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= 0004.0042.p (436 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313678|ref|YP_003777770.1| periplasmic trypsin-like serine... 695 0.0 gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine... 402 e-113 gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine... 241 6e-65 gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirill... 95 1e-20 >gi|300313678|ref|YP_003777770.1| periplasmic trypsin-like serine endoprotease [Herbaspirillum seropedicae SmR1] Length = 494 Score = 695 bits (1794), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/433 (80%), Positives = 395/433 (91%), Gaps = 2/433 (0%) Query: 5 TDFSGIVERAGPAVVNISVTGKAKRVSDDASDDVDPNDPFSEFFKRFGPQFQQPPRTPQI 64 TDFSGIV+R GPAVVNISVTGKA++V+DD + +DPNDPFSEFFKRFGPQ Q P + P+I Sbjct: 63 TDFSGIVQRYGPAVVNISVTGKARKVADDDDNGLDPNDPFSEFFKRFGPQLQMP-QQPRI 121 Query: 65 MRGLGSGFIISPDGLILTNAHVVDGAQEVTVKLTDRREFKAKVLGADKQSDIAVIRIAAK 124 M GLGSGFIISPDGLILTNAHVVDGAQEV VKLTDRREFKAKVLG DKQSDIAVIRI AK Sbjct: 122 MHGLGSGFIISPDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRIDAK 181 Query: 125 DLPTVQIGNPALMKVGEPVLAIGSPYGFDNTATAGIVSAKSRALPDDNYVPFIQTDVAVN 184 +LPTVQIG+P+ +KVG+PVLAIGSPYGFDNTATAGI+SAKSR+LPDDNYVPFIQTDVAVN Sbjct: 182 NLPTVQIGDPSRVKVGQPVLAIGSPYGFDNTATAGIISAKSRSLPDDNYVPFIQTDVAVN 241 Query: 185 PGNSGGPLFNLKGQVVGINSQIYSQTGGYQGLSFSIPIDVAMKVEQQLVQHGKVTRGRLG 244 PGNSGGPLF+L GQV+GINSQIYSQTGG+QGLSFSIPIDVAMKVEQQLV HGKVTRGRLG Sbjct: 242 PGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMKVEQQLVTHGKVTRGRLG 301 Query: 245 VSVQEINQALAESFGLKKSEGALVSSVEKGSPAEKAGVQAGDVILRFNGQAIDHSVDLPT 304 VSVQ++NQAL++SFGLKK+EGALVSSVEKGSPA+KAG+QAGDVI+ FNG AIDHSVDLPT Sbjct: 302 VSVQDLNQALSDSFGLKKAEGALVSSVEKGSPADKAGLQAGDVIISFNGHAIDHSVDLPT 361 Query: 305 LVADTAPGTTQKIEVMRNGALKSLNITVGELKPTK-EAAASRNEPQGRLGLAVRPLDKSE 363 LVADT PG+T+ +EVMR G ++++N+TVGE+K K +A AS+++ QGRLGLAVRPLDK E Sbjct: 362 LVADTPPGSTKPMEVMRAGKVRTINVTVGEMKQAKNDAKASKSDDQGRLGLAVRPLDKDE 421 Query: 364 QQQIGVHGGLLVEDVNGPAAVAGIQSGDVILSLNGNAVTSVEQLRSLVSKAGKSVALLVE 423 Q Q+G GLLVEDV+GPAAVAGIQSGDVIL++NG V+SV QLR L + AGK+VALLVE Sbjct: 422 QAQLGGQKGLLVEDVSGPAAVAGIQSGDVILAVNGTPVSSVAQLRKLATDAGKNVALLVE 481 Query: 424 RGDDKIFVPVYLN 436 RGD+KIFVP+ LN Sbjct: 482 RGDEKIFVPLALN 494 >gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 492 Score = 402 bits (1032), Expect = e-113, Method: Compositional matrix adjust. Identities = 229/455 (50%), Positives = 306/455 (67%), Gaps = 29/455 (6%) Query: 6 DFSGIVERAGPAVVNISVTGKAKRVSDDASDDVDPNDP-FSEFFKRFG----PQFQQP-- 58 DF+ IVER GP VVNI T +RV +A +DP EFF+RF P+ QQP Sbjct: 40 DFADIVERTGPGVVNIRTT---ERVRQNAQGQGGVDDPEMQEFFRRFFGIPIPRQQQPGT 96 Query: 59 PRT----------PQIMRGLGSGFIISPDGLILTNAHVVDGAQEVTVKLTDRREFKAKVL 108 PR ++ RG+GSGFIIS DG I+TNAHVV+GA EV V LTD+REFKAK++ Sbjct: 97 PRGNGKQGGQGQQEEVPRGVGSGFIISADGFIMTNAHVVEGASEVYVTLTDKREFKAKIV 156 Query: 109 GADKQSDIAVIRIAAKDLPTVQIGNPALMKVGEPVLAIGSPYGFDNTATAGIVSAKSRAL 168 G+D ++D+AV++I +LP + +G+ ++VGE VLAIGSP+G +NT TAGIVSAK+R Sbjct: 157 GSDTRTDVAVLKIDGSNLPRLNMGDSDKIRVGEWVLAIGSPFGLENTVTAGIVSAKARDT 216 Query: 169 PDDNYVPFIQTDVAVNPGNSGGPLFNLKGQVVGINSQIYSQTGGYQGLSFSIPIDVAMKV 228 D Y+P IQTDVAVNPGNSGGPL NLKG+V+GINSQIYS++GG+ G+SF++PID A++V Sbjct: 217 GD--YLPLIQTDVAVNPGNSGGPLINLKGEVIGINSQIYSRSGGFMGISFAVPIDEALRV 274 Query: 229 