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= 0006.0017.p (567 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312728|ref|YP_003776820.1| 2-isopropylmalate synthase [Her... 1169 0.0 gi|300310272|ref|YP_003774364.1| 2-isopropylmalate synthase [Her... 637 0.0 gi|300312143|ref|YP_003776235.1| homocitrate synthase [Herbaspir... 77 3e-15 >gi|300312728|ref|YP_003776820.1| 2-isopropylmalate synthase [Herbaspirillum seropedicae SmR1] Length = 567 Score = 1169 bits (3025), Expect = 0.0, Method: Compositional matrix adjust. Identities = 566/567 (99%), Positives = 567/567 (100%) Query: 1 MMLSNPAAKYRPFPAIDLPDRTWPSKVINTPPIWMSTDLRDGNQALIEPMNAERKLRFFE 60 MMLSNPAAKYRPFPAIDLPDRTWPSKVINTPPIWMSTDLRDGNQALIEPMNAERKLRFFE Sbjct: 1 MMLSNPAAKYRPFPAIDLPDRTWPSKVINTPPIWMSTDLRDGNQALIEPMNAERKLRFFE 60 Query: 61 LLLKTGLKEIEVGFPSASQTDFDFVRKLIVENRIPDDVTIIVLTQSRDELIRRTIESLEG 120 LLLKTGLKEIEVGFPSASQTDFDFVRKLIVENRIPDDVTIIVLTQSR+ELIRRTIESLEG Sbjct: 61 LLLKTGLKEIEVGFPSASQTDFDFVRKLIVENRIPDDVTIIVLTQSREELIRRTIESLEG 120 Query: 121 AKKAIVHLYNSVAPAFRKIVFNMSREEIKNIAVTGTRLVKELTDARPGTEWRFEYSPESF 180 AKKAIVHLYNSVAPAFRKIVFNMSREEIKNIAVTGTRLVKELTDARPGTEWRFEYSPESF Sbjct: 121 AKKAIVHLYNSVAPAFRKIVFNMSREEIKNIAVTGTRLVKELTDARPGTEWRFEYSPESF 180 Query: 181 STTELDFSKEICDAVCETWGASPERKVILNLPSTVECATPNVYADQIEWMCRNLKDRAST 240 STTELDFSKEICDAVCETWGASPERKVILNLPSTVECATPNVYADQIEWMCRNLKDRAST Sbjct: 181 STTELDFSKEICDAVCETWGASPERKVILNLPSTVECATPNVYADQIEWMCRNLKDRAST 240 Query: 241 IISVHPHNDRGTAVASAELAVMAGADRVEGCLFGNGERTGNVDLVTLALNLYTQGVNPGL 300 IISVHPHNDRGTAVASAELAVMAGADRVEGCLFGNGERTGNVDLVTLALNLYTQGVNPGL Sbjct: 241 IISVHPHNDRGTAVASAELAVMAGADRVEGCLFGNGERTGNVDLVTLALNLYTQGVNPGL 300 Query: 301 DFSDIDVVRQVVEECNQIPVHPRHPYVGDLVFTAFSGSHQDAIKKGFAKQQPDAIWEVPY 360 DFSDIDVVRQVVEECNQIPVHPRHPYVGDLVFTAFSGSHQDAIKKGFAKQQPDAIWEVPY Sbjct: 301 DFSDIDVVRQVVEECNQIPVHPRHPYVGDLVFTAFSGSHQDAIKKGFAKQQPDAIWEVPY 360 Query: 361 LPIDPADLGRSYDAVIRVNSQSGKGGMAYLLEQEYGLALPRRLQIEFSRAIQREADATGK 420 LPIDPADLGRSYDAVIRVNSQSGKGGMAYLLEQEYGLALPRRLQIEFSRAIQREADATGK Sbjct: 361 LPIDPADLGRSYDAVIRVNSQSGKGGMAYLLEQEYGLALPRRLQIEFSRAIQREADATGK 420 Query: 421 EIAASDIHAIFQREYLERVEPYVYRAHRMSEDSSKAESINIEVDIVRNGQPVTVRGSGNG 480 EIAASDIHAIFQREYLERVEPYVYRAHRMSEDSSKAESINIEVDIVRNGQPVTVRGSGNG Sbjct: 421 