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= 0001.3213.p (314 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312554|ref|YP_003776646.1| transcription regulator protein... 609 e-175 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 137 1e-33 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 119 4e-28 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 110 1e-25 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 106 3e-24 >gi|300312554|ref|YP_003776646.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 609 bits (1570), Expect = e-175, Method: Compositional matrix adjust. Identities = 294/313 (93%), Positives = 302/313 (96%) Query: 1 MSRLPDHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR 60 MSRLPDHLD+HLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR Sbjct: 1 MSRLPDHLDLHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGAR 60 Query: 61 GMVPTQHGESLLKPAKRILDETERLFVPKTAFVPQEEERTFHLAAPDYMNTPFFTEVIAR 120 GMVPTQHGESLLKPAKRILDETERLF+PKT FVPQEEER FH+AAPDYMNTPFFTEVIAR Sbjct: 61 GMVPTQHGESLLKPAKRILDETERLFIPKTEFVPQEEERIFHIAAPDYMNTPFFTEVIAR 120 Query: 121 VRRESPRSRIVIHALGPDTDYVRRLSDGDLDLVIANWDAPPAHLHLSKLFDDPIVCLMRA 180 +RRESPRSRIVIHALGPDTDYVRRLSDG+LDLVIANWDAPPAHLHLSKLFDDPIVCLMRA Sbjct: 121 LRRESPRSRIVIHALGPDTDYVRRLSDGELDLVIANWDAPPAHLHLSKLFDDPIVCLMRA 180 Query: 181 DCAYAKRTAREAMRMEDYLDLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRML 240 DCAYA+RTAREAM +EDYL LPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRML Sbjct: 181 DCAYARRTAREAMSVEDYLSLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRML 240 Query: 241 PYMVAQTDLVLTAGQQFARFYEKLLPLKSYTVPIKFPPLRFYQLWHERVHQATEHKWLRA 300 PYMVAQTDLVLTAGQQFA FYEKLL LKSY VPIKFPPLRFYQLWHER HQATEHKWLRA Sbjct: 241 PYMVAQTDLVLTAGQQFASFYEKLLSLKSYAVPIKFPPLRFYQLWHERSHQATEHKWLRA 300 Query: 301 QVSAAAKTIAQAR 313 QV AAAK +AQ R Sbjct: 301 QVGAAAKLLAQPR 313 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 137 bits (345), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/307 (29%), Positives = 146/307 (47%), Gaps = 9/307 (2%) Query: 7 HLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPTQ 66 + D++L+ I + E++VS A KL+ QP++S +L KLR GDPL V+ RGM PT Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 67 HGESLLKPAKRILDETERLFVPKTAFVPQEEERTFHLAAPDYMNTPFFTEVIARVRRESP 126 SL+ P + IL + F P + F LA D ++ R+R E+P Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 127 RSRIVIHALGPDTDYVRRLSDGDLDLVIANW-DAPPAHLHLSKLFDDPIVCLMRADCAY- 184 + +V + P + V L G++DL I + D + +LF VCL+RA Sbjct: 123 HASVVTVTMAP-AELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLP 181 Query: 185 AKRTAREAMRMEDYLDLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRMLPYMV 244 A++ + E + ++ + Q + + FL ++ +RR VV+ +AHF +P +V Sbjct: 182 AQKISLEHYQAAGHIVVKAEGRDQPM------CERFLLRRKIRRRVVLSTAHFMAIPLLV 235 Query: 245 AQTDLVLTAGQQFARFYEKLLPLKSYTVPIKFPPLRFYQLWHERVHQATEHKWLRAQVSA 304 A +DLV T + F F + ++ + P L Q WH + H+ + WLR +A Sbjct: 236 ATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGLAAA 295 Query: 305 AAKTIAQ 311 AQ Sbjct: 296 LFPAGAQ 302 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 119 bits (297), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 87/300 (29%), Positives = 135/300 (45%), Gaps = 5/300 (1%) Query: 5 PDHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVP 64 P +D++L+ + + E+ +S VA +L QP++S +L +LR D L VR A+GM P Sbjct: 6 PRDIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQP 65 Query: 65 TQHGESLLKPAKRILDETERLFVPKTAFVPQEEERTFHLAAPDYMNTPFFTEVIARVRRE 124 T E L +P L + R + F PQ R F +A D F +I R Sbjct: 66 TPFAEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARC 125 Query: 125 SPRSRIVIHALGPDTDYVRRLSDGDLDLVIANWDAPPAHLHLSKLFDDPIVCLMRADCAY 184 +P I G D + G +DL I +D L+ +LF V + R A Sbjct: 126 APGVSISTVRAGA-IDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHAL 184 Query: 185 AKRTAREAMRMEDYLDLPH-AAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRMLPYM 243 K R + ++++L H SQ P + I+ LEK + +V HF +PY+ Sbjct: 185 DK-PGRGEVSLKEFLAAEHLMVSSQESP--YDRINQNLEKAGILPSVRFRVPHFTAVPYI 241 Query: 244 VAQTDLVLTAGQQFARFYEKLLPLKSYTVPIKFPPLRFYQLWHERVHQATEHKWLRAQVS 303 V+ T LV+T ++ A L+ P++ P L+ WH R +Q + WLR +S Sbjct: 242 VSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFIS 301 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 110 bits (276), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 77/297 (25%), Positives = 135/297 (45%), Gaps = 9/297 (3%) Query: 6 DHLDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPT 65 +++D++L+R+ + E++++ +L+ QP++S +L +LR++ DPL +R GM PT Sbjct: 5 NNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQPT 64 Query: 66 QHGESLLKPAKRILDETERLFVPKTAFVPQEEERTFHLAAPDYMNTPFFTEVIARVRRES 125 L KP R L + F P + R F + D F ++ + ++ Sbjct: 65 PAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQA 124 Query: 126 PRSRIVIHALGPDTDYVRRLSDGDLDLVIANWDA-PPAHLHLSKLFDDPIVCLMRADCAY 184 P R+ + + P L G LD N A P H LF + VCLMR Sbjct: 125 PDVRLQVEQV-PPAHLEEALRTGQLDFAFGNLPALKPVTCH-ELLFRETYVCLMRQRDGL 182 Query: 185 AKRTAREAMRMEDYLDLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRMLPYMV 244 +R E ++++L + H +H +SF +K ++R + + HF +LP ++ Sbjct: 183 PQRAQLE---LDEFLAMSHVLVESAESSHHQVENSF-QKLGVQRRISLSIPHFTVLPRIL 238 Query: 245 AQTDLVLTAGQQFARFYEKLLP--LKSYTVPIKFPPLRFYQLWHERVHQATEHKWLR 299 ++DLV T + AR + P SY +P+ P + WH+ + WLR Sbjct: 239 GKSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLR 295 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 106 bits (264), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 139/309 (44%), Gaps = 20/309 (6%) Query: 8 LDIHLIRILYLLLCEKNVSRVALKLNQPQPSISASLRKLRELTGDPLLVRGARGMVPTQH 67 LD++L+R+ ++ E+N++R A L QP++S +LR+LR+ D L++R A G+ PT Sbjct: 6 LDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGVKPTPR 65 Query: 68 GESLLKPAKRILDETERLFVPKTAFVPQEEERTFHLAAPDYMNTPFFTEVIARVRRESPR 127 E L +R L E E + P++ F + TF +A D + ++ + R++PR Sbjct: 66 AEELWPTVRRALSELEAVIAPES-FDISRAQNTFRMAMVDATAALWLPSLVRTIMRDAPR 124 Query: 128 SRIVIHALGPDTDYVRRLSDGDLDLVIANWDAPPAHL-----------HLSKLFDDPIVC 176 +I + L D L GD+DL + + A L ++L+ VC Sbjct: 125 IKIRMMPL-TTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQYVC 183 Query: 177 LMRADCAYAKRTAREAMRMEDYLDLPHAAPSQILPGY-HGSIDSFLEKQNLRRNVVVESA 235 +M A + + ++ Y + H S L G H ID L N R +++ Sbjct: 184 VMHKSHPLAG----QPLTLDSYCNADHLLVS--LSGKPHAVIDDVLAGMNRERKILLTVN 237 Query: 236 HFRMLPYMVAQTDLVLTAGQQFARFYEKLLPLKSYTVPIKFPPLRFYQLWHERVHQATEH 295 F +VA ++L+ + L +P + P LWHER + H Sbjct: 238 QFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAH 297 Query: 296 KWLRAQVSA 304 KWLRA +SA Sbjct: 298 KWLRAHLSA 306 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 0.324 0.137 0.412 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: 980,816 Number of extensions: 39957 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 11 Length of query: 314 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 229 Effective length of database: 1,217,395 Effective search space: 278783455 Effective search space used: 278783455 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)