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= 0001.1666.p (498 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311134|ref|YP_003775226.1| transcription regulator protein... 888 0.0 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 330 1e-91 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 319 3e-88 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 311 1e-85 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 149 7e-37 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 888 bits (2295), Expect = 0.0, Method: Compositional matrix adjust. Identities = 430/478 (89%), Positives = 458/478 (95%), Gaps = 2/478 (0%) Query: 19 DSALPGWPLLLRESGESLVDQIVRGVRARIDDKLLRGGVRMPSIRQFAEANEISRFTVVE 78 DS PGWPLLLRESG+SLV+QIVRG+RARIDDKLLR G+RMPSIRQFA+ N+ISRFTVVE Sbjct: 23 DSGQPGWPLLLRESGDSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVE 82 Query: 79 AYDRLVAQGYLESRRGSGFYVKERAPMGGAYGSTAAQAEAQAEAGRGLDVVWLVRNMFRQ 138 AYDRLVAQGYLESRRGSGFYVKERAP+GG+YG AAQAE E GRGLDVVWLVRNMFRQ Sbjct: 83 AYDRLVAQGYLESRRGSGFYVKERAPLGGSYG--AAQAELDTEPGRGLDVVWLVRNMFRQ 140 Query: 139 LPPHKMPGGGLLPPDWLDGELIANALRAVSRDNPALLLGYGTPLGFLPLRQQLQLKLAEL 198 +PP KMPGGGLLPPDWLDGELIANALRAVSRDNP LLLGYGTP GFLPLRQQLQLKLAEL Sbjct: 141 MPPAKMPGGGLLPPDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAEL 200 Query: 199 EIAAAPEQIVLTTGVTQGLDTVARHFLRPGDVVFVDDPAWFLMFGSFAALGAKIVGIPRL 258 EIAAAPEQIVLTTGVTQGLDTVARHFLRPGDV+FVDDPAWFLMFGSFAALGAK+VGIPRL Sbjct: 201 EIAAAPEQIVLTTGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRL 260 Query: 259 GDGPDIAHLREMAALHKPKLYVINSVLHNPTSTSMSAAKAFQVLRIAEEHDFILVEDDIY 318 GDGPDIA LRE+AA+HKPKLYVINSVLHNPTSTS+SAAKAFQVLRIAEEHDF++VEDDIY Sbjct: 261 GDGPDIARLRELAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIY 320 Query: 319 CDMHPGSAVQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLS 378 CDMHPGSAVQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLS Sbjct: 321 CDMHPGSAVQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLS 380 Query: 379 TLTTGEIGERVAYKVLSEGHYRKHTERLRARLNGAREKVMRHLEKLGMEVGDPPPCGMFL 438 TLTTGEIGERVAYKVLSEGHYRKH ER+RARLNGAR+KVMR LE+LGM+V + PPCGMFL Sbjct: 381 TLTTGEIGERVAYKVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFL 440 Query: 439 WVDTGRDTNVLTEEAMEQGFLLAPGSLFSPSQLPSTHMRINVASMSDPGIWRFLERAM 496 WVDTGRDTNV+TE AM++GFLLAPGSLFSP+QLPST+MRINVASM+DPGIWRFL +AM Sbjct: 441 WVDTGRDTNVMTEAAMQEGFLLAPGSLFSPAQLPSTYMRINVASMADPGIWRFLAQAM 498 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 330 bits (847), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 187/462 (40%), Positives = 264/462 (57%), Gaps = 12/462 (2%) Query: 30 RESGESLVDQIVRGVRARIDDKLLRGGVRMPSIRQFAEANEISRFTVVEAYDRLVAQGYL 89 + S LVD+I V + + L G ++PS+R AE+ ++SR TV AY++LVA G++ Sbjct: 26 KHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHV 85 Query: 90 ESRRGSGFYVKERAPMGGAYGSTAAQAEAQAEAGRGLDVVWLVRNMFRQLPPHKMPGGGL 149 +R G+GF+V+ + A TA L W R + + H+ G G Sbjct: 86 YTRPGAGFFVRVDNQVANAQTQTAPAP---------LLTNWRQRLLDPRTLLHRGLGSGD 136 Query: 150 LPPDWLDGELIANALRAVSRDNPALLLGYGTPLGFLPLRQQLQLKLAELEIAAAPEQIVL 209 LP +W++ +A ALRAVSR N GYG G+LPLRQQLQ KLA++ + P Q++ Sbjct: 137 LPAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLT 196 Query: 210 TTGVTQGLDTVARHFLR-PGDVVFVDDPAWFLMFGSFAALGAKIVGIPRLGDGPDIAHLR 268 T G T ++ + +LR PG V VDDP FL+ A G IVG+ R