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= 0194.0004.p (286 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K4T2.1 B3K4T2_9BACI Transcriptional regulator TrmB 290 1e-76 C0ZD11.1 C0ZD11_BREBN Putative uncharacterized protein 132 5e-29 C2WA82.1 C2WA82_BACCE Transcriptional regulator TrmB 125 4e-27 C3BMS9.1 C3BMS9_9BACI Transcriptional regulator TrmB 123 2e-26 C3B5U5.1 C3B5U5_BACMY Transcriptional regulator TrmB 122 4e-26 >B3K4T2.1 B3K4T2_9BACI Transcriptional regulator TrmB Length = 303 Score = 290 bits (742), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 150/262 (57%), Positives = 184/262 (70%), Gaps = 5/262 (1%) Query: 1 MEQLLLHLRNLGFTEMESKIMVELATKGQASGYEVAKQLGVSRSNVYAALQRLTQQGYVR 60 MEQLL HLRNLGFTE+ESKIMV+LA G A GYEVAK+LG SRSNVYAA+QRL +QG + Sbjct: 1 MEQLLHHLRNLGFTEIESKIMVDLAEHGPAGGYEVAKRLGASRSNVYAAMQRLERQGALE 60 Query: 61 CGEGEPARYSVLDPEELAAMISGRVQASLAYMESEMPRGGPVSPSFYNVEGDRNVLGALV 120 +GEP RY L PEEL MISGRV+ASLA++E +PR + F ++EGD+ VL LV Sbjct: 61 RMDGEPVRYRSLKPEELTRMISGRVEASLAFVEKSLPRSSGTAAPFLSMEGDQAVLDVLV 120 Query: 121 RQLNLARQEIVVDVWXXXXXXXXXXXXXXXMRGVRLLWAFDG---GNAATAPYPAWPPLG 177 R+L A++EIVVDVW RGV++LWA DG G + T +P W L Sbjct: 121 RELKRAKREIVVDVWREEASLLREPLAEAEARGVKVLWACDGPDQGLSRTLAWPGWSDLA 180 Query: 178 GELPRSGGRKFSFVIDRCWCMLGMRYEDGTAQAVVTEHPVLVELLLNHFTQEMVLFELEE 237 R+GGRKFSFV+DR WC+LGMR D AV+TEHPV+ ELLL+HFTQEMVLF+LE+ Sbjct: 181 ER--RAGGRKFSFVVDRQWCILGMRGGDYDTGAVITEHPVMAELLLHHFTQEMVLFQLEQ 238 Query: 238 DMGAELTKRYGERYSRIYSKYV 259 DMG +L RYGE + I S+Y+ Sbjct: 239 DMGEQLEARYGEHFGLIQSEYL 260 >C0ZD11.1 C0ZD11_BREBN Putative uncharacterized protein Length = 259 Score = 132 bits (331), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 130/252 (51%), Gaps = 2/252 (0%) Query: 8 LRNLGFTEMESKIMVELATKGQASGYEVAKQLGVSRSNVYAALQRLTQQGYVRCGEGEPA 67 LR +G +++E++ + L + + SGYEVAK++ VSR+NVYAAL+ LT++G R E EP Sbjct: 5 LRKIGLSDLEARCYLVLHEEPKISGYEVAKKVSVSRTNVYAALRALTEKGMCRMIESEPV 64 Query: 68 RYSVLDPEELAAMISGRVQASLAYMESEMPRGGPVSPSFYNVEGDRNVLGALVRQLNLAR 127 Y + E+L ++ + ++ ++ SPSFYN +GD+ + A+ R ++ A Sbjct: 65 LYDAVPIEQLIRLLQSEFDQTTRVLQEQLKPTPRTSPSFYNWQGDKAIETAIKRIVSNAN 124 Query: 128 QEIVVDVWXXXXXXXXXXXXXXXMRGVRLLWAFDGGNAATAPYPAWPPLGGELPRSGGRK 187 + IVVD+W +GV + G A E + RK Sbjct: 125 KSIVVDIWSEDVHWVEEPLAEAEKQGVAVTLISIGECHAKLKNVVVHKRSAEWHQVQSRK 184 Query: 188 FSFVIDRCWCMLGMRYEDGTAQAVV-TEHPVLVELLLNHFTQEMVLFELEEDMGAELTKR 246 FS + D +LG + G ++ T+HP L+ELL N F ++++ ++E+D L ++ Sbjct: 185 FSILCDAHSALLG-SFGRGIKPTILETDHPSLIELLQNAFYHDIIMGQIEKDFSQVLEEK 243 Query: 247 YGERYSRIYSKY 258 YG Y RI + Y Sbjct: 244 YGSDYVRIITPY 255 >C2WA82.1 C2WA82_BACCE Transcriptional regulator TrmB Length = 261 Score = 125 bits (314), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 75/251 (29%), Positives = 128/251 (50%), Gaps = 1/251 (0%) Query: 8 LRNLGFTEMESKIMVELATKGQASGYEVAKQLGVSRSNVYAALQRLTQQGYVRCGEGEPA 67 L+ +G +++E++ + L + SGYEVAK++ VSR+NVYAAL LT +G R EGE A Sbjct: 5 LKKIGLSDLEARCYLTLHEESNLSGYEVAKRVSVSRTNVYAALWSLTDKGACRSIEGETA 64 Query: 68 RYSVLDPEELAAMISGRVQASLAYMESEMPRGGPVSPSFYNVEGDRNVLGALVRQLNLAR 127 Y+ + E+L + + + + +++ +P+FYN +G + A+ R + A