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= 0001.2168.p (213 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311761|ref|YP_003775853.1| GntR family transcription regul... 373 e-105 gi|300313741|ref|YP_003777833.1| GntR family transcription regul... 67 1e-12 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 64 1e-11 gi|300312737|ref|YP_003776829.1| transcription regulator protein... 60 2e-10 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 55 6e-09 >gi|300311761|ref|YP_003775853.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 213 Score = 373 bits (958), Expect = e-105, Method: Compositional matrix adjust. Identities = 189/213 (88%), Positives = 197/213 (92%) Query: 1 MSGLNMEHPSTVERIAEVLRTRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAE 60 MS LN STV+RIAEVLR RIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAE Sbjct: 1 MSELNNAPSSTVDRIAEVLRLRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAE 60 Query: 61 GLVLTLPRRGVRVTMVDRAAVKENAEMRGALEILALRHSVRKFTSEHIAQLEQAQQACAQ 120 GLVLTLPRRGVRVTMVDRA VKENAEMRG+LEILALRHS RKF +EHIA+LEQA ACA Sbjct: 61 GLVLTLPRRGVRVTMVDRATVKENAEMRGSLEILALRHSARKFGAEHIARLEQAHAACAA 120 Query: 121 AASLVEWDAANNLFHDILSSQCAMPRLLAVLKQLQLTNSRYLFSTGFKRGWQPRSDHDHM 180 A SLVEWDAANNLFHDILSS+C MPRLLAVLKQLQLTNSRYLFSTGFKRGWQPRSDHDH Sbjct: 121 AGSLVEWDAANNLFHDILSSECGMPRLLAVLKQLQLTNSRYLFSTGFKRGWQPRSDHDHA 180 Query: 181 LIIDALKDKKTDRAVQLLSMHIGTMERVGFVAG 213 LII+ALK++K DRAVQLLSMHIGTMERVGFVAG Sbjct: 181 LIIEALKERKIDRAVQLLSMHIGTMERVGFVAG 213 >gi|300313741|ref|YP_003777833.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 67.0 bits (162), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/200 (26%), Positives = 102/200 (51%), Gaps = 14/200 (7%) Query: 13 ERIAEVLRTRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAEGLVLTLPRRGVR 72 E++ EVLR R++ G+ G L+++ +A+E S PVR A R+L +GL +G+ Sbjct: 6 EKVYEVLRQRLVGGQYKPGTQLKEEPLARELGVSRTPVRTALRRLVEDGLATADAGQGIH 65 Query: 73 VTMVDRAAVKENAEMRGALEILALRHSVRKFTSEHIAQLEQAQQACAQAA------SLVE 126 V ++E ++R LE A + + + +A L ++ + AQA S+ + Sbjct: 66 VAAWSDWDIEETFQLRMLLEPYAASLAAERGDEKMLALLRESNEKMAQAIKSGGLHSVEK 125 Query: 127 WDAANNLFHDILSSQCAMPRLLAVLKQL----QLTNSRYLFSTGFKRGWQPRSDHDHMLI 182 AAN++FH + A PRL A+L+ + + S +L +++ +S H H + Sbjct: 126 IQAANSIFHRTILEYSASPRLRAMLETIIDMPIIVRSFHL----YEKSELEQSLHHHQDL 181 Query: 183 IDALKDKKTDRAVQLLSMHI 202 + A++ + + A Q++ +H+ Sbjct: 182 LLAMQARDAELARQVMQLHL 201 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 63.5 bits (153), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/211 (29%), Positives = 93/211 (44%), Gaps = 24/211 (11%) Query: 6 MEHPST-VERIAEVLRTRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAEGLVL 64 M+ P T E + E + I +++ G L + +A+EF S P+REA QL + G+V Sbjct: 1 MDTPKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60 Query: 65 TLPRRGVRVTMVDRAAVKENAEMRGALEILALRHSVRKFTSEHIAQLEQAQQACAQAASL 124 PRRG V + + E E+ E + R + R+ T A+L A QAC A Sbjct: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDA 120 Query: 125 VEWDAA---NNLFHD---------ILSSQC-AMPRLLAVLKQLQLTNSRYLFSTGFKRGW 171 + DA N FHD L+ Q A+ R L ++LQL R + F Sbjct: 121 NDPDAYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQL-RVRDRLKSSFD--- 176 Query: 172 QPRSDHDHMLIIDALKDKKTDRAVQLLSMHI 202 +H ++DA+ ++ V LL HI Sbjct: 177 ------EHQAVVDAIISGDAEKTVDLLREHI 201 >gi|300312737|ref|YP_003776829.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 59.7 bits (143), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 38/110 (34%), Positives = 61/110 (55%), Gaps = 3/110 (2%) Query: 5 NMEHPSTVERIAEVLRTRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAEGLVL 64 ++H + ER+ + L I G++ G L +A +S +PVREA RQL AEG + Sbjct: 14 KIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGLADALGTSPMPVREAVRQLAAEGALE 73 Query: 65 TLPRRGVRVTMVDRAAVKENAEMRGALEILALRHSVRKFTS---EHIAQL 111 LP R +RV ++ + +E ++R ALE LA+ H+ R + E +A+L Sbjct: 74 ILPNRAMRVPLMTKGKFRELLKIRLALEGLAIEHAARHIDAVGLEQVARL 123 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 54.7 bits (130), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 53/216 (24%), Positives = 101/216 (46%), Gaps = 12/216 (5%) Query: 1 MSGLNMEHPSTVERIAEVLRTRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAE 60 + G + E + E + +++ I++GEIA G+ + + +A+ + S P+REA +LE + Sbjct: 7 LPGNDREGETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQ 66 Query: 61 GLVLTLPRRGVRVTMVDRAAVKENAEMRGALEILALRHSVRKFTSEHIAQL------EQA 114 L++ +P G RV + + E ++R +LE +A R + ++ + + +L + Sbjct: 67 NLLVRVPHVGARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEK 126 Query: 115 QQACAQAASLVEWDAANNLFHDIL--SSQCAMPRLL-AVLKQLQLTNSRYLFSTGFKRGW 171 +A + + + + I+ S + R+L L QL R +S R Sbjct: 127 DEAFQAGRGYYQQEGDYDFHYKIIQASGNQILTRILCGELYQLARM-YRIQYSATPHRPR 185 Query: 172 QPRSDHDHMLIIDALKDKKTDRAVQLLSMHIGTMER 207 Q ++H I+DAL D + A L+ HIG R Sbjct: 186 QAFAEHHR--ILDALADGDGELADLLMRRHIGASRR 219 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 0.132 0.376 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: 548,324 Number of extensions: 18190 Number of successful extensions: 76 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 75 Number of HSP's successfully gapped: 5 Length of query: 213 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 132 Effective length of database: 1,236,335 Effective search space: 163196220 Effective search space used: 163196220 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 (22.0 bits) S2: 128 (53.9 bits)