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= 0004.0092.p (338 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 474 e-135 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 96 5e-21 gi|300312244|ref|YP_003776336.1| LysR family transcription regul... 96 5e-21 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 94 1e-20 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 92 5e-20 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 474 bits (1221), Expect = e-135, Method: Compositional matrix adjust. Identities = 228/232 (98%), Positives = 230/232 (99%) Query: 1 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 60 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA Sbjct: 1 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 60 Query: 61 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 120 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH Sbjct: 61 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 120 Query: 121 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASHDYLARHAPIHT 180 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYAS DYLA+H PIHT Sbjct: 121 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT 180 Query: 181 MDDLAQHNFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGR 232 MDDLAQH+FIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGR Sbjct: 181 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGR 232 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 95.5 bits (236), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 111/235 (47%), Gaps = 17/235 (7%) Query: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 DW++LR F + AA+ LG+ H+T+ RR+++ E+ + + LF R +LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 ++ A ++ L G + ++ G++RL T+ GT LAP + + P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASHDYLA--RH----A 176 +++ + ++L++ EAD+++ RP G + +L L + D +A RH A Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRGSA 183 Query: 177 PIHTMDDLAQHNFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAG 231 P+ IGY D + E R+ A RS S+VAQ AA AG Sbjct: 184 PV-----------IGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAG 227 >gi|300312244|ref|YP_003776336.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 95.5 bits (236), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 57/191 (29%), Positives = 96/191 (50%) Query: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 L + LR F+ + + L AA+ L S VSR + R E+++G+ L R +LT + Sbjct: 3 LQSEELRTFVAVVEAGTLSAAAELLAQTTSGVSRALSRLEDKLGASLLTRTTRRMELTEE 62 Query: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 G +E A + + + +A + + K G++R+ A+ F + PH+ F A P I Sbjct: 63 GRAFLEQARAILAAMESAQDSIRLRTRKPVGKLRVDASAPFMLHCVVPHVGQFRAAYPDI 122 Query: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASHDYLARHAPIHTM 181 +++ RF++L +H ADI++ I + LS L + AS YLARH ++ Sbjct: 123 ELELTTNDRFIDLVEHRADIAIRIGELQDSSLHARALSSARLNVVASPAYLARHGEPESV 182 Query: 182 DDLAQHNFIGY 192 + L QH IG+ Sbjct: 183 EALEQHQLIGF 193 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 56/173 (32%), Positives = 95/173 (54%), Gaps = 1/173 (0%) Query: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 L WD++R FL L+R L +A+ L ++HSTV+R + E+ + +LFDR G+ LT + Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 G L + AEQ+E +++ N+ LSG+VR+ A + L P + F + P I Sbjct: 83 GAELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAFQEKYPDI 141 Query: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASHDYLAR 174 ++++ R V+L++ EADI++ + P+S V L + +Y +L R Sbjct: 142 ELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER 194 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 107/229 (46%) Query: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 +W+ R FL++ + L A +++G+ TV R ++ E +G +LF R+ G+ T Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 L YA + + A ++ G VRL A+E VL P +A R+P + Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASHDYLARHAPIHTMD 182 V+++ + +L + EADI+V + RP V +L L L+A YL H ++D Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 183 DLAQHNFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAG 231 LA H IG+ + + + + A A R+ S +AQ A AG Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAG 235 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 0.321 0.137 0.411 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: 1,043,578 Number of extensions: 43316 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 231 Number of HSP's successfully gapped: 40 Length of query: 338 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 252 Effective length of database: 1,212,660 Effective search space: 305590320 Effective search space used: 305590320 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: 131 (55.1 bits)