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= 0053.0005.p (376 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311612|ref|YP_003775704.1| sugar kinase [Herbaspirillum se... 251 1e-67 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 206 4e-54 gi|300310353|ref|YP_003774445.1| ribokinase [Herbaspirillum sero... 131 7e-32 gi|300310825|ref|YP_003774917.1| LacI family transcription regul... 80 3e-16 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 62 7e-11 >gi|300311612|ref|YP_003775704.1| sugar kinase [Herbaspirillum seropedicae SmR1] Length = 299 Score = 251 bits (640), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 144/240 (60%), Positives = 176/240 (73%), Gaps = 7/240 (2%) Query: 136 DNAAPGXPRAALRKDGIDDSHVTTIAGTASGIASILVDDNGQNSIVLASGANAELSPAHI 195 D+A G R ++ GIDD ++ +AG A+GIASI+VD N QNSIV+A+GAN L I Sbjct: 64 DDAFGGQMRQSITACGIDDRYIDEVAGEATGIASIMVDANAQNSIVIAAGANGRLDVERI 123 Query: 196 DAARGLIEQARIVVLQLESPLPTVIHAIRLAHALGKTVVLNPAPAQALPTELLGQIDYLV 255 + AR LIEQA IV+LQLE P+ TVIH+I LAHALGKTVVLNPAPAQALP LL +IDYL+ Sbjct: 124 ERARALIEQASIVLLQLEVPMATVIHSIELAHALGKTVVLNPAPAQALPRALLQKIDYLI 183 Query: 256 PNEIEAAMLAGMPASGIDNDEQIAAVISKLRAAGSTNVLVTLGDKGVYAALESGSE-HVD 314 NEIEAAMLA + E I + KL G+ NV+VTLG+KGVY + G + H+ Sbjct: 184 LNEIEAAMLAE------EQSEDIPMLARKLHDLGARNVVVTLGEKGVYGSFADGQQRHLP 237 Query: 315 AQAVKAVDTTAAGDTFIGGFVAALAEGRSEAEAIALGQRAAAISVARVGAQTSIPSRREV 374 A+ V+AVDTTAAGDTFIGGF+ A+A+GR + EAIA Q AAA+SV RVGAQTSIP+R EV Sbjct: 238 ARKVQAVDTTAAGDTFIGGFIGAIAQGRDQFEAIAYAQAAAALSVTRVGAQTSIPTRDEV 297 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 206 bits (523), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 100/131 (76%), Positives = 109/131 (83%) Query: 11 ARDRVLVAVEALAYVPSALARSLRSNATGSIGLIIPNNTNPYFSEVARGIEDSCYQAGYS 70 AR+RVL AV+ L YVPSALARSLRS TGSIGLIIPNNTNPYFSE+ARGIED CY AGYS Sbjct: 32 ARERVLAAVKELDYVPSALARSLRSKVTGSIGLIIPNNTNPYFSELARGIEDHCYGAGYS 91 Query: 71 VILCNSDDDPDKQRDYLNVLLTKRCDGLIVATLAQTDGELLRKMKVPTVLLDRAPKDMAI 130 VILCNSDDDPDKQRDYL VL TK CDGLI+ATL Q D K+ +PTVLLDRAPK++ I Sbjct: 92 VILCNSDDDPDKQRDYLQVLQTKHCDGLIIATLNQADLNPAGKLDIPTVLLDRAPKELDI 151 Query: 131 DLVAVDNAAPG 141 DLV+ DNA G Sbjct: 152 DLVSTDNAVGG 162 >gi|300310353|ref|YP_003774445.1| ribokinase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 131 bits (330), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 124/220 (56%), Gaps = 5/220 (2%) Query: 156 HVTTIAGTASGIASILVDD-NGQNSIVLASGANAELSPAHIDAARGLIEQARIVVLQLES 214 HV I G +G A I V+D +G N+I++ GA ++LS ++ R IE A++ V QLE Sbjct: 88 HVRVIDGAPTGAAFIYVNDASGDNAIIVVPGAASQLSEQDVERERQAIEAAKVFVTQLEQ 147 Query: 215 PLPTVIHAIRLAHALGKTVVLNPAPAQALPTELLGQIDYLVPNEIEAAMLAGMPASGIDN 274 P + +++A A G T V NPAPA A P ++ G D++ PNE EAA+L G+ ID+ Sbjct: 148 PPEAALAGLQIARAAGTTTVFNPAPALAFPAQVYGLCDFITPNEHEAALLTGIEIHHIDD 207 Query: 275 DEQIAAVISKLRAAGSTNVLVTLGDKGVYAALESGSEHVDA-QAVKAVDTTAAGDTFIGG 333 + A V+ + R G L+TLG +G S S H+ A A V+T AGD F G Sbjct: 208 ARRAADVLLE-RGVGC--ALITLGAQGSLLHSRSQSLHLPALCAGTVVETAGAGDAFNGA 264 Query: 334 FVAALAEGRSEAEAIALGQRAAAISVARVGAQTSIPSRRE 373 F A LAEG S EA L AAISV R G S+PSR+E Sbjct: 265 FAAGLAEGMSAEEAARLATAVAAISVTRPGTAPSMPSRQE 304 >gi|300310825|ref|YP_003774917.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 382 Score = 79.7 bits (195), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 43/130 (33%), Positives = 70/130 (53%), Gaps = 2/130 (1%) Query: 10 RARDRVLVAVEALAYVPSALARSLRSNATGSIGLIIPNNTNPYFSEVARGIEDSCYQAGY 69 R R+++ + L Y PS +AR L+ T IG+++ + NPY V G E +C + GY Sbjct: 58 RLREQIGKTIARLGYQPSQMARGLKGGRTRLIGMLVADILNPYSVAVLHGAEAACQKHGY 117 Query: 70 SVILCNSDDDPDKQRDYLNVLLTKRCDGLIVATLAQTDGEL--LRKMKVPTVLLDRAPKD 127 +++LCN+ +D +++ L L + +GL+ T + L L + P VLLDR + Sbjct: 118 TLMLCNTGNDEAREKQSLAALHSYSVEGLLFNTQGRNVTPLHELGQAAFPVVLLDRHVEG 177 Query: 128 MAIDLVAVDN 137 DLV +DN Sbjct: 178 CDFDLVGLDN 187 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 62.0 bits (149), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 43/132 (32%), Positives = 66/132 (50%), Gaps = 6/132 (4%) Query: 10 RARDRVLVAVEALAYVPSALARSLRSNATGSIGLIIPNNTNPYFSEVARGIEDSCYQAGY 69 + R RVL AV L Y P AR+L ++ L++ + NP++ E A E + G Sbjct: 31 QTRQRVLDAVAQLGYRPHLTARALAEGRAPTLALVVSSIANPFYPEFALAAERAARDHGR 90 Query: 70 SVILCNSDDDPDKQRDYLNVLLTKRCDGLIVATLAQTDGELLRKMK---VPTVLLDRAPK 126 +I+CN++DDPD R YL+ + DG+++ A + LRK + P VL Sbjct: 91 FLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIMN-ANLPMDELRKTEQRGAPVVLCMWEKP 149 Query: 127 DMAIDL--VAVD 136 D +L +AVD Sbjct: 150 DAPPELPCIAVD 161 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 0.315 0.131 0.357 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: 1,112,871 Number of extensions: 49601 Number of successful extensions: 251 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 246 Number of HSP's successfully gapped: 7 Length of query: 376 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 289 Effective length of database: 1,207,925 Effective search space: 349090325 Effective search space used: 349090325 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 (21.6 bits) S2: 131 (55.1 bits)