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= 0001.1293.p (272 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 122 3e-29 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 100 2e-22 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 98 6e-22 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 94 1e-20 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 92 5e-20 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 122 bits (306), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 134/250 (53%), Gaps = 3/250 (1%) Query: 8 DKYSVPGLERGLRLLCEFSRQDKTLSAPELARRLDIPRSTVFRLLATLERMGFVERADGG 67 D + L RGL ++ FS ++L+ +++++ IPR+ V R L TL+++G+ + Sbjct: 12 DPSFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYAD--SDV 69 Query: 68 RDYRLGMSVLRLGFEYLASLELTEIGRPLLDRLRDEIGYSCNLVVRDGRSIVYVAKSVTQ 127 ++ L +L LG+ YL+S LT +P L+ + +G SC+L V D ++YVA+S Sbjct: 70 NNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAAS 129 Query: 128 TAFTSHVNVGTRLPAHATVLGRVLLEDLSLPQLRALYPEQHLEVFSSNTPKTVVELFDMV 187 + +N G+RLPA+ T LGR +L L QL+A + + L + T + L D++ Sbjct: 130 RVMSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDIL 189 Query: 188 QADKERGFVLQEGFFETSISTVAAPVRDHSGLVVAALGATIPSPHIDASQL-DVIVARVR 246 + G+ + + E + ++A PVR SG V+AAL + + +Q+ + I+ + Sbjct: 190 AGVRANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLL 249 Query: 247 ETAAELSRLL 256 A ELS LL Sbjct: 250 RGAQELSVLL 259 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 99.8 bits (247), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 117/230 (50%), Gaps = 2/230 (0%) Query: 2 PEEESQDKYSVPGLERGLRLLCEFSRQDKTLSAPELARRLDIPRSTVFRLLATLERMGFV 61 P++ + D LE+GL +L F+ Q +T++ ++A I +S+ R++ TLE +G++ Sbjct: 4 PDDTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYI 63 Query: 62 ERADGGRDYRLGMSVLRLGFEYLASLELTEIGRPLLDRLRDEIGYSCNLVVRDGRSIVYV 121 + R Y+L V+ +G+ YLA+ L ++ P L L + G + NL +VYV Sbjct: 64 CKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYV 123 Query: 122 AKSVTQTAFTSHVNVGTRLPAHATVLGRVLLEDLSLPQLRALYPEQHLEVFSSNTPKTVV 181 A+ V H+ +G+R+P + T GR L L + +A+ V + +T V Sbjct: 124 ARFVASKFIPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVE 183 Query: 182 ELFDMVQADKERGFVLQ-EGFFETSISTVAAPVRDHSGLVVAALGATIPS 230 ++ ++ A +ERGF E F +S +A+PV + VA++ P+ Sbjct: 184 DIMQLLAASRERGFASNREELFLGDMS-IASPVFNSERKPVASVHVVAPT 232 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 98.2 bits (243), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 75/234 (32%), Positives = 121/234 (51%), Gaps = 5/234 (2%) Query: 12 VPGLERGLRLLCEFSRQDKTLSAPELARRLDIPRSTVFRLLATLERMGFVERADGGRDYR 71 V GLE+GL+++ F ++ L+ E+A+ + R+ R L TL +G++ R D + + Sbjct: 23 VAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYM-RHDN-KTFS 80 Query: 72 LGMSVLRLGFEYLASLELTEIGRPLLDRLRDEIGYSCNLVVRDGRSIVYVAKSVTQTAFT 131 L VLRLG YL S L I +PLL RL +G + + V D +V VA + Sbjct: 81 LTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVS 140 Query: 132 SHVNVGTRLPAHATVLGRVLLEDLSLPQLRALYPEQHLEVFSSNTPKTVVELFDMVQADK 191 + + GTR+PA+ T GR+LL +L QL A+ E +++T V L + + Sbjct: 141 TTLQPGTRVPAYCTANGRILLANLPPAQLDAILARAQPEAITAHTITDVERLGLEIARAR 200 Query: 192 ERGFVLQEGFFETSISTVAAPVRDHSGLVVAALGATIPSPHIDASQLDVIVARV 245 +G+ L + E + T+A PVR+ G VVAA+ ++ H +L+ +V R Sbjct: 201 VQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISV---HAGRMKLEDMVERC 251 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 56/218 (25%), Positives = 111/218 (50%), Gaps = 2/218 (0%) Query: 12 VPGLERGLRLLCEFSRQDKTLSAPELARRLDIPRSTVFRLLATLERMGFVERADGGRDYR 71 + GLE+GL +L F ++ +++ ++A R + R+ R L TLE +G++ G+ + Sbjct: 30 IAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYLHSE--GKTFA 87 Query: 72 LGMSVLRLGFEYLASLELTEIGRPLLDRLRDEIGYSCNLVVRDGRSIVYVAKSVTQTAFT 131 L VL++G+ Y S L I +P L ++ + G + V DG +V++A++ T Sbjct: 88 LTPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATRVMT 147 Query: 132 SHVNVGTRLPAHATVLGRVLLEDLSLPQLRALYPEQHLEVFSSNTPKTVVELFDMVQADK 191 + +G R+PA G V+L L Q+R + F+ +T +L+ ++ + Sbjct: 148 TGFVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYALIAQAR 207 Query: 192 ERGFVLQEGFFETSISTVAAPVRDHSGLVVAALGATIP 229 + G+ + E +T + +A P+++ V+ AL ++P Sbjct: 208 QLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLP 245 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 91.7 bits (226), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 70/227 (30%), Positives = 104/227 (45%), Gaps = 14/227 (6%) Query: 7 QDKYSVPGLERGLRLLCEFSRQDKTLSAPELARRLDIPRSTVFRLLATLERMGFVERADG 66 Q + + GL +G ++ F LSA E+A R+ + RS R L TL G A Sbjct: 12 QKRDLIEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLVHTGMA--ASD 69 Query: 67 GRDYRLGMSVLRLGFEYLASLELTEIGRPLLDRLRDEIGYSCNLVVRDGRSIVYVAKSVT 126 G+ + L +L LG YL S + P L RL ++ S N + DG IVYV + Sbjct: 70 GKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTA 129 Query: 127 QTAFTSHVNVGTRLPAHATVLGRVLLEDLSLPQLRA------LYPEQHLEVFSSNTPKTV 180 + GTRLPA+ T GRVLL +++A L P H+ + T K Sbjct: 130 AQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAM----TDKAA 185 Query: 181 VELFDMVQADKERGFVLQEGFFETSISTVAAPVRDHSGLVVAALGAT 227 LF + + +G+ + E FE + +A V++ +G V+ AL T Sbjct: 186 --LFQEILTMRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVT 230 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 0.320 0.137 0.386 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: 823,696 Number of extensions: 33425 Number of successful extensions: 148 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 142 Number of HSP's successfully gapped: 8 Length of query: 272 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 188 Effective length of database: 1,222,130 Effective search space: 229760440 Effective search space used: 229760440 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: 130 (54.7 bits)