EIAASDIHAIFQREYLERVEPYVYRAHRMSEDSSKAESINIEVDIVRNGQPVTVRGSGNG 480 Query: 481 PIDAFVHALGLDIKLMDFHEHAIGAGADAKAASYIELRLNEAPTGFGVGIDANIVTASFK 540 PIDAFVHALGLDIKLMDFHEHAIGAGADAKAASYIELRLNEAPTGFGVGIDANIVTASFK Sbjct: 481 PIDAFVHALGLDIKLMDFHEHAIGAGADAKAASYIELRLNEAPTGFGVGIDANIVTASFK 540 Query: 541 AVLSAVNRQIAISESANQAGSSQAKAA 567 AVLSAVNRQIAISESANQAGSSQAKAA Sbjct: 541 AVLSAVNRQIAISESANQAGSSQAKAA 567 >gi|300310272|ref|YP_003774364.1| 2-isopropylmalate synthase [Herbaspirillum seropedicae SmR1] Length = 575 Score = 637 bits (1644), Expect = 0.0, Method: Compositional matrix adjust. Identities = 313/568 (55%), Positives = 403/568 (70%), Gaps = 23/568 (4%) Query: 2 MLSNPAAKYRPFPAIDLPDRTWPSKVINTPPIWMSTDLRDGNQALIEPMNAERKLRFFEL 61 ML++P+ KYR +DLPDR WPS+ + P W+STDLRDGNQAL EPMN ERKLR F Sbjct: 1 MLTDPSQKYRAIAPVDLPDRRWPSRTLRQAPTWLSTDLRDGNQALFEPMNRERKLRLFHE 60 Query: 62 LLKTGLKEIEVGFPSASQTDFDFVRKLIVENRIPDDVTIIVLTQSRDELIRRTIESLEGA 121 L++ G KEIEVGFP+AS+ DF+ VR LI E+ IPDDVT +V+TQ R +LI T++S+ GA Sbjct: 61 LVRIGFKEIEVGFPAASRIDFETVRHLIDEHLIPDDVTPMVMTQLRADLITETVKSVAGA 120 Query: 122 KKAIVHLYNSVAPAFRKIVFNMSREEIKNIAVTGTRLVKELTDARPGTEWRFEYSPESFS 181 ++ IVH YN++APA+R+IVF MS +I + L + LT P TEW +YSPE+F Sbjct: 121 RRVIVHFYNAIAPAWREIVFGMSVPQIITLVEDHIALFRRLTAVHPETEWILQYSPETFC 180 Query: 182 TTELDFSKEICDAVCETWGASPERKVILNLPSTVECATPNVYADQIEWMCRNLKDRASTI 241 EL+ S E+C+A W A P R++I+NLP+TVE +TPNV+ADQIEWM R L+ R I Sbjct: 181 MAELEVSLEVCNAAIRAWDAGPRRRMIINLPTTVEVSTPNVFADQIEWMDRRLERREHLI 240 Query: 242 ISVHPHNDRGTAVASAELAVMAGADRVEGCLFGNGERTGNVDLVTLALNLYTQGVNPGLD 301 +SVHPHNDRGTAVA AE A++AGA RVEGCLFGNGER+GNVD+VTLALNLYTQG+ PGLD Sbjct: 241 LSVHPHNDRGTAVACAEQAMLAGAQRVEGCLFGNGERSGNVDVVTLALNLYTQGIAPGLD 300 Query: 302 FSDIDVVRQVVEECNQIPVHPRHPYVGDLVFTAFSGSHQDAIKKGFAKQQPDAIWEVPYL 361 FSDI + +V EEC +P+HPRHPYVGDLVFTAFSGSHQDAI KGFA Q+PDA W VPYL Sbjct: 301 FSDIAALARVAEECTALPIHPRHPYVGDLVFTAFSGSHQDAIAKGFAAQRPDAPWRVPYL 360 Query: 362 PIDPADLGRSYDAVIRVNSQSGKGGMAYLLEQEYGLALPRRLQIEFSRAIQREADATGKE 421 PIDP DLGR+YD+++RVNSQSGKGG+A+LL++++ + +PRR+Q+EFS +Q ADA+ E Sbjct: 361 PIDPTDLGRTYDSIVRVNSQSGKGGIAFLLQRDHHITMPRRMQVEFSAIVQALADASETE 420 Query: 422 IAASDIHAIFQREYLERVEP------------------YVYRAHRMSEDSSKAESINIEV 463 + + + +F+R YL V+ ++YR+H + E I +E+ Sbjct: 421 LTSEHLWDVFERTYLAPVQASPDFSDRTSLAPALEQRRFIYRSHCL-HPHPDGERIVLEL 