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= 0586.0013.p (363 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_243282.1| transcriptional terminator [Bacillus halodurans... 530 e-149 ref|ZP_00097685.1| COG0195: Transcription elongation factor [Des... 483 e-135 ref|NP_657784.1| S1, S1 RNA binding domain [Bacillus anthracis A... 481 e-135 ref|NP_464847.1| highly similar to N utilization substance prote... 481 e-135 ref|NP_470695.1| highly similar to N utilization substance prote... 481 e-134 >ref|NP_243282.1| transcriptional terminator [Bacillus halodurans] sp|Q9KA74|NUSA_BACHD Transcription elongation protein nusA pir||H83951 transcription terminator nusA [imported] - Bacillus halodurans (strain C-125) dbj|BAB06135.1| transcriptional terminator [Bacillus halodurans] Length = 382 Score = 530 bits (1364), Expect = e-149, Method: Compositional matrix adjust. Identities = 256/345 (74%), Positives = 305/345 (88%), Gaps = 1/345 (0%) Query: 2 DFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNAAQNVRVDMNRNTGVIKVFARKL 61 +F++A+ LE+EKGISK+V+ EAIEAALIS YKRNFN AQNVRVD+NR G I+VFARK Sbjct: 4 EFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFNQAQNVRVDVNRENGSIRVFARKE 63 Query: 62 IVEEVLDARTEISLMSAREINPHFQLEDIAELEVTPRDFGRIAAQTAKQVVTQRIREAER 121 +VEEV DAR EISL A+ INP+++++D+ E+EVTP+DFGRIAAQTAKQVVTQR+REAER Sbjct: 64 VVEEVFDARLEISLDEAKGINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123 Query: 122 GLIYNAFIDKEDDIVTGLVQRQDMRNIYVDLGKIEAVLPLSELMPGEKFKQSERIKAYIT 181 G+IY FID+E+DI+TG+VQRQD R IYVDLGK+EA+LPLSE MP E ++ ++RIKAYIT Sbjct: 124 GIIYADFIDREEDIMTGIVQRQDNRFIYVDLGKVEALLPLSEQMPNESYRHNDRIKAYIT 183 Query: 182 KVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVFSRNPE 241 KVE TTKGPQIM+SR+HPGLLKRLFELEVPEI+DG VE++SVAREAG RSKI+V + NPE Sbjct: 184 KVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVELKSVAREAGDRSKISVHAENPE 243 Query: 242 VDPVGSCVGPRGTRVQTIVTELRGEKIDIVRYSDTVQEYVANALSPSKVLEVQVFEAEKM 301 VDPVG+CVGP+G+RVQTIV EL+GEKIDIVR+S+ EYVANALSPSKV++V V E EK Sbjct: 244 VDPVGACVGPKGSRVQTIVNELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEEKT 303 Query: 302 ARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQEYG 346 +VIVPDYQLSLAIG +GQNARLAAKLTGWKIDIKSES+A QE G Sbjct: 304 TQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEA-QELG 347 >ref|ZP_00097685.1| COG0195: Transcription elongation factor [Desulfitobacterium hafniense] Length = 462 Score = 483 bits (1243), Expect = e-135, Method: Compositional matrix adjust. Identities = 231/341 (67%), Positives = 293/341 (85%) Query: 1 MDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNAAQNVRVDMNRNTGVIKVFARK 60 M+FIEA++ELE+++GIS D+LFEAIEAALIS+YK+NF + QNVRV ++R TG KVFARK Sbjct: 3 MEFIEALHELEKDRGISADILFEAIEAALISAYKKNFASLQNVRVHIDRMTGEFKVFARK 62 Query: 61 LIVEEVLDARTEISLMSAREINPHFQLEDIAELEVTPRDFGRIAAQTAKQVVTQRIREAE 120 +VEEV D+RT++S+ A++I+P++ ++D+ E EVTPR+FGRIAAQTAKQVV QRIREAE Sbjct: 63 NVVEEVEDSRTQVSMEEAQKIDPNYAIDDVVEYEVTPREFGRIAAQTAKQVVVQRIREAE 122 Query: 121 RGLIYNAFIDKEDDIVTGLVQRQDMRNIYVDLGKIEAVLPLSELMPGEKFKQSERIKAYI 180 RG+IY+ +I++E DIVTG+VQR D +N+ VDLGK+EA+L E +PGE ++ ERIK ++ Sbjct: 