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= 0007.0033.p (822 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... 1670 0.0 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 875 0.0 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 97 5e-21 gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic pep... 89 1e-18 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 1670 bits (4326), Expect = 0.0, Method: Compositional matrix adjust. Identities = 818/822 (99%), Positives = 818/822 (99%) Query: 1 MPLPTLPRPHSRPLARQRGFLNPNIAKFIGLSILGLGVAGALLVVYALIFINPRLPSLEL 60 MPLPTLPRPHSRPL RQRGFLNPNIAKFIGLSILGLGVAGALLVVYALIFINPRLPSLEL Sbjct: 1 MPLPTLPRPHSRPLTRQRGFLNPNIAKFIGLSILGLGVAGALLVVYALIFINPRLPSLEL 60 Query: 61 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDW 120 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDW Sbjct: 61 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDW 120 Query: 121 IGIARALVTDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ 180 IGIARALVTDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ Sbjct: 121 IGIARALVTDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ 180 Query: 181 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRA 240 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRA Sbjct: 181 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRA 240 Query: 241 HIRQQYILQRMLDVGFITKAQYEKAAKEELKVRAPGSQYNIHAEYVNEMVRQMVYAQYKE 300 HIRQQYILQRMLDVGFITKAQYEKAAKEELKVRAPGSQYNIHAEYVNEMVRQMVYAQYKE Sbjct: 241 HIRQQYILQRMLDVGFITKAQYEKAAKEELKVRAPGSQYNIHAEYVNEMVRQMVYAQYKE 300 Query: 301 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANAEDRAAAIDD 360 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANAEDRAAAIDD Sbjct: 301 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANAEDRAAAIDD 360 Query: 361 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVASALSEKAKKDIRIGP 420 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVASALSEKAKKDIRIGP Sbjct: 361 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVASALSEKAKKDIRIGP 420 Query: 421 GALIRVMQDAKQNWQVAQLPQVEAALVSVVPQDGAIRALVGGFDFTQNNFNHVTQAWRQP 480 GALIRVMQDAKQNWQVAQLPQVEAALVSVVPQDGAIRALVGGFDFTQNNFNHVTQAWRQP Sbjct: 421 GALIRVMQDAKQNWQVAQLPQVEAALVSVVPQDGAIRALVGGFDFTQNNFNHVTQAWRQP 480 Query: 481 GSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNWEPRDDETPAGPITVRTALQKS 540 GSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNWEPRDDETPAGPITVRTALQKS Sbjct: 481 GSTFKPFIYSAALEKGFAPASIVNDAPVSYPAGPGQPNWEPRDDETPAGPITVRTALQKS 540 Query: 541 VNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMALGAGQTNPLQLSAAYSVFANG 600 VNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMALGAGQTNPLQLSAAYSVFANG Sbjct: 541 VNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPYLPMALGAGQTNPLQLSAAYSVFANG 600 Query: 601 GYKVQPYLISQITDARGQALSKAEPLIVGNGAPRVVSERNSYMMTSMLKSVAQGGTGARS 660 GYKVQPYLISQITDARGQALSKAEPLIVGNGAPRVVSERNSYMMTSMLKSVAQGGTGARS Sbjct: 601 GYKVQPYLISQITDARGQALSKAEPLIVGNGAPRVVSERNSYMMTSMLKSVAQGGTGARS 660 Query: 661 NSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVD 720 NSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVD Sbjct: 661 NSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVD 720 Query: 721 YMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLVTNVGVTVVDAISNFFGWTPSQ 780 YMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLVTNVGVTVVDAISNFFGWTPSQ Sbjct: 721 YMAKALKGVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLVTNVGVTVVDAISNFFGWTPSQ 780 Query: 781 APAAPGSTQPEPNVPGTAPTTNGMRAPNENARRFLDSTNQGH 822 APA PGSTQPEPNVPGTAP TNG RAPNENARRFLDSTNQGH Sbjct: 781 APATPGSTQPEPNVPGTAPATNGTRAPNENARRFLDSTNQGH 822 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 875 bits (2260), Expect = 0.0, Method: Compositional matrix adjust. Identities = 434/742 (58%), Positives = 562/742 (75%), Gaps = 15/742 (2%) Query: 32 SILGLGVAGALLVVYALIFINPRLPSLELITDYRPKVPLRIWSEDKVLLGEFGEEKRSLV 91 +I GL V L V + + P+LP L+ +TDYRPK+PLRI+S D VL+GEFGEE+R+LV Sbjct: 14 TIFGLAVMVLLGVTFIVALTYPKLPDLDTLTDYRPKIPLRIFSADGVLIGEFGEERRNLV 73 Query: 92 KLDDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTITMQVARNV 151 DIP MK AVLAIED RFYEHGG+D+ GIARA +++ G GASTIT QVARN Sbjct: 74 HFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNLSGGGG--GASTITQQVARNF 131 Query: 152 FLT-KEKTFSRK-----LYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTY 205 FLT E TF +K YE+ LA KIE+ LTKDQILEVYMNQIYLGQRA+GFA+AA+ Y Sbjct: 132 FLTSNEPTFLQKATRKFFYEIPLAWKIENNLTKDQILEVYMNQIYLGQRAYGFASAAQIY 191 Query: 206 FGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQRMLDVGFITKAQYEKA 265 FGK LKD+T+AEAAMLAGLPKAPSAYNP+VNPKRAH RQQYIL RM +G+IT AQY+ A Sbjct: 192 FGKQLKDLTIAEAAMLAGLPKAPSAYNPVVNPKRAHARQQYILLRMRQLGYITDAQYQAA 251 Query: 266 AKEELKVRAPGSQYNIHAEYVNEMVRQMVYAQYKEDTYTQGFNVYTTVNAADQQAAYLAV 325 EEL+V+ S + +HAEYV EM RQ+VYAQYK++TYT+G NV+TT+ DQ AAY+A+ Sbjct: 252 KDEELRVKGDSSAFGMHAEYVAEMARQLVYAQYKDETYTRGLNVFTTITKTDQDAAYIAL 311 Query: 326 RKGVMDYDRRHGYRGPEETIELPANAEDRAA--AIDDVMDDHPDNDDILAAVVVAASPKQ 383 R+G++DY+RRHGYRGPE ++LP NA A A++ + DHPD+DD+++AVV+ A PK+ Sbjct: 312 RRGIIDYERRHGYRGPEGYMDLPENATKDAVEDAVEVELADHPDSDDMVSAVVLEAKPKE 371 Query: 384 IDAVLRSGDKISIKGEALRFVASALSEKAKKDIRIGPGALIRVMQDAKQNWQVAQLPQVE 443 I A+L +G++ISI G L F A+ LS+KA +I GA+IRV QD NW + Q+P+VE Sbjct: 372 ITAMLSTGEEISISGAGLGFGANLLSDKAPPQKKIRRGAIIRVFQDG-NNWIITQMPEVE 430 Query: 444 AALVSVVPQDGAIRALVGGFDFTQNNFNHVTQAWRQPGSTFKPFIYSAALEKGFAPASIV 503 +A VSV QDGAIR+LVGGFDF +N FNHVTQAWRQPGS+FKPFIYS++LEKG +PA+I+ Sbjct: 431 SAFVSVNSQDGAIRSLVGGFDFNRNKFNHVTQAWRQPGSSFKPFIYSSSLEKGLSPATII 490 Query: 504 NDAPVSYPAGPGQPNWEPRD-DETPAGPITVRTALQKSVNLVAIRTLDYIGVPYAKDFIT 562 NDAP+++ GQ W+P++ GPI++R ALQKS+NLV+IR L+ +GV YA+++IT Sbjct: 491 NDAPLTFTQTGGQV-WQPKNYGGKFEGPISMRRALQKSINLVSIRILERVGVKYAQEYIT 549 Query: 563 GTYGFDADKVPPYLPMALGAGQTNPLQLSAAYSVFANGGYKVQPYLISQITDARGQALSK 622 +GFDADK PPYL +ALGAG PLQ+ AYSVFANGGYK+ PYLI+++TD+ G+ LS+ Sbjct: 550 -RFGFDADKNPPYLTLALGAGNVTPLQMVGAYSVFANGGYKINPYLITKVTDSNGEVLSQ 608 Query: 623 AEPLIVGNGAPRVVSERNSYMMTSMLKSVAQGGTGARSNSIGRSDLAGKTGTTNDAVDGW 682 A+P + + RV+ RN+++M SML+ V + GT ++ S+ R+DLAGKTGTTND++D W Sbjct: 609 AKPATADDESNRVIDARNAFIMDSMLRDVVRHGTAVKALSLKRTDLAGKTGTTNDSMDAW 668 Query: 683 FAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVDYMAKALKGVPQFDLPVPEGIRF 742 FAGYQ L + W+GYDQPKSLG +E G LALP+W+ YM+KALK VP