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= 0001.3584.p (345 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate A... 677 0.0 gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate A... 215 4e-57 gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate A... 204 9e-54 gi|300309984|ref|YP_003774076.1| nitrate/sulfonate/bicarbonate A... 59 7e-10 gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate A... 56 4e-09 >gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 677 bits (1746), Expect = 0.0, Method: Compositional matrix adjust. Identities = 334/345 (96%), Positives = 340/345 (98%) Query: 1 MKLSWKQLLIATGLFLAGYFSFNGSADAQALEKPKVSIAVGGKNLFYYLPLTIAEQLGYF 60 MKLSWKQLLIA GLFLAGYFSFNGSA AQALEKPKVSIAVGGKNLFYYLPLTIAEQLGYF Sbjct: 1 MKLSWKQLLIAAGLFLAGYFSFNGSAGAQALEKPKVSIAVGGKNLFYYLPLTIAEQLGYF 60 Query: 61 KDEGLQVEISDFAGGAKALQAMVGGSADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQIV 120 KDEGLQVEISDFAGGAKALQAMVGGSADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQIV Sbjct: 61 KDEGLQVEISDFAGGAKALQAMVGGSADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQIV 120 Query: 121 LAVNNKTMPNYKSVADLKGKKIGVTAPGSSTSIMASYVLAKAGLKPTDVSFIGVGAAAGA 180 LAVNNKTMPNYK+VADLKGKKIGVTAPGSSTS+MASYVLAKAGLKP+DVSFIGVGAAAGA Sbjct: 121 LAVNNKTMPNYKTVADLKGKKIGVTAPGSSTSVMASYVLAKAGLKPSDVSFIGVGAAAGA 180 Query: 181 ISAIRSGQIDAIANLDPVISMLEQHNEIKIIADTRTLKDTNDVFGGPMPAATLYAPAAFI 240 ISA+RSGQIDAIANLDPVISMLEQ EIK IADTRTLKDTNDVFGGPMPAATLYAPAAFI Sbjct: 181 ISAVRSGQIDAIANLDPVISMLEQSKEIKTIADTRTLKDTNDVFGGPMPAATLYAPAAFI 240 Query: 241 QKYPNTTQALTNAMVRALKWIQKAGPSDIIKAVPESYLLGDRSLYIDAFMKVRQAISPDG 300 QKYPNTTQALTNAMVRALKWIQKAGPSDIIKAVPESYLLGDRSLYIDAFMKVRQAISPDG Sbjct: 241 QKYPNTTQALTNAMVRALKWIQKAGPSDIIKAVPESYLLGDRSLYIDAFMKVRQAISPDG 300 Query: 301 YFPPGGPDTALRTLKAFEPALADKQIDLSKTFTNAFVQKANAKYK 345 YFPPGGPDTALRTLKAFEP+LADKQIDLSKTFTN+FVQKANAKYK Sbjct: 301 YFPPGGPDTALRTLKAFEPSLADKQIDLSKTFTNSFVQKANAKYK 345 >gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 215 bits (548), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 113/303 (37%), Positives = 171/303 (56%) Query: 35 KVSIAVGGKNLFYYLPLTIAEQLGYFKDEGLQVEISDFAGGAKALQAMVGGSADVVSGAY 94 K++I VGG N YLP +AEQLGYFK+EGL VE+ G A ++ G+ V G Y Sbjct: 31 KITIMVGGINKMVYLPAKLAEQLGYFKEEGLDVELQSQPAGVDAENELLAGAVQAVVGFY 90 Query: 95 EHTINMQAKNQPIVAFVLQGRAPQIVLAVNNKTMPNYKSVADLKGKKIGVTAPGSSTSIM 154 +H+I++Q K + I A V+ G+ P V V+ K P+++S+AD KGK +GVT GSST+ + Sbjct: 91 DHSIDLQTKGKEITAIVILGQVPGEVELVSTKAAPHFQSMADAKGKTLGVTGLGSSTNFL 150 Query: 155 ASYVLAKAGLKPTDVSFIGVGAAAGAISAIRSGQIDAIANLDPVISMLEQHNEIKIIADT 214 Y+ ++ G+ S + VGA I+A++ G+IDA +P S L + + +++ D Sbjct: 151 TQYLASRHGITSKQFSVLPVGADNTFIAAMKQGRIDAGMTTEPTASQLLKTGDAQVLVDL 210 Query: 215 RTLKDTNDVFGGPMPAATLYAPAAFIQKYPNTTQALTNAMVRALKWIQKAGPSDIIKAVP 274 RT++ T GG PA+++Y +++ + Q L A V+ L++IQ I +P Sbjct: 211 RTVEGTVKALGGLYPASSVYVQRSWLNSHKEDAQKLARAFVKTLRFIQTHTAEQIADKMP 270 Query: 275 ESYLLGDRSLYIDAFMKVRQAISPDGYFPPGGPDTALRTLKAFEPALADKQIDLSKTFTN 334 + Y ++ LYI A S DG P GGP T L L F P + K +DLSKT+T+ Sbjct: 271 KDYYGNNKPLYIQALTNSLPMYSQDGKMPKGGPQTVLAVLSGFNPNVKGKHVDLSKTYTD 330 Query: 335 AFV 337 FV Sbjct: 331 EFV 333 >gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 353 Score = 204 bits (519), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 112/316 (35%), Positives = 170/316 (53%) Query: 24 GSADAQALEKPKVSIAVGGKNLFYYLPLTIAEQLGYFKDEGLQVEISDFAGGAKALQAMV 83 G A QA K+ I VGG