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= 0001.4042.p (431 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313460|ref|YP_003777552.1| branched-chain amino acid ABC t... 790 0.0 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 68 1e-12 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 68 2e-12 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 64 3e-11 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 62 1e-10 >gi|300313460|ref|YP_003777552.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 790 bits (2040), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/397 (95%), Positives = 387/397 (97%) Query: 35 IRIGMIDGLSGPFANAGEAVVRNISYAIERINARGGVSLPDGKHLLQLSTFDNKLGVEDS 94 IRIGMIDGLSGPFANAGEAVVRNISYAIER+NARGGV+LPDGKHLLQLSTFDNKLGVEDS Sbjct: 34 IRIGMIDGLSGPFANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDS 93 Query: 95 LVQLRQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDHRVLFLNYSAVDPTLTNEKC 154 LVQ RQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPD RVLFLNYSAVDPTLTNEKC Sbjct: 94 LVQFRQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDRRVLFLNYSAVDPTLTNEKC 153 Query: 155 SFWHFRFDASADMRMQALTEAIKADPATKKVYLIGQDYSFGRQVAKAAREQLALKRPDIA 214 SFWHFRFDASADMRMQALTEAIKAD AT+KVYLIGQDYSFGRQVAKAAREQLA KRPDIA Sbjct: 154 SFWHFRFDASADMRMQALTEAIKADTATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIA 213 Query: 215 IVGDELHPIGKIKDFSPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYA 274 IVGDELHPIGKIKDF+PYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYA Sbjct: 214 IVGDELHPIGKIKDFAPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYA 273 Query: 275 NSLGAPAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYLEFRKRYPQPKDDYLYLRMQV 334 NSLGAPAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYY FR+RYPQPKDDYLYLRMQV Sbjct: 274 NSLGAPAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYQAFRQRYPQPKDDYLYLRMQV 333 Query: 335 MIDMLVKAIEKAGTTDPKAVAYALEGAHYQNAFHQATMRAEDHQLIQPLYLMQMQRADSG 394 MIDML KAIEKAG+ DPKAVAYALEGA YQ+AFH ATMRA+DHQLIQPLYLMQMQRADSG Sbjct: 334 MIDMLAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQLIQPLYLMQMQRADSG 393 Query: 395 GIRFDNEGSGFGFRTERFIPAEQTALPSSCRMQRPPR 431 GIRFDNEGSG+GFRTERFIPAEQTALPSSCRMQRPPR Sbjct: 394 GIRFDNEGSGYGFRTERFIPAEQTALPSSCRMQRPPR 430 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 80/353 (22%), Positives = 148/353 (41%), Gaps = 35/353 (9%) Query: 43 LSGPFANAGEAVVRNISYAIERINARGGVSLPDGKHLLQLSTFDNKLGVEDSLVQLRQLT 102 +SGPFA G+ + A+++ GK L + +++ N +R++ Sbjct: 39 MSGPFAANGKFADLGMKLALQKY----------GKVLGKSTSYVNLDTEGKPATAVRKMQ 88 Query: 103 DERIPFLIEGNSSAVAAALIDAVNKHNQREPDHR-VLFLNYSAVDPTLTNEKCSFWHFRF 161 + IE + A ++ +E D +F+ + D +T C+ FR+ Sbjct: 89 ES-----IEKGTRFFAGGILSGEALAMGKEADKAGAVFITTAGADE-ITGSDCNRATFRW 