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= 0346.0008.p (331 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_389119.1| similar to transcriptional regulator (LacI fami... 365 e-100 ref|NP_347330.1| Transcriptional regulator of the LacI family [C... 342 1e-92 ref|ZP_00036273.1| COG1609: Transcriptional regulators [Enteroco... 331 1e-89 ref|ZP_00093025.1| COG1609: Transcriptional regulators [Novosphi... 194 3e-48 ref|ZP_00060994.1| COG1609: Transcriptional regulators [Clostrid... 176 6e-43 >ref|NP_389119.1| similar to transcriptional regulator (LacI family) [Bacillus subtilis] pir||B69853 transcription regulator LacI family homolog yjmH - Bacillus subtilis gb|AAC46333.1| lacI repressor-like protein [Bacillus subtilis] emb|CAB13094.1| transcriptional regulator (LacI family) [Bacillus subtilis subsp. subtilis str. 168] Length = 333 Score = 365 bits (938), Expect = e-100, Method: Compositional matrix adjust. Identities = 170/328 (51%), Positives = 235/328 (71%) Query: 1 MITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSF 60 M+TIKDIA++A VSHTTVSRALN SP IK+ T+ KI ++A ++NY PN +AKSL ++S Sbjct: 1 MVTIKDIAKLANVSHTTVSRALNNSPYIKEHTKKKILELAEQLNYTPNVNAKSLAMQKSH 60 Query: 61 TIGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVM 120 TIGLFF+SI GTS SF D IKG++ + E++NL V GID + N+ ++ P R+DGI++M Sbjct: 61 TIGLFFTSITNGTSHSFFADTIKGVNQAISEDYNLYVRGIDDLKNYDSVTPMRYDGIILM 120 Query: 121 SQSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAI 180 SQSD DN+FIYH+++ IPLVVLNR ++D I N+++ND+EG +EA++Y ++ GH+ +AI Sbjct: 121 SQSDIDNSFIYHIREKNIPLVVLNRDIDDRTITNILSNDKEGSQEAVEYFIQSGHQDIAI 180 Query: 181 IEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAV 240 IEG GFKSS +RK+G++ +LI H +P+ Y G Y +ESG+ AM LL L +PPTAV Sbjct: 181 IEGIEGFKSSQQRKEGYLSALIQHHIPIKHEYSVKGQYDMESGFQAMERLLALPNPPTAV 240 Query: 241 FCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTK 300 FCSNDDMAIGAMNA +A VP IS++GFDDI FS+Y P L+TV++P+ +IS LG + Sbjct: 241 FCSNDDMAIGAMNAIFAKGLRVPDDISVIGFDDIGFSQYITPRLSTVKRPVEKISVLGAQ 300 Query: 301 MXXXXXXXXXXXXXXXFVNTSLVIRQTV 328 NT ++R +V Sbjct: 301 KLLSLISEPETKAEKILENTEFMVRDSV 328 >ref|NP_347330.1| Transcriptional regulator of the LacI family [Clostridium acetobutylicum] pir||C96985 transcription regulator of the LacI family [imported] - Clostridium acetobutylicum gb|AAK78670.1| Transcriptional regulator of the LacI family [Clostridium acetobutylicum] Length = 334 Score = 342 bits (876), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 159/327 (48%), Positives = 232/327 (70%) Query: 2 ITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFT 61 +TIKDIA++A VSHTTVSRALN SP+I + T+ KI +IA ++NYVPN++AKSLV +S+ Sbjct: 3 VTIKDIAKIANVSHTTVSRALNNSPVINEETKRKILEIAKKLNYVPNFNAKSLVLNKSYN 62 Query: 62 IGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVMS 