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= 0001.3989.p (381 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC t... 698 0.0 gi|300310681|ref|YP_003774773.1| amino acid ABC transporter peri... 341 4e-95 gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC t... 340 1e-94 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 71 2e-13 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 69 7e-13 >gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 381 Score = 698 bits (1801), Expect = 0.0, Method: Compositional matrix adjust. Identities = 355/381 (93%), Positives = 364/381 (95%) Query: 1 MQFARPLLALALAGCALAAHADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAGQKINY 60 MQFARPLLALALAGCAL A ADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAG K+NY Sbjct: 1 MQFARPLLALALAGCALVARADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAGHKVNY 60 Query: 61 IVLDDASDTTQAVKNARRFVTENNVDVIVGSSISPNSISMTEVAAEAQTPMISLAAAARI 120 I+LDDASDTTQAVKNARRFV+ENNVDVIVGSS+SPNSISM EVAA+AQTPMISLAAAARI Sbjct: 61 IILDDASDTTQAVKNARRFVSENNVDVIVGSSVSPNSISMIEVAADAQTPMISLAAAARI 120 Query: 121 VEPMDAKKKWVFKTPQNDIMMSLAIAKDMVARGYQRIAFIGYVNAYGEGWYEEFKKAAGI 180 VEPMDAKKKWVFKTPQNDIMMSLAIA+DMVARGYQRIAFIGY NAYGEGWYEEFKKAAG+ Sbjct: 121 VEPMDAKKKWVFKTPQNDIMMSLAIARDMVARGYQRIAFIGYSNAYGEGWYEEFKKAAGL 180 Query: 181 KKLELVANERFAPNDTSATAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIYQ 240 KKLELVANERFAP D+S TAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIYQ Sbjct: 181 KKLELVANERFAPTDSSTTAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIYQ 240 Query: 241 THGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYTGKYEAAHGKGSVS 300 THGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYT KYEA HGK SVS Sbjct: 241 THGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYTTKYEAVHGKDSVS 300 Query: 301 LFGGYAWDAGVLLQAAIPAALKRAKPGTPEFRAALRDALEATKEVTGVHGVYNMSPTDHL 360 LFGGYAWDAGVLL+ AIP ALK AKPGTPEFRAALRD LEATKEVTGVHGVY MS TDHL Sbjct: 301 LFGGYAWDAGVLLRWAIPVALKGAKPGTPEFRAALRDVLEATKEVTGVHGVYTMSSTDHL 360 Query: 361 GLDQRATVMVKIVDGAWQYQP 381 GLDQRA VMVKIVDGAWQYQP Sbjct: 361 GLDQRAAVMVKIVDGAWQYQP 381 >gi|300310681|ref|YP_003774773.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 341 bits (875), Expect = 4e-95, Method: Compositional matrix adjust. Identities = 177/381 (46%), Positives = 243/381 (63%), Gaps = 5/381 (1%) Query: 1 MQFARPLLALALAG-CALAAH---ADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAGQ 56 M R + A+ L G +LA H A + VGV S+TGP + +GIP+KNT+ LLPT I Sbjct: 1 MLHKRLIAAVVLLGMSSLAMHPALAQVKVGVVTSSTGPVSLVGIPQKNTVPLLPTKIGDL 60 Query: 57 KINYIVLDDASDTTQAVKNARRFVTENNVDVIVGSSISPNSISMTEVAAEAQTPMISLAA 116 K+ YI LDDASD T++V ++ + E+NVD I+G S SPN++ + AEA P+++ Sbjct: 61 KVEYISLDDASDPTKSVTEIKKLIAEHNVDAIIGPSGSPNAMGVISFVAEAGVPLLAPVG 120 Query: 117 