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= 0001.4113.p (246 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... 462 e-131 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 117 7e-28 gi|300313824|ref|YP_003777916.1| GntR family transcription regul... 111 7e-26 gi|300312737|ref|YP_003776829.1| transcription regulator protein... 59 5e-10 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 57 1e-09 >gi|300313540|ref|YP_003777632.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 462 bits (1189), Expect = e-131, Method: Compositional matrix adjust. Identities = 227/246 (92%), Positives = 235/246 (95%), Gaps = 1/246 (0%) Query: 1 MNKANKTARSPAAPARASTRERESTGAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIY 60 MNKA+K +R PA PARA RER++ AVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIY Sbjct: 1 MNKASKASR-PATPARAPARERDNAVAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIY 59 Query: 61 DTARHTVRKVLSRLASEGMVDLEANRGAFIASPSHAEVRDMFELRNILEHAVLEKVGRQA 120 DTARHTVRKVL+RLA+EGMVDLEANRGAFIASPS AEVRDMFELRNILEHAVLEK+G A Sbjct: 60 DTARHTVRKVLARLAAEGMVDLEANRGAFIASPSPAEVRDMFELRNILEHAVLEKLGHTA 119 Query: 121 GTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQFHLALAELTGNALLVETLRKLVSRTTL 180 GTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQFHLALAELTGNALLVETLRKLVSRTTL Sbjct: 120 GTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQFHLALAELTGNALLVETLRKLVSRTTL 179 Query: 181 MIAKTEAPGHNACSFDEHETVLEALEKGDIEAAQEHMAHHLHLCEDRVRPDADDQFDLRA 240 MIAKTEAPGHNACSFDEHETVLEALEKGDI+AAQ HMAHHLHLCEDRVRPDADDQFDLRA Sbjct: 180 MIAKTEAPGHNACSFDEHETVLEALEKGDIKAAQAHMAHHLHLCEDRVRPDADDQFDLRA 239 Query: 241 VLGKGL 246 VLGKGL Sbjct: 240 VLGKGL 245 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 117 bits (294), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 72/194 (37%), Positives = 107/194 (55%), Gaps = 5/194 (2%) Query: 36 IYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLSRLASEGMVDLEANRGAFIASPSH 95 I +AI+ +L P T+L EQ L ++ +R VR+ L+ L + G+V + A RG F+ P+ Sbjct: 17 ITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVSARRGWFVIEPTP 76 Query: 96 AEVRDMFELRNILEHAVLEKVG-RQAGTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQF 154 A+ R+ FE R ++E +L + R G I LR + E D L F Sbjct: 77 AQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIAREEAAIAGADVGARSYLLGDF 136 Query: 155 HLALAELTGNALLVETLRKLVSRTTL--MIAKTEAPGHNACSFDEHETVLEALEKGDIEA 212 H+ LAE GN+LL ETLR L +RTTL M+ ++ ++CS EH ++EALE+GD+E Sbjct: 137 HVCLAECLGNSLLAETLRDLTARTTLTAMLHQSSEQAEDSCS--EHVLIVEALERGDLEQ 194 Query: 213 AQEHMAHHLHLCED 226 A++ M HL E Sbjct: 195 AEQLMHDHLQHVES 208 >gi|300313824|ref|YP_003777916.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 228 Score = 111 bits (277), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 65/188 (34%), Positives = 98/188 (52%) Query: 34 QDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLSRLASEGMVDLEANRGAFIASP 93 DI I RLPP KL E+ L ++Y +R +R L LA + +VDL ++GAF++ P Sbjct: 16 SDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLIPDKGAFVSKP 75 Query: 94 SHAEVRDMFELRNILEHAVLEKVGRQAGTRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQ 153 + E R++F +R LE A++ + +A A L +E ER + + L + Sbjct: 76 TVEETRNIFFVRRTLESAMVREFVARATPEDYARLEAHLELERQAVSDDNMQVRSTLLSD 135 Query: 154 FHLALAELTGNALLVETLRKLVSRTTLMIAKTEAPGHNACSFDEHETVLEALEKGDIEAA 213 FH+ LA + GN +L + L KL R+ L+ ++ ACS +EH + A GD E A Sbjct: 136 FHILLARIVGNDVLTDILEKLAGRSALITMLYQSTRDAACSSEEHRAFIAAARAGDTERA 195 Query: 214 QEHMAHHL 221 E M HHL Sbjct: 196 MELMEHHL 203 >gi|300312737|ref|YP_003776829.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 58.5 bits (140), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 57/214 (26%), Positives = 94/214 (43%), Gaps = 14/214 (6%) Query: 11 PAAPARASTRERESTGAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKV 70 P A ST + + ER+YQD+ + I ++ P KLT + L T+ VR+ Sbjct: 3 PTLIADLSTMRKIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGLADALGTSPMPVREA 62 Query: 71 LSRLASEGMVDLEANRGAFIASPSHAEVRDMFELRNILEHAVLEKVGRQ---AGTRQIAG 127 + +LA+EG +++ NR + + + R++ ++R LE +E R G Q+A Sbjct: 63 VRQLAAEGALEILPNRAMRVPLMTKGKFRELLKIRLALEGLAIEHAARHIDAVGLEQVAR 122 Query: 128 LRRMVEEERDCYLNGDRPR---WIRLSAQFHLALAELTGNALLVETLRKLVSRTTLMIAK 184 L + E + RP IRL+ Q H A + +G LV+ + L + +I Sbjct: 123 LHDTLSVE----MKRKRPNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINL 178 Query: 185 TEAPGH----NACSFDEHETVLEALEKGDIEAAQ 214 G A + H +LE L G E A+ Sbjct: 179 DLRAGSRRLAEAPALVHHARLLEGLRAGSPEKAR 212 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 57.4 bits (137), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 47/198 (23%), Positives = 94/198 (47%), Gaps = 4/198 (2%) Query: 28 VEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLSRLASEGMVDLEANRG 87 + E +++ I AI++ + P +K++E L + Y +R +R+ + RL + ++ + G Sbjct: 17 LSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPHVG 76 Query: 88 AFIASPSHAEVRDMFELRNILEHAVLEKVGRQAGTRQIAGLRRMVE-EERDCYLNGDRPR 146 A + S + + ++F++R LE ++ ++ LRR+++ E+D R Sbjct: 77 ARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEKDEAFQAGRGY 136 Query: 147 WIRLS-AQFHLALAELTGNALLVETLRKLVSRTTLM--IAKTEAPGHNACSFDEHETVLE 203 + + FH + + +GN +L L + + M I + P +F EH +L+ Sbjct: 137 YQQEGDYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQAFAEHHRILD 196 Query: 204 ALEKGDIEAAQEHMAHHL 221 AL GD E A M H+ Sbjct: 197 ALADGDGELADLLMRRHI 214 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 0.319 0.132 0.376 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: 669,595 Number of extensions: 24608 Number of successful extensions: 106 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 12 Length of query: 246 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 163 Effective length of database: 1,226,865 Effective search space: 199978995 Effective search space used: 199978995 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 129 (54.3 bits)