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= 0020.0148.p (508 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309673|ref|YP_003773765.1| UDP-N-acetylmuramoylalanyl-D-gl... 1020 0.0 gi|300309674|ref|YP_003773766.1| UDP-N-acetylmuramoyl-tripeptide... 67 5e-12 >gi|300309673|ref|YP_003773765.1| UDP-N-acetylmuramoylalanyl-D-glutamate-2,6- diaminopimelate ligase [Herbaspirillum seropedicae SmR1] Length = 508 Score = 1020 bits (2638), Expect = 0.0, Method: Compositional matrix adjust. Identities = 506/508 (99%), Positives = 506/508 (99%) Query: 1 MPERALNLHDIQRTLRQAAPSAQLTSDSRRVAPGDVFFAYVGDADGRSYIADAVERGAAA 60 MPERALNLHDIQ LRQAAPSAQLTSDSRRVAPGDVFFAYVGDADGRSYIADAVERGAAA Sbjct: 1 MPERALNLHDIQAWLRQAAPSAQLTSDSRRVAPGDVFFAYVGDADGRSYIADAVERGAAA 60 Query: 61 VVYEAAGFTWPAQIDVPHLAVTDLKSHAGEIAASWYGQPDQGMLTVAVTGTNGKTSCAYW 120 VVYEAAGFTWPAQIDVPHLAVTDLKSHAGEIAASWYGQPDQGMLTVAVTGTNGKTSCAYW Sbjct: 61 VVYEAAGFTWPAQIDVPHLAVTDLKSHAGEIAASWYGQPDQGMLTVAVTGTNGKTSCAYW 120 Query: 121 LGIALSRLAGASTAGVIGTLGVGSFVNGKPQGFDVTGYTTPDAVLLQRSLFKLAQGRVGA 180 LGIALSRLAGASTAGVIGTLGVGSFVNGKPQGFDVTGYTTPDAVLLQRSLFKLAQGRVGA Sbjct: 121 LGIALSRLAGASTAGVIGTLGVGSFVNGKPQGFDVTGYTTPDAVLLQRSLFKLAQGRVGA 180 Query: 181 LAIEASSIGLAQGRMNGMHVDVALLTNFTRDHLDFHGDMQTYEDAKRKLFQWPGLKHAVV 240 LAIEASSIGLAQGRMNGMHVDVALLTNFTRDHLDFHGDMQTYEDAKRKLFQWPGLKHAVV Sbjct: 181 LAIEASSIGLAQGRMNGMHVDVALLTNFTRDHLDFHGDMQTYEDAKRKLFQWPGLKHAVV 240 Query: 241 NLDDDMGQRLLPLLAERKVPVIGYAIADEQGGDPHGVPTLRASQLRSSHTGTVFHVDSPF 300 NLDDDMGQRLLPLLAERKVPVIGYAIADEQGGDPHGVPTLRASQLRSSHTGTVFHVDSPF Sbjct: 241 NLDDDMGQRLLPLLAERKVPVIGYAIADEQGGDPHGVPTLRASQLRSSHTGTVFHVDSPF 300 Query: 301 GSGQVKTQLVGRFNVSNVLGIMGVLLTQGVAWDAVVAAAAALSPAPGRMQQFGGPDVPLI 360 GSGQVKTQLVGRFNVSNVLGIMGVLLTQGVAWDAVVAAAAALSPAPGRMQQFGGPDVPLI Sbjct: 301 GSGQVKTQLVGRFNVSNVLGIMGVLLTQGVAWDAVVAAAAALSPAPGRMQQFGGPDVPLI 360 Query: 361 VIDYAHTPDALDKTLSTLRQLATQRGGQLWCVFGCGGDRDPGKRPQMGQIAEQADQVVLT 420 VIDYAHTPDALDKTLSTLRQLATQRGGQLWCVFGCGGDRDPGKRPQMGQIAEQADQVVLT Sbjct: 361 VIDYAHTPDALDKTLSTLRQLATQRGGQLWCVFGCGGDRDPGKRPQMGQIAEQADQVVLT 420 Query: 421 SDNPRSEDPQAIIDQIRAGMSRVEPVVLPDRAGAILWAIRHATKADVVLLAGKGHESYQE 480 SDNPRSEDPQAIIDQIRAGMSRVEPVVLPDRAGAILWAIRHATKADVVLLAGKGHESYQE Sbjct: 421 SDNPRSEDPQAIIDQIRAGMSRVEPVVLPDRAGAILWAIRHATKADVVLLAGKGHESYQE 