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= 0004.0030.p (643 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirill... 546 e-156 gi|300310486|ref|YP_003774578.1| major facilitator superfamily p... 226 5e-60 gi|300313678|ref|YP_003777770.1| periplasmic trypsin-like serine... 103 4e-23 gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine... 99 1e-21 gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine... 87 4e-18 >gi|300310487|ref|YP_003774579.1| serine proteinase [Herbaspirillum seropedicae SmR1] Length = 438 Score = 546 bits (1408), Expect = e-156, Method: Compositional matrix adjust. Identities = 284/444 (63%), Positives = 342/444 (77%), Gaps = 17/444 (3%) Query: 210 MPAVEDKTPLLMPPQAAARPAYLARAQRRFEQGSQGNQIIGQLQGGLFCTRRNEIVWNQN 269 MP VE + PL+MP AAARP+YLAR QRR+EQG NQ IG+LQ GLFC+R+++I W Sbjct: 1 MPPVEIRQPLVMPATAAARPSYLARIQRRYEQG---NQPIGELQNGLFCSRKSDIYWTAK 57 Query: 270 SAEVMLPTNALFLRFRSELQQHGYPVPASPAEPLFREQ--DAAQERARPADFNLQVGVII 327 +E +LPT + RFRSELQ+HGYP+P PLF+E+ DA +A + +LQVGVI+ Sbjct: 58 GSEALLPTGVMLARFRSELQKHGYPLPGPKEAPLFQEKPDDATPSQA---EQSLQVGVIV 114 Query: 328 SQFQTNLCAKGGESWTGEAYLRLEWQVFAPEQRKVIYRGMSEGVFRSRERSLDGSVPPIP 387 +Q TNLC KG SWTGEAYLRLEWQVFAP+QRKVI++ +SEGVF+SR+ SL+G+ PPI Sbjct: 115 AQVLTNLCLKGNASWTGEAYLRLEWQVFAPDQRKVIFKTVSEGVFQSRQASLEGAAPPIV 174 Query: 388 MEAFGAAVRNLLADPRFALALQSPYD--------SVAAAAIGGAGSDVARAPEAMPA-GS 438 EAF VRNLLADP FALALQ+PYD S+ + A A P G Sbjct: 175 AEAFSVGVRNLLADPAFALALQTPYDRAAAAANASILPPSQPAAPGAGAGGAVNKPVPGL 234 Query: 439 PLAIDNQPAERGNGEIARVMPELRSAVVTVLTERGSGTGFYIGSSGWLLTNQHVIGQARA 498 ++IDN PA + GE+++V+ +LR VVTVLTE SGTGFYIG SGWLL+NQHV+G AR+ Sbjct: 235 AVSIDNLPAAQPGGEMSKVIGQLRQGVVTVLTEGRSGTGFYIGQSGWLLSNQHVVGTARS 294 Query: 499 VRVRLPTGRELLAEVVRVDAARDIALLKTEAPGVRPMPLRMGEPGIGEDVYALGSPLGDA 558 VRVRLP GREL AEV+RVDAARD+ALLKTE PGVRP+PLR+ EPG+GEDVYALGSPLGD Sbjct: 295 VRVRLPGGRELPAEVLRVDAARDVALLKTEPPGVRPLPLRLDEPGLGEDVYALGSPLGDT 354 Query: 559 FNTTLTRGILSGVRKVRDLDFLQSDVAILPGSSGGPLLDKSGQVIGITVAGLGAKGLAGM 618 FNTTLTRGILSGVR + +FLQSDVAILPGSSGGPLLD+SGQV+GITVAGLGA+G+AGM Sbjct: 355 FNTTLTRGILSGVRLLNGQEFLQSDVAILPGSSGGPLLDRSGQVVGITVAGLGARGMAGM 414 Query: 619 NFFIPVGSAIERLQLQLQNRDQRK 642 NFFIP+ SA+ERL LQLQ R ++ Sbjct: 415 NFFIPLASAVERLNLQLQQRPPKR 438 >gi|300310486|ref|YP_003774578.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 430 Score = 226 bits (576), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 121/124 (97%), Positives = 121/124 (97%) Query: 1 MNKLTQSLANAVTPRFHYAWVVVGVIFLVLLCSAGIRATPSVMILPLEQEFGWNRSTISV 60 M K TQSLANAVTPRFHYAWVVVGVIFLVLLCSAGIRATPSVMILPLEQEFGWNRSTISV Sbjct: 1 MTKFTQSLANAVTPRFHYAWVVVGVIFLVLLCSAGIRATPSVMILPLEQEFGWNRSTISV 60 Query: 61 VISVNIALYGLIGPFSAAAMQRFGIRRVVLGALVLLASGTALSTLMHMPWHMLLSWGLLV 120 VISVNIALYGLIGPFSAAAMQRFGIRRVVL ALVLLASGTALSTLMHMPWHMLLSWGLLV Sbjct: 61 VISVNIALYGLIGPFSAAAMQRFGIRRVVLAALVLLASGTALSTLMHMPWHMLLSWGLLV 120 Query: 121 GAGT 124 GAGT Sbjct: 121 GAGT 124 >gi|300313678|ref|YP_003777770.1| periplasmic trypsin-like serine