaps = 1/84 (1%) Query: 1 MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60 MAHKK GS++NGRDS + LG+KK GG+ V AGNI++RQRGT++ G VG+G+DHT++ Sbjct: 1 MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLF 60 Query: 61 ALVDGHVRFFKKFSKGRAYVSVIP 84 AL DG V F K KG ++S+ Sbjct: 61 ALSDGKVVFINK-GKGARFISIEA 83 >1v8q_A TT0826; structural genomics, proteomics, riken structural genomics/proteomics initiative, RSGI, translation; 2.80A {Thermus thermophilus} (A:) Length = 85 Score = 124 bits (313), Expect = 5e-30 Identities = 49/84 (58%), Positives = 62/84 (73%), Gaps = 1/84 (1%) Query: 1 MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60 MAHKK GST+NGRDS +RLG+K+ GQ V AGNI++RQRGTR+ PG NVG+G+D T++ Sbjct: 1 MAHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLF 60 Query: 61 ALVDGHVRFFKKFSKGRAYVSVIP 84 ALVDG V F + + YV V P Sbjct: 61 ALVDGVVEFQDR-GRLGRYVHVRP 83 >2qam_W 50S ribosomal protein L27; RNA-protein complex, ribosome; HET: NMY; 3.21A {Escherichia coli} (W:) Length = 84 Score = 124 bits (312), Expect = 5e-30 Identities = 48/84 (57%), Positives = 67/84 (79%) Query: 2 AHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIYA 61 AHKK+GGST+NGRDS +RLG+K+ GG+SV+AG+II+RQRGT++H G NVG G+DHT++A Sbjct: 1 AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60 Query: 62 LVDGHVRFFKKFSKGRAYVSVIPK 85 DG V+F K K R ++S+ + Sbjct: 61 KADGKVKFEVKGPKNRKFISIEAE 84 >2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_O (O:) Length = 69 Score = 104 bits (262), Expect = 4e-24 Identities = 38/69 (55%), Positives = 50/69 (72%), Gaps = 1/69 (1%) Query: 2 AHKKSGGSTQN-GRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60 A KKSGGS++N G S+G+R G+KK G V AGNII QR R+HPG +VG+GK+ +Y Sbjct: 1 ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60 Query: 61 ALVDGHVRF 69 AL +G VR+ Sbjct: 61 ALEEGIVRY 69 >3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} (X:) Length = 198 Score = 99.7 bits (248), Expect = 1e-22 Identities = 49/90 (54%), Positives = 62/90 (68%), Gaps = 1/90 (1%) Query: 1 MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60 AHKK GST+NGRDS GQRLG+K G Q G II+RQRGT++H G NVG+GKDHTI+ Sbjct: 58 SAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIF 117 Query: 61 ALVDGHVRFFKKFSKGRAYVSVIPKIEDTQ 90 +L+DG V+F K R +SV P+ + Sbjct: 118 SLIDGLVKFEKF-GPDRKKISVYPREIVPE 146 >2ogj_A Dihydroorotase; TIM barrel, binuclear zinc, imidazole complex, amido hydrolase, structural genomics, PSI-2; HET: KCX; 2.62A {Agrobacterium tumefaciens str} (A:1-72,A:341-417) Length = 149 Score = 24.4 bits (53), Expect = 5.2 Identities = 10/18 (55%), Positives = 13/18 (72%) Query: 47 PGLNVGLGKDHTIYALVD 64 PGL+VG D T++ LVD Sbjct: 71 PGLDVGQRADFTVFDLVD 88 >2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI, protein structure initiative; 1.90A {Vibrio cholerae} (A:206-361) Length = 156 Score = 23.9 bits (51), Expect = 7.3 Identities = 8/42 (19%), Positives = 14/42 (33%) Query: 41 RGTRYHPGLNVGLGKDHTIYALVDGHVRFFKKFSKGRAYVSV 82 H G + +Y+ DG V +K Y+ + Sbjct: 22 GRVVPHNGTDFATPIGAPVYSTGDGKVIVVRKHPYAGNYLVI 63 >1qwy_A Peptidoglycan hydrolase; LYTM lysostaphin metalloprotease asparagine switch; 1.30A {Staphylococcus aureus subsp} (A:83-291) Length = 209 Score = 23.8 bits (50), Expect = 8.1 Identities = 10/43 (23%), Positives = 18/43 (41%) Query: 41 RGTRYHPGLNVGLGKDHTIYALVDGHVRFFKKFSKGRAYVSVI 83 G H G++ + ++ +Y+L DG V + G I Sbjct: 98 HGGGAHYGVDYAMPENSPVYSLTDGTVVQAGWSNYGGGNQVTI 140 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 0.318 0.137 0.397 Gapped Lambda K H 0.267 0.0566 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 674,012 Number of extensions: 24975 Number of successful extensions: 61 Number of sequences better than 10.0: 1 Number of HSP's gapped: 58 Number of HSP's successfully gapped: 11 Length of query: 90 Length of database: 4,956,049 Length adjustment: 52 Effective length of query: 38 Effective length of database: 3,198,189 Effective search space: 121531182 Effective search space used: 121531182 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 50 (23.4 bits)