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= 0001.0068.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... 546 e-156 gi|300311840|ref|YP_003775932.1| nitrate/sulfonate/bicarbonate A... 322 2e-89 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 94 1e-20 gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporte... 87 1e-18 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 70 2e-13 >gi|300309401|ref|YP_003773493.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 546 bits (1406), Expect = e-156, Method: Compositional matrix adjust. Identities = 277/288 (96%), Positives = 284/288 (98%) Query: 1 MPQTPPIRDEYEIPLTPLPGLVLQRQFSLPQRIWQQGWVRKGAILLLLALVWEGVARWQN 60 M QTPPIRDEYEIPLTPLPGLVLQRQFSLPQR+WQQGWVRKGAILLLLALVWEGVARWQN Sbjct: 1 MAQTPPIRDEYEIPLTPLPGLVLQRQFSLPQRLWQQGWVRKGAILLLLALVWEGVARWQN 60 Query: 61 NDLLLPTFLQTAQAFVDGIRSGELFGKTWLSLQVLMKAYVLGIVAAFVLTTLAVSSQFGR 120 NDLLLP+FLQTAQAF+DG+RSGELFGKTWLSLQVL+KAYVLGIVAAF LTTLAVS+QFGR Sbjct: 61 NDLLLPSFLQTAQAFIDGLRSGELFGKTWLSLQVLLKAYVLGIVAAFALTTLAVSTQFGR 120 Query: 121 DLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTL 180 DLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTL Sbjct: 121 DLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTL 180 Query: 181 RMAGRNYGLHGLRFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGQGGLGW 240 RMAGRNYGL GL FVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSG+GGLGW 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 = 322 bits (826), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 167/284 (58%), Positives = 214/284 (75%) Query: 5 PPIRDEYEIPLTPLPGLVLQRQFSLPQRIWQQGWVRKGAILLLLALVWEGVARWQNNDLL 64 P +R E + P +QR S + +++ GW+RK ILL+LA +WE RW +N LL Sbjct: 6 PFVRPEILVDPNPHATAEVQRPLSAFESLYRMGWLRKTVILLVLAAIWEVYGRWLDNALL 65 Query: 65 LPTFLQTAQAFVDGIRSGELFGKTWLSLQVLMKAYVLGIVAAFVLTTLAVSSQFGRDLLG 124 P+F +T QAF+ GI SG L + +S+Q L+ Y LGI+ A +LTT+A+SS+ G DLL Sbjct: 66 FPSFSETVQAFLSGIGSGVLLQRAAVSMQTLLVGYGLGILLAGLLTTVAISSRIGNDLLE 125 Query: 125 TLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTLRMAG 184 TLTSMFNPLPAIALLP+AL+WFGLG GS+IFVLVHSVLWA+A+NT+ GF VS+TLRM G Sbjct: 126 TLTSMFNPLPAIALLPLALIWFGLGTGSIIFVLVHSVLWAVALNTHGGFRAVSNTLRMVG 185 Query: 185 RNYGLHGLRFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGQGGLGWYIFQ 244 +NYGL 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 = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 112/218 (51%), Gaps = 4/218 (1%) Query: 52 WEGVARWQNNDLLLPTFLQTAQAFVDGIRSGELFGKTWLSLQVLMKAYVLGIVAAFVLTT 111 W + +W L + A +++ SGEL SL ++ +++G A L Sbjct: 41 WAVLRKWVEYATPLKPYDPEAGSWLAWAFSGELVMDAIGSLYRVVAGFLIGAGLALPLGL 100 Query: 112 LAVSSQFGRDLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYA 171 L SSQ L+ + P+P IA +P+A+LWFGLG +F++ + + +NT A Sbjct: 101 LMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAILWFGLGNPPALFLISLGAFFPVLMNTIA 160 Query: 172 GFLGVSDTLRMAGRNYGLHGLRFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGA 231 G V A RN G L+V++PAA+P IL+G+RIG A+ +I AE++ Sbjct: 161 GVRQVDSIYLRAARNLGASQSTLFLRVMLPAAVPYILSGVRIGIGTAFIVVIVAEMI--- 217 Query: 232 TSGQGGLGWYIFQNRNELYTDKVFAGLAMVILIGLLVE 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 = 87.4 bits (215), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 52/149 (34%), Positives = 79/149 (53%), Gaps = 4/149 (2%) Query: 122 LLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIFVLVHSVLWALAVNTYAGFLGVSDTLR 181 LL T M +PA+AL+P+ +LWFG+ + + +F++ V + + +NT+ G V L Sbjct: 118 LLDTTLQMVRNIPALALIPLVILWFGIDETAKLFLVSVGVFFPVYLNTFHGIRSVDQGLI 177 Query: 182 MAGRNYGLHGLRFVLQVLVPAALPSILAGLRIGWAFAWRTLIAAELVFGATSGQGGLGWY 241 ++YGL G V++P ALP+IL GLR W LI AE + S Q 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 = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 109/237 (45%), Gaps = 9/237 (3%) Query: 37 GWVRKGAILLLLALVWEGVARWQ-NNDLLLPTFLQTAQAFVDGIRSGELFGKTWLSLQVL 95 GW+ A LLL+ E AR + LLP + A + GEL SL + Sbjct: 28 GWIVPLAFLLLV----EAGARLELIPARLLPPPSELAHTLWSLAQRGELLPHIAASLARV 83 Query: 96 MKAYVLGIVAAFVLTTLAVSSQFGRDLLGTLTSMFNPLPAIALLPIALLWFGLGQGSLIF 155 +V+G A L L S+ LL +P++A +P+ LLW G+ + + Sbjct: 84 AAGFVIGSALAVALGLLVGISRRAEALLEPSFQALRAIPSLAWIPLLLLWLGIDETPKVV 143 Query: 156 VLVHSVLWALAVNTYAGFLGVSDTLRMAGRNYGLHGLRFVLQVLVPAALPSILAGLRIGW 215 ++ + + +N AG + L G GL+ + +L+PA+LP + AGLR G Sbjct: 144 LIAIGAFFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIGHILLPASLPYLFAGLRGGL 203 Query: 216 AFAWRTLIAAELVFGATSGQGGLGWYIFQNRNELYTDKVFAGLAMVILIGLLVENLV 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 0.142 0.449 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: 935,261 Number of extensions: 39982 Number of successful extensions: 239 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 232 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)