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= 0001.3393.p (234 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312737|ref|YP_003776829.1| transcription regulator protein... 441 e-125 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 69 3e-13 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 65 6e-12 gi|300314040|ref|YP_003778132.1| transcription regulator protein... 57 2e-09 gi|300311761|ref|YP_003775853.1| GntR family transcription regul... 55 4e-09 >gi|300312737|ref|YP_003776829.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 441 bits (1135), Expect = e-125, Method: Compositional matrix adjust. Identities = 222/234 (94%), Positives = 229/234 (97%) Query: 1 MDPTLIADLSTVRKIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGLSDALGTSPMPVR 60 MDPTLIADLST+RKIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGL+DALGTSPMPVR Sbjct: 1 MDPTLIADLSTMRKIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGLADALGTSPMPVR 60 Query: 61 EAVRQLAAEGALEILPNRAMRVPLMTKGKFRELLKIRLALEGLAAEHAARHIDAAALEEV 120 EAVRQLAAEGALEILPNRAMRVPLMTKGKFRELLKIRLALEGLA EHAARHIDA LE+V Sbjct: 61 EAVRQLAAEGALEILPNRAMRVPLMTKGKFRELLKIRLALEGLAIEHAARHIDAVGLEQV 120 Query: 121 ARLHEDLSVEMKRKKPNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDL 180 ARLH+ LSVEMKRK+PNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDL Sbjct: 121 ARLHDTLSVEMKRKRPNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDL 180 Query: 181 RAGSRRLAEAPALVHHARLLEGLREGSPKKARAGLEGDLLSAAEMILAGDGLPE 234 RAGSRRLAEAPALVHHARLLEGLR GSP+KARAGLEGDLLSAAEMILAGDGLP+ Sbjct: 181 RAGSRRLAEAPALVHHARLLEGLRAGSPEKARAGLEGDLLSAAEMILAGDGLPD 234 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 69.3 bits (168), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 56/192 (29%), Positives = 93/192 (48%), Gaps = 10/192 (5%) Query: 19 TLSERVYQDLCELIQAGQVRPGQKLTLKGLSDALGTSPMPVREAVRQLAAEGALEILPNR 78 TLSE V++ + I G++ PG K++ L+ G S P+REA+ +L + L +P+ Sbjct: 16 TLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPHV 75 Query: 79 AMRVPLMTKGKFRELLKIRLALEGLAAEHAARHIDAAALEEVARL---HE-DLSVEMKRK 134 RV +T EL +IR +LEG+A AA+ + A L+E+ R+ HE D + + R Sbjct: 76 GARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEKDEAFQAGRG 135 Query: 135 KPNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDLRAGSRRLAEAPALV 194 + + H+ Q SG L ++ G Q+ + + A R + A Sbjct: 136 YYQQE----GDYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQ--AFA 189 Query: 195 HHARLLEGLREG 206 H R+L+ L +G Sbjct: 190 EHHRILDALADG 201 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 64.7 bits (156), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 48/167 (28%), Positives = 76/167 (45%), Gaps = 2/167 (1%) Query: 19 TLSERVYQDLCELIQAGQVRPGQKLTLKGLSDALGTSPMPVREAVRQLAAEGALEILPNR 78 T +E + + + ELI ++ PGQ L L++ G S P+REA+ QLA+ G +E+ P R Sbjct: 6 TRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRR 65 Query: 79 AMRVPLMTKGKFRELLKIRLALEGLAAEHAARHIDAAALEEVARLHEDLSVEMKRKKPNV 138 V + + E+ ++ E + AAR + A E+ H+ + + R + Sbjct: 66 GAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQ--ACQAARDANDP 123 Query: 139 DLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDLRAGSR 185 D LN+ H Y GS L D L ++ P L LR R Sbjct: 124 DAYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDR 170 >gi|300314040|ref|YP_003778132.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 52/199 (26%), Positives = 91/199 (45%), Gaps = 14/199 (7%) Query: 18 ATLSERVYQDLCELIQAGQVRPGQKLTLKGLSDALGTSPMPVREAVRQLAAEGALEILPN 77 A L E+VY + + I G + P +K+T +GL++ LG S P+ +A + L EG +E Sbjct: 8 AQLIEQVYHAILDAICTGALAPNEKITQEGLAEQLGVSRQPILQAFQILKREGFIEDAGR 67 Query: 78 RAMRVPLMTKGKFRELLKIRLALEGLAAEHAARHIDA-AALEEVARLHEDLSVEMKRKKP 136 + + V + + +L ++R L+GLAA A + AAL +E R Sbjct: 68 KGVMVTALDPQRLMQLYQVRAVLDGLAARSTAEQWKSDAALRAAGERAGRALIEAGRALA 127 Query: 137 NV-DLVIRL--NKQLHFAAYQGSGMPTLVDLIAGLWLQV----GPVINLDLRAGSRRLAE 189 ++ DL R+ + H Y+ G P + A W + G +++ ++R+ E Sbjct: 128 DMRDLSARILADMDFHQFIYRSCGNPMIGQTTALHWQHIRRAMGAILSSEVRSHLAVWEE 187 Query: 190 APALVHHARLLEGLREGSP 208 H +L+ + EG P Sbjct: 188 ------HEAILQAMLEGRP 200 >gi|300311761|ref|YP_003775853.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 213 Score = 55.5 bits (132), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 37/108 (34%), Positives = 60/108 (55%), Gaps = 3/108 (2%) Query: 18 ATLSERVYQDLCELIQAGQVRPGQKLTLKGLSDALGTSPMPVREAVRQLAAEGALEILPN 77 ++ +R+ + L I G++ G L ++ +S +PVREA RQL AEG + LP Sbjct: 9 SSTVDRIAEVLRLRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAEGLVLTLPR 68 Query: 78 RAMRVPLMTKGKFRELLKIRLALEGLAAEHAARHIDAAALEEVARLHE 125 R +RV ++ + +E ++R +LE LA H+AR A E +ARL + Sbjct: 69 RGVRVTMVDRATVKENAEMRGSLEILALRHSARKFGA---EHIARLEQ 113 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 0.136 0.379 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: 669,067 Number of extensions: 26846 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 8 Length of query: 234 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 152 Effective length of database: 1,231,600 Effective search space: 187203200 Effective search space used: 187203200 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: 129 (54.3 bits)