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= 0001.2010.p (267 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 519 e-148 gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/sign... 115 5e-27 gi|300310494|ref|YP_003774586.1| amino acid ABC transporter/sign... 105 4e-24 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 105 4e-24 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 102 4e-23 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 519 bits (1336), Expect = e-148, Method: Compositional matrix adjust. Identities = 262/267 (98%), Positives = 265/267 (99%) Query: 1 MNKNIKQWLLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDAKTGEL 60 MNKNIKQWLLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKD KTGEL Sbjct: 1 MNKNIKQWLLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDPKTGEL 60 Query: 61 TGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDP 120 TGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDP Sbjct: 61 TGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDP 120 Query: 121 YTLSSAQLIVRKDEKRDFKSLDDLKGKKLGLGQGTNFEQKAKAVPGIDVRTYPGSPEYLA 180 YTLSSAQLIVRKDEKR+FKSL+DLKGKKLGLGQGTNFEQKAKAVPGIDVRTYPGSPEYLA Sbjct: 121 YTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQKAKAVPGIDVRTYPGSPEYLA 180 Query: 181 DLAAGRIDAALNDSLLVGYILKSTNLPLKAGSPIGTVDKIGIPFRKGNPEFKAALNKALA 240 DLAAGRIDAALNDSLLVGYILKSTNLPLKAGSPIG VDKIGIPFRKGNPEFKAALNKALA Sbjct: 181 DLAAGRIDAALNDSLLVGYILKSTNLPLKAGSPIGAVDKIGIPFRKGNPEFKAALNKALA 240 Query: 241 EIKADGSFKAASEKWFGIDVSQPPKAQ 267 +IKADGSFKAASEKWFGIDVSQPPKAQ Sbjct: 241 DIKADGSFKAASEKWFGIDVSQPPKAQ 267 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 115 bits (287), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 74/222 (33%), Positives = 124/222 (55%), Gaps = 7/222 (3%) Query: 41 VALEGNYPPFNFKDAKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDV 100 V +E Y PF+ ++ + ++ GF++D+ K LA K+G++ F T + G L G D+ Sbjct: 51 VGVESAYAPFSSENEQK-DVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDL 109 Query: 101 IINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKRDFKSLDDLKGKKLGLGQGTNFEQK 160 +I+ + ITDER+K+ FS+PY +++ Q I ++DLK +G T+ ++ Sbjct: 110 LISAITITDERKKSVAFSEPYFVAT-QTIALPAADTKVSKMEDLKPLTVGTQSATSGDEL 168 Query: 161 AKAVPGID---VRTYPGSPEYLADLAAGRIDAALNDSLLV-GYILKSTNLPLKAGS-PIG 215 + V G + ++ + +P L +L +G +DA + D +V YI + N L+ + P Sbjct: 169 VQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSF 228 Query: 216 TVDKIGIPFRKGNPEFKAALNKALAEIKADGSFKAASEKWFG 257 + GI RK +PE A +NK LAE+KADGSF A S ++FG Sbjct: 229 PKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYFG 270 >gi|300310494|ref|YP_003774586.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 105 bits (262), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 71/212 (33%), Positives = 102/212 (48%), Gaps = 6/212 (2%) Query: 49 PFNFKDAKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGIT 108 PF F D KT +L G VD + K G T ++ ++ L K D+I + T Sbjct: 45 PFTFLDIKTNKLQGMMVDTVTAVGNKAGFSVNIQQTPFAALIPSLTGNKIDIIAAAMLKT 104 Query: 109 DERQKAFDFSDPYTLSSAQLIVRKDEKRDFKSLDDLKGKKLGLGQGTNFEQKAKAVPGI- 167 + R + DFSDP L