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= 0001.1152.p (388 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310681|ref|YP_003774773.1| amino acid ABC transporter peri... 708 0.0 gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC t... 332 3e-92 gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC t... 281 5e-77 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 80 4e-16 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 68 1e-12 >gi|300310681|ref|YP_003774773.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 708 bits (1828), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/388 (89%), Positives = 368/388 (94%), Gaps = 3/388 (0%) Query: 1 MLHKRLIAGAVLAAMGTLAALAGNSALAQVKIGVVSSATGPVSLVGIPQKNTVPLLPTKA 60 MLHKRLIA VL M +LA + ALAQVK+GVV+S+TGPVSLVGIPQKNTVPLLPTK Sbjct: 1 MLHKRLIAAVVLLGMSSLAM---HPALAQVKVGVVTSSTGPVSLVGIPQKNTVPLLPTKI 57 Query: 61 GDLKIEYISLDDASDPTKSVTEVKKLISEYNVDAIIGPSGSPNAMGVISFVAEAGVPMLA 120 GDLK+EYISLDDASDPTKSVTE+KKLI+E+NVDAIIGPSGSPNAMGVISFVAEAGVP+LA Sbjct: 58 GDLKVEYISLDDASDPTKSVTEIKKLIAEHNVDAIIGPSGSPNAMGVISFVAEAGVPLLA 117 Query: 121 PVGTAAVVLPMTEQKKWVFKTTQNDDLIANALVAQMVKSKVKTVGFITINDPFGENWAKV 180 PVGTAAVVLPMTEQKKWVFKTTQNDDLIA ALV QMVK+KVKT GFI +NDPFGENWA+V Sbjct: 118 PVGTAAVVLPMTEQKKWVFKTTQNDDLIAKALVDQMVKTKVKTAGFIAVNDPFGENWARV 177 Query: 181 FGELAAKNNIKIVANERYQRTDTSVTAQTLKILAANPDAVLVAAPGAATVLPQTTLYDQG 240 F +LAAKNNIKIVANERYQRTDTSVTAQ+LKI+AANPDAVLVAAPGAATVLPQTTL+DQG Sbjct: 178 FSDLAAKNNIKIVANERYQRTDTSVTAQSLKIVAANPDAVLVAAPGAATVLPQTTLFDQG 237 Query: 241 YKGKMYQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKM 300 YKGK+YQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKM Sbjct: 238 YKGKIYQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKM 297 Query: 301 YNTVPATFGANVYDAGLLLEKAIPVAAKKAKPGSKEFRAALRDALENTREVVGTQGVYNM 360 YN VPATFGANVYDAGLLLEKAIPVAA+KAKPGSKEFRAALRDALENT+EVVGTQGVYNM Sbjct: 298 YNAVPATFGANVYDAGLLLEKAIPVAARKAKPGSKEFRAALRDALENTKEVVGTQGVYNM 357 Query: 361 SPADHSGFDERGRELITVKGGNWTLLKQ 388 S DHSGFD+RGRELITVKGGNW LLKQ Sbjct: 358 SATDHSGFDDRGRELITVKGGNWALLKQ 385 >gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 381 Score = 332 bits (851), Expect = 3e-92, Method: Compositional matrix adjust. Identities = 165/357 (46%), Positives = 233/357 (65%), Gaps = 1/357 (0%) Query: 28 AQVKIGVVSSATGPVSLVGIPQKNTVPLLPTKAGDLKIEYISLDDASDPTKSVTEVKKLI 87 A + +GV S TGP + +GIP+KNT+ LLPT K+ YI LDDASD T++V ++ + Sbjct: 21 ADINVGVTVSTTGPAASLGIPEKNTIALLPTTIAGHKVNYIILDDASDTTQAVKNARRFV 80 Query: 88 SEYNVDAIIGPSGSPNAMGVISFVAEAGVPMLAPVGTAAVVLPMTEQKKWVFKTTQNDDL 147 SE NVD I+G S SPN++ +I A+A PM++ A +V PM +KKWVFKT QND + Sbjct: 81 SENNVDVIVGSSVSPNSISMIEVAADAQTPMISLAAAARIVEPMDAKKKWVFKTPQNDIM 140 Query: 148 IANALVAQMVKSKVKTVGFITINDPFGENWAKVFGELAAKNNIKIVANERYQRTDTSVTA 207 ++ A+ MV + + FI ++ +GE W + F + A +++VANER+ TD+S TA Sbjct: 141 MSLAIARDMVARGYQRIAFIGYSNAYGEGWYEEFKKAAGLKKLELVANERFAPTDSSTTA 200 Query: 208 QTLKILAANPDAVLVAAPGAATVLPQTTLYDQGYKGKMYQTHGAALPAFLQLGKNKVEGT 267 Q LK++AA PDA+L+AA G V+PQ L ++G+KG++YQTHG A FL++G ++GT Sbjct: 201 QALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIYQTHGVANADFLRVGGKMLDGT 260 Query: 268 ILAASLMLVLPEIPDSNPSKKVATDYIEAYKKMYNTVPAT-FGANVYDAGLLLEKAIPVA 326 +L A +LV ++P SNP +KVA DY Y+ ++ + FG +DAG+LL AIPVA Sbjct: 261 LLPAGPVLVAAQLPASNPIRKVALDYTTKYEAVHGKDSVSLFGGYAWDAGVLLRWAIPVA 320 Query: 327 AKKAKPGSKEFRAALRDALENTREVVGTQGVYNMSPADHSGFDERGRELITVKGGNW 383 K AKPG+ EFRAALRD LE T+EV G GVY MS DH G D+R ++ + G W Sbjct: 321 LKGAKPGTPEFRAALRDVLEATKEVTGVHGVYTMSSTDHLGLDQRAAVMVKIVDGAW 377 >gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 381 Score = 281 bits (720), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 159/386 (41%), Positives = 225/386 (58%), Gaps = 13/386 (3%) Query: 1 MLHKRLIAGAVLAAMGTLAALAGNSALAQVKIGVVSSATGPVSLVGIPQKNTVPLLPTKA 60 M K I VLAAM A +A A++ IGVV S TGP S +GIP KN L P Sbjct: 1 MKTKLAIKAGVLAAMLACAGIAH----AELTIGVVMSLTGPGSGLGIPAKNGFALWPETI 56 Query: 61 GDLKIEYISLDDASDPTKSVTEVKKLISEYNVDAIIGPSGSPNAMGVISFVAEAGVPMLA 120 K++ I LDDA+DPT++ ++L++E VD IIG + P + + E LA Sbjct: 57 AGEKVKMIILDDATDPTQASKNARRLVAEDKVDLIIGSAAVPPTLAIADVALETQTVQLA 116 Query: 121 --PVGTAAVVLPMTEQKKWVFKTTQNDDLIANALVAQMVKSKVKTVGFITINDPFGENWA 178 P+ TA + W F+ Q+ ++A +V QM K VKT+GF+ +D +GENW Sbjct: 117 ISPIETA------EGKDAWTFRLPQSTAVMAGGVVNQMKKLGVKTIGFLGYSDSYGENWL 170 Query: 179 KVFGELAAKNNIKIVANERYQRTDTSVTAQTLKILAANPDAVLVAAPGAATVLPQTTLYD 238 K LA +K+ ER+ R DTSVTAQ L+++++NPDAVLV A G+ +P L + Sbjct: 171 KEVQRLATAAGMKMGTVERFSRADTSVTAQALRVVSSNPDAVLVVASGSGAAMPHKALIE 230 Query: 239 QGYKGKMYQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYK 298 +GYKGK++QTH AA ++LG VEG + + +V +PDSN SKK+A D++ Y+ Sbjct: 231 RGYKGKIFQTHSAASRDLIRLGGKDVEGAYVISGPAVVPEALPDSNASKKLAMDFVTRYE 290 Query: 299 KMYNTVPAT-FGANVYDAGLLLEKAIPVAAKKAKPGSKEFRAALRDALENTREVVGTQGV 357 K + F A+ YDA L+L+K +P A KKAKPG+ FRAAL++ALE + + TQG Sbjct: 291 KQFGAGSRNLFAAHTYDAQLVLQKVVPEALKKAKPGTPAFRAALKEALETSGPIQITQGT 350 Query: 358 YNMSPADHSGFDERGRELITVKGGNW 383 N SP DH G + R ++T++ GNW Sbjct: 351 LNYSPKDHFGLGDDARIMLTIQNGNW 376 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 107/402 (26%), Positives = 170/402 (42%), Gaps = 49/402 (12%) Query: 6 LIAGAVLAAMGTLAALAGNSALAQVKIGVVSSATGPVSLVGIPQKNTVPLLPTKA----- 60 L+ GA L + AALA A +K+GV + TGP + G+ KN L + Sbjct: 13 LLIGATL----SQAALA-----ADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGG 63 Query: 61 --GDLKIEYISLDDASDPTKSVTEVKKLISEYNVDAIIGPSGSPNAMGVISFVAEAGVPM 118 GD K+ + D+ +++ KKLI + V A+ GP+ S +A A V + Sbjct: 64 VNGD-KLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVV 122 Query: 119 LAPVGTAAVVLPMTEQKKWVFKTT-QNDDLIANALVAQMVKSKVKTVGFITIND-PFGEN 176 GT+ +T + F+ + D++ + A + +K V I ND F ++ Sbjct: 123 F---GTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKS 179 Query: 177 WAKVFGELAAKNNIKIVANERYQRTDTSVTAQTLKILAANPDAVLVA--APGAATVLPQT 234 VF I + E Y + D AQ KI A NPDA++ + A AA ++ QT Sbjct: 180 GYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQT 239 Query: 235 TLYDQGYKGKMYQTHGAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYI 294 G K +G P ++ K+ + T++ + + P+ K +I Sbjct: 240 RAL--GMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPW-----SAENQTPANKA---FI 289 Query: 295 EAYKKMYNTVPATFGANVYDAGLLLEKA---IPVAAKKAKPGSKEFRAALRDALENTREV 351 AYK + P F A YDA ++ A + ++ AK R ALR AL + + Sbjct: 290 TAYKAKFGADPDQFAAQAYDAMYIVADALKNVKLSGNLAKD-----RDALRAALPAVK-I 343 Query: 352 VGTQG--VYNMSPA---DHSGFDERGRELITV-KGGNWTLLK 387 G G + +PA GFD ++ + KGG + LLK Sbjct: 344 DGATGKFAFRAAPAVAGKQVGFDADQEAIVNIAKGGKFVLLK 385 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 88/330 (26%), Positives = 144/330 (43%), Gaps = 27/330 (8%) Query: 30 VKIGVVSSATGPVSLVGIPQKNTVPLLPTK---AGDL---KIEYISLDDASDPTKSVTEV 83 +KIGV TG + +G+ ++ V L + AG L +I+ I DD + + V Sbjct: 26 IKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQIQLIERDDEAKNERGVQIA 85 Query: 84 KKLISEYNVDAIIGPSGSPNAMGVISFVAEAGVPMLAPVGTAAVVLPMTEQKK--WVFKT 141 ++LI++ V A +G + A+ F EA +P++ V T V+ E++K +VF+T Sbjct: 86 QELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGTVITKQFEKEKDNYVFRT 145 Query: 142 TQNDDLIANALVAQMV-KSKVKTVGFITINDPFGENWAKVFGELAAKNNIKIVANERYQR 200 + D + A + + V K K V + + +G+ + ++ A + VA E+Y Sbjct: 146 SAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLEKVLADKKVTPVAVEKYNI 205 Query: 201 TDTSVTAQTLKILAANPDAVLVAAPGAATVLPQTTLYDQGYKGKMYQTHGAALPAFLQLG 260 D +TAQ LK AVL G + + + + ++ F+ Sbjct: 206 KDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNS 265 Query: 261 KNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKMY--NTVP-ATFGANVYDAGL 317 G + + I D N K+ A +IEAY+K Y + +P A A YD+ L Sbjct: 266 GKNGNGARMPQTF------IQDGNTPKRKA--FIEAYQKAYKVDRMPSAVSAAQGYDSIL 317 Query: 318 LLEKAIPVAAKKAKPGSKEFRAALRDALEN 347 LL AI A G K +R ALEN Sbjct: 318 LLAAAIKQAG--TTDGDK-----VRAALEN 340 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 0.314 0.130 0.364 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: 1,103,940 Number of extensions: 42533 Number of successful extensions: 151 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 142 Number of HSP's successfully gapped: 10 Length of query: 388 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 301 Effective length of database: 1,207,925 Effective search space: 363585425 Effective search space used: 363585425 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 131 (55.1 bits)