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= 0001.2933.p (321 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312264|ref|YP_003776356.1| NlpD precursor lipoprotein [Her... 485 e-138 gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillu... 201 7e-53 gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase... 72 8e-14 gi|300309687|ref|YP_003773779.1| transmembrane metalloendopeptid... 63 4e-11 >gi|300312264|ref|YP_003776356.1| NlpD precursor lipoprotein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 485 bits (1249), Expect = e-138, Method: Compositional matrix adjust. Identities = 271/333 (81%), Positives = 287/333 (86%), Gaps = 13/333 (3%) Query: 1 MKKIRLAVLCSVVSLLAACGSTPNQQPAPVVERTTSTVKPVDTAAAPAAPVPSGRGYYTV 60 MKKIRLAVL SVVSLLAACGSTPNQQPAPVVERT+ST K VD A APAAP PSGRGYYTV Sbjct: 1 MKKIRLAVLGSVVSLLAACGSTPNQQPAPVVERTSSTGKVVDAATAPAAPAPSGRGYYTV 60 Query: 61 KKGDTLYRIALDVGQNWRDIVAWNNLTNPNDIKVDQVLRVAPPDRV-GPAQTAAVVATPG 119 KKGDTLYRIAL+ GQNWRDIVAWNNLTNPNDIKVDQ LRVAPPDR G AQTAA+ A+P Sbjct: 61 KKGDTLYRIALEAGQNWRDIVAWNNLTNPNDIKVDQTLRVAPPDRAPGTAQTAAIAASPA 120 Query: 120 AGLDVKPLGAPGAAAPAAAPMASGNNKTGPRGDKRAYSESALAELEKPDAAAAPAPAAKP 179 AGL+VKPLGAPG +APAA P+ G+NKTGPRGDKR YSESALAELEKPDA +APA + Sbjct: 121 AGLEVKPLGAPGTSAPAA-PVPVGSNKTGPRGDKRPYSESALAELEKPDAPSAPAASGTS 179 Query: 180 EPSHAAEKPAAASQP-----------AASGEDEGVSWMWPAEGKVVGTFEGGKKGVDIAG 228 S A PA A QP A+ +DEGVSWMWPAEGKVVGTFEGGKKGVDIAG Sbjct: 180 VASAAPSAPAKAEQPHAADKPAAAASQAAADDEGVSWMWPAEGKVVGTFEGGKKGVDIAG 239 Query: 229 KDGQAVLAAASGKVMYAGSGIRGYGNLVIIKHTNNLLSAYAHNKTILVKEGQSVTKGQKI 288 K GQAVLAA +GKVMYAGSGIRGYGNLVIIKHT+NLLSAYAHN+TILVKEGQSVTKGQKI Sbjct: 240 KAGQAVLAAGAGKVMYAGSGIRGYGNLVIIKHTSNLLSAYAHNQTILVKEGQSVTKGQKI 299 Query: 289 AEMGKSDSDSVKLHFEIRQQGKPVDPSKYLPPR 321 AEMGKSDSD+VKLHFEIRQQGKPVDPSKYLPPR Sbjct: 300 AEMGKSDSDTVKLHFEIRQQGKPVDPSKYLPPR 332 >gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillum seropedicae SmR1] Length = 254 Score = 201 bits (511), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 119/268 (44%), Positives = 151/268 (56%), Gaps = 47/268 (17%) Query: 56 GYYTVKKGDTLYRIALDVGQNWRDIVAWNNLTNPNDIKVDQVLRVAPPDRVGPAQTAAVV 115 GYYTVK+GDTLY I D Q+ ++ WN L NP+D++V Q + V PP VV Sbjct: 32 GYYTVKRGDTLYSIGRDFDQSPANLRTWNRLRNPDDLEVGQRILVRPP--------VGVV 83 Query: 116 ATPGAGLDVKPLGAPGAAAPAAAPMASGNNKTGPRGDKRAYSESALAELEKPDAAAAPAP 175 A GAG + +A+ + Sbjct: 84 ARTGAG-------------------------------------QSPRPAASSSPSASGSG 106 Query: 176 AAKPEPSHAAEKPAAASQ--PAASGEDEGVSWMWPAEGKVVGTFEGGKKGVDIAGKDGQA 233 + KP PS KPAA Q A +G + V W WP GK + + KKG+DI G +GQ+ Sbjct: 107 SRKPAPSRPTAKPAAKPQDDDAPAGAEAKVDWSWPTAGKSAPSADSYKKGIDIIGSEGQS 166 Query: 234 VLAAASGKVMYAGSGIRGYGNLVIIKHTNNLLSAYAHNKTILVKEGQSVTKGQKIAEMGK 293 V+AAA+GKV YAG GIRGYGN+VIIKHT LLS YAHNKTILVKEGQ+VT+GQ+IA MG Sbjct: 167 VVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVYAHNKTILVKEGQTVTRGQQIATMGN 226 Query: 294 SDSDSVKLHFEIRQQGKPVDPSKYLPPR 321 SD++ VKL+FEIR+ GKP++ LP R Sbjct: 227 SDTNKVKLYFEIRRNGKPINVMAVLPAR 254 >gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase [Herbaspirillum seropedicae SmR1] Length = 470 Score = 71.6 bits (174), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 68/121 (56%), Gaps = 8/121 (6%) Query: 208 PAEGKVVGTFEGGK------KGVDIAGKDGQAVLAAASGKVMYAGSGIRGYGNLVIIKHT 261 P +G ++ F + +G+ I +G V A A+G+V++A +RG+GNL+I+ H Sbjct: 351 PVKGDLMAKFGSRRGDGPTSRGLFIRAHEGAEVRAVAAGRVVFA-DWLRGFGNLIIVDHG 409 Query: 262 NNLLSAYAHNKTILVKEGQSVTKGQKIAEMGKS-DSDSVKLHFEIRQQGKPVDPSKYLPP 320 N ++ Y +N+++L + G V G IA G S ++ L+FE+R QG+ DP ++ Sbjct: 410 NQYMTIYGNNQSVLKRAGDLVKAGDTIATAGNSGGNEQSGLYFEMRYQGRAFDPQGWVTS 469 Query: 321 R 321 R Sbjct: 470 R 470 >gi|300309687|ref|YP_003773779.1| transmembrane metalloendopeptidase [Herbaspirillum seropedicae SmR1] Length = 325 Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 28/68 (41%), Positives = 43/68 (63%), Gaps = 1/68 (1%) Query: 252 YGNLVIIKHTNNLLSAYAHNKTILVKEGQSVTKGQKIAEMGKS-DSDSVKLHFEIRQQGK 310 +GN++ I H NN+++ YAH + VK G V +GQ +A++G + S LHFE+R +G Sbjct: 238 FGNMLEIDHGNNIITRYAHASRLFVKVGDIVKRGQHVADVGSTGRSTGAHLHFEVRIRGI 297 Query: 311 PVDPSKYL 318 DP K+L Sbjct: 298 AQDPRKFL 305 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 0.310 0.128 0.374 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: 848,626 Number of extensions: 32692 Number of successful extensions: 163 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 5 Length of query: 321 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 236 Effective length of database: 1,217,395 Effective search space: 287305220 Effective search space used: 287305220 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 130 (54.7 bits)