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= 0029.0080.p (221 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310869|ref|YP_003774961.1| response regulator for colanic ... 456 e-130 gi|300312431|ref|YP_003776523.1| two component LuxR family trans... 87 8e-19 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 75 4e-15 gi|300312077|ref|YP_003776169.1| response regulator containing a... 68 7e-13 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 66 2e-12 >gi|300310869|ref|YP_003774961.1| response regulator for colanic capsule biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 221 Score = 456 bits (1173), Expect = e-130, Method: Compositional matrix adjust. Identities = 221/221 (100%), Positives = 221/221 (100%) Query: 1 MNLKKVLHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDF 60 MNLKKVLHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDF Sbjct: 1 MNLKKVLHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDF 60 Query: 61 AMPNEESDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDE 120 AMPNEESDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDE Sbjct: 61 AMPNEESDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDE 120 Query: 121 LINACLATQSSKQLYFPVSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEI 180 LINACLATQSSKQLYFPVSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEI Sbjct: 121 LINACLATQSSKQLYFPVSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEI 180 Query: 181 CVRLSRTPSTISTHKNNAMRKLGLSSDAELIKYAFSTGMIN 221 CVRLSRTPSTISTHKNNAMRKLGLSSDAELIKYAFSTGMIN Sbjct: 181 CVRLSRTPSTISTHKNNAMRKLGLSSDAELIKYAFSTGMIN 221 >gi|300312431|ref|YP_003776523.1| two component LuxR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 282 Score = 87.4 bits (215), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 113/239 (47%), Gaps = 30/239 (12%) Query: 3 LKKVLHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDFAM 62 L + +A+ DDH +V L LA P++ + T ++L+ AL+ +P ++++ D+++ Sbjct: 43 LASRMRIALLDDHAVVRYGLAARLAEEPDLEVVGSFATSKELMTALRASPADLLLIDYSL 102 Query: 63 PNEESDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDELI 122 S++ DG L++ ++ P +K++V +A NN A + + G + K ++ EL+ Sbjct: 103 ---GSNDIDGLNLIRALRVRFPRSKILVTSAHNNPATVALAMKAGARGFVGKSQELGELV 159 Query: 123 NACLATQSSKQLYFPVSLRGELEM--------------------------SWAQGDGFAA 156 A + T S + Y ++ EL S D + Sbjct: 160 QA-IRTVSVGREYLNAAMARELTAMLASDSPTPAPEGGPPQVRPPRRKRNSPPSSDSLSE 218 Query: 157 TRELTQSELEVVRLFVEGQSLGEICVRLSRTPSTISTHKNNAMRKLGLSSDAELIKYAF 215 L+ E EV+R ++G S+ I + +R+ TIS K +A RKLG+ SD EL K + Sbjct: 219 MPSLSPREREVLRCCLDGLSVTAIADKFARSVKTISGQKQSAFRKLGVRSDNELFKIEY 277 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 75.1 bits (183), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 51/214 (23%), Positives = 103/214 (48%), Gaps = 9/214 (4%) Query: 9 VAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDFAMPNEESD 68 + + DDH +V + + ++ +P + I E T E+ I ++ +IV+ D AMP++ Sbjct: 4 ILVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDK--- 60 Query: 69 ESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDELINAC-LA 127 G ++K+IK E P +++ + ++ R G + K EL+NA Sbjct: 61 --SGVEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTI 118 Query: 128 TQSSKQLYFPVSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEICVRLSRT 187 + K + + V+ EL S L+Q E E+ +GQ + +I L + Sbjct: 119 LRGHKYISYGVA---ELLTSEPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLS 175 Query: 188 PSTISTHKNNAMRKLGLSSDAELIKYAFSTGMIN 221 T+ST+++ ++K+ ++++A++I YA +I+ Sbjct: 176 VKTVSTYRSRVLQKMSMTNNADIIYYAIKNNLID 209 >gi|300312077|ref|YP_003776169.1| response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 67.8 bits (164), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 49/214 (22%), Positives = 94/214 (43%), Gaps = 6/214 (2%) Query: 7 LHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDFAMPNEE 66 + V IADDH IV LR A +I + G + I + ++++ D +P+ Sbjct: 9 IKVLIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVLPDR- 67 Query: 67 SDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDELINACL 126 +G ++K+I+ E P +++ + R + G +NK+ P EL+ A Sbjct: 68 ----NGIDILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAELLAAIR 123 Query: 127 ATQSSKQLYFPVSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEICVRLSR 186 S ++ P SL EL L+ E + + + G+++ +I L+ Sbjct: 124 QAASGRKYVSP-SLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDIAAELTL 182 Query: 187 TPSTISTHKNNAMRKLGLSSDAELIKYAFSTGMI 220 + TIS +++ + K+ + +AEL YA ++ Sbjct: 183 SVKTISMYRSRVLSKMKMRHNAELTHYALKNALV 216 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 66.2 bits (160), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 48/213 (22%), Positives = 96/213 (45%), Gaps = 8/213 (3%) Query: 9 VAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDFAMPNEESD 68 + +ADDH +V ++ L +P + + E G ++I + + ++V+ D AM Sbjct: 5 IMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKG---- 60 Query: 69 ESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINKREKPDELINACLAT 128 +G ++R++ E+P+ + ++ + + + + G + K EL A Sbjct: 61 -MNGLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEV 119 Query: 129 QSSKQLYFPVSLRGELE--MSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEICVRLSR 186 + +Q R L+ M +G LT + E+++L EG + EI +L+ Sbjct: 120 KHGRQYLDSHISREALDNYMKRVAQNG-TPVEVLTPRQREILQLIAEGNNTKEIAYQLNV 178 Query: 187 TPSTISTHKNNAMRKLGLSSDAELIKYAFSTGM 219 + TI TH+ M +L + L++YA TG+ Sbjct: 179 SAKTIETHRAQLMERLDIRDVPGLVRYAIRTGI 211 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 0.318 0.134 0.374 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: 632,616 Number of extensions: 23768 Number of successful extensions: 100 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 93 Number of HSP's successfully gapped: 7 Length of query: 221 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 139 Effective length of database: 1,231,600 Effective search space: 171192400 Effective search space used: 171192400 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 (21.7 bits) S2: 129 (54.3 bits)