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= 0034.0177.p (284 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310469|ref|YP_003774561.1| LysR family transcription regul... 483 e-138 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 105 5e-24 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 94 1e-20 gi|300309384|ref|YP_003773476.1| transcription regulator protein... 87 1e-18 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 82 5e-17 >gi|300310469|ref|YP_003774561.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 483 bits (1243), Expect = e-138, Method: Compositional matrix adjust. Identities = 235/260 (90%), Positives = 251/260 (96%) Query: 25 GFALTDEGQRLVQEAMDILERIESITASVSRESDRGAGGNLANVSGSLRVVAPFGFGRRY 84 GFALTDEGQRLVQEA DILERIE+ITASVSRESDRG +LANVSGSLRVVAPFGFGRRY Sbjct: 55 GFALTDEGQRLVQEATDILERIEAITASVSRESDRGEHASLANVSGSLRVVAPFGFGRRY 114 Query: 85 VAPLIRDLHRSHPKLSISLLLAESPLAASTGADAIISIGRVKGSSWVGHFLAPNARFLCA 144 VAPL+RDLHR+HP+L+ISLLLAESPLAA++GADAIISIGRVKGSSWVGHFLAPN RFLCA Sbjct: 115 VAPLVRDLHRNHPRLAISLLLAESPLAAASGADAIISIGRVKGSSWVGHFLAPNERFLCA 174 Query: 145 APVLAKRMQRIKHPSDLAEYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALS 204 +P LA+RM R +HPS+LA+YPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALS Sbjct: 175 SPALARRMNRARHPSELADYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALS 234 Query: 205 SNDGTITRDWALDGEGFVARSEWDCAHLVADGSLKRVLPGWQLDPAPIMALLPGRQGLTL 264 SNDGTITRDWALDGEGFVARSEWDCAHL+ DGSLKRVLPGWQLDPAPIMALLPGRQGLTL Sbjct: 235 SNDGTITRDWALDGEGFVARSEWDCAHLLTDGSLKRVLPGWQLDPAPIMALLPGRQGLTL 294 Query: 265 RQRVFLDAAKRAFQPVPWRR 284 RQRVFL+AAKRAFQP+PWRR Sbjct: 295 RQRVFLEAAKRAFQPIPWRR 314 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 105 bits (261), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 79/261 (30%), Positives = 123/261 (47%), Gaps = 18/261 (6%) Query: 26 FALTDEGQRLVQEAMDILERIESITASVSRESDRGAGGNLANVSGSLRVVAPFGFGRRYV 85 LT+EG +++ IL +E ++VS S R SG L + AP GFGR++V Sbjct: 56 IVLTNEGAAFLEDCQRILADLEDAESAVSERSARA--------SGQLLISAPAGFGRQHV 107 Query: 86 APLIRDLHRSHPKLSISLLLAESPL-AASTGADAIISIGRVKGSSWVGHFLAPNARFLCA 144 APL+ H ++++L L + G D I I + S+ V LA N R + A Sbjct: 108 APLLPSFLAEHRDVTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVA 167 Query: 145 APVLAKRMQRIKHPSDLAEYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALS 204 AP +R + P +L + L++ + S+ +T R++GK K+ G + Sbjct: 168 APAYLRRHGTPQSPDELMRHNCLAM---SSEGSQRGWTL-----RQSGKVSVYKVGGNMV 219 Query: 205 SNDGTITRDWALDGEGFVARSEWDCAHLVADGSLKRVLPGWQLDPAPIMALLPGRQGLTL 264 NDG + +WAL G G RS W+ + G L VL + I A+ R+ L L Sbjct: 220 CNDGEVLHNWALAGRGLAWRSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPL 279 Query: 265 RQRVFLDAAKRAF-QPVPWRR 284 R R F+D + A+ QP W++ Sbjct: 280 RIRAFVDFLRHAYAQPDYWKK 300 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 94.0 bits (232), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 110/239 (46%), Gaps = 31/239 (12%) Query: 27 ALTDEGQRLVQEAMDILERIESITASVS--RESDRGAGGNLANVSGSLRVVAPFGFGRRY 84 +T+EG + + A IL+ +E + +VS + RG L++ FG GR+ Sbjct: 60 VMTEEGGNVHEWARRILDDVEQMMETVSSAKRVPRGL----------LKISTSFGLGRKV 109 Query: 85 VAPLIRDLHRSHPKLSISLLLAESPL-AASTGADAIISIGRVKGSSWVGHFLAPNARFLC 143 V+PL+ HP+L I L L + + + G D I +G + P+ R LC