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= 0002.0634.p (243 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... 405 e-114 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 114 6e-27 gi|300313824|ref|YP_003777916.1| GntR family transcription regul... 111 7e-26 gi|300309587|ref|YP_003773679.1| GntR family transcription regul... 62 3e-11 >gi|300313540|ref|YP_003777632.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 405 bits (1041), Expect = e-114, Method: Compositional matrix adjust. Identities = 199/244 (81%), Positives = 215/244 (88%), Gaps = 2/244 (0%) Query: 1 MTKPSKTSR--SPLASHPAVRDHSPAVEERLYQDIYDAIMEHRLPPRTKLTEQVLCQIYD 58 M K SK SR +P + RD++ AVEER+YQDIYDAIMEHRLPPRTKLTEQ LCQIYD Sbjct: 1 MNKASKASRPATPARAPARERDNAVAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIYD 60 Query: 59 TARHTVRKVLSRLATEGMVDLEANRGAFIASPSHAEVKDMFELRNIIEYAVLDKVGREAS 118 TARHTVRKVL+RLA EGMVDLEANRGAFIASPS AEV+DMFELRNI+E+AVL+K+G A Sbjct: 61 TARHTVRKVLARLAAEGMVDLEANRGAFIASPSPAEVRDMFELRNILEHAVLEKLGHTAG 120 Query: 119 TRQIAGLRKMVEEERNSYLTGDRPRWIRLSAQFHLALAELTGNALLVDTLRKLVSRTTLM 178 TRQIAGLR+MVEEER+ YL GDRPRWIRLSAQFHLALAELTGNALLV+TLRKLVSRTTLM Sbjct: 121 TRQIAGLRRMVEEERDCYLNGDRPRWIRLSAQFHLALAELTGNALLVETLRKLVSRTTLM 180 Query: 179 IAKTEAPGHNACSFDEHDTVLAALENGDIAQAQEHMAHHLHLCEDRVRPSDDDHFDLRSV 238 IAKTEAPGHNACSFDEH+TVL ALE GDI AQ HMAHHLHLCEDRVRP DD FDLR+V Sbjct: 181 IAKTEAPGHNACSFDEHETVLEALEKGDIKAAQAHMAHHLHLCEDRVRPDADDQFDLRAV 240 Query: 239 LGKS 242 LGK Sbjct: 241 LGKG 244 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 114 bits (286), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 75/224 (33%), Positives = 122/224 (54%), Gaps = 13/224 (5%) Query: 12 LASHPAVRDHSPAVEERLYQDIYDAIMEHRLPPRTKLTEQVLCQIYDTARHTVRKVLSRL 71 ++++P+++ S ++ I +AI+ +L P T+L EQ L ++ +R VR+ L+ L Sbjct: 1 MSTNPSLKSSS-----QIAVRITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHL 55 Query: 72 ATEGMVDLEANRGAFIASPSHAEVKDMFELRNIIEYAVLDKVG-REASTRQIAGLRKMVE 130 G+V + A RG F+ P+ A+ ++ FE R +IE +L + R I LR+ + Sbjct: 56 MARGIVTVSARRGWFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIA 115 Query: 131 EERNSYLTGDRPRWIRLSAQFHLALAELTGNALLVDTLRKLVSRTTL--MIAKTEAPGHN 188 E + D L FH+ LAE GN+LL +TLR L +RTTL M+ ++ + Sbjct: 116 REEAAIAGADVGARSYLLGDFHVCLAECLGNSLLAETLRDLTARTTLTAMLHQSSEQAED 175 Query: 189 ACSFDEHDTVLAALENGDIAQAQEHMAHHLHLCE---DRVRPSD 229 +CS EH ++ ALE GD+ QA++ M HL E ++VR SD Sbjct: 176 SCS--EHVLIVEALERGDLEQAEQLMHDHLQHVESGLNQVRSSD 217 >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 = 65/197 (32%), Positives = 103/197 (52%) Query: 22 SPAVEERLYQDIYDAIMEHRLPPRTKLTEQVLCQIYDTARHTVRKVLSRLATEGMVDLEA 81 +P + + DI I RLPP KL E+ L ++Y +R +R L LA + +VDL Sbjct: 7 APDSSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLIP 66 Query: 82 NRGAFIASPSHAEVKDMFELRNIIEYAVLDKVGREASTRQIAGLRKMVEEERNSYLTGDR 141 ++GAF++ P+ E +++F +R +E A++ + A+ A L +E ER + + Sbjct: 67 DKGAFVSKPTVEETRNIFFVRRTLESAMVREFVARATPEDYARLEAHLELERQAVSDDNM 126 Query: 142 PRWIRLSAQFHLALAELTGNALLVDTLRKLVSRTTLMIAKTEAPGHNACSFDEHDTVLAA 201 L + FH+ LA + GN +L D L KL R+ L+ ++ ACS +EH +AA Sbjct: 127 QVRSTLLSDFHILLARIVGNDVLTDILEKLAGRSALITMLYQSTRDAACSSEEHRAFIAA 186 Query: 202 LENGDIAQAQEHMAHHL 218 GD +A E M HHL Sbjct: 187 ARAGDTERAMELMEHHL 203 >gi|300309587|ref|YP_003773679.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 62.4 bits (150), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 96/245 (39%), Gaps = 36/245 (14%) Query: 9 RSPLASHPAVRDHSPAVEERLYQDIYDAI----------MEHRLPPRTKLTEQVLCQIYD 58 + P S + P RLY I D + + RLPP L EQ+ Sbjct: 2 QGPTRSVQTMASQKPTDSRRLYLQIADRLRTVMYQPGFTSQGRLPPERALAEQL-----G 56 Query: 59 TARHTVRKVLSRLATEGMVDLEANRGAFI---ASPSHAE-----------VKDMFELRNI 104 +R ++R+ L L EG V++ G ++ A P E + D+ R I Sbjct: 57 VSRPSIREALVALELEGRVEIRMGSGVYLTQAAPPGQQEEPAPDKEMGNSLSDIMGARAI 116 Query: 105 IEYAVLDKVGREASTRQIAGLRKMVEEERNSYLTGDRPRWIRLSAQFHLALAELTGNALL 164 E A++ V A R I LR + + G P FH+ +A +TGN +L Sbjct: 117 FEGAIVALVAPLAKPRDIKALRAIYDTMERECQAGQSPAAT--DRDFHIRIARMTGNDVL 174 Query: 165 VDTLRKLV-SRTTLMIAKT----EAPGHNACSFDEHDTVLAALENGDIAQAQEHMAHHLH 219 V T+ +L R + AK E + EH +L A+E D QAQ M HL Sbjct: 175 VQTVARLYDERQDPISAKLLDHYEPEDSWLTALHEHREILEAIEARDAIQAQAAMQRHLK 234 Query: 220 LCEDR 224 + R Sbjct: 235 MSLKR 239 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 0.131 0.377 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: 726,622 Number of extensions: 27188 Number of successful extensions: 118 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 120 Number of HSP's successfully gapped: 8 Length of query: 243 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 160 Effective length of database: 1,226,865 Effective search space: 196298400 Effective search space used: 196298400 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)