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= 0504.0056.p (211 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DLE1.1 B1DLE1_9BACL tRNA-i(6)A37 thiotransferase enzyme MiaB E... 189 2e-46 B3KIL4.1 B3KIL4_9BACI tRNA-i(6)A37 thiotransferase enzyme MiaB E... 164 5e-39 Q9KAB7.1 MIAB_BACHD (Dimethylallyl)adenosine tRNA methylthiotran... 147 7e-34 Q5WFY0.1 MIAB_BACSK (Dimethylallyl)adenosine tRNA methylthiotran... 135 3e-30 B9EBI2.1 B9EBI2_MACCJ tRNA-i(6)A37 modification enzyme MiaB 115 2e-24 >B1DLE1.1 B1DLE1_9BACL tRNA-i(6)A37 thiotransferase enzyme MiaB EC=1.3.1.74 Length = 525 Score = 189 bits (479), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 97/138 (70%), Positives = 110/138 (79%), Gaps = 9/138 (6%) Query: 36 FDFSDAKVISEEEGKTTYRIKGRTVQINSNPDYKEGKRRGKQDIEV-IDFDNAETNKIME 94 FDFSDAKV+SEE+G TTYRIKGR VQINS P+YK+ K+RGK+DIEV DF I E Sbjct: 20 FDFSDAKVLSEEDGVTTYRIKGRNVQINSTPNYKDEKKRGKEDIEVHYDFS------IPE 73 Query: 95 EFREINRHKQHYYSIATYGCQMNEHDTETMKGLLEQMGYLGTEDRNMADIILLNTCAIRE 154 E + I + K +Y I TYGCQMNEHDTE MKG+ E+MGY GT+DR AD+ILLNTCAIRE Sbjct: 74 ELQTIGKGK--FYLIQTYGCQMNEHDTEVMKGMFEEMGYTGTDDRLQADVILLNTCAIRE 131 Query: 155 NAEDKVFGELGHLKNLKL 172 NAEDKVFGELGHLK LKL Sbjct: 132 NAEDKVFGELGHLKTLKL 149 >B3KIL4.1 B3KIL4_9BACI tRNA-i(6)A37 thiotransferase enzyme MiaB EC=1.3.1.74 Length = 519 Score = 164 bits (415), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 86/136 (63%), Positives = 104/136 (76%), Gaps = 7/136 (5%) Query: 36 FDFSDAKVISEEEGKTTYRIKGRTVQINSNPDYKEGKRRGKQDIEVIDFDNAETNKIMEE 95 FDFS AKV+SE+E RI GR + I S P++++ K+RGKQ +EV+ +D ++ EE Sbjct: 12 FDFSGAKVLSEDEHGKRIRINGREINILSEPNHRQEKQRGKQSVEVL-YDT----ELPEE 66 Query: 96 FREINRHKQHYYSIATYGCQMNEHDTETMKGLLEQMGYLGTEDRNMADIILLNTCAIREN 155 FR I K +Y + TYGCQMNEHD+ET+KGLLEQMGY TEDR ADIILLNTCAIREN Sbjct: 67 FRSIGAGK--HYIVYTYGCQMNEHDSETIKGLLEQMGYRATEDRKQADIILLNTCAIREN 124 Query: 156 AEDKVFGELGHLKNLK 171 AEDKVFGELGHLK+LK Sbjct: 125 AEDKVFGELGHLKHLK 140 >Q9KAB7.1 MIAB_BACHD (Dimethylallyl)adenosine tRNA methylthiotransferase miaB EC=2.-.-.- Length = 538 Score = 147 bits (371), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 72/136 (52%), Positives = 101/136 (74%), Gaps = 6/136 (4%) Query: 36 FDFSDAKVISEEEGKTTYRIKGRTVQINSNPDYKEGKRRGKQDIEVIDFDNAETNKIMEE 95 FDFS+AKV+SEE+GK +I GR + I PDYK+GKRRGK++++V+ D+ I E+ Sbjct: 32 FDFSNAKVVSEEDGKKVIKIAGREISIFDQPDYKQGKRRGKEEVKVLRPDDL----IPED 87 Query: 96 FREINRHKQHYYSIATYGCQMNEHDTETMKGLLEQMGYLGTEDRNMADIILLNTCAIREN 155 + I K+ + + TYGCQMN HD+E M G+L++MG+ T++ AD+IL+NTCAIREN Sbjct: 88 MKTIGAGKK--FLVRTYGCQMNIHDSENMAGMLKEMGFEATDETTDADVILINTCAIREN 145 Query: 156 AEDKVFGELGHLKNLK 171 AE+KVFGE+G+LK LK Sbjct: 146 AENKVFGEIGNLKQLK 161 >Q5WFY0.1 MIAB_BACSK (Dimethylallyl)adenosine tRNA methylthiotransferase miaB EC=2.-.-.- Length = 520 Score = 135 bits (339), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 71/137 (51%), Positives = 96/137 (70%), Gaps = 6/137 (4%) Query: 36 FDFSDAKVISEEEGKTTYRIKGRTVQINSNPDYKEGKRRGKQDIEVIDFDNAETNKIMEE 95 FDFSDA+V+SE++ K +IKGR + I P+Y+ G++R ++D++V+ +N I EE Sbjct: 14 FDFSDARVVSEDDEKKIIKIKGREITIYDQPNYRAGRKRKREDVQVLRPENL----IPEE 69 Query: 96 FREINRHKQHYYSIATYGCQMNEHDTETMKGLLEQMGYLGTEDRNMADIILLNTCAIREN 155 + K+ + I TYGCQMN HD+E M GLL MG+ T + ADIILLNTCAIREN Sbjct: 70 VANLGAGKK--FLIRTYGCQMNVHDSENMSGLLLGMGFEETTETEEADIILLNTCAIREN 127 Query: 156 AEDKVFGELGHLKNLKL 172 AE+KVFGE+G+LK LKL Sbjct: 128 AENKVFGEIGNLKPLKL 144 >B9EBI2.1 B9EBI2_MACCJ tRNA-i(6)A37 modification enzyme MiaB Length = 509 Score = 115 bits (289), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 61/112 (54%), Positives = 79/112 (70%), Gaps = 9/112 (8%) Query: 61 QINSNPDYKEGKRRGKQDIEVI-DFDNAETNKIMEEFREINRHKQHYYSIATYGCQMNEH 119 + P+ KE KRRGK+D++ DF KI E++R + R ++ Y I TYGCQMNEH Sbjct: 28 HVYQGPNLKEAKRRGKEDVKYHNDF------KIDEQYRGLGRGRKFY--IRTYGCQMNEH 79 Query: 120 DTETMKGLLEQMGYLGTEDRNMADIILLNTCAIRENAEDKVFGELGHLKNLK 171 DTE M G+ E + Y T D N AD+ILLNTCAIRENAE+KVFGE+G+LK++K Sbjct: 80 DTEVMAGIFEALEYEATSDVNDADVILLNTCAIRENAENKVFGEIGNLKHIK 131 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 0.135 0.395 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: 1,155,466,543 Number of extensions: 42873358 Number of successful extensions: 104517 Number of sequences better than 1.0e-05: 1288 Number of HSP's gapped: 103942 Number of HSP's successfully gapped: 1288 Length of query: 211 Length of database: 3,060,696,203 Length adjustment: 130 Effective length of query: 81 Effective length of database: 1,835,964,253 Effective search space: 148713104493 Effective search space used: 148713104493 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)