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= 0001.3359.p (293 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312695|ref|YP_003776787.1| AraC family transcription regul... 556 e-159 gi|300310394|ref|YP_003774486.1| AraC family transcription regul... 281 4e-77 gi|300309661|ref|YP_003773753.1| AraC family transcription regul... 74 2e-14 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 59 6e-10 >gi|300312695|ref|YP_003776787.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 556 bits (1432), Expect = e-159, Method: Compositional matrix adjust. Identities = 261/293 (89%), Positives = 283/293 (96%) Query: 1 MSPDLELVHTRQDESFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDFAPG 60 MSPDLELVHTRQD+SFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDF PG Sbjct: 1 MSPDLELVHTRQDQSFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDFGPG 60 Query: 61 NLVLTGPNLPHNWVSNLGAGDQLPSRDLVLQFSRAFAQRVLGAIPELAPLQDLLDGAARG 120 NLVLTGPNLPHNWVSNLGA Q+P+RDLVLQFSR FA+RV+GAIPEL+PLQ++LDGAARG Sbjct: 61 NLVLTGPNLPHNWVSNLGAHQQVPARDLVLQFSRPFAERVVGAIPELSPLQEMLDGAARG 120 Query: 121 LQFPDALGVAITPLMQDLAQASGAKRVVLMMAVLEQLASCPQRRPLAGPGYEVHAQRHMS 180 LQFPDALG +ITPLMQ+LAQASGA+RVVLMM+VLE+LASCP+R+PLAGPGY+++AQRHMS Sbjct: 121 LQFPDALGASITPLMQELAQASGARRVVLMMSVLERLASCPERKPLAGPGYDLNAQRHMS 180 Query: 181 STINQVLSYIAQNLGGNLRETDVAELAGMSVSSFTRFFKRHTGSTFIQYQNGLRLNEACE 240 ST+NQVLS I QNLGGNLRETD+AELAGMSVSSFTRFFKRHTG TFIQYQNGLRLNEACE Sbjct: 181 STLNQVLSCIRQNLGGNLRETDLAELAGMSVSSFTRFFKRHTGCTFIQYQNGLRLNEACE 240 Query: 241 LLMCTELSVTEVCYRVGFNNLSNFNRQFLAYKGMPPSRFRALHRLNDEARAVA 293 LLMCTELSVTEVCYRVGFNNLSNFNRQFLA KGMPPSRFR+LHRLND+ RAVA Sbjct: 241 LLMCTELSVTEVCYRVGFNNLSNFNRQFLASKGMPPSRFRSLHRLNDDVRAVA 293 >gi|300310394|ref|YP_003774486.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 281 bits (720), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 130/281 (46%), Positives = 187/281 (66%), Gaps = 1/281 (0%) Query: 1 MSPDLELVHTRQDESFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDFAPG 60 M PDLELVH R+ ESF AW+H YP +WH+HPEYE+H++ A+SG+F+VGD IGDFAPG Sbjct: 1 MQPDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPG 60 Query: 61 NLVLTGPNLPHNWVSNLGAGDQLPSRDLVLQFSRAFAQRVLGAIPELAPLQDLLDGAARG 120 LV+TGPNLP NW+S++ A + +P R LV+QF + +I E+ + LL+ + RG Sbjct: 61 QLVMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVDQCAASIAEMEAIMPLLERSHRG 120 Query: 121 LQFPDALGVAITPLMQDLAQASGAKRVVLMMAVLEQLASCPQRRPLAGPGYEVHAQRHMS 180 L F A + PLMQ L G KR+ L +L+ LA+ P+ LA Y++ S Sbjct: 121 LLFDAATSETVRPLMQRLIDQRGLKRLALFWELLDVLANAPEPEVLASLSYKLDLSGVNS 180 Query: 181 STINQVLSYIAQNLGGNLRETDVAELAGMSVSSFTRFFKRHTGSTFIQYQNGLRLNEAC- 239 S +N+ ++Y+ ++L ++ E D+A++ G ++SSF+R FKRHTG+T ++Y+N LR++ AC Sbjct: 181 SGLNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACL 240 Query: 240 ELLMCTELSVTEVCYRVGFNNLSNFNRQFLAYKGMPPSRFR 280 LL + +T++CY GF+NLSNFNR F KGM PS FR Sbjct: 241 ALLTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFR 281 >gi|300309661|ref|YP_003773753.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 115/255 (45%), Gaps = 33/255 (12%) Query: 40 VITASSGKFFVGDFIGDFAPGNLVLTGPNLPHNWVSNLGAGDQLPSRDLVLQFSRAFAQR 99 VI S + FVGD I ++ P + ++ +LP + + D+ P L L+ Sbjct: 88 VIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVVGKVMVTSPDE-PYLGLRLELDTQEIGE 146 Query: 100 VLGA--IPELAPLQDLLDGAARGLQFPDALGVAITPLMQDLAQASGAKRVVLMMAVLEQL 157 ++G +P A + + GAARGL + + L V DL A V+ ++ + E+ Sbjct: 147 LIGDENLPAAAQVSE---GAARGL-YVNRLDV-------DLLDA-----VLRLLRLQERP 190 Query: 158 ASCPQRRPLA-----------GPGYEVHAQRHMSSTINQV---LSYIAQNLGGNLRETDV 203 A P P+ G G + S +N+V + I + LR D+ Sbjct: 191 ADVPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEGYDQALRIDDI 250 Query: 204 AELAGMSVSSFTRFFKRHTGSTFIQYQNGLRLNEACELLMCTELSVTEVCYRVGFNNLSN 263 A MSVSS FK T + +QYQ LRL EA +L++ + SV +RVG+ + S Sbjct: 251 ARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAAHRVGYESSSQ 310 Query: 264 FNRQFLAYKGMPPSR 278 F+R++ G PP R Sbjct: 311 FSREYSRLFGAPPLR 325 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 58.5 bits (140), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 29/105 (27%), Positives = 54/105 (51%) Query: 176 QRHMSSTINQVLSYIAQNLGGNLRETDVAELAGMSVSSFTRFFKRHTGSTFIQYQNGLRL 235 +RH S I + L ++ +++ ++ ++ A+ MS +F R FKR TG T + +R+ Sbjct: 248 KRHRSERIQKALIWLDEHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRI 307 Query: 236 NEACELLMCTELSVTEVCYRVGFNNLSNFNRQFLAYKGMPPSRFR 280 AC L T+L + ++ R G + + R F + G+ P +R Sbjct: 308 EAACLYLKETDLPIEKIARRCGLVSGEHLARLFRKHHGVSPGEYR 352 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 0.323 0.136 0.414 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: 949,756 Number of extensions: 39533 Number of successful extensions: 170 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 4 Length of query: 293 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 209 Effective length of database: 1,222,130 Effective search space: 255425170 Effective search space used: 255425170 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 (22.0 bits) S2: 130 (54.7 bits)