123 RGMIYDEYINREGDIVTGIVQRYDQKNVIVDLGKVEAILTAQEQIPGETYQPFERIKTFV 182 Query: 181 TKVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVFSRNP 240 +V+ TTKGPQ+MLSR+HPGL+KRLFELEVPEI DG+VEI+ V+REAG RSKIAV+SR+ Sbjct: 183 VEVKKTTKGPQVMLSRTHPGLIKRLFELEVPEIHDGLVEIKGVSREAGARSKIAVYSRDA 242 Query: 241 EVDPVGSCVGPRGTRVQTIVTELRGEKIDIVRYSDTVQEYVANALSPSKVLEVQVFEAEK 300 VDPVG+CVGP+G+RVQTIVTEL+GEKIDIV YS +E+VANALSP+KV+ V EK Sbjct: 243 NVDPVGACVGPKGSRVQTIVTELKGEKIDIVNYSTDPEEFVANALSPAKVVGVYPKPNEK 302 Query: 301 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQA 341 +A V+VPDYQLSLAIG +GQNARLAAKLT WKIDIKSESQA Sbjct: 303 VALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQA 343 >ref|NP_657784.1| S1, S1 RNA binding domain [Bacillus anthracis A2012] ref|NP_846196.1| N utilization substance protein A [Bacillus anthracis str. Ames] ref|NP_980151.1| N utilization substance protein A [Bacillus cereus ATCC 10987] gb|AAP27682.1| N utilization substance protein A [Bacillus anthracis str. Ames] gb|AAS42759.1| N utilization substance protein A [Bacillus cereus ATCC 10987] Length = 368 Score = 481 bits (1239), Expect = e-135, Method: Compositional matrix adjust. Identities = 236/342 (69%), Positives = 287/342 (83%) Query: 2 DFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNAAQNVRVDMNRNTGVIKVFARKL 61 + ++A+ LE EKGISKD++ +AIEAALIS+YKRNFN AQNVRV N G I+V ARK Sbjct: 4 ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63 Query: 62 IVEEVLDARTEISLMSAREINPHFQLEDIAELEVTPRDFGRIAAQTAKQVVTQRIREAER 121 +V+ V D R EIS+ AR+INP++Q D+ E+EVTP+DFGRIAAQTAKQVVTQR+REAER Sbjct: 64 VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123 Query: 122 GLIYNAFIDKEDDIVTGLVQRQDMRNIYVDLGKIEAVLPLSELMPGEKFKQSERIKAYIT 181 G+IY+ F D+E+DI+ G+VQRQD R IYV LGK+EA+LP+SE MP E++K +RI+ +IT Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183 Query: 182 KVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVFSRNPE 241 KVE TTKGPQI +SR+HPGLLKRLFE+EVPEI+DG VEIRSVAREAG RSKI+V + N + Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243 Query: 242 VDPVGSCVGPRGTRVQTIVTELRGEKIDIVRYSDTVQEYVANALSPSKVLEVQVFEAEKM 301 VDPVGSCVGP+G RVQ IV EL+GEKIDIVR+S+ EYVANALSPS+V++V V E EK Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303 Query: 302 ARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQ 343 V+VPD+QLSLAIG +GQNARLAAKLTGWKIDIKSES A+Q Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQ 345 >ref|NP_464847.1| highly similar to N utilization substance protein A (NusA protein) [Listeria monocytogenes EGD-e] pir||AB1240 N utilization substance protein A (NusA protein) homolog nusA [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC99400.1| nusA [Listeria monocytogenes] Length = 372 Score = 481 bits (1239), Expect = e-135, Method: Compositional matrix adjust. Identities = 237/348 (68%), Positives = 289/348 (83%) Query: 2 DFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNAAQNVRVDMNRNTGVIKVFARKL 61 + ++A++ LE +KGIS++VL EAIEAAL S+YKRNF AQNVRVD+N G I+V ARK Sbjct: 4 ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63 Query: 62 IVEEVLDARTEISLMSAREINPHFQLEDIAELEVTPRDFGRIAAQTAKQVVTQRIREAER 121 VE+V D+R