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= 0022.0244.p (1360 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309447|ref|YP_003773539.1| DNA-directed RNA polymerase sub... 2728 0.0 >gi|300309447|ref|YP_003773539.1| DNA-directed RNA polymerase subunit beta [Herbaspirillum seropedicae SmR1] Length = 1368 Score = 2728 bits (7072), Expect = 0.0, Method: Compositional matrix adjust. Identities = 1335/1350 (98%), Positives = 1339/1350 (99%), Gaps = 1/1350 (0%) Query: 1 MHYSFTEKKRIRKSFAKRANVHNVPFLLATQIESYQNFLQPERAASERKNEGLQSAFTSI 60 MHYSFTEKKRIRKSFAKRANVHNVPFLLATQIESYQNFLQPERAASERKNEGLQSAFTSI Sbjct: 1 MHYSFTEKKRIRKSFAKRANVHNVPFLLATQIESYQNFLQPERAASERKNEGLQSAFTSI 60 Query: 61 FPIVSHNGFARLEFLSYVLGAPPFDVKECQQRGLTFASPLRAKVRLVILDKESPTKPVVK 120 FPIVSHNGFARLEFLSYVLGAPPFDVKECQQRGLTFASPLRAKVRLVILDKESPTKPVVK Sbjct: 61 FPIVSHNGFARLEFLSYVLGAPPFDVKECQQRGLTFASPLRAKVRLVILDKESPTKPVVK 120 Query: 121 EMKEQEVYMGELPLMTTTGSFVINGTERVIVSQLHRSPGVFFEHDRGKTHSSGKLLFSAR 180 EMKEQEVYMGELPLMTTTGSFVINGTERVIVSQLHRSPGVFFEHDRGKTHSSGKLLFSAR Sbjct: 121 EMKEQEVYMGELPLMTTTGSFVINGTERVIVSQLHRSPGVFFEHDRGKTHSSGKLLFSAR 180 Query: 181 IIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVFDNFNLHAE 240 IIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVFDNFNLHAE Sbjct: 181 IIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVFDNFNLHAE 240 Query: 241 GADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHISVPEDYLLG 300 GADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHISVPEDYLLG Sbjct: 241 GADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHISVPEDYLLG 300 Query: 301 RVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGYISQTLRTD 360 RVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGYISQTLRTD Sbjct: 301 RVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGYISQTLRTD 360 Query: 361 DTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFNRRVSRDEL 420 DTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFNRRV RDEL Sbjct: 361 DTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFNRRVGRDEL 420 Query: 421 TGPMTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRAGLVRVERA 480 TG MTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRAGLVRVERA Sbjct: 421 TGTMTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRAGLVRVERA 480 Query: 481 VKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITHKRRVSALG 540 VKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITHKRRVSALG Sbjct: 481 VKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITHKRRVSALG 540 Query: 541 PGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGFLETPYRKV 600 PGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGFLETPYRKV Sbjct: 541 PGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGFLETPYRKV 600 Query: 601 EGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVSPERVQYMD 660 EGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVSPERVQYMD Sbjct: 601 EGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVSPERVQYMD 660 Query: 661 VAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIERTVAVDSGT 720 VAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIERTVAVDSGT Sbjct: 661 VAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIERTVAVDSGT 720 Query: 721 TVQALRGGVVDYVDAGRVVIRVNDEEAQAGEVGVDIYNLIKYTRSNQNTNINQRPIVKIG 780 TVQALRGGVVDYVDAGRVVIRVND+EAQAGEVGVDIYNLIKYTRSNQNTNINQRPIVKIG Sbjct: 721 TVQALRGGVVDYVDAGRVVIRVNDDEAQAGEVGVDIYNLIKYTRSNQNTNINQRPIVKIG 780 Query: 781 DRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADDRYTSIHIE 840 DRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADDRYTSIHIE Sbjct: 781 DRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADDRYTSIHIE 840 Query: 841 ELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGKVTPKGETQ 900 ELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGKVTPKGETQ Sbjct: 841 ELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGKVTPKGETQ 900 Query: 901 LTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQQIIDDELK 960 LTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQQIIDDELK Sbjct: 901 LTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQQIIDDELK 960 Query: 961 RYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLDKFHWFDIR 1020 RYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLDKFHWFDIR Sbjct: 961 RYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLDKFHWFDIR 1020 Query: 1021 PADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVYLAVKRRLQ 1080 PADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVYLAVKRRLQ Sbjct: 1021 PADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVYLAVKRRLQ 1080 Query: 1081 PGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVLEVHLGWAA 1140 PGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVLEVHLGWAA Sbjct: 1081 PGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVLEVHLGWAA 1140 Query: 1141 KGLGLRLGEMVQAQAKVAELRKFLTTIYNESGKKEELDTFSDEEIIELVTNLKKGVPFAT 1200 KGLGLRLGEMVQAQAKVAELRKFLTTIYNESGK+EELD+F+DEEIIELV NLKKGVPFAT Sbjct: 1141 KGLGLRLGEMVQAQAKVAELRKFLTTIYNESGKQEELDSFTDEEIIELVENLKKGVPFAT 1200 Query: 1201 PVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVTVGYMHYLK 1260 PVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVTVGYMHYLK Sbjct: 1201 PVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVTVGYMHYLK 1260 Query: 1261 LHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYVLQEMLTVK 1320 LHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYVLQEMLTVK Sbjct: 1261 LHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYVLQEMLTVK 1320 Query: 1321 SDDVNGRTKVYENLVKGDXGRGAGCAPRRF 1350 SDDVNGRTKVYENLVKGD AG P F Sbjct: 1321 SDDVNGRTKVYENLVKGDHVIDAGM-PESF 1349 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.318 0.136 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 4,131,269 Number of extensions: 180216 Number of successful extensions: 499 Number of sequences better than 1.0e-08: 1 Number of HSP's gapped: 497 Number of HSP's successfully gapped: 1 Length of query: 1360 Length of database: 1,619,870 Length adjustment: 97 Effective length of query: 1263 Effective length of database: 1,160,575 Effective search space: 1465806225 Effective search space used: 1465806225 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: 137 (57.4 bits)