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= 0002.0582.p (260 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC t... 201 7e-53 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 184 9e-48 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 182 3e-47 gi|300309521|ref|YP_003773613.1| branched-chain amino acid ABC t... 182 3e-47 gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPa... 178 4e-46 >gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 258 Score = 201 bits (510), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 101/255 (39%), Positives = 159/255 (62%), Gaps = 13/255 (5%) Query: 15 AGHEVLARVTNLTRRFGGLVAVSDLNMEIRRQEILGLIGPNGAGKSTTFNLISGFFKPSS 74 A + + V+NL+ RFGGL+AV +++ ++ +E+ +IGPNGAGK+T FN ISGF++P+S Sbjct: 3 ASVKTMLEVSNLSMRFGGLLAVDGVSLAVQEREVFAIIGPNGAGKTTVFNCISGFYRPTS 62 Query: 75 GRLYFDGKDMTGKSALEISRAGLVRTFQHGSLMRSMSVYENILIGA---------IGALP 125 G + DG + + + ++++ GLVRTFQ+ L +SM+V EN+L+ G L Sbjct: 63 GEIMLDGASIARQPSHQVAQQGLVRTFQNIRLFKSMTVVENLLVAQHQQVNTNLLSGLLK 122 Query: 126 ----RGTKKERAARVEETAEMLGLGPYLNEIAGTLPHGIQRLISIAIASAPRPKLLCLDE 181 R +++E R + LGL N AGTL +G+QR + IA +P+LL LDE Sbjct: 123 TPAYRKSEQEALQRAAYWLDQLGLTALANREAGTLSYGLQRRVEIARCMITKPRLLLLDE 182 Query: 182 PLTGLNQTEVMTTLGVFEKIRQVFGCTILLVEHNMKAVMQICDRIVVLHHGQLLATGTPD 241 P GLN E + +++R+ G +LL+EH+M +M I DRI+V+ HG+ + TGTP+ Sbjct: 183 PAAGLNPQEKQELSQLIDRLRREHGVAVLLIEHDMSLIMGISDRILVMEHGKPIVTGTPE 242 Query: 242 EIRHDDTVVSAYLGK 256 ++R D+ V+ AYLG+ Sbjct: 243 QVRSDERVIKAYLGE 257 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 184 bits (466), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 109/250 (43%), Positives = 155/250 (62%), Gaps = 12/250 (4%) Query: 17 HEVLARVTNLTRRFGGLVAVSDLNMEIRRQEILGLIGPNGAGKSTTFNLISGFFKPSSGR 76 EV+ V ++TR+FGGLVA +++++++ E+L LIGPNGAGKST FN ISG P+SG Sbjct: 352 QEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGPNGAGKSTLFNQISGVDTPTSGS 411 Query: 77 LYFDGKDMTGKSALEISRAGLVRTFQHGSLMRSMSVYENILIGA--------IGALPRGT 128 + F G+++TG+ + I+ G+ R+FQH LM M+V EN+ IGA + ++ R Sbjct: 412 VQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLENVAIGAYLRGQRGVLASMLRLD 471 Query: 129 KKERAARVEETA---EMLGLGPYLNEIAGTLPHGIQRLISIAIASAPRPKLLCLDEPLTG 185 +KE A + E A E +GL + E+AG L G QR++ IA A A P LL LDEP G Sbjct: 472 RKEEARILAEAARQIERVGLKAQMYELAGALSLGQQRILEIARALAADPCLLLLDEPAAG 531 Query: 186 LNQTEVMTTLGVFEKIRQVFGCTILLVEHNMKAVMQICDRIVVLHHGQLLATGTPDEIRH 245 L E + K+R G ILLVEH+M VM++ DRIVV+ GQ +A G P +I++ Sbjct: 532 LRLGEKQALAELLRKLRGE-GMAILLVEHDMDFVMELVDRIVVMDFGQKIAEGLPADIQN 590 Query: 246 DDTVVSAYLG 255 + V+ AYLG Sbjct: 591 NPAVLEAYLG 600 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 182 bits (461), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 100/254 (39%), Positives = 158/254 (62%), Gaps = 14/254 (5%) Query: 18 EVLARVTNLTRRFGGLVAVSDLNMEIRRQEILGLIGPNGAGKSTTFNLISGFFKPSSGRL 77 + L ++ ++++RFGGL A++ + + I R +I GLIGPNGAGK+T FN+I+G ++P +G Sbjct: 3 QTLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTF 62 Query: 78 YFDGKDMTGKSALEISRAGLVRTFQHGSLMRSMSVYENILIGA--------IGALPR--G 127 DGK + + E+++AG+ RTFQ+ L M+V EN+++G GA+ R Sbjct: 63 ELDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTKQNVFGAVFRHKA 122 Query: 128 TKKERAARVEETAEML---GLGPYLNEIAGTLPHGIQRLISIAIASAPRPKLLCLDEPLT 184 ++E AA E++ ++L G+G + A L +G QR + IA A A P+LL LDEP Sbjct: 123 AREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEPAA 182 Query: 185 GLNQTEVMTTLGVFEKIRQVFGCTILLVEHNMKAVMQICDRIVVLHHGQLLATGTPDEIR 244 G+N TE + + KI Q G TILL+EH++K +M +C+RI VL +G+ +A G P +++ Sbjct: 183 GMNATEKLGLRELLVKI-QAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADVQ 241 Query: 245 HDDTVVSAYLGKRH 258 + V+ AYLG H Sbjct: 242 KNPAVIEAYLGAGH 255 >gi|300309521|ref|YP_003773613.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 182 bits (461), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 100/254 (39%), Positives = 158/254 (62%), Gaps = 14/254 (5%) Query: 18 EVLARVTNLTRRFGGLVAVSDLNMEIRRQEILGLIGPNGAGKSTTFNLISGFFKPSSGRL 77 + L ++ ++++RFGGL A++ + + I R +I GLIGPNGAGK+T FN+I+G ++P +G Sbjct: 3 QTLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTF 62 Query: 78 YFDGKDMTGKSALEISRAGLVRTFQHGSLMRSMSVYENILIGA--------IGALPR--G 127 DGK + + E+++AG+ RTFQ+ L M+V EN+++G GA+ R Sbjct: 63 ELDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTRQNVFGAVFRHKA 122 Query: 128 TKKERAARVEETAEML---GLGPYLNEIAGTLPHGIQRLISIAIASAPRPKLLCLDEPLT 184 ++E AA E++ ++L G+G + A L +G QR + IA A A P+LL LDEP Sbjct: 123 AREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEPAA 182 Query: 185 GLNQTEVMTTLGVFEKIRQVFGCTILLVEHNMKAVMQICDRIVVLHHGQLLATGTPDEIR 244 G+N TE + + KI Q G TILL+EH++K +M +C+RI VL +G+ +A G P +++ Sbjct: 183 GMNATEKLGLRELLVKI-QAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADVQ 241 Query: 245 HDDTVVSAYLGKRH 258 + V+ AYLG H Sbjct: 242 KNPAVIEAYLGAGH 255 >gi|300312239|ref|YP_003776331.1| amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 253 Score = 178 bits (451), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 94/251 (37%), Positives = 150/251 (59%), Gaps = 14/251 (5%) Query: 19 VLARVTNLTRRFGGLVAVSDLNMEIRRQEILGLIGPNGAGKSTTFNLISGFFKPSSGRLY 78 +L ++ ++++ FGGL + +N +R+ EI GLIGPNGAGK+T FNLI+G + SSG + Sbjct: 1 MLLQLNDISKNFGGLQVLQGVNFNVRQGEIFGLIGPNGAGKTTVFNLITGLLRASSGSIR 60 Query: 79 FDGKDMTGKSALEISRAGLVRTFQHGSLMRSMSVYENILIGAIGALP------------- 125 F+ D+ + +I+ G+ RTFQ+ + + M++ EN+++G L Sbjct: 61 FNDDDIGAVAPHKITERGIARTFQNIRVFKEMTLLENVVVGMHDHLNYGVASMLLNLGGF 120 Query: 126 RGTKKERAARVEETAEMLGLGPYLNEIAGTLPHGIQRLISIAIASAPRPKLLCLDEPLTG 185 R +KE R E + L + +A +L +G QR + A A A +PKLL LDEP+ G Sbjct: 121 RNAEKEARERALELLSWVRLDHKAHMLADSLSYGEQRKLEFARALATKPKLLLLDEPVAG 180 Query: 186 LNQTEVMTTLGVFEKIRQVFGCTILLVEHNMKAVMQICDRIVVLHHGQLLATGTPDEIRH 245 +N E + I+Q G TI ++EH+M+ VM +C+RI VL+ G+++A GTPD+I++ Sbjct: 181 MNPAEKTELMSEIVNIKQR-GFTIFMIEHDMRFVMGLCERIAVLNFGKIIAEGTPDQIKN 239 Query: 246 DDTVVSAYLGK 256 + V+ AYLGK Sbjct: 240 NQEVIEAYLGK 250 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 0.320 0.138 0.396 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: 817,818 Number of extensions: 33802 Number of successful extensions: 491 Number of sequences better than 1.0e-08: 128 Number of HSP's gapped: 279 Number of HSP's successfully gapped: 139 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 129 (54.3 bits)