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= 0001.2499.p (245 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311600|ref|YP_003775692.1| transcription regulator protein... 480 e-137 gi|300313239|ref|YP_003777331.1| transcription regulator protein... 73 3e-14 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 66 3e-12 gi|300310378|ref|YP_003774470.1| transcription regulator protein... 56 3e-09 >gi|300311600|ref|YP_003775692.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 292 Score = 480 bits (1235), Expect = e-137, Method: Compositional matrix adjust. Identities = 233/245 (95%), Positives = 238/245 (97%) Query: 1 MDSPQTSTIVDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHM 60 MDSPQTSTIVDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHM Sbjct: 48 MDSPQTSTIVDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHM 107 Query: 61 NSGTFEPGPTGVQLAWGFDQNSNLIGQSREEIISLVQRSGESVGLLVPINGQMVCIAMEE 120 NSGTFEPGPTGVQLAWGFDQNSNL+ QSREEI SLVQRSGESVGLLV INGQMVCIAMEE Sbjct: 108 NSGTFEPGPTGVQLAWGFDQNSNLVSQSREEISSLVQRSGESVGLLVAINGQMVCIAMEE 167 Query: 121 SDQPLRCSFVKGRAHPLLKGASAKSLLAFMPRKLQQKLVADQLGDKPEEVAALEAQLDEI 180 SDQPLRCSF KGRAHPLLKGASAKSLLAFMPRKLQQKL+ DQLGDKPEE+AALE QL+EI Sbjct: 168 SDQPLRCSFTKGRAHPLLKGASAKSLLAFMPRKLQQKLLTDQLGDKPEELAALETQLEEI 227 Query: 181 RRRGYSISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELVRMTVESAQR 240 RRRGY ISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELVRMT+ESAQR Sbjct: 228 RRRGYCISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELVRMTLESAQR 287 Query: 241 ICNRF 245 ICNRF Sbjct: 288 ICNRF 292 >gi|300313239|ref|YP_003777331.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 244 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 117/241 (48%), Gaps = 9/241 (3%) Query: 10 VDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGP 69 + R+L VL + + + I A + ++ YR++ L GLL + M G + GP Sbjct: 4 LSRMLEVLTLFKPSQPVIDIELICAQLGYTPASAYRYVRELGNAGLLVK-MPRG-YAVGP 61 Query: 70 TGVQLAWGFDQNSNLIGQSREEIISLVQRSGESVGLLVPINGQMVCIAMEES-DQPLRCS 128 ++L Q L+ SR+ + LV ++G + L+ + G V ++ES R + Sbjct: 62 KVIELDRHMTQFDPLLSASRDIVGDLVAQTGLEL-LISELYGSTVITILQESGSNDARLN 120 Query: 129 FVKGRAHPLLKGASAKSLLAFM-PRKLQQKL---VADQLGDKPEEVAALEAQLDEIRRRG 184 F +G L A+A+ +LA++ PR+L++ A++L + +IR+ G Sbjct: 121 FGRGTPMDLFHSATARVILAYLLPRQLRKHFDGASAEELRLVGSNWRDFSKVMLKIRKDG 180 Query: 185 YSISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELVR-MTVESAQRICN 243 Y +SE E+D G G++ PI R+ G+ITL RV +E + + ++A++I Sbjct: 181 YCVSEGELDAGKTGIAAPIFDEKQRILGSITLAGNTERVNAFNREFLSGLITDAARKITA 240 Query: 244 R 244 R Sbjct: 241 R 241 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 65.9 bits (159), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/212 (26%), Positives = 99/212 (46%), Gaps = 5/212 (2%) Query: 16 VLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGPTGVQLA 75 VL +A P++ Q+AA+ P TVYR LA+L G++ E+ + +E GP + LA Sbjct: 26 VLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVGPRLINLA 85 Query: 76 WGFDQNSNLIGQSREEIISLVQRSGESVGLLVPINGQMVCIAMEESDQPLRCSFVKGRAH 135 S++ + E + L + E+V L VP + MV I ES Q +R G Sbjct: 86 SRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESPQAVRMDSRIGTRV 145 Query: 136 PLLKGASAKSLLAFMPRKLQQKLVADQ-----LGDKPEEVAALEAQLDEIRRRGYSISES 190 L + K+ LA + +++L+ + E+AAL A +++ R RGY+ Sbjct: 146 TLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDTRARGYAEDRE 205 Query: 191 EVDLGVWGVSVPIMTSNGRLEGTITLMAPALR 222 E + ++ I+ ++G +++ P R Sbjct: 206 ENEAQIFCYGAAIVGADGVPVACVSVSIPLYR 237 >gi|300310378|ref|YP_003774470.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 282 Score = 56.2 bits (134), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 53/206 (25%), Positives = 104/206 (50%), Gaps = 9/206 (4%) Query: 10 VDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGP 69 +D+ L +L ++R+ + ++ QI+ + + V+ ++R + +L++ G L ++ + Sbjct: 36 LDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGYLI--ADNDHYRLSL 93 Query: 70 TGVQLAWGFDQNSNLIGQSREEIISLVQRSGESVGLLVPINGQMVCIAMEESDQPLRCSF 129 +LA +L+ + + L R+ +S L V G+++ +A + D P R +F Sbjct: 94 KLFELAHHHQPIRSLVSTALPHMRELASRAVQSTHLTVYEAGRVIVVA--QVDSPERWAF 151 Query: 130 -VK-GRAHPLLKGASAKSLLAFMPRKLQQKLVADQL---GDKPEEVAALEAQLDEIRRRG 184 +K G L AS LLAF + ++A + G++ E A L Q+++ R+RG Sbjct: 152 GLKVGALVSLTDTASGHVLLAFRDEAERAAMLAAHVRMDGEQEIETAQLMRQIEDTRKRG 211 Query: 185 YSISESEVDLGVWGVSVPIMTSNGRL 210 +S ES GV +S P+M +N R+ Sbjct: 212 HSRMESRQIRGVVNLSYPVMGANNRM 237 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 0.132 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: 713,463 Number of extensions: 27821 Number of successful extensions: 119 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 118 Number of HSP's successfully gapped: 7 Length of query: 245 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 162 Effective length of database: 1,226,865 Effective search space: 198752130 Effective search space used: 198752130 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: 129 (54.3 bits)