Sbjct: 110 VSPLLSRFASEHPELKIQLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLC 169 Query: 144 AAPVLAKRMQRIKH--PSDLA---EYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVK 198 A+P K KH P+DLA ++ L +RE + R TVK Sbjct: 170 ASPAYLK-----KHGLPADLAALRQHQCLVIRERNQSFGIWRMMGPKGVE-------TVK 217 Query: 199 LNGALSSNDGTITRDWALDGEGFVARSEWDCAHLVADGSLKRVLPGWQLDPAPIMALLP 257 ++G L+SN G I WA+DG G + RS WD A + G L RVLP + A + A+ P Sbjct: 218 VSGMLASNHGEIIHQWAVDGHGIILRSAWDVADSLKRGRLVRVLPQY-YQEADLCAVYP 275 >gi|300309384|ref|YP_003773476.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 87.4 bits (215), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 72/257 (28%), Positives = 111/257 (43%), Gaps = 16/257 (6%) Query: 25 GFALTDEGQRLVQEAMDILERIESITASVSRESDRGAGGNLANVSGSLRVVAPFGFGRRY 84 +T++G+R + A ++L + + RGA + G+LRVV P FG++ Sbjct: 49 AMKMTEDGERCYERAKELLAGWDDFENEL-----RGAR---QHAEGALRVVVPHAFGQKQ 100 Query: 85 VAPLIRDLHRSHPKLSISLLLAESPLA-ASTGADAIISIGRVKGSSWVGHFLAPNARFLC 143 + + R HP++++ LL + S G D I +G V S V LA R Sbjct: 101 LIGPLAQFMRQHPRITVEWLLHDRAADFISQGIDCAIQVGEVNDPSVVAIHLAEVPRMTV 160 Query: 144 AAPVLAKRMQRIKHPSDLAEYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGAL 203 AP + +HP+DLAE P++++ R T + TG+ V L Sbjct: 161 VAPSVLAGRPMPRHPADLAELPWIAI----PAFYRREVTLTHA---HTGEQRQVSFRPQL 213 Query: 204 SSNDGTITRDWALDGEGFVARSEWDCAHLVADGSLKRVLPGWQLDPAPIMALLPGRQGLT 263 ++ R+ A+ G G S W VA G L ++LP WQ P P+ L P + Sbjct: 214 VTDSLYALRNTAVAGLGVAVGSSWVLNEDVAAGRLVQLLPDWQPAPLPVCLLYPYARFQP 273 Query: 264 LRQRVFLDAAKRAFQPV 280 R R F+D K A V Sbjct: 274 ARLRHFIDTMKEAMPAV 290 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 82.0 bits (201), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/261 (26%), Positives = 109/261 (41%), Gaps = 21/261 (8%) Query: 26 FALTDEGQRLVQEAMDILERIESITASVSRESDRGAGGNLANVSGSLRVVAPFGFGRRYV 85 +LTDEG+ ++LE I+ + + V SD+ G LR+ AP FG + Sbjct: 56 LSLTDEGRVYFARCKELLETIQDVESEVGLNSDQACG--------RLRIGAPQDFGVEQL 107 Query: 86 APLIRDLHRSHPKLSISLLLAESPL-AASTGADAIISIGRVKGSSWVGHFLAPNARFLCA 144 APL HP +++++ L++ + G D I I + S V LAP CA Sbjct: 108 APLWGKFTEQHPLITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACA 167 Query: 145 APVLAKRMQRIKHPSDLAEYPYL--SLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGA 202 AP R P++L +YP++ S R DD S F V G V++ Sbjct: 168 APEFLARHGTPGTPAELRDYPFISYSYRAGGDDWS---FRHVH------GDTCQVRVRST 218 Query: 203 LSSNDGTITRDWALDGEGFVARSEWDCAHLVADGSLKRVLPGWQL-DPAPIMALLPGRQG 261 + N+G R A+ G+G + ++ + G L + GW + + L P R Sbjct: 219 VYVNNGATCRAMAIAGQGIAIQPDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTH 278 Query: 262 LTLRQRVFLDAAKRAFQPVPW 282 L + + D F+ PW Sbjct: 279 LPPKVQRMRDFLIEQFRVPPW 299 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 0.322 0.137 0.433 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: 885,544 Number of extensions: 35627 Number of successful extensions: 181 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 162 Number of HSP's successfully gapped: 18 Length of query: 284 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 200 Effective length of database: 1,222,130 Effective search space: 244426000 Effective search space used: 244426000 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 (21.9 bits) S2: 130 (54.7 bits)