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= 0034.0104.p (433 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 89 5e-19 gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC t... 75 1e-14 gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmi... 75 1e-14 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 74 3e-14 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 70 4e-13 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 89.4 bits (220), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 95/377 (25%), Positives = 159/377 (42%), Gaps = 28/377 (7%) Query: 28 IKLG-IGTFLSGPASVFGVPAKNGAEMFINDLNAAGGIHGVKLTPTFIDEGIGGDKFLSE 86 I++G I ++ + PA F P + G EM ++++NA+GG+ G KL D+ + Sbjct: 32 IRIGEINSYKAQPA--FLEPYRRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSVRV 89 Query: 87 YRRLIQEQNTKLMLVGVSSGDCKTVAPVAEDLKILNVMWDCSTEKIL--EDNRYRYVVRT 144 L+ + L+ G S + A+ ++ + + T+KI+ N+Y Y +R Sbjct: 90 AEELMARERVALLFGGFLSNTGLALTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYRLRP 149 Query: 145 SADANTEMVAAVLYLLRTKPDFKTLAVINQDYAWGRDSWELFRNTLLALKPDTKIVAELF 204 S T M+ A + K K A++ +Y +G+ + F+ + +PD + VAE Sbjct: 150 S----TSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVEFVAEQA 205 Query: 205 PKLGATDFSTEISRLQALRPDVVLSTSWGGDLDTLVRQAAQRGLLKSSQFI-LPLGESS- 262 P LG D L +PD + + + DL VR+ RGL + + L GE Sbjct: 206 PPLGKIDAGAVTQALADAKPDAIFNALFAADLGKFVREGNTRGLFEQVDVVSLLTGEPEY 265 Query: 263 LERLGDTLPDGVIIGALGDHYYQHPEYKDDAKMKNFVQKFKAKTGAYPSYPVFRVVSGLE 322 L+ L P I+ + PE+ K FV+ ++ K YP S L Sbjct: 266 LDPLKGEAPQNWIVTGYPWYAIHTPEH------KKFVEAYRKKFNDYPRNGSLVGYSALM 319 Query: 323 AVVAGYDKAIKANKGQWPTTEQLADAMHGLEFRALTRPVKIR-ADGRALQDQLFGVTKKV 381 ++ AG KA + ++LA A GL+ + R D ++ G T Sbjct: 320 SIAAGLRKAGSTD------ADRLAAAFSGLKVETPVASIVYRPQDHQSTLGAFVGRTGLK 373 Query: 382 KG----TPFSLIDKIVL 394 +G T F+ ID L Sbjct: 374 EGRGVMTSFTYIDGAAL 390 >gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 413 Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 79/330 (23%), Positives = 144/330 (43%), Gaps = 22/330 (6%) Query: 41 SVFGVPAKNGAEMFINDLNAAGGIHGVKLTPTFIDEGIGGDKFLSEYRRLIQEQNTKLML 100 S G +NG + + +NAAGG+ G L ++ D+ R LI + + +++ Sbjct: 50 STAGQAYRNGLALALEQINAAGGVGGRPLQLVVREDDGDADQAARNARALISQDHVEVLT 109 Query: 101 VGVSSGDCKTVAPVAEDLKILNVMWDCSTEKILED--NRYRYVVRTSADANTEMVAAVLY 158 + S V+ A + + V+ D ++ I D NRY + VR S T M AA+L Sbjct: 110 GSMLSDVALAVSREAARGRTVLVVGDALSDAITLDKGNRYTFRVRPS----TYMQAAMLA 165 Query: 159 LLRTKPDFKTLAVINQDYAWGRDSWELFRNTLLALKPDTKIVAELFPKLGATDFSTEISR 218 + + AV+ +Y +G+ + F+ L +PD + V++ +P LG Sbjct: 166 EQAARLPGRRWAVVAPNYEYGQSAVASFKLLLKQARPDVEFVSDQWPALGKIKADDVARA 225 Query: 219 LQALRPDVVLSTSWGGDLDTLVRQAAQRGLLKSSQFI--LPLGESSLE-RLGDTLPDGVI 275 ++ RPD + + ++G DL V+ ++ L + + + G SL+ + + D + Sbjct: 226 IRQSRPDGIFNATFGEDLQKFVQAGNRQQLFEGVRVVSMASAGAPSLDPSQSEAIRDWLA 285 Query: 276 IGALGDHYYQHPEYKDDAKMKNFVQKFKAKTGAYPSYPVFRVVSGLEAVVAGYDKAIKAN 335 IG D PE+ + F++ + + P + + A+ AG K+ + Sbjct: 286 IGYPWDQ-VSLPEH------QRFLEAYLKRFSERPQLSAVFGYTTMMAIAAGLKKSEGGD 338 Query: 336 KGQWPTTEQLADAMHGLEFRALTRPVKIRA 365 E L +AM GL+F + PV RA Sbjct: 339 ------GEVLVEAMRGLQFGSPLGPVSFRA 362 >gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 417 Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 107/403 (26%), Positives = 174/403 (43%), Gaps = 49/403 (12%) Query: 9 AASALLLSGVQAQTNKPAEIKLGIGTFLSGPASVFGVPAKNGAEMFINDLNAAGGIHGVK 68 AAS+ L S A T IK+GI LSG ++ K+ A M I+++NAAGG+ G K Sbjct: 18 AASSWLPSAFAADT-----IKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKK 72 Query: 69 LTPTFIDEGIGGDKFLSEYRRLIQEQNTKLMLVGVSSGDCKTVAPVAEDLKILNVMWDCS 128 L P +D F + R+LI + ++ +S K+V PV ++L L + + Sbjct: 73 LEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSL-LFYPVQ 131 Query: 129 TE-KILEDNRYRYVVRTSADANTEMVAAVLYLL-RTKPDFKTLAVINQDYAWGRDSWELF 186 E + LE N V T A N + + AV YL+ + K ++ DY + R + ++ Sbjct: 132 YEGEELEKN----VFYTGAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYPRTTNKIL 187 Query: 187 RNTLLALKPDTKIVAELFPKLGATDFST---EISRLQALRPDVVLSTSWGGDLDTLVRQA 243 R L + + E++ G +D+ T I + A V+ST G ++ Sbjct: 188 RAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSNVPFYKEL 247 Query: 244 AQRGLLKSSQFIL--PLGESSLERLGDTLPDGVIIGALGDHYYQHPEYKDDAKMKNFVQK 301 GL + ++ +GE L R DT P ++G L + + E + F++K Sbjct: 248 GNAGLKATDVPVVAFSVGEEEL-RGVDTKP---LVGHLAA--WNYFESVKNPVNTAFIKK 301 Query: 302 FK--AKTGAYPSYPVFRVVSGLEAVVAGYDKAIKA-NKGQWPTTEQLADAMHGLEFRA-- 356 +K AK P+ +EA G +A K + T+++ AM G ++A Sbjct: 302 WKEYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAMGGQTYKAPS 361 Query: 357 ------------LTRPV---KIRADGRALQDQLFGVTKKVKGT 384 L +PV +I+ADG+ F V K K T Sbjct: 362 GYTLEMDKTNHHLHKPVMIGEIKADGQ------FNVVYKTKTT 398 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 78/305 (25%), Positives = 134/305 (43%), Gaps = 22/305 (7%) Query: 12 ALLLSGVQAQTNKPAEIKLGIGTFLSGPASVFGVPAKNGAEMFINDLNAAGGIHGVKLTP 71 ALL+ +Q A+IKLG+ L+GPA+ +GV KNG + ++NA GG++G KL Sbjct: 12 ALLIGATLSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLAL 71 Query: 72 TFIDEGIGGDKFLSEYRRLIQEQNTKLMLVGVSSGDCKTVAPVAEDLKILNVMWDCSTEK 131 DE ++ ++ +++LI + + S P+A K++ + + Sbjct: 72 VIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADG 131 Query: 132 ILEDNRYRYVVRTS---ADANTEMVAAVLYLLRTKPDFKTLAVINQDYAWGRDSWELFRN 188 I + + R S AD V A + K K + D A+ + +++F+ Sbjct: 132 ITAMGPFTF--RNSVMEADVLPVTVKAAVKHFGIK---KVAVIYGNDDAFTKSGYDVFKA 186 Query: 189 TLLALK-PDTKIVAELFPKLGATDFSTEISRLQALRPDVVLSTSWGGDLDTLVRQAAQRG 247 TL K P T E + K G DF ++++++A PD ++ + + ++ Q R Sbjct: 187 TLEHQKIPVT--TTEAYAK-GDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQ--TRA 241 Query: 248 LLKSSQFILPLGESS--LERLGDTLPDGVIIGALGDHYYQHPEYKDDAKMKNFVQKFKAK 305 L FI G +S L + D ++G+ Q P K F+ +KAK Sbjct: 242 LGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPAN------KAFITAYKAK 295 Query: 306 TGAYP 310 GA P Sbjct: 296 FGADP 300 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 86/355 (24%), Positives = 149/355 (41%), Gaps = 22/355 (6%) Query: 28 IKLGIGTFLSGPASVFGVPAKNGAEMFINDLNAAGGIHGVKLTPTFIDEGIGGDKFLSEY 87 +K+G T LSGPAS GV + G + + L + GV +D+ D Sbjct: 29 VKVGFLTTLSGPASAPGVDEREGFMLALKTLG--NKLGGVPAEVIVVDDQFSPDAAKQGA 86 Query: 88 RRLIQEQNTKLMLVGVSSGDCKTVAPVAEDLKILNVMWDCSTEKILED--NRYRYVVRTS 145 RLI+ + ++ V S VAP A K + V + ++ N Y + Sbjct: 87 DRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQLAGAGCNPYFFSASYQ 146 Query: 146 ADANTEMVAAVLYLLRTKPDFKTLAVINQDYAWGRDSWELFRNTLLALKPDTKIVAELFP 205 DA E ++ ++ +A+I +Y G+D+ F+ L K D + ELFP Sbjct: 147 NDAAHEAAGKLM----ADKGYQRVAIIAPNYPAGKDASAGFKRFL---KKDPAV--ELFP 197 Query: 206 KLGATDFSTEISRLQALRPDVVLSTSWGGDLDTLVRQAAQRGLLKSSQFILPLGESSLER 265 KLG DF+TEI++L+A D + GG V+Q A G+ ++P ++ + Sbjct: 198 KLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDPKIVRVMPAYDADQQ- 256 Query: 266 LGDTLPDGVIIGALGDHYYQHPEYKDDAKMKNFVQKFKAKTGAYPSYPVFRVVSGLEAVV 325 L +G +I + + + ++ + + FV + + G PS + + Sbjct: 257 ---MLSNGDLIAGVANTGQWSSDLPNE-QNRAFVAAYLKEYGRQPSMFASQAYDAAMLI- 311 Query: 326 AGYDKAIKANKGQWPTTEQLADAMHGLEFRALTRPVKIRADGRALQDQLFGVTKK 380 D A+KA G+ E L A+ F+++ + A+ +Q+Q V K Sbjct: 312 ---DSAVKAVGGKVENREALIAAIKTANFKSVRGGFRFAANHFPIQNQYARVVTK 363 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 0.318 0.135 0.393 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: 1,298,871 Number of extensions: 53281 Number of successful extensions: 207 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 10 Length of query: 433 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 345 Effective length of database: 1,203,190 Effective search space: 415100550 Effective search space used: 415100550 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 (21.7 bits) S2: 132 (55.5 bits)