121 IGLFFSSI +GTS SF + ++G++ I++E++NL + GID ++F I +RFDGI+++S Sbjct: 63 IGLFFSSISKGTSPSFFHEVVEGVNSIIEESYNLVIKGIDNCNDFNYISKKRFDGIILVS 122 Query: 122 QSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAII 181 QS+ DN+FIY V IP+VVLNR++E+ ++N++A +++G +A +Y ++ GH K+AII Sbjct: 123 QSESDNSFIYDVINKEIPIVVLNREIEEQNVINIIAAEKDGAYKAAEYLIKNGHSKIAII 182 Query: 182 EGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAVF 241 EGK GFKSS RK GF+++LI + + + + YF AG+Y +ESG++AM L+L+D PTAVF Sbjct: 183 EGKAGFKSSVYRKMGFINALIDNNIEIKNEYFQAGNYDVESGFSAMKKFLKLKDRPTAVF 242 Query: 242 CSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTKM 301 CSNDDMA+GA+ A VP ISL+GFD +F Y PA+TT+RKP EI +G Sbjct: 243 CSNDDMAVGAVKAIELEGLRVPDDISLVGFDGSIFCEYVTPAITTIRKPSREIGIVGANK 302 Query: 302 XXXXXXXXXXXXXXXFVNTSLVIRQTV 328 ++ T L++R +V Sbjct: 303 MLDVIDETEFNKKKIYIGTELIVRDSV 329 >ref|ZP_00036273.1| COG1609: Transcriptional regulators [Enterococcus faecium] Length = 330 Score = 331 bits (849), Expect = 1e-89, Method: Compositional matrix adjust. Identities = 164/328 (50%), Positives = 221/328 (67%), Gaps = 1/328 (0%) Query: 1 MITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSF 60 M+TIKDIA+ AGVSHTTVSRALN S LIK T+ KI ++A EMNY PNYSAK LV ++ + Sbjct: 1 MVTIKDIAKAAGVSHTTVSRALNNSSLIKNETKQKIRQLAKEMNYSPNYSAKGLVNQKKY 60 Query: 61 TIGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVM 120 IGLFFSS+ +GTS++FL D+I GI +LD N++L+V ID V + I QR+DG++VM Sbjct: 61 LIGLFFSSLHKGTSSNFLADSIAGIHSVLDTNYSLSVESIDVV-DLTEINLQRYDGLIVM 119 Query: 121 SQSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAI 180 SQSD+D FI ++K+ P VV+NR + DP ++NV A+D GV +A+DY + GH K+A Sbjct: 120 SQSDDDQPFIDYLKEKEFPFVVVNRHINDPAVINVTADDAAGVMQAVDYGIGCGHTKIAY 179 Query: 181 IEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAV 240 I GK F+S+ ER++G + SL +P+N YF GDYS+ESG M LL L D PT V Sbjct: 180 IGGKKNFRSTKEREKGVLKSLKKASIPVNPAYFLTGDYSLESGLQNMEYLLSLSDLPTLV 239 Query: 241 FCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTK 300 FC NDD+AIGA+ A + VP ISL+GFDD Y NP LTTVRKP+ E+ + GTK Sbjct: 240 FCGNDDIAIGALRAVHLAGLRVPQNISLIGFDDSPVVSYLNPPLTTVRKPLKEMCQEGTK 299 Query: 301 MXXXXXXXXXXXXXXXFVNTSLVIRQTV 328 + ++T L++R+++ Sbjct: 300 LLLDLIEGRTIEQSKIELSTLLILRESI 327 >ref|ZP_00093025.1| COG1609: Transcriptional regulators [Novosphingobium aromaticivorans] Length = 338 Score = 194 bits (492), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 113/304 (37%), Positives = 174/304 (57%), Gaps = 17/304 (5%) Query: 3 TIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFTI 62 TI D+AR+AGVS TVSR +N SPL+ + TR+K+E + AE+ YVPN A++L +R+F I Sbjct: 10 TINDVARIAGVSKKTVSRVINRSPLLNEATREKVEAVIAELGYVPNPQARALALRRNFLI 69 Query: 63 GLFFSSIEQGTSASFLVDAIKGI-SHILDENFNLTVNGI--------DGVHNFGNIQPQR 113 GL I +A ++ +GI S