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= 0001.4263.p (494 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... 904 0.0 gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine... 407 e-115 gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine... 259 5e-70 gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirill... 97 4e-21 gi|300312039|ref|YP_003776131.1| trypsin family periplasmic seri... 59 8e-10 >gi|300313678|ref|YP_003777770.1| periplasmic trypsin-like serine endoprotease [Herbaspirillum seropedicae SmR1] Length = 494 Score = 904 bits (2335), Expect = 0.0, Method: Compositional matrix adjust. Identities = 469/494 (94%), Positives = 485/494 (98%) Query: 1 MSRRIIFVRNTLAVMIAAVVGGSYVYFRGADLPSAHAAALNAPLVASNSAPTAPAGPVVA 60 MSRRI+FVRNTLAVMIAAVVGGSYVYFRGADLPSAHAAA+NAPLVASNSAP APAGPVVA Sbjct: 1 MSRRIVFVRNTLAVMIAAVVGGSYVYFRGADLPSAHAAAVNAPLVASNSAPAAPAGPVVA 60 Query: 61 AATDFSGIVQRYGPAVVNISVTGKARKVADDDDNGMDPNDPFFEFFKHFGPQLQMPQQPR 120 AATDFSGIVQRYGPAVVNISVTGKARKVADDDDNG+DPNDPF EFFK FGPQLQMPQQPR Sbjct: 61 AATDFSGIVQRYGPAVVNISVTGKARKVADDDDNGLDPNDPFSEFFKRFGPQLQMPQQPR 120 Query: 121 IMHGLGSGFIISSDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRIDA 180 IMHGLGSGFIIS DGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRIDA Sbjct: 121 IMHGLGSGFIISPDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRIDA 180 Query: 181 KNLPTVQIGDPSKVKVGQPVLAIGSPYGFDNTATAGIVSAKSRSLPDDNYVPFIQTDVAV 240 KNLPTVQIGDPS+VKVGQPVLAIGSPYGFDNTATAGI+SAKSRSLPDDNYVPFIQTDVAV Sbjct: 181 KNLPTVQIGDPSRVKVGQPVLAIGSPYGFDNTATAGIISAKSRSLPDDNYVPFIQTDVAV 240 Query: 241 NPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMKVEQQLVTHGKVTRGRL 300 NPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMKVEQQLVTHGKVTRGRL Sbjct: 241 NPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMKVEQQLVTHGKVTRGRL 300 Query: 301 GVSVQDLNQALSESFGLKKAEGALVSSVEKGSPADKAGLEAGDVILSFDGHAIDHSVDLP 360 GVSVQDLNQALS+SFGLKKAEGALVSSVEKGSPADKAGL+AGDVI+SF+GHAIDHSVDLP Sbjct: 301 GVSVQDLNQALSDSFGLKKAEGALVSSVEKGSPADKAGLQAGDVIISFNGHAIDHSVDLP 360 Query: 361 TLVGDTAPGSTKPMQVMRAGKVRTINVTVGEMKQAKSDAKTGKSDDQGRLGLAVRPLNKD 420 TLV DT PGSTKPM+VMRAGKVRTINVTVGEMKQAK+DAK KSDDQGRLGLAVRPL+KD Sbjct: 361 TLVADTPPGSTKPMEVMRAGKVRTINVTVGEMKQAKNDAKASKSDDQGRLGLAVRPLDKD 420 Query: 421 EQAQLGGQKGLLVEDASGPAAVAGIQSGDVILALNGTPVTSVAQLRKLASEAGKNVALLV 480 EQAQLGGQKGLLVED SGPAAVAGIQSGDVILA+NGTPV+SVAQLRKLA++AGKNVALLV Sbjct: 421 EQAQLGGQKGLLVEDVSGPAAVAGIQSGDVILAVNGTPVSSVAQLRKLATDAGKNVALLV 480 Query: 481 ERGDEKIFVPLALN 494 ERGDEKIFVPLALN Sbjct: 481 ERGDEKIFVPLALN 494 >gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 492 Score = 407 bits (1047), Expect = e-115, Method: Compositional matrix