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= 0004.0052.p (414 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312337|ref|YP_003776429.1| transcription regulator protein... 733 0.0 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 306 2e-84 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 281 5e-77 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 239 3e-64 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 117 1e-27 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 733 bits (1893), Expect = 0.0, Method: Compositional matrix adjust. Identities = 353/406 (86%), Positives = 374/406 (92%) Query: 1 VFEELTAQGVVEPRRGSGFFVCATPPRPKEEEEGSLSRAMDVVWLMREQLKHDPGHLRLG 60 VF+ELTA G+ EPRRG+GFFVC PPRPKE+EEG+LSRAMDVVWLMREQLKHDPG LRLG Sbjct: 51 VFDELTALGLAEPRRGAGFFVCVAPPRPKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLG 110 Query: 61 DGFPPVEWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVQKLAQHGIEAATSQ 120 DGFPPVEWLHDVRLDKFHQKVVRTG+GALFGYGSRFGYLPLRQHLV KLAQHGIEA T Q Sbjct: 111 DGFPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQ 170 Query: 121 IVLTHGANQALDIVIRNFIRPGDRVLVDEPGYYMLYGKLKLSGARIVGIPRHADGPDIEA 180 IVLTHGANQALDIVIR+FIRPGDRVLVDEPGYYMLYGKLKLSGARI+GIPR DGPD+ Sbjct: 171 IVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAV 230 Query: 181 LERELKLPGKPPLFFTQSLAHNPTASDTSPHKAHKILQLADRHDALIVENDAFADFKPAT 240 LEREL PGKPPLFFTQSLAHNPTASDTSPHKAH+ILQLADR+ A+IVENDAFADFKPAT Sbjct: 231 LERELHRPGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPAT 290 Query: 241 APRIATLDQLRRTLYIGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERT 300 APRIATLDQLRRT+Y+GSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERT Sbjct: 291 APRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERT 350 Query: 301 LDVILSDGHFSRHTARLRERLAHATDAACHQLQQLGAELFCAPQQSMYLWARFPAFTDAR 360 LDVILSDGHFSRHTARLRERLA AT+ A QL+ LGAELFCAPQQ+MYLWARFP F DA+ Sbjct: 351 LDVILSDGHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAK 410 Query: 361 PLAQALMQHHVVLAPGSIFHVDPEHSVPWSRFNVGQLSDPRFAAAM 406 LAQ LMQ +VLAPGSIFHVD E + PWSRFNVG L+D RFA AM Sbjct: 411 RLAQRLMQRQIVLAPGSIFHVDTEQTQPWSRFNVGLLADARFADAM 456 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 306 bits (783), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 171/409 (41%), Positives = 238/409 (58%), Gaps = 14/409 (3%) Query: 2 FEELTAQGVVEPRRGSGFFVCATPP------RPKEEEEGSLSRAMDVVWLMREQLKHDPG 55 ++ L AQG +E RRGSGF+V P + E + R +DVVWL+R + P Sbjct: 84 YDRLVAQGYLESRRGSGFYVKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPP 143 Query: 56 HLRLGDGFPPVEWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVQKLAQHGIE 115 G G P +WL + + V R L GYG+ G+LPLRQ L KLA+ I Sbjct: 144 AKMPGGGLLPPDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIA 203 Query: 116 AATSQIVLTHGANQALDIVIRNFIRPGDRVLVDEPGYYMLYGKLKLSGARIVGIPRHADG 175 AA QIVLT G Q LD V R+F+RPGD + VD+P +++++G GA++VGIPR DG Sbjct: 204 AAPEQIVLTTGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDG 263 Query: 176 