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= 0035.0002.p (288 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309401|ref|YP_003773493.1| nitrate/sulfonate/bicarbonate A... 548 e-157 gi|300311840|ref|YP_003775932.1| nitrate/sulfonate/bicarbonate A... 323 1e-89 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 94 2e-20 gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporte... 87 2e-18 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 68 7e-13 >gi|300309401|ref|YP_003773493.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 548 bits (1412), Expect = e-157, Method: Compositional matrix adjust. Identities = 278/288 (96%), Positives = 286/288 (99%) Query: 1 MPQTPPIRDEYELPLTPLPGLVLQRQFSLPQRIWQQGWVRKGAILLLLALIWEGVARWQN 60 M QTPPIRDEYE+PLTPLPGLVLQRQFSLPQR+WQQGWVRKGAILLLLAL+WEGVARWQN Sbjct: 1 MAQTPPIRDEYEIPLTPLPGLVLQRQFSLPQRLWQQGWVRKGAILLLLALVWEGVARWQN 60 Query: 61 NDLLLPTFLQTAQAFIDGLKTGELFGKTWLSLQVLLKAYLLGIVAAFVLTTLAVSTQFGR 120 NDLLLP+FLQTAQAFIDGL++GELFGKTWLSLQVLLKAY+LGIVAAF LTTLAVSTQFGR Sbjct: 61 NDLLLPSFLQTAQAFIDGLRSGELFGKTWLSLQVLLKAYVLGIVAAFALTTLAVSTQFGR 120 Query: 121 DLLGTLTSMFNPLPAIALLPIALLWFGLGEGSLIFVLVHSVLWALAVNTYAGFLGVSDTL 180 DLLGTLTSMFNPLPAIALLPIALLWFGLG+GSLIFVLVHSVLWALAVNTYAGFLGVSDTL Sbjct: 121 DLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTL 180 Query: 181 RMAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGKGGLGW 240 RMAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGKGGLGW Sbjct: 181 RMAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGKGGLGW 240 Query: 241 YIFQNRNELYTDKVFAGLAMVILIGLLVENLVFNTLERVTVKKWGMQR 288 YIFQNRNELYTDKVFAGLAMVILIGLLVENLVFNTLERVTVKKWGMQR Sbjct: 241 YIFQNRNELYTDKVFAGLAMVILIGLLVENLVFNTLERVTVKKWGMQR 288 >gi|300311840|ref|YP_003775932.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 289 Score = 323 bits (828), Expect = 1e-89, Method: Compositional matrix adjust. Identities = 167/284 (58%), Positives = 215/284 (75%) Query: 5 PPIRDEYELPLTPLPGLVLQRQFSLPQRIWQQGWVRKGAILLLLALIWEGVARWQNNDLL 64 P +R E + P +QR S + +++ GW+RK ILL+LA IWE RW +N LL Sbjct: 6 PFVRPEILVDPNPHATAEVQRPLSAFESLYRMGWLRKTVILLVLAAIWEVYGRWLDNALL 65 Query: 65 LPTFLQTAQAFIDGLKTGELFGKTWLSLQVLLKAYLLGIVAAFVLTTLAVSTQFGRDLLG 124 P+F +T QAF+ G+ +G L + +S+Q LL Y LGI+ A +LTT+A+S++ G DLL Sbjct: 66 FPSFSETVQAFLSGIGSGVLLQRAAVSMQTLLVGYGLGILLAGLLTTVAISSRIGNDLLE 125 Query: 125 TLTSMFNPLPAIALLPIALLWFGLGEGSLIFVLVHSVLWALAVNTYAGFLGVSDTLRMAG 184 TLTSMFNPLPAIALLP+AL+WFGLG GS+IFVLVHSVLWA+A+NT+ GF VS+TLRM G Sbjct: 126 TLTSMFNPLPAIALLPLALIWFGLGTGSIIFVLVHSVLWAVALNTHGGFRAVSNTLRMVG 185 Query: 185 RNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGKGGLGWYIFQ 244 +NYGLR V +L+PAA PSIL GL++GWAFAWRTLIAAELVFG +SG GGLGWYIF+ Sbjct: 186 QNYGLRRFSLVKSILIPAAFPSILTGLKVGWAFAWRTLIAAELVFGVSSGAGGLGWYIFE 245 Query: 245 NRNELYTDKVFAGLAMVILIGLLVENLVFNTLERVTVKKWGMQR 288 NRN+L T VF+GL VI+IGL+VENL+F +E+ T+++WGMQ Sbjct: 246 NRNQLETANVFSGLFFVIIIGLVVENLIFAQIEKRTIRRWGMQH 289 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 93.6 bits (231), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 