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= 0001.2444.p (254 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310493|ref|YP_003774585.1| transcription regulator protein... 75 4e-15 gi|300310974|ref|YP_003775066.1| transcription regulator protein... 75 5e-15 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 72 4e-14 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 71 7e-14 gi|300311600|ref|YP_003775692.1| transcription regulator protein... 71 8e-14 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 75.5 bits (184), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/217 (29%), Positives = 107/217 (49%), Gaps = 3/217 (1%) Query: 28 ELAKRSGNTKARAFRLLTTLEECGLVRRQLPMATYSLGYRALILGTAAQGQLSLVNVARD 87 ++A +G +K+ A R++ TLE G + + Y L + + +G LV+VA Sbjct: 38 DVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLTPKVMEVGYNYLAADILVDVANP 97 Query: 88 ILEDIGNECNESV-LVRVRDGMDTVCVAWWDAPHAIRVHSQLGDRRPLSAGASGKLLL-A 145 L ++ N E+V L DG + V VA + A I +H +G R P+ ASG+ L A Sbjct: 98 FLSELANITGETVNLTEPYDG-EMVYVARFVASKFIPIHMPIGSRIPMYCTASGRAYLSA 156 Query: 146 YAPADVQAEILSGKLEKFTPNTIVKQTDLKKELKKILAEGFSISHSEKTADMVAVAAPVR 205 P + QA + S + TP+T D+ + L GF+ + E +++A+PV Sbjct: 157 LEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRERGFASNREELFLGDMSIASPVF 216 Query: 206 DSQGHVVASLSMTAPSSRVPKEKLDKYVKIITQAAAR 242 +S+ VAS+ + AP+SR E+ +K + + AR Sbjct: 217 NSERKPVASVHVVAPTSRWSVEEAEKKLGPLVLECAR 253 >gi|300310974|ref|YP_003775066.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 261 Score = 75.1 bits (183), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 61/212 (28%), Positives = 105/212 (49%), Gaps = 7/212 (3%) Query: 40 AFRLLTTLEECGLVRRQLPMATYSLGYRALILGTAAQGQLSLVNVARDILEDIGNECNES 99 A R+L L V R P TY LG R L LG + +LS+ A D + + + +++ Sbjct: 50 AHRILNDLVVKRFVDRVEP-GTYRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQT 108 Query: 100 VLVRVRDGMDTVCVAW-WDAPHAIRVHSQLGDRRPLSAGASGKLLLAYA-PADVQAEILS 157 + + VR + V + + ++V +G R PL ++GKL L+ P +V+A Sbjct: 109 INLSVRQADEIVYIDRSFSERSGMQVVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATR 168 Query: 158 GKLEKFTPNTIVKQTDLKKELKKILAEGFSISHSEKTADMVAVAAPVRDSQGHVVASLSM 217 L N+I L++EL + A G++ + E + +AA + D G +VA LS+ Sbjct: 169 TGLAGHNKNSITDLAKLERELSMVRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSI 228 Query: 218 TAPSSRVPKEKLDKYVKIITQAAARFSRLLGY 249 +AP+ R+ D++V+ + A++ S LGY Sbjct: 229 SAPADRLQ----DEWVEDLVSTASQISSALGY 256 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 72.0 bits (175), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 59/224 (26%), Positives = 110/224 (49%), Gaps = 4/224 (1%) Query: 26 VTELAKRSGNTKARAFRLLTTLEECGLVRRQLPMATYSLGYRALILGTAAQGQLSLVNVA 85 + ++++++G +A R L TL++ G + +SL + L LG + L A Sbjct: 38 IAQISQKTGIPRAAVRRCLHTLKQLGYADSD--VNNFSLRPKILTLGYSYLSSTPLTVSA 95 Query: 86 