BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0188.0052.p (180 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value MT0742.1 [J] COG0199 Ribosomal protein S14 229 1e-60 STM1488 [KG] COG1940 Transcriptional regulator/sugar kinase 222 2e-58 YDR237w_2 [J] COG0094 Ribosomal protein L5 97 1e-20 SPBC2F12.02c [J] COG0094 Ribosomal protein L5 91 9e-19 NMA1085 [J] COG0564 Pseudouridylate synthases, 23S RNA-specific 80 1e-15 >MT0742.1 [J] COG0199 Ribosomal protein S14 Length = 187 Score = 229 bits (585), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 102/175 (58%), Positives = 139/175 (79%) Query: 4 RMKERFLNEITPALMQKFNYTTVMQVPKIEKIVINMGVGDAVQNSKVLDAAVNDMQLIAG 63 R+KER+ +EI AL ++F Y VMQ+P + K+V+NMGVG+A +++K+++ AVND+ LI G Sbjct: 10 RLKERYRSEIRDALRKQFGYGNVMQIPTVTKVVVNMGVGEAARDAKLINGAVNDLALITG 69 Query: 64 QKPVITKAKKSIAGFKLRENMPIGVKVTLRGDRMYYFLDKLLNVTLPRVRDFRGVSSKSF 123 QKP + +A+KSIA FKLRE MP+GV+VTLRGDRM+ FLD+L ++ LPR+RDFRG+S K F Sbjct: 70 QKPEVRRARKSIAQFKLREGMPVGVRVTLRGDRMWEFLDRLTSIALPRIRDFRGLSPKQF 129 Query: 124 DGRGNYTLGLKDQLIFPEIEYDKVDKARGMDIVIVTTAKTDEESRELLTQLGMPF 178 DG GNYT GL +Q +F E++ DK+D+ RGMDI +VT+A TD+E R LL LG PF Sbjct: 130 DGVGNYTFGLAEQAVFHEVDVDKIDRVRGMDINVVTSAATDDEGRALLRALGFPF 184 >STM1488 [KG] COG1940 Transcriptional regulator/sugar kinase Length = 406 Score = 222 bits (566), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 7/176 (3%), Positives = 27/176 (15%) Query: 5 MKERFLNEITPALMQKFNYTTVMQVPKIEKIVINMGVGDAVQNSKVLDAAVNDMQLIAGQ 64 + + + + + + + + + A +L + Sbjct: 8 GHIDQIKQTNAGAVYRLIDQLGPVSRIDLSRLAQLAPASITKIVREMLEAHLVQELEIKE 67 Query: 65 KPVITKAKKSIAGFKLRENMPIGVKVTLRGDRMYYFLDKLLNVTLPRVRDFRGVSSKSFD 124 + + + L L V + Sbjct: 68 AGSRGRPAVGLMVETEAWHYLSIRISRGEIFLALRDLSSKLVVEECLPLPLTEATPLLER 127 Query: 125 GRGNYTLGLKDQLIFPEIEYDKVDKARGMDIVIVTTAKTDEESRELLTQLGMPFTK 180 + E G+ ++ + Sbjct: 128 IITHVDRFFTRHQQKLERLTSIAITLPGIIDTENGVVHRMPYYEDVKEMPLGDSLE 183 >YDR237w_2 [J] COG0094 Ribosomal protein L5 Length = 168 Score = 97.1 bits (240), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 56/154 (36%), Positives = 86/154 (55%), Gaps = 4/154 (2%) Query: 29 VPKIEKIVINMGVGDAVQNSKVLDAAVNDMQLIAGQKPVITKAKKSIAGFKLRENMPIGV 88 +P +E +VIN V +A +N + A +Q I G KP +K + +KLR+ +G Sbjct: 10 IPGLESVVINCFVREARENQLLAITAALQLQQITGCKPHPIFSKNDVPTWKLRKGHQMGA 69 Query: 89 KVTLRGDRMYYFLDKLLNVTLPRVRDFRGVSSKSFDGRGNYTLGL--KDQLIFPEIE--Y 144 KV L+G M FL L + LPR+R+++G+S++S + G + GL +D FPEI+ Sbjct: 70 KVELKGKEMSQFLSTLTEIVLPRIREYKGISNQSGNRFGGISFGLTAEDIKFFPEIDANQ 129 Query: 145 DKVDKARGMDIVIVTTAKTDEESRELLTQLGMPF 178 D K GM I I T+A+ D ++R LL+ PF Sbjct: 130 DSWPKTFGMHININTSAQLDYQARTLLSGFQFPF 163 >SPBC2F12.02c [J] COG0094 Ribosomal protein L5 Length = 287 Score = 90.9 bits (224), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 91/156 (58%), Gaps = 6/156 (3%) Query: 29 VPKIEKIVINMGVGDAVQNSKVLDAAVNDMQLIAGQKPVITKAKKSIAGFKLRENMPIGV 88 +P I K+V++ +A+ + L + + + I G +P I A+K ++ +KLR +P+GV Sbjct: 124 LPSISKVVVSTMHKEALVDKTQLLSTMMAFRSITGLQPEIVYARKDVSPWKLRSGVPVGV 183 Query: 89 KVTLRGDRMYYFLDKLLNVTLPRVRDFRGVSSKSFDGRGNYTLGLKDQL--IFPEIE--Y 144 KVTL G+ MY FL L + LP++ DF+G+S S D GN + GL ++ +FP+IE Y Sbjct: 184 KVTLTGESMYTFLSILSELVLPQLHDFKGLSPTSGDQTGNISFGLPSEVMPLFPQIEAVY 243 Query: 145 DKVDKA-RGMDIVIVTTAKTDEESRELLTQLGMPFT 179 + + G ++ I T +K +R ++ L +PFT Sbjct: 244 EMYPHSLPGFNVNITTNSKDTRLARFFVSSL-IPFT 278 >NMA1085 [J] COG0564 Pseudouridylate synthases, 23S RNA-specific Length = 165 Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 44/132 (33%), Positives = 76/132 (57%), Gaps = 9/132 (6%) Query: 27 MQVPKIEKIVINMGVGDAVQNSKVLDAAVNDMQLIAGQKPVITKAKKSIAGFKLRENMPI 86 M+ P +EK++++MGVG++ Q+ L A + ++ I GQ+ V AK+++ F +++N PI Sbjct: 1 MRTPIVEKVIVHMGVGESGQH---LVNAEDILRNITGQEVVRCFAKRTLPAFSIKKNEPI 57 Query: 87 GVKVTLRGDRMYYFLDKLLNVTLPRVRDFRGVSSKSFDGRGNYTLGLKDQLIFPEIEYDK 146 G KVTLRG + FL+ L + + ++ FD GN + G+++ FP + YD Sbjct: 58 GCKVTLRGQKAQEFLETALGIVE------KTLNRSQFDSFGNVSFGIEEHTDFPGMRYDP 111 Query: 147 VDKARGMDIVIV 158 GMD+ +V Sbjct: 112 NIGVFGMDVTVV 123 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.320 0.137 0.377 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 12,323,019 Number of extensions: 481591 Number of successful extensions: 947 Number of sequences better than 1.0e-05: 37 Number of HSP's gapped: 887 Number of HSP's successfully gapped: 37 Length of query: 180 Length of database: 38,378,431 Length adjustment: 100 Effective length of query: 80 Effective length of database: 26,845,031 Effective search space: 2147602480 Effective search space used: 2147602480 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: 112 (47.8 bits)