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= 0007.0085.p (317 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 ... 426 e-120 gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane ... 125 3e-30 gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane ... 122 3e-29 gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane ... 111 8e-26 gi|300313795|ref|YP_003777887.1| transmembrane sensor protein [H... 74 2e-14 >gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 426 bits (1094), Expect = e-120, Method: Compositional matrix adjust. Identities = 222/317 (70%), Positives = 256/317 (80%), Gaps = 1/317 (0%) Query: 1 MKNEDKIVEQAIEWMLQIEQGELSKGEQAAFEHWKAADPRHAVAYANLAQSVQQFDVPRQ 60 M ++KIVEQAIEWMLQ+EQG+L GE+AAFE WKAADPRHA+AYANL+QSVQQFDVPRQ Sbjct: 1 MGKDEKIVEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQ 60 Query: 61 VGAAPQVLRNTLQQKSRRRKALKQIAILAGLTVGAGLLADRVTPLAGLRADLHTGTGERR 120 VGAAP +LRNTLQQKS+RRKALK+IA LAGL VGA L DRVTP+A L ADLHTGTG+R+ Sbjct: 61 VGAAPVILRNTLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQ 120 Query: 121 RTLLADGSTLILNARSAIDQQIASGTRQIRLLAGEIQLQVAQRADLPFIIQTVHGSAELL 180 RT LADGS + LNARSAID I+ RQ+RLL GEIQ+Q+A LPF I+TVHGS Sbjct: 121 RTTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAANALPFSIETVHGSVSAT 180 Query: 181 GGTLAMALQPARTELVAVQAAQIGVVTRNNTRGEVTGGQHLWFDSDRIGTARANAGGETS 240 GTL + LQP RT+LVA QAA + + TRN + GQ WFD D IG RA G E S Sbjct: 181 AGTLMLGLQPLRTDLVAQQAAAL-LSTRNGQHATLAAGQRTWFDQDEIGAPRAAGGAENS 239 Query: 241 WVDGYYTAANNTLAEVVAALRPYRTGILRLDPAVAGLRISGAFPLDDSERALSALASALP 300 WV+GYYTA++N+L EVVAALRPYR G+LRLDPAVA LRISGAFPLDD++RALSALASALP Sbjct: 240 WVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALSALASALP 299 Query: 301 ISVTRVSPYWVTISART 317 I+V RVSPYWV+IS R+ Sbjct: 300 ITVNRVSPYWVSISGRS 316 >gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 336 Score = 125 bits (315), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 97/312 (31%), Positives = 158/312 (50%), Gaps = 14/312 (4%) Query: 6 KIVEQAIEWMLQIEQGELSKGEQAAFEHWKAADPRHAVAYANLAQ---SVQQFDVPRQVG 62 ++ E+A+EW+L+++ L+ A+E W++A P H A+ + +Q P V Sbjct: 19 QVAERALEWLLELQTQPLAPSTLEAWEAWRSAHPDHERAWRRIESVRGRLQALASP--VN 76 Query: 63 AAPQVLRNTLQQKSRRRKALKQIAILA-GLTVGAGLLADRVTPLAGLRADLHTGTGERRR 121 AA + + L RR+ +K +A+L G V GL R P RADL T G++RR Sbjct: 77 AA--LAQAALTPSGNRRQVIKTLALLVFGGGVAWGL--TRSEPWQQWRADLRTDIGQQRR 132 Query: 122 TLLADGSTLILNARSAIDQQIASGTRQIRLLAGEIQLQVAQRAD-LPFIIQTVHGSAELL 180 +L DGS L+LN SA++ ++ R++RL++GE+ + + PF+++T G A L Sbjct: 133 LVLEDGSQLVLNTHSAVNLAFSAEERRLRLISGELLVTTGKAGGGRPFLVETAQGLAYAL 192 Query: 181 GGTLAMALQPARTELVAVQAAQIGVVTRNNTRGE--VTGGQHLWFDSDRIGTARANAGGE 238 G A+ + RTE V+V + +V R + + GQ F + +G Sbjct: 193 GTRYAVRQRAGRTE-VSVWEGAVRLVPRQAAQQARVLQAGQQAAFSAQGVGDVTTADETR 251 Query: 239 TSWVDGYYTAANNTLAEVVAALRPYRTGILRLDPAVAGLRISGAFPLDDSERALSALASA 298 +W DG A L +A L Y T L PAV+G+RISG++P+ DS+ ++ LA+A Sbjct: 252 MAWTDGVIVARGMRLDAFLAELGRYTTDRLSCAPAVSGVRISGSYPVADSDAVIATLAAA 311 Query: 299 LPISVTRVSPYW 310 L + +W Sbjct: 312 LGLQAQLRQRFW 323 >gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 95/316 (30%), Positives = 145/316 (45%), Gaps = 14/316 (4%) Query: 4 EDKIVEQAIEWMLQIEQGELSKGEQAAFEHWKAADPRHAVAYANLAQSVQQFDVPRQVGA 63 ++ I+ +A W++++ +G L ++ W+ P H A++ A + F A Sbjct: 12 DEAILTEAATWLMEMHEGPLDAARRSKLAQWRQRSPEHERAWSRAALLQETF------AA 65 Query: 64 