RDILEDIGNECNESVLVRVRDGMDTVCVAWWDAPHAIRVHSQLGDRRPLSAGASGKLLLA 145 + L +I ES + V D + + VA A + V G R P + G+ +LA Sbjct: 96 QPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVALNTGSRLPAYCTSLGRAMLA 155 Query: 146 YAPAD-VQAEILSGKLEKFTPNTIVKQTDLKKELKKILAEGFSISHSEKTADMVAVAAPV 204 + P D ++A KL T T+V Q L+ L + A G+++ E + ++A PV Sbjct: 156 HLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRANGYAVIDEELEVGLRSIAVPV 215 Query: 205 RDSQGHVVASLSMTAPSSRVPKEKLDKYV-KIITQAAARFSRLL 247 R + G+V+A+L++ A ++RV ++++ + ++ + A S LL Sbjct: 216 RGASGNVLAALNVGAQAARVSVAQMEEEILPVLLRGAQELSVLL 259 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 71.2 bits (173), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 58/205 (28%), Positives = 97/205 (47%), Gaps = 3/205 (1%) Query: 26 VTELAKRSGNTKARAFRLLTTLEECGLVRRQLPMATYSLGYRALILGTAAQGQLSLVNVA 85 + E+A+ +G T+A A R L TL G +R T+SL L LG + L + Sbjct: 45 IAEVAQLTGLTRAAARRYLITLTHLGYMRHD--NKTFSLTPMVLRLGQSYLHSARLPRIV 102 Query: 86 RDILEDIGNECNESVLVRVRDGMDTVCVAWWDAPHAIRVHSQLGDRRPLSAGASGKLLLA 145 + +L + E+ V D VCVA A + Q G R P A+G++LLA Sbjct: 103 QPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLA 162 Query: 146 -YAPADVQAEILSGKLEKFTPNTIVKQTDLKKELKKILAEGFSISHSEKTADMVAVAAPV 204 PA + A + + E T +TI L E+ + +G+++ E + +A PV Sbjct: 163 NLPPAQLDAILARAQPEAITAHTITDVERLGLEIARARVQGYALVDQELELGLRTMAVPV 222 Query: 205 RDSQGHVVASLSMTAPSSRVPKEKL 229 R+ +G VVA+++++ + R+ E + Sbjct: 223 RNFRGEVVAAMNISVHAGRMKLEDM 247 >gi|300311600|ref|YP_003775692.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 292 Score = 71.2 bits (173), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 53/203 (26%), Positives = 100/203 (49%), Gaps = 5/203 (2%) Query: 41 FRLLTTLEECGLVRRQLPMATYSLGYRALILGTAAQGQLSLVNVARDILEDIGNECNESV 100 +R L +L++ GL++ + T+ G + L +LV+ +R+ + + ESV Sbjct: 91 YRHLASLKKWGLLQEHMNSGTFEPGPTGVQLAWGFDQNSNLVSQSREEISSLVQRSGESV 150 Query: 101 LVRVRDGMDTVCVAWWDAPHAIRVHSQLGDRRPLSAGASGKLLLAYAPADVQAEILSGKL 160 + V VC+A ++ +R G PL GAS K LLA+ P +Q ++L+ +L Sbjct: 151 GLLVAINGQMVCIAMEESDQPLRCSFTKGRAHPLLKGASAKSLLAFMPRKLQQKLLTDQL 210 Query: 161 EKFTPNTIVKQTDLKKELKKILAEGFSISHSEKTADMVAVAAPVRDSQGHVVASLSMTAP 220 P + L+ +L++I G+ IS SE + V+ P+ S G + ++++ AP Sbjct: 211 GD-KPEELAA---LETQLEEIRRRGYCISESEVDLGVWGVSVPIMTSNGRLEGTITLMAP 266 Query: 221 SSRVPKEKLDKYVKIITQAAARF 243 + RV + + V++ ++A R Sbjct: 267 ALRVGNRE-QELVRMTLESAQRI 288 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 0.131 0.366 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: 687,153 Number of extensions: 25221 Number of successful extensions: 112 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 8 Length of query: 254 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 171 Effective length of database: 1,226,865 Effective search space: 209793915 Effective search space used: 209793915 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)