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= 0004.0122.p (299 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... 448 e-127 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 168 5e-43 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 150 9e-38 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 119 3e-28 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 115 3e-27 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 448 bits (1153), Expect = e-127, Method: Compositional matrix adjust. Identities = 226/266 (84%), Positives = 242/266 (90%), Gaps = 6/266 (2%) Query: 34 LSIAEEIDALTDPSFMTSLARGLAVIRAFADSRRSLTIAQISQKTGIPRAAVRRCLHTLR 93 ++IA+EIDALTDPSFMTSLARGLAVIRAF+DSRRSLTIAQISQKTGIPRAAVRRCLHTL+ Sbjct: 1 MTIAQEIDALTDPSFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLK 60 Query: 94 QLGYADADVNNFSLRPKILTLGYSYLSSTPLTVSSQPYLNNISRTLGESCSLAVLDDSEV 153 QLGYAD+DVNNFSLRPKILTLGYSYLSSTPLTVS+QPYLNNISRTLGESCSLAVLDD EV Sbjct: 61 QLGYADSDVNNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEV 120 Query: 154 LYVARSAASRVMSVALNTQPPPPAMLAHLPEDQXLGRAMLAHLPEDQLKAYFGKVKLRAM 213 LYVARSAASRVMSVALNT PA LGRAMLAHLPEDQLKAYF KVKLRA+ Sbjct: 121 LYVARSAASRVMSVALNTGSRLPAYCT------SLGRAMLAHLPEDQLKAYFDKVKLRAL 174 Query: 214 TDKTVVSQKRLREILAGVRDDGYALIDEELEVGLRSIAVPVRGAGGNVVAALNVGVQATR 273 T+KTVVSQKRLR+ILAGVR +GYA+IDEELEVGLRSIAVPVRGA GNV+AALNVG QA R Sbjct: 175 TEKTVVSQKRLRDILAGVRANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAAR 234 Query: 274 VSRRQMEEQFLPVLKRGAEELSILLP 299 VS QMEE+ LPVL RGA+ELS+LLP Sbjct: 235 VSVAQMEEEILPVLLRGAQELSVLLP 260 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 168 bits (425), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 105/251 (41%), Positives = 142/251 (56%), Gaps = 6/251 (2%) Query: 48 FMTSLARGLAVIRAFADSRRSLTIAQISQKTGIPRAAVRRCLHTLRQLGYADADVNNFSL 107 + L +GL VI AF R LTIA+++Q TG+ RAA RR L TL LGY D FSL Sbjct: 22 LVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYMRHDNKTFSL 81 Query: 108 RPKILTLGYSYLSSTPLTVSSQPYLNNISRTLGESCSLAVLDDSEVLYVARSAASRVMSV 167 P +L LG SYL S L QP L ++ +LGE+ S VLD +++ VA +A +++S Sbjct: 82 TPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHDQLVCVAAVSAGQLVST 141 Query: 168 ALNTQPPPPAMLAHLPEDQXLGRAMLAHLPEDQLKAYFGKVKLRAMTDKTVVSQKRLREI 227 L PA GR +LA+LP QL A + + A+T T+ +RL Sbjct: 142 TLQPGTRVPAYCT------ANGRILLANLPPAQLDAILARAQPEAITAHTITDVERLGLE 195 Query: 228 LAGVRDDGYALIDEELEVGLRSIAVPVRGAGGNVVAALNVGVQATRVSRRQMEEQFLPVL 287 +A R GYAL+D+ELE+GLR++AVPVR G VVAA+N+ V A R+ M E+ LP + Sbjct: 196 IARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAGRMKLEDMVERCLPAM 255 Query: 288 KRGAEELSILL 298 + EL LL Sbjct: 256 LKIQVELGALL 266 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 150 bits (380), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 82/247 (33%), Positives = 138/247 (55%), Gaps = 6/247 (2%) Query: 48 FMTSLARGLAVIRAFADSRRSLTIAQISQKTGIPRAAVRRCLHTLRQLGYADADVNNFSL 107 ++ L +GL ++ AF + +T AQ++ +TG+ R A RR L TL LGY ++ F+L Sbjct: 29 WIAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYLHSEGKTFAL 88 Query: 108 RPKILTLGYSYLSSTPLTVSSQPYLNNISRTLGESCSLAVLDDSEVLYVARSAASRVMSV 