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= 0001.4607.p (538 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313996|ref|YP_003778088.1| urea ABC transporter permease [... 1021 0.0 gi|300311946|ref|YP_003776038.1| branched-chain amino acid ABC t... 229 4e-61 gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC t... 137 2e-33 gi|300313286|ref|YP_003777378.1| branched-chain amino acid ABC t... 108 1e-24 gi|300312954|ref|YP_003777046.1| amino acid ABC transporter perm... 107 2e-24 >gi|300313996|ref|YP_003778088.1| urea ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 538 Score = 1021 bits (2640), Expect = 0.0, Method: Compositional matrix adjust. Identities = 521/538 (96%), Positives = 533/538 (99%) Query: 1 MKPAIQFLRGLLATWLCAHALGAFAAIDPALLKPLGGDDPDARIDAVNQIAALANEDALK 60 MKPAIQFLRGLLATWLC HAL A AAIDPALLKPLGGDDPDARIDAVNQIAALAN+DALK Sbjct: 1 MKPAIQFLRGLLATWLCVHALAASAAIDPALLKPLGGDDPDARIDAVNQIAALANDDALK 60 Query: 61 ILNALNSDALYVTPAGEVLIVDDSGKAFNPATDQSGPAPDDAEGITVNNRLRGAVEGALS 120 ILNALNSDALYVTPAG+VLIVD++G+AFNPATD+SGPAPDDAEGITVNNRLRGAV+GALS Sbjct: 61 ILNALNSDALYVTPAGDVLIVDEAGQAFNPATDKSGPAPDDAEGITVNNRLRGAVDGALS 120 Query: 121 GLKLLSPQRDERLAAANDLLKNADPAQIPLIVKALAKESDPQIKDVLQQVQATANLHSPD 180 GLKLLSPQR++RLAAAN+LLKNADPAQIPLIVKALAKESD QIKDVLQQVQATANLHSPD Sbjct: 121 GLKLLSPQREQRLAAANELLKNADPAQIPLIVKALAKESDAQIKDVLQQVQATANLHSPD 180 Query: 181 PAARRAAVKTLADTTNASLKPALENMLAKNPDGSYVEPDEGVRVEAVRTLAALDRHLAIV 240 PAARRAAVKTLADTTNASLKPALENMLAK+PDGSYVEPDEGVRVEAVRTLAALDRHLAIV Sbjct: 181 PAARRAAVKTLADTTNASLKPALENMLAKHPDGSYVEPDEGVRVEAVRTLAALDRHLAIV 240 Query: 241 DFAGKLFYGISLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFP 300 DFAGKLFYG+SLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFP Sbjct: 241 DFAGKLFYGVSLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFP 300 Query: 301 GAIDAYLVVALPAAFIVAAAVGIALERLVIRWLYGRPLETLLCTWGISLMLMQCVRSIFG 360 GAIDAYLVVALPAAFIVAAAVGIALERLVIRWLYGRPLETLLCTWGISLMLMQ VRSIFG Sbjct: 301 GAIDAYLVVALPAAFIVAAAVGIALERLVIRWLYGRPLETLLCTWGISLMLMQGVRSIFG 360 Query: 361 AQNVEVANPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQ 420 AQNVEVANPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQ Sbjct: 361 AQNVEVANPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQ 420 Query: 421 NRRMADCVGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGG 480 NRRMADCVGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGG Sbjct: 421 NRRMADCVGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGG 480 Query: 481 VGQLAGTVIAAFGLGEVNKFLEPMAGAVLAKIAILVFIIVFIQKRPQGLFALKGRSVE 538 VGQLAGTVIAAFGLGEVNKFLEPMAGAVLAKIAILVFIIVFIQKRPQGLFALKGRSVE Sbjct: 481 VGQLAGTVIAAFGLGEVNKFLEPMAGAVLAKIAILVFIIVFIQKRPQGLFALKGRSVE 538 >gi|300311946|ref|YP_003776038.