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= 0034.0196.p (397 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 80 2e-16 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 78 1e-15 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 61 2e-10 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 60 2e-10 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 99/367 (26%), Positives = 164/367 (44%), Gaps = 28/367 (7%) Query: 11 IRRLALLACIASALAAGAGSAAADE---LKVGVEIPLTGSLARVGSGMQEGINVAADVFN 67 +R++ L IA++LA A A E +K+G PLTG A G Q G+ +A + N Sbjct: 2 FKRVSGLNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLN 61 Query: 68 K---TNGKHKIKLVTI--DDESAPAKAIAAVEKLAGEGVLAITGGYGSNNIAPAADAAGK 122 T G KIK I DD++ P +A +KLA +GV AI G Y S PA+ Sbjct: 62 AQPITVGGKKIKFDVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYND 121 Query: 123 AGLVYMTSGGVDDNLVNSGRKNFFRI---NNVAGYQKAMVGLLDDMNARSVSIVYSTKEA 179 AG+V T + + G FR+ ++ G + A+ ++ + V+++ Sbjct: 122 AGIVVATVAS-NPKITQQGFATLFRVAASDSQLGGKMALYA-AKELKFKRVAVIDDRTAY 179 Query: 180 TAALAKDLEKAWGAKGLKVTSHAF-DPAISDFKPIVNKIKLQDKPEVIAMIGYENDYVGI 238 LA++ K A G+ V S F + +DF I+ IK + KP+ + + GY I Sbjct: 180 GQGLAQEFIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGK-KPDAVFLGGYAPQGGPI 238 Query: 239 LRAARVLKPAVKAMVGVWSLATPKMAQDFPDLV-PNVY---GTALLPYPAQFTTADGKLF 294 R + L V M G + +P+M + D + +VY G +L +GK+F Sbjct: 239 KRQMKQLGVDVPLM-GGDGICSPEMGRLGGDAIGESVYCTQGGTMLD-----KAKEGKVF 292 Query: 295 EETYRRLYKKDPDYLGQFGYVQSMLLFEAIARAADKGTLKKDGVAEEMRKTDRETLIGRV 354 + Y++ Y + + Y ML+ +A+ +A ++ + K + + G+ Sbjct: 293 SDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQA---NSVDPKQFGPALAKISYKGVAGQY 349 Query: 355 QFGANGD 361 F AN D Sbjct: 350 DFDANHD 356 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 85/344 (24%), Positives = 142/344 (41%), Gaps = 19/344 (5%) Query: 36 LKVGVEIPLTGSLARVGSGMQEGINVAADVFN----KTNGKH-KIKLVTIDDESAPAKAI 90 L +G PL+G VG MQ G+ +A N + GK +++L+ DD + PA A Sbjct: 40 LAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATAE 99 Query: 91 AAVEKLAGEGVLAITGGYGSNNIAPAADAAGKAGLVYMTSGGVDDNLVNSGRKNFFRI-- 148 L + V+A+ G + S AA +AG++ +T + L FR Sbjct: 100 FVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIFRTIP 159 Query: 149 NNVAGYQKAMVGLLDDMNARSVSIVYSTKEATAALAKDLEKAWGAKGLKVT-SHAFDPAI 207 NN + + A +D + R++ + LA+ + +G +V ++ Sbjct: 160 NNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSDKT 219 Query: 208 SDFK-PIVNKIKLQDKPEVIAMIGYENDYVGILRAARVLKPAVKAMVGVWSLATPKMAQD 266 SDF ++ KLQ P++I G + + ++ R LK + M +L P + + Sbjct: 220 SDFNAALLEARKLQ--PDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRA 277 Query: 267 FPDLVPNVYGTALL-PYPAQFTTADGKLFEETYRRLYKKDPDYLGQFGYVQSMLLFEAIA 325 PD G +L P P Q K F + Y + D D F Y + + + I Sbjct: 278 GPD----ANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIR 333 Query: 326 RAADKGTLKKDGVAEEMRKTDRETLIGRVQFGANGDNLNFTHHM 369 +A G+ + +AE M + E + G V F GD L + M Sbjct: 334 QA---GSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTM 374 