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= 0520.0009.p (307 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC1355 [K] COG3711 Transcriptional antiterminator 174 2e-43 BS_glcT [K] COG3711 Transcriptional antiterminator 163 4e-40 BH0845 [K] COG3711 Transcriptional antiterminator 155 9e-38 CAC0569 [K] COG3711 Transcriptional antiterminator 149 4e-36 BS_sacY [K] COG3711 Transcriptional antiterminator 144 1e-34 >CAC1355 [K] COG3711 Transcriptional antiterminator Length = 287 Score = 174 bits (441), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 92/275 (33%), Positives = 165/275 (60%), Gaps = 5/275 (1%) Query: 21 FEVLRVIGNNVVMVQGGRKGKEYVIIGKGIGFAVKDTGFIDANDQRIEKLFRLEDRDEWS 80 F++++V+ NNV+ V + KE ++ +GIGF K I A D +EK+F +E+ + + Sbjct: 8 FKIIKVLNNNVLFVL--QNNKEKILFERGIGFGKKIDDLISA-DTHVEKVFSIENENNSN 64 Query: 81 QYQILLEDIDPKVMKITDDIIADIAHEFSGKLNDKIYLALPSHIQFTIYRLRGGMDIVXX 140 ++ L+ ++ ++ I ++II+ I+ E + LN+KI+++L HI FT+ RL I Sbjct: 65 TFKQLVSTVNTNIIGICEEIISMISKELNENLNEKIHISLTDHISFTLKRLLSNDTI--Q 122 Query: 141 XXFLQETKMSFPKEFEIAYRAAEKISAEFNVQIPEDEVGFLTYHVYSAVSNVPVGQLVKA 200 FL ET + EFE+A +A + + + N++IPEDEVGF+ H++SA + +K Sbjct: 123 NPFLIETATLYKTEFELAKKAVKMLEEKTNIEIPEDEVGFIALHIHSARKKGELSNTIKY 182 Query: 201 SNIVSELLDMIREERKVTFVYGSMNHIRLMIHLRFSIERILQGSLIDNPFVKHIQKEYKE 260 + + + +++ I +E +T S+++ R + HLRF+IERI+ S I N + I+ Y E Sbjct: 183 AFLSNTIIEFIEDELDITIDKHSIDYARFITHLRFTIERIINSSPIKNELLNAIKHAYPE 242 Query: 261 EYKLAQKLGKVMQNSLGTEVPEEEICFLAMHLRRL 295 YKL+ K+ K++++ L +V E+E +L MH+ R+ Sbjct: 243 SYKLSSKICKLLEDELHKKVVEDETAYLVMHIERI 277 >BS_glcT [K] COG3711 Transcriptional antiterminator Length = 285 Score = 163 bits (412), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 94/274 (34%), Positives = 166/274 (60%), Gaps = 7/274 (2%) Query: 21 FEVLRVIGNNVVMVQGGRKGKEYVIIGKGIGFAVKDTGFIDANDQRIEKLFRLEDRDEWS 80 F V +V+ NNV ++ K E V+IGKGIGF K I+ D+ +K+F L+D E Sbjct: 12 FTVKKVLNNNV-LIASHHKYSEVVLIGKGIGFGKKQDDVIE--DKGYDKMFILKDEKEQK 68 Query: 81 QYQILLEDIDPKVMKITDDIIADIAHEFSGKLNDKIYLALPSHIQFTIYRLRGGMDIVXX 140 Q++ LL+ +D K++ I++D+I I++ + LN+ I++AL HI F I R + G D+ Sbjct: 69 QFKKLLDYVDEKLVDISNDVIYHISNRTNHSLNEHIHIALTDHIAFAIKRQQQGFDM--K 126 Query: 141 XXFLQETKMSFPKEFEIAYRAAEKISAEFNVQIPEDEVGFLTYHVYSAVSNVPVGQLVKA 200 FL ET+ +P+E++IA + I+ + + +PE E+GF+ H++SA++N P+ ++ + Sbjct: 127 NPFLMETQSLYPEEYQIAKEVIDMINEKAGLCLPEGEIGFIALHIHSALTNRPLSEVNQH 186 Query: 201 SNIVSELLDMIREERKVTFVYGSMNHIRLMIHLRFSIERILQGSLIDNP--FVKHIQKEY 258 S ++++L+++I + ++ S+N++RL+ H+RF+IERI + P + ++ EY Sbjct: 187 SQLMAQLVEVIEDSFQMKVNKESVNYLRLIRHIRFTIERIKKEEPTKEPEKLMLLLKNEY 246 Query: 259 KEEYKLAQKLGKVMQNSLGTEVPEEEICFLAMHL 292 Y A KL K++Q +L V E E +L +HL Sbjct: 247 PLCYNTAWKLIKILQQTLKKPVHEAEAVYLTLHL 280 >BH0845 [K] COG3711 Transcriptional antiterminator Length = 276 Score = 155 bits (392), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 155/269 (57%), Gaps = 6/269 (2%) Query: 29 NNVVMVQGGRKGKEYVIIGKGIGFAVKDTGFIDANDQRIEKLFRLEDRDEWSQYQILLED 88 NN V++ E V+IGKG+GF + + + EK F L+D E QY+ LL+ Sbjct: 9 NNNVLIAEHPSYDEVVLIGKGLGFGKRPGD--EVAGESAEKFFVLKDAKEQEQYKQLLDY 66 Query: 89 IDPKVMKITDDIIADIAHEFSGKLNDKIYLALPSHIQFTIYRLRGGMDIVXXXXFLQETK 148 +D + +D I I F +L++ I++AL H+ + I R+ G DI FL ET+ Sbjct: 67 VDESFIGFMNDAIERIEERFQVRLHEHIHVALTDHLFYAIKRINQGFDI--KNPFLTETE 124 Query: 149 MSFPKEFEIAYRAAEKISAEFNVQIPEDEVGFLTYHVYSAVSNVPVGQLVKASNIVSELL 208 +++PKEF++A + + A F++ IP E+GF+ H++SA++ + ++ + + ++SEL+ Sbjct: 125 LAYPKEFDVATEIIQALEAAFHISIPPGEIGFVALHIHSALTRRSLEEVNQHTRLISELV 184 Query: 209 DMIREERKVTFVYGSMNHIRLMIHLRFSIERILQGSLIDNP--FVKHIQKEYKEEYKLAQ 266 +I ++T ++++RL+ HL +IERI +G DN K +++EY Y L+ Sbjct: 185 YVIETSLELTIDRQHVDYLRLVRHLHHAIERIQKGEYNDNQERLKKILKEEYPVCYNLSY 244 Query: 267 KLGKVMQNSLGTEVPEEEICFLAMHLRRL 295 KL K+MQ SL +P+ E +L +HL+RL Sbjct: 245 KLIKIMQQSLKKAIPDAEAVYLTLHLQRL 273 >CAC0569 [K] COG3711 Transcriptional antiterminator Length = 274 Score = 149 bits (377), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 89/276 (32%), Positives = 153/276 (55%), Gaps = 7/276 (2%) Query: 20 QFEVLRVIGNNVVMVQGGRKGKEYVIIGKGIGFAVKDTGFIDANDQRIEKLFRLEDRDEW 79 