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= 0001.0006.p (362 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate A... 93 4e-20 gi|300313870|ref|YP_003777962.1| nitrate/sulfonate/bicarbonate A... 87 2e-18 gi|300310977|ref|YP_003775069.1| alkanesulfonates ABC transporte... 78 1e-15 gi|300310915|ref|YP_003775007.1| alkanesulfonates ABC transporte... 73 3e-14 gi|300309984|ref|YP_003774076.1| nitrate/sulfonate/bicarbonate A... 59 8e-10 >gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 328 Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 134/261 (51%), Gaps = 19/261 (7%) Query: 3 LDRRTVLKQLAAGGVGVGTAMLG--LQARAANKPAIIRIGVAQPGIGNPPQFSGSSAAVA 60 + RR L+ LA +GV TA+ G L + AA P +IR+ A +PP V Sbjct: 1 MHRRDFLR-LAPAALGV-TALGGIPLLSSAAQPPKVIRLDYA---YYSPPSL------VL 49 Query: 61 NAKGWVEEEFKADGIKVEWFFFKGAGPAVNEALSNKQLDFAFQGDLPSIVAKSAGLKTRL 120 GW+EE+ KA G +V+W +G+ A+ E L++ +DF L +++A++ G + Sbjct: 50 RKFGWLEEDLKAQGTEVKWVLSQGSNRAL-EYLNSDSVDFGSTAGLAALLARANGNPVKA 108 Query: 121 ILATGVRSNIYLAVPPDSPIQSVKDLRGKRVAIFKGTNAQLPINRVLEANGLQERDLRAI 180 + LAV +SP++S+ +L+GK++A KGT+ L + R L NGL++ D+ + Sbjct: 109 VYIYSRPEWTALAVGKESPVKSINELKGKKIAATKGTDPYLFLLRALHENGLKKSDVEIV 168 Query: 181 NLDQATTLAALSTKDIDAAFG-NINLLRLRDKNAARIVYSSKGGSPIFTTQSHVLVTEEF 239 +L A AAL + A G + +L + +R++Y + F T + V++ F Sbjct: 169 HLQHADGRAALEQGRVAAWAGLDPHLAASELEAGSRLIYRNVN----FNTYGFLNVSDSF 224 Query: 240 AQQYPEITARVVKTFVKTSKW 260 A ++P+ RV+ + + W Sbjct: 225 AARHPDQVKRVIAAYERARSW 245 >gi|300313870|ref|YP_003777962.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 78/267 (29%), Positives = 125/267 (46%), Gaps = 38/267 (14%) Query: 5 RRTVLKQLAAGGVGVGTAMLGLQARAANKPAIIRIGVAQPGIGNPPQFSGSSAAVANAKG 64 RR +L+ LAAG + GT ++ AA+K ++RIG + N + G Sbjct: 10 RRLLLQGLAAGALASGTPLV---RAAADK--VLRIGYQKFNTLN----------ILKGSG 54 Query: 65 WVEEEFKADGIKVEWFFFKGAGPAVNEALSNKQLDFAFQGDLPSIVAKSAGLKTRLILAT 124 +E+ + G V+WF F AGP + EAL+ +D D PS+ A ++G+ + A Sbjct: 55 KLEQALQPQGWSVKWFEF-AAGPQLTEALNANAIDLGHAADTPSVFANASGVNAVYLGAE 113 Query: 125 G-VRSNIYLAVPPDSPIQSVKDLRGKRVAIFKGTNAQLPINRVLEANGLQERDLRAINLD 183 I + V +SPI+SV DL+GK+VA +G N Q + + LE GL RD+ + + Sbjct: 114 QPYPKGIGIFVAQESPIRSVADLKGKKVATGRGWNVQFLLLKALEEVGLSYRDIEPVYVT 173 Query: 184 QATTLAALSTKDIDAAF--GNINLLRLRDKNAA--------RIVYSSKGGSPIFTTQSHV 233 A D+ AAF GN++ L D A RI+ + G+ + ++ Sbjct: 174 NAA--------DVRAAFQSGNVDAATLWDPFLAGQELATRPRIL---RDGTGLSNNRTFH 222 Query: 234 LVTEEFAQQYPEITARVVKTFVKTSKW 260 L F ++ +I V KT++W Sbjct: 223 LAVPSFVDRHKDIVRTVFAELKKTNQW 249 >gi|300310977|ref|YP_003775069.1| alkanesulfonates ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 59/197 (29%), Positives = 102/197 (51%), Gaps = 15/197 (7%) Query: 5 RRTVLKQLAAGGVGVGTAMLGLQARAANKPAIIRIGVAQPGIGNPPQFSGSSAAVANAKG 64 RR +++L+A +G T LG A + ++RIG Q + ++ + A G Sbjct: 13 RRRAIQRLSAIALGALTIALGASPVQAQETKLLRIGY---------QKAANTLVLLKAHG 63 Query: 65 WVEEEFKADGIKVEWFFFKGAGPAVNEALSNKQLDFAFQGDLPSIVAKSAG---LKTRLI 