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= 0003.0047.p (280 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313540|ref|YP_003777632.1| transcription regulator protein... 151 5e-38 gi|300313824|ref|YP_003777916.1| GntR family transcription regul... 126 2e-30 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 100 9e-23 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 74 1e-14 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 74 1e-14 >gi|300313540|ref|YP_003777632.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 151 bits (382), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 79/198 (39%), Positives = 120/198 (60%) Query: 65 RIYQTVFDSVMSQRLTPGTKLPEAALCELFGVGRTVVQKALQKLAHEHIVELRPNRGAVV 124 R+YQ ++D++M RL P TKL E LC+++ R V+K L +LA E +V+L NRGA + Sbjct: 30 RMYQDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLARLAAEGMVDLEANRGAFI 89 Query: 125 AMPTPEETREIFEARRALEGAIMRLAVRNATRADLAKLRRQLKEEHQVMHSYAQTHWARL 184 A P+P E R++FE R LE A++ A +A LRR ++EE + + W RL Sbjct: 90 ASPSPAEVRDMFELRNILEHAVLEKLGHTAGTRQIAGLRRMVEEERDCYLNGDRPRWIRL 149 Query: 185 ASSFHMRVAELSRNATLQRYLGELVSRCSLIVALHEPAGYAACEHDEHTHIVDLIERGDS 244 ++ FH+ +AEL+ NA L L +LVSR +L++A E G+ AC DEH +++ +E+GD Sbjct: 150 SAQFHLALAELTGNALLVETLRKLVSRTTLMIAKTEAPGHNACSFDEHETVLEALEKGDI 209 Query: 245 EGAVAAMEAHLVSLEEHI 262 + A A M HL E+ + Sbjct: 210 KAAQAHMAHHLHLCEDRV 227 >gi|300313824|ref|YP_003777916.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 228 Score = 126 bits (316), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 74/190 (38%), Positives = 108/190 (56%) Query: 73 SVMSQRLTPGTKLPEAALCELFGVGRTVVQKALQKLAHEHIVELRPNRGAVVAMPTPEET 132 ++ +QRL PG KLPE AL ++ V RT ++ AL LA + +V+L P++GA V+ PT EET Sbjct: 21 NIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLIPDKGAFVSKPTVEET 80 Query: 133 REIFEARRALEGAIMRLAVRNATRADLAKLRRQLKEEHQVMHSYAQTHWARLASSFHMRV 192 R IF RR LE A++R V AT D A+L L+ E Q + + L S FH+ + Sbjct: 81 RNIFFVRRTLESAMVREFVARATPEDYARLEAHLELERQAVSDDNMQVRSTLLSDFHILL 140 Query: 193 AELSRNATLQRYLGELVSRCSLIVALHEPAGYAACEHDEHTHIVDLIERGDSEGAVAAME 252 A + N L L +L R +LI L++ AAC +EH + GD+E A+ ME Sbjct: 141 ARIVGNDVLTDILEKLAGRSALITMLYQSTRDAACSSEEHRAFIAAARAGDTERAMELME 200 Query: 253 AHLVSLEEHI 262 HL+ +E+ + Sbjct: 201 HHLLHVEQAL 210 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 100 bits (250), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 71/205 (34%), Positives = 106/205 (51%), Gaps = 5/205 (2%) Query: 62 IIVRIYQTVFDSVMSQRLTPGTKLPEAALCELFGVGRTVVQKALQKLAHEHIVELRPNRG 121 I VRI +++++++L PGT+L E L +LF V RT V++AL L IV + RG Sbjct: 13 IAVRIT----EAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVSARRG 68 Query: 122 AVVAMPTPEETREIFEARRALEGAIMRLA-VRNATRADLAKLRRQLKEEHQVMHSYAQTH 180 V PTP + RE FEARR +E ++R A +R + +LR + E + Sbjct: 69 WFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIAREEAAIAGADVGA 128 Query: 181 WARLASSFHMRVAELSRNATLQRYLGELVSRCSLIVALHEPAGYAACEHDEHTHIVDLIE 240 + L FH+ +AE N+ L L +L +R +L LH+ + A EH IV+ +E Sbjct: 129 RSYLLGDFHVCLAECLGNSLLAETLRDLTARTTLTAMLHQSSEQAEDSCSEHVLIVEALE 188 Query: 241 RGDSEGAVAAMEAHLVSLEEHIHLV 265 RGD E A M HL +E ++ V Sbjct: 189 RGDLEQAEQLMHDHLQHVESGLNQV 213 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 73.9 bits (180), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 61/208 (29%), Positives = 98/208 (47%), Gaps = 18/208 (8%) Query: 59 GEDIIVRIYQTVFDSVMSQRLTPGTKLPEAALCELFGVGRTVVQKALQKLAHEHIVELRP 118 GE + +++ + +++ + PG+K+ E L +G+ R +++A+ +L ++++ P Sbjct: 14 GETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVP 73 Query: 119 NRGAVVAMPTPEETREIFEARRALEGAIMRLAVRNATRADLAKLRRQL-----KEEHQVM 173 + GA V T E E+F+ R +LEG RLA + +RA+L +LRR L E Q Sbjct: 74 HVGARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEKDEAFQAG 133 Query: 174 HSYAQTHWARLASSFHMRVAELSRNATLQRYL-GEL-----VSRCSLIVALHEPAGYAAC 227 Y Q FH ++ + S N L R L GEL + R H P A Sbjct: 134 RGYYQQEG---DYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQAFA- 189 Query: 228 EHDEHTHIVDLIERGDSEGAVAAMEAHL 255 EH I+D + GD E A M H+ Sbjct: 190 ---EHHRILDALADGDGELADLLMRRHI 214 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 73.9 bits (180), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 62/199 (31%), Positives = 93/199 (46%), Gaps = 19/199 (9%) Query: 68 QTVFDSVMSQRLTPGTKLPEAALCELFGVGRTVVQKALQKLAHEHIVELRPNRGAVVAMP 127 +++ + + +L+PG L E +L E FGV RT +++AL +LA IVE+RP RGA+VA Sbjct: 13 ESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGAIVAEI 72 Query: 128 TPEETREIFEARRALEGAIMRLAVRNATRADLAKLRRQLKEEHQVMHSYAQTH----WAR 183 P++ E+FE E RLA R T A+ A +L HQ + + + Sbjct: 73 GPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHA----ELLAAHQACQAARDANDPDAYFY 128 Query: 184 LASSFHMRVAELSRNATLQRYLGEL------VSRCSLIVALHEPAGYAACEHDEHTHIVD 237 L +FH + S N L L R L V + + DEH +VD Sbjct: 129 LNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSF-----DEHQAVVD 183 Query: 238 LIERGDSEGAVAAMEAHLV 256 I GD+E V + H++ Sbjct: 184 AIISGDAEKTVDLLREHIM 202 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 0.129 0.364 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: 848,283 Number of extensions: 33442 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 15 Length of query: 280 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 196 Effective length of database: 1,222,130 Effective search space: 239537480 Effective search space used: 239537480 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)