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= 0035.0122.p (739 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 583 e-167 gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl... 93 9e-20 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 87 7e-18 gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic pep... 65 2e-11 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 583 bits (1503), Expect = e-167, Method: Compositional matrix adjust. Identities = 287/307 (93%), Positives = 295/307 (96%), Gaps = 2/307 (0%) Query: 6 IPTAASAVPSFSEVQRDFLPSEASLLDRNGELLQRMRVNMDERKLSWVKVEDVSPALRHA 65 +P AA AVPSF EVQRDFLPSEASLLDRNGELLQRMR+NMDERKL+WV++EDVSPALRHA Sbjct: 20 MPVAAHAVPSFKEVQRDFLPSEASLLDRNGELLQRMRINMDERKLAWVRLEDVSPALRHA 79 Query: 66 LVASEDRRFYQHSGIDWSAVAASAWGNLWNTKTRGASTITMQLAGLIYDDLRRKSGARSL 125 L+ASEDRRFYQHSGIDWSAVAASAWGNLWN+KTRGASTITMQLAGLIYDDLRRKSGARSL Sbjct: 80 LIASEDRRFYQHSGIDWSAVAASAWGNLWNSKTRGASTITMQLAGLIYDDLRRKSGARSL 139 Query: 126 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAA 185 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAA Sbjct: 140 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAA 199 Query: 186 IAVALIRAPNATPRRVAERACAILKEEGAGEQCNGMDGRTELALARVSAKRDLPGTSDAP 245 IAVALIRAPNATPRRVA+RACAILKEEG GEQCNGMDGRTELALARVSAKRDLPGTSDAP Sbjct: 200 IAVALIRAPNATPRRVADRACAILKEEGPGEQCNGMDGRTELALARVSAKRDLPGTSDAP 259 Query: 246 QLAPHLARKLLSAPGQQLRSTLDARLQRFATQALRHQLAGLADRNIEDGAIIVID--TPR 303 QLAPHLARKLLSAPGQQLRSTLDARLQRFATQALRHQLAGLADRNIEDGAIIVID T Sbjct: 260 QLAPHLARKLLSAPGQQLRSTLDARLQRFATQALRHQLAGLADRNIEDGAIIVIDNATGD 319 Query: 304 ATCWPGS 310 W GS Sbjct: 320 VLAWVGS 326 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 92.8 bits (229), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 60/170 (35%), Positives = 95/170 (55%), Gaps = 11/170 (6%) Query: 47 ERKLSWVKVEDVSPALRHALVASEDRRFYQHSGIDWSAVA-ASAWGNLWNTKTRGASTIT 105 E K S VK++D+ +++A++A ED RFY+H GIDW +A A L + ++GASTIT Sbjct: 85 EEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTIT 144 Query: 106 MQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVH 165 MQ+A ++ L ++ ++ ++K+ + +A +E KDQILE Y+N + G Sbjct: 145 MQVARNVF--LTKE---KTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFA 199 Query: 166 ALSRIMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVAERACAILK 210 A +R FGK + EAA+ L +AP+A P+R R IL+ Sbjct: 200 AAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQ 249 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 86.7 bits (213), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 55/173 (31%), Positives = 87/173 (50%), Gaps = 15/173 (8%) Query: 47 ERKLSWVKVEDVSPALRHALVASEDRRFYQHSGIDWSAVAASAWGNLWNTKTRGASTITM 106 E + + V +D+ ++ A++A ED RFY+H G+D+ +A + + NL + GASTIT Sbjct: 67 EERRNLVHFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNL-SGGGGGASTITQ 125 Query: 107 QLAGLIYDDLRRKSGARSLTQKVSQAWIAQ-----SLERNWRKDQILEAYLNLVAFRGEL 161 Q+A + S + QK ++ + + +E N KDQILE Y+N + Sbjct: 126 QVA----RNFFLTSNEPTFLQKATRKFFYEIPLAWKIENNLTKDQILEVYMNQIYLGQRA 181 Query: 162 VGVHALSRIMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVAERACAIL 209 G + ++I FGK L EAA+ L +AP+A P+R R IL Sbjct: 182 YGFASAAQIYFGKQLKDLTIAEAAMLAGLPKAPSAYNPVVNPKRAHARQQYIL 234 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 65.5 bits (158), Expect = 2e-11, Method: Composition-based stats. Identities = 59/201 (29%), Positives = 88/201 (43%), Gaps = 12/201 (5%) Query: 21 RDFLPSEASLLDRNGELLQRMRVNMDERKLSWVKVEDVSPALRHALVASEDRRFYQHSGI 80 RD P S + + LLQ + + + WV +S L+ A++ASED F H G+ Sbjct: 34 RDHNPESTSFMRQQLALLQE-KDPKAQLQFRWVPYARISNNLKRAIIASEDSNFSSHDGV 92 Query: 81 DWSAVAASAWGNLWNTK-TRGASTITMQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLE 139 DW A+ + N K G STIT QLA ++ SG RS +K + I LE Sbjct: 93 DWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLF-----LSGERSYLRKGQEFIITYMLE 147 Query: 140 RNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAAIAVALIRAPNATPR 199 K +I E YLN+V + + G A ++ + + L +AA ++ P R Sbjct: 148 FLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGAEQAARLAVMLPRPRYYDR 207 Query: 200 R-----VAERACAILKEEGAG 215 +A R IL+ A Sbjct: 208 NRGSGYLAARTSLILRRMNAA 228 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 0.334 0.139 0.494 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: 2,134,122 Number of extensions: 83771 Number of successful extensions: 410 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 406 Number of HSP's successfully gapped: 4 Length of query: 739 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 647 Effective length of database: 1,184,250 Effective search space: 766209750 Effective search space used: 766209750 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 39 (21.6 bits) S2: 134 (56.2 bits)