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= 0001.2245.p (491 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312133|ref|YP_003776225.1| transcription regulator protein... 944 0.0 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 334 1e-92 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 257 1e-69 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 253 2e-68 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 137 2e-33 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 944 bits (2440), Expect = 0.0, Method: Compositional matrix adjust. Identities = 463/491 (94%), Positives = 475/491 (96%) Query: 1 MPSSAYASSSRKFAIDRAALGDMGDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRV 60 M SSAYASSSRKF+IDRAALGDMGDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRV Sbjct: 1 MLSSAYASSSRKFSIDRAALGDMGDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRV 60 Query: 61 VAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFIRVDNQVANAQTPAVPAPLLTNWRQR 120 VAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFF+RVDNQVANAQT PAPLLTNWRQR Sbjct: 61 VAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFVRVDNQVANAQTQTAPAPLLTNWRQR 120 Query: 121 LLDPRTLLHRGLGSGDLPPDWLNVPQLAATLRAVSRSNINWAAGYGDAQGYLPLRQQLQR 180 LLDPRTLLHRGLGSGDLP +W+NVPQLAA LRAVSRSNINWAAGYGDAQGYLPLRQQLQR Sbjct: 121 LLDPRTLLHRGLGSGDLPAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQR 180 Query: 181 KLADIGIDVTPRQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMDRLLASGMHI 240 KLADIG+DVTP QVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLM+RLLASGMHI Sbjct: 181 KLADIGVDVTPPQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHI 240 Query: 241 IGVTRDADGPDITALQNACEQHGPAFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTI 300 +GV RDADGPDITALQNACEQHGP FYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTI Sbjct: 241 VGVARDADGPDITALQNACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTI 300 Query: 301 VEDDTYGDLAPVHRPPHATRLASLDQLQHVLYVGSFSKTLGAGMRVGFIAGNPQQIEWLL 360 VEDDTYGDLAP HR PHATRLASLDQLQHVLYVGSFSKTLGAGMR GFIAGNPQQIEWLL Sbjct: 301 VEDDTYGDLAPAHRSPHATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLL 360 Query: 361 LYKLVSRASNGSLAERMIYRLLSEGGYRRHCEQLRARLDQARPRLMAALEALGIVLQHRP 420 LYKLVSRASNGSLAER IYRLLSEGGYRRHCEQLR RLDQARPRLMAALEALGIVL HRP Sbjct: 361 LYKLVSRASNGSLAERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRP 420 Query: 421 DAGLYLWGRLPGDLNAMEVAERMLANGYLTAPGPVFSSGEAARSHMRFNVASSDDDALRA 480 DAGLYLWG+LPGDLNAMEVAERMLANGYLTAPGPVFSSG+AARS+MRFNVASSDD+ALRA Sbjct: 421 DAGLYLWGKLPGDLNAMEVAERMLANGYLTAPGPVFSSGQAARSYMRFNVASSDDEALRA 480 Query: 481 LSSVLERSASG 491 LS+VLERSA G Sbjct: 481 LSNVLERSAPG 491 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 334 bits (856), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 191/470 (40%), Positives = 273/470 (58%), Gaps = 11/470 (2%) Query: 26 KHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHV 85 + S LV++I + + + L G ++PS+R A++ Q+SR TV AY++LVA G++ Sbjct: 34 RESGDSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYL 93 Query: 86 YTRPGAGFFIR----VDNQVANAQTPAVPAP---LLTNWRQRLLDPRTLLHRGLGSGDLP 138 +R G+GF+++ + AQ P L W R + + + G G LP Sbjct: 94 ESRRGSGFYVKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPPAKMPGGGLLP 153 Query: 139 PDWLNVPQLAATLRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGIDVTPRQVLTTL 198 PDWL+ +A LRAVSR N GYG QG+LPLRQQLQ KLA++ I P Q++ T Sbjct: 154 PDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLTT 213 Query: 199 GATDAINLIVMSYLRQPGMTVLVDDPGSFLLMDRLLASGMHIIGVTRDADGPDITALQNA 