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= 0009.0120.p (544 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... 715 0.0 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 311 8e-86 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 308 7e-85 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 306 2e-84 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 153 4e-38 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 715 bits (1845), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/525 (69%), Positives = 406/525 (77%), Gaps = 54/525 (10%) Query: 20 PLLSRESGDSLVDQIVRTVQSRVDDKLLRTGARMPSIRQFADLHSVSRFTVVEAYDRLVA 79 PLL RESGDSLV+QIVR +++R+DDKLLR+G RMPSIRQFAD + +SRFTVVEAYDRLVA Sbjct: 30 PLLLRESGDSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVA 89 Query: 80 QGFLESRRGSGFFVRERSPVANPSMAGTVVSAAGHNPGSDAASQPQQLDVVWLVRNMFRQ 139 QG+LESRRGSGF+V+ER+P+ G + PG + LDVVWLVRNMFRQ Sbjct: 90 QGYLESRRGSGFYVKERAPLGGSY--GAAQAELDTEPG-------RGLDVVWLVRNMFRQ 140 Query: 140 MPAQKMPGGGLLPPDWLDGDLIANGLRAVGRQNQSLLLSYGTPQGFLPLRQQLQLKLAEL 199 MP KMPGGGLLPPDWLDG+LIAN LRAV R N LLL YGTPQGFLPLRQQLQLKLAEL Sbjct: 141 MPPAKMPGGGLLPPDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAEL 200 Query: 200 EISAAPEQILMTSGVTQGLDIVARHFLRPGDVIFVDDPAWFLMFGSFAAMGAKVVGIPRL 259 EI+AAPEQI++T+GVTQGLD VARHFLRPGDVIFVDDPAWFLMFGSFAA+GAKVVGIPRL Sbjct: 201 EIAAAPEQIVLTTGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRL 260 Query: 260 ADGPDIAKLAELAALHKPRLYVINSVLHNPTSTSLSAAKAFQILRIAEEHDFTIVEDDIY 319 DGPDIA+L ELAA+HKP+LYVINSVLHNPTSTSLSAAKAFQ+LRIAEEHDF IVEDDIY Sbjct: 261 GDGPDIARLRELAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIY 320 Query: 320 CDMHAGNAGAGAGGQAATRIAALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLAD 379 CDMH G+A Q ATRIAALDQL RVIYLGGFSKTLSANLRVG+IATS +LAR LAD Sbjct: 321 CDMHPGSA-----VQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLAD 375 Query: 380 RKMLSTLTTTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLGTGTATS 439 RK+LSTLTT EIGERV YK+LSEGHYRKH ER+R RLNG RDKV+RQLER+G+ A Sbjct: 376 RKLLSTLTTGEIGERVAYKVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPP 435 Query: 440 NGMFVWADAGCDTSVLTEKAMAQGFLLAPGSLFSPNXPKDDRGPSAVAARVPDGCSLILN 499 GMF+W D G DT+V+TE AM +GFLLAPGSLFSP Sbjct: 436 CGMFLWVDTGRDTNVMTEAAMQEGFLLAPGSLFSP------------------------- 470 Query: 500 LGTTTEEVARALHQHSNLHVVTNNLNVASMTDPAIWRFLDEELGR 544 + L +NVASM DP IWRFL + + R Sbjct: 471 ---------------AQLPSTYMRINVASMADPGIWRFLAQAMER 500 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 311 bits (797), Expect = 8e-86, Method: Compositional matrix adjust. Identities = 176/451 (39%), Positives = 251/451 (55%), Gaps = 27/451 (5%) Query: 25 ESGDSLVDQIVRTVQSRVDDKLLRTGARMPSIRQFADLHSVSRFTVVEAYDRLVAQGFLE 84 E+ +L +V+ ++ ++ + + G+R+PSIR+ A H ++ T+V +D L A G E Sbjct: 3 EASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAE 62 Query: 85 SRRGSGFFVRERSPVANPSMAGTVVSAAGHNPGSDAASQPQQLDVVWLVRNMFRQMPAQK 144 RRG+GFFV P G + A +DVVWL+R + P Q Sbjct: 63 PRRGAGFFVCVAPPRPKEDEEGNLSRA---------------MDVVWLMREQLKHDPGQL 107 Query: 145 MPGGGLLPPDWLDGDLIANGLRAVGRQNQSLLLSYGTPQGFLPLRQQLQLKLAELEISAA 204 G G P +WL + + V R L YG+ G+LPLRQ L KLA+ I A Sbjct: 108 RLGDGFPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAG 167 Query: 205 PEQILMTSGVTQGLDIVARHFLRPGDVIFVDDPAWFLMFGSFAAMGAKVVGIPRLADGPD 264 QI++T G Q LDIV RHF+RPGD + VD+P +++++G GA+++GIPRL