479 Query: 464 DIVRNGQPVTVRGSGNGPIDAFVHALGLDIKLMDFHEHA--IGAGADAKAASYIELRLNE 521 G TV GSGNGPI A V ALGL +++ + E + +G GADA+A + +E L Sbjct: 480 ADT-EGNVRTVEGSGNGPIAATVAALGLALRIDSYEERSLGVGVGADAQALAIVEAALPT 538 Query: 522 AP-TGFGVGIDANIVTASFKAVLSAVNR 548 P + FGVG NI TAS AVLSA +R Sbjct: 539 VPGSRFGVGRHENITTASIMAVLSAASR 566 >gi|300312143|ref|YP_003776235.1| homocitrate synthase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 77.0 bits (188), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 93/349 (26%), Positives = 141/349 (40%), Gaps = 39/349 (11%) Query: 37 TDLRDGNQALIEPMNAERKLRFFELLLKTGLKEIEVGFPSASQTDFDFVRKLIVENRIPD 96 T LRDG Q AE K+ L + G+ E+E+G P Q + + ++ + +P Sbjct: 7 TTLRDGEQTAGVAFTAEEKIDIARALDEIGVPEMEIGIPIMGQAEIEVIQAIAA---LP- 62 Query: 97 DVTIIVLTQSRDELIRRTIES-LEGAKKAIVHLYNSVAPAFR-KIVFNMSREEIKNIAVT 154 +S+ + R E+ L A + + N P I + R+ +A Sbjct: 63 -------LRSKTMVWGRMCEADLAAAARCNADIVNLSMPVSDIHIQHKLQRDRDWVLAQI 115 Query: 155 GTRLVKELTDARPGTEWRFEYSPESFSTTELDFSKEICDAVCETWGASPERKVILNLPST 214 L K L G E E S +LDF V ET A+ R+ T Sbjct: 116 RHFLPKALD---LGMEVCL--GGEDSSRADLDFMLR----VIETAQAAGARR--FRFADT 164 Query: 215 VECATPNVYADQIEWMCRNLKDRASTIISVHPHNDRGTAVASAELAVMAGADRVEGCLFG 274 + P + I R L+ + +H HND G A A+ A+ AGA V + G Sbjct: 165 LGLLDPFATYEVI----RQLRQEVDIELEMHAHNDLGLATANTLAAINAGASHVNTTVNG 220 Query: 275 NGERTGNVDLVTLALNL-YTQGVNPGLDFSDIDVVRQVVEECNQIPVHPRHPYVGDLVFT 333 GER GN L + + L + G+ +D + + ++V + + V P VG+ VFT Sbjct: 221 LGERAGNAPLEEVVMGLRHLHGIETQVDTRSLPAISRLVAKASGKAVAPNKSIVGEAVFT 280 Query: 334 AFSGSHQDAIKKGFAKQQPDAIWEVPYLPIDPADLGRSYDAVIRVNSQS 382 SG H D + K A Y PA+LGRS+ V+ +S S Sbjct: 281 HESGIHVDGLLKNPAN----------YEHFSPAELGRSHHIVLGKHSGS 319 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 0.318 0.134 0.390 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: 1,695,744 Number of extensions: 69665 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 215 Number of HSP's successfully gapped: 3 Length of query: 567 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 477 Effective length of database: 1,193,720 Effective search space: 569404440 Effective search space used: 569404440 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 (21.7 bits) S2: 133 (55.8 bits)