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= 0001.3032.p (277 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312368|ref|YP_003776460.1| GntR family transcription regul... 440 e-125 gi|300313520|ref|YP_003777612.1| transcription regulator protein... 175 4e-45 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 126 2e-30 gi|300313885|ref|YP_003777977.1| GntR family transcription regul... 115 5e-27 gi|300312626|ref|YP_003776718.1| GntR family transcription regul... 92 4e-20 >gi|300312368|ref|YP_003776460.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 278 Score = 440 bits (1131), Expect = e-125, Method: Compositional matrix adjust. Identities = 238/278 (85%), Positives = 255/278 (91%), Gaps = 1/278 (0%) Query: 1 MRAMKTSTSRPQGSALASMA-AAARGKTTLADHVTSVLAQQIRSGEFAPDARLPSEMELT 59 MRAMKTS S + A +ARGK TLADHVTSVLA+QIR+GEFAP+ RLPSEMELT Sbjct: 1 MRAMKTSPSSSAAAQAVPPAPGSARGKVTLADHVTSVLARQIRAGEFAPETRLPSEMELT 60 Query: 60 ERFAVSRTVIREAISRLKSEGLVGSRRGSGTVVLPVSPATPFRLDLKVDEGRDSIQAVLR 119 ERF+VSRTVIREAISRLKSEGLVGSRRGSGTVVLP +PATPFRLDL VD+GRDSIQAVLR Sbjct: 61 ERFSVSRTVIREAISRLKSEGLVGSRRGSGTVVLPANPATPFRLDLDVDDGRDSIQAVLR 120 Query: 120 VIELRRGVEGEMAALAAQRRTRAQNLAIQQALRDIDAAAAAGRDGVQEDFAFHAAISNAS 179 VIELRRGVEGEMAALAAQRRT AQNLAIQQAL+ ID AAAAGRDGV EDFAFHAAISNAS Sbjct: 121 VIELRRGVEGEMAALAAQRRTSAQNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNAS 180 Query: 180 HNPLYTSLVQFLSQFLHAAIRVARMNEARSSEFVQQVRAEHAAMAQAISEGNAEAARAAA 239 HNPLYTSLVQFLSQFLHAAIRVARMNEARS+EFVQQVRAEHAA+A+AIS G+AEAARAAA Sbjct: 181 HNPLYTSLVQFLSQFLHAAIRVARMNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAA 240 Query: 240 LRHMEHSAQRIQAADKAFWASAEGQAAARDLARVKSGG 277 LRHME+SAQR+QAAD+AFWASAEGQAAARDLARV+ G Sbjct: 241 LRHMENSAQRLQAADRAFWASAEGQAAARDLARVRDAG 278 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 175 bits (443), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 102/222 (45%), Positives = 141/222 (63%), Gaps = 3/222 (1%) Query: 29 LADHVTSVLAQQIRSGEFAPDARLPSEMELTERFAVSRTVIREAISRLKSEGLVGSRRGS 88 L+D V L + I +G F ++LP+E L ++F VSRTV+REAI+RLK EG+V R+GS Sbjct: 10 LSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHEGVVEPRQGS 69 Query: 89 GTVVLPVSPATPFRLDLKVDEGRDSIQAVLRVIELRRGVEGEMAALAAQRRTRAQNLAIQ 148 G V + P R+D S +AVL+++ELRR +E E+AA AA+RR+ AI+ Sbjct: 70 GVFVTEQAGIKPLRIDYT---EVSSPEAVLQIVELRRAIEAEVAAQAAKRRSAEDLQAIE 126 Query: 149 QALRDIDAAAAAGRDGVQEDFAFHAAISNASHNPLYTSLVQFLSQFLHAAIRVARMNEAR 208 AL I AAG DGV D AFH A++ A+ NP + ++FLSQ+L AA V R NEAR Sbjct: 127 AALAQIGVDVAAGGDGVAADVAFHRALAQATRNPYFIKTLEFLSQYLEAATAVTRGNEAR 186 Query: 209 SSEFVQQVRAEHAAMAQAISEGNAEAARAAALRHMEHSAQRI 250 +F +QVR EH A+ +AI G+ AAR AA HM ++A+R+ Sbjct: 187 YEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNAARRL 228 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 126 bits (316), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 85/235 (36%), Positives = 128/235 (54%), Gaps = 7/235 (2%) Query: 24 RGKTTLADHVTSVLAQQIRSGEFAPDARLPSEMELTERFAVSRTVIREAISRLKSEGLVG 83 R +L+ V + L I +G P +LP+E E+ + VSRTV+REAISRL++ GLV Sbjct: 15 RKPQSLSQEVVAALTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISRLQAAGLVE 74 Query: 84 SRRGSGTVVLPVSPATPFRLD-LKVDEGRDSIQAVLRVIELRRGVEGEMAALAAQRRTRA 142 +R G GT VL +D + RD +L ++ELR +E E A LAA RRT Sbjct: 75 TRHGIGTFVLEAKKGGNINIDPATITTMRD----LLALLELRISLETETAGLAAARRTEE 130 Query: 143 QNLAIQQALRDIDAAAAAGRDGVQEDFAFHAAISNASHNPLYTSLVQFLSQFL--HAAIR 200 Q I++AL A G D V DF FH AI+NA+ N + ++ L + I Sbjct: 131 QLQEIREALDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIISHLGMGVIPRKRIN 190 Query: 201 VARMNEARSSEFVQQVRAEHAAMAQAISEGNAEAARAAALRHMEHSAQRIQAADK 255 A + + + ++ +V+ EH + +AI+ G+AEAARAA H+ +S +R++ A + Sbjct: 191 TAELAHDQQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRERLRRAQQ 245 >gi|300313885|ref|YP_003777977.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 115 bits (287), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 125/237 (52%), Gaps = 12/237 (5%) Query: 18 SMAAAARGKTTLADHVTSVLAQQIRSGEFAPDARLPSEMELTERFAVSRTVIREAISRLK 77 S+AA+ + + ++H+ + I GE + +LP+E+EL +R+ SRT +REA+SRL+ Sbjct: 8 SLAASRTHRLSRSEHICRQIIAAILRGELGENRKLPTEVELAQRYEASRTTVREALSRLR 67 Query: 78 SEGLVGSRRGSGTVVLPVSPATPFRLDLKVDEGRD---SIQAVLRVIELRRGVEGEMAAL 134 SEG+V SRRGSG V RL +G SI V R R VE A + Sbjct: 68 SEGIVVSRRGSGNYVQ--------RLPTLSSQGSPQIASIHDVERYYAFRECVEVGAAGI 119 Query: 135 AAQRRTRAQNLAIQQALRDIDAAAAAGRDGVQEDFAFHAAISNASHNPLYTSLVQFLSQF 194 AA R A++ AL+ + A G+ GV ED A H AI+ A+ NP + S ++ Sbjct: 120 AATARQDEDVQAMRIALQALQRAQLEGQTGVDEDLALHMAIARATRNPFFISTIEHALGP 179 Query: 195 LHAAIRVAR-MNEARSSEFVQQVRAEHAAMAQAISEGNAEAARAAALRHMEHSAQRI 250 + + +A+ + + E +Q + EH A+ QAI+EG+ A AA H+ H+ RI Sbjct: 180 IRQCMELAQNLGSPQDGERIQTIDDEHQAIIQAIAEGSPARAEAAMRAHIGHARLRI 236 >gi|300312626|ref|YP_003776718.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 256 Score = 92.0 bits (227), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 119/230 (51%), Gaps = 19/230 (8%) Query: 29 LADHVTSVLAQQIRSGEFAPDARLPSEMELTERFAVSRTVIREAISRLKSEGLVGSRRGS 88 L ++ L + I GEFA +RLPSE +L + VSR +REA+ L+ EG + R GS Sbjct: 11 LYRQISDQLRKLIVEGEFAVGSRLPSERDLALQLGVSRPSLREALIALEVEGHIEVRMGS 70 Query: 89 GTVVLPVSPAT-PFRLDLKVDEGRDSIQAVLRVIELRRGVEGEMAALAAQRRTRAQNLAI 147 G V P P R+DL +EG L +I R +EGE+A AAQ ++ Q A+ Sbjct: 71 GIYVCP--PVQRERRIDLSSEEG------PLELIRAREMIEGEVAYAAAQHGSKQQIAAV 122 Query: 148 QQALRDIDAAAAAGRDGVQEDFAFHAAISNASHNPLYTSLVQFLSQFLHAAIRVARMNEA 207 ++A + + A AG D ++ D FH ++ A+ N + LV ++Q A R+ + + Sbjct: 123 EEAYALMISNAQAGIDPLEADRLFHIRLAEATGN---SVLVGLVTQLFDA--RLGPLFKR 177 Query: 208 RSSEF-----VQQVRAEHAAMAQAISEGNAEAARAAALRHMEHSAQRIQA 252 S F Q+ EHA + +A+ + N E ARAA RHM+ + R A Sbjct: 178 LHSHFDGTRVWQEAIDEHALVMEALRQRNPEQARAAMRRHMDIAFTRYSA 227 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 0.125 0.333 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: 630,914 Number of extensions: 20514 Number of successful extensions: 170 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 14 Length of query: 277 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 193 Effective length of database: 1,222,130 Effective search space: 235871090 Effective search space used: 235871090 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 (21.8 bits) S2: 130 (54.7 bits)