67/218 (30%), Positives = 112/218 (51%), Gaps = 4/218 (1%) Query: 52 WEGVARWQNNDLLLPTFLQTAQAFIDGLKTGELFGKTWLSLQVLLKAYLLGIVAAFVLTT 111 W + +W L + A +++ +GEL SL ++ +L+G A L Sbjct: 41 WAVLRKWVEYATPLKPYDPEAGSWLAWAFSGELVMDAIGSLYRVVAGFLIGAGLALPLGL 100 Query: 112 LAVSTQFGRDLLGTLTSMFNPLPAIALLPIALLWFGLGEGSLIFVLVHSVLWALAVNTYA 171 L S+Q L+ + P+P IA +P+A+LWFGLG +F++ + + +NT A Sbjct: 101 LMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAILWFGLGNPPALFLISLGAFFPVLMNTIA 160 Query: 172 GFLGVSDTLRMAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGA 231 G V A RN G L+V++PAA+P IL+G+RIG A+ +I AE++ Sbjct: 161 GVRQVDSIYLRAARNLGASQSTLFLRVMLPAAVPYILSGVRIGIGTAFIVVIVAEMI--- 217 Query: 232 TSGKGGLGWYIFQNRNELYTDKVFAGLAMVILIGLLVE 269 + GLG+ I + R ++DK+ AG+ + L+GL ++ Sbjct: 218 -AVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAID 254 >gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 279 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 52/149 (34%), Positives = 79/149 (53%), Gaps = 4/149 (2%) Query: 122 LLGTLTSMFNPLPAIALLPIALLWFGLGEGSLIFVLVHSVLWALAVNTYAGFLGVSDTLR 181 LL T M +PA+AL+P+ +LWFG+ E + +F++ V + + +NT+ G V L Sbjct: 118 LLDTTLQMVRNIPALALIPLVILWFGIDETAKLFLVSVGVFFPVYLNTFHGIRSVDQGLI 177 Query: 182 MAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGKGGLGWY 241 ++YGL G V++P ALP+IL GLR W LI AE + S + G+G+ Sbjct: 178 EMAKSYGLSGWPLYRDVILPGALPAILVGLRFALGLVWVLLIVAETI----SAQAGIGYM 233 Query: 242 IFQNRNELYTDKVFAGLAMVILIGLLVEN 270 R L TD V G+ + L+G L + Sbjct: 234 TMNAREFLQTDVVLVGILLYALLGKLADT 262 >gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 68.2 bits (165), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 66/237 (27%), Positives = 108/237 (45%), Gaps = 9/237 (3%) Query: 37 GWVRKGAILLLLALIWEGVARWQ-NNDLLLPTFLQTAQAFIDGLKTGELFGKTWLSLQVL 95 GW+ A LLL+ E AR + LLP + A + GEL SL + Sbjct: 28 GWIVPLAFLLLV----EAGARLELIPARLLPPPSELAHTLWSLAQRGELLPHIAASLARV 83 Query: 96 LKAYLLGIVAAFVLTTLAVSTQFGRDLLGTLTSMFNPLPAIALLPIALLWFGLGEGSLIF 155 +++G A L L ++ LL +P++A +P+ LLW G+ E + Sbjct: 84 AAGFVIGSALAVALGLLVGISRRAEALLEPSFQALRAIPSLAWIPLLLLWLGIDETPKVV 143 Query: 156 VLVHSVLWALAVNTYAGFLGVSDTLRMAGRNYGLRGLGFVLQVLVPAALPSILAGLRIGW 215 ++ + + +N AG + L G GL + +L+PA+LP + AGLR G Sbjct: 144 LIAIGAFFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIGHILLPASLPYLFAGLRGGL 203 Query: 216 AFAWRTLIAAELVFGATSGKGGLGWYIFQNRNELYTDKVFAGLAMVILIGLLVENLV 272 + AW L+AAEL+ + G+G+ + R D V A + ++ L+G L + L+ Sbjct: 204 SLAWMFLVAAELI----AATKGVGYLLSDGRESSRPDLVLAAILILALLGKLSDGLL 256 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 0.327 0.143 0.450 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: 935,256 Number of extensions: 40183 Number of successful extensions: 225 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 16 Length of query: 288 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 204 Effective length of database: 1,222,130 Effective search space: 249314520 Effective search space used: 249314520 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 (21.7 bits) S2: 130 (54.7 bits)