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= 0066.0139.p (458 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 218 6e-58 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 108 7e-25 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 94 2e-20 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 90 4e-19 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 87 2e-18 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 218 bits (556), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 145/449 (32%), Positives = 212/449 (47%), Gaps = 72/449 (16%) Query: 30 PQATAPYYRQIYDRFRSAIAAGVLKPGDRIPSARALTQELGLARGTIEAAYSLLAAEGYI 89 P P RQIY R AI A L G ++PS+R L ELG +R T+ AY L AEGY+ Sbjct: 39 PAPRTPVNRQIYQLIREAILAHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYL 98 Query: 90 QARGQAGTIVT---PDLRPRLAGAGLPPPDQAPASSFRPDSIL-------------PFQM 133 ++R AGT V PD P P D + S + F Sbjct: 99 ESRPGAGTFVADTAPDQIPEAVERPEPLTDPSGKSELSARGAMLTRQAGVGERQWGAFMP 158 Query: 134 GLPALDTFPRKIWARLGARCVRAMQAADMAHPSVYGLPALRTEIASYLQLSRGIRCSPAQ 193 G+P + P KIW RL + R A + + G LR +IA YL+++R + C+P+Q Sbjct: 159 GVPDVTCVPYKIWGRLQNKHWRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQ 218 Query: 194 VFVTAGYRHTMELICHSLLKSGDRIWVEDPGYPPTRELLAHMGMNAVPVPVDEDGMQVAY 253 V +T G +++++ L + GD WVEDP Y TR +L +G+ +VP+ VD++GM++ Sbjct: 219 VLITTGIHQSLDIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRL 278 Query: 254 G--------IATTPRARE-------------------------------------GXPLP 268 I TTP + G PL Sbjct: 279 ANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLA 338 Query: 269 ALKSLDRDGRVLYAGTFSKVLFPSIRLAYLVVPESQVECFA-AVSQVFAAGIPALTQEIV 327 +L+ +D RVLY GTFSK++FP +R+ +LVVPES F+ +++++ G Q + Sbjct: 339 SLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLARAFSTGIAELYRNG-QVFLQATL 397 Query: 328 TAFIAEGHFARHIQRMRKLYVERRDAVRNGLERVLGKYIRIESPPGGMHLILRLRGRMSD 387 F+AEGHFA HI++MR LY ER ++ + R G+ + I G+HL+L L D Sbjct: 398 ADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDD 457 Query: 388 RKLVARAGAAG---------QLHQRGXAR 407 + +A AAG +H RG R Sbjct: 458 VLICEQALAAGIVVRPLSRYYMHARGARR 486 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 108 bits (271), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 103/437 (23%), Positives = 183/437 (41%), Gaps = 75/437 (17%) Query: 32 ATAPYYRQIYDRFRSAIAAGVLKPGDRIPSARALTQELGLARGTIEAAYSLLAAEGYIQA 91 A P Y+Q D+ ++I GVL+PG+RI S R +Q+ ++ T+ AY LL + G I++ Sbjct: 2 AVTPLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIES 61 Query: 92 RGQAGTIV--TPDLRPRLAGAGLPPPDQ----------------APASSFRPDSILPFQM 133 + Q+G V P+ P+ A D A + + D +P Sbjct: 62 QPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGS 121 Query: 134 GLPALDTFPRKIWARLGARCVRAMQAADMAHPSVYGLPALRTEIASYLQLSRGIRCSPAQ 193 P FP A+ R R + + G P L +IA L G++ P + Sbjct: 122 PYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRY-LENGLKVDPEE 180 Query: 194 VFVTAGYRHTMELICHSLLKSGDRIWVEDPGYPPTRELLAHMGMNAVPVPVD-------- 245 + +T G + L ++ + GD I VE P + + +GM A+ +P D Sbjct: 181 IVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVG 240 Query: 246 --EDGMQ----------------VAYGIATTPRAR-----EGXPLP-------------- 268 E+ M+ + + + + + R E +P Sbjct: 241 ALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGN 300 Query: 269 ----ALKSLDRDGRVLYAGTFSKVLFPSIRLAYLVVP---ESQVECFAAVSQVFAAGIPA 321 +LK+ DRDG VL+ +FSK L + R+ + +P +QVE ++ + P Sbjct: 301 AHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGW-AMPGRYRAQVEKLKFLNTL---ATPT 356 Query: 322 LTQEIVTAFIAEGHFARHIQRMRKLYVERRDAVRNGLERVLGKYIRIESPPGGMHLILRL 381 Q + ++ +G + RH++R+R+ + ++RD +R+ + R ++ P GG L + L Sbjct: 357 APQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVEL 416 Query: 382 RGRMSDRKLVARAGAAG 398 + +L R+ A G Sbjct: 417 PQGVDAMELYRRSLALG 433 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 94.0 bits (232), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 105/431 (24%), Positives = 162/431 (37%), Gaps = 69/431 (16%) Query: 28 LDPQATAPYYRQIYDRFRSAIAAGVLKPGDRIPSARALTQELGLARGTIEAAYSLLAAEG 87 L + +A Q+ + I G L+ G+R+PS R Q + T+ AY L A G Sbjct: 13 LKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARG 72 Query: 88 YIQARGQAGTIVTPDLRPRLAGAGLPPPDQAPASSFR-----PDSILPFQMGLPALDTFP 142 +QAR AG V A PP+ S++ D +P + G L P Sbjct: 73 MLQARRGAGFFVAARAGQSGQHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGWL---P 