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= 0010.0117.p (327 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... 486 e-139 gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillu... 190 1e-49 gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase... 71 1e-13 gi|300309687|ref|YP_003773779.1| transmembrane metalloendopeptid... 63 3e-11 >gi|300312264|ref|YP_003776356.1| NlpD precursor lipoprotein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 486 bits (1252), Expect = e-139, Method: Compositional matrix adjust. Identities = 278/336 (82%), Positives = 295/336 (87%), Gaps = 13/336 (3%) Query: 1 MKKIRLAVLGSVVSLLAACGSTPNQQSAPVVERTSSTAKPADAAAAPVVPAPSGRGYYTV 60 MKKIRLAVLGSVVSLLAACGSTPNQQ APVVERTSST K DAA AP PAPSGRGYYTV Sbjct: 1 MKKIRLAVLGSVVSLLAACGSTPNQQPAPVVERTSSTGKVVDAATAPAAPAPSGRGYYTV 60 Query: 61 KKGDTLYRIALDVGQNWRDIVAWNNLTNPNDIKVDQVLRVAPPDRA-GPAQTATVAAAPG 119 KKGDTLYRIAL+ GQNWRDIVAWNNLTNPNDIKVDQ LRVAPPDRA G AQTA +AA+P Sbjct: 61 KKGDTLYRIALEAGQNWRDIVAWNNLTNPNDIKVDQTLRVAPPDRAPGTAQTAAIAASPA 120 Query: 120 AGLDVKPLGAPGAAAPAAAPMASGSNKTGPRGDKRAYSESALAELEKPDAAPAAAPAAAP 179 AGL+VKPLGAPG +APAA P+ GSNKTGPRGDKR YSESALAELEKPDA +APAA+ Sbjct: 121 AGLEVKPLGAPGTSAPAA-PVPVGSNKTGPRGDKRPYSESALAELEKPDAP--SAPAASG 177 Query: 180 AAVAKP--------EAPHAADKPAAASQAPVASDDEGVTWMWPADGKVVGTFEGGKKGVD 231 +VA E PHAADKPAAA+ A+DDEGV+WMWPA+GKVVGTFEGGKKGVD Sbjct: 178 TSVASAAPSAPAKAEQPHAADKPAAAASQ-AAADDEGVSWMWPAEGKVVGTFEGGKKGVD 236 Query: 232 IAGKDGQAVLAAAGGKVMYAGSGIRGYGNLVIIKHTNNLLSAYAHNKTILVKEGQAVTKG 291 IAGK GQAVLAA GKVMYAGSGIRGYGNLVIIKHT+NLLSAYAHN+TILVKEGQ+VTKG Sbjct: 237 IAGKAGQAVLAAGAGKVMYAGSGIRGYGNLVIIKHTSNLLSAYAHNQTILVKEGQSVTKG 296 Query: 292 QKIAEMGKSDSDSVKLHFEIRQQGKPVDPSKYLPPR 327 QKIAEMGKSDSD+VKLHFEIRQQGKPVDPSKYLPPR Sbjct: 297 QKIAEMGKSDSDTVKLHFEIRQQGKPVDPSKYLPPR 332 >gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillum seropedicae SmR1] Length = 254 Score = 190 bits (483), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 123/272 (45%), Positives = 151/272 (55%), Gaps = 49/272 (18%) Query: 56 GYYTVKKGDTLYRIALDVGQNWRDIVAWNNLTNPNDIKVDQVLRVAPPDRAGPAQTATVA 115 GYYTVK+GDTLY I D Q+ ++ WN L NP+D++V Q + V PP V Sbjct: 32 GYYTVKRGDTLYSIGRDFDQSPANLRTWNRLRNPDDLEVGQRILVRPP--------VGVV 83 Query: 116 AAPGAGLDVKPLGAPGAAAPAAAPMASGSNKTGPRGDKRAYSESALAELEKPDAAPAAAP 175 A GAG AA+ + + SGS K P +P A PAA Sbjct: 84 ARTGAGQS-----PRPAASSSPSASGSGSRKPAP---------------SRPTAKPAA-- 121 Query: 176 AAAPAAVAKPEAPHAADKPAAASQAPVASDDEGVTWMWPADGKVVGTFEGGKKGVDIAGK 235 P D PA A + V W WP GK + + KKG+DI G Sbjct: 122 -----------KPQDDDAPAGA--------EAKVDWSWPTAGKSAPSADSYKKGIDIIGS 162 Query: 236 DGQAVLAAAGGKVMYAGSGIRGYGNLVIIKHTNNLLSAYAHNKTILVKEGQAVTKGQKIA 295 +GQ+V+AAA GKV YAG GIRGYGN+VIIKHT LLS YAHNKTILVKEGQ VT+GQ+IA Sbjct: 163 EGQSVVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVYAHNKTILVKEGQTVTRGQQIA 222 Query: 296 EMGKSDSDSVKLHFEIRQQGKPVDPSKYLPPR 327 MG SD++ VKL+FEIR+ GKP++ LP R Sbjct: 223 TMGNSDTNKVKLYFEIRRNGKPINVMAVLPAR 254 >gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase [Herbaspirillum seropedicae SmR1] Length = 470 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 36/101 (35%), Positives = 60/101 (59%), Gaps = 2/101 (1%) Query: 228 KGVDIAGKDGQAVLAAAGGKVMYAGSGIRGYGNLVIIKHTNNLLSAYAHNKTILVKEGQA 287 +G+ I +G V A A G+V++A +RG+GNL+I+ H N ++ Y +N+++L + G Sbjct: 371 RGLFIRAHEGAEVRAVAAGRVVFA-DWLRGFGNLIIVDHGNQYMTIYGNNQSVLKRAGDL 429 Query: 288 VTKGQKIAEMGKS-DSDSVKLHFEIRQQGKPVDPSKYLPPR 327 V G IA G S ++ L+FE+R QG+ DP ++ R Sbjct: 430 VKAGDTIATAGNSGGNEQSGLYFEMRYQGRAFDPQGWVTSR 470 >gi|300309687|ref|YP_003773779.1| transmembrane metalloendopeptidase [Herbaspirillum seropedicae SmR1] Length = 325 Score = 63.2 bits (152), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 28/68 (41%), Positives = 43/68 (63%), Gaps = 1/68 (1%) Query: 258 YGNLVIIKHTNNLLSAYAHNKTILVKEGQAVTKGQKIAEMGKS-DSDSVKLHFEIRQQGK 316 +GN++ I H NN+++ YAH + VK G V +GQ +A++G + S LHFE+R +G Sbjct: 238 FGNMLEIDHGNNIITRYAHASRLFVKVGDIVKRGQHVADVGSTGRSTGAHLHFEVRIRGI 297 Query: 317 PVDPSKYL 324 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 0.371 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: 740,233 Number of extensions: 25581 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 110 Number of HSP's successfully gapped: 4 Length of query: 327 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 242 Effective length of database: 1,217,395 Effective search space: 294609590 Effective search space used: 294609590 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: 131 (55.1 bits)