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 78/341 (22%), Positives = 144/341 (42%), Gaps = 18/341 (5%) Query: 33 ADELKVGVEIPLTGSLARVGSGMQEGINVAADVFNKTNGKH--KIKLVTIDDESAPAKAI 90 A+ +K+ + P+TG++A+ G ++ G A + N G + K + V +DD P +A+ Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQAV 85 Query: 91 AAVEKLAGEGVLAITGGYGSNNIAPAADAAGKAGLVYMTSGGVDDNLVNSGRKNF-FRIN 149 A K+ +G+ + G S + PA+D G+V +T L + F FR Sbjct: 86 AVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRTI 145 Query: 150 NVAGYQ--KAMVGLLDDMNARSVSIVYSTKEATAALAKDLEKAWGAKGLKVTS-HAFDPA 206 Q A +++ + + V++++ + +A ++ A A + V + Sbjct: 146 GRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGINAG 205 Query: 207 ISDFKPIVNKIKLQDKPEVIAMIGYENDYVGILRAARVLKPAVKAM-VGVWSLATPKMAQ 265 SD+ IV K+K Q + + GY + I+R AR + +KA+ +G + + Sbjct: 206 DSDYSAIVTKLKSQGV-DFVYFGGYHPEMGLIMRQAR--EQGIKAVFMGPEGVGN----K 258 Query: 266 DFPDLVPNVYGTALLPYPAQFTTADGKLFEETYRRLYKKDPDYLGQF-GYVQSMLLFEAI 324 D + L+ PA F K+DP+ Q Y ++ +AI Sbjct: 259 DITAIAGPASEGMLVTLPADFAADPANAALVKAFAAAKRDPNGPFQMPAYSGVKIIADAI 318 Query: 325 ARAADKGTLKKDGVAEEMRKTDRETLIGRVQFGANGDNLNF 365 A A + + VA + +T IG V++ GD +F Sbjct: 319 AGAK---STDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSF 356 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 86/358 (24%), Positives = 155/358 (43%), Gaps = 40/358 (11%) Query: 22 SALAA-GAGS-----AAADELKVGVEIPLTGSLARVGSGMQEGINVAADVFNKTNGKHKI 75 SALAA GA S A A+ + G +P++G A G G+ +A + K GK Sbjct: 11 SALAAPGALSYHDVFAQAESIAFGCPVPMSGPFAANGKFADLGMKLALQKYGKVLGK-ST 69 Query: 76 KLVTIDDESAPAKAIAAVEKLAGEGVLAITGGYGSNNIAPAADAAGKAGLVYMTSGGVDD 135 V +D E PA A+ +++ +G GG S A KAG V++T+ G D+ Sbjct: 70 SYVNLDTEGKPATAVRKMQESIEKGTRFFAGGILSGEALAMGKEADKAGAVFITTAGADE 129 Query: 136 NLVNSGRKNFFR--INNVAGYQKAMVGLLDDM-NAR---SVSIVYSTKEATAALAKDLEK 189 + + FR + ++ + LL+ M NA+ +++ Y E + AK++ K Sbjct: 130 ITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFGEGLLSAAKNIFK 189 Query: 190 AWGAKGLKVTSHAF-DPAISDFKPIVNKIKLQDKPEVIAMIGYENDYVGILRAARVLKPA 248 G + + + H+ + S + + N I KP+V+ ++ + + LR A Sbjct: 190 EKGIEHVGNSYHSLTEKEFSGY--LTNAI--AAKPDVLLLLNFGSQSSDTLRQAVSFGMK 245 Query: 249 VKAMVGV-WSLATPKMAQDFPDLVPNVYGTALLPYPAQFTTADGKLFEETYRRL----YK 303 + + W+ + D+ VY + AQ+ A F + + +L K Sbjct: 246 NNCTILMAWASGLEQFETLGADICDGVY------FGAQYWHAIDAPFNKEFVKLVNDNLK 299 Query: 304 KDPDYLGQFGYVQSMLLFEAIARA---------ADKGTLKKDGV--AEEMRKTDRETL 350 DP+Y Y+ + ++ +AI +A A +K +G+ +EE+RK D + + Sbjct: 300 IDPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVI 357 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 0.316 0.133 0.381 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: 1,146,525 Number of extensions: 47317 Number of successful extensions: 177 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 6 Length of query: 397 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 310 Effective length of database: 1,207,925 Effective search space: 374456750 Effective search space used: 374456750 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: 131 (55.1 bits)