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 229 bits (584), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 127/289 (43%), Positives = 176/289 (60%) Query: 247 FYGISLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFPGAIDAY 306 F G+S+ VLLL ALGLAI FG MG+INMAHGE L IGAY TY+ + + P Y Sbjct: 4 FNGLSVFCVLLLMALGLAIIFGQMGVINMAHGEFLTIGAYITYLLSHLTTTYAPALQPFY 63 Query: 307 LVVALPAAFIVAAAVGIALERLVIRWLYGRPLETLLCTWGISLMLMQCVRSIFGAQNVEV 366 VA+ +F VA VG E L+I LY RPL+TLL TWG+SL + Q RSIFGA+ V Sbjct: 64 FFVAIVLSFAVAYGVGYLTELLLISRLYKRPLDTLLATWGLSLAMQQTFRSIFGAKEVSA 123 Query: 367 ANPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQNRRMAD 426 P W+ G + + N + ++ + + A++++L ++R GL VRA QNR M+ Sbjct: 124 TLPDWLMGSFKPTDDIDIPLNGLFMMGLTVLLTGAIFVLLFRSRWGLQVRATMQNRVMSG 183 Query: 427 CVGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGGVGQLAG 486 VG++T K+D TF LGCG+AG+ G A + +G+ GP G YIVD+F+VVV GG L G Sbjct: 184 AVGINTRKVDRTTFALGCGVAGVAGAAFTTIGSTGPTSGSLYIVDTFLVVVFGGAQSLIG 243 Query: 487 TVIAAFGLGEVNKFLEPMAGAVLAKIAILVFIIVFIQKRPQGLFALKGR 535 T+ +AF + + E +AK+ L +I+ + RPQGLF++K R Sbjct: 244 TIASAFSIAQTQSTAEFFLTGSMAKVLTLSAVILILMLRPQGLFSVKVR 292 >gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 137 bits (345), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 97/283 (34%), Positives = 150/283 (53%), Gaps = 19/283 (6%) Query: 253 GSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFPGAIDAYL----V 308 GS + +LGLA+ FGL+ +IN AHG L M+GA+ ++ +YL Sbjct: 22 GSFYAMLSLGLAVIFGLLNVINFAHGTLYMLGAFLAWMGL------------SYLGLNYW 69 Query: 309 VALPAAFIVAAAVGIALERLVIRWLYGR-PLETLLCTWGISLMLMQCVRSIFGAQNVEVA 367 V L A I+ A GI +E+ ++RWLY L LL T+GI+LM+ RSI+G + Sbjct: 70 VMLIVAPILVGAFGIVIEKTMLRWLYKLDHLYGLLLTFGITLMIEGIFRSIYGVSGQPYS 129 Query: 368 NPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQNRRMADC 427 P + G T LG +VL R +V +L V FA W ++ KTRLG ++RA T+N ++ + Sbjct: 130 VPDLLQGA-TNLGFMVLPNYRAWVVVASLIVCFATWFVIEKTRLGAYLRAGTENPKLVEA 188 Query: 428 VGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGGVGQLAGT 487 G++ + +T+G G +A GV + + V P +G I+ F VVV+GG+G + G+ Sbjct: 189 FGINVPLMVTLTYGFGVALAAFAGVLAAPVIQVSPLMGSNLIITVFAVVVIGGMGSILGS 248 Query: 488 VIAAFGLGEVNKFLEPMAGAVLAKIAILVFIIVFIQKRPQGLF 530 +I LG + + A + ++ IV + RP GLF Sbjct: 249 IITGLVLGLIEGLTRVFYPELSATVVFIIMAIV-LMVRPAGLF 290 >gi|300313286|ref|YP_003777378.