D VP+G+ Sbjct: 669 FAGYQPGLTAIAWIGYDQPKSLGDRETGGGLALPVWISYMSKALKDVPNVDRKVPDGLIE 728 Query: 743 IDGEPYYDNFTPNNGLVTNVGV 764 GE YY F P + +V ++G+ Sbjct: 729 SGGEYYYAEFPP-SAMVRDLGM 749 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 97.1 bits (240), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 59/170 (34%), Positives = 93/170 (54%), Gaps = 11/170 (6%) Query: 85 EEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTIT 144 E K + V+L+D+ +++A++A ED RFY+H GIDW +A A L S ++GASTIT Sbjct: 61 ERKLAWVRLEDVSPALRHALIASEDRRFYQHSGIDWSAVA-ASAWGNLWNSKTRGASTIT 119 Query: 145 MQVARNVF-----LTKEKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFA 199 MQ+A ++ + ++ ++K+ + +A +E KDQILE Y+N + G Sbjct: 120 MQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVH 179 Query: 200 AAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQ 249 A +R FGK + EAA+ L +AP+A P+R R IL+ Sbjct: 180 ALSRIMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVADRACAILK 224 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: 476 AWRQPGSTFKPFIYSAALEKGF-APASIVNDAPVSYPAGPGQPNWEPRD-DETPAGPITV 533 A RQ GST KPF+Y A+EK + AS+++D+PV+ G + P++ D+ G +++ Sbjct: 341 AQRQAGSTLKPFLYELAIEKKWLTAASLLDDSPVNLATSAGL--YIPQNYDKQYKGLVSL 398 Query: 534 RTALQKSVNLVAIRTLDYIGVPYAKDFITGTYGFDADKVPPY--LPMALGAGQTNPLQLS 591 RT+L S+N+ A+RTL + P GF+ + Y +ALG+ L+ Sbjct: 399 RTSLGSSLNIPAVRTLVMV-TPERFFRRLQALGFNLRESGDYYGYSLALGSADVTLANLA 457 Query: 592 AAYSVFANGGYKVQPYLISQITDAR-----GQALSKAEPLIVGNGAPRVVSERNSYMMTS 646 AY V AN G + P L +++ +AR Q + IVG+ ++S+R++ T Sbjct: 458 NAYRVLANQG-RYTP-LRTRLDEARTPARATQVMDADAAYIVGD----ILSDRSARARTF 511 Query: 647 MLKSVAQGGTGARSNSIGRSDLAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGS 706 L++ A S I A KTGT+ D D W GY VW+G + Sbjct: 512 GLEN-------ALSTRIW---TAVKTGTSKDMRDNWCVGYSTRYTVGVWVGNASGAPMWD 561 Query: 707 KEFGAQLALPIWVDYM 722 G A P+W + M Sbjct: 562 VS-GVTGAAPVWQEVM 576 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 89.4 bits (220), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 52/156 (33%), Positives = 82/156 (52%) Query: 96 IPADMKNAVLAIEDYRFYEHGGIDWIGIARALVTDVLRGSASQGASTITMQVARNVFLTK 155 I ++K A++A ED F H G+DW + +A + +G G STIT Q+A+N+FL+ Sbjct: 70 ISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLFLSG 129 Query: 156 EKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTL 215 E+++ RK E ++ +E L K +I E+Y+N + G FG AAA+ Y+ + Sbjct: 130 ERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGA 189 Query: 216 AEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQRM 251 +AA LA + P Y+ R IL+RM Sbjct: 190 EQAARLAVMLPRPRYYDRNRGSGYLAARTSLILRRM 225 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 0.317 0.135 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: 2,526,413 Number of extensions: 105203 Number of successful extensions: 331 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 321 Number of HSP's successfully gapped: 5 Length of query: 822 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 729 Effective length of database: 1,179,515 Effective search space: 859866435 Effective search space used: 859866435 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: 135 (56.6 bits)