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= 0020.0517.p (297 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310378|ref|YP_003774470.1| transcription regulator protein... 575 e-165 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 71 9e-14 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 68 9e-13 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 60 2e-10 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 60 2e-10 >gi|300310378|ref|YP_003774470.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 282 Score = 575 bits (1483), Expect = e-165, Method: Compositional matrix adjust. Identities = 282/282 (100%), Positives = 282/282 (100%) Query: 16 MPRTRKINPDDAATVQTAAAEDDSSSGKTRYAAPALDKGLDILELLSRSEQMLTLNQISR 75 MPRTRKINPDDAATVQTAAAEDDSSSGKTRYAAPALDKGLDILELLSRSEQMLTLNQISR Sbjct: 1 MPRTRKINPDDAATVQTAAAEDDSSSGKTRYAAPALDKGLDILELLSRSEQMLTLNQISR 60 Query: 76 QLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMRELA 135 QLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMRELA Sbjct: 61 QLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMRELA 120 Query: 136 SRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAERA 195 SRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAERA Sbjct: 121 SRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAERA 180 Query: 196 AMLAAHVRMDGEQEIETAQLMRQIEDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLAA 255 AMLAAHVRMDGEQEIETAQLMRQIEDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLAA Sbjct: 181 AMLAAHVRMDGEQEIETAQLMRQIEDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLAA 240 Query: 256 LNVPYIERIDKKVNPSLDEVQGIVQEISARLSRLMGDSSFGS 297 LNVPYIERIDKKVNPSLDEVQGIVQEISARLSRLMGDSSFGS Sbjct: 241 LNVPYIERIDKKVNPSLDEVQGIVQEISARLSRLMGDSSFGS 282 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 71.2 bits (173), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 115/237 (48%), Gaps = 22/237 (9%) Query: 50 ALDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGYLI--ADNDHYRLS 107 +L+KGL +L + + +TL ++ G S + RMV TLE GY+ Y+L+ Sbjct: 16 SLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLT 75 Query: 108 LKLFELAHHHQPIRSLVSTALPHMRELASRAVQSTHLTVYEAGRVIVVAQVDSPERWAFG 167 K+ E+ +++ LV A P + ELA+ ++ +LT G ++ VA+ + + Sbjct: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPIH 135 Query: 168 LKVGALVSLTDTASGHVLLAFRDEAERAAMLAA--------HVRMDGEQEIETAQLMRQI 219 + +G+ + + TASG L+ + E A+L + H R D E +M+ + Sbjct: 136 MPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVE------DIMQLL 189 Query: 220 EDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLAALNV--PY----IERIDKKVNP 270 +R+RG + G ++++ PV + + +A+++V P +E +KK+ P Sbjct: 190 AASRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKKLGP 246 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 67.8 bits (164), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 105/211 (49%), Gaps = 2/211 (0%) Query: 50 ALDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLK 109 +L +GL ++ S S + LT+ QIS++ G + R + TL+Q GY +D +++ L K Sbjct: 18 SLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADSDVNNFSLRPK 77 Query: 110 LFELAHHHQPIRSLVSTALPHMRELASRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLK 169 + L + + L +A P++ ++ +S L V + V+ VA+ + + L Sbjct: 78 ILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVALN 137 Query: 170 VGALVSLTDTASGHVLLAFRDEAERAAML-AAHVRMDGEQEIETAQLMRQI-EDTRKRGH 227 G+ + T+ G +LA E + A +R E+ + + + +R I R G+ Sbjct: 138 TGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRANGY 197 Query: 228 SRMESRQIRGVVNLSYPVMGANNRMLAALNV 258 + ++ G+ +++ PV GA+ +LAALNV Sbjct: 198 AVIDEELEVGLRSIAVPVRGASGNVLAALNV 228 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 53/241 (21%), Positives = 107/241 (44%), Gaps = 19/241 (7%) Query: 22 INPDDAATVQTAAAEDDSSSGKTRYAAPALDKGLDILELLSRSEQMLTLNQISRQLGRSV 81 + PDDAA + AA K + +L+L++ + L + Q++ G Sbjct: 6 LPPDDAARIAGTAA---------------FSKFMVVLQLIADQDAPLNIAQLAALSGYPR 50 Query: 82 NEIFRMVVTLEQRGYLIAD--NDHYRLSLKLFELAHHHQPIRSLVSTALPHMRELASRAV 139 ++R++ L G ++ + N Y + +L LA + +TA+ +R+L Sbjct: 51 PTVYRILAALMAEGMVVENPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTR 110 Query: 140 QSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAERAAML- 198 ++ HL V ++ + +++SP+ ++G V+L ++ G LA +EA R ++ Sbjct: 111 ETVHLAVPSDHSMVYIEKLESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMR 170 Query: 199 AAHVR-MDGEQEIETAQLMRQIEDTRKRGHSRMESRQIRGVVNLSYPVMGANNRMLAALN 257 H++ E A L +EDTR RG++ + ++GA+ +A ++ Sbjct: 171 TLHLQAFTANTHTELAALRADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVS 230 Query: 258 V 258 V Sbjct: 231 V 231 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 60.1 bits (144), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/216 (21%), Positives = 99/216 (45%), Gaps = 12/216 (5%) Query: 50 ALDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLK 109 L KG D++ L+ ++++ ++G + + R ++TL G +D + L + Sbjct: 19 GLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLVHTGMAASDGKKFWLMPR 78 Query: 110 LFELAHHHQPIRSLVSTALPHMRELASRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLK 169 L L + + +P ++ L + +ST+ ++ + ++ V +V + + G + Sbjct: 79 LLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTAAQLVNAGFE 138 Query: 170 VGALVSLTDTASGHVLLAFRDEAERAAMLA-------AHVRMDGEQEIETAQLMRQIEDT 222 G + T +G VLL R++AE A L H+ M + A L ++I Sbjct: 139 PGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAM-----TDKAALFQEILTM 193 Query: 223 RKRGHSRMESRQIRGVVNLSYPVMGANNRMLAALNV 258 R++G+ E++ G+ ++ V N R++ AL+V Sbjct: 194 RRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSV 229 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 0.317 0.130 0.353 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: 807,648 Number of extensions: 29704 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 122 Number of HSP's successfully gapped: 8 Length of query: 297 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 212 Effective length of database: 1,217,395 Effective search space: 258087740 Effective search space used: 258087740 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)