APQVLRNTLQQ--KSRRRKALKQIAILAGLTVG-AGLLADRVTPLAGLRADLHTGTGERR 120 P L+Q + RRKA+K +A LT+G AG LA A + T GERR Sbjct: 66 LPPGGATALKQVGPAGRRKAIKLLAY--ALTLGPAGWLAYHALSGPEQGARIATAIGERR 123 Query: 121 RTLLADGSTLILNARSAIDQQIASGTRQIRLLAGEIQLQVA---QRADLPFIIQTVHGSA 177 L DGS L LN + I R +RL GEI + A Q+ PF++ T GS Sbjct: 124 EVQLDDGSRLWLNTDTRITLDFTPAQRLLRLQRGEIMVLTAPDRQQPPRPFLVATRQGSL 183 Query: 178 ELLGGTLAMALQPARTELVAVQAAQIGVVTRNNTRGEVTGGQHLWFDSDRIGTARANAGG 237 LG + + E+ +Q A + + + G F R Sbjct: 184 RPLGTRFTVRERDQAVEVAVLQGAVEITPASSAQQTVLPSGMQTRFTRSGSAAPRPCDDT 243 Query: 238 ETSWVDGYYTAANNTLAEVVAALRPYRTGILRLDPAVAGLRISGAFPLDDSERALSALAS 297 + +W G A LA+ + L YR+G+L+ DPA+AGL +SG FPL D++R L LA Sbjct: 244 QAAWSRGLLIAERMPLAQFIGELGRYRSGLLQADPAIAGLEVSGVFPLADTDRVLRLLAQ 303 Query: 298 ALPISVTRVSPYWVTI 313 LP+ V +++ YWV + Sbjct: 304 TLPVRVQQLTRYWVRV 319 >gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 111 bits (277), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 108/342 (31%), Positives = 160/342 (46%), Gaps = 42/342 (12%) Query: 4 EDKIVEQAIEWMLQIE----QGELSKGEQAAFEHWKAADPRHAVAYANLAQSVQQFD--- 56 +D +++QAI W++++ ++ QA W+AADPRH ++ L S +QF Sbjct: 9 QDPVLDQAIAWLVKLRAFPGDAAVAPELQAGIAAWRAADPRHEQVWSELMASEEQFQRLV 68 Query: 57 ---VPRQVGAAPQVLRNTLQQKSRRRKALKQIAILAGLTVGAGLLADRVTPLAGLR---- 109 VP P N +Q S+ R+ A+L + G +A R AGL Sbjct: 69 ALPVPASQWHGPLKRLNQRRQHSQSRRRWMGNAMLGLGAIALGAVAARQ---AGLFEALD 125 Query: 110 -ADLHTGTGERRRTLLADGSTLILNARSAIDQQIASGTRQIRLLAGEIQLQVAQRADLP- 167 A T TG++R+ L DG+ L LN S++ + R + L GEI + A P Sbjct: 126 GASYATRTGDQRQLRLGDGTALALNTSSSVQLRFDDTRRLLLLRQGEIFIDTGADAQWPH 185 Query: 168 ---FIIQTVHGSAELLGGTLAMALQPARTEL------VAVQAAQIGVVTRNNTRGEVTGG 218 F +QT H + LG + T+L VAV A GV GE+ Sbjct: 186 HRPFWVQTAHARLQALGTRFDVRQHGDGTQLTVLEGRVAVHVA--GVDPLVAQPGEIV-- 241 Query: 219 QHLWFDSDRIG-----TARANAGGETSWVDGYYTAANNTLAEVVAALRPYRTGILRLDPA 273 D G ARA+A T+W++ LA+VVA L YR+G L+ DPA Sbjct: 242 -----DIHPDGRLVRRAARASAMDPTAWLEQSLVVRQMRLADVVAQLARYRSGWLQCDPA 296 Query: 274 VAGLRISGAFPLDDSERALSALASALPISVTRVSPYWVTISA 315 VA ++SG F L D++ AL ALA ALP+++ R + +WV ++A Sbjct: 297 VADWQVSGVFQLQDTDVALEALAQALPLTIERRTRFWVRVAA 338 >gi|300313795|ref|YP_003777887.1| transmembrane sensor protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 106/241 (43%), Gaps = 31/241 (12%) Query: 90 GLTVGAGLLADRVTPLAGLRADLHTGTGERRRTLLADGSTLILNARSAIDQQIASGTRQI 149 GL + GL A P L AD+ T TG LADGS L+L+ SA + + R + Sbjct: 110 GLPLWLGLQA---YPARYLLADMRTATGHWDARTLADGSRLLLSGSSAANFHFDAQRRTV 166 Query: 150 RLLAGEIQLQVAQRADLPFIIQTVHGSAELLG----------GTLAMALQPARTELVAVQ 199 L+ GE+ ++VA+ PF+IQT GS LG GTL L+ + Sbjct: 167 ELVQGELLVEVARDPARPFVIQTADGSIRALGTRFLVRRDRAGTLVSMLESKVSIQPGAD 226 Query: 200 AAQIGVVTRNNTRGEVTGG-----QHLWFDSDRIGTARANAGGETSWVDGYYTAANNTLA 254 Q +V R + GG +H+ A E +W + L Sbjct: 227 TTQAPLVLEAGQRVRLHGGAAGPLEHI-----------DAAALERAWRRHQLVSNARPLT 275 Query: 255 EVVAALRPYRTGILRLDPA-VAGLRISGAFPLDDSERALSALASALP-ISVTRVSPYWVT 312 EV+ L +R G + D A +AGL ++ PLDD++RAL L +P + V + +PY Sbjct: 276 EVLDELNRHRPGRILYDQAQLAGLHMTVVLPLDDTQRALQLLVDGVPGLRVRQFTPYLTY 335 Query: 313 I 313 I Sbjct: 336 I 336 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 0.131 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: 921,927 Number of extensions: 36222 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 6 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 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)