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= 0082.0029.p (426 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl... 706 0.0 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 477 e-136 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 73 4e-14 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 706 bits (1822), Expect = 0.0, Method: Compositional matrix adjust. Identities = 345/443 (77%), Positives = 377/443 (85%), Gaps = 28/443 (6%) Query: 1 VNEMVRQMVYAQYKEDTYTHGITVTTTINAADQKAAYDAVRKGVMDYDRRHGYRGPEETI 60 VNEMVRQMVYAQYKEDTYT G V TT+NAADQ+AAY AVRKGVMDYDRRHGYRGPEETI Sbjct: 286 VNEMVRQMVYAQYKEDTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETI 345 Query: 61 ELPSKEEDRAQAIDDAMDDYPDNDDILAAVVVSADPKQIQAVIRSGDKITLSGDTLKFVA 120 ELP+ EDRA AIDD MDD+PDNDDILAAVVV+A PKQI AV+RSGDKI++ G+ L+FVA Sbjct: 346 ELPANAEDRAAAIDDVMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVA 405 Query: 121 AALGPKAKKEIRIAPGAVIRVMQDGKKNWQIVQLPEVEATLVSVTPQNGAIRALVGGFDF 180 +AL KAKK+IRI PGA+IRVMQD K+NWQ+ QLP+VEA LVSV PQ+GAIRALVGGFDF Sbjct: 406 SALSEKAKKDIRIGPGALIRVMQDAKQNWQVAQLPQVEAALVSVVPQDGAIRALVGGFDF 465 Query: 181 TQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIINDAPVSYPAGNGQPNWEPKDDD 240 TQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASI+NDAPVSYPAG GQPNWEP+DD+ Sbjct: 466 TQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNWEPRDDE 525 Query: 241 PPAGPMAMRTALQKSVNLVAIRTLDAIGVKYAQDFITQHFGFDTDKVPPYLPMALGAGQT 300 PAGP+ +RTALQKSVNLVAIRTLD IGV YA+DFIT +GFD DKVPPYLPMALGAGQT Sbjct: 526 TPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMALGAGQT 585 Query: 301 TPLQL----------------------------ALSKADPLIVGNNAPRAIDERNSYIMT 332 PLQL ALSKA+PLIVGN APR + ERNSY+MT Sbjct: 586 NPLQLSAAYSVFANGGYKVQPYLISQITDARGQALSKAEPLIVGNGAPRVVSERNSYMMT 645 Query: 333 SLLQSVAQRGTGARSNSLKRTDLAGKTGTTNDAFDGWFAGYQRTLTTVVWMGYDQPKSLG 392 S+L+SVAQ GTGARSNS+ R+DLAGKTGTTNDA DGWFAGYQRTL TVVWMGYDQPKSLG Sbjct: 646 SMLKSVAQGGTGARSNSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLG 705 Query: 393 SKEFGAQLALPIWVDYMGVALRG 415 SKEFGAQLALPIWVDYM AL+G Sbjct: 706 SKEFGAQLALPIWVDYMAKALKG 728 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 477 bits (1228), Expect = e-136, Method: Compositional matrix adjust. Identities = 241/447 (53%), Positives = 316/447 (70%), Gaps = 38/447 (8%) Query: 1 VNEMVRQMVYAQYKEDTYTHGITVTTTINAADQKAAYDAVRKGVMDYDRRHGYRGPEETI 60 V EM RQ+VYAQYK++TYT G+ V TTI DQ AAY A+R+G++DY+RRHGYRGPE + Sbjct: 272 VAEMARQLVYAQYKDETYTRGLNVFTTITKTDQDAAYIALRRGIIDYERRHGYRGPEGYM 331 Query: 61 ELPSKEEDRAQAIDDAMD----DYPDNDDILAAVVVSADPKQIQAVIRSGDKITLSGDTL 116 +LP E A++DA++ D+PD+DD+++AVV+ A PK+I A++ +G++I++SG L