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= 0001.0304.p (508 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152980734|ref|YP_001354710.1| UDP-N-acetylmuramoylalanyl-D-gl... 652 0.0 gi|152980017|ref|YP_001354709.1| UDP-N-acetylmuramoylalanyl-D-gl... 68 1e-12 >gi|152980734|ref|YP_001354710.1| UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase [Janthinobacterium sp. Marseille] Length = 508 Score = 652 bits (1682), Expect = 0.0, Method: Compositional matrix adjust. Identities = 325/500 (65%), Positives = 393/500 (78%), Gaps = 12/500 (2%) Query: 8 LQDILAWLRQVAPSAQLSSDSRRVAPGDVFLAYVGD-ADGRSYIADAVERGAAAVLYEAE 66 L IL WL AP A+L+SDSRR+A GDVF+AY GD ADGRSYIA+A+ERGA AV+YEA Sbjct: 9 LASILDWLAANAPKAELASDSRRIAQGDVFVAYPGDEADGRSYIANAIERGAQAVIYEAA 68 Query: 67 GYTWPAQIDEPHLAVPDLKQQAGQIAAAWYGQPDQSMLSVAVTGTNGKTSCAYWLGSALS 126 G TW A+ D HLA+ DLK+ AG+IAAA+Y PD+SM +VA+TGTNGKTSCA WLGSALS Sbjct: 69 GCTWDAEWDVAHLAIDDLKEHAGEIAAAYYAHPDRSMFTVAITGTNGKTSCAQWLGSALS 128 Query: 127 RLPGATAAGVVGTLGVGSFINGKSQGFDVTGYTTPDAVLLQRSLAKLAQARVGALAIEAS 186 RL TA V+GTLGVG F NG FDVTGYTTPDAVLLQRSL ++ ALAIEAS Sbjct: 129 RLGQPTA--VIGTLGVGIFTNGGHGSFDVTGYTTPDAVLLQRSLVNVSNLGATALAIEAS 186 Query: 187 SIGLAQGRMNGMHVDVALFTNFTRDHLDFHGDMQTYEEAKRKLFQWPGLKHAVLNLDDPM 246 SIGL QGR++GMH D+ALFTNFTRDHLD+HGDM YEEAK LF WPGL+HAV+NLDD M Sbjct: 187 SIGLHQGRLSGMHFDMALFTNFTRDHLDYHGDMAAYEEAKAMLFDWPGLQHAVINLDDAM 246 Query: 247 GLRLLPLLAGRQ--VPVIGYSIAEQ-IDAQAAHVATLRASQLRSSHTGTVFHVDSPFGSG 303 G+RL+ L RQ V + GY+++++ ID +A LRA+ +RS+ +GTVF ++S G+ Sbjct: 247 GVRLVQRLQSRQADVGITGYTLSDKKIDG----IAVLRATDIRSNQSGTVFQLESSAGNT 302 Query: 304 QVKTQLVGRFNVSNVLGIMGVLLTQGLAWDAVVAAAAALTPAPGRMQQFGGPDVPLIVID 363 QVKTQLVG+FNVSNVLGI+G+LL +G+A V A ALT PGRMQQ GG + PL+VID Sbjct: 303 QVKTQLVGQFNVSNVLGIIGILLAKGIALQDAVNAVEALTAVPGRMQQLGGGEAPLVVID 362 Query: 364 YAHTPDALDKTLSTLRQVATQRGGQLWCVFGCGGDRDPGKRPQMGQIAEQADQVVLTSDN 423 YAHTPDAL+KTL+TLR VA RGG+LWCVFGCGGDRDPGKRPQMG+++ AD +V+T+DN Sbjct: 363 YAHTPDALEKTLATLRSVANDRGGELWCVFGCGGDRDPGKRPQMGKVSMAADHIVVTTDN 422 Query: 424 PRSEDPQAIIDQIRAGMS--RIEPVVLPDRAGAILWAIRHATRADVVLLAGKGHESYQEI 481 PR+E+P II I AG++ + P ++ DRA AILWA RHA R DV+LLAGKGHE+YQE+ Sbjct: 423 PRNEEPANIIGDIVAGITAPKNAPQIIEDRASAILWAGRHAARQDVILLAGKGHEAYQEV 482 Query: 482 AGKKLPFLDADHVALALAAR 501 G+KLPFLDADH ALAL+ R Sbjct: 483 KGRKLPFLDADHAALALSTR 502 >gi|152980017|ref|YP_001354709.1| UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl- D-alanine ligase [Janthinobacterium sp. Marseille] Length = 455 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 106/392 (27%), Positives = 160/392 (40%), Gaps = 58/392 (14%) Query: 8 LQDILAWLRQVAPSA--QLSSDSRRVAPGDVFLAYVGDA-DGRSYIADAVERGAAAVLYE 64 LQ L R A +A +S+DSR V G++F+A G+ D ++ ER AA++ E Sbjct: 8 LQSALNGARMTADAAFDGVSTDSRTVGAGNLFVALRGERFDAHDFLPQVAERNVAAIVAE 67 Query: 65 AEGYTWPAQIDEPHLAVPDLKQQAGQIAAAWYGQPDQSMLSVAVTGTNGKTSCAYWLGSA 124 T P + P L V D + GQIA W Q M + VTG+NGKT+ + + Sbjct: 68 ----TVPDGLTVPALIVQDTRVALGQIAHYWRRQF--KMPLIGVTGSNGKTTVKEMIAAI 121 Query: 125 LSRLPGATAAGVVGTLGV-GSFINGKSQGFDVTGYTTPDAVLLQRS----LAKLAQARVG 179 L A GV L G+F N G +T + LQ++ + +L G Sbjct: 122 LE-----AACGVDNYLATRGNFNN--DIGVPLT------LMRLQKTCKAAVIELGMNHPG 168 Query: 180 ALAIEASSIGLAQGRMNGMHVDVALFTNFTRDHLDFHGDMQTY-EEAKRKLFQWPGLKHA 238 +A+ S+I V L N R+H +F ++ +E L P A Sbjct: 169 EIAV-LSAIA---------EPTVGLVNNAQREHQEFMASVEAVAQENGAVLAGLPADGIA 218 Query: 239 VLNLDDPMGLRLLPLLAGRQVPVIGYSIAEQIDAQAAHVATLRASQLRSSHTGTVFHVDS 298 V DD L A R+V G+S + +R S++ F D Sbjct: 219 VFPADDEFTPLWRQLAAQRKVLTFGFS---------------DDADVRCSYSANAFGSDM 263 Query: 299 PFGSGQ----VKTQLVGRFNVSNVLGIMGVLLTQGLAWDAVVAAAAALTPAPGRMQQFGG 354 +G+ V G NV N L + L G+A DA+ A P GR+Q+ Sbjct: 264 EISAGRQQFTVALSAAGVHNVRNALAAIACALAIGIATDAIARGLQAFAPVSGRLQRKLA 323 Query: 355 PDVPLIVID-YAHTPDALDKTLSTLRQVATQR 385 + L++ D Y PD++ + L Q++ R Sbjct: 324 ANGALVIDDTYNANPDSVRAAIDVLAQMSAPR 355 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.319 0.134 0.399 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 1,219,119 Number of extensions: 51742 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 2 Length of query: 508 Length of database: 1,221,021 Length adjustment: 87 Effective length of query: 421 Effective length of database: 899,382 Effective search space: 378639822 Effective search space used: 378639822 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: 132 (55.5 bits)