EQQLVQHGKVTRGRLGVSVQEINQALAESFGLKKSEGALVSSVEKGSPAEKAGVQAGDVI 288 QL G+VTRGR+GV + E+ + +AES GL +++GALV VE G PAEKAG++AGD+I Sbjct: 275 ADQLKASGRVTRGRIGVQIGEVTKDVAESLGLARAQGALVQRVEAGGPAEKAGLEAGDII 334 Query: 289 LRFNGQAIDHSVDLPTLVADTAPGTTQKIEVMRNGALKSLNITVGEL-----KPTKEAAA 343 L++NG AI+ DLP +V T PG + + R G+ + +++TV EL K +E A Sbjct: 335 LKYNGAAIERPSDLPRMVGSTKPGAKATVSIWRKGSARDVSVTVVELEADKPKQAEEKKA 394 Query: 344 SRNEPQGRLGLAVRPLDKSEQQQIGVHGGLLVEDVNGPAAVAGIQSGDVILSLNGNAVTS 403 + LGL V L ++++++ V G+LVE V+G AA AGI+ GDVI LN V Sbjct: 395 KPDNAPNSLGLVVSDLSDAQRKELKVDNGVLVEAVSGAAAAAGIRPGDVIQRLNEVDVKD 454 Query: 404 VEQLRSLVSK--AGKSVALLVERGDDKIFVPVYLN 436 +Q LVSK A K A+LV RGD FVP+ N Sbjct: 455 AKQFAQLVSKLDAKKRAAVLVRRGDSSQFVPLRPN 489 >gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 393 Score = 241 bits (616), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 136/327 (41%), Positives = 198/327 (60%), Gaps = 9/327 (2%) Query: 12 ERAGPAVVNISVTGKAKRVSDDASDDVDPNDPFSEFFKRFGPQFQQPPRTPQIMRGLGSG 71 +A P+VVNI T +A+ NDPF F++F + LGSG Sbjct: 65 RQAMPSVVNIFTTTEARPQKSPFQ-----NDPF---FRKFFGDQFDEQQQDDKQSSLGSG 116 Query: 72 FIISPDGLILTNAHVVDGAQEVTVKLTDRREFKAKVLGADKQSDIAVIRIAAKDLPTVQI 131 I+SP G ILTN HVV+ A ++ V L D R+ AKV+G D ++D+AVI+I +LP + + Sbjct: 117 VIVSPQGYILTNNHVVEAADKIEVALADGRKASAKVVGIDPETDLAVIKIDLPNLPAITL 176 Query: 132 GNPALMKVGEPVLAIGSPYGFDNTATAGIVSAKSR-ALPDDNYVPFIQTDVAVNPGNSGG 190 G+P VG+ VLAIG+P+G T T GIVSA R L + + FIQTD A+NPGNSGG Sbjct: 177 GHPENSSVGDVVLAIGNPFGVGQTVTMGIVSALGRNHLGINTFENFIQTDAAINPGNSGG 236 Query: 191 PLFNLKGQVVGINSQIYSQTGGYQGLSFSIPIDVAMKVEQQLVQHGKVTRGRLGVSVQEI 250 L + G ++GIN+ IYS+TGG G+ F+IP+ A V + ++ HG+V RG +GV Q+I Sbjct: 237 ALVDTNGNLLGINTAIYSRTGGNLGIGFAIPMSTAKTVMEAIISHGQVVRGWIGVEPQDI 296 Query: 251 NQALAESFGLKKSEGALVSSVEKGSPAEKAGVQAGDVILRFNGQAIDHSVDLPTLVADTA 310 LAESFGL K GA+++ V KG PA++AG++ GD+++ + + + + ++ ++A Sbjct: 297 TPELAESFGLGKKTGAIIAGVLKGGPADRAGMRPGDILVSIDDKPVADTTEMLNVIAQLT 356 Query: 311 PGTTQKIEVMRNGALKSLNITVGELKP 337 PG + V+R LNITVG+ P Sbjct: 357 PGQQIAMTVLRKSQETKLNITVGKRPP 383 >gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirillum seropedicae SmR1] Length = 438 Score = 94.7 bits (234), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 70/173 (40%), Positives = 98/173 (56%), Gaps = 15/173 (8%) Query: 69 GSGFIISPDGLILTNAHVVDGAQEVTVKLTDRREFKAKVLGADKQSDIAVIRI---AAKD 125 G+GF I G +L+N HVV A+ V V+L RE A+VL D D+A+++ + Sbjct: 271 GTGFYIGQSGWLLSNQHVVGTARSVRVRLPGGRELPAEVLRVDAARDVALLKTEPPGVRP 330 Query: 126 LPTVQIGNPALMKVGEPVLAIGSPYG--FDNTATAGIVSAKSRALPDDNYVPFIQTDVAV 183 LP +++ P L GE V A+GSP G F+ T T GI+S R L N F+Q+DVA+ Sbjct: 331 LP-LRLDEPGL---GEDVYALGSPLGDTFNTTLTRGILSG-VRLL---NGQEFLQSDVAI 382 Query: 184 NPGNSGGPLFNLKGQVVGINSQIYSQTGGYQGLSFSIPIDVAM-KVEQQLVQH 235 PG+SGGPL + GQVVGI G G++F IP+ A+ ++ QL Q Sbjct: 383 LPGSSGGPLLDRSGQVVGITVAGLGAR-GMAGMNFFIPLASAVERLNLQLQQR 434 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 0.314 0.134 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: 1,367,434 Number of extensions: 58439 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 4 Length of query: 436 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 348 Effective length of database: 1,203,190 Effective search space: 418710120 Effective search space used: 418710120 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 (21.9 bits) S2: 132 (55.5 bits)