DGPD Sbjct: 168 TGQIVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPD 227 Query: 265 IAKLA-ELAALHKPRLYVINSVLHNPTSTSLSAAKAFQILRIAEEHDFTIVEDDIYCDMH 323 +A L EL KP L+ S+ HNPT++ S KA +IL++A+ + IVE+D + D Sbjct: 228 VAVLERELHRPGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFK 287 Query: 324 AGNAGAGAGGQAATRIAALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKML 383 A RIA LDQL R +Y+G FSK++SA LRVGFIA DLA LAD KML Sbjct: 288 PAT---------APRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKML 338 Query: 384 STLTTTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLGTGTATSNGMF 443 ++++E ER + ILS+GH+ +HT RLR RL ++ QLE +G A M+ Sbjct: 339 VHMSSSEYCERTLDVILSDGHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMY 398 Query: 444 VWADAGC--DTSVLTEKAMAQGFLLAPGSLF 472 +WA D L ++ M + +LAPGS+F Sbjct: 399 LWARFPWFEDAKRLAQRLMQRQIVLAPGSIF 429 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 308 bits (789), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 186/491 (37%), Positives = 265/491 (53%), Gaps = 38/491 (7%) Query: 24 RESGDSLVDQIVRTVQSRVDDKLLRTGARMPSIRQFADLHSVSRFTVVEAYDRLVAQGFL 83 + S LVD+I V V + L G ++PS+R A+ VSR TV AY++LVA G + Sbjct: 26 KHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHV 85 Query: 84 ESRRGSGFFVRERSPVANPSMAGTVVSAAGHNPGSDAASQPQQLDVVWLVRNMFRQMPAQ 143 +R G+GFFVR + VAN + + P L W R + + Sbjct: 86 YTRPGAGFFVRVDNQVAN----------------AQTQTAPAPLLTNWRQRLLDPRTLLH 129 Query: 144 KMPGGGLLPPDWLDGDLIANGLRAVGRQNQSLLLSYGTPQGFLPLRQQLQLKLAELEISA 203 + G G LP +W++ +A LRAV R N + YG QG+LPLRQQLQ KLA++ + Sbjct: 130 RGLGSGDLPAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDV 189 Query: 204 APEQILMTSGVTQGLDIVARHFLR-PGDVIFVDDPAWFLMFGSFAAMGAKVVGIPRLADG 262 P Q+L T G T ++++ +LR PG + VDDP FL+ A G +VG+ R ADG Sbjct: 190 TPPQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADG 249 Query: 263 PDIAKLAELAALHKPRLYVINSVLHNPTSTSLSAAKAFQILRIAEEHDFTIVEDDIYCDM 322 PDI L H P Y S+LH+P T LS +AFQILR+AE +FTIVEDD Y D+ Sbjct: 250 PDITALQNACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDL 309 Query: 323 HAGNAGAGAGGQAATRIAALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKM 382 + ATR+A+LDQL V+Y+G FSKTL A +R GFIA +P L K+ Sbjct: 310 APAHRSP-----HATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKL 364 Query: 383 LSTLTTTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLGTGTATSNGM 442 +S + + ER +Y++LSEG YR+H E+LR RL+ R +++ LE +G+ G+ Sbjct: 365 VSRASNGSLAERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGL 424 Query: 443 FVWADAGCDTSVL--TEKAMAQGFLLAPGSLFSPNXPKDDRGPSAVAARVPDGCSLILNL 500 ++W D + + E+ +A G+L APG +FS S AAR + N+ Sbjct: 425 YLWGKLPGDLNAMEVAERMLANGYLTAPGPVFS----------SGQAAR----SYMRFNV 470 Query: 501 GTTTEEVARAL 511 ++ +E RAL Sbjct: 471 ASSDDEALRAL 481 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 306 bits (785), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 180/473 (38%), Positives = 257/473 (54%), Gaps = 35/473 (7%) Query: 14 AMPTTLPL---LSRESGDSLVDQIVRTVQSRVDDKLLRTGARMPSIRQFADLHSVSRFTV 70 A P PL L R++ LV+Q+ + ++ LR+G R+PS+RQFA H + TV Sbjct: 2 AKPARAPLQLDLKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTV 61 Query: 71 VEAYDRLVAQGFLESRRGSGFFVRERSPVANPSMAGTVVSAAGHNPGSDAASQPQQ--LD 128 VEAY++LVA+G L++RRG+GFFV R AG + G A P + +D Sbjct: 62 VEAYEQLVARGMLQARRGAGFFVAAR---------------AGQS-GQHAVFVPPEPVID 105 Query: 129 