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= 0010.0089.p (762 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... 1400 0.0 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 98 2e-21 gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl... 93 1e-19 gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic pep... 63 1e-10 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 1400 bits (3624), Expect = 0.0, Method: Compositional matrix adjust. Identities = 683/731 (93%), Positives = 707/731 (96%) Query: 25 MPTAASAVPSFNEVQRDFLPSEASLLDRNGELLQRMRVNMDERKLSWVKLDDVSPALRHA 84 MP AA AVPSF EVQRDFLPSEASLLDRNGELLQRMR+NMDERKL+WV+L+DVSPALRHA Sbjct: 20 MPVAAHAVPSFKEVQRDFLPSEASLLDRNGELLQRMRINMDERKLAWVRLEDVSPALRHA 79 Query: 85 LVASEDRRFYQHSGIDWSAVAASAWGNLWNTKTRGASTITMQLAGLIYDDLRRKSGARSL 144 L+ASEDRRFYQHSGIDWSAVAASAWGNLWN+KTRGASTITMQLAGLIYDDLRRKSGARSL Sbjct: 80 LIASEDRRFYQHSGIDWSAVAASAWGNLWNSKTRGASTITMQLAGLIYDDLRRKSGARSL 139 Query: 145 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSRVMFGKHPSGLDQGEAA 204 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSR+MFGKHPSGLDQGEAA Sbjct: 140 TQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVHALSRIMFGKHPSGLDQGEAA 199 Query: 205 IAVALIRAPNATPRRVTERACAILKEEGASEQCSGMDGRTELALARVSAKRDLPGTSDSP 264 IAVALIRAPNATPRRV +RACAILKEEG EQC+GMDGRTELALARVSAKRDLPGTSD+P Sbjct: 200 IAVALIRAPNATPRRVADRACAILKEEGPGEQCNGMDGRTELALARVSAKRDLPGTSDAP 259 Query: 265 QLAPHLARKLLNAPGQQLRSTLDAPLQRFATQALRHQLAGLAERNIEDGAVIVIDNATGE 324 QLAPHLARKLL+APGQQLRSTLDA LQRFATQALRHQLAGLA+RNIEDGA+IVIDNATG+ Sbjct: 260 QLAPHLARKLLSAPGQQLRSTLDARLQRFATQALRHQLAGLADRNIEDGAIIVIDNATGD 319 Query: 325 VLAWVGSSGPLSAAANVDGVVAQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATS 384 VLAWVGSSGPLSAAANVDGVVAQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATS Sbjct: 320 VLAWVGSSGPLSAAANVDGVVAQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATS 379 Query: 385 AGLYIPQNYDKQYKGLVSLRTSLGSSLNIPAVRTLVMVTPERFFRRLQALGFNLRESGDY 444 AGLYIPQNYDKQYKGLVSLRTSLGSSLNIPAVRTLVMVTPERFFRRLQALGFNLRESGDY Sbjct: 380 AGLYIPQNYDKQYKGLVSLRTSLGSSLNIPAVRTLVMVTPERFFRRLQALGFNLRESGDY 439 Query: 445 YGYSLALGSADVTLANLANAYRVLANQGRYTPLRTRLDEARTPARATQVMDADAAYIVGD 504 YGYSLALGSADVTLANLANAYRVLANQGRYTPLRTRLDEARTPARATQVMDADAAYIVGD Sbjct: 440 YGYSLALGSADVTLANLANAYRVLANQGRYTPLRTRLDEARTPARATQVMDADAAYIVGD 499 Query: 505 ILSDRSARARTFGLENALSTRIWTAVKTGTSKDMRDNWCVGYSSRYTVGVWVGNASGAPM 564 ILSDRSARARTFGLENALSTRIWTAVKTGTSKDMRDNWCVGYS+RYTVGVWVGNASGAPM Sbjct: 500 ILSDRSARARTFGLENALSTRIWTAVKTGTSKDMRDNWCVGYSTRYTVGVWVGNASGAPM 559 Query: 565 WDVSGVTGAAPVWQEVMQYLHERGRSGARDARNGPPAKPAGVQAQMIRYEQDVEAARTEY 624 WDVSGVTGAAPVWQEVMQYLHERGR+G R+A NGPPAKPAGVQAQMIRYEQ+VEAARTEY Sbjct: 560 WDVSGVTGAAPVWQEVMQYLHERGRNGGREAGNGPPAKPAGVQAQMIRYEQEVEAARTEY 