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= 0002.0015.p (263 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic pep... 437 e-124 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 84 9e-18 gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl... 82 3e-17 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 64 1e-11 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 437 bits (1125), Expect = e-124, Method: Compositional matrix adjust. Identities = 218/235 (92%), Positives = 227/235 (96%) Query: 29 MKSLRKLLFWIIVLPITLVLLLQLYFFVQIWWWKDHNPESTSFMRQQLSILREKDPNAQL 88 MKSLRKLLFWI+VLP+ LVLL+QLYFFVQIWWW+DHNPESTSFMRQQL++L+EKDP AQL Sbjct: 1 MKSLRKLLFWIVVLPLVLVLLMQLYFFVQIWWWRDHNPESTSFMRQQLALLQEKDPKAQL 60 Query: 89 QFRWVPYARISNNLKRAIIASEDSNFSEHDGIDWEALQKAYEKNEKKGKVVAGGSTITQQ 148 QFRWVPYARISNNLKRAIIASEDSNFS HDG+DWEALQKAYEKNEKKGKVVAGGSTITQQ Sbjct: 61 QFRWVPYARISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQ 120 Query: 149 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFELYLNVVEWGNGVFGAEAAAQHYY 208 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFE+YLNVVEWGNGVFGAEAAAQHYY Sbjct: 121 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYY 180 Query: 209 RTTAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLPPAHK 263 R AASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLP K Sbjct: 181 RIPAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLPAVAK 235 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 84.3 bits (207), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 116/236 (49%), Gaps = 15/236 (6%) Query: 31 SLRKLLFWI-IVLPITLVLLLQLYFFVQIWWWKDHNPESTSFMRQQLSI-LREKDPNAQL 88 SLR LL + + + +++LL + F V + + K + ++ + R ++ + + D Sbjct: 4 SLRILLGLVGTIFGLAVMVLLGVTFIVALTYPKLPDLDTLTDYRPKIPLRIFSADGVLIG 63 Query: 89 QF-----RWVPYARISNNLKRAIIASEDSNFSEHDGIDWEALQKAYEKNEKKGKVVAGGS 143 +F V + I +K+A++A ED F EH G+D++ + +A N G G S Sbjct: 64 EFGEERRNLVHFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNLSGGG--GGAS 121 Query: 144 TITQQLAKNLFL-SGERSYLRKGQ-----EFIITYMLEFLLDKQRIFELYLNVVEWGNGV 197 TITQQ+A+N FL S E ++L+K E + + +E L K +I E+Y+N + G Sbjct: 122 TITQQVARNFFLTSNEPTFLQKATRKFFYEIPLAWKIENNLTKDQILEVYMNQIYLGQRA 181 Query: 198 FGAEAAAQHYYRTTAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRM 253 +G +AAQ Y+ L +AA LA + P Y+ AR IL RM Sbjct: 182 YGFASAAQIYFGKQLKDLTIAEAAMLAGLPKAPSAYNPVVNPKRAHARQQYILLRM 237 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 82.4 bits (202), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 83/156 (53%) Query: 98 ISNNLKRAIIASEDSNFSEHDGIDWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLFLSG 157 I ++K A++A ED F EH GIDW + +A + +G G STIT Q+A+N+FL+ Sbjct: 96 IPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTITMQVARNVFLTK 155 Query: 158 ERSYLRKGQEFIITYMLEFLLDKQRIFELYLNVVEWGNGVFGAEAAAQHYYRTTAASLGA 217 E+++ RK E ++ +E L K +I E+Y+N + G FG AAA+ Y+ + Sbjct: 156 EKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTL 215 Query: 218 EQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRM 253 +AA LA + P Y+ R IL+RM Sbjct: 216 AEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQRM 251 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 63.9 bits (154), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 95/215 (44%), Gaps = 22/215 (10%) Query: 62 KDHNPESTSFMRQQLSILREKDPNA-QLQFRWVPYARISNNLKRAIIASEDSNFSEHDGI 120 +D P S + + +L+ N + + WV +S L+ A+IASED F +H GI Sbjct: 35 RDFLPSEASLLDRNGELLQRMRINMDERKLAWVRLEDVSPALRHALIASEDRRFYQHSGI 94 Query: 121 DWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLF-----LSGERSYLRKGQEFIITYMLE 175 DW A+ + N K G STIT QLA ++ SG RS +K + I LE Sbjct: 95 DWSAVAASAWGNLWNSK-TRGASTITMQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLE 153 Query: 176 FLLDKQRIFELYLNVVEWGNGVFGAEAAAQHYYRTTAASLGAEQAARLAVMLPRP----- 230 K +I E YLN+V + + G A ++ + + L +AA ++ P Sbjct: 154 RNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAAIAVALIRAPNATPR 213 Query: 231 RYYDR------NRGSGY----LAARTSLILRRMNA 255 R DR G G + RT L L R++A Sbjct: 214 RVADRACAILKEEGPGEQCNGMDGRTELALARVSA 248 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 0.322 0.135 0.408 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: 699,807 Number of extensions: 24624 Number of successful extensions: 70 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 67 Number of HSP's successfully gapped: 4 Length of query: 263 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 180 Effective length of database: 1,226,865 Effective search space: 220835700 Effective search space used: 220835700 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 (21.9 bits) S2: 129 (54.3 bits)