Sbjct: 65 LYNAVPIEQLIRLFQVEFEKTSKDLINQLKTPPKPTPAFYNWQGGNALDKAVRRIIVNAE 124 Query: 128 QEIVVDVWXXXXXXXXXXXXXXXMRGVRLLWAFDGGNAATAPYPAWPPLGGELPRSGGRK 187 IVVDVW +GV ++ G + + G E P + RK Sbjct: 125 TSIVVDVWSEDLHHIEEALLVAEKKGVSVILITMGACKTSLKHVFQHYRGEEWP-AEERK 183 Query: 188 FSFVIDRCWCMLGMRYEDGTAQAVVTEHPVLVELLLNHFTQEMVLFELEEDMGAELTKRY 247 FS + D ++G + A+ T HP ++E++ N F +M++ +EED G E ++Y Sbjct: 184 FSILCDSSLALIGSFEGEMKPSALETNHPSVIEVIKNAFYHDMMMQHIEEDFGKEFQEKY 243 Query: 248 GERYSRIYSKY 258 GE Y ++ S + Sbjct: 244 GENYRKMLSYF 254 >C3BMS9.1 C3BMS9_9BACI Transcriptional regulator TrmB Length = 261 Score = 123 bits (308), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 1/251 (0%) Query: 8 LRNLGFTEMESKIMVELATKGQASGYEVAKQLGVSRSNVYAALQRLTQQGYVRCGEGEPA 67 L+ +G +++E++ + L + SGYEVAK++ VSR+NVYAAL+ LT +G R EGE Sbjct: 5 LKKIGLSDLEARCYLTLHEESDLSGYEVAKRVSVSRTNVYAALRSLTDKGACRSIEGETV 64 Query: 68 RYSVLDPEELAAMISGRVQASLAYMESEMPRGGPVSPSFYNVEGDRNVLGALVRQLNLAR 127 Y+ + E+L + + + + +++ +P+FYN +G + A+ R + A Sbjct: 65 LYNAVPIEQLIRLFQTEFEQTSKALINQLKTPPRPAPAFYNWQGSNALDNAVRRVIANAE 124 Query: 128 QEIVVDVWXXXXXXXXXXXXXXXMRGVRLLWAFDGGNAATAPYPAWPPLGGELPRSGGRK 187 IVVDVW +G+ ++ G + + E P + RK Sbjct: 125 TSIVVDVWSEDLHYIEEALLVAECKGISVILITIGTSKTPLKHVFQHYRDEEWP-ADERK 183 Query: 188 FSFVIDRCWCMLGMRYEDGTAQAVVTEHPVLVELLLNHFTQEMVLFELEEDMGAELTKRY 247 FS + D ++G + A+ T HP ++E++ N F +M++ +EED G E ++Y Sbjct: 184 FSILCDSSSALIGSFGGEIKPSALETNHPAVIEVIKNAFYHDMMMQHIEEDFGKEFQEKY 243 Query: 248 GERYSRIYSKY 258 GE Y ++ S + Sbjct: 244 GENYRKMLSYF 254 >C3B5U5.1 C3B5U5_BACMY Transcriptional regulator TrmB Length = 261 Score = 122 bits (306), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 1/251 (0%) Query: 8 LRNLGFTEMESKIMVELATKGQASGYEVAKQLGVSRSNVYAALQRLTQQGYVRCGEGEPA 67 L+ +G +++E++ + L + SGYEVAK++ VSR+NVYAAL+ LT +G R EGE Sbjct: 5 LKKIGLSDLEARCYLTLHEESDLSGYEVAKRVSVSRTNVYAALRSLTDKGACRSIEGETV 64 Query: 68 RYSVLDPEELAAMISGRVQASLAYMESEMPRGGPVSPSFYNVEGDRNVLGALVRQLNLAR 127 Y+ + E+L + + + + +++ +P+FYN +G + A+ R + A Sbjct: 65 LYNAVPIEQLIRLFQTEFEQTSKALINQLKTPPRPAPAFYNWQGSNALDNAVRRVIANAE 124 Query: 128 QEIVVDVWXXXXXXXXXXXXXXXMRGVRLLWAFDGGNAATAPYPAWPPLGGELPRSGGRK 187 IVVDVW +G+ ++ G T + E + RK Sbjct: 125 TSIVVDVWSEDLHYIEEALLVAECKGISVI-LITIGTCKTPLKHVFQHYRDEEWPADERK 183 Query: 188 FSFVIDRCWCMLGMRYEDGTAQAVVTEHPVLVELLLNHFTQEMVLFELEEDMGAELTKRY 247 FS + D ++G + A+ T HP ++E++ N F +M++ +EED G E ++Y Sbjct: 184 FSILCDSSSALIGSFGGEIKPSALETNHPAVIEVIKNAFYHDMMMQHIEEDFGKEFQEKY 243 Query: 248 GERYSRIYSKY 258 GE Y ++ S + Sbjct: 244 GENYRKMLSYF 254 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.318 0.135 0.398 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,598,163,082 Number of extensions: 63457655 Number of successful extensions: 174431 Number of sequences better than 1.0e-05: 154 Number of HSP's gapped: 174354 Number of HSP's successfully gapped: 154 Length of query: 286 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 152 Effective length of database: 1,798,280,193 Effective search space: 273338589336 Effective search space used: 273338589336 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)