121 +E+ + G++V+W F AGP + EAL+ +DF + G+ P + A++AG + T Sbjct: 64 TLEKRLQPLGVEVKWAEF-AAGPQLLEALNVGSVDFGYVGEAPPVFAQAAGADFVYTAYE 122 Query: 122 LATGVRSNIYLAVPPDSPIQSVKDLRGKRVAIFKGTNAQLPINRVLEANGLQERDLRAIN 181 + T L V +SPI+SV +L+GK++A KG++ + +L+ GLQ D++ + Sbjct: 123 IPTPDAEG--LLVQKNSPIKSVAELKGKKIAFNKGSDVHWLVVALLKKAGLQYSDIQPVY 180 Query: 182 LDQATTLAALSTKDIDA 198 L A AA +DA Sbjct: 181 LAPADARAAFERGAVDA 197 >gi|300310915|ref|YP_003775007.1| alkanesulfonates ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 336 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 58/212 (27%), Positives = 101/212 (47%), Gaps = 6/212 (2%) Query: 52 FSGSSAAVANAKGWVEEEFKADGIKVEWFFFKGAGPAVNEALSNKQLDFAFQGDLPSIVA 111 + + ++ A G +E+ G V+W F AGP EAL +DF G+ P I A Sbjct: 57 YQKGALSLIRAHGVLEQRLAPLGATVKWVEFS-AGPVQLEALGAGSIDFGDVGEAPPIFA 115 Query: 112 KSAGLKTRLILATGVRSNI-YLAVPPDSPIQSVKDLRGKRVAIFKGTNAQLPINRVLEAN 170 ++AG + AT R + + V DS +Q + L+GKR+A+ KG+N + ++LE + Sbjct: 116 QAAGTPLVYVGATVPRPYVEAVLVKDDSELQRPQQLKGKRIALNKGSNVHYFLVKLLEKH 175 Query: 171 GLQERDLRAINLDQATTLAALSTKDIDA-AFGNINLLRLRDKNAARIVYSSKGGSPIFTT 229 GL+ D+ + L A AA +DA A L + ARI+ + G + Sbjct: 176 GLKYGDVTPVWLAPADARAAFERGAVDAWAIWEPYLAAAQQGLKARILADADG---VVKN 232 Query: 230 QSHVLVTEEFAQQYPEITARVVKTFVKTSKWA 261 +++ T ++A+ + ++ ++ K WA Sbjct: 233 RAYYFSTRDYARDHADLLRIALEELGKIDAWA 264 >gi|300309984|ref|YP_003774076.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 328 Score = 58.5 bits (140), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 69/259 (26%), Positives = 110/259 (42%), Gaps = 19/259 (7%) Query: 5 RRTVLKQLAAGGVGVGTAMLGLQARAANKPAIIRIGVAQPGIGNPPQFSGSSAAVANAKG 64 RR +L AA +G+G+A+ A AI RIG Q S + + A G Sbjct: 10 RRRLLH--AATALGLGSALAPASVFAQGNKAI-RIGY---------QKSSTLLTILKANG 57 Query: 65 WVEEEFKADGIKVEWFFFKGAGPAVNEALSNKQLDFAFQ-GDLPSIVAKSAGLKTRLILA 123 +E+ G K+ W F P + EAL+ +D + D + A++AG K + Sbjct: 58 TLEKLLAPTGAKISWHEFASGLPLL-EALNVGGVDLSADVADTVPVFAQAAGAKLAYVAQ 116 Query: 124 TGVR-SNIYLAVPPDSPIQSVKDLRGKRVAIFKGTNAQLPINRVLEANGLQERDLRAINL 182 + + V DS ++ DL+GK++A+ K + LE GL+ D+ A L Sbjct: 117 ESPSPAAQAIVVRADSVLRKASDLKGKKIAVTKAAGVHYLLIATLEKAGLKFSDVDAAYL 176 Query: 183 DQATTLAALSTKDIDA-AFGNINLLRLRDKNAARIVYSSKGGSPIFTTQSHVLVTEEFAQ 241 A AA +DA + L ++ ++ RI+ +G + Q + L + FAQ Sbjct: 177 SPADGRAAFERGSVDAWVTWDPFLAGVQRQSQVRILSDGRG---VADYQRYYLASASFAQ 233 Query: 242 QYPEITARVVKTFVKTSKW 260 PE+ V KT W Sbjct: 234 ARPEVLRVVFDELQKTGHW 252 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 0.134 0.391 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: 1,118,370 Number of extensions: 46721 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 7 Length of query: 362 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 276 Effective length of database: 1,212,660 Effective search space: 334694160 Effective search space used: 334694160 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)