N YLP +AE LGYFK+EGL VE+ G A ++ Sbjct: 36 GLAAPQARAADKIIIMVGGINKLIYLPPKLAESLGYFKEEGLDVELQSQPAGVDAENELL 95 Query: 84 GGSADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQIVLAVNNKTMPNYKSVADLKGKKIG 143 G+ V G Y+H+I++Q+K + + + P + V + +S+ADLKGK +G Sbjct: 96 AGAVQAVVGYYDHSIDLQSKGKEVTSIAQLLLVPGGMEMVRADLADSVRSMADLKGKTLG 155 Query: 144 VTAPGSSTSIMASYVLAKAGLKPTDVSFIGVGAAAGAISAIRSGQIDAIANLDPVISMLE 203 VT GSS+S +A Y+ +AGLK D S + VGA I+A++ ++D +P S+L Sbjct: 156 VTGLGSSSSFIAQYLANRAGLKAGDYSILPVGAGNTLIAAMKQKRVDVAWTTEPTTSILL 215 Query: 204 QHNEIKIIADTRTLKDTNDVFGGPMPAATLYAPAAFIQKYPNTTQALTNAMVRALKWIQK 263 K++ D ++ T GG PA++LY +++ + +Q L V+ L++IQ Sbjct: 216 ASGAAKVLVDMSSVDGTKAALGGLYPASSLYVHRSWMNSHKAESQKLARVFVKTLRYIQT 275 Query: 264 AGPSDIIKAVPESYLLGDRSLYIDAFMKVRQAISPDGYFPPGGPDTALRTLKAFEPALAD 323 DI +P+ Y G +++Y+ A SPDG P GGP+ L+ + F P + Sbjct: 276 HSAEDIADKMPKDYYGGSKAIYVQALKASLPMYSPDGKMPAGGPEQVLKVMAGFNPNIKG 335 Query: 324 KQIDLSKTFTNAFVQK 339 K IDLSKT+TN FV + Sbjct: 336 KNIDLSKTYTNEFVDQ 351 >gi|300309984|ref|YP_003774076.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 328 Score = 58.5 bits (140), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 57/205 (27%), Positives = 98/205 (47%), Gaps = 21/205 (10%) Query: 64 GLQVEISDFAGGAKALQAM-VGG---SADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQI 119 G ++ +FA G L+A+ VGG SADV + QA + A+V Q Sbjct: 67 GAKISWHEFASGLPLLEALNVGGVDLSADVADTV---PVFAQAAGAKL-AYVAQESPSPA 122 Query: 120 VLAVNNKTMPNYKSVADLKGKKIGVT-APGSSTSIMASYVLAKAGLKPTDVSFIGVGAAA 178 A+ + + +DLKGKKI VT A G ++A+ L KAGLK +DV + A Sbjct: 123 AQAIVVRADSVLRKASDLKGKKIAVTKAAGVHYLLIAT--LEKAGLKFSDVDAAYLSPAD 180 Query: 179 GAISAIRSGQIDAIANLDPVISMLEQHNEIKIIADTRTLKDTNDVFGGPMPAATLYAPAA 238 G +A G +DA DP ++ +++ ++++I++D R + D + A A+ Sbjct: 181 GR-AAFERGSVDAWVTWDPFLAGVQRQSQVRILSDGRGVADYQRYY---------LASAS 230 Query: 239 FIQKYPNTTQALTNAMVRALKWIQK 263 F Q P + + + + + W+++ Sbjct: 231 FAQARPEVLRVVFDELQKTGHWVKQ 255 >gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 328 Score = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 106/236 (44%), Gaps = 21/236 (8%) Query: 46 FYYLPLTIAEQLGYFKD----EGLQVEISDFAGGAKALQAMVGGSADVVSGAYEHTINMQ 101 +Y P + + G+ ++ +G +V+ G +AL+ + S D S A + + Sbjct: 41 YYSPPSLVLRKFGWLEEDLKAQGTEVKWVLSQGSNRALEYLNSDSVDFGSTAGLAALLAR 100 Query: 102 AKNQPIVAFVLQGRAPQIVLAVNNKTMPNYKSVADLKGKKIGVTAPGSSTSIMASYVLAK 161 A P+ A + R LAV ++ KS+ +LKGKKI T G+ + L + Sbjct: 101 ANGNPVKAVYIYSRPEWTALAVGKES--PVKSINELKGKKIAATK-GTDPYLFLLRALHE 157 Query: 162 AGLKPTDVSFIGVGAAAGAISAIRSGQIDAIANLDPVISMLEQHNEIKIIADTRTLKDTN 221 GLK +DV + + A G +A+ G++ A A LDP ++ E ++I ++ N Sbjct: 158 NGLKKSDVEIVHLQHADGR-AALEQGRVAAWAGLDPHLAASELEAGSRLI-----YRNVN 211 Query: 222 -DVFGGPMPAATLYAPAAFIQKYPNTTQALTNAMVRALKWIQKAGPSDIIKAVPES 276 + +G L +F ++P+ + + A RA WI A P + + + E Sbjct: 212 FNTYG------FLNVSDSFAARHPDQVKRVIAAYERARSWI-IAHPDETVALLSEE 260 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 0.133 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: 1,019,873 Number of extensions: 40805 Number of successful extensions: 152 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 156 Number of HSP's successfully gapped: 7 Length of query: 345 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 259 Effective length of database: 1,212,660 Effective search space: 314078940 Effective search space used: 314078940 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)