Sbjct: 332 DLP--ENATKDAVEDAVEVELADHPDSDDMVSAVVLEAKPKEITAMLSTGEEISISGAGL 389 Query: 117 KFVAAALGPKAKKEIRIAPGAVIRVMQDGKKNWQIVQLPEVEATLVSVTPQNGAIRALVG 176 F A L KA + +I GA+IRV QDG NW I Q+PEVE+ VSV Q+GAIR+LVG Sbjct: 390 GFGANLLSDKAPPQKKIRRGAIIRVFQDGN-NWIITQMPEVESAFVSVNSQDGAIRSLVG 448 Query: 177 GFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIINDAPVSYPAGNGQPNWEP 236 GFDF +N FNHVTQAWRQPGS+FKPFIYS++LEKG +PA+IINDAP+++ GQ W+P Sbjct: 449 GFDFNRNKFNHVTQAWRQPGSSFKPFIYSSSLEKGLSPATIINDAPLTFTQTGGQV-WQP 507 Query: 237 KD-DDPPAGPMAMRTALQKSVNLVAIRTLDAIGVKYAQDFITQHFGFDTDKVPPYLPMAL 295 K+ GP++MR ALQKS+NLV+IR L+ +GVKYAQ++IT+ FGFD DK PPYL +AL Sbjct: 508 KNYGGKFEGPISMRRALQKSINLVSIRILERVGVKYAQEYITR-FGFDADKNPPYLTLAL 566 Query: 296 GAGQTTPLQLA----------------------------LSKADPLIVGNNAPRAIDERN 327 GAG TPLQ+ LS+A P + + R ID RN Sbjct: 567 GAGNVTPLQMVGAYSVFANGGYKINPYLITKVTDSNGEVLSQAKPATADDESNRVIDARN 626 Query: 328 SYIMTSLLQSVAQRGTGARSNSLKRTDLAGKTGTTNDAFDGWFAGYQRTLTTVVWMGYDQ 387 ++IM S+L+ V + GT ++ SLKRTDLAGKTGTTND+ D WFAGYQ LT + W+GYDQ Sbjct: 627 AFIMDSMLRDVVRHGTAVKALSLKRTDLAGKTGTTNDSMDAWFAGYQPGLTAIAWIGYDQ 686 Query: 388 PKSLGSKEFGAQLALPIWVDYMGVALR 414 PKSLG +E G LALP+W+ YM AL+ Sbjct: 687 PKSLGDRETGGGLALPVWISYMSKALK 713 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 112/245 (45%), Gaps = 35/245 (14%) Query: 191 AWRQPGSTFKPFIYSAALEKG-FAPASIINDAPVSYPAGNGQPNWEPKD-DDPPAGPMAM 248 A RQ GST KPF+Y A+EK AS+++D+PV+ G + P++ D G +++ Sbjct: 341 AQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATSAGL--YIPQNYDKQYKGLVSL 398 Query: 249 RTALQKSVNLVAIRTLDAIGVKYAQDFI--TQHFGFDTDKVPPYL--PMALGA------- 297 RT+L S+N+ A+RTL + + F Q GF+ + Y +ALG+ Sbjct: 399 RTSLGSSLNIPAVRTLVMV---TPERFFRRLQALGFNLRESGDYYGYSLALGSADVTLAN 455 Query: 298 -----------GQTTPLQLALSKADPLIVGNNAPRAIDERNSYIMTSLLQSVAQRG-TGA 345 G+ TPL+ L +A A + +D +YI+ +L + R T Sbjct: 456 LANAYRVLANQGRYTPLRTRLDEAR---TPARATQVMDADAAYIVGDILSDRSARARTFG 512 Query: 346 RSNSLK-RTDLAGKTGTTNDAFDGWFAGYQRTLTTVVWMGYDQPKSLGSKEFGAQLALPI 404 N+L R A KTGT+ D D W GY T VW+G + G A P+ Sbjct: 513 LENALSTRIWTAVKTGTSKDMRDNWCVGYSTRYTVGVWVGNASGAPMWDVS-GVTGAAPV 571 Query: 405 WVDYM 409 W + M Sbjct: 572 WQEVM 576 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 0.316 0.133 0.395 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: 1,352,885 Number of extensions: 57785 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 3 Length of query: 426 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 338 Effective length of database: 1,203,190 Effective search space: 406678220 Effective search space used: 406678220 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 (21.6 bits) S2: 132 (55.5 bits)