258 G T ++ + +LR PG + VDDP FL+ A G ++G+ R DGPDI L+ Sbjct: 214 GVTQGLDTVARHFLR-PGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARLREL 272 Query: 259 CEQHGPAFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPVHRPPHA 318 H P Y S+LH+P T LS +AFQ+LR+AE +F IVEDD Y D+ P A Sbjct: 273 AAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQPA 332 Query: 319 TRLASLDQLQHVLYVGSFSKTLGAGMRVGFIAGNPQQIEWLLLYKLVSRASNGSLAERMI 378 TR+A+LDQLQ V+Y+G FSKTL A +RVG+IA + + L KL+S + G + ER+ Sbjct: 333 TRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVA 392 Query: 379 YRLLSEGGYRRHCEQLRARLDQARPRLMAALEALGIVLQHRPDAGLYLWGRLPGDLNAME 438 Y++LSEG YR+H E++RARL+ AR ++M LE LG+ + P G++LW D N M Sbjct: 393 YKVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWVDTGRDTNVM- 451 Query: 439 VAERMLANGYLTAPGPVFSSGEAARSHMRFNVASSDDDAL-RALSSVLER 487 E + G+L APG +FS + ++MR NVAS D + R L+ +ER Sbjct: 452 -TEAAMQEGFLLAPGSLFSPAQLPSTYMRINVASMADPGIWRFLAQAMER 500 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 257 bits (657), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 172/471 (36%), Positives = 251/471 (53%), Gaps = 26/471 (5%) Query: 32 LVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGA 91 LV I + EGV A G +LPS+R +A +++T+ +++L A G R GA Sbjct: 12 LVQLIRRQIAEGV----YAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEPRRGA 67 Query: 92 GFFIRV------DNQVANAQTPAVPAPLLTNWRQRLLDPRTLLHRGLGSGDLPPDWLNVP 145 GFF+ V +++ N L+ Q DP L LG G P +WL+ Sbjct: 68 GFFVCVAPPRPKEDEEGNLSRAMDVVWLMRE--QLKHDPGQLR---LGDGFPPVEWLHDV 122 Query: 146 QLAATLRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGIDVTPRQVLTTLGATDAIN 205 +L + V R+ I GYG GYLPLRQ L KLA GI+ Q++ T GA A++ Sbjct: 123 RLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIVLTHGANQALD 182 Query: 206 LIVMSYLRQPGMTVLVDDPGSFLLMDRLLASGMHIIGVTRDADGPDITALQNACEQHG-P 264 +++ ++R PG VLVD+PG ++L +L SG IIG+ R DGPD+ L+ + G P Sbjct: 183 IVIRHFIR-PGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLERELHRPGKP 241 Query: 265 AFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPVHRPPHATRLASL 324 +F QSL H+P + SP +A +IL+LA+R+ IVE+D + D P P R+A+L Sbjct: 242 PLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPATAP----RIATL 297 Query: 325 DQLQHVLYVGSFSKTLGAGMRVGFIAGNPQQIEWLLLYKLVSRASNGSLAERMIYRLLSE 384 DQL+ +YVGSFSK++ A +RVGFIA + L K++ S+ ER + +LS+ Sbjct: 298 DQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERTLDVILSD 357 Query: 385 GGYRRHCEQLRARLDQARPRLMAALEALGIVLQHRPDAGLYLWGRLPGDLNAMEVAERML 444 G + RH +LR RL QA + A LE LG L P +YLW R P +A +A+R++ Sbjct: 358 GHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAKRLAQRLM 417 Query: 445 ANGYLTAPGPVFS-SGEAARSHMRFNVASSDD----DALRALSSVLERSAS 490 + APG +F E + RFNV D DA+ + + ER A+ Sbjct: 418 QRQIVLAPGSIFHVDTEQTQPWSRFNVGLLADARFADAMMDIRAAQERQAT 468 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 253 bits (647), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 163/458 (35%), Positives = 243/458 (53%), Gaps = 13/458 (2%) Query: 22 DMGDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVA 81 D+ K SARL V+++ + + T L G++LPS+R A+ + TV AYE+LVA Sbjct: 12 DLKRKTSARL-VEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVA 70 Query: 82 HGHVYTRPGAGFFIRVD-NQVANAQTPAVPAPLL-TNW--RQRLLDPRTLLHRGLGSGDL 137 G + R GAGFF+ Q P P++ + W + D R + G G L Sbjct: 71 RGMLQARRGAGFFVAARAGQSGQHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGW--L 128 Query: 138 PPDWLNVPQLAATLRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGIDVTPRQVLTT 197 P WLN L R + RS GYG GY PLRQ + + L +++ QVLTT Sbjct: 129 PGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTT 188 Query: 198 LGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMDRLLASGMHIIGVTRDADGPDITALQN 257 GAT A++L++ + + QPG TVL+DDPG L+ L +G+++IGV R G D L+ Sbjct: 189 HGATQALDLVIRT-MTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLET 247 Query: 258 ACEQHGPAFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPVHRPPH 317 H P +F S+L +P T +P A ++L+ AER F +VEDD + +L P Sbjct: 248 LARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDP-- 305 Query: 318 ATRLASLDQLQHVLYVGSFSKTLGAGMRVGFIAGNPQQIEWLLLYKLVSRASNGSLAERM 377 LA+LD LQ V+YVGS+SKT+ +RVG+IA + ++ K+V +N + ER+ Sbjct: 306 --MLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERL 363 Query: 378 IYRLLSEGGYRRHCEQLRARLDQARPRLMAALEALGIVLQHRPDAGLYLWGRLPG-DLNA 436 ++ +L+EG +RRH + L A L A+ L A L +G+ G++ W + G +L+A Sbjct: 364 VHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCELSA 423 Query: 437 MEVAERMLANGYLTAPGPVFSSGEAARSHMRFNVASSD 474 E+A+R G APG F ++ RFNV +D Sbjct: 424 REIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYAD 461 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 137 bits (344), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 127/489 (25%), Positives = 225/489 (46%), Gaps = 46/489 (9%) Query: 30 RLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRP 89 + D++ ++ +GV L G+++ S+R+ ++ +VS TV RAYE L + G + ++P Sbjct: 8 KQFADQLAASIRDGV----LRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQP 63 Query: 90 GAGFFIRVDNQVANAQTPAVPAPLLTN--------WRQR---------LLDPRTLLHRG- 131 +G+F+R Q A P P L W++ L +T+ G Sbjct: 64 QSGYFVR-------EQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGT 116 Query: 132 --LGSGDLPPDWLNVPQLAATLRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGIDV 189 LGS P +LA ++R + G+ L +Q+ R+ + G+ V Sbjct: 117 VPLGSPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKV 176 Query: 190 TPRQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMDRLLASGMHIIGVTRDAD- 248 P +++ T+GAT+AINL + + R PG T+ V+ P + ++ + GM + + D Sbjct: 177 DPEEIVITVGATEAINLCLQAVAR-PGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQR 235 Query: 249 GPDITALQNACEQHGPAFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGD 308 G D+ AL+ + A +P + +++RLAE+ ++E+ Y + Sbjct: 236 GIDVGALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSE 295 Query: 309 LAPVHRPPHATRLASLDQLQHVLYVGSFSKTLGAGMRVGF-IAGNPQ-QIEWLLLYKLVS 366 L + H + L + D+ VL+ SFSK+L + R+G+ + G + Q+E L K ++ Sbjct: 296 L--YYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKL---KFLN 350 Query: 367 RASNGSLAERMIYRLLSEGGYRRHCEQLRARLDQARPRLMA-ALEALGIVLQ-HRPDAGL 424 + + +R I L++GGY RH ++R Q R + L Q P G Sbjct: 351 TLATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGY 410 Query: 425 YLWGRLPGDLNAMEVAERMLANGYLTAPGPVFSSGEAARSHMRFNV----ASSDDDALRA 480 LW LP ++AME+ R LA G APG +F++ +R N + + AL+ Sbjct: 411 VLWVELPQGVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKL 470 Query: 481 LSSVLERSA 489 + ++E A Sbjct: 471 VGKLVEELA 479 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 0.322 0.136 0.405 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: 1,625,572 Number of extensions: 73160 Number of successful extensions: 282 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 258 Number of HSP's successfully gapped: 10 Length of query: 491 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 402 Effective length of database: 1,198,455 Effective search space: 481778910 Effective search space used: 481778910 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 (21.9 bits) S2: 132 (55.5 bits)