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= 0188.0058.p (221 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKG1.1 B3KKG1_9BACI Ribosomal protein S3 412 e-113 B1DJW7.1 B1DJW7_9BACL Ribosomal protein S3 382 e-104 C0ZII6.1 RS3_BREBN 30S ribosomal protein S3 358 2e-97 A7GK26.1 RS3_BACCN 30S ribosomal protein S3 342 1e-92 C3J6P4.1 C3J6P4_9BACI Ribosomal protein S3 341 2e-92 >B3KKG1.1 B3KKG1_9BACI Ribosomal protein S3 Length = 221 Score = 412 bits (1059), Expect = e-113, Method: Compositional matrix adjust. Identities = 205/221 (92%), Positives = 213/221 (96%) Query: 1 VGQKVNPVGLRIGIIRDWESKWYAGKDFGTLLMEDVKIREYLKGKLKDSSVSRIEIERAA 60 +GQKVNPVGLRIGIIRDWESKWYAGKDFG LL+EDVKIREYLK KLKDS+VSRIEIERAA Sbjct: 1 MGQKVNPVGLRIGIIRDWESKWYAGKDFGDLLLEDVKIREYLKNKLKDSAVSRIEIERAA 60 Query: 61 SRVNVTIHTAKPGMVIGKGGAEVEVLRSAVTTIAGGKKVHININEIKHPELDAILVAESI 120 +RVNVTIHTAKPGMVIGKGG+EVEVLR VT IAGGKKVHINI+EIK+PELDAILVAESI Sbjct: 61 NRVNVTIHTAKPGMVIGKGGSEVEVLRGQVTKIAGGKKVHINISEIKNPELDAILVAESI 120 Query: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTQVGGRLGGAEIARSEGYSEGTVPLHTLRA 180 AQQLERRVSFRRALKQAIQRTMRSGAKGIKT V GRLGGAEIAR+EGYSEGTVPLHTLRA Sbjct: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTSVSGRLGGAEIARTEGYSEGTVPLHTLRA 180 Query: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPPAKKQAAQEGGN 221 DIDYGTAEAHTTYGRIGVKVWIYRGEVLP AKKQAAQEGGN Sbjct: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPTAKKQAAQEGGN 221 >B1DJW7.1 B1DJW7_9BACL Ribosomal protein S3 Length = 220 Score = 382 bits (981), Expect = e-104, Method: Compositional matrix adjust. Identities = 192/221 (86%), Positives = 206/221 (93%), Gaps = 1/221 (0%) Query: 1 VGQKVNPVGLRIGIIRDWESKWYAGKDFGTLLMEDVKIREYLKGKLKDSSVSRIEIERAA 60 +GQKVNPVGLRIGIIRDWESKWYAGKDFG LL+EDVKIREYLK KLKD++VS IEIERAA Sbjct: 1 MGQKVNPVGLRIGIIRDWESKWYAGKDFGDLLLEDVKIREYLKNKLKDAAVSHIEIERAA 60 Query: 61 SRVNVTIHTAKPGMVIGKGGAEVEVLRSAVTTIAGGKKVHININEIKHPELDAILVAESI 120 +RVNVTI+TAKPGMVIGKGG+EVE LR+ + I GKKVHINI+EIK +LDAILVAESI Sbjct: 61 NRVNVTINTAKPGMVIGKGGSEVESLRTELGKITKGKKVHINISEIKQADLDAILVAESI 120 Query: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTQVGGRLGGAEIARSEGYSEGTVPLHTLRA 180 AQQLERRVSFRRALKQAIQR+MR+GAKGIKT V GRLGGAEIARSEGYSEGTVPLHTLRA Sbjct: 121 AQQLERRVSFRRALKQAIQRSMRAGAKGIKTAVSGRLGGAEIARSEGYSEGTVPLHTLRA 180 Query: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPPAKKQAAQEGGN 221 DIDYGTAEAHTTYGRIGVKVWIYRGEVL PAKK+A QEGGN Sbjct: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVL-PAKKKAPQEGGN 220 >C0ZII6.1 RS3_BREBN 30S ribosomal protein S3 Length = 220 Score = 358 bits (919), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 176/220 (80%), Positives = 198/220 (90%), Gaps = 1/220 (0%) Query: 1 VGQKVNPVGLRIGIIRDWESKWYAGKDFGTLLMEDVKIREYLKGKLKDSSVSRIEIERAA 60 +GQKV+PVGLRIG+IRDWESKWYA KDF TLL ED+KIR+Y+KG+LKD++VS IEIERAA Sbjct: 1 MGQKVSPVGLRIGVIRDWESKWYADKDFATLLHEDLKIRKYVKGRLKDAAVSTIEIERAA 60 Query: 61 SRVNVTIHTAKPGMVIGKGGAEVEVLRSAVTTIAGGKKVHININEIKHPELDAILVAESI 120 +RVNVTIHTAKPGMVIGKGG+EVE LR +T + G K+VHININEIK P+LDA LVAE+I Sbjct: 61 NRVNVTIHTAKPGMVIGKGGSEVETLRKTLTDLTG-KRVHININEIKRPDLDATLVAENI 