AARIVEPMDAKKKWVFKTPQNDIMMSLAIAKDMVARGYQRIAFIGYVNAYGEGWYEEFKK 176 A +V PM +KKWVFKT QND +++ A+ MV + FI + +GE W F Sbjct: 121 TAAVVLPMTEQKKWVFKTTQNDDLIAKALVDQMVKTKVKTAGFIAVNDPFGENWARVFSD 180 Query: 177 AAGIKKLELVANERFAPNDTSATAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKG 236 A +++VANER+ DTS TAQ+LK+VAA PDA+L+AA G V+PQ L ++G+KG Sbjct: 181 LAAKNNIKIVANERYQRTDTSVTAQSLKIVAANPDAVLVAAPGAATVLPQTTLFDQGYKG 240 Query: 237 QIYQTHGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYTGKYEAAHGK 296 +IYQTHG A FL++G ++GT+L A +LV ++P SNP +KVA DY Y+ + Sbjct: 241 KIYQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKMYNA 300 Query: 297 GSVSLFGGYAWDAGVLLQAAIPAALKRAKPGTPEFRAALRDALEATKEVTGVHGVYNMSP 356 + FG +DAG+LL+ AIP A ++AKPG+ EFRAALRDALE TKEV G GVYNMS Sbjct: 301 VPAT-FGANVYDAGLLLEKAIPVAARKAKPGSKEFRAALRDALENTKEVVGTQGVYNMSA 359 Query: 357 TDHLGLDQRATVMVKIVDGAW 377 TDH G D R ++ + G W Sbjct: 360 TDHSGFDDRGRELITVKGGNW 380 >gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 381 Score = 340 bits (873), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 163/368 (44%), Positives = 244/368 (66%), Gaps = 4/368 (1%) Query: 11 ALAGCALAAHADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAGQKINYIVLDDASDTT 70 A+ CA AHA++ +GV +S TGP + LGIP KN AL P TIAG+K+ I+LDDA+D T Sbjct: 14 AMLACAGIAHAELTIGVVMSLTGPGSGLGIPAKNGFALWPETIAGEKVKMIILDDATDPT 73 Query: 71 QAVKNARRFVTENNVDVIVGSSISPNSISMTEVAAEAQTPMISLAAAARIVEPMDAKKKW 130 QA KNARR V E+ VD+I+GS+ P ++++ +VA E QT ++++ +E + K W Sbjct: 74 QASKNARRLVAEDKVDLIIGSAAVPPTLAIADVALETQTVQLAISP----IETAEGKDAW 129 Query: 131 VFKTPQNDIMMSLAIAKDMVARGYQRIAFIGYVNAYGEGWYEEFKKAAGIKKLELVANER 190 F+ PQ+ +M+ + M G + I F+GY ++YGE W +E ++ A +++ ER Sbjct: 130 TFRLPQSTAVMAGGVVNQMKKLGVKTIGFLGYSDSYGENWLKEVQRLATAAGMKMGTVER 189 Query: 191 FAPNDTSATAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIYQTHGVANADFL 250 F+ DTS TAQAL++V++ PDA+L+ ASG+ A +P +AL ERG+KG+I+QTH A+ D + Sbjct: 190 FSRADTSVTAQALRVVSSNPDAVLVVASGSGAAMPHKALIERGYKGKIFQTHSAASRDLI 249 Query: 251 RVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYTGKYEAAHGKGSVSLFGGYAWDAG 310 R+GGK ++G + +GP +V LP SN +K+A+D+ +YE G GS +LF + +DA Sbjct: 250 RLGGKDVEGAYVISGPAVVPEALPDSNASKKLAMDFVTRYEKQFGAGSRNLFAAHTYDAQ 309 Query: 311 VLLQAAIPAALKRAKPGTPEFRAALRDALEATKEVTGVHGVYNMSPTDHLGLDQRATVMV 370 ++LQ +P ALK+AKPGTP FRAAL++ALE + + G N SP DH GL A +M+ Sbjct: 310 LVLQKVVPEALKKAKPGTPAFRAALKEALETSGPIQITQGTLNYSPKDHFGLGDDARIML 369 Query: 371 KIVDGAWQ 378 I +G W+ Sbjct: 370 TIQNGNWK 377 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 95/388 (24%), Positives = 169/388 (43%), Gaps = 33/388 (8%) Query: 5 RPLLALALAGCALAAHA--DINVGVTVSTTGPAASLGIPEKNTIALLPTTIA------GQ 56 + +A AL AL + A I +GV+ TG +A +G+ ++ + L I G+ Sbjct: 6 QAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGR 65 Query: 57 KINYIVLDDASDTTQAVKNARRFVTENNVDVIVGSSISPNSISMTEVAAEAQTPMISLAA 