VVWLVRNMFRQMPAQKMPGGGLLPPDWLDGDLIANGLRAVGRQNQSLLLSYGTPQGFLPL 188 WL+ MF G G LP WL+ + + R + R + + YG P G+ PL Sbjct: 106 SAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPL 165 Query: 189 RQQLQLKLAELEISAAPEQILMTSGVTQGLDIVARHFLRPGDVIFVDDPAWFLMFGSFAA 248 RQ + L + EQ+L T G TQ LD+V R +PGD + +DDP + + Sbjct: 166 RQLITQFLGHWSLELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRL 225 Query: 249 MGAKVVGIPRLADGPDIAKLAELAALHKPRLYVINSVLHNPTSTSLSAAKAFQILRIAEE 308 G V+G+PR G D L LA H P+++ SVL NPT TS + A A ++L+ AE Sbjct: 226 AGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAER 285 Query: 309 HDFTIVEDDIYCDMHAGNAGAGAGGQAAT-RIAALDQLHRVIYLGGFSKTLSANLRVGFI 367 H F +VEDDI+ ++ GQA +AALD L RVIY+G +SKT++ +LRVG+I Sbjct: 286 HGFWVVEDDIFREL----------GQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYI 335 Query: 368 ATSPDLARHLADRKMLSTLTTTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQL 427 A +LAR + KM+ TLT +EI ER+V+ +L+EGH+R+H + L L + + +L Sbjct: 336 ACQRELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKL 395 Query: 428 ERVGLGTGTATSNGMFVWAD-AGCDTSV--LTEKAMAQGFLLAPGSLFSPNXP 477 VGL TA GMF WA GC+ S + ++A +G LAPG F + P Sbjct: 396 SEVGLTPFTAARGGMFSWATIEGCELSAREIADRARQKGIWLAPGDFFHLSAP 448 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 153 bits (386), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 120/453 (26%), Positives = 210/453 (46%), Gaps = 24/453 (5%) Query: 30 LVDQIVRTVQSRVDDKLLRTGARMPSIRQFADLHSVSRFTVVEAYDRLVAQGFLESRRGS 89 L Q + + + D +LR G R+ S+R + H VS TVV AY+ L ++G +ES+ S Sbjct: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQS 65 Query: 90 GFFVRERSPVANPSMAGTVVSAAGHNPGSDAASQPQQLDVVWLVRNMFRQMPAQ-KMPGG 148 G+FVRE+ P A P A S H A + ++DV LV + + +P G Sbjct: 66 GYFVREQ-PEAPPKPALRTTSREDH----PAWQESTEVDVSRLVLATLKTIQQDGTVPLG 120 Query: 149 GLLP-PDWLDGDLIANGLRAVGRQNQSLLLSYGTPQGFLPLRQQLQLKLAELEISAAPEQ 207 P P +A + R + P G L +Q+ + E + PE+ Sbjct: 121 SPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEE 180 Query: 208 ILMTSGVTQGLDIVARHFLRPGDVIFVDDPAWFLMFGSFAAMGAKVVGIPRLAD-GPDIA 266 I++T G T+ +++ + RPGD I V+ P ++ M + +G + + IP G D+ Sbjct: 181 IVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVG 240 Query: 267 KLAELAALHKPRLYVINSVLHNPTSTSLSAAKAFQILRIAEEHDFTIVEDDIYCDMHAGN 326 L E ++ NP + ++ +++R+AE+H ++E+ +Y +++ GN Sbjct: 241 ALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGN 300 Query: 327 AGAGAGGQAATRIAALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADR-KMLST 385 A + + D+ V++ FSK+L++ R+G+ P R ++ K L+T Sbjct: 301 AHPSS-------LKNYDRDGLVLHCSSFSKSLTSAYRIGW--AMPGRYRAQVEKLKFLNT 351 Query: 386 LTTTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLGTGTATSN---GM 442 L T +R + + L++G Y +H R+R RD ++R GT S G Sbjct: 352 LATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRD-MMRHFVLRFFPAGTQVSEPQGGY 410 Query: 443 FVWAD--AGCDTSVLTEKAMAQGFLLAPGSLFS 473 +W + G D L +++A G +APG +F+ Sbjct: 411 VLWVELPQGVDAMELYRRSLALGITVAPGRIFA 443 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 0.394 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: 1,513,644 Number of extensions: 58813 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 12 Length of query: 544 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 454 Effective length of database: 1,193,720 Effective search space: 541948880 Effective search space used: 541948880 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: 133 (55.8 bits)