adjust. Identities = 232/461 (50%), Positives = 304/461 (65%), Gaps = 27/461 (5%) Query: 57 PVVAAATDFSGIVQRYGPAVVNISVTGKARKVADDDDNGMDPNDPFFEFFKHFG----PQ 112 P VAA DF+ IV+R GP VVNI T + R+ A DP EFF+ F P+ Sbjct: 33 PAVAALPDFADIVERTGPGVVNIRTTERVRQNAQGQGGVDDPE--MQEFFRRFFGIPIPR 90 Query: 113 LQMPQQPR-------------IMHGLGSGFIISSDGLILTNAHVVDGAQEVVVKLTDRRE 159 Q P PR + G+GSGFIIS+DG I+TNAHVV+GA EV V LTD+RE Sbjct: 91 QQQPGTPRGNGKQGGQGQQEEVPRGVGSGFIISADGFIMTNAHVVEGASEVYVTLTDKRE 150 Query: 160 FKAKVLGIDKQSDIAVIRIDAKNLPTVQIGDPSKVKVGQPVLAIGSPYGFDNTATAGIVS 219 FKAK++G D ++D+AV++ID NLP + +GD K++VG+ VLAIGSP+G +NT TAGIVS Sbjct: 151 FKAKIVGSDTRTDVAVLKIDGSNLPRLNMGDSDKIRVGEWVLAIGSPFGLENTVTAGIVS 210 Query: 220 AKSRSLPDDNYVPFIQTDVAVNPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPI 279 AK+R D Y+P IQTDVAVNPGNSGGPL +L G+VIGINSQIYS++GGF G+SF++PI Sbjct: 211 AKARDTGD--YLPLIQTDVAVNPGNSGGPLINLKGEVIGINSQIYSRSGGFMGISFAVPI 268 Query: 280 DVAMKVEQQLVTHGKVTRGRLGVSVQDLNQALSESFGLKKAEGALVSSVEKGSPADKAGL 339 D A++V QL G+VTRGR+GV + ++ + ++ES GL +A+GALV VE G PA+KAGL Sbjct: 269 DEALRVADQLKASGRVTRGRIGVQIGEVTKDVAESLGLARAQGALVQRVEAGGPAEKAGL 328 Query: 340 EAGDVILSFDGHAIDHSVDLPTLVGDTAPGSTKPMQVMRAGKVRTINVTVGEM---KQAK 396 EAGD+IL ++G AI+ DLP +VG T PG+ + + R G R ++VTV E+ K + Sbjct: 329 EAGDIILKYNGAAIERPSDLPRMVGSTKPGAKATVSIWRKGSARDVSVTVVELEADKPKQ 388 Query: 397 SDAKTGKSDDQ-GRLGLAVRPLNKDEQAQLGGQKGLLVEDASGPAAVAGIQSGDVILALN 455 ++ K K D+ LGL V L+ ++ +L G+LVE SG AA AGI+ GDVI LN Sbjct: 389 AEEKKAKPDNAPNSLGLVVSDLSDAQRKELKVDNGVLVEAVSGAAAAAGIRPGDVIQRLN 448 Query: 456 GTPVTSVAQLRKLAS--EAGKNVALLVERGDEKIFVPLALN 494 V Q +L S +A K A+LV RGD FVPL N Sbjct: 449 EVDVKDAKQFAQLVSKLDAKKRAAVLVRRGDSSQFVPLRPN 489 >gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 393 Score = 259 bits (661), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 147/338 (43%), Positives = 204/338 (60%), Gaps = 8/338 (2%) Query: 55 AGPVVAAATDFSGIVQRYGPAVVNISVTGKARKVADDDDNGMDPNDPFFEFFKHFGPQLQ 114 A P A + ++ P+VVNI T +AR N DPFF K FG Q Sbjct: 50 ATPNAPALDSYRHAARQAMPSVVNIFTTTEARPQKSPFQN-----DPFFR--KFFGDQFD 102 Query: 115 MPQQPRIMHGLGSGFIISSDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIA 174 QQ LGSG I+S G ILTN HVV+ A ++ V L D R+ AKV+GID ++D+A Sbjct: 103 EQQQDDKQSSLGSGVIVSPQGYILTNNHVVEAADKIEVALADGRKASAKVVGIDPETDLA 162 Query: 175 VIRIDAKNLPTVQIGDPSKVKVGQPVLAIGSPYGFDNTATAGIVSAKSRS-LPDDNYVPF 233 VI+ID NLP + +G P VG VLAIG+P+G T T GIVSA R+ L + + F Sbjct: 163 VIKIDLPNLPAITLGHPENSSVGDVVLAIGNPFGVGQTVTMGIVSALGRNHLGINTFENF 222 Query: 234 IQTDVAVNPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMKVEQQLVTHG 293 IQTD A+NPGNSGG L D NG ++GIN+ IYS+TGG G+ F+IP+ A V + +++HG Sbjct: 223 