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= 0012.0040.p (383 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312847|ref|YP_003776939.1| branched-chain amino acid ABC t... 769 0.0 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 67 2e-12 gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC t... 67 3e-12 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 64 2e-11 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 60 3e-10 >gi|300312847|ref|YP_003776939.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 770 bits (1987), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/383 (99%), Positives = 382/383 (99%) Query: 1 MGWNWCHRLRGCLGLAMSLLAVGAAAEDGVSATEVVLGQSAPFSGPASDLGRDFLVGAQS 60 MGWNWCHRLRGCLGLAMSLLAVGAAAEDGVSATEVVLGQSAPFSGPASDLGRDFLVGAQS Sbjct: 1 MGWNWCHRLRGCLGLAMSLLAVGAAAEDGVSATEVVLGQSAPFSGPASDLGRDFLVGAQS 60 Query: 61 YFAMVNAKGGVHGRRVRLLSLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALP 120 YFAMVNAKGGVHGRRVRLLSLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALP Sbjct: 61 YFAMVNAKGGVHGRRVRLLSLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALP 120 Query: 121 AIREANVPLFAPVSGALALREPFNRLIFHVRASYAQETDFLLRQLQGTGRRKVAVFYQND 180 AIREANVPLFAPVSGALALREPFNRLIFHVRASYAQETDFLLRQLQGTGRRKVAVFYQND Sbjct: 121 AIREANVPLFAPVSGALALREPFNRLIFHVRASYAQETDFLLRQLQGTGRRKVAVFYQND 180 Query: 181 ELGKSMLEQLRLRALVYGLTLVGTAAVERNSDAVEGAAQALLKVKPDVVIQVVSYRPAAA 240 ELGKSMLEQLRLRALVYGLTLVGTAAVERNSDAVEGAAQALLKVKPDVVIQVVSYRPAAA Sbjct: 181 ELGKSMLEQLRLRALVYGLTLVGTAAVERNSDAVEGAAQALLKVKPDVVIQVVSYRPAAA 240 Query: 241 LIARMRQAGYLGGFSHYSFVGSQSLSARLKECGVGAEIAQVVPFPNKARLPLVYEYRKAV 300 LIARMRQAGYLGGFSHYSFVGS SLSARLKECG+GAEIAQVVPFPNKARLPLVYEYRKAV Sbjct: 241 LIARMRQAGYLGGFSHYSFVGSLSLSARLKECGIGAEIAQVVPFPNKARLPLVYEYRKAV 300 Query: 301 AQHPGAVDNFLSLEGYIAARTLVEGLRRAGRALTREGLIRALETISPANYDGGGFSQHFS 360 AQHPGAVDNFLSLEGYIAARTLVEGLRRAGRALTREGLIRALETISPANYDGGGFSQHFS Sbjct: 301 AQHPGAVDNFLSLEGYIAARTLVEGLRRAGRALTREGLIRALETISPANYDGGGFSQHFS 360 Query: 361 RTDHSGSDFVDLTAIGSGGRFIN 383 RTDHSGSDFVDLTAIGSGGRFIN Sbjct: 361 RTDHSGSDFVDLTAIGSGGRFIN 383 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 99/386 (25%), Positives = 169/386 (43%), Gaps = 51/386 (13%) Query: 6 CHRLRGCLGLAMSLLAVGAAAEDGVSATEVVLGQSAPFSGPASDLGRDFLVGAQSYFAMV 65 ++ + + A+ LA+ + A D + +G S P++G ++ +G G + A + Sbjct: 2 TYKTQAFVAAALMSLALTSQAADPIK-----IGVSGPYTGGSAPMGVSMRDGVKLAVAEI 56 Query: 66 NAKGGVHGRRVRLLSLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALPAIREA 125 NA GG+ GR+++L+ DD + ER Q+LI ++KV A G+ T LA+ +EA Sbjct: 57 NAAGGLLGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEA 116 Query: 126 NVPLFAPVSGALALREPFNR----LIFHVRASYAQETDFLLRQLQGTGR-RKVAVFYQND 180 +P+ V+ + + F + +F A+ + + + + KVA+ + Sbjct: 117 KIPVINNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADST 176 Query: 181 ---ELGKSMLEQLRLRALVYGLTLVGTAAVER-NSDAVEGAAQALLKVKPDVVIQVVSY- 235 +LG+ LE+ V V AVE+ N V+ AQ LLK K V++Y Sbjct: 177 NYGQLGREDLEK------VLADKKVTPVAVEKYNIKDVDMTAQ-LLKSKQGGAQAVLTYG 229 Query: 236 -RPAAALIAR-MRQAGYLGGFSHYSFVGSQSLSA-----RLKECGVGAEIAQVVPFPNKA 288 P A IA M + + H +GS LS + G GA + Q F Sbjct: 230 IGPELAQIANGMEKLNW-----HVPIIGSWPLSMGNFIDNSGKNGNGARMPQT--FIQDG 282 Query: 289 RLP----LVYEYRKA--VAQHPGAVDNFLSLEGYIAARTLVEGLRRAGRALTREGLIR-A 341 P + Y+KA V + P AV + +GY + L +++AG T +R A Sbjct: 283 NTPKRKAFIEAYQKAYKVDRMPSAVS---AAQGYDSILLLAAAIKQAG--TTDGDKVRAA 337 Query: 342 LETISPANYDG--GGFSQHFSRTDHS 365 LE ++ +G + + F+ DH Sbjct: 338 LENLN-TKVEGVVTTYDKPFTHDDHE 362 >gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 381 Score = 67.0 bits (162), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 