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= 0007.0127.p (413 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... 756 0.0 gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl... 466 e-132 gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [H... 100 4e-22 gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic pep... 91 1e-19 >gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 822 Score = 756 bits (1952), Expect = 0.0, Method: Compositional matrix adjust. Identities = 385/405 (95%), Positives = 394/405 (97%), Gaps = 5/405 (1%) Query: 1 MPFSSLP-----DLRRQRGFLNPNIAKFIGLSILGLGVAAALLVVYALIFINPRLPSLDL 55 MP +LP L RQRGFLNPNIAKFIGLSILGLGVA ALLVVYALIFINPRLPSL+L Sbjct: 1 MPLPTLPRPHSRPLTRQRGFLNPNIAKFIGLSILGLGVAGALLVVYALIFINPRLPSLEL 60 Query: 56 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKLEDIPADMKNAVLAIEDYRFYEHGGIDW 115 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKL+DIPADMKNAVLAIEDYRFYEHGGIDW Sbjct: 61 ITDYRPKVPLRIWSEDKVLLGEFGEEKRSLVKLDDIPADMKNAVLAIEDYRFYEHGGIDW 120 Query: 116 IGIARALATDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ 175 IGIARAL TDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ Sbjct: 121 IGIARALVTDVLRGSASQGASTITMQVARNVFLTKEKTFSRKLYEVLLANKIEHALTKDQ 180 Query: 176 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDISLAEAAMLAGLPKAPSAYNPIVNPKRA 235 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKD++LAEAAMLAGLPKAPSAYNPIVNPKRA Sbjct: 181 ILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDVTLAEAAMLAGLPKAPSAYNPIVNPKRA 240 Query: 236 HIRQQYILQRMMEVGFITKAQYEKAAKEELKVRAPGSQYSIHAEYVNEMVRQMVYAQYKE 295 HIRQQYILQRM++VGFITKAQYEKAAKEELKVRAPGSQY+IHAEYVNEMVRQMVYAQYKE Sbjct: 241 HIRQQYILQRMLDVGFITKAQYEKAAKEELKVRAPGSQYNIHAEYVNEMVRQMVYAQYKE 300 Query: 296 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANADDRAAAIDD 355 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANA+DRAAAIDD Sbjct: 301 DTYTQGFNVYTTVNAADQQAAYLAVRKGVMDYDRRHGYRGPEETIELPANAEDRAAAIDD 360 Query: 356 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVA 400 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVA Sbjct: 361 VMDDHPDNDDILAAVVVAASPKQIDAVLRSGDKISIKGEALRFVA 405 >gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidoglycan synthetase) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 771 Score = 466 bits (1200), Expect = e-132, Method: Compositional matrix adjust. Identities = 233/382 (60%), Positives = 294/382 (76%), Gaps = 10/382 (2%) Query: 27 SILGLGVAAALLVVYALIFINPRLPSLDLITDYRPKVPLRIWSEDKVLLGEFGEEKRSLV 86 +I GL V L V + + P+LP LD +TDYRPK+PLRI+S D VL+GEFGEE+R+LV Sbjct: 14 TIFGLAVMVLLGVTFIVALTYPKLPDLDTLTDYRPKIPLRIFSADGVLIGEFGEERRNLV 73 Query: 87 KLEDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALATDVLRGSASQGASTITMQVARNV 146 +DIP MK AVLAIED RFYEHGG+D+ GIARA +++ G GASTIT QVARN Sbjct: 74 HFKDIPEIMKKAVLAIEDDRFYEHGGVDYQGIARATFSNLSGGGG--GASTITQQVARNF 131 Query: 147 FLT-KEKTFSRK-----LYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTY 200 FLT E TF +K YE+ LA