PDIEALERELKLPGKPPLFFTQSLAHNPTASDTSPHKAHKILQLADRHDALIVENDAFAD 235 PDI L REL KP L+ S+ HNPT++ S KA ++L++A+ HD +IVE+D + D Sbjct: 264 PDIARL-RELAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCD 322 Query: 236 FKPAT----APRIATLDQLRRTLYIGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHM 291 P + A RIA LDQL+R +Y+G FSK++SA LRVG+IA +LA LAD K+L + Sbjct: 323 MHPGSAVQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTL 382 Query: 292 SSSEYCERTLDVILSDGHFSRHTARLRERLAHATDAACHQLQQLGAELFCAPQQSMYLWA 351 ++ E ER +LS+GH+ +H R+R RL A D QL++LG ++ AP M+LW Sbjct: 383 TTGEIGERVAYKVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWV 442 Query: 352 RFPAFTDARPLAQALMQHHVVLAPGSIFHVDPEHSVPWSRFNVGQLSDP 400 D + +A MQ +LAPGS+F S + R NV ++DP Sbjct: 443 D--TGRDTNVMTEAAMQEGFLLAPGSLFSPAQLPST-YMRINVASMADP 488 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 281 bits (720), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 152/413 (36%), Positives = 228/413 (55%), Gaps = 24/413 (5%) Query: 2 FEELTAQGVVEPRRGSGFFVCA-----------TPPRPKEEEEGSLSRAMDVVWLMREQL 50 +E+L A+G+++ RRG+GFFV A PP P +D WL+ E Sbjct: 65 YEQLVARGMLQARRGAGFFVAARAGQSGQHAVFVPPEP----------VIDSAWLLSEMF 114 Query: 51 KHDPGHLRLGDGFPPVEWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVQKLA 110 + ++ G G+ P +WL+D L + ++++R+ GYG +GY PLRQ + Q L Sbjct: 115 ADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLG 174 Query: 111 QHGIEAATSQIVLTHGANQALDIVIRNFIRPGDRVLVDEPGYYMLYGKLKLSGARIVGIP 170 +E Q++ THGA QALD+VIR +PGD VL+D+PGY L L+L+G ++G+P Sbjct: 175 HWSLELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVP 234 Query: 171 RHADGPDIEALERELKLPGKPPLFFTQSLAHNPTASDTSPHKAHKILQLADRHDALIVEN 230 R G D + LE L P +FFT S+ NPT + +P A ++LQ A+RH +VE+ Sbjct: 235 RTPGGVDTDVLE-TLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVED 293 Query: 231 DAFADFKPATAPRIATLDQLRRTLYIGSFSKSVSAALRVGFIACHRDLASDLADIKMLVH 290 D F + AT P +A LD L+R +Y+GS+SK+++ +LRVG+IAC R+LA + KM++ Sbjct: 294 DIFRELGQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLT 353 Query: 291 MSSSEYCERTLDVILSDGHFSRHTARLRERLAHATDAACHQLQQLGAELFCAPQQSMYLW 350 +++SE ER + +L++GH RH L L A +L ++G F A + M+ W Sbjct: 354 LTNSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSW 413 Query: 351 ARFPAFT-DARPLAQALMQHHVVLAPGSIFHVDPEHSVPWSRFNVGQLSDPRF 402 A AR +A Q + LAPG FH+ H + RFNVG P Sbjct: 414 ATIEGCELSAREIADRARQKGIWLAPGDFFHLSAPHQTSF-RFNVGYADVPEL 465 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 239 bits (610), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 150/418 (35%), Positives = 229/418 (54%), Gaps = 9/418 (2%) Query: 2 FEELTAQGVVEPRRGSGFFVCATPPRPKEEEEGSLSRAMDVVWLMREQLKHDPGHLRLGD 61 +E+L A G V R G+GFFV + + + + + W R H LG Sbjct: 76 YEKLVAHGHVYTRPGAGFFVRVDNQVANAQTQTAPAPLL-TNWRQRLLDPRTLLHRGLGS 134 Query: 62 GFPPVEWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVQKLAQHGIEAATSQI 121 G P EW++ +L + V R+ + GYG GYLPLRQ L +KLA G++ Q+ Sbjct: 135 GDLPAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQV 194 Query: 122 VLTHGANQALDIVIRNFIR-PGDRVLVDEPGYYMLYGKLKLSGARIVGIPRHADGPDIEA 