I D F L V + D V F ++ QR Sbjct: 70 GL----IHDNPNAQMVLGVQEGILSAIRDTEFALVVRPVNRRSPDMLDDVRAF--LEQQR 123 Query: 114 FDGILVMSQSDEDNAFIYHVKKMGIPLVVLNR-QLEDPGIMNVVANDREGVKEAIDYAVR 172 G++++ E++A + +G+ V + +L+D M V +NDRE V A+ Y V Sbjct: 124 LFGVMLLPPISENDALADLCEDLGVTYVRMGSVRLDDDEHM-VASNDREAVARAVAYLVD 182 Query: 173 QGHRKLAIIEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQ 232 GHR++ + G GF+S++ER G++D+L + ++ A G+Y+ E+G AA LL Sbjct: 183 HGHRRIGFVAGPDGFRSAAERASGYVDALETAGIKQDATIMAEGNYTFETGIAAGEKLLA 242 Query: 233 LEDPPTAVFCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPIT 292 PTA+F SND+MA G ++A VP +S++GFDD + + P LTTVR PI Sbjct: 243 ASPRPTAIFASNDEMAAGVLHAARKKGLSVPEDLSIVGFDDTAIAAHIWPPLTTVRWPIQ 302 Query: 293 EISE 296 +++ Sbjct: 303 AMAK 306 >ref|ZP_00060994.1| COG1609: Transcriptional regulators [Clostridium thermocellum ATCC 27405] Length = 353 Score = 176 bits (446), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 117/349 (33%), Positives = 182/349 (52%), Gaps = 22/349 (6%) Query: 5 KDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFTIGL 64 KDIA++ GVS +TVSR +N P I + TR+K+ K E NY PN SA+ L +S T+G+ Sbjct: 4 KDIAKIVGVSRSTVSRVINNYPDIPQATREKVLKAIKEYNYYPNASARRLAGMKSSTLGI 63 Query: 65 FFSSIEQGTSASFLV----DAIKG-------ISHILDEN----FNLTVNGIDGVHNFGNI 109 F I+ ++ D + G I+ +D++ +++ V+ I I Sbjct: 64 FIIDIKDNEKPHHVIENNEDLLYGNSYFSPFINAFIDQSNKAQYHVLVSTIYSSDELWKI 123 Query: 110 QP----QRFDGILVMSQSDEDNAFIYHV-KKMGIPLVV-LNRQLEDPG-IMNVVANDREG 162 Q +R DG +++ S D + I+ + K I + V L+ + E+ G +M+V N+ G Sbjct: 124 QSAFYEKRIDGAVIIGSSSIDYSKIFEIMDKDSITVAVDLDMEKENTGTVMSVNINNYGG 183 Query: 163 VKEAIDYAVRQGHRKLAIIEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIES 222 V +AIDY V GH+ +A+I G S R + F D+L+ H LPLN+ + A GD++ S Sbjct: 184 VSDAIDYLVELGHKDIAVITGDLNKLSGKIRFESFKDALLRHGLPLNNDFIAYGDFTENS 243 Query: 223 GYAAMAALLQLEDPPTAVFCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNP 282 GY M +L PTAVF SND MAIGA A + +P IS++GFD+ S+Y +P Sbjct: 244 GYEGMKKILASGKKPTAVFTSNDTMAIGAYRAIKEYGLKIPEDISVMGFDNSYISQYMSP 303 Query: 283 ALTTVRKPITEISELGTKMXXXXXXXXXXXXXXXFVNTSLVIRQTVAEV 331 LTTV + EI++ ++ VN +V R + ++ Sbjct: 304 PLTTVNVSLPEIAKCSIELLLDSINNKEIKNRQKTVNVQIVKRNSCKKI 352 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.319 0.135 0.379 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 434,552,933 Number of extensions: 17220472 Number of successful extensions: 46418 Number of sequences better than 1.0e-05: 1177 Number of HSP's gapped: 45093 Number of HSP's successfully gapped: 1181 Length of query: 331 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 205 Effective length of database: 415,135,104 Effective search space: 85102696320 Effective search space used: 85102696320 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: 126 (53.1 bits)