142 Query: 162 D----ASADMRMQALTEAIKADPATKKVYLIGQDYSFGRQVAKAAREQLALKRPDIAIVG 217 + + ++ L E + P K+ Y I Y FG + AA+ K I VG Sbjct: 143 SVPTFGAIEQTVRPLLEKM---PNAKRWYTITPQYVFGEGLLSAAKN--IFKEKGIEHVG 197 Query: 218 DELHPIGKIKDFSPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFK--AKFYTFYAN 275 + H + + K+FS Y+ +A D ++ N+G+ + ++ A G K +A+ Sbjct: 198 NSYHSLTE-KEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNNCTILMAWAS 256 Query: 276 SLGAPAAIG-EAGVGVVRAVAEWHPNAGGNPGSPSDAYYLEFRKRYPQPKDDYLYLRMQV 334 L +G + GV WH +P + +++ + +Y + Sbjct: 257 GLEQFETLGADICDGVYFGAQYWHA-----IDAPFNKEFVKLVNDNLKIDPNYSLAGSYI 311 Query: 335 MIDMLVKAIEKAGTTDPKAVAYALEGAHYQNAFHQATMRAEDHQLIQPLYLMQ 387 +++ AI KA +TDPKAV A+EG Y+ +R DHQ+I+ YL++ Sbjct: 312 CTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVIKNYYLLK 364 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 94/392 (23%), Positives = 168/392 (42%), Gaps = 32/392 (8%) Query: 5 LSSRLPLRVCSAALLALASVCAAVAAPLP--PIRIGMIDGLSGPFANA-GEAVVRNISYA 61 +S+ PLR +AA A A + +RIG I +SGP+A+ G + I A Sbjct: 1 MSTSTPLRRLAAACAIAGIFSGAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMA 60 Query: 62 IERINARGGVSLPDGKHLLQLSTFDNKLGVEDSLVQLRQLTDER-IPFLIEGNSSAVAAA 120 + GG L GK + +S D++ + + + R+ DER + LI G +SA A + Sbjct: 61 VADF---GGTVL--GKPIEVISA-DHQNKADIAATRAREWADERGLDMLIGGVNSATALS 114 Query: 121 LIDAVNKHNQREPDHRVLFLNYSAVDPTLTNEKCSFW--HFRFDASADMRMQALTEAIKA 178 + N+ + + +++N A LTNE+C+ + H+ +D A + A + IK Sbjct: 115 M-------NKVMAEKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTA-SAVIK- 165 Query: 179 DPATKKVYLIGQDYSFGRQVAKAAREQLALKRPDIAIVGDELHPIGKIKDFSPYIAKMRS 238 K + + DY+FG +A +K +VG HP + D S ++ + ++ Sbjct: 166 -QGGKSWFFLVADYAFGHSLAN--DTSAVVKASGGTVVGSIKHP-PQSSDLSSFLLQAQA 221 Query: 239 AGADAVITGNWGNDLTLLVKAARDAGF-KAKFYTFYANSLGAPAAIGEAGVGVVRAVAEW 297 + A + N G D +KAA++ G K + A+G A + W Sbjct: 222 SKAQILGLANAGEDTVNSIKAAKEFGVTKTMKLVGLLMVINDIHALGLANAEGLMMTDSW 281 Query: 298 HPNAGGNPGSPSDAYYLEFRKRYPQPKDDYLYLRMQVMIDMLVKAIEKAGTTDPKAVAYA 357 + + P + + K+ P Y + KA++ GT D V Sbjct: 282 YWDK-DEPSRKFAERFFQKMKKMPSTHQAAAYSATTTYL----KAVQAIGTDDSTKVMAQ 336 Query: 358 LEGAHYQNAFHQATMRAEDHQLIQPLYLMQMQ 389 L+ + +++ ++RA D + I +YL Q++ Sbjct: 337 LKKTRIDDFYNKGSIRA-DGRNIHDMYLYQVK 367 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 86/353 (24%), Positives = 142/353 (40%), Gaps = 33/353 (9%) Query: 35 IRIGMIDGLSGPFANAGEAVVRNISYAIERINARGGVSLPDGKHLLQLSTFDNKLGVEDS 94 IRIG I+ A E R A++ INA GGV GK L ++ DN + Sbjct: 32 IRIGEINSYKAQPAFL-EPYRRGWEMALDEINASGGVL---GKKLEVIARDDNGNPGDSV 87 Query: 95 LVQLRQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDHRVLFLNYSAVDPTLTNEKC 154 V + ER+ L G S AL D +H RV FL + + + Sbjct: 88 RVAEELMARERVALLFGGFLSNTGLALTDYAKQH-------RVFFLAAEPLTDKIVWQNG 140 Query: 155 