V + + +K+LDDLKG+ +G GT F G Sbjct: 105 EARAQIVDFSDPVYSYGEGLFVNAQDGKSYKNLDDLKGEIVGAQVGTVFVDALNKKGGFK 164 Query: 168 DVRTYPGSPEYLADLAAGRIDAALNDSLLVGYILKSTNLP----LKAGSPIGTVDKIGIP 223 +V+TY + + D+A GRI A D +V Y L P +K P D + + Sbjct: 165 EVKTYDSVADMMRDVALGRIKAGFGDRPIVAYQLAQGANPQVRLVKEYQPTLMGD-VCLV 223 Query: 224 FRKGNPEFKAALNKALAEIKADGSFKAASEKW 255 RKG+P+ LNKA+AE+KADG+ E+W Sbjct: 224 IRKGDPKLMERLNKAIAELKADGTLARIVEQW 255 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 105 bits (262), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 81/247 (32%), Positives = 123/247 (49%), Gaps = 14/247 (5%) Query: 23 SVSAADLLQSVKSSGTLKVALEGNYPPFNFKDAKTGELTGFEVDVAKLLAAKLGVKPVFT 82 S+ A ++ + + TL VA + + PF FKD + GF++D+ +A +GV Sbjct: 12 SLVALSVVGASARAETLVVACDTAFVPFEFKD--RNQYVGFDIDLWDAIAKDIGVTYKLQ 69 Query: 83 TTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKRDFKSLD 142 +++GI+ L DV + + I DER+K DFSD Y S L+V KS+ Sbjct: 70 PMDFNGIIPALQTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVGSS--IKSVA 127 Query: 143 DLKGKKLGLGQGTNFEQKAKA-VPGIDVRTYPGSPEYLADLAAGRIDAALNDSLLVGYIL 201 DL GK L + GT+ AKA ++ +P +L GR+DAA++D+ V Y + Sbjct: 128 DLAGKALAVKSGTSAFDYAKANFKATELHQFPNIDNAYLELQTGRVDAAMHDTPNVLYYI 187 Query: 202 KSTNLPLKAGSPIGT---VDKIGIPFRKGNPEFKAALNKALAEIKADGSFKAASEKWFGI 258 + +GT + GI F KG+P +N ALA+IKADG + KWFG Sbjct: 188 ATAG--KGRAKVVGTQMMAHQYGIGFPKGSP-LVPKVNAALAKIKADGRYAEIYRKWFG- 243 Query: 259 DVSQPPK 265 ++PPK Sbjct: 244 --AEPPK 248 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 102 bits (253), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 77/259 (29%), Positives = 132/259 (50%), Gaps = 16/259 (6%) Query: 3 KNIKQWLLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDAKTGELTG 62 K + L AG+ +SLS+ A + + + ++V + +PP F K G+ TG Sbjct: 2 KTFSKLLCAGM------ASLSLLIAAVPAAHANGEVIRVGTDATFPPMEF--VKDGKRTG 53 Query: 63 FEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYT 122 F+V++ + LA +G K + ++ G++ GL + ++D+ + + +TDER+K +FSDPY Sbjct: 54 FDVELIEALAKTMGKKVQWIDIDFKGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYY 113 Query: 123 LSSAQLIVRKDEKRDFKSLDDL-KGKKLGLGQGTNFEQKAK-AVPGIDVRTYPGSPEYLA 180 ++VR+D+ K +DL KGK++ + GT K PG++ + Sbjct: 114 RGGLAVLVRRDDN-SIKVPEDLNKGKRVSVQVGTKSVGYLKDNFPGVERVEVEKNQAMFD 172 Query: 181 DLAAGRIDAALNDS-LLVGYILKSTNLPLKAGSPIG-TVDKIGIPFRKGNPEFKAALNKA 238 LA GR++A + V Y + PL G T + G RK + E A LNKA Sbjct: 173 LLATGRVNAVVTGRPAAVEY---ARTQPLVRVLDKGLTTELYGFALRKSDTELTAQLNKA 229 Query: 239 LAEIKADGSFKAASEKWFG 257 L ++ +G++ A ++KWFG Sbjct: 230 LQTLRMNGTYTALTDKWFG 248 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 0.134 0.378 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: 712,858 Number of extensions: 27341 Number of successful extensions: 121 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 100 Number of HSP's successfully gapped: 17 Length of query: 267 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 183 Effective length of database: 1,222,130 Effective search space: 223649790 Effective search space used: 223649790 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 (21.9 bits) S2: 130 (54.7 bits)