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= 0001.3882.p (401 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 341 5e-95 gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC t... 293 2e-80 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 116 3e-27 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 84 3e-17 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 70 2e-13 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 341 bits (875), Expect = 5e-95, Method: Compositional matrix adjust. Identities = 171/398 (42%), Positives = 253/398 (63%), Gaps = 12/398 (3%) Query: 1 MQLKKLAGAALALGLACIVAPSGA-----SGPNDRIRIGVITSLTGPAAQSGEQMKAGIE 55 M+ KK+A L ++A SG + + I++G+I + +GP A G+QM+ GI+ Sbjct: 1 MRFKKIA-------LLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIK 53 Query: 56 TWLRQNGGTVAGKKLEVIYKDDTGPQAEVAKRLATELLVRENVDILAGFIFTPNAIAAAA 115 ++ Q+G VAGKK+++I KD TGP E+AKRLA EL+VRE VD LAGF TP A+A A Sbjct: 54 AYMAQHGDQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAP 113 Query: 116 VADKASKPMVVMNAAASGVTEKSRYITRTSYTIAQSVKPLAEWAYKTGSRRVFSIVSDYA 175 +A++A KPM++MNAA S +T KS YI R S T+ Q P+A WA K G +RV ++V+DY Sbjct: 114 IAEQAKKPMIIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYG 173 Query: 176 PGLDAEAWFNKSFTTLGGNVVASVRVPLNTVDYSAYLQRIKDEKPDAIHVFLPNGQPMVA 235 PG+DAE F + GG V+ S+RVPL +++ Y+QRIKD KP+A+ +F+P G+ +A Sbjct: 174 PGIDAETAFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIA 233 Query: 236 FIKGFKEKGLDKAGIRFLGGEGWADEDVLAMGGDAMLGIYTAGFYDYSRPGADNARFLQA 295 F+KG++E+GL +AGI+ + D+ V+ G++ LG+ T Y + +N FL++ Sbjct: 234 FMKGYRERGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKS 293 Query: 296 FSQTVGGRFQPNFLAVSAYDAMNLIAASLGKTGGSADAGRFISAASSYSAASPRGTISID 355 F+ G +PNF+AV+AYD MN I K G D R ++ + SPRG I+ID Sbjct: 294 FAAANPGAGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAID 353 Query: 356 PATRDIVQNIYIRRIDKKEGKYVATEIDRYEAVKDPAK 393 PATRDIVQ +Y+R+++K + E D++E +KD K Sbjct: 354 PATRDIVQTVYVRKVEKIGNEAYNVEFDKFENMKDTGK 391 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 293 bits (750), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 163/386 (42%), Positives = 242/386 (62%), Gaps = 7/386 (1%) Query: 6 LAGAALALGLACIVAPSGASGPNDRIRIGVITSLTGPAAQSGEQMKAGIETWLRQNGGTV 65 LAG AL G A ++A + D +++G+I ++GP A +G Q++A ++ + ++ G +V Sbjct: 15 LAGTALVAGGAPMLARAA-----DVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSV 69 Query: 66 AGKKLEVIYKDDTGPQAEVAKRLATELLVRENVDILAGFIFTPNAIAAAAVADKASKPMV 125 AG+K+E++ KDD G +V KRLA EL+ RE +L GF TP A+AAA +A +A PM+ Sbjct: 70 AGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKAPMI 129 Query: 126 VMNAAASGVTEKSRYITRTSYTIAQSVKPLAEWAYKTGSRRVFSIVSDYAPGLDAEAWFN 185 V AA S + ++S YI RT +T+AQ PLA WA K G + V + VSDY PGLDAE F Sbjct: 130 VTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFV 189 Query: 186 KSFTTLGGNVVASVRVPLNTVDYSAYLQRIKDEKPDAIHVFLPNGQPMVAFIKGFKEKGL 245 K+F GG V+ SVRVPL DY+ +LQR+KD KP A+ VF+P+G+ A +K F E+GL Sbjct: 190 KTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEG-AAVLKQFTERGL 248 Query: 246 DKAGIRFLGGEGWADEDVLAMGGDAMLGIYTAGFYDYSRPGADNARFLQAFSQTVGGRFQ 305 AGIR + D+D++A G A + ++ Y + P A N +++A ++ G + Sbjct: 249 AAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVEAMAKANKG-MR 307 Query: 306 PNFLAVSAYDAMNLIAASLGKTGGSADAGRFISAASSYSAASPRGTISIDPATRDIVQNI 365 NF +V AYD M+L+ SL KTGG AD + ++A S S RG +++D ATRDIVQ + Sbjct: 308 ANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPVAVDAATRDIVQTV 367 Query: 366 YIRRIDKKEGKYVATEIDRYEAVKDP 391 Y+R+ + + ++ E D+ E V+DP Sbjct: 368 YMRKAELRGAEFYNVEFDQVEKVRDP 393 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 116 bits (290), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 116/385 (30%), Positives = 