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= 0012.0063.p (316 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane ... 626 0.0 gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane ... 126 2e-30 gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane ... 122 5e-29 gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane ... 104 1e-23 gi|300312132|ref|YP_003776224.1| Fe2+-dicitrate sensor membrane ... 80 2e-16 >gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 626 bits (1615), Expect = 0.0, Method: Compositional matrix adjust. Identities = 314/316 (99%), Positives = 314/316 (99%) Query: 1 MGKDEKIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQ 60 MGKDEKIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQ Sbjct: 1 MGKDEKIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQ 60 Query: 61 VGAAPVILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQ 120 VGAAPVILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQ Sbjct: 61 VGAAPVILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQ 120 Query: 121 RTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGSVSAT 180 RTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGSVSAT Sbjct: 121 RTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGSVSAT 180 Query: 181 AGTLMLGLQPLRTDLVAQQAAALLRTRNGQHATLAAGQRTWFDQDEIGAPRAAGGAENSW 240 AGTLMLGLQPLRTDLVAQQAAALL TRNGQHATLAAGQRTWFDQDEIGAPRAAGGAENSW Sbjct: 181 AGTLMLGLQPLRTDLVAQQAAALLSTRNGQHATLAAGQRTWFDQDEIGAPRAAGGAENSW 240 Query: 241 VEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSGLASALPI 300 VEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALS LASALPI Sbjct: 241 VEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSALASALPI 300 Query: 301 TVNRVSPYWVSISGRS 316 TVNRVSPYWVSISGRS Sbjct: 301 TVNRVSPYWVSISGRS 316 >gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 126 bits (317), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 100/322 (31%), Positives = 149/322 (46%), Gaps = 23/322 (7%) Query: 2 GKDEKIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQV 61 G DE I+ +A W++++ +G L R+ QW+ P H A++ + + F Sbjct: 10 GIDEAILTEAATWLMEMHEGPLDAARRSKLAQWRQRSPEHERAWSRAALLQETF------ 63 Query: 62 GAAPVILRNTLQQ--KSKRRKALKRIAALAGLAVGAAALLDRVTPVAALT-----ADLHT 114 A P L+Q + RRKA+K +A L +G A L AL+ A + T Sbjct: 64 AALPPGGATALKQVGPAGRRKAIKLLAY--ALTLGPAGWLA----YHALSGPEQGARIAT 117 Query: 115 GTGQRQRTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAAN---ALPFSIE 171 G+R+ L DGS + LN + I +P R +RL GEI V A PF + Sbjct: 118 AIGERREVQLDDGSRLWLNTDTRITLDFTPAQRLLRLQRGEIMVLTAPDRQQPPRPFLVA 177 Query: 172 TVHGSVSATAGTLMLGLQPLRTDL-VAQQAAALLRTRNGQHATLAAGQRTWFDQDEIGAP 230 T GS+ + + ++ V Q A + + Q L +G +T F + AP Sbjct: 178 TRQGSLRPLGTRFTVRERDQAVEVAVLQGAVEITPASSAQQTVLPSGMQTRFTRSGSAAP 237 Query: 231 RAAGGAENSWVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRA 290 R + +W G A L + + L YR GLL+ DPA+A L +SG FPL DTDR Sbjct: 238 RPCDDTQAAWSRGLLIAERMPLAQFIGELGRYRSGLLQADPAIAGLEVSGVFPLADTDRV 297 Query: 291 LSGLASALPITVNRVSPYWVSI 312 L LA LP+ V +++ YWV + Sbjct: 298 LRLLAQTLPVRVQQLTRYWVRV 319 >gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 336 Score = 122 bits (305), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 95/310 (30%), Positives = 146/310 (47%), Gaps = 11/310 (3%) Query: 6 KIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQVGAAP 65 ++ E+A+EW+L+L+ L P A+E W++A P H A+ + + Q A+P Sbjct: 19 QVAERALEWLLELQTQPLAPSTLEAWEAWRSAHPDHERAWRRIESVRGRL----QALASP 74 Query: 66 V---ILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQRT 122 V + + L RR+ +K +A L G A L R P ADL T GQ++R Sbjct: 75 VNAALAQAALTPSGNRRQVIKTLALLV-FGGGVAWGLTRSEPWQQWRADLRTDIGQQRRL 133 Query: 123 TLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIA-AANALPFSIETVHGSVSATA 181 L DGS + LN SA++ S R++RL+ GE+ V A PF +ET G A Sbjct: 134 VLEDGSQLVLNTHSAVNLAFSAEERRLRLISGELLVTTGKAGGGRPFLVETAQGLAYALG 193 Query: 182 GTLMLGLQPLRTDLVAQQAAALLRTRNG--QHATLAAGQRTWFDQDEIGAPRAAGGAENS 239 + + RT++ + A L R Q L AGQ+ F +G A + Sbjct: 194 TRYAVRQRAGRTEVSVWEGAVRLVPRQAAQQARVLQAGQQAAFSAQGVGDVTTADETRMA 253 Query: 240 WVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSGLASALP 299 W +G A L+ +A L Y L PAV+ +RISG++P+ D+D ++ LA+AL Sbjct: 254 WTDGVIVARGMRLDAFLAELGRYTTDRLSCAPAVSGVRISGSYPVADSDAVIATLAAALG 313 Query: 300 ITVNRVSPYW 309 + +W Sbjct: 314 LQAQLRQRFW 323 >gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 103/337 (30%), Positives = 152/337 (45%), Gaps = 37/337 (10%) Query: 5 EKIVEQAIEWMLQLEQ--GD--LPPGERAAFEQWKAADPRHAMAYANLSQSVQQFD---- 56 + +++QAI W+++L GD + P +A W+AADPRH ++ L S +QF Sbjct: 10 DPVLDQAIAWLVKLRAFPGDAAVAPELQAGIAAWRAADPRHEQVWSELMASEEQFQRLVA 69 Query: 57 --VPRQVGAAPVILRNTLQQKSKRRKAL--KRIAALAGLAVGAAALLDRVTPVAALTADL 112 VP P+ N +Q S+ R+ + L +A+GA A A A Sbjct: 70 LPVPASQWHGPLKRLNQRRQHSQSRRRWMGNAMLGLGAIALGAVAARQAGLFEALDGASY 129 Query: 113 HTGTGQRQRTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAA----ANALPF 168 T TG +++ L DG+ + LN S++ R + L +GEI + A + PF Sbjct: 130 ATRTGDQRQLRLGDGTALALNTSSSVQLRFDDTRRLLLLRQGEIFIDTGADAQWPHHRPF 189 Query: 169 SIETVHGSVSATAGTLMLGLQPLRTDLVAQQAAALLRTRNGQHATLAAGQRTWFDQ-DEI 227 ++T H + A GT R D+ L G+ A AG Q EI Sbjct: 190 WVQTAHARLQAL-GT--------RFDVRQHGDGTQLTVLEGRVAVHVAGVDPLVAQPGEI 240 Query: 228 -----------GAPRAAGGAENSWVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQL 276 A RA+ +W+E L +VVA L YR G L+ DPAVA Sbjct: 241 VDIHPDGRLVRRAARASAMDPTAWLEQSLVVRQMRLADVVAQLARYRSGWLQCDPAVADW 300 Query: 277 RISGAFPLDDTDRALSGLASALPITVNRVSPYWVSIS 313 ++SG F L DTD AL LA ALP+T+ R + +WV ++ Sbjct: 301 QVSGVFQLQDTDVALEALAQALPLTIERRTRFWVRVA 337 >gi|300312132|ref|YP_003776224.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 80.1 bits (196), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 84/319 (26%), Positives = 138/319 (43%), Gaps = 14/319 (4%) Query: 1 MGKDE--KIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVP 58 MG D+ ++ AI W + + G+ ++A F +W AA + A+ +L Q + F Sbjct: 1 MGDDKLKDPIKAAISWEVLMRSGEASVEDQARFAEWHAASAANQAAWQSLQQKLTPFRSF 60 Query: 59 RQVGAAPVILRNTLQQ--KSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGT 116 Q A R L +S+RR + GLA AL R + L +GT Sbjct: 61 GQSAQAQSAGRQALLNAGQSRRRMLQNSFTGVIGLAF-VGALGYRGLQAFGDDSTLRSGT 119 Query: 117 GQRQRTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGS 176 G+ + L +TL+A + ++S R+ G+I V A N PF I + G+ Sbjct: 120 GELREAALNPDIRVTLDAGT----IVSSAANGWRMESGQILVN-AMHNHKPFDILSARGN 174 Query: 177 VSATAGTLMLGLQPLRTDLVAQQAAALLRTRNGQHATLAAGQRTWFDQDEIGAPRAAGGA 236 + A+A + + Q +A L T +G + G E G R++ Sbjct: 175 LHASAARFSFSSYETHSLVAVVQGSATLTTPDGMVKMITQGDVV--SLSEAGIERSSQSL 232 Query: 237 ENS--WVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSGL 294 N+ W EG + ASD ++ +V+ LR +R G++R+ A R+SG F + D L L Sbjct: 233 ANAVAWTEGLFVASDQAVADVIGVLRRHRPGVIRVTRKAAAKRVSGIFDMRMPDAVLRQL 292 Query: 295 ASALPITVNRVSPYWVSIS 313 A + + V + V +S Sbjct: 293 AETVALKVENYGRFLVMVS 311 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 0.131 0.371 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: 973,845 Number of extensions: 38849 Number of successful extensions: 159 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 6 Length of query: 316 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 231 Effective length of database: 1,217,395 Effective search space: 281218245 Effective search space used: 281218245 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)