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 99/298 (33%), Positives = 159/298 (53%), Gaps = 17/298 (5%) Query: 241 DFAGKLFYGISLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFP 300 +F G LF GI+ GS+L L ++GL++T G+M IN+AHG M+G YVC + Sbjct: 4 NFLGVLFDGIAYGSLLFLISVGLSVTMGMMNFINLAHGAFAMLGG---YVCVTLLN---- 56 Query: 301 GAIDAYLVVALPAAFIVAAAVGIALERLVIRWLY-GRPLETLLCTWGISLMLMQCVRSIF 359 + + LP AFI AA VG+ LER + R LY L+ +L + G++ M + + Sbjct: 57 -GMGVPFLATLPLAFIAAAIVGLVLERSLYRRLYKASHLDQVLFSIGLTFMAVAGATWQW 115 Query: 360 GAQNVEVANPSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVT 419 G V P W+ G +++LG V +Y R+ ++ + V A+ L++ +TR G +RA Sbjct: 116 GPTQQPVVLPDWLRGQISLLGLEVGAY-RVFLIGVVVIVTVALGLLIERTRFGAQIRASV 174 Query: 420 QNRRMADCVGVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLG 479 N+ A +G++ ++ +TF LG G+AGLGG + + P Y+V +VV +G Sbjct: 175 DNQVAAAGLGINVSRVFSLTFALGSGLAGLGGGLGIDVLGLDPTFPVKYMVYFLLVVAVG 234 Query: 480 GVGQLAGTVIAAFGLGEVN---KFLEPMAGAVLAKIAILVFIIVFIQKRPQGLFALKG 534 G G + G ++AA LG + K+ P GA + ++V +I+F P GL +G Sbjct: 235 GAGTIKGPLLAALILGVFDVAGKYYVPEIGAFVIYGLMVVLLILF----PAGLMRRRG 288 >gi|300312954|ref|YP_003777046.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 107 bits (267), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 96/298 (32%), Positives = 151/298 (50%), Gaps = 27/298 (9%) Query: 250 ISLGSVLLLAALGLAITFGLMGIINMAHGELLMIGAYTTYVCQLVFRKFFPGAIDAYLVV 309 + G +L L A GL + FG+M +N+AHG MIGAY V F+ G L+V Sbjct: 13 LQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGSFWLG-----LLV 67 Query: 310 ALPAAFIVAAAVGIALERLVIRWLYGR-PLETLLCTWGISLMLMQCVRSIFGAQNVEVAN 368 ALPA AA+G LE +V R LY + + +L T+ L+ VR I+G Q + + Sbjct: 68 ALPAT----AALGFLLEWVVFRRLYQKDHMVQVLATFAFILIFNDGVRMIWGPQPLPLNM 123 Query: 369 PSWMSGGVTVLGSLVLSYNRIVIVFFALFVVFAVWLILNKTRLGLFVRAVTQNRRMADCV 428 P+ +G V + G SY R++++ + V A++ ++N+TR+G++VRA N M + Sbjct: 124 PAAFAGPVNLFGLPYSSY-RLLVMAVGVVVAIALYFLINRTRIGMWVRAGANNLEMVTAM 182 Query: 429 GVSTGKIDMMTFGLGCGIAGLGGVALSQLGNVGPDLGQGYIVDSFMVVVLGGVGQLAGTV 488 G++ + + F G +A L G+ L L V +G ++ +F+VVV+GG+G + G Sbjct: 183 GINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAA 242 Query: 489 IAAFGLGEVNK------------FLEPMA----GAVLAKIAILVFIIVFIQKRPQGLF 530 I A +G V+ FL A G L + I + +I + RP GLF Sbjct: 243 IGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLF 300 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 0.140 0.407 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: 1,387,711 Number of extensions: 49615 Number of successful extensions: 269 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 249 Number of HSP's successfully gapped: 19 Length of query: 538 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 448 Effective length of database: 1,193,720 Effective search space: 534786560 Effective search space used: 534786560 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: 133 (55.8 bits)