endoprotease [Herbaspirillum seropedicae SmR1] Length = 494 Score = 103 bits (257), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 68/173 (39%), Positives = 104/173 (60%), Gaps = 15/173 (8%) Query: 472 RGSGTGFYIGSSGWLLTNQHVIGQARAVRVRLPTGRELLAEVVRVDAARDIALLKTEAPG 531 G G+GF I G +LTN HV+ A+ V V+L RE A+V+ +D DIA+++ +A Sbjct: 123 HGLGSGFIISPDGLILTNAHVVDGAQEVVVKLTDRREFKAKVLGIDKQSDIAVIRIDA-- 180 Query: 532 VRPMP-LRMGEPG---IGEDVYALGSPLGDAFNTTLTRGILSGVRKVRDLD----FLQSD 583 + +P +++G+P +G+ V A+GSP G F+ T T GI+S + D F+Q+D Sbjct: 181 -KNLPTVQIGDPSRVKVGQPVLAIGSPYG--FDNTATAGIISAKSRSLPDDNYVPFIQTD 237 Query: 584 VAILPGSSGGPLLDKSGQVIGITVAGLGAK-GLAGMNFFIPVGSAIERLQLQL 635 VA+ PG+SGGPL D +GQVIGI G G++F IP+ A+ +++ QL Sbjct: 238 VAVNPGNSGGPLFDLNGQVIGINSQIYSQTGGFQGLSFSIPIDVAM-KVEQQL 289 >gi|300311256|ref|YP_003775348.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 492 Score = 99.0 bits (245), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 69/174 (39%), Positives = 101/174 (58%), Gaps = 17/174 (9%) Query: 472 RGSGTGFYIGSSGWLLTNQHVIGQARAVRVRLPTGRELLAEVVRVDAARDIALLKTEAPG 531 RG G+GF I + G+++TN HV+ A V V L RE A++V D D+A+LK + Sbjct: 114 RGVGSGFIISADGFIMTNAHVVEGASEVYVTLTDKREFKAKIVGSDTRTDVAVLKIDGSN 173 Query: 532 VRPMP-LRMGEPG---IGEDVYALGSPLGDAFNTTLTRGILSGVRKVRD----LDFLQSD 583 +P L MG+ +GE V A+GSP G T+T GI+S K RD L +Q+D Sbjct: 174 ---LPRLNMGDSDKIRVGEWVLAIGSPFG--LENTVTAGIVSA--KARDTGDYLPLIQTD 226 Query: 584 VAILPGSSGGPLLDKSGQVIGITVAGLG-AKGLAGMNFFIPVGSAIERLQLQLQ 636 VA+ PG+SGGPL++ G+VIGI + G G++F +P+ A+ R+ QL+ Sbjct: 227 VAVNPGNSGGPLINLKGEVIGINSQIYSRSGGFMGISFAVPIDEAL-RVADQLK 279 >gi|300313338|ref|YP_003777430.1| periplasmic trypsin-like serine protease [Herbaspirillum seropedicae SmR1] Length = 393 Score = 87.0 bits (214), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 58/164 (35%), Positives = 91/164 (55%), Gaps = 17/164 (10%) Query: 475 GTGFYIGSSGWLLTNQHVIGQARAVRVRLPTGRELLAEVVRVDAARDIALLKTEAPGVRP 534 G+G + G++LTN HV+ A + V L GR+ A+VV +D D+A++K + P + Sbjct: 114 GSGVIVSPQGYILTNNHVVEAADKIEVALADGRKASAKVVGIDPETDLAVIKIDLPNLPA 173 Query: 535 MPLRMGEP---GIGEDVYALGSPLGDAFNTTLTRGILS-------GVRKVRDLDFLQSDV 584 + L G P +G+ V A+G+P G T+T GI+S G+ +F+Q+D Sbjct: 174 ITL--GHPENSSVGDVVLAIGNPFG--VGQTVTMGIVSALGRNHLGINTFE--NFIQTDA 227 Query: 585 AILPGSSGGPLLDKSGQVIGITVAGLG-AKGLAGMNFFIPVGSA 627 AI PG+SGG L+D +G ++GI A G G+ F IP+ +A Sbjct: 228 AINPGNSGGALVDTNGNLLGINTAIYSRTGGNLGIGFAIPMSTA 271 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 0.323 0.138 0.410 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: 1,796,400 Number of extensions: 73145 Number of successful extensions: 287 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 279 Number of HSP's successfully gapped: 5 Length of query: 643 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 552 Effective length of database: 1,188,985 Effective search space: 656319720 Effective search space used: 656319720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 134 (56.2 bits)