167 P++L +G+SY S PL QP+L I+ GE+ +VLD +++++AR+ A+RVM+ Sbjct: 89 TPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATRVMTT 148 Query: 168 ALNTQPPPPAMLAHLPEDQXLGRAMLAHLPEDQLKAYFGKVKLRAMTDKTVVSQKRLREI 227 PA LA P G ML+ LPE Q++ + + T T+ +L + Sbjct: 149 GFVLGARVPAQLAS-P-----GIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYAL 202 Query: 228 LAGVRDDGYALIDEELEVGLRSIAVPVRGAGGNVVAALNVGVQATRVSRRQMEEQFLPVL 287 +A R GYA+++++L+ G+R IAVP++ V+ AL++ + +R Q + LP L Sbjct: 203 IAQARQLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPMAAEAREQTLARILPAL 262 Query: 288 KRGAEEL 294 ++ A L Sbjct: 263 QQAANAL 269 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 78/256 (30%), Positives = 131/256 (51%), Gaps = 16/256 (6%) Query: 48 FMTSLARGLAVIRAFADSRRSLTIAQISQKTGIPRAAVRRCLHTLRQLGYADADVNNFSL 107 + L +G VI AF L+ ++++++ G+ R+A RR L TL G A +D F L Sbjct: 16 LIEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTLVHTGMAASDGKKFWL 75 Query: 108 RPKILTLGYSYLSSTPLTVSSQPYLNNISRTLGESCSLAVLDDSEVLYVARSAASRVMSV 167 P++L LG SYL S + + P+L +++ L ES + ++LD E++YV R A+++++ Sbjct: 76 MPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTAAQLVNA 135 Query: 168 ALNTQPPPPAMLAHLPEDQXLGRAMLAHLPEDQLKAYFGKVKL-----RAMTDKTVVSQK 222 PA GR +L + +++AY +V L AMTDK + Q Sbjct: 136 GFEPGTRLPAYTT------TAGRVLLGMREDAEIQAYLERVNLIPHTHMAMTDKAALFQ- 188 Query: 223 RLREILAGVRDDGYALIDEELEVGLRSIAVPVRGAGGNVVAALNVGVQATRVSRRQMEEQ 282 EIL +R GY + + + E+G+R IA+ V+ G V+ AL+V SR + + Sbjct: 189 ---EILT-MRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVTSNIAACSREEAIAR 244 Query: 283 FLPVLKRGAEELSILL 298 +P L+ A L + + Sbjct: 245 GVPALQTTANTLMMWV 260 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 115 bits (289), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 77/257 (29%), Positives = 133/257 (51%), Gaps = 8/257 (3%) Query: 41 DALTDPSFMTSLARGLAVIRAFADSRRSLTIAQISQKTGIPRAAVRRCLHTLRQLGY--A 98 D +D F SL +GLAV+RAF R++T+ ++ TGI +++ +R +HTL LGY Sbjct: 6 DTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICK 65 Query: 99 DADVNNFSLRPKILTLGYSYLSSTPLTVSSQPYLNNISRTLGESCSLAVLDDSEVLYVAR 158 + L PK++ +GY+YL++ L + P+L+ ++ GE+ +L D E++YVAR Sbjct: 66 HPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVAR 125 Query: 159 SAASRVMSVALNTQPPPPAMLAHLPEDQXLGRAMLAHLPEDQLKAYFGKVKLRAMTDKTV 218 AS+ + + + P GRA L+ L ++ +A + T T Sbjct: 126 FVASKFIPIHMPIGSRIPMYCT------ASGRAYLSALEPEEAQAILESSERTVHTPHTR 179 Query: 219 VSQKRLREILAGVRDDGYALIDEELEVGLRSIAVPVRGAGGNVVAALNVGVQATRVSRRQ 278 + + ++LA R+ G+A EEL +G SIA PV + VA+++V +R S + Sbjct: 180 TDVEDIMQLLAASRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEE 239 Query: 279 MEEQFLPVLKRGAEELS 295 E++ P++ A +S Sbjct: 240 AEKKLGPLVLECARAIS 256 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 0.131 0.360 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: 703,808 Number of extensions: 23730 Number of successful extensions: 122 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 117 Number of HSP's successfully gapped: 9 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 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)