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= 0001.3867.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313272|ref|YP_003777364.1| transcription regulator protein... 498 e-142 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 201 8e-53 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 200 1e-52 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 192 3e-50 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 129 2e-31 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 498 bits (1282), Expect = e-142, Method: Compositional matrix adjust. Identities = 251/270 (92%), Positives = 257/270 (95%), Gaps = 4/270 (1%) Query: 1 MRQERIEAEAETEAVQIDDGPLKRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTR 60 M++ERI+ E D+GPLKRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTR Sbjct: 1 MQEERIDEEPG----DADEGPLKRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTR 56 Query: 61 AAARRYLITLTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEA 120 AAARRYLITLTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEA Sbjct: 57 AAARRYLITLTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEA 116 Query: 121 ASCGVLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLAPAELDTLLARA 180 ASCGVLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANL PA+LD +LARA Sbjct: 117 ASCGVLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLPPAQLDAILARA 176 Query: 181 QPEAITAHTITDVERLALEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNIS 240 QPEAITAHTITDVERL LEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNIS Sbjct: 177 QPEAITAHTITDVERLGLEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNIS 236 Query: 241 VHAARMKLEDMVERCLPAMLKIQVELGALL 270 VHA RMKLEDMVERCLPAMLKIQVELGALL Sbjct: 237 VHAGRMKLEDMVERCLPAMLKIQVELGALL 266 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 201 bits (510), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 108/248 (43%), Positives = 149/248 (60%), Gaps = 5/248 (2%) Query: 17 IDDGPL-----KRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLT 71 ID P+ KRDL+ GL KG VI AFD + +L+ +EVA+ GLTR+AARRYL+TL Sbjct: 2 IDQSPVDLDIQKRDLIEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLV 61 Query: 72 HLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQL 131 H G D K F L P +L LGQSYL SAR+PR V P L RL L E+ + +LD D++ Sbjct: 62 HTGMAASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEI 121 Query: 132 VCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLAPAELDTLLARAQPEAITAHTIT 191 V V V+A QLV+ +PGTR+PAY T GR+LL AE+ L R T +T Sbjct: 122 VYVTRVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAMT 181 Query: 192 DVERLALEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAARMKLEDM 251 D L EI R QGY + + + E+G+R +A+ V+N G V+ A++++ + A E+ Sbjct: 182 DKAALFQEILTMRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVTSNIAACSREEA 241 Query: 252 VERCLPAM 259 + R +PA+ Sbjct: 242 IARGVPAL 249 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 200 bits (509), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 112/259 (43%), Positives = 163/259 (62%), Gaps = 1/259 (0%) Query: 2 RQERIEAEAETEAVQIDDGPL-KRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTR 60 R + A+ E + +G L +RD +AGLEKGL ++EAFD + R+T A+VA TGL+R Sbjct: 4 RDKNGPADDSREVCEPTEGGLSRRDWIAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSR 63 Query: 61 AAARRYLITLTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEA 120 AARRYL+TL HLGY+ + KTF+LTP VL++G SY SA LPRI+QP L ++ GEA Sbjct: 64 TAARRYLLTLEHLGYLHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEA 123 Query: 121 ASCGVLDHDQLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLAPAELDTLLARA 180 VLD LV +A A ++++T G RVPA + G ++L+ L ++ LA Sbjct: 124 VYASVLDGWDLVFIARNGATRVMTTGFVLGARVPAQLASPGIVMLSALPEQQVRDWLATC 183 Query: 181 QPEAITAHTITDVERLALEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNIS 240 T HTITD ++L IA+AR GYA+V+Q+L+ G+R +AVP++N +V+ A+++S Sbjct: 184 AMTPFTPHTITDPDQLYALIAQARQLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLS 243 Query: 241 VHAARMKLEDMVERCLPAM 259 + A E + R LPA+ Sbjct: 244 LPMAAEAREQTLARILPAL 262 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 192 bits (487), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 106/246 (43%), Positives = 149/246 (60%) Query: 25 DLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYMRHDNKTFS 84 + L +GL VI AF R LTIA+++Q TG+ RAA RR L TL LGY D FS Sbjct: 14 SFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADSDVNNFS 73 Query: 85 LTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVS 144 L P +L LG SYL S L QP L ++ +LGE+ S VLD +++ VA +A +++S Sbjct: 74 LRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMS 133 Query: 145 TTLQPGTRVPAYCTANGRILLANLAPAELDTLLARAQPEAITAHTITDVERLALEIARAR 204 L G+R+PAYCT+ GR +LA+L +L + + A+T T+ +RL +A R Sbjct: 134 VALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVR 193 Query: 205 VQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAARMKLEDMVERCLPAMLKIQV 264 GYA++D+ELE+GLR++AVPVR G V+AA+N+ AAR+ + M E LP +L+ Sbjct: 194 ANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLLRGAQ 253 Query: 265 ELGALL 270 EL LL Sbjct: 254 ELSVLL 259 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 129 bits (325), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 79/235 (33%), Positives = 132/235 (56%), Gaps = 2/235 (0%) Query: 29 GLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYMRHDNKT--FSLT 86 LEKGL V+ AF+ + +T+ +VA TG+++++A+R + TL LGY+ KT + LT Sbjct: 16 SLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLT 75 Query: 87 PMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVSTT 146 P V+ +G +YL + L + P L LA GE + ++V VA A + + Sbjct: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPIH 135 Query: 147 LQPGTRVPAYCTANGRILLANLAPAELDTLLARAQPEAITAHTITDVERLALEIARARVQ 206 + G+R+P YCTA+GR L+ L P E +L ++ T HT TDVE + +A +R + Sbjct: 136 MPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRER 195 Query: 207 GYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAARMKLEDMVERCLPAMLK 261 G+A +EL LG ++A PV N + VA++++ +R +E+ ++ P +L+ Sbjct: 196 GFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKKLGPLVLE 250 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 0.322 0.135 0.373 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: 792,966 Number of extensions: 32220 Number of successful extensions: 137 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 7 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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 (21.9 bits) S2: 130 (54.7 bits)