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= 0003.0019.p (271 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 194 8e-51 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 159 3e-40 gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporte... 130 2e-31 gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate A... 124 1e-29 gi|300310541|ref|YP_003774633.1| nitrate transporter permease [H... 107 7e-25 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 194 bits (492), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 108/255 (42%), Positives = 165/255 (64%), Gaps = 8/255 (3%) Query: 17 VPLLLVLFWEAFSRSGVIPASLLPAPSRVFATWMDWIFGINEAAQDS--------SGKWI 68 VP++++ WE SR+G I +LP+P V W+++ + ++ SG+ + Sbjct: 15 VPIIVIALWEGASRAGWINPQILPSPWAVLRKWVEYATPLKPYDPEAGSWLAWAFSGELV 74 Query: 69 YDAMASCLRVTAGYLIAALSGIALGVAIGWWRWVERTIEPTVQMLRPIPPVSWIPLAIIW 128 DA+ S RV AG+LI A + LG+ +G + + + TVQ++RPIPP+++IPLAI+W Sbjct: 75 MDAIGSLYRVVAGFLIGAGLALPLGLLMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAILW 134 Query: 129 FGIANKPAIFLVFLGAFFPILMNTVHGVKTADRNLLRAAAMAGAKQSQLLRFVILPAAMP 188 FG+ N PA+FL+ LGAFFP+LMNT+ GV+ D LRAA GA QS L V+LPAA+P Sbjct: 135 FGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQSTLFLRVMLPAAVP 194 Query: 189 SIFAGLRIGIGSAWMLTVTAEMVAVKSGLGYALWDSYYFLRYDLVIAAMISIGLLGFLAD 248 I +G+RIGIG+A+++ + AEM+AV +GLG+ + ++ + D +IA MI+IGLLG D Sbjct: 195 YILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAID 254 Query: 249 WILKQIMHSMLRWQH 263 + ++ + MLRW Sbjct: 255 LGMSRLNNYMLRWHR 269 >gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 159 bits (401), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 99/264 (37%), Positives = 146/264 (55%), Gaps = 12/264 (4%) Query: 3 GWKQSLSEAKWRFA---VPLLLVLFWEAFSRSGVIPASLLPAPSRVFATWMDWIFGINEA 59 GW + RF VPL +L EA +R +IPA LLP PS + T W Sbjct: 14 GWPHDDAYRPGRFTGWIVPLAFLLLVEAGARLELIPARLLPPPSELAHTL--WSLA---- 67 Query: 60 AQDSSGKWIYDAMASCLRVTAGYLIAALSGIALGVAIGWWRWVERTIEPTVQMLRPIPPV 119 G+ + AS RV AG++I + +ALG+ +G R E +EP+ Q LR IP + Sbjct: 68 ---QRGELLPHIAASLARVAAGFVIGSALAVALGLLVGISRRAEALLEPSFQALRAIPSL 124 Query: 120 SWIPLAIIWFGIANKPAIFLVFLGAFFPILMNTVHGVKTADRNLLRAAAMAGAKQSQLLR 179 +WIPL ++W GI P + L+ +GAFFP+ +N V G++ D L+ +G L+ Sbjct: 125 AWIPLLLLWLGIDETPKVVLIAIGAFFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIG 184 Query: 180 FVILPAAMPSIFAGLRIGIGSAWMLTVTAEMVAVKSGLGYALWDSYYFLRYDLVIAAMIS 239 ++LPA++P +FAGLR G+ AWM V AE++A G+GY L D R DLV+AA++ Sbjct: 185 HILLPASLPYLFAGLRGGLSLAWMFLVAAELIAATKGVGYLLSDGRESSRPDLVLAAILI 244 Query: 240 IGLLGFLADWILKQIMHSMLRWQH 263 + LLG L+D +L+ + L W+ Sbjct: 245 LALLGKLSDGLLRAVEQKSLGWRE 268 >gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 279 Score = 130 bits (326), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 85/242 (35%), Positives = 138/242 (57%), Gaps = 13/242 (5%) Query: 23 LFWEAFSRSGVIPASLLPAPSRVF-ATWMDWIFGINEAAQDSSGK-WIYDAMASCLRVTA 80 ++WE +++G + + +LP P V A W +SG+ W + A++S R + Sbjct: 45 VWWEVAAQAGWLSSRILPEPLAVLKAAW----------ELSASGELWRHLAVSSG-RAAS 93 Query: 81 GYLIAALSGIALGVAIGWWRWVERTIEPTVQMLRPIPPVSWIPLAIIWFGIANKPAIFLV 140 G+ + A G+ LG+ G R E ++ T+QM+R IP ++ IPL I+WFGI +FLV Sbjct: 94 GFAVGAGLGLILGLLSGSLRSAELLLDTTLQMVRNIPALALIPLVILWFGIDETAKLFLV 153 Query: 141 FLGAFFPILMNTVHGVKTADRNLLRAAAMAGAKQSQLLRFVILPAAMPSIFAGLRIGIGS 200 +G FFP+ +NT HG+++ D+ L+ A G L R VILP A+P+I GLR +G Sbjct: 154 SVGVFFPVYLNTFHGIRSVDQGLIEMAKSYGLSGWPLYRDVILPGALPAILVGLRFALGL 213 Query: 201 AWMLTVTAEMVAVKSGLGYALWDSYYFLRYDLVIAAMISIGLLGFLADWILKQIMHSMLR 260 W+L + AE ++ ++G+GY ++ FL+ D+V+ ++ LLG LAD + + LR Sbjct: 214 VWVLLIVAETISAQAGIGYMTMNAREFLQTDVVLVGILLYALLGKLADTAARWLERFWLR 273 Query: 261 WQ 262 W Sbjct: 274 WH 275 >gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 256 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 67/197 (34%), Positives = 116/197 (58%) Query: 63 SSGKWIYDAMASCLRVTAGYLIAALSGIALGVAIGWWRWVERTIEPTVQMLRPIPPVSWI 122 S G +AS R+ AG+ + G+ LG+ +G + V + ++P ++ R IPP++++ Sbjct: 56 SDGTLQQSVLASSGRILAGWGAGVVIGVPLGIFMGRFETVRQLLDPYIEFFRFIPPIAFV 115 Query: 123 PLAIIWFGIANKPAIFLVFLGAFFPILMNTVHGVKTADRNLLRAAAMAGAKQSQLLRFVI 182 LA+IW G I L+F F + +NT+ GV+ + LRAAA GA Q ++L VI Sbjct: 116 TLAVIWLGPGELSKIALIFYTTVFIVTLNTIAGVQAVNPLRLRAAASLGAGQWKILSTVI 175 Query: 183 LPAAMPSIFAGLRIGIGSAWMLTVTAEMVAVKSGLGYALWDSYYFLRYDLVIAAMISIGL 242 LP+ +P + G RI +G++++ V+AE+V+ + GLG +W + F R + V +I++G+ Sbjct: 176 LPSTVPFMVTGARIAMGNSFLTVVSAEIVSAREGLGALIWTARNFSRTEWVFVGIIALGI 235 Query: 243 LGFLADWILKQIMHSML 259 LG+L D +L+ +L Sbjct: 236 LGYLFDRVLRVATRKLL 252 >gi|300310541|ref|YP_003774633.1| nitrate transporter permease [Herbaspirillum seropedicae SmR1] Length = 307 Score = 107 bits (268), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 53/161 (32%), Positives = 100/161 (62%) Query: 69 YDAMASCLRVTAGYLIAALSGIALGVAIGWWRWVERTIEPTVQMLRPIPPVSWIPLAIIW 128 ++ +AS RV G+ +AAL GI LG AIG ++ R P + +LRP+ P++W+P+ ++ Sbjct: 111 WNVLASLQRVGTGFGLAALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLV 170 Query: 129 FGIANKPAIFLVFLGAFFPILMNTVHGVKTADRNLLRAAAMAGAKQSQLLRFVILPAAMP 188 F AN AI+ +F+ + +P+++NT GV+ ++ + A + + ++L ++ P+ +P Sbjct: 171 FKSANPAAIWSIFICSIWPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLP 230 Query: 189 SIFAGLRIGIGSAWMLTVTAEMVAVKSGLGYALWDSYYFLR 229 + G+R+ IG+AW++ V AEM+ G+G+ +WD + L Sbjct: 231 YMLTGVRLSIGTAWLVIVAAEMLTGGVGIGFWVWDEWNNLN 271 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 0.328 0.138 0.455 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: 926,482 Number of extensions: 39716 Number of successful extensions: 231 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 216 Number of HSP's successfully gapped: 17 Length of query: 271 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 187 Effective length of database: 1,222,130 Effective search space: 228538310 Effective search space used: 228538310 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 130 (54.7 bits)