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= 0029.0213.p (480 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... 985 0.0 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 353 2e-98 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 145 6e-36 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 142 4e-35 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 139 6e-34 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 985 bits (2547), Expect = 0.0, Method: Compositional matrix adjust. Identities = 479/480 (99%), Positives = 479/480 (99%) Query: 1 MAVTPLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESLGIIE 60 MAVTPLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLES GIIE Sbjct: 1 MAVTPLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIE 60 Query: 61 SQPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLG 120 SQPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLG Sbjct: 61 SQPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLG 120 Query: 121 SPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEE 180 SPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEE Sbjct: 121 SPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEE 180 Query: 181 IVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVG 240 IVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVG Sbjct: 181 IVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVG 240 Query: 241 ALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGN 300 ALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGN Sbjct: 241 ALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGN 300 Query: 301 AHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLATPTAPQR 360 AHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLATPTAPQR Sbjct: 301 AHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLATPTAPQR 360 Query: 361 AIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGV 420 AIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGV Sbjct: 361 AIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGV 420 Query: 421 DAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKLVEELAG 480 DAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKLVEELAG Sbjct: 421 DAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKLVEELAG 480 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 353 bits (906), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 194/484 (40%), Positives = 297/484 (61%), Gaps = 19/484 (3%) Query: 5 PLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESLGIIESQPQ 64 PLY++ AD ++I+ G L G+R+ SVR +QH+VS++T ++ +E G +E++P+ Sbjct: 41 PLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWLEARPR 100 Query: 65 SGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLV-----LATLKTIQQDGT--V 117 SGYFVR+ P + A+R + +D + V ++ ++Q G + Sbjct: 101 SGYFVRQ----PRRSAIRPVQEP-----KSLLAIDAGQFVGIHERVSKYIALRQAGAPHI 151 Query: 118 PLGSPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQ-IARRYLENGLKV 176 L P L+ L Q A R R + + +P RQ +ARR L G+++ Sbjct: 152 DLSGMTCAPQLYAVETLKQAAMRALRERPEL-LTSAMPHNGNATFRQAVARRALNAGMRI 210 Query: 177 DPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRG 236 D EE+V+T G EA+NL ++AVA PGDTIAVE+PT++ +L A+E LGM+ALEIPT P G Sbjct: 211 DTEEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTG 270 Query: 237 IDVGALEERMKTQA-IAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSE 295 I V ALE ++T I A +V+PN QNPLG MP+ K++LVRL +Q ++P+IE+ Y+E Sbjct: 271 ISVEALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTE 330 Query: 296 LYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLATP 355 L G+ PSSLK+ DR+G V++C+S +K L R+GW GR+ +V+ LKF +T A Sbjct: 331 LADGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRANE 390 Query: 356 TAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVE 415 Q A+++ Y+RHLRR+R+ QQR+ M + +FP GT+++ P GG LWVE Sbjct: 391 EWTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWVE 450 Query: 416 LPQGVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKLV 475 LP V + +L+ R+LA G+ V+PG IF+ ++RY HF+R+ + +++E +QAL+ +G LV Sbjct: 451 LPVQVCSQQLFERALAEGVGVSPGAIFSNSSRYGHFVRICCGHPFNRELDQALRRLGGLV 510 Query: 476 EELA 479 LA Sbjct: 511 HHLA 514 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 145 bits (366), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 119/456 (26%), Positives = 211/456 (46%), Gaps = 16/456 (3%) Query: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESLGIIESQPQS 65 L +Q + A I D +LR G R+ S+R + +++S TVV AY+ L + G +ES+ S Sbjct: 40 LVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRRGS 99 Query: 66 GYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYPN 125 G++V+E+ + P +DV LV + + +P G P Sbjct: 100 GFYVKERAPLGGSYGAAQAELDTEPG----RGLDVVWLVRNMFRQMPP-AKMPGGGLLP- 153 Query: 126 PALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEEIVITV 185 P +A ++R Q + P G L +Q+ + E + PE+IV+T Sbjct: 154 PDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLTT 213 Query: 186 GATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGALEER 245 G T+ ++ + RPGD I V+ P ++ M + LG + + IP G D+ L E Sbjct: 214 GVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGD-GPDIARLREL 272 Query: 246 MKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNA-HPS 304 ++ NP + ++ +++R+AE+H ++E+ +Y +++ G+A P+ Sbjct: 273 AAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQPA 332 Query: 305 S-LKNYDRDGLVLHCSSFSKSLTSAYRIGW-AMPGRYRAQVEKLKFLNTLATPTAPQRAI 362 + + D+ V++ FSK+L++ R+G+ A + K L+TL T +R Sbjct: 333 TRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVA 392 Query: 363 AEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSE-PQGGYVLWVELPQGVD 421 + L++G Y +H RVR RD + + R G V E P G LWV+ G D Sbjct: 393 YKVLSEGHYRKHAERVRARLNGARDKVMRQLERL---GMDVVEAPPCGMFLWVD--TGRD 447 Query: 422 AMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYS 457 + ++ G +APG +F+ S ++R+N + Sbjct: 448 TNVMTEAAMQEGFLLAPGSLFSPAQLPSTYMRINVA 483 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 142 bits (359), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 124/469 (26%), Positives = 213/469 (45%), Gaps = 44/469 (9%) Query: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESLGIIESQPQS 65 L +Q A+ LA I G LR GER+ SVR +Q H + +TVV AYE L + G+++++ + Sbjct: 21 LVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGA 80 Query: 66 GYFVREQPE--------APPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTV 117 G+FV + PP+P + + AW L + D V Sbjct: 81 GFFVAARAGQSGQHAVFVPPEPVIDS-------AW--------------LLSEMFADERV 119 Query: 118 PL--GSPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLEN-GL 174 P+ G + L Q RI R V P G+ LRQ+ ++L + L Sbjct: 120 PIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAP-LRQLITQFLGHWSL 178 Query: 175 KVDPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQ 234 ++ E+++ T GAT+A++L ++ + +PGDT+ ++ P + ++ + G+ + +P P Sbjct: 179 ELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPG 238 Query: 235 RGIDVGALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYS 294 G+D LE +T QNP G + R+++ AE+H V+E+ ++ Sbjct: 239 -GVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFR 297 Query: 295 ELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRA-QVEKLKFLNTLA 353 EL G A L D V++ S+SK++ + R+G+ R A Q+ K + TL Sbjct: 298 EL--GQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLT 355 Query: 354 TPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAG-TQVSEPQGGYVL 412 +R + LT+G + RH++ + + + + G T + +GG Sbjct: 356 NSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLN---AKLSEVGLTPFTAARGGMFS 412 Query: 413 WVELPQGVD--AMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYA 459 W + +G + A E+ R+ GI +APG F + + R N YA Sbjct: 413 WATI-EGCELSAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYA 460 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 139 bits (349), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 120/457 (26%), Positives = 209/457 (45%), Gaps = 47/457 (10%) Query: 2 AVTPLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESLGIIES 61 A T L + I +GV PG R+ S+R + +H + T+V ++ L +LG+ E Sbjct: 4 ASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEP 63 Query: 62 QPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGS 121 + +G+FV APP+P +ED S +DV L+ LK G + LG Sbjct: 64 RRGAGFFV---CVAPPRP------KEDEEG-NLSRAMDVVWLMREQLK--HDPGQLRLGD 111 Query: 122 PYPNPALFPSHRLAQYAGRIARHA-----SQSSVFDDLPPGHPELLRQIARRYLENGLKV 176 +P RL ++ ++ R S F LP L + + + ++G++ Sbjct: 112 GFPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLP-----LRQHLVHKLAQHGIEA 166 Query: 177 DPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRG 236 +IV+T GA +A+++ ++ RPGD + V+ P +Y + ++ G R + IP P G Sbjct: 167 GTGQIVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPD-G 225 Query: 237 IDVGALEERMK---------TQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPV 287 DV LE + TQ++A NP + R+++LA+++Q + Sbjct: 226 PDVAVLERELHRPGKPPLFFTQSLA--------HNPTASDTSPHKAHRILQLADRYQAII 277 Query: 288 IENAVYSELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRA-QVEKL 346 +EN +++ + A + D+ ++ SFSKS+++A R+G+ R A + + Sbjct: 278 VENDAFAD--FKPATAPRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADI 335 Query: 347 KFLNTLATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQV-SE 405 K L +++ +R + L+ G + RH R+R AQ + R + G ++ Sbjct: 336 KMLVHMSSSEYCERTLDVILSDGHFSRHTARLRERLAQATEQAR---AQLEGLGAELFCA 392 Query: 406 PQGGYVLWVELPQGVDAMELYRRSLALGITVAPGRIF 442 PQ LW P DA L +R + I +APG IF Sbjct: 393 PQQAMYLWARFPWFEDAKRLAQRLMQRQIVLAPGSIF 429 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 0.319 0.134 0.392 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: 1,589,128 Number of extensions: 68187 Number of successful extensions: 262 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 236 Number of HSP's successfully gapped: 14 Length of query: 480 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 391 Effective length of database: 1,198,455 Effective search space: 468595905 Effective search space used: 468595905 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)