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= 0002.0011.p (278 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312368|ref|YP_003776460.1| GntR family transcription regul... 545 e-156 gi|300313520|ref|YP_003777612.1| transcription regulator protein... 182 2e-47 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 130 9e-32 gi|300313885|ref|YP_003777977.1| GntR family transcription regul... 111 6e-26 gi|300311570|ref|YP_003775662.1| GntR family transcription regul... 89 5e-19 >gi|300312368|ref|YP_003776460.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 278 Score = 545 bits (1404), Expect = e-156, Method: Compositional matrix adjust. Identities = 278/278 (100%), Positives = 278/278 (100%) Query: 1 MRAMKTSPSSSAAAQAVPPAPGSARGKVTLADHVTSVLARQIRAGEFAPETRLPSEMELT 60 MRAMKTSPSSSAAAQAVPPAPGSARGKVTLADHVTSVLARQIRAGEFAPETRLPSEMELT Sbjct: 1 MRAMKTSPSSSAAAQAVPPAPGSARGKVTLADHVTSVLARQIRAGEFAPETRLPSEMELT 60 Query: 61 ERFSVSRTVIREAISRLKSEGLVGSRRGSGTVVLPANPATPFRLDLDVDDGRDSIQAVLR 120 ERFSVSRTVIREAISRLKSEGLVGSRRGSGTVVLPANPATPFRLDLDVDDGRDSIQAVLR Sbjct: 61 ERFSVSRTVIREAISRLKSEGLVGSRRGSGTVVLPANPATPFRLDLDVDDGRDSIQAVLR 120 Query: 121 VIELRRGVEGEMAALAAQRRTSAQNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNAS 180 VIELRRGVEGEMAALAAQRRTSAQNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNAS Sbjct: 121 VIELRRGVEGEMAALAAQRRTSAQNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNAS 180 Query: 181 HNPLYTSLVQFLSQFLHAAIRVARMNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAA 240 HNPLYTSLVQFLSQFLHAAIRVARMNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAA Sbjct: 181 HNPLYTSLVQFLSQFLHAAIRVARMNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAA 240 Query: 241 LRHMENSAQRLQAADRAFWASAEGQAAARDLARVRDAG 278 LRHMENSAQRLQAADRAFWASAEGQAAARDLARVRDAG Sbjct: 241 LRHMENSAQRLQAADRAFWASAEGQAAARDLARVRDAG 278 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 182 bits (463), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 108/222 (48%), Positives = 141/222 (63%), Gaps = 3/222 (1%) Query: 30 LADHVTSVLARQIRAGEFAPETRLPSEMELTERFSVSRTVIREAISRLKSEGLVGSRRGS 89 L+D V L I AG F ++LP+E L ++F VSRTV+REAI+RLK EG+V R+GS Sbjct: 10 LSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHEGVVEPRQGS 69 Query: 90 GTVVLPANPATPFRLDLDVDDGRDSIQAVLRVIELRRGVEGEMAALAAQRRTSAQNLAIQ 149 G V P R+D S +AVL+++ELRR +E E+AA AA+RR++ AI+ Sbjct: 70 GVFVTEQAGIKPLRIDYT---EVSSPEAVLQIVELRRAIEAEVAAQAAKRRSAEDLQAIE 126 Query: 150 QALQAIDEAAAAGRDGVPEDFAFHAAISNASHNPLYTSLVQFLSQFLHAAIRVARMNEAR 209 AL I AAG DGV D AFH A++ A+ NP + ++FLSQ+L AA V R NEAR Sbjct: 127 AALAQIGVDVAAGGDGVAADVAFHRALAQATRNPYFIKTLEFLSQYLEAATAVTRGNEAR 186 Query: 210 SNEFVQQVRAEHAALAEAISAGDAEAARAAALRHMENSAQRL 251 +F +QVR EH A+ EAI AGD AAR AA HM N+A+RL Sbjct: 187 YEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNAARRL 228 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 130 bits (328), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 88/229 (38%), Positives = 124/229 (54%), Gaps = 7/229 (3%) Query: 29 TLADHVTSVLARQIRAGEFAPETRLPSEMELTERFSVSRTVIREAISRLKSEGLVGSRRG 88 +L+ V + L I G P +LP+E E+ + VSRTV+REAISRL++ GLV +R G Sbjct: 19 SLSQEVVAALTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISRLQAAGLVETRHG 78 Query: 89 SGTVVLPANPATPFRLD-LDVDDGRDSIQAVLRVIELRRGVEGEMAALAAQRRTSAQNLA 147 GT VL A +D + RD +L ++ELR +E E A LAA RRT Q Sbjct: 79 IGTFVLEAKKGGNINIDPATITTMRD----LLALLELRISLETETAGLAAARRTEEQLQE 134 Query: 148 IQQALQAIDEAAAAGRDGVPEDFAFHAAISNASHNPLYTSLVQFLSQFL--HAAIRVARM 205 I++AL G D V DF FH AI+NA+ N + ++ L + I A + Sbjct: 135 IREALDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIISHLGMGVIPRKRINTAEL 194 Query: 206 NEARSNEFVQQVRAEHAALAEAISAGDAEAARAAALRHMENSAQRLQAA 254 + ++ +V+ EH + EAI+ GDAEAARAA H+ NS +RL+ A Sbjct: 195 AHDQQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRERLRRA 243 >gi|300313885|ref|YP_003777977.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 111 bits (278), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 80/240 (33%), Positives = 126/240 (52%), Gaps = 11/240 (4%) Query: 16 AVPPAPGSARG-KVTLADHVTSVLARQIRAGEFAPETRLPSEMELTERFSVSRTVIREAI 74 ++PP+ ++R +++ ++H+ + I GE +LP+E+EL +R+ SRT +REA+ Sbjct: 4 SLPPSLAASRTHRLSRSEHICRQIIAAILRGELGENRKLPTEVELAQRYEASRTTVREAL 63 Query: 75 SRLKSEGLVGSRRGSGTVV--LPANPATPFRLDLDVDDGRDSIQAVLRVIELRRGVEGEM 132 SRL+SEG+V SRRGSG V LP L SI V R R VE Sbjct: 64 SRLRSEGIVVSRRGSGNYVQRLPT-------LSSQGSPQIASIHDVERYYAFRECVEVGA 116 Query: 133 AALAAQRRTSAQNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNASHNPLYTSLVQFL 192 A +AA R A++ ALQA+ A G+ GV ED A H AI+ A+ NP + S ++ Sbjct: 117 AGIAATARQDEDVQAMRIALQALQRAQLEGQTGVDEDLALHMAIARATRNPFFISTIEHA 176 Query: 193 SQFLHAAIRVAR-MNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAALRHMENSAQRL 251 + + +A+ + + E +Q + EH A+ +AI+ G A AA H+ ++ R+ Sbjct: 177 LGPIRQCMELAQNLGSPQDGERIQTIDDEHQAIIQAIAEGSPARAEAAMRAHIGHARLRI 236 >gi|300311570|ref|YP_003775662.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 88.6 bits (218), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 107/229 (46%), Gaps = 16/229 (6%) Query: 30 LADHVTSVLARQIRAGEFAPETRLPSEMELTERFSVSRTVIREAISRLKSEGLVGSRRGS 89 A+ V L I G ++LPSE +L F VSR V+R+A+ RL+ + LV S RGS Sbjct: 32 FAERVYETLFHAIVEGRITVGSKLPSENDLATLFEVSRPVVRQALDRLREDQLVESLRGS 91 Query: 90 GTVVL------PANPATPFRLDLDVDDGRDSIQAVLRVIELRRGVEGEMAALAAQRRTSA 143 GT V PA P + I ++ +ELR +E E AA+AA RR Sbjct: 92 GTYVKEKPGLAPAQPGA---------EPETRIGHIMNGLELRLVIEPECAAMAALRRNRQ 142 Query: 144 QNLAIQQALQAIDEAAAAGRDGVPEDFAFHAAISNASHNPLYTSLVQFLSQFLHAAIRVA 203 +++ L+ + A G DF FH AI+ A+ N + +++ L + A+ + Sbjct: 143 DLDRMERLLEGFEAANRVGGIAHHYDFGFHEAIATATGNLRFVQVMKTLEYDVSHAVNML 202 Query: 204 R-MNEARSNEFVQQVRAEHAALAEAISAGDAEAARAAALRHMENSAQRL 251 R + + Q EH + E I DAE AR A H+EN+ R+ Sbjct: 203 RHLMHIAPWKRSQDAMDEHRQIFELIRVQDAEGARRAMRGHIENARTRM 251 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 0.316 0.126 0.339 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: 590,342 Number of extensions: 19956 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 14 Length of query: 278 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 194 Effective length of database: 1,222,130 Effective search space: 237093220 Effective search space used: 237093220 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)