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= 0005.0261.p (250 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPa... 186 1e-48 gi|300313934|ref|YP_003778026.1| branched-chain amino acid ABC t... 181 4e-47 gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC t... 181 6e-47 gi|300313284|ref|YP_003777376.1| branched-chain amino acid ABC t... 161 4e-41 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 158 3e-40 >gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 256 Score = 186 bits (472), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 96/248 (38%), Positives = 147/248 (59%), Gaps = 2/248 (0%) Query: 1 MTDNNIVLRCQNVTVSFGALKAIDDVNYDFATGKVYGLIGPNGAGKTTLLNVLAGRQLQH 60 MTD ++L +N+T F A+ VN G ++ LIGPNGAGKTT N+L + Sbjct: 1 MTD--VILETRNLTKEFKGFTAVSAVNLQIERGHIHALIGPNGAGKTTCFNLLTKFLVPT 58 Query: 61 QGAVLCDGADISRLGANQRARRGIGRSFQITKIYPEMTVAENLRIAAQIKHSRFMPFWIA 120 G +L +G DI+ Q AR+GI RSFQI+ ++P M+V EN+RI Q K FW Sbjct: 59 SGQILFNGRDITMDAPAQIARQGIIRSFQISAVFPHMSVLENVRIGLQRKLGTSFHFWKN 118 Query: 121 PRYDRKLADDVDDMLEMTGLTAHRNDLAGAMSYGLQRALELGLTILPQPRILLLDEPLAG 180 ++L + +LE LT+ + + YG +RALE+ T+ +P ++LLDEP G Sbjct: 119 GESLKQLDERAMQLLEEVDLTSFAHTTTVDLPYGRKRALEIATTLAMEPELMLLDEPTQG 178 Query: 181 IGHHEIEQATRLIRKASEGRTVLLIEHNMDVIMALSEQIVVMSNGRVIAAGTPQQVRTDP 240 +GH ++++ T LI+K S GRT+L++EHNM VI + ++I V+ G ++A G+ ++V +P Sbjct: 179 MGHEDVDRVTALIKKVSAGRTILMVEHNMSVIAGICDRISVLQRGALLAEGSYEEVSRNP 238 Query: 241 LVRSVYLG 248 V Y+G Sbjct: 239 QVMEAYMG 246 >gi|300313934|ref|YP_003778026.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 181 bits (460), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 92/244 (37%), Positives = 151/244 (61%), Gaps = 3/244 (1%) Query: 7 VLRCQNVTVSFGALKAIDDVNYDFATGKVYGLIGPNGAGKTTLLNVLAGRQLQHQGAVLC 66 +L+ NVT +G A++ + D G V+ +IGPNGAGKTTL + L G +G++L Sbjct: 5 ILQAVNVTKRYGKFTAVNGITLDIEAGTVHSVIGPNGAGKTTLFHTLTGTTPITEGSILV 64 Query: 67 DGADISRLGANQRARRGIGRSFQITKIYPEMTVAENLRIAAQIKH--SRFMPFWIAPRYD 124 +G +++ L N+R ++G+ RSFQ+T ++P ++V ENLR+AAQ + + P+ A ++ Sbjct: 65 EGEEVAHLPGNRRVQKGLARSFQVTSLFPNLSVRENLRLAAQGRAPLAALNPWKRAEQFS 124 Query: 125 RKLADDVDDMLEMTGLTAHRNDLAGAMSYGLQRALELGLTILPQPRILLLDEPLAGIGHH 184 A D++L L A +S+G QR LE+G+ + +P+++ LDEP +G+G Sbjct: 125 AACA-LADELLARLSLQAVAQRACAELSHGQQRRLEVGMAMAGRPKVIFLDEPTSGMGID 183 Query: 185 EIEQATRLIRKASEGRTVLLIEHNMDVIMALSEQIVVMSNGRVIAAGTPQQVRTDPLVRS 244 +I + +LI TV+LIEHNMD++M +S++I VM G+++A G P ++R+D VR Sbjct: 184 DIAEMKQLIHGLRRDYTVVLIEHNMDIVMDISDRITVMQLGQILAQGKPAEIRSDERVRR 243 Query: 245 VYLG 248 YLG Sbjct: 244 AYLG 247 >gi|300310994|ref|YP_003775086.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 258 Score = 181 bits (458), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 100/251 (39%), Positives = 154/251 (61%), Gaps = 7/251 (2%) Query: 7 VLRCQNVTVSFGALKAIDDVNYDFATGKVYGLIGPNGAGKTTLLNVLAGRQLQHQGAVLC 66 +L N+++ FG L A+D V+ +V+ +IGPNGAGKTT+ N ++G G ++ Sbjct: 8 MLEVSNLSMRFGGLLAVDGVSLAVQEREVFAIIGPNGAGKTTVFNCISGFYRPTSGEIML 67 Query: 67 DGADISRLGANQRARRGIGRSFQITKIYPEMTVAENLRIA--AQIKHSRFMPFWIAPRYD 124 DGA I+R ++Q A++G+ R+FQ +++ MTV ENL +A Q+ + P Y Sbjct: 68 DGASIARQPSHQVAQQGLVRTFQNIRLFKSMTVVENLLVAQHQQVNTNLLSGLLKTPAYR 127 Query: 125 RKLADDVDD---MLEMTGLTAHRNDLAGAMSYGLQRALELGLTILPQPRILLLDEPLAGI 181 + + + L+ GLTA N AG +SYGLQR +E+ ++ +PR+LLLDEP AG+ Sbjct: 128 KSEQEALQRAAYWLDQLGLTALANREAGTLSYGLQRRVEIARCMITKPRLLLLDEPAAGL 187 Query: 182 GHHEIEQATRLIRKA--SEGRTVLLIEHNMDVIMALSEQIVVMSNGRVIAAGTPQQVRTD 239 E ++ ++LI + G VLLIEH+M +IM +S++I+VM +G+ I GTP+QVR+D Sbjct: 188 NPQEKQELSQLIDRLRREHGVAVLLIEHDMSLIMGISDRILVMEHGKPIVTGTPEQVRSD 247 Query: 240 PLVRSVYLGEE 250 V YLGEE Sbjct: 248 ERVIKAYLGEE 258 >gi|300313284|ref|YP_003777376.