116 +I I DD + + V+ A+ + + V VG + +++ EA+ P+I+ A Sbjct: 66 QIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVA 125 Query: 117 AARIVEPMDAKKK--WVFKTPQNDIMMSLAIAKDMVAR-GYQRIAFIGYVNAYGEGWYEE 173 ++ K+K +VF+T D + + IA + V + + ++A + YG+ E+ Sbjct: 126 TGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGRED 185 Query: 174 FKKAAGIKKLELVANERFAPNDTSATAQALKLVAAKPDAILIAASGTPAVVPQRALKERG 233 +K KK+ VA E++ D TAQ LK A+L G +++ Sbjct: 186 LEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLN 245 Query: 234 FKGQIYQTHGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALD-YTGKYEA 292 + I + ++ +F+ GK +G +P + + P RK ++ Y Y+ Sbjct: 246 WHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFI-----QDGNTPKRKAFIEAYQKAYKV 300 Query: 293 AHGKGSVSLFGGYAWDAGVLLQAAIPAALKRAKPGTPE---FRAALRDALEATKEVTGVH 349 +VS GY D+ +LL AAI A GT + RAAL + +V GV Sbjct: 301 DRMPSAVSAAQGY--DSILLLAAAIKQA------GTTDGDKVRAALEN---LNTKVEGVV 349 Query: 350 GVYN--MSPTDHLGLDQRATVMVKIVDG 375 Y+ + DH + VM ++ +G Sbjct: 350 TTYDKPFTHDDHEAIKPAMVVMGEVKNG 377 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 88/355 (24%), Positives = 149/355 (41%), Gaps = 40/355 (11%) Query: 7 LLALALAGCALAAHADINVGVTVSTTGPAASLGIPEKNTIALLPTTIA------GQKINY 60 L+ L+ ALAA DI +GV + TGPAA G+ KN L I G K+ Sbjct: 14 LIGATLSQAALAA--DIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLAL 71 Query: 61 IVLDDASDTTQAVKNARRFVTENNVDVIVGSSISPNSISMTEVAAEAQTPMISLAAAARI 120 ++ D+ +A+ ++ + ++ V + G ++S ++ + +A A+ + + A Sbjct: 72 VIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADG 131 Query: 121 VEPMDAKKKWVFKTPQNDIM----MSLAIAKDMVARGYQRIAFI-GYVNAYGEGWYEEFK 175 + M + F+ N +M + + + + G +++A I G +A+ + Y+ FK Sbjct: 132 ITAMG---PFTFR---NSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFK 185 Query: 176 KAAGIKKLELVANERFAPNDTSATAQALKLVAAKPDAILIAASGTPA---VVPQRALKER 232 +K+ + E +A D AQ K+ A PDAI+ + A ++ RAL Sbjct: 186 ATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRAL--- 242 Query: 233 GFKGQIYQTHGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPAS-------------NPI 279 G K +G+ + + D TL+ P Q PA+ +P Sbjct: 243 GMKQPFIGGNGLNSPKLFEIAKDAGDNTLM-GSPWSAENQTPANKAFITAYKAKFGADPD 301 Query: 280 RKVALDYTGKYEAAHGKGSVSLFGGYAWDAGVLLQAAIPAALKRAKPGTPEFRAA 334 + A Y Y A +V L G A D L+AA+PA G FRAA Sbjct: 302 QFAAQAYDAMYIVADALKNVKLSGNLAKDRDA-LRAALPAVKIDGATGKFAFRAA 355 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 0.131 0.376 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: 1,161,889 Number of extensions: 49707 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 11 Length of query: 381 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 294 Effective length of database: 1,207,925 Effective search space: 355129950 Effective search space used: 355129950 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: 131 (55.1 bits)