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= 0007.0126.p (370 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... 702 0.0 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 367 e-102 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 75 1e-14 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 702 bits (1812), Expect = 0.0, Method: Compositional matrix adjust. Identities = 341/370 (92%), Positives = 351/370 (94%), Gaps = 7/370 (1%) Query: 1 VGGFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNW 60 VGGFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNW Sbjct: 460 VGGFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNW 519 Query: 61 EPKDDETPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMA 120 EP+DDETPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMA Sbjct: 520 EPRDDETPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMA 579 Query: 121 LGAGQTNPLQLSAAYSVFANGGYKIQPYLISQITDARGKVLSKAEPLIVGNGAPRVVSER 180 LGAGQTNPLQLSAAYSVFANGGYK+QPYLISQITDARG+ LSKAEPLIVGNGAPRVVSER Sbjct: 580 LGAGQTNPLQLSAAYSVFANGGYKVQPYLISQITDARGQALSKAEPLIVGNGAPRVVSER 639 Query: 181 NSYMMTSMLKAVAQGGTGARSNSIGRTDLAGKTGTTNDAVDGWFAGYQRTLATVAWMGYD 240 NSYMMTSMLK+VAQGGTGARSNSIGR+DLAGKTGTTNDAVDGWFAGYQRTLATV WMGYD Sbjct: 640 NSYMMTSMLKSVAQGGTGARSNSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYD 699 Query: 241 QPKSLGSKEFGAQLALPIWVDYMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLV 300 QPKSLGSKEFGAQLALPIWVDYMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLV Sbjct: 700 QPKSLGSKEFGAQLALPIWVDYMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLV 759 Query: 301 TNVGVTVVDAISNFFGWTPSQTPAAPGNAQPAPNVPGTSQGAPAAAPGGSANRPQSESAR 360 TNVGVTVVDAISNFFGWTPSQ PA PG+ QP PNVPGT AP + R +E+AR Sbjct: 760 TNVGVTVVDAISNFFGWTPSQAPATPGSTQPEPNVPGT-------APATNGTRAPNENAR 812 Query: 361 RFLDNTNQGH 370 RFLD+TNQGH Sbjct: 813 RFLDSTNQGH 822 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 367 bits (941), Expect = e-102, Method: Compositional matrix adjust. Identities = 177/306 (57%), Positives = 234/306 (76%), Gaps = 4/306 (1%) Query: 1 VGGFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNW 60 VGGFDF +N FNHVTQAWRQPGS+FKPFIYS++LEKG +PA+I+NDAP+++ GQ W Sbjct: 447 VGGFDFNRNKFNHVTQAWRQPGSSFKPFIYSSSLEKGLSPATIINDAPLTFTQTGGQV-W 505 Query: 61 EPKD-DETPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPM 119 +PK+ GPI++R ALQKS+NLV+IR L+ +GV YA+++IT +GFDADK PPYL + Sbjct: 506 QPKNYGGKFEGPISMRRALQKSINLVSIRILERVGVKYAQEYIT-RFGFDADKNPPYLTL 564 Query: 120 ALGAGQTNPLQLSAAYSVFANGGYKIQPYLISQITDARGKVLSKAEPLIVGNGAPRVVSE 179 ALGAG PLQ+ AYSVFANGGYKI PYLI+++TD+ G+VLS+A+P + + RV+ Sbjct: 565 ALGAGNVTPLQMVGAYSVFANGGYKINPYLITKVTDSNGEVLSQAKPATADDESNRVIDA 624 Query: 180 RNSYMMTSMLKAVAQGGTGARSNSIGRTDLAGKTGTTNDAVDGWFAGYQRTLATVAWMGY 239 RN+++M SML+ V + GT ++ S+ RTDLAGKTGTTND++D WFAGYQ L +AW+GY Sbjct: 625 RNAFIMDSMLRDVVRHGTAVKALSLKRTDLAGKTGTTNDSMDAWFAGYQPGLTAIAWIGY 684 Query: 240 DQPKSLGSKEFGAQLALPIWVDYMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGL 299 DQPKSLG +E G LALP+W+ YM+KALK VP D VP+G+ GE YY F P + + Sbjct: 685 DQPKSLGDRETGGGLALPVWISYMSKALKDVPNVDRKVPDGLIESGGEYYYAEFPP-SAM 743 Query: 300 VTNVGV 305 V ++G+ Sbjct: 744 VRDLGM 749 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 113/232 (48%), Gaps = 30/232 (12%) Query: 17 AWRQPGSTFKPFIYSAALEKG-FAPASIVNDAPVSYPAGPGQPNWEPKD-DETPAGPITV 74 A RQ GST KPF+Y A+EK AS+++D+PV+ G + P++ D+ G +++ Sbjct: 341 AQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATSAGL--YIPQNYDKQYKGLVSL 398 Query: 75 RTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPY--LPMALGAGQTNPLQLS 132 RT+L S+N+ A+RTL + P GF+ + Y +ALG+ L+ Sbjct: 399 RTSLGSSLNIPAVRTLVMV-TPERFFRRLQALGFNLRESGDYYGYSLALGSADVTLANLA 457 Query: 133 AAYSVFANGGYKIQPYLISQITDAR-----GKVLSKAEPLIVGNGAPRVVSERNSYMMTS 187 AY V AN G + P L +++ +AR +V+ IVG+ ++S+R++ T Sbjct: 458 NAYRVLANQG-RYTP-LRTRLDEARTPARATQVMDADAAYIVGD----ILSDRSARARTF 511 Query: 188 MLKAVAQGGTGARSNSIG-RTDLAGKTGTTNDAVDGWFAGYQRTLATVAWMG 238 L+ N++ R A KTGT+ D D W GY W+G Sbjct: 512 GLE-----------NALSTRIWTAVKTGTSKDMRDNWCVGYSTRYTVGVWVG 552 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 0.315 0.133 0.407 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: 1,148,898 Number of extensions: 49588 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 3 Length of query: 370 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 283 Effective length of database: 1,207,925 Effective search space: 341842775 Effective search space used: 341842775 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: 42 (22.0 bits) S2: 131 (55.1 bits)