119 Query: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTQVGGRLGGAEIARSEGYSEGTVPLHTLRA 180 A+QLE R+SFRRA KQ+I RT+RSGAKGIKT V GRLGGA+IARSEGYSEGTVPLHTLRA Sbjct: 120 ARQLENRISFRRAQKQSITRTLRSGAKGIKTLVSGRLGGADIARSEGYSEGTVPLHTLRA 179 Query: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPPAKKQAAQEGG 220 DIDYGTAEAHTTYGRIGVKVWIYRGEVLP K A +EGG Sbjct: 180 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPARKNVATEEGG 219 >A7GK26.1 RS3_BACCN 30S ribosomal protein S3 Length = 219 Score = 342 bits (877), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 167/220 (75%), Positives = 195/220 (88%), Gaps = 2/220 (0%) Query: 1 VGQKVNPVGLRIGIIRDWESKWYAGKDFGTLLMEDVKIREYLKGKLKDSSVSRIEIERAA 60 +GQKVNPVGLR+G+IRDWES+W+A KD+ TLL ED+KIREY+ +LKDSSVS++EIERAA Sbjct: 1 MGQKVNPVGLRVGVIRDWESRWFAEKDYATLLHEDIKIREYITARLKDSSVSKVEIERAA 60 Query: 61 SRVNVTIHTAKPGMVIGKGGAEVEVLRSAVTTIAGGKKVHININEIKHPELDAILVAESI 120 +RVNVTIHTAKPGMVIGKGG EVE LR A+ + G K+VHINI E+K +LDA LVAE+I Sbjct: 61 NRVNVTIHTAKPGMVIGKGGTEVEALRKALNQLTG-KRVHINILEVKKADLDAKLVAENI 119 Query: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTQVGGRLGGAEIARSEGYSEGTVPLHTLRA 180 A+QLE RVSFRRA KQ IQR MR+GAKGIKTQV GRLGGA+IAR+E YSEGTVPLHTLRA Sbjct: 120 ARQLENRVSFRRAQKQVIQRAMRAGAKGIKTQVSGRLGGADIARAESYSEGTVPLHTLRA 179 Query: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPPAKKQAAQEGG 220 DIDY TAEA TTYG++GVKVWIYRGEVL P+KK+A++EGG Sbjct: 180 DIDYATAEADTTYGKLGVKVWIYRGEVL-PSKKKASEEGG 218 >C3J6P4.1 C3J6P4_9BACI Ribosomal protein S3 Length = 218 Score = 341 bits (875), Expect = 2e-92, Method: Compositional matrix adjust. Identities = 171/220 (77%), Positives = 194/220 (88%), Gaps = 3/220 (1%) Query: 1 VGQKVNPVGLRIGIIRDWESKWYAGKDFGTLLMEDVKIREYLKGKLKDSSVSRIEIERAA 60 +GQKVNP+GLRIGIIRDWES+WYA KD+ LL ED+KIREY+ +L+D++VSR+EIERAA Sbjct: 1 MGQKVNPIGLRIGIIRDWESRWYAEKDYADLLHEDLKIREYISKRLQDAAVSRVEIERAA 60 Query: 61 SRVNVTIHTAKPGMVIGKGGAEVEVLRSAVTTIAGGKKVHININEIKHPELDAILVAESI 120 +RVNVTIHTAKPGMVIGKGG+EVE LR A+ + G K+VHINI EIK P+LDA LVAE+I Sbjct: 61 NRVNVTIHTAKPGMVIGKGGSEVEALRKALAQLTG-KRVHINIVEIKKPDLDARLVAENI 119 Query: 121 AQQLERRVSFRRALKQAIQRTMRSGAKGIKTQVGGRLGGAEIARSEGYSEGTVPLHTLRA 180 A+QLE RVSFRRA KQAIQR MR+GAKGIKT V GRLGGA+IARSE YSEGTVPLHTLRA Sbjct: 120 ARQLENRVSFRRAQKQAIQRAMRAGAKGIKTMVSGRLGGADIARSEHYSEGTVPLHTLRA 179 Query: 181 DIDYGTAEAHTTYGRIGVKVWIYRGEVLPPAKKQAAQEGG 220 DIDYGTAEA TTYG+IGVKVWIYRGEVLP KK A+EGG Sbjct: 180 DIDYGTAEADTTYGKIGVKVWIYRGEVLPTKKK--AEEGG 217 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.316 0.134 0.381 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,296,350,483 Number of extensions: 49233803 Number of successful extensions: 147529 Number of sequences better than 1.0e-05: 2173 Number of HSP's gapped: 144408 Number of HSP's successfully gapped: 2174 Length of query: 221 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 90 Effective length of database: 1,826,543,238 Effective search space: 164388891420 Effective search space used: 164388891420 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 (21.6 bits) S2: 128 (53.9 bits)