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= 0001.3667.p (260 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 519 e-149 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 213 2e-56 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 203 1e-53 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 149 3e-37 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 103 2e-23 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 519 bits (1337), Expect = e-149, Method: Compositional matrix adjust. Identities = 251/260 (96%), Positives = 258/260 (99%) Query: 1 MIDQSPVDLDIQKRDLIEGLMKGFDVITAFNSDSPQLTASEVAERVGLTRSAARRYLLTL 60 MIDQSPVDLDIQKRDLIEGLMKGFDVITAF+SDSPQL+ASEVAERVGLTRSAARRYLLTL Sbjct: 1 MIDQSPVDLDIQKRDLIEGLMKGFDVITAFDSDSPQLSASEVAERVGLTRSAARRYLLTL 60 Query: 61 VHTGMAASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDE 120 VHTGMAASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDE Sbjct: 61 VHTGMAASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDE 120 Query: 121 IVYVTRVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVTLIPHTHMAM 180 IVYVTRVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERV LIPHTHMAM Sbjct: 121 IVYVTRVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAM 180 Query: 181 TDKAALFQEILTMRKQGYGITENQFEMGMRGIAIPVKNRSGRVIGALSVTSNLAACSREE 240 TDKAALFQEILTMR+QGYGITENQFEMGMRGIAI VKNR+GRVIGALSVTSN+AACSREE Sbjct: 181 TDKAALFQEILTMRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVTSNIAACSREE 240 Query: 241 ALARGLPALQTTANTLMMWV 260 A+ARG+PALQTTANTLMMWV Sbjct: 241 AIARGVPALQTTANTLMMWV 260 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 213 bits (541), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 109/252 (43%), Positives = 164/252 (65%) Query: 6 PVDLDIQKRDLIEGLMKGFDVITAFNSDSPQLTASEVAERVGLTRSAARRYLLTLVHTGM 65 P + + +RD I GL KG ++ AF+ D+ ++T+++VA R GL+R+AARRYLLTL H G Sbjct: 19 PTEGGLSRRDWIAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGY 78 Query: 66 AASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVT 125 S+GK F L PR+L +G SY +SA +PR + PFLQ++T Q E+ S+LDG ++V++ Sbjct: 79 LHSEGKTFALTPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIA 138 Query: 126 RVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVTLIPHTHMAMTDKAA 185 R A +++ GF G R+PA + G V+L + +++ +L + P T +TD Sbjct: 139 RNGATRVMTTGFVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQ 198 Query: 186 LFQEILTMRKQGYGITENQFEMGMRGIAIPVKNRSGRVIGALSVTSNLAACSREEALARG 245 L+ I R+ GY + E Q + G+RGIA+P+KNR +VIGALS++ +AA +RE+ LAR Sbjct: 199 LYALIAQARQLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPMAAEAREQTLARI 258 Query: 246 LPALQTTANTLM 257 LPALQ AN L+ Sbjct: 259 LPALQQAANALI 270 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 203 bits (517), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 111/250 (44%), Positives = 152/250 (60%), Gaps = 2/250 (0%) Query: 2 IDQSPVDLD--IQKRDLIEGLMKGFDVITAFNSDSPQLTASEVAERVGLTRSAARRYLLT 59 ID+ P D D KRDL+ GL KG VI AF+ + +LT +EVA+ GLTR+AARRYL+T Sbjct: 6 IDEEPGDADEGPLKRDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLIT 65 Query: 60 LVHTGMAASDGKKFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGD 119 L H G D K F L P +L LGQSYL SAR+PR V P L RL L E+ + +LD D Sbjct: 66 LTHLGYMRHDNKTFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLAYSLGEAASCGVLDHD 125 Query: 120 EIVYVTRVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVTLIPHTHMA 179 ++V V V+A QLV+ +PGTR+PAY T GR+LL A++ A L R T Sbjct: 126 QLVCVAAVSAGQLVSTTLQPGTRVPAYCTANGRILLANLPPAQLDAILARAQPEAITAHT 185 Query: 180 MTDKAALFQEILTMRKQGYGITENQFEMGMRGIAIPVKNRSGRVIGALSVTSNLAACSRE 239 +TD L EI R QGY + + + E+G+R +A+PV+N G V+ A++++ + E Sbjct: 186 ITDVERLGLEIARARVQGYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAGRMKLE 245 Query: 240 EALARGLPAL 249 + + R LPA+ Sbjct: 246 DMVERCLPAM 255 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 149 bits (376), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 81/237 (34%), Positives = 133/237 (56%) Query: 20 LMKGFDVITAFNSDSPQLTASEVAERVGLTRSAARRYLLTLVHTGMAASDGKKFWLMPRL 79 L +G VI AF+ LT ++++++ G+ R+A RR L TL G A SD F L P++ Sbjct: 19 LARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADSDVNNFSLRPKI 78 Query: 80 LNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRVTAAQLVNAGFEP 139 L LG SYL S + + P+L +++ L ES + ++LD E++YV R A+++++ Sbjct: 79 LTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVALNT 138 Query: 140 GTRLPAYTTTAGRVLLGMREDAEIQAYLERVTLIPHTHMAMTDKAALFQEILTMRKQGYG 199 G+RLPAY T+ GR +L + +++AY ++V L T + + L + +R GY Sbjct: 139 GSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRANGYA 198 Query: 200 ITENQFEMGMRGIAIPVKNRSGRVIGALSVTSNLAACSREEALARGLPALQTTANTL 256 + + + E+G+R IA+PV+ SG V+ AL+V + A S + LP L A L Sbjct: 199 VIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLLRGAQEL 255 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 103 bits (256), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 113/236 (47%), Gaps = 4/236 (1%) Query: 10 DIQKRDLI--EGLMKGFDVITAFNSDSPQLTASEVAERVGLTRSAARRYLLTLVHTGMAA 67 D DL+ + L KG V+ AFN+ +T +VA G+++S+A+R + TL G Sbjct: 5 DDTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYIC 64 Query: 68 SDGK--KFWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVT 125 K ++ L P+++ +G +YL + + PFL L E+ N + E+VYV Sbjct: 65 KHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVA 124 Query: 126 RVTAAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVTLIPHTHMAMTDKAA 185 R A++ + G+R+P Y T +GR L E E QA LE HT TD Sbjct: 125 RFVASKFIPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVED 184 Query: 186 LFQEILTMRKQGYGITENQFEMGMRGIAIPVKNRSGRVIGALSVTSNLAACSREEA 241 + Q + R++G+ + +G IA PV N + + ++ V + + S EEA Sbjct: 185 IMQLLAASRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEA 240 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 0.133 0.374 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: 747,925 Number of extensions: 29278 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 9 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 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: 129 (54.3 bits)