89/363 (24%), Positives = 148/363 (40%), Gaps = 47/363 (12%) Query: 29 GVSATEVVLGQSAPFSGPASDLGRDFLVGAQSYFAMVNAKGGVHGRRVRLLSLDDGYEPE 88 G++ E+ +G +GP S LG + A++ FA+ + G +V+++ LDD +P Sbjct: 20 GIAHAELTIGVVMSLTGPGSGLG----IPAKNGFALWPET--IAGEKVKMIILDDATDPT 73 Query: 89 RTAANTQQLIWRDKVFALFGYSGTATTLA-ALPAIREANVPL-FAPVSGALALREPFNRL 146 + + N ++L+ DKV + G + TLA A A+ V L +P+ A E + Sbjct: 74 QASKNARRLVAEDKVDLIIGSAAVPPTLAIADVALETQTVQLAISPIETA----EGKDAW 129 Query: 147 IFHVRASYAQETDFLLRQLQGTGRRKVAVFYQNDELGKSMLEQLRLRALVYGLTLVGTAA 206 F + S A ++ Q++ G + + +D G++ L++++ A G+ + Sbjct: 130 TFRLPQSTAVMAGGVVNQMKKLGVKTIGFLGYSDSYGENWLKEVQRLATAAGMKMGTVER 189 Query: 207 VERNSDAVEGAAQALLKVKPDVVIQVVS----YRPAAALIARMRQAGYLGGFSHYSFVGS 262 R +V A ++ PD V+ V S P ALI R GY G S Sbjct: 190 FSRADTSVTAQALRVVSSNPDAVLVVASGSGAAMPHKALIER----GYKGKIFQTHSAAS 245 Query: 263 QSLSARLKECGVGAEIAQVVPFP-------------NKARLPLVYEYRKAVAQHPGAVDN 309 + L ++ G E A V+ P K + V Y K Q N Sbjct: 246 RDL---IRLGGKDVEGAYVISGPAVVPEALPDSNASKKLAMDFVTRYEK---QFGAGSRN 299 Query: 310 FLSLEGY----IAARTLVEGLRRA--GRALTREGLIRALETISPANYDGGGFSQHFSRTD 363 + Y + + + E L++A G R L ALET P G ++S D Sbjct: 300 LFAAHTYDAQLVLQKVVPEALKKAKPGTPAFRAALKEALETSGPIQITQGTL--NYSPKD 357 Query: 364 HSG 366 H G Sbjct: 358 HFG 360 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 59/214 (27%), Positives = 101/214 (47%), Gaps = 6/214 (2%) Query: 21 AVGAAAEDGVSATEVV-LGQSAPFSGPASDLGRDFLVGAQSYFAMVNAKG-GVHGRRVR- 77 A+G A + EVV + P SGP + +G+D GA+ +NAKG + G++V+ Sbjct: 13 AIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKF 72 Query: 78 -LLSLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALPAIREANVPLFAPVSGA 136 L+ DD +P++ A +L+ + KV A+ G+ + TT+ A +A +P +P + Sbjct: 73 ELVGEDDASDPKQATAVATKLVDQ-KVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATN 131 Query: 137 LALREPFNRLIFHVRASYAQETDFLLR-QLQGTGRRKVAVFYQNDELGKSMLEQLRLRAL 195 + + F V A+ AQ L + +Q G +++AV G+ + ++ A Sbjct: 132 PKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAK 191 Query: 196 VYGLTLVGTAAVERNSDAVEGAAQALLKVKPDVV 229 G T+VGT + +L KPDVV Sbjct: 192 AAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVV 225 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 70/248 (28%), Positives = 111/248 (44%), Gaps = 23/248 (9%) Query: 20 LAVGAAAEDGVSATEVVLGQSAPFSGPASDLGRDFLVGAQSYFAMVNAKGGVHGRRVRLL 79 L +GA A ++ LG + +GPA+ G G +NAKGGV+G ++ L+ Sbjct: 13 LLIGATLSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLALV 72 Query: 80 SLDDGYEPERTAANTQQLIWRDKVFALFGYSGTATTLAALPAIREANVPLFAPVSGA--L 137 D+ + E ++LI++DKV A+FG + + + AA P A V +F + A + Sbjct: 73 IEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADGI 132 Query: 138 ALREPFNRLIFHVRASYAQETDFLLRQLQGT----GRRKVAVFYQNDE-LGKSMLEQLRL 192 PF R S E D L ++ G +KVAV Y ND+ KS + + Sbjct: 133 TAMGPFT-----FRNSV-MEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKA 186 Query: 193 RALVYGLTLVGTAAVERNSDAVEGAAQALLKVK---PDVVIQVVSYRPAAALIARMRQAG 249 + + T A + V+ AQ L K+K PD ++ AA +I + R G Sbjct: 187 TLEHQKIPVTTTEAYAKGD--VDFKAQ-LTKIKAGNPDAIVCSCLAEEAANIILQTRALG 243 Query: 250 ----YLGG 253 ++GG Sbjct: 244 MKQPFIGG 251 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 0.137 0.399 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: 1,237,221 Number of extensions: 53797 Number of successful extensions: 192 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 10 Length of query: 383 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 296 Effective length of database: 1,207,925 Effective search space: 357545800 Effective search space used: 357545800 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: 131 (55.1 bits)