480 Query: 481 IAGKKLPFLDADHVALALAARSTMMGGA 508 IAGKKLPFLDADHVALALAARSTMMGGA Sbjct: 481 IAGKKLPFLDADHVALALAARSTMMGGA 508 >gi|300309674|ref|YP_003773766.1| UDP-N-acetylmuramoyl-tripeptide---D-alanyl-D-alanine ligase [Herbaspirillum seropedicae SmR1] Length = 486 Score = 66.6 bits (161), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 108/400 (27%), Positives = 167/400 (41%), Gaps = 52/400 (13%) Query: 24 LTSDSRRVAPGDVFFAYVGDA-DGRSYIADAVERGAAAVVYEAAGFTWPAQIDVPHLAVT 82 + +DSR V PG+VF A G+ D ++ ++GAAAVV E P + +P + V Sbjct: 41 VVTDSRAVKPGNVFVALRGERFDAHDFLDAVADQGAAAVVVERV----PPGLALPAIVVP 96 Query: 83 DLKSHAGEIAASWYGQPDQGMLTVAVTGTNGKTSCAYWLGIALSRLAGASTAGVIGTLGV 142 D ++ G+IA W Q + + + VTG+NGKT+ + L+ G G +GT G Sbjct: 97 DTRAALGQIAHGWRMQ--RQIPVIGVTGSNGKTTVKEMIATILAAAFGEE--GYLGTRGN 152 Query: 143 GSFVNGKPQGFDVTGYTTPDAVLLQRSLFKL-AQGRVGALAIEASSIGLAQGRMNGMHVD 201 + G P +LF+L AQ + + + + G Sbjct: 153 FNNEIGVP-----------------LTLFRLRAQHQAAVIEMGMNHPGEIAVLSRIAAPT 195 Query: 202 VALLTNFTRDHLDFHGDMQTYEDAKRK----LFQWPGLKHAVVNLDDDMGQRLLPLLAE- 256 + L+ N R+H +F M T E R+ + P AV DDD PL E Sbjct: 196 LGLVNNAQREHQEF---MATVEAVARENGAVIRHLPADGVAVFPADDD----FTPLWREE 248 Query: 257 ---RKVPVIGY-AIADEQGGDPHGVPTLRASQLRSSHTGTVFHVDSPFGSGQVKTQLVGR 312 R+V G A AD + +A+ S+ V + P +V+ VG Sbjct: 249 AGARRVLSFGLSAQADVSA-------SYQATAFGSTLQVAVKGLAVPPAQFKVELAAVGE 301 Query: 313 FNVSNVLGIMGVLLTQGVAWDAVVAAAAALSPAPGRMQQFGGPDVPLIVID-YAHTPDAL 371 NV N L L G+A +AVV + +P GR+Q+ L++ D Y PD++ Sbjct: 302 HNVRNALAAAACALGAGIAIEAVVRGLESFAPVNGRLQRKEARSGALVIDDTYNANPDSV 361 Query: 372 DKTLSTLRQLATQRGGQLWCVFGCGGDRDPGKRPQMGQIA 411 + L +A R L + G GD+ P ++G A Sbjct: 362 RAAIDVLAAIAGPRVLVLGDM-GEVGDQGPQFHAEIGAYA 400 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 0.319 0.135 0.404 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: 1,750,382 Number of extensions: 81189 Number of successful extensions: 261 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 262 Number of HSP's successfully gapped: 2 Length of query: 508 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 419 Effective length of database: 1,198,455 Effective search space: 502152645 Effective search space used: 502152645 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: 133 (55.8 bits)