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= 0020.0079.p (235 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... 481 e-137 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 82 6e-17 gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl... 78 5e-16 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 62 3e-11 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 481 bits (1238), Expect = e-137, Method: Compositional matrix adjust. Identities = 235/235 (100%), Positives = 235/235 (100%) Query: 1 MKSLRKLLFWIVVLPLVLVLLMQLYFFVQIWWWRDHNPESTSFMRQQLALLQEKDPKAQL 60 MKSLRKLLFWIVVLPLVLVLLMQLYFFVQIWWWRDHNPESTSFMRQQLALLQEKDPKAQL Sbjct: 1 MKSLRKLLFWIVVLPLVLVLLMQLYFFVQIWWWRDHNPESTSFMRQQLALLQEKDPKAQL 60 Query: 61 QFRWVPYARISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQ 120 QFRWVPYARISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQ Sbjct: 61 QFRWVPYARISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQ 120 Query: 121 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYY 180 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYY Sbjct: 121 LAKNLFLSGERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYY 180 Query: 181 RIPAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLPAVAK 235 RIPAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLPAVAK Sbjct: 181 RIPAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRMNAATLPAVAK 235 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 81.6 bits (200), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 115/236 (48%), Gaps = 15/236 (6%) Query: 3 SLRKLLFWI-VVLPLVLVLLMQLYFFVQIWWWRDHNPESTSFMRQQLAL-LQEKDPKAQL 60 SLR LL + + L +++L+ + F V + + + + ++ + R ++ L + D Sbjct: 4 SLRILLGLVGTIFGLAVMVLLGVTFIVALTYPKLPDLDTLTDYRPKIPLRIFSADGVLIG 63 Query: 61 QF-----RWVPYARISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGS 115 +F V + I +K+A++A ED F H GVD++ + +A N G G S Sbjct: 64 EFGEERRNLVHFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNLSGGG--GGAS 121 Query: 116 TITQQLAKNLFL-SGERSYLRKGQ-----EFIITYMLEFLLDKQRIFEIYLNVVEWGNGV 169 TITQQ+A+N FL S E ++L+K E + + +E L K +I E+Y+N + G Sbjct: 122 TITQQVARNFFLTSNEPTFLQKATRKFFYEIPLAWKIENNLTKDQILEVYMNQIYLGQRA 181 Query: 170 FGAEAAAQHYYRIPAASLGAEQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRM 225 +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 = 78.2 bits (191), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 52/156 (33%), Positives = 82/156 (52%) Query: 70 ISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLFLSG 129 I ++K A++A ED F H G+DW + +A + +G G STIT Q+A+N+FL+ Sbjct: 96 IPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTITMQVARNVFLTK 155 Query: 130 ERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGA 189 E+++ RK E ++ +E L K +I E+Y+N + G FG AAA+ Y+ + Sbjct: 156 EKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTL 215 Query: 190 EQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRM 225 +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 = 62.4 bits (150), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 94/215 (43%), Gaps = 22/215 (10%) Query: 34 RDHNPESTSFMRQQLALLQE-KDPKAQLQFRWVPYARISNNLKRAIIASEDSNFSSHDGV 92 RD P S + + LLQ + + + WV +S L+ A+IASED F H G+ Sbjct: 35 RDFLPSEASLLDRNGELLQRMRINMDERKLAWVRLEDVSPALRHALIASEDRRFYQHSGI 94 Query: 93 DWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLF-----LSGERSYLRKGQEFIITYMLE 147 DW A+ + N K G STIT QLA ++ SG RS +K + I LE Sbjct: 95 DWSAVAASAWGNLWNSK-TRGASTITMQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLE 153 Query: 148 FLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGAEQAARLAVMLPRP----- 202 K +I E YLN+V + + G A ++ + + L +AA ++ P Sbjct: 154 RNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAAIAVALIRAPNATPR 213 Query: 203 RYYDR------NRGSGY----LAARTSLILRRMNA 227 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 0.323 0.136 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: 624,710 Number of extensions: 23295 Number of successful extensions: 68 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 65 Number of HSP's successfully gapped: 4 Length of query: 235 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 153 Effective length of database: 1,231,600 Effective search space: 188434800 Effective search space used: 188434800 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 129 (54.3 bits)