619 Query: 625 FLPGTGQAEIRLAHARDIRPAITYPTTGMLAALDPDIPPARQRIRFRAQGAPIGSRWVLD 684 FLPGT QAEIRLAHARDIRPAITYPT GMLAALDPDIPPARQRIRFRAQG P GSRWVLD Sbjct: 620 FLPGTAQAEIRLAHARDIRPAITYPTAGMLAALDPDIPPARQRIRFRAQGVPAGSRWVLD 679 Query: 685 GKMMPLEVMQAGRVQAQKVAANFTAAGEEALDFDWMPWPGKHVLVLQDKQGKALDSVRFE 744 GK+MP EVMQAGRV+AQKV+ N +A+GEE L FDWMPWPGKHVLVLQDK G+ LD VRFE Sbjct: 680 GKLMPQEVMQAGRVKAQKVSTNASASGEEELGFDWMPWPGKHVLVLQDKGGQELDRVRFE 739 Query: 745 VRGAVVRNEPK 755 VRGAV R E K Sbjct: 740 VRGAVARPEEK 750 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 98.2 bits (243), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/252 (31%), Positives = 128/252 (50%), Gaps = 22/252 (8%) Query: 346 AQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATSAG-LYIPQNYDKQYKGLVSLR 404 A RQ GS+ KPF+Y ++EK L+ A++++D+P+ + G ++ P+NY +++G +S+R Sbjct: 463 AWRQPGSSFKPFIYSSSLEKG-LSPATIINDAPLTFTQTGGQVWQPKNYGGKFEGPISMR 521 Query: 405 TSLGSSLNIPAVRTLVMVTPERFFRRLQALGFNLRESGDYYGYSLALGSADVTLANLANA 464 +L S+N+ ++R L V + + GF+ ++ Y +LALG+ +VT + A Sbjct: 522 RALQKSINLVSIRILERVGVKYAQEYITRFGFDADKNPPY--LTLALGAGNVTPLQMVGA 579 Query: 465 YRVLANQG-RYTP-LRTRLDEAR-------TPARA----TQVMDADAAYIVGDILSDRSA 511 Y V AN G + P L T++ ++ PA A +V+DA A+I+ +L D Sbjct: 580 YSVFANGGYKINPYLITKVTDSNGEVLSQAKPATADDESNRVIDARNAFIMDSMLRDVVR 639 Query: 512 RARTFGLENALS-TRIWTAVKTGTSKDMRDNWCVGYSSRYTVGVWVGNASGAPMWD-VSG 569 ALS R A KTGT+ D D W GY T W+G + D +G Sbjct: 640 HGTAV---KALSLKRTDLAGKTGTTNDSMDAWFAGYQPGLTAIAWIGYDQPKSLGDRETG 696 Query: 570 VTGAAPVWQEVM 581 A PVW M Sbjct: 697 GGLALPVWISYM 708 Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 54/172 (31%), Positives = 85/172 (49%), Gaps = 13/172 (7%) Query: 66 ERKLSWVKLDDVSPALRHALVASEDRRFYQHSGIDWSAVAASAWGNLWNTKTRGASTITM 125 E + + V D+ ++ A++A ED RFY+H G+D+ +A + + NL + GASTIT Sbjct: 67 EERRNLVHFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNL-SGGGGGASTITQ 125 Query: 126 QLAGLIY----DDLRRKSGARSLTQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELV 181 Q+A + + + R ++ AW +E N KDQILE Y+N + Sbjct: 126 QVARNFFLTSNEPTFLQKATRKFFYEIPLAW---KIENNLTKDQILEVYMNQIYLGQRAY 182 Query: 182 GVHALSRVMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVTERACAIL 228 G + +++ FGK L EAA+ L +AP+A P+R R IL Sbjct: 183 GFASAAQIYFGKQLKDLTIAEAAMLAGLPKAPSAYNPVVNPKRAHARQQYIL 234 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 92.8 bits (229), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 61/170 (35%), Positives = 93/170 (54%), Gaps = 11/170 (6%) Query: 66 ERKLSWVKLDDVSPALRHALVASEDRRFYQHSGIDWSAVA-ASAWGNLWNTKTRGASTIT 124 E K S VKLDD+ +++A++A ED RFY+H GIDW +A A L + ++GASTIT Sbjct: 85 EEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTIT 144 Query: 125 MQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVH 184 MQ+A ++ + ++ ++K+ + +A +E KDQILE Y+N + G Sbjct: 145 MQVARNVF-----LTKEKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFA 199 Query: 185 ALSRVMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVTERACAILK 229 A +R FGK + EAA+ L +AP+A P+R R IL+ Sbjct: 200 AAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQ 249 Score = 75.9 bits (185), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 78/256 (30%), Positives = 122/256 (47%), Gaps = 29/256 (11%) Query: 346 AQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATSAGL--YIPQNYDKQYKGLVSL 403 A RQ GST KPF+Y A+EK + AS+++D+PV+ G + P++ D+ G +++ Sbjct: 476 AWRQPGSTFKPFIYSAALEKGF-APASIVNDAPVSYPAGPGQPNWEPRD-DETPAGPITV 533 Query: 404 RTSLGSSLNIPAVRTLVMV-TPERFFRRLQALGFNLRESGDYYGYSLALGSADVTLANLA 462 RT+L S+N+ A+RTL + P GF+ + Y +ALG+ L+ Sbjct: 534 RTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPY--LPMALGAGQTNPLQLS 591 Query: 463 NAYRVLANQG-RYTP-LRTRLDEARTPARATQVMDADAAYIVGD----ILSDRSARARTF 516 AY V AN G + P L +++ +AR Q + IVG+ ++S+R++ T Sbjct: 592 AAYSVFANGGYKVQPYLISQITDAR-----GQALSKAEPLIVGNGAPRVVSERNSYMMTS 646 Query: 517 GLEN-------ALSTRIW---TAVKTGTSKDMRDNWCVGYSSRYTVGVWVGNASGAPMWD 566 L++ A S I A KTGT+ D D W GY VW+G + Sbjct: 647 MLKSVAQGGTGARSNSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGS 706 Query: 567 VS-GVTGAAPVWQEVM 581 G A P+W + M Sbjct: 707 KEFGAQLALPIWVDYM 722 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 56/174 (32%), Positives = 82/174 (47%), Gaps = 8/174 (4%) Query: 40 RDFLPSEASLLDRNGELLQRMRVNMDERKLSWVKLDDVSPALRHALVASEDRRFYQHSGI 99 RD P S + + LLQ + + + WV +S L+ A++ASED F H G+ Sbjct: 34 RDHNPESTSFMRQQLALLQE-KDPKAQLQFRWVPYARISNNLKRAIIASEDSNFSSHDGV 92 Query: 100 DWSAVAASAWGNLWNTK-TRGASTITMQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLE 158 DW A+ + N K G STIT QLA ++ SG RS +K + I LE Sbjct: 93 DWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLF-----LSGERSYLRKGQEFIITYMLE 147 Query: 159 RNWRKDQILEAYLNLVAFRGELVGVHALSRVMFGKHPSGLDQGEAA-IAVALIR 211 K +I E YLN+V + + G A ++ + + L +AA +AV L R Sbjct: 148 FLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGAEQAARLAVMLPR 201 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 0.318 0.132 0.388 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: 2,481,908 Number of extensions: 110497 Number of successful extensions: 361 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 353 Number of HSP's successfully gapped: 6 Length of query: 762 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 669 Effective length of database: 1,179,515 Effective search space: 789095535 Effective search space used: 789095535 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 134 (56.2 bits)