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 257 Score = 161 bits (408), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 85/245 (34%), Positives = 137/245 (55%) Query: 5 NIVLRCQNVTVSFGALKAIDDVNYDFATGKVYGLIGPNGAGKTTLLNVLAGRQLQHQGAV 64 + LR + ++ +G+ A D++ FA G + LIGPNGAGKTT +N+L G G V Sbjct: 9 DTTLRTEGLSKRWGSFVANSDISLTFAPGARHALIGPNGAGKTTFINLLTGGFAPSSGRV 68 Query: 65 LCDGADISRLGANQRARRGIGRSFQITKIYPEMTVAENLRIAAQIKHSRFMPFWIAPRYD 124 G DI+ L + R +RG+ R+FQI ++ +TV E++ +A Q + ++ Sbjct: 69 WFGGEDITALPQHARVKRGMTRTFQINTLFAGLTVLESVVLAIQERRGLQYKWYQTVASQ 128 Query: 125 RKLADDVDDMLEMTGLTAHRNDLAGAMSYGLQRALELGLTILPQPRILLLDEPLAGIGHH 184 ++ D+ +L L N L ++YG QR +E+ L + QP++LLLDEP AGI Sbjct: 129 TEVVDEAMALLASLKLAQEANSLTRNLAYGKQRLVEIALALATQPKVLLLDEPAAGIPSA 188 Query: 185 EIEQATRLIRKASEGRTVLLIEHNMDVIMALSEQIVVMSNGRVIAAGTPQQVRTDPLVRS 244 E + +I + T++ IEH+M ++ +E+I V+ G+V+ GTP ++ DP V+ Sbjct: 189 ESRELFEVIAQLPREVTIVFIEHDMGLVFRFAERITVLVGGKVLVEGTPAEIAADPRVKE 248 Query: 245 VYLGE 249 VYLGE Sbjct: 249 VYLGE 253 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 158 bits (400), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 99/254 (38%), Positives = 144/254 (56%), Gaps = 10/254 (3%) Query: 2 TDNNIVLRCQNVTVSFGALKAIDDVNYDFATGKVYGLIGPNGAGKTTLLNVLAGRQLQHQ 61 T +VL ++VT FG L A ++++ G+V LIGPNGAGK+TL N ++G Sbjct: 350 TPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGPNGAGKSTLFNQISGVDTPTS 409 Query: 62 GAVLCDGADISRLGANQRARRGIGRSFQITKIYPEMTVAENLRIAAQIKHSRFMPFWIAP 121 G+V G +++ G+ A G+ RSFQ ++ P MTV EN+ I A ++ R + +A Sbjct: 410 GSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLENVAIGAYLRGQRGV---LAS 466 Query: 122 --RYDRK----LADDVDDMLEMTGLTAHRNDLAGAMSYGLQRALELGLTILPQPRILLLD 175 R DRK + + +E GL A +LAGA+S G QR LE+ + P +LLLD Sbjct: 467 MLRLDRKEEARILAEAARQIERVGLKAQMYELAGALSLGQQRILEIARALAADPCLLLLD 526 Query: 176 EPLAGIGHHEIEQATRLIRKA-SEGRTVLLIEHNMDVIMALSEQIVVMSNGRVIAAGTPQ 234 EP AG+ E + L+RK EG +LL+EH+MD +M L ++IVVM G+ IA G P Sbjct: 527 EPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFVMELVDRIVVMDFGQKIAEGLPA 586 Query: 235 QVRTDPLVRSVYLG 248 ++ +P V YLG Sbjct: 587 DIQNNPAVLEAYLG 600 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 0.321 0.138 0.395 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: 776,732 Number of extensions: 32727 Number of successful extensions: 562 Number of sequences better than 1.0e-08: 127 Number of HSP's gapped: 343 Number of HSP's successfully gapped: 137 Length of query: 250 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 167 Effective length of database: 1,226,865 Effective search space: 204886455 Effective search space used: 204886455 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 (21.9 bits) S2: 129 (54.3 bits)