180 + T GA A+++++ +++R PG VLVD+PG ++L +L SG IVG+ R ADGPDI A Sbjct: 195 LTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITA 254 Query: 181 LERELKLPGKPPLFFTQSLAHNPTASDTSPHKAHKILQLADRHDALIVENDAFADFKPAT 240 L+ + G P +F QSL H+P + SP +A +IL+LA+R + IVE+D + D PA Sbjct: 255 LQNACEQHG-PTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAH 313 Query: 241 ----APRIATLDQLRRTLYIGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEY 296 A R+A+LDQL+ LY+GSFSK++ A +R GFIA + L K++ S+ Sbjct: 314 RSPHATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSL 373 Query: 297 CERTLDVILSDGHFSRHTARLRERLAHATDAACHQLQQLGAELFCAPQQSMYLWARFPAF 356 ER + +LS+G + RH +LR RL A L+ LG L P +YLW + P Sbjct: 374 AERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLPGD 433 Query: 357 TDARPLAQALMQHHVVLAPGSIFHVDPEHSVPWSRFNVGQLSDPRFAAAMAALLDQQA 414 +A +A+ ++ + + APG +F + + + RFNV SD A++ +L++ A Sbjct: 434 LNAMEVAERMLANGYLTAPGPVFS-SGQAARSYMRFNVAS-SDDEALRALSNVLERSA 489 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 102/415 (24%), Positives = 183/415 (44%), Gaps = 45/415 (10%) Query: 2 FEELTAQGVVEPRRGSGFFVCATPPRPKEEEEGSLSRA----------MDVVWLMREQLK 51 +E L ++G++E + SG+FV P P + + SR +DV L+ LK Sbjct: 50 YELLESRGIIESQPQSGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLK 109 Query: 52 --HDPGHLRLGDGFPPVEWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLP-----LRQH 104 G + LG +P RL ++ ++ R S F LP L + Sbjct: 110 TIQQDGTVPLGSPYPNPALFPSHRLAQYAGRIARHA-----SQSSVFDDLPPGHPELLRQ 164 Query: 105 LVQKLAQHGIEAATSQIVLTHGANQALDIVIRNFIRPGDRVLVDEPGYYMLYGKLKLSGA 164 + ++ ++G++ +IV+T GA +A+++ ++ RPGD + V+ P +Y + ++ G Sbjct: 165 IARRYLENGLKVDPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGM 224 Query: 165 RIVGIPRHAD-GPDIEALERELKLPGKPPLFFTQSLA--------HNPTASDTSPHKAHK 215 R + IP G D+ ALE +K TQ++A NP + + Sbjct: 225 RALEIPTDPQRGIDVGALEERMK---------TQAIAACMVMPNFQNPLGFQMPDSEKER 275 Query: 216 ILQLADRHDALIVENDAFADFKPATA--PRIATLDQLRRTLYIGSFSKSVSAALRVGFIA 273 +++LA++H ++EN +++ A + D+ L+ SFSKS+++A R+G+ Sbjct: 276 LVRLAEQHQMPVIENAVYSELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAM 335 Query: 274 CHRDLASDLADIKMLVHMSSSEYCERTLDVILSDGHFSRHTARLRERLAHATDAACHQLQ 333 R A + +K L +++ +R + L+ G + RH R+R A D H + Sbjct: 336 PGRYRA-QVEKLKFLNTLATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVL 394 Query: 334 QL--GAELFCAPQQSMYLWARFPAFTDARPLAQALMQHHVVLAPGSIFHVDPEHS 386 + PQ LW P DA L + + + +APG IF +S Sbjct: 395 RFFPAGTQVSEPQGGYVLWVELPQGVDAMELYRRSLALGITVAPGRIFAATNRYS 449 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 0.420 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: 1,399,318 Number of extensions: 61512 Number of successful extensions: 225 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 11 Length of query: 414 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 326 Effective length of database: 1,203,190 Effective search space: 392239940 Effective search space used: 392239940 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 132 (55.5 bits)