RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780266|ref|YP_003064679.1| 30S ribosomal protein S12 [Candidatus Liberibacter asiaticus str. psy62] (124 letters) >2vqe_L 30S ribosomal protein S12, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1gix_O* 1hnw_L* 1hnx_L* 1hnz_L* 1hr0_L 1ibk_L* 1ibl_L* 1ibm_L 1j5e_L 1jgo_O* 1jgp_O* 1jgq_O* 1mj1_O* 1ml5_O* 1mvr_O 1n32_L* 1n33_L* 1n34_L 1n36_L 1xmo_L* ... Length = 135 Score = 166 bits (421), Expect = 1e-42 Identities = 84/124 (67%), Positives = 103/124 (83%), Gaps = 1/124 (0%) Query: 1 MPTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTS 60 +PT+NQL+RK R+ R +KV AL+G P +RGVC V TVTPKKPNSALRKV K RLTS Sbjct: 4 LPTINQLVRKGRE-KVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTS 62 Query: 61 GVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 G EV AY+PGEGHNLQEHSVV++ GGRVKDLPGV+Y ++RGV DA GVK+RK++RS+YG Sbjct: 63 GYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGT 122 Query: 121 ERPK 124 ++PK Sbjct: 123 KKPK 126 >2zkq_l 40S ribosomal protein S23E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_L Length = 143 Score = 95.7 bits (238), Expect = 2e-21 Identities = 32/119 (26%), Positives = 61/119 (51%), Gaps = 11/119 (9%) Query: 9 RKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTS-GVEVIAY 67 ++ +K K G +G+ L V K+PNSA+RK ++ +L G ++ A+ Sbjct: 25 KQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAF 84 Query: 68 VPGEG--HNLQEHSVVMLC-----GGRVKDLPGVKYRVIRGV---LDAQGVKNRKQARS 116 VP +G + ++E+ V++ G V D+PGV+++V++ L A +++ RS Sbjct: 85 VPNDGCLNFIEENDEVLVAGFGRKGHAVGDIPGVRFKVVKVANVSLLALYKGKKERPRS 143 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 38.0 bits (88), Expect = 6e-04 Identities = 30/180 (16%), Positives = 44/180 (24%), Gaps = 97/180 (53%) Query: 7 LIRKPRKGSFRACAKVTALRGNPQK-RGVCLRVYTVT----------P---KKPN----- 47 L+ + + V + G PQ G+ L + P +K Sbjct: 370 LVNGAK--NL-----VVS--GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420 Query: 48 ---SA------LRKV---IKARL-TSGVEVIAYVPGE-----------GHNLQEHS---- 79 ++ L I L + V + G +L+ S Sbjct: 421 LPVASPFHSHLLVPASDLINKDLVKNNVSF----NAKDIQIPVYDTFDGSDLRVLSGSIS 476 Query: 80 ---VVMLC----------------------GG---------RVKDLPGVKYRVI-RGVLD 104 V + GG R KD GV RVI G LD Sbjct: 477 ERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGV--RVIVAGTLD 534 >1yi9_A PAM, peptidyl-glycine alpha-amidating monooxygenase; bioactive peptide activation, copper, ascorbate, oxidoreductase; 1.70A {Rattus norvegicus} SCOP: b.121.1.2 b.121.1.2 PDB: 1sdw_A* 1yip_A 1phm_A 1opm_A 3phm_A 1yjl_A 1yjk_A Length = 309 Score = 27.0 bits (59), Expect = 1.1 Identities = 10/58 (17%), Positives = 22/58 (37%) Query: 36 LRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPG 93 +R+ VTPK+ ++ ++ + VI + P + H ++ C Sbjct: 20 IRMPGVTPKESDTYFCMSMRLPVDEEAFVIDFKPRASMDTVHHMLLFGCNMPSSTGSY 77 >2pgd_A 6-phosphogluconate