SFWHFRFDASADMRMQALT-EAIKADPATKKVYLIGQDYSFGRQVAKAAREQLALKRPDI 213 + + +R S M + ++ EA+K K+ ++ +Y +G+ + + + +PD+ Sbjct: 141 NKYTYRLRPSTSMLVASVVKEAVKLK--KKRWAIVYPNYEYGQSAVASFKTLMKQAQPDV 198 Query: 214 AIVGDELHPIGKIKDFSPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFY 273 V ++ P+GKI D + A DA+ + DL V R+ + F Sbjct: 199 EFVAEQAPPLGKI-DAGAVTQALADAKPDAIFNALFAADLGKFV---REGNTRGLFEQVD 254 Query: 274 ANSL--GAPAAI----GEAGVGVVRAVAEWHPNAGGNPGSPSDAYYLE-FRKRYPQ-PKD 325 SL G P + GEA + W+ +P ++E +RK++ P++ Sbjct: 255 VVSLLTGEPEYLDPLKGEAPQNWIVTGYPWYAIH-----TPEHKKFVEAYRKKFNDYPRN 309 Query: 326 DYLYLRMQVMIDMLVKAIEKAGTTDPKAVAYALEGAHYQNAFHQATMRAEDHQ 378 L +M + + KAG+TD +A A G + R +DHQ Sbjct: 310 GSLVGYSALM--SIAAGLRKAGSTDADRLAAAFSGLKVETPVASIVYRPQDHQ 360 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 93/404 (23%), Positives = 167/404 (41%), Gaps = 50/404 (12%) Query: 35 IRIGMIDGLSGPFANA-GEAVVRNISYAIERINARGGVSLPDGKHLLQLSTFDNKLGVED 93 I+IG I +SG +++ G+ I AI + G ++ K L ++ NK V Sbjct: 31 IKIGFITDISGVYSDIDGQGGAEAIKMAIADM----GGAINGKKIELLVADHQNKADVAA 86 Query: 94 SLVQLRQLTDER-IPFLIEGNSSAVAAALIDAVNKHNQREPDHRVLFLNYSAVDPTLTNE 152 S + R+ D++ + LI G +S A A + + + +++ A LTNE Sbjct: 87 S--KAREWFDQQGVDMLIGGTNSGTALA-------SAKVAAEKKKVYMQIGAGSARLTNE 137 Query: 153 KCSFW--HFRFDASADMRMQALTEAIKADPATKKVYLIGQDYSFGRQVAKAAREQLALKR 210 +CS + H+ +D A + T + K + + DY+FG + +K Sbjct: 138 ECSPYTVHYAYDTVA---LAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTAN--VVKA 192 Query: 211 PDIAIVGDELHPIGKIKDFSPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGF----K 266 +VG HP+G DFS ++ + +S+ A + N G D VKAA + G K Sbjct: 193 SGGTVVGAVKHPLG-ASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAK 251 Query: 267 AKFYTFYANSLGAPAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYLEFRKRYP---QP 323 + N + + G+ + + W+ +A + + Y+ RK+ P Q Sbjct: 252 LAGLLVFINDVHSLTLKNTEGLYLTDS---WYWDANEETRAFAKRYF-AVRKKMPSSLQA 307 Query: 324 KDDYLYLRMQVMIDMLVKAIEKAGTTDPKAVAYALEGAHYQNAFHQATMRAEDHQLIQPL 383 D L+ +K +++ GT D V AL A + + + + D +++ + Sbjct: 308 ADYSAALQ-------YLKVVKEIGTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDM 360 Query: 384 YLMQMQRADSGGIRFDNEGSGFGFRTERFIPAEQ---TALPSSC 424 YL Q++ +D ++ + IPAEQ T S C Sbjct: 361 YLYQVKAQSESKYPWDY------YKLVQTIPAEQAWTTKAESKC 398 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 0.135 0.397 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: 1,218,125 Number of extensions: 48117 Number of successful extensions: 185 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 7 Length of query: 431 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 343 Effective length of database: 1,203,190 Effective search space: 412694170 Effective search space used: 412694170 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: 132 (55.5 bits)