IQTDAAINPGNSGGALVDTNGNLLGINTAIYSRTGGNLGIGFAIPMSTAKTVMEAIISHG 282 Query: 294 KVTRGRLGVSVQDLNQALSESFGLKKAEGALVSSVEKGSPADKAGLEAGDVILSFDGHAI 353 +V RG +GV QD+ L+ESFGL K GA+++ V KG PAD+AG+ GD+++S D + Sbjct: 283 QVVRGWIGVEPQDITPELAESFGLGKKTGAIIAGVLKGGPADRAGMRPGDILVSIDDKPV 342 Query: 354 DHSVDLPTLVGDTAPGSTKPMQVMRAGKVRTINVTVGE 391 + ++ ++ PG M V+R + +N+TVG+ Sbjct: 343 ADTTEMLNVIAQLTPGQQIAMTVLRKSQETKLNITVGK 380 >gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirillum seropedicae SmR1] Length = 438 Score = 96.7 bits (239), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 65/164 (39%), Positives = 98/164 (59%), Gaps = 14/164 (8%) Query: 126 GSGFIISSDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRID---AKN 182 G+GF I G +L+N HVV A+ V V+L RE A+VL +D D+A+++ + + Sbjct: 271 GTGFYIGQSGWLLSNQHVVGTARSVRVRLPGGRELPAEVLRVDAARDVALLKTEPPGVRP 330 Query: 183 LPTVQIGDPSKVKVGQPVLAIGSPYG--FDNTATAGIVSAKSRSLPDDNYVPFIQTDVAV 240 LP +++ +P +G+ V A+GSP G F+ T T GI+S R L N F+Q+DVA+ Sbjct: 331 LP-LRLDEPG---LGEDVYALGSPLGDTFNTTLTRGILSG-VRLL---NGQEFLQSDVAI 382 Query: 241 NPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAMK 284 PG+SGGPL D +GQV+GI G G++F IP+ A++ Sbjct: 383 LPGSSGGPLLDRSGQVVGITVAGLGAR-GMAGMNFFIPLASAVE 425 >gi|300312039|ref|YP_003776131.1| trypsin family periplasmic serine protease [Herbaspirillum seropedicae SmR1] Length = 256 Score = 58.9 bits (141), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 54/205 (26%), Positives = 93/205 (45%), Gaps = 42/205 (20%) Query: 125 LGSGFIISSDGLILTNAHVV------------DGAQEVVVKLTDRREFKAKVLGIDKQSD 172 +G+GF++ ++TNAHVV D + +V + + +A +L +D+ D Sbjct: 54 VGTGFVVGDGLTVVTNAHVVAAASGEERKDSKDNLRVLVARGANVEAREAALLVMDRLHD 113 Query: 173 IAVIRIDAKNLPTVQIGDPSKVKVGQPVLAIGSP----YGFDNTATAGIVSA-------- 220 +A++R+ P +++GD + GQ + G P GF ++SA Sbjct: 114 LALLRLSGAPEPALRVGDSDSAREGQMLAFTGFPLTAILGFHPVTHRAMISAITVVATPA 173 Query: 221 -KSRSLPDDNYV-------PFIQTDVAVNPGNSGGPLFD-LNGQVIGINSQIYSQT---- 267 +RSL V P Q D PG SG PL+D +G V+G+ +++ + T Sbjct: 174 PNARSLDAKAIVQLQRSAYPVFQLDGTAYPGFSGSPLYDPESGVVLGVINKVLNATKESA 233 Query: 268 -GGFQGLSFSIPIDVAMKVEQQLVT 291 G++++IP K QQL+T Sbjct: 234 ISAPSGITYAIP----AKFVQQLMT 254 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 0.315 0.134 0.375 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: 1,436,013 Number of extensions: 60638 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 216 Number of HSP's successfully gapped: 5 Length of query: 494 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 405 Effective length of database: 1,198,455 Effective search space: 485374275 Effective search space used: 485374275 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 (21.5 bits) S2: 132 (55.5 bits)