EIS+ A ++NP +Q D+ ELEVTP+DFGRIAAQTAKQVVTQR+REAER Sbjct: 64 AVEQVFDSRLEISMEEAHKLNPVYQPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123 Query: 122 GLIYNAFIDKEDDIVTGLVQRQDMRNIYVDLGKIEAVLPLSELMPGEKFKQSERIKAYIT 181 G+IY+ FID+EDDI+TG+V+RQD R IYV+LGKIEA+L +E MP E + +RIK Y+T Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183 Query: 182 KVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVFSRNPE 241 KVE TTKGPQI +SR+HPGLLKRLFE+EVPEI+DGVVEI+SVAREAG RSKI+V++ N E Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243 Query: 242 VDPVGSCVGPRGTRVQTIVTELRGEKIDIVRYSDTVQEYVANALSPSKVLEVQVFEAEKM 301 VDPVG+CVGP+G RVQTIV EL+GEKIDIV +S+ +VANALSPSKVL+V V EA++ Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303 Query: 302 ARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQEYGRPR 349 VIVPDYQLSLAIG +GQNARLAAKLTGWKIDIKSE+ A + PR Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPR 351 >ref|NP_470695.1| highly similar to N utilization substance protein A (NusA protein) [Listeria innocua] pir||AF1602 N utilization substance protein A (NusA protein) homolog nusA [imported] - Listeria innocua (strain Clip11262) emb|CAC96590.1| nusA [Listeria innocua] Length = 372 Score = 481 bits (1237), Expect = e-134, Method: Compositional matrix adjust. Identities = 236/348 (67%), Positives = 289/348 (83%) Query: 2 DFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNAAQNVRVDMNRNTGVIKVFARKL 61 + ++A++ LE +KGIS++VL EAIEAAL S+YKRNF AQNVRVD+N G I+V ARK Sbjct: 4 ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63 Query: 62 IVEEVLDARTEISLMSAREINPHFQLEDIAELEVTPRDFGRIAAQTAKQVVTQRIREAER 121 VE+V D+R EIS+ A ++NP ++ D+ ELEVTP+DFGRIAAQTAKQVVTQR+REAER Sbjct: 64 AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123 Query: 122 GLIYNAFIDKEDDIVTGLVQRQDMRNIYVDLGKIEAVLPLSELMPGEKFKQSERIKAYIT 181 G+IY+ FID+EDDI+TG+V+RQD R IYV+LGKIEA+L +E MP E + +RIK Y+T Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183 Query: 182 KVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVFSRNPE 241 KVE TTKGPQI +SR+HPGLLKRLFE+EVPEI+DGVVEI+SVAREAG RSKI+V++ N E Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243 Query: 242 VDPVGSCVGPRGTRVQTIVTELRGEKIDIVRYSDTVQEYVANALSPSKVLEVQVFEAEKM 301 VDPVG+CVGP+G RVQTIV EL+GEKIDIV +S+ +VANALSPSKVL+V V EA++ Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303 Query: 302 ARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQEYGRPR 349 VIVPDYQLSLAIG +GQNARLAAKLTGWKIDIKSE+ A + PR Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPR 351 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 0.317 0.134 0.362 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: 460,864,214 Number of extensions: 17370958 Number of successful extensions: 51550 Number of sequences better than 1.0e-05: 822 Number of HSP's gapped: 50797 Number of HSP's successfully gapped: 822 Length of query: 363 Length of database: 757,237,578 Length adjustment: 127 Effective length of query: 236 Effective length of database: 412,420,005 Effective search space: 97331121180 Effective search space used: 97331121180 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: 126 (53.1 bits)