KIE+ LTKDQILEVYMNQIYLGQRA+GFA+AA+ Y Sbjct: 132 FLTSNEPTFLQKATRKFFYEIPLAWKIENNLTKDQILEVYMNQIYLGQRAYGFASAAQIY 191 Query: 201 FGKDLKDISLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQRMMEVGFITKAQYEKA 260 FGK LKD+++AEAAMLAGLPKAPSAYNP+VNPKRAH RQQYIL RM ++G+IT AQY+ A Sbjct: 192 FGKQLKDLTIAEAAMLAGLPKAPSAYNPVVNPKRAHARQQYILLRMRQLGYITDAQYQAA 251 Query: 261 AKEELKVRAPGSQYSIHAEYVNEMVRQMVYAQYKEDTYTQGFNVYTTVNAADQQAAYLAV 320 EEL+V+ S + +HAEYV EM RQ+VYAQYK++TYT+G NV+TT+ DQ AAY+A+ Sbjct: 252 KDEELRVKGDSSAFGMHAEYVAEMARQLVYAQYKDETYTRGLNVFTTITKTDQDAAYIAL 311 Query: 321 RKGVMDYDRRHGYRGPEETIELPANADDRAA--AIDDVMDDHPDNDDILAAVVVAASPKQ 378 R+G++DY+RRHGYRGPE ++LP NA A A++ + DHPD+DD+++AVV+ A PK+ Sbjct: 312 RRGIIDYERRHGYRGPEGYMDLPENATKDAVEDAVEVELADHPDSDDMVSAVVLEAKPKE 371 Query: 379 IDAVLRSGDKISIKGEALRFVA 400 I A+L +G++ISI G L F A Sbjct: 372 ITAMLSTGEEISISGAGLGFGA 393 >gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein [Herbaspirillum seropedicae SmR1] Length = 753 Score = 99.8 bits (247), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 61/170 (35%), Positives = 94/170 (55%), Gaps = 11/170 (6%) Query: 80 EEKRSLVKLEDIPADMKNAVLAIEDYRFYEHGGIDWIGIARALATDVLRGSASQGASTIT 139 E K + V+LED+ +++A++A ED RFY+H GIDW +A A A L S ++GASTIT Sbjct: 61 ERKLAWVRLEDVSPALRHALIASEDRRFYQHSGIDWSAVA-ASAWGNLWNSKTRGASTIT 119 Query: 140 MQVARNVF-----LTKEKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFA 194 MQ+A ++ + ++ ++K+ + +A +E KDQILE Y+N + G Sbjct: 120 MQLAGLIYDDLRRKSGARSLTQKVSQAWIAQSLERNWRKDQILEAYLNLVAFRGELVGVH 179 Query: 195 AAARTYFGKDLKDISLAEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQ 244 A +R FGK + EAA+ L +AP+A P+R R IL+ Sbjct: 180 ALSRIMFGKHPSGLDQGEAAIAVALIRAPNA-----TPRRVADRACAILK 224 >gi|300309743|ref|YP_003773835.1| monofunctional biosynthetic peptidoglycan transglycosylase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 91.3 bits (225), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 52/156 (33%), Positives = 82/156 (52%) Query: 91 IPADMKNAVLAIEDYRFYEHGGIDWIGIARALATDVLRGSASQGASTITMQVARNVFLTK 150 I ++K A++A ED F H G+DW + +A + +G G STIT Q+A+N+FL+ Sbjct: 70 ISNNLKRAIIASEDSNFSSHDGVDWEALQKAYEKNEKKGKVVAGGSTITQQLAKNLFLSG 129 Query: 151 EKTFSRKLYEVLLANKIEHALTKDQILEVYMNQIYLGQRAFGFAAAARTYFGKDLKDISL 210 E+++ RK E ++ +E L K +I E+Y+N + G FG AAA+ Y+ + Sbjct: 130 ERSYLRKGQEFIITYMLEFLLDKQRIFEIYLNVVEWGNGVFGAEAAAQHYYRIPAASLGA 189 Query: 211 AEAAMLAGLPKAPSAYNPIVNPKRAHIRQQYILQRM 246 +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 0.320 0.137 0.396 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: 1,077,850 Number of extensions: 36591 Number of successful extensions: 123 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 118 Number of HSP's successfully gapped: 4 Length of query: 413 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 325 Effective length of database: 1,203,190 Effective search space: 391036750 Effective search space used: 391036750 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 132 (55.5 bits)