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= 0001.2246.p (315 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312132|ref|YP_003776224.1| Fe2+-dicitrate sensor membrane ... 560 e-161 gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane ... 93 3e-20 gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane ... 82 4e-17 gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane ... 74 1e-14 >gi|300312132|ref|YP_003776224.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 560 bits (1444), Expect = e-161, Method: Compositional matrix adjust. Identities = 287/313 (91%), Positives = 299/313 (95%), Gaps = 2/313 (0%) Query: 3 DDKLKDPIKAAITWEVLMRSGEASIEDQTRFAEWHAASAANRAAWQSLQQKLTSFRSFGQ 62 DDKLKDPIKAAI+WEVLMRSGEAS+EDQ RFAEWHAASAAN+AAWQSLQQKLT FRSFGQ Sbjct: 3 DDKLKDPIKAAISWEVLMRSGEASVEDQARFAEWHAASAANQAAWQSLQQKLTPFRSFGQ 62 Query: 63 SAQAQAQGAGRQALLNAGQSRRRMLRNSFTGVVGLAVVGALGYRGLQACGYDATLRTGTG 122 SAQAQ+ AGRQALLNAGQSRRRML+NSFTGV+GLA VGALGYRGLQA G D+TLR+GTG Sbjct: 63 SAQAQS--AGRQALLNAGQSRRRMLQNSFTGVIGLAFVGALGYRGLQAFGDDSTLRSGTG 120 Query: 123 ELREAALNPDIGVTLDAGTIVDATATGWRMESGQMLVNAMHNRKPFDILSARGNLHASAA 182 ELREAALNPDI VTLDAGTIV + A GWRMESGQ+LVNAMHN KPFDILSARGNLHASAA Sbjct: 121 ELREAALNPDIRVTLDAGTIVSSAANGWRMESGQILVNAMHNHKPFDILSARGNLHASAA 180 Query: 183 RFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQGDVVSLSEAGIERSSQSLANAVAWTE 242 RFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQGDVVSLSEAGIERSSQSLANAVAWTE Sbjct: 181 RFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQGDVVSLSEAGIERSSQSLANAVAWTE 240 Query: 243 GLFVASDQAVADVIGVLRRHRQGVIRVTRKAAAKRVSGIFNMRMPDAVLRQLAETVALKV 302 GLFVASDQAVADVIGVLRRHR GVIRVTRKAAAKRVSGIF+MRMPDAVLRQLAETVALKV Sbjct: 241 GLFVASDQAVADVIGVLRRHRPGVIRVTRKAAAKRVSGIFDMRMPDAVLRQLAETVALKV 300 Query: 303 ESYGRFLVTVSET 315 E+YGRFLV VSET Sbjct: 301 ENYGRFLVMVSET 313 >gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 83/319 (26%), Positives = 136/319 (42%), Gaps = 31/319 (9%) Query: 10 IKAAITWEVLMRSGEASIEDQTRFAEWHAASAANRAAWQS---LQQKLTSFRSFGQSAQA 66 + A TW + M G +++ A+W S + AW LQ+ + G +A Sbjct: 16 LTEAATWLMEMHEGPLDAARRSKLAQWRQRSPEHERAWSRAALLQETFAALPPGGATALK 75 Query: 67 QAQGAGRQALLNAGQSRRRMLRNSFTGVVGLAVVGALGYRGLQACGYDATLRTGTGELRE 126 Q AGR+ + ++L + T L G L Y L A + T GE RE Sbjct: 76 QVGPAGRRKAI-------KLLAYALT----LGPAGWLAYHALSGPEQGARIATAIGERRE 124 Query: 127 AAL--------NPDIGVTLDAGTIVDATATGWRMESGQMLVNAMHNR----KPFDILSAR 174 L N D +TLD R++ G+++V +R +PF + + + Sbjct: 125 VQLDDGSRLWLNTDTRITLD----FTPAQRLLRLQRGEIMVLTAPDRQQPPRPFLVATRQ 180 Query: 175 GNLHASAARFSFSSYETHSLVAVVQGSATLTTPDGMVK-MITQGDVVSLSEAGIERSSQS 233 G+L RF+ + VAV+QG+ +T + ++ G + +G Sbjct: 181 GSLRPLGTRFTVRERDQAVEVAVLQGAVEITPASSAQQTVLPSGMQTRFTRSGSAAPRPC 240 Query: 234 LANAVAWTEGLFVASDQAVADVIGVLRRHRQGVIRVTRKAAAKRVSGIFNMRMPDAVLRQ 293 AW+ GL +A +A IG L R+R G+++ A VSG+F + D VLR Sbjct: 241 DDTQAAWSRGLLIAERMPLAQFIGELGRYRSGLLQADPAIAGLEVSGVFPLADTDRVLRL 300 Query: 294 LAETVALKVESYGRFLVTV 312 LA+T+ ++V+ R+ V V Sbjct: 301 LAQTLPVRVQQLTRYWVRV 319 >gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 82.4 bits (202), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 80/319 (25%), Positives = 138/319 (43%), Gaps = 15/319 (4%) Query: 2 EDDKLKDPIKAAITWEVLMRSGEASIEDQTRFAEWHAASAANRAAWQSLQQKLTSFRSFG 61 +D+K+ ++ AI W + + G+ ++ F +W AA + A+ +L Q S + F Sbjct: 3 KDEKI---VEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQ---SVQQFD 56 Query: 62 QSAQAQAQGAGRQALLNAGQSRRRMLRNSFTGVVGLAVVGALGYRGLQACGYDATLRTGT 121 Q A + L RR+ L+ AL R A L TGT Sbjct: 57 VPRQVGAAPVILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGT 116 Query: 122 GELREAALNPDIGVTLDAGTIVDATATGW----RMESGQMLVN-AMHNRKPFDILSARGN 176 G+ + L +TL+A + +D + R+ G++ V A N PF I + G+ Sbjct: 117 GQRQRTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGS 176 Query: 177 LHASAARFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQGDVVSLS--EAGIERSSQSL 234 + A+A + + Q +A L+T +G + G E G R++ Sbjct: 177 VSATAGTLMLGLQPLRTDLVAQQAAALLSTRNGQHATLAAGQRTWFDQDEIGAPRAAGGA 236 Query: 235 ANAVAWTEGLFVASDQAVADVIGVLRRHRQGVIRVTRKAAAKRVSGIFNMRMPDAVLRQL 294 N+ W EG + ASD ++ +V+ LR +R+G++R+ A R+SG F + D L L Sbjct: 237 ENS--WVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSAL 294 Query: 295 AETVALKVESYGRFLVTVS 313 A + + V + V++S Sbjct: 295 ASALPITVNRVSPYWVSIS 313 >gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 74.3 bits (181), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 84/333 (25%), Positives = 147/333 (44%), Gaps = 26/333 (7%) Query: 5 KLKDPI-KAAITWEVLMRS--GEASI--EDQTRFAEWHAASAANRAAWQSLQQKLTSFRS 59 L+DP+ AI W V +R+ G+A++ E Q A W AA + W L F+ Sbjct: 7 PLQDPVLDQAIAWLVKLRAFPGDAAVAPELQAGIAAWRAADPRHEQVWSELMASEEQFQR 66 Query: 60 FGQSAQAQAQGAGRQALLNAGQSRRR----MLRNSFTGVVGLAVVGALGYR--GLQACGY 113 +Q G LN + + + N+ G+ G +GA+ R GL Sbjct: 67 LVALPVPASQWHGPLKRLNQRRQHSQSRRRWMGNAMLGL-GAIALGAVAARQAGLFEALD 125 Query: 114 DATLRTGTGELREAALNPDIGVTLDAGTIV----DATATGWRMESGQMLVNA-----MHN 164 A+ T TG+ R+ L + L+ + V D T + G++ ++ + Sbjct: 126 GASYATRTGDQRQLRLGDGTALALNTSSSVQLRFDDTRRLLLLRQGEIFIDTGADAQWPH 185 Query: 165 RKPFDILSARGNLHASAARFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQ-GDVVSLS 223 +PF + +A L A RF + + + V++G + G+ ++ Q G++V + Sbjct: 186 HRPFWVQTAHARLQALGTRFDVRQHGDGTQLTVLEGRVAVHV-AGVDPLVAQPGEIVDIH 244 Query: 224 EAG--IERSSQSLA-NAVAWTEGLFVASDQAVADVIGVLRRHRQGVIRVTRKAAAKRVSG 280 G + R++++ A + AW E V +ADV+ L R+R G ++ A +VSG Sbjct: 245 PDGRLVRRAARASAMDPTAWLEQSLVVRQMRLADVVAQLARYRSGWLQCDPAVADWQVSG 304 Query: 281 IFNMRMPDAVLRQLAETVALKVESYGRFLVTVS 313 +F ++ D L LA+ + L +E RF V V+ Sbjct: 305 VFQLQDTDVALEALAQALPLTIERRTRFWVRVA 337 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 0.129 0.361 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: 743,622 Number of extensions: 26436 Number of successful extensions: 124 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 119 Number of HSP's successfully gapped: 6 Length of query: 315 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 230 Effective length of database: 1,217,395 Effective search space: 280000850 Effective search space used: 280000850 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: 130 (54.7 bits)