dehydrogenase; oxidoreductase (CHOH(D)-NADP+(A)); 2.00A {Ovis aries} SCOP: a.100.1.1 c.2.1.6 PDB: 1pgo_A* 1pgp_A* 1pgq_A* 1pgn_A 2jkv_A* Length = 482 Score = 26.2 bits (57), Expect = 2.2 Identities = 13/79 (16%), Positives = 24/79 (30%), Gaps = 7/79 (8%) Query: 27 GNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVMLCGG 86 N G + + T K + L K G + + L++ ++L Sbjct: 19 LNMNDHGFVVCAFNRTVSKVDDFLANEAKGTKVLGAHSLEEMVS---KLKKPRRIILL-- 73 Query: 87 RVKDLPGVKYRVIRGVLDA 105 VK V I ++ Sbjct: 74 -VKAGQAVD-NFIEKLVPL 90 >2p4q_A 6-phosphogluconate dehydrogenase, decarboxylating 1; rossmann fold, oxidoreductase; HET: FLC; 2.37A {Saccharomyces cerevisiae} Length = 497 Score = 26.2 bits (57), Expect = 2.2 Identities = 17/79 (21%), Positives = 24/79 (30%), Gaps = 7/79 (8%) Query: 27 GNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVMLCGG 86 N G + Y T K + L K + G I L+ VML Sbjct: 27 LNAADHGFTVCAYNRTQSKVDHFLANEAKGKSIIGATSIEDFIS---KLKRPRKVMLL-- 81 Query: 87 RVKDLPGVKYRVIRGVLDA 105 VK V +I ++ Sbjct: 82 -VKAGAPVD-ALINQIVPL 98 >1pgj_A 6PGDH, 6-PGDH, 6-phosphogluconate dehydrogenase; oxidoreductase, CHOH(D)-NADP+(B); 2.82A {Trypanosoma brucei} SCOP: a.100.1.1 c.2.1.6 Length = 478 Score = 25.5 bits (55), Expect = 3.0 Identities = 10/82 (12%), Positives = 26/82 (31%), Gaps = 4/82 (4%) Query: 24 ALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVML 83 L N ++G + V+ T K ++ A ++ + +L++ ++ Sbjct: 15 NLALNIAEKGFKVAVFNRTYSKSEEFMKANASAPFAGNLKAFETMEAFAASLKKPRKALI 74 Query: 84 CGGRVKDLPGVKYRVIRGVLDA 105 V+ I + Sbjct: 75 L---VQAGAATD-STIEQLKKV 92 >3lme_A Possible translation initiation inhibitor; structural genomics, RPA2473, PSI-2, protein structure initiative; 2.74A {Rhodopseudomonas palustris} Length = 138 Score = 25.2 bits (55), Expect = 3.9 Identities = 4/11 (36%), Positives = 6/11 (54%) Query: 62 VEVIAYVPGEG 72 ++ Y P EG Sbjct: 122 IDGTFYAPAEG 132 >3opy_A 6-phosphofructo-1-kinase alpha-subunit; ATP binding, fructose-6-phosphate bindi magnesium binding, citrate binding, ADP binding; HET: ATP; 3.05A {Pichia pastoris} Length = 989 Score = 24.2 bits (52), Expect = 7.9 Identities = 8/24 (33%), Positives = 8/24 (33%) Query: 47 NSALRKVIKARLTSGVEVIAYVPG 70 N A R L G V A G Sbjct: 614 NPATRVATLNSLAKGHRVFAIRNG 637 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 0.320 0.136 0.400 Gapped Lambda K H 0.267 0.0575 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,029,288 Number of extensions: 43974 Number of successful extensions: 117 Number of sequences better than 10.0: 1 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 14 Length of query: 124 Length of database: 5,693,230 Length adjustment: 81 Effective length of query: 43 Effective length of database: 3,729,466 Effective search space: 160367038 Effective search space used: 160367038 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 (23.8 bits)