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= 0009.0192.p (485 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 784 0.0 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 358 e-100 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 155 5e-39 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 149 6e-37 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 139 6e-34 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 784 bits (2024), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/475 (78%), Positives = 416/475 (87%) Query: 11 PLYKKFADELAASIRAGVLQPGERVTSVRAASQQHNLSVTTVVRAYELLESRGIIESHPQ 70 PLYK+FAD+LAASIR GVL+PGER+ SVR ASQQH +SVTTVVRAYELLESRGIIES PQ Sbjct: 5 PLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQ 64 Query: 71 SGYFVRKTATPASVPAAMTLLPPSHPATQQPHEVDVSRLVLATLRTIQQDGTIPLGSPYP 130 SGYFVR+ PA T HPA Q+ EVDVSRLVLATL+TIQQDGT+PLGSPYP Sbjct: 65 SGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYP 124 Query: 131 NPALFPSQRIGQYASRITRNSDSFSVFTDLPPGHPDLLRQIARRYLETGLAVDPEDIIIT 190 NPALFPS R+ QYA RI R++ SVF DLPPGHP+LLRQIARRYLE GL VDPE+I+IT Sbjct: 125 NPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEEIVIT 184 Query: 191 VGATEAINLCLQAVAQPGDTIAVETPTFYAMLHAIERMGMRAVEIPTDPLTGIDLDALEE 250 VGATEAINLCLQAVA+PGDTIAVETPTFYAMLHAIER+GMRA+EIPTDP GID+ ALEE Sbjct: 185 VGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGALEE 244 Query: 251 LLKTQKISACMVMPNFQNPLGSMMPDAHKKRLVKLAHQHNMPLIEDAVYSELFYGAAHPT 310 +KTQ I+ACMVMPNFQNPLG MPD+ K+RLV+LA QH MP+IE+AVYSEL+YG AHP+ Sbjct: 245 RMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNAHPS 304 Query: 311 SLKTYDRDGLVLHCSSFSKSLSSAYRVGWAIPGRYRNQVEKLKFLNTLATPTIPQRAIAE 370 SLK YDRDGLVLHCSSFSKSL+SAYR+GWA+PGRYR QVEKLKFLNTLATPT PQRAIAE Sbjct: 305 SLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLATPTAPQRAIAE 364 Query: 371 YLTQGGYERHLRRVRRGLLQQRDLMRHFVLRFFPEGTRVSEPAGGYILWIELPPRVEAME 430 YLTQGGYERHLRRVRR QQRD+MRHFVLRFFP GT+VSEP GGY+LW+ELP V+AME Sbjct: 365 YLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGVDAME 424 Query: 431 LYRRCLVLGITIAPGRIFAATNRYSNFIRLNYSYSWSAEIEKALKTIGKIVAELS 485 LYRR L LGIT+APGRIFAATNRYS+FIRLNYSY+WS E E+ALK +GK+V EL+ Sbjct: 425 LYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKLVEELA 479 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 358 bits (918), Expect = e-100, Method: Compositional matrix adjust. Identities = 189/488 (38%), Positives = 298/488 (61%), Gaps = 7/488 (1%) Query: 1 MPRTPTTPQLPLYKKFADELAASIRAGVLQPGERVTSVRAASQQHNLSVTTVVRAYELLE 60 +P P + + PLY++ AD ++I+AG L G+R+ SVR +QH +S++T ++ +E Sbjct: 31 LPSAPESGRQPLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHME 90 Query: 61 SRGIIESHPQSGYFVRKTATPASVPAAMTLLPPSHPATQQPHEVDVSRLVLATLRTIQQD 120 G +E+ P+SGYFVR+ A P P S A V + V + ++Q Sbjct: 91 EGGWLEARPRSGYFVRQPRRSAIRPVQE---PKSLLAIDAGQFVGIHERVSKYI-ALRQA 146 Query: 121 GT--IPLGSPYPNPALFPSQRIGQYASRITRNSDSFSVFTDLPPGHPDLLRQIARRYLET 178 G I L P L+ + + Q A R R G+ + +ARR L Sbjct: 147 GAPHIDLSGMTCAPQLYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALNA 206 Query: 179 GLAVDPEDIIITVGATEAINLCLQAVAQPGDTIAVETPTFYAMLHAIERMGMRAVEIPTD 238 G+ +D E++++T G EA+NL ++AVA PGDTIAVE+PT++ +L A+E +GM+A+EIPT Sbjct: 207 GMRIDTEEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTS 266 Query: 239 