129 Query: 143 RKIWARLGA-----RCVRAMQAADMAHPSVYGLPALRTEIASYL---QLSRGIRCSPAQV 194 K G R +R+ A + + YG LR I +L L GI QV Sbjct: 130 GKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIE----QV 185 Query: 195 FVTAGYRHTMELICHSLLKSGDRIWVEDPGYPPTRELLAHMGMNAVPVP-----VDED-- 247 T G ++L+ ++ + GD + ++DPGY +L G+N + VP VD D Sbjct: 186 LTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVL 245 Query: 248 ----------------GMQVAYGIATTPRA---------REGXPL--------------P 268 +Q G + TP R G + P Sbjct: 246 ETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDP 305 Query: 269 ALKSLDRDGRVLYAGTFSKVLFPSIRLAYLVVPESQVECFAAVSQVFAAGIPALTQEIVT 328 L +LD RV+Y G++SK + PS+R+ Y+ V + + +V Sbjct: 306 MLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVH 365 Query: 329 AFIAEGHFARHIQRMRKLYVERRDAVRNGLERVLGKYIRIESPPGGMHLILRLRG-RMSD 387 + EGH RH+Q + + + + L V + GGM + G +S Sbjct: 366 NVLTEGHHRRHVQTLNATLLSAQATLNAKLSEV--GLTPFTAARGGMFSWATIEGCELSA 423 Query: 388 RKLVARAGAAG 398 R++ RA G Sbjct: 424 REIADRARQKG 434 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 89.7 bits (221), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 81/306 (26%), Positives = 124/306 (40%), Gaps = 49/306 (16%) Query: 122 SFRPDSILPFQMGLPALDTFPRKIWARLGARCVRAMQAADMAHPSVYGLPALRTEIASYL 181 + RPD I F GLP+ TFP + R + + + G LR IA+ L Sbjct: 32 TMRPD-ITSFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASL 90 Query: 182 QLSRGIRCSPAQVFVTAGYRHTMELICHSLLKSGDRIWVEDPGYPPTRELLAHMGMNAVP 241 + G + S QV + +G + ++L+ L+ G ++ VE P Y + A G Sbjct: 91 S-TNGAQISAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFES 149 Query: 242 VPVDEDGMQ------------VAYGIA--------TTPRAR------------------- 262 VP DE G+Q + Y + T P R Sbjct: 150 VPSDEFGLQPETIEAIAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDD 209 Query: 263 -------EGXPLPALKSLDRDGRVLYAGTFSKVLFPSIRLAYLVVPESQVECFAAVSQVF 315 + PLP + S++ G V+Y G+FSKVL P IRL Y+V P + Q Sbjct: 210 PYGALSYQNAPLPKMLSMNPSG-VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQAT 268 Query: 316 AAGIPALTQEIVTAFIAEGHFARHIQRMRKLYVERRDAVRNGLERVLGKYIRIESPPGGM 375 LTQ +V I +G +H+ +RKLY ++ A+ + L++ P GGM Sbjct: 269 DLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGM 328 Query: 376 HLILRL 381 + + L Sbjct: 329 FIWVTL 334 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 107/439 (24%), Positives = 181/439 (41%), Gaps = 86/439 (19%) Query: 35 PYYRQIYDRFRSAIAAGVLKPGDRIPSARALTQELGLARGTIEAAYSLLAAEGYIQARGQ 94 P YR++ D ++SAI AG L GDR+PS R L ++ ++ T + G+++AR + Sbjct: 41 PLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWLEARPR 100 Query: 95 AGTIVTPDLRPRLAGAGLPPPDQAPASSFRPDS-------------ILPFQMGLPALD-- 139 +G V +PR + P Q P S D+ I Q G P +D Sbjct: 101 SGYFVR---QPRRSAI---RPVQEPKSLLAIDAGQFVGIHERVSKYIALRQAGAPHIDLS 154 Query: 140 --TFPRKIWA--RLGARCVRAMQ------AADMAHPSVYGLPALRTEIASYLQLSRGIRC 189 T +++A L +RA++ + M H G R +A L+ G+R Sbjct: 155 GMTCAPQLYAVETLKQAAMRALRERPELLTSAMPH---NGNATFRQAVARR-ALNAGMRI 210 Query: 190 SPAQVFVTAGYRHTMELICHSLLKSGDRIWVEDPGYPPTRELLAHMGMNAVPVP------ 243 +V VT G + L ++ GD I VE P Y + L ++GM A+ +P Sbjct: 211 DTEEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTG 270 Query: 244 VDEDGMQVA---YG----IATTPRARE--GXPLP-------------------------- 268 + + +++A YG + P + G +P Sbjct: 271 ISVEALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTE 330 Query: 269 ---------ALKSLDRDGRVLYAGTFSKVLFPSIRLAYLVVPESQVECFAAVSQVFAAGI 319 +LKS DR+G V+Y + +KVL P +RL ++ E + Sbjct: 331 LADGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWH-ERVKMLKFTHTRAN 389 Query: 320 PALTQEIVTAFIAEGHFARHIQRMRKLYVERRDAVRNGLERVLGKYIRIESPPGGMHLIL 379 TQ FIA + RH++R+R++ ++R+ + + + R+ P GG+ L + Sbjct: 390 EEWTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWV 449 Query: 380 RLRGRMSDRKLVARAGAAG 398 L ++ ++L RA A G Sbjct: 450 ELPVQVCSQQLFERALAEG 468 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 0.137 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: 1,513,841 Number of extensions: 67183 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 226 Number of HSP's successfully gapped: 11 Length of query: 458 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 370 Effective length of database: 1,203,190 Effective search space: 445180300 Effective search space used: 445180300 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: 132 (55.5 bits)