DGPDI L+ Sbjct: 197 TLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITALQ 256 Query: 269 EMAALHKPKLYVINSVLHNPTSTSMSAAKAFQVLRIAEEHDFILVEDDIYCDMHPGSAVQ 328 H P Y S+LH+P T +S +AFQ+LR+AE +F +VEDD Y D+ P Sbjct: 257 NACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSP 316 Query: 329 PATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGER 388 ATR+A+LDQLQ V+Y+G FSKTL A +R G+IA + + L KL+S + G + ER Sbjct: 317 HATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSLAER 376 Query: 389 VAYKVLSEGHYRKHTERLRARLNGAREKVMRHLEKLGMEVGDPPPCGMFLWVDTGRDTNV 448 Y++LSEG YR+H E+LR RL+ AR ++M LE LG+ + P G++LW D N Sbjct: 377 AIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLPGDLNA 436 Query: 449 L--TEEAMEQGFLLAPGSLFSPSQLPSTHMRINVASMSDPGI 488 + E + G+L APG +FS Q ++MR NVAS D + Sbjct: 437 MEVAERMLANGYLTAPGPVFSSGQAARSYMRFNVASSDDEAL 478 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 319 bits (818), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 181/459 (39%), Positives = 262/459 (57%), Gaps = 16/459 (3%) Query: 31 ESGESLVDQIVRGVRARIDDKLLRGGVRMPSIRQFAEANEISRFTVVEAYDRLVAQGYLE 90 E+ +L +V+ +R +I + + G R+PSIR+ A + ++ T+V +D L A G E Sbjct: 3 EASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAE 62 Query: 91 SRRGSGFYVKERAPMGGAYGSTAAQAEAQAEAGRGLDVVWLVRNMFRQLPPHKMPGGGLL 150 RRG+GF+V P + + + R +DVVWL+R + P G G Sbjct: 63 PRRGAGFFVCVAPPR--------PKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLGDGFP 114 Query: 151 PPDWLDGELIANALRAVSRDNPALLLGYGTPLGFLPLRQQLQLKLAELEIAAAPEQIVLT 210 P +WL + + V R L GYG+ G+LPLRQ L KLA+ I A QIVLT Sbjct: 115 PVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIVLT 174 Query: 211 TGVTQGLDTVARHFLRPGDVVFVDDPAWFLMFGSFAALGAKIVGIPRLGDGPDIAHL-RE 269 G Q LD V RHF+RPGD V VD+P +++++G GA+I+GIPRL DGPD+A L RE Sbjct: 175 HGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLERE 234 Query: 270 MAALHKPKLYVINSVLHNPTSTSMSAAKAFQVLRIAEEHDFILVEDDIYCDMHPGSAVQP 329 + KP L+ S+ HNPT++ S KA ++L++A+ + I+VE+D + D P + Sbjct: 235 LHRPGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPAT---- 290 Query: 330 ATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERV 389 A RIA LDQL+R +Y+G FSK++SA LRVG+IA +LA LAD K+L +++ E ER Sbjct: 291 APRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERT 350 Query: 390 AYKVLSEGHYRKHTERLRARLNGAREKVMRHLEKLGMEVGDPPPCGMFLWVDTG--RDTN 447 +LS+GH+ +HT RLR RL A E+ LE LG E+ P M+LW D Sbjct: 351 LDVILSDGHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAK 410 Query: 448 VLTEEAMEQGFLLAPGSLFS-PSQLPSTHMRINVASMSD 485 L + M++ +LAPGS+F ++ R NV ++D Sbjct: 411 RLAQRLMQRQIVLAPGSIFHVDTEQTQPWSRFNVGLLAD 449 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 311 bits (796), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 182/468 (38%), Positives = 257/468 (54%), Gaps = 14/468 (2%) Query: 28 LLRESGESLVDQIVRGVRARIDDKLLRGGVRMPSIRQFAEANEISRFTVVEAYDRLVAQG 87 L R++ LV+Q+ G+ I+ LR G R+PS+RQFA+ ++I TVVEAY++LVA+G Sbjct: 13 LKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARG 72 Query: 88 YLESRRGSGFYVKERAPMGGAYGSTAAQAEAQAEAGRGLDVVWLVRNMFRQLPPHKMPGG 147 L++RRG+GF+V RA G + +D WL+ MF G Sbjct: 73 MLQARRGAGFFVAARAGQSGQHAVFVPPEPV-------IDSAWLLSEMFADERVPIKAGC 125 Query: 148 GLLPPDWLDGELIANALRAVSRDNPALLLGYGTPLGFLPLRQQLQLKLAELEIAAAPEQI 207 G LP WL+ E + A R + R A +GYG P G+ PLRQ + L + EQ+ Sbjct: 126 GWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQV 185 Query: 208 VLTTGVTQGLDTVARHFLRPGDVVFVDDPAWFLMFGSFAALGAKIVGIPRLGDGPDIAHL 267 + T G TQ LD V R +PGD V +DDP + + G ++G+PR G D L Sbjct: 186 LTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVL 245 Query: 268 REMAALHKPKLYVINSVLHNPTSTSMSAAKAFQVLRIAEEHDFILVEDDIYCDMHPGSAV 327 +A H PK++ SVL NPT TS + A A +VL+ AE H F +VEDDI+ ++ G A Sbjct: 246 ETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFREL--GQAT 303 Query: 328 QPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGE 387 P +AALD LQRVIY+G +SKT++ +LRVGYIA ELAR + K++ TLT EI E Sbjct: 304 DPM--LAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINE 361 Query: 388 RVAYKVLSEGHYRKHTERLRARLNGAREKVMRHLEKLGMEVGDPPPCGMFLWVDT-GRDT 446 R+ + VL+EGH+R+H + L A L A+ + L ++G+ GMF W G + Sbjct: 362 RLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCEL 421 Query: 447 NV--LTEEAMEQGFLLAPGSLFSPSQLPSTHMRINVASMSDPGIWRFL 492 + + + A ++G LAPG F S T R NV P ++ FL Sbjct: 422 SAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYADVPELFDFL 469 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 149 bits (375), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 121/457 (26%), Positives = 219/457 (47%), Gaps = 16/457 (3%) Query: 36 LVDQIVRGVRARIDDKLLRGGVRMPSIRQFAEANEISRFTVVEAYDRLVAQGYLESRRGS 95 L Q + A I D +LR G R+ S+R ++ +++S TVV AY+ L ++G +ES+ S Sbjct: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQS 65 Query: 96 GFYVKER--APMGGAYGSTAAQAEAQAEAGRGLDVVWLVRNMFRQLPPH-KMPGGGLLP- 151 G++V+E+ AP A +T+ + + +DV LV + + +P G P Sbjct: 66 GYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYPN 125 Query: 152 PDWLDGELIANALRAVSRDNPALLLGYGTPLGFLPLRQQLQLKLAELEIAAAPEQIVLTT 211 P +A ++R + P G L +Q+ + E + PE+IV+T Sbjct: 126 PALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEEIVITV 185 Query: 212 GVTQGLDTVARHFLRPGDVVFVDDPAWFLMFGSFAALGAKIVGIPRLGD-GPDIAHLREM 270 G T+ ++ + RPGD + V+ P ++ M + LG + + IP G D+ L E Sbjct: 186 GATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGALEER 245 Query: 271 AALHKPKLYVINSVLHNPTSTSMSAAKAFQVLRIAEEHDFILVEDDIYCDMHPGSAVQPA 330 ++ NP M ++ +++R+AE+H ++E+ +Y +++ G+A P+ Sbjct: 246 MKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNA-HPS 304 Query: 331 TRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVA 390 + + D+ V++ FSK+L++ R+G+ A + K L+TL T +R Sbjct: 305 S-LKNYDRDGLVLHCSSFSKSLTSAYRIGW-AMPGRYRAQVEKLKFLNTLATPTAPQRAI 362 Query: 391 YKVLSEGHYRKHTERLRARLNGAREKVMRHLE----KLGMEVGDPPPCGMFLWVD--TGR 444 + L++G Y +H R+R R + +MRH G +V + P G LWV+ G Sbjct: 363 AEYLTQGGYERHLRRVR-RAFAQQRDMMRHFVLRFFPAGTQVSE-PQGGYVLWVELPQGV 420 Query: 445 DTNVLTEEAMEQGFLLAPGSLFSPSQLPSTHMRINVA 481 D L ++ G +APG +F+ + S +R+N + Sbjct: 421 DAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYS 457 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 0.320 0.137 0.404 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: 1,536,858 Number of extensions: 63284 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 227 Number of HSP's successfully gapped: 10 Length of query: 498 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 409 Effective length of database: 1,198,455 Effective search space: 490168095 Effective search space used: 490168095 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 (21.8 bits) S2: 132 (55.5 bits)