185/385 (48%), Gaps = 25/385 (6%) Query: 2 QLKKLAGAALALGLACIVAPSGASGPNDRIRIGVITSLTGPAAQSGEQMKAGIETWLRQN 61 +L K+AGA + +A V S + D +++G +T+L+GPA+ G + G L+ Sbjct: 3 RLSKVAGAVM---MAMAVGASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTL 59 Query: 62 GGTVAGKKLEVIYKDDT-GPQAEVAKRLATELLVRENVDILAGFIFTPNAIAAAAVADKA 120 G + G EVI DD P A AK+ A L+ RE VDIL+GF+++ N + A A A A Sbjct: 60 GNKLGGVPAEVIVVDDQFSPDA--AKQGADRLIKREKVDILSGFVYS-NILLAVAPAAFA 116 Query: 121 SKPMVVMNAAASGVTE-----KSRYITRTSYTIAQSVKPLAEWAYKTGSRRVFSIVSDYA 175 SK +VV +A +G + + Y SY + + + G +RV I +Y Sbjct: 117 SKTVVV--SANAGPAQLAGAGCNPYFFSASYQNDAAHEAAGKLMADKGYQRVAIIAPNYP 174 Query: 176 PGLDAEAWFNKSFTTLGGNVVASVRVPLNTVDYSAYLQRIKDEKPDAIHVFLPNGQPMVA 235 G DA A F + L + + L +D++ + +++ DA++ FLP G V Sbjct: 175 AGKDASAGFKR---FLKKDPAVELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMG-VN 230 Query: 236 FIKGFKEKGLDKAGIRFLGGEGWADEDVLAMGGDAMLGIYTAGFYDYSRPGADNARFLQA 295 F+K + G+D +R + AD+ +L+ GD + G+ G + P N F+ A Sbjct: 231 FVKQYAAAGMDPKIVRVMPAYD-ADQQMLS-NGDLIAGVANTGQWSSDLPNEQNRAFVAA 288 Query: 296 FSQTVGGRFQPNFLAVSAYDAMNLIAASLGKTGGSADAGR-FISAASSYSAASPRGTISI 354 + + G QP+ A AYDA LI +++ GG + I+A + + S RG Sbjct: 289 YLKEYGR--QPSMFASQAYDAAMLIDSAVKAVGGKVENREALIAAIKTANFKSVRGGFRF 346 Query: 355 DPATRDIVQNIYIRRIDK-KEGKYV 378 A +QN Y R + K +GKYV Sbjct: 347 -AANHFPIQNQYARVVTKGADGKYV 370 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 83.6 bits (205), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 6 LAGAALALGLACIVAPSGASGPNDRIRIGVITSLTGPAAQ-SGEQMKAGIETWLRQNGGT 64 L+ A AL A I+ + A+G D I+IG IT ++G A G+ I + GG Sbjct: 10 LSATACALLGAAILPSAQAAG--DTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAGGA 67 Query: 65 VAGKKLEVIYKDDTGPQAEVAKRLATELLVRENVDILAGFIFTPNAIAAAAVADKASKPM 124 + GKK+E+++ D +A++A A E R+ VD+L G + + ++A VA + K Sbjct: 68 INGKKVELVFADHQN-KADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKVF 126 Query: 125 VVMNAAASGVT--EKSRYITRTSYTIAQSVKPLAEWAYKTGSRRVFSIVSDYAPGLDAEA 182 + + A + T E + Y + +Y + + G + + + +DYA G E Sbjct: 127 ISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSLEK 186 Query: 183 WFNKSFTTLGGNVVASVRVPLNTVDYSAYLQRIKDEKPDAIHVFLPNGQPMVAFIKGFKE 242 ++ + GGNVV + RVPL T D+S++L + + K + + + G + A IK E Sbjct: 187 DTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINA-IKAANE 245 Query: 243 KGLDK 247 G++K Sbjct: 246 FGVNK 250 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 105/223 (47%), Gaps = 7/223 (3%) Query: 29 DRIRIGVITSLTGPAAQ-SGEQMKAGIETWLRQNGGTVAGKKLEVIYKDDTGPQAEVAKR 87 D I+IG IT ++G + G+ I+ + GG + GKK+E++ D +A+VA Sbjct: 29 DVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQN-KADVAAS 87 Query: 88 LATELLVRENVDILAGFIFTPNAIAAAAVADKASKPMVVMNAAASGVT--EKSRYITRTS 145 A E ++ VD+L G + A+A+A VA + K + + A ++ +T E S Y + Sbjct: 88 KAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVHYA 147 Query: 146 YTIAQSVKPLAEWAYKTGSRRVFSIVSDYAPGLDAEAWFNKSFTTLGGNVVASVRVPLNT 205 Y K K G + F + +DYA G E+ GG VV +V+ PL Sbjct: 148 YDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPLGA 207 Query: 206 VDYSAYLQRIKDEKPDAIHVFLPN-GQPMVAFIKGFKEKGLDK 247 D+S++L + + K I L N G + +K E G+ K Sbjct: 208 SDFSSFLLQAQSSKAQIIG--LANAGGDFINSVKAANEFGITK 248 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 0.317 0.133 0.380 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: 1,202,375 Number of extensions: 50539 Number of successful extensions: 204 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 14 Length of query: 401 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 314 Effective length of database: 1,207,925 Effective search space: 379288450 Effective search space used: 379288450 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 (21.6 bits) S2: 132 (55.5 bits)