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= 0025.0027.p (1256 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... 2440 0.0 >gi|300309447|ref|YP_003773539.1| DNA-directed RNA polymerase subunit beta [Herbaspirillum seropedicae SmR1] Length = 1368 Score = 2440 bits (6325), Expect = 0.0, Method: Compositional matrix adjust. Identities = 1196/1196 (100%), Positives = 1196/1196 (100%) Query: 61 GKLLFSARIIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVF 120 GKLLFSARIIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVF Sbjct: 173 GKLLFSARIIPYRGSWLDFEFDPKDILFFRVDRRRKMPVTILLKAIGMTSEQILANFFVF 232 Query: 121 DNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHIS 180 DNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHIS Sbjct: 233 DNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVMVAKDKRINAKHVRDIEAAGIKHIS 292 Query: 181 VPEDYLLGRVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGY 240 VPEDYLLGRVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGY Sbjct: 293 VPEDYLLGRVLAKNIVDPETGEVVASANDELTEELLAKLREANISAIQTLYTNDLDQGGY 352 Query: 241 ISQTLRTDDTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFN 300 ISQTLRTDDTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFN Sbjct: 353 ISQTLRTDDTADQTAARVAIYRMMRPGEPPTEESVEALFNGLFYSEDRYDLSAVGRMKFN 412 Query: 301 RRVGRDELTGTMTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRA 360 RRVGRDELTGTMTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRA Sbjct: 413 RRVGRDELTGTMTLSNDDILAVIKILVELRNGRGEVDDIDHLGNRRVRCVGELAENQFRA 472 Query: 361 GLVRVERAVKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITH 420 GLVRVERAVKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITH Sbjct: 473 GLVRVERAVKERLGQAEADNLMPHDLINSKPISAAIREFFGSSQLSQFMDQTNPLSEITH 532 Query: 421 KRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGF 480 KRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGF Sbjct: 533 KRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLALYARLNEYGF 592 Query: 481 LETPYRKVEGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVS 540 LETPYRKVEGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVS Sbjct: 593 LETPYRKVEGSKVTNQIDYLSAIEEGRYVIAQANATIDGEGKLSDELVSAREAGETILVS 652 Query: 541 PERVQYMDVAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIER 600 PERVQYMDVAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIER Sbjct: 653 PERVQYMDVAPGQVVSVAASLIPFLEHDDANRALMGANMQRQAVPCLRPEKPLVGTGIER 712 Query: 601 TVAVDSGTTVQALRGGVVDYVDAGRVVIRVNDDEAQAGEVGVDIYNLIKYTRSNQNTNIN 660 TVAVDSGTTVQALRGGVVDYVDAGRVVIRVNDDEAQAGEVGVDIYNLIKYTRSNQNTNIN Sbjct: 713 TVAVDSGTTVQALRGGVVDYVDAGRVVIRVNDDEAQAGEVGVDIYNLIKYTRSNQNTNIN 772 Query: 661 QRPIVKIGDRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADD 720 QRPIVKIGDRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADD Sbjct: 773 QRPIVKIGDRVAKHDVIADGASTDMGELALGQNMLVAFMPWNGYNFEDSILISEKVVADD 832 Query: 721 RYTSIHIEELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGK 780 RYTSIHIEELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGK Sbjct: 833 RYTSIHIEELSVVARDTKLGAEEITRDISNLAENQLARLDESGIVYIGAEVEAGDTLVGK 892 Query: 781 VTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQ 840 VTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQ Sbjct: 893 VTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPSGMVGTVIDVQVFTREGIQRDKRAQ 952 Query: 841 QIIDDELKRYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLD 900 QIIDDELKRYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLD Sbjct: 953 QIIDDELKRYRLDLNDQLRIVEGDAFQRLERLLIGKVANGGPKKLVKGTKLDKAYLDDLD 1012 Query: 901 KFHWFDIRPADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVY 960 KFHWFDIRPADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVY Sbjct: 1013 KFHWFDIRPADDDIANALEAIKESIAEKRHQFDLAFEEKRKKLTQGDELPPGVQKMVKVY 1072 Query: 961 LAVKRRLQPGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVL 1020 LAVKRRLQPGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVL Sbjct: 1073 LAVKRRLQPGDKMAGRHGNKGVVSRILPIEDMPHMADGTPADIVLNPLGVPSRMNVGQVL 1132 Query: 1021 EVHLGWAAKGLGLRLGEMVQAQAKVAELRKFLTTIYNESGKQEELDSFTDEEIIELVENL 1080 EVHLGWAAKGLGLRLGEMVQAQAKVAELRKFLTTIYNESGKQEELDSFTDEEIIELVENL Sbjct: 1133 EVHLGWAAKGLGLRLGEMVQAQAKVAELRKFLTTIYNESGKQEELDSFTDEEIIELVENL 1192 Query: 1081 KKGVPFATPVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVT 1140 KKGVPFATPVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVT Sbjct: 1193 KKGVPFATPVFDGAHEEETRRMLDLAYPDPIAKQLGMTPSKNQVTMYDGRTGEAFERTVT 1252 Query: 1141 VGYMHYLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYV 1200 VGYMHYLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYV Sbjct: 1253 VGYMHYLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGASYV 1312 Query: 1201 LQEMLTVKSDDVNGRTKVYENLVKGDHVIDAGMPESFNVLVKEIRSLGIDIDLERE 1256 LQEMLTVKSDDVNGRTKVYENLVKGDHVIDAGMPESFNVLVKEIRSLGIDIDLERE Sbjct: 1313 LQEMLTVKSDDVNGRTKVYENLVKGDHVIDAGMPESFNVLVKEIRSLGIDIDLERE 1368 Score = 125 bits (315), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 60/60 (100%), Positives = 60/60 (100%) Query: 1 MPVTILLKAIGMTSEQILANFFVFDNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVM 60 MPVTILLKAIGMTSEQILANFFVFDNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVM Sbjct: 209 MPVTILLKAIGMTSEQILANFFVFDNFNLHAEGADMEFVSERLRGEVARFDITDKSGKVM 268 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 0.384 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: 3,856,809 Number of extensions: 170209 Number of successful extensions: 492 Number of sequences better than 1.0e-08: 1 Number of HSP's gapped: 491 Number of HSP's successfully gapped: 2 Length of query: 1256 Length of database: 1,619,870 Length adjustment: 96 Effective length of query: 1160 Effective length of database: 1,165,310 Effective search space: 1351759600 Effective search space used: 1351759600 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: 136 (57.0 bits)