PLTGIDLDALEELLKT-QKISACMVMPNFQNPLGSMMPDAHKKRLVKLAHQHNMPLIEDA 297 P TGI ++ALE ++T I A +V+PN QNPLG +MP+ HK +LV+L Q +PLIED Sbjct: 267 PHTGISVEALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDD 326 Query: 298 VYSELFYGAAHPTSLKTYDRDGLVLHCSSFSKSLSSAYRVGWAIPGRYRNQVEKLKFLNT 357 Y+EL G+ P+SLK+ DR+G V++C+S +K L+ R+GW GR+ +V+ LKF +T Sbjct: 327 AYTELADGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHT 386 Query: 358 LATPTIPQRAIAEYLTQGGYERHLRRVRRGLLQQRDLMRHFVLRFFPEGTRVSEPAGGYI 417 A Q A+++ Y+RHLRR+R+ L QQR+ M + +FPEGTR++ P GG Sbjct: 387 RANEEWTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVG 446 Query: 418 LWIELPPRVEAMELYRRCLVLGITIAPGRIFAATNRYSNFIRLNYSYSWSAEIEKALKTI 477 LW+ELP +V + +L+ R L G+ ++PG IF+ ++RY +F+R+ + ++ E+++AL+ + Sbjct: 447 LWVELPVQVCSQQLFERALAEGVGVSPGAIFSNSSRYGHFVRICCGHPFNRELDQALRRL 506 Query: 478 GKIVAELS 485 G +V L+ Sbjct: 507 GGLVHHLA 514 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 155 bits (393), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 126/460 (27%), Positives = 215/460 (46%), Gaps = 26/460 (5%) Query: 12 LYKKFADELAASIRAGVLQPGERVTSVRAASQQHNLSVTTVVRAYELLESRGIIESHPQS 71 L ++ A+ LA I G L+ GER+ SVR +Q H++ +TVV AYE L +RG++++ + Sbjct: 21 LVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGA 80 Query: 72 GYFVRKTATPASVPAAMTLLPPSHPATQQPHEVDVSRLVLATLRTIQQDGTIPL--GSPY 129 G+FV A A + P P +D + L L + D +P+ G + Sbjct: 81 GFFV---AARAGQSGQHAVFVPPEPV------IDSAWL----LSEMFADERVPIKAGCGW 127 Query: 130 PNPALFPSQRIGQYASRITRNSDSFSVFTDLPPGHPDLLRQIARRYL-ETGLAVDPEDII 188 + + Q RI R+ + V P G+ LRQ+ ++L L + E ++ Sbjct: 128 LPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAP-LRQLITQFLGHWSLELGIEQVL 186 Query: 189 ITVGATEAINLCLQAVAQPGDTIAVETPTFYAMLHAIERMGMRAVEIPTDPLTGIDLDAL 248 T GAT+A++L ++ + QPGDT+ ++ P + ++ + G+ + +P P G+D D L Sbjct: 187 TTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTP-GGVDTDVL 245 Query: 249 EELLKTQKISACMVMPNFQNPLGSMMPDAHKKRLVKLAHQHNMPLIEDAVYSELFYGAAH 308 E L +T QNP G+ A R+++ A +H ++ED ++ EL G A Sbjct: 246 ETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFREL--GQAT 303 Query: 309 PTSLKTYDRDGLVLHCSSFSKSLSSAYRVGW-AIPGRYRNQVEKLKFLNTLATPTIPQRA 367 L D V++ S+SK+++ + RVG+ A Q+ K + TL I +R Sbjct: 304 DPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERL 363 Query: 368 IAEYLTQGGYERHLRRVRRGLLQQRDLMRHFVLRFFPEG-TRVSEPAGGYILWIELPP-R 425 + LT+G + RH++ + LL + + + G T + GG W + Sbjct: 364 VHNVLTEGHHRRHVQTLNATLLSAQATLN---AKLSEVGLTPFTAARGGMFSWATIEGCE 420 Query: 426 VEAMELYRRCLVLGITIAPGRIFAATNRYSNFIRLNYSYS 465 + A E+ R GI +APG F + + R N Y+ Sbjct: 421 LSAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYA 460 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 149 bits (375), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 124/457 (27%), Positives = 213/457 (46%), Gaps = 18/457 (3%) Query: 12 LYKKFADELAASIRAGVLQPGERVTSVRAASQQHNLSVTTVVRAYELLESRGIIESHPQS 71 L ++ + A I +L+ G R+ S+R + + +S TVV AY+ L ++G +ES S Sbjct: 40 LVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRRGS 99 Query: 72 GYFVRKTA-TPASVPAAMTLLPPSHPATQQPHEVDVSRLVLATLRTIQQDGTIPLGSPYP 130 G++V++ A S AA L T+ +DV LV R + +P G P Sbjct: 100 GFYVKERAPLGGSYGAAQAELD-----TEPGRGLDVVWLVRNMFRQMPP-AKMPGGGLLP 153 Query: 131 NPALFPSQRIGQYASRITRNSDSFSVFTDLPPGHPDLLRQIARRYLETGLAVDPEDIIIT 190 P + I ++R++ + P G L +Q+ + E +A PE I++T Sbjct: 154 -PDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLT 212 Query: 191 VGATEAINLCLQAVAQPGDTIAVETPTFYAMLHAIERMGMRAVEIPTDPLTGIDLDALEE 250 G T+ ++ + +PGD I V+ P ++ M + +G + V IP G D+ L E Sbjct: 213 TGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLG-DGPDIARLRE 271 Query: 251 LLKTQKISACMVMPNFQNPLGSMMPDAHKKRLVKLAHQHNMPLIEDAVYSELFYGAA-HP 309 L K ++ NP + + A +++++A +H+ ++ED +Y ++ G+A P Sbjct: 272 LAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQP 331 Query: 310 -TSLKTYDRDGLVLHCSSFSKSLSSAYRVGW-AIPGRYRNQVEKLKFLNTLATPTIPQRA 367 T + D+ V++ FSK+LS+ RVG+ A + K L+TL T I +R Sbjct: 332 ATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERV 391 Query: 368 IAEYLTQGGYERHLRRVRRGLLQQRDLMRHFVLRFFPEGTRVSE-PAGGYILWIELPPRV 426 + L++G Y +H RVR L RD + + R G V E P G LW++ Sbjct: 392 AYKVLSEGHYRKHAERVRARLNGARDKVMRQLERL---GMDVVEAPPCGMFLWVDTGRDT 448 Query: 427 EAMELYRRCLVLGITIAPGRIFAATNRYSNFIRLNYS 463 M + G +APG +F+ S ++R+N + Sbjct: 449 NVMT--EAAMQEGFLLAPGSLFSPAQLPSTYMRINVA 483 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 139 bits (349), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 124/468 (26%), Positives = 222/468 (47%), Gaps = 34/468 (7%) Query: 23 SIRAGVLQPGERVTSVRAASQQHNLSVTTVVRAYELLESRGIIESHPQSGYFVRKTATPA 82 +R L G+++ S+R ++ +S TV RAYE L + G + + P +G+FVR Sbjct: 43 GVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFVR---VDN 99 Query: 83 SVPAAMTLLPPSHPATQQPHEVDVSRLVLATLRTIQQDGTIPLGSPYPNPALFPSQRIGQ 142 V A T P+ T R L RT+ G LGS ++ Sbjct: 100 QVANAQTQTAPAPLLTNW-------RQRLLDPRTLLHRG---LGSGDLPAEWINVPQLAA 149 Query: 143 YASRITRNSDSFSVFTDLPPGHPDLLRQIARRYLETGLAVDPEDIIITVGATEAINLCLQ 202 ++R++ +++ G+ L +Q+ R+ + G+ V P ++ T+GAT+AINL + Sbjct: 150 ALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTTLGATDAINLIVM 209 Query: 203 A-VAQPGDTIAVETPTFYAMLHAIERMGMRAVEIPTDPLTGIDLDALEELLKTQKISACM 261 + + QPG T+ V+ P + ++ + GM V + D G D+ AL+ + + Sbjct: 210 SYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDA-DGPDITALQNACEQHGPTFYF 268 Query: 262 VMPNFQNPLGSMMPDAHKKRLVKLAHQHNMPLIEDAVYSEL--FYGAAHPTSLKTYDRDG 319 +P + + ++++LA + N ++ED Y +L + + H T L + D+ Sbjct: 269 CQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPHATRLASLDQLQ 328 Query: 320 LVLHCSSFSKSLSSAYRVGWAIPGRYRNQVEKL---KFLNTLATPTIPQRAIAEYLTQGG 376 VL+ SFSK+L + R G+ I G + Q+E L K ++ + ++ +RAI L++GG Sbjct: 329 HVLYVGSFSKTLGAGMRAGF-IAGNPQ-QIEWLLLYKLVSRASNGSLAERAIYRLLSEGG 386 Query: 377 YERHLRRVRRGLLQQRDLMRHFVLRFFPEGTRV---SEPAGGYILWIELPPRVEAMELYR 433 Y RH ++R L Q R + + E + P G LW +LP + AME+ Sbjct: 387 YRRHCEQLRTRLDQARPRLMAAL-----EALGIVLPHRPDAGLYLWGKLPGDLNAMEVAE 441 Query: 434 RCLVLGITIAPGRIFAATNRYSNFIRLNYSYSWSAEIEKALKTIGKIV 481 R L G APG +F++ +++R N + S ++AL+ + ++ Sbjct: 442 RMLANGYLTAPGPVFSSGQAARSYMRFNVASS----DDEALRALSNVL 485 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 0.135 0.398 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: 1,513,593 Number of extensions: 61036 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 221 Number of HSP's successfully gapped: 13 Length of query: 485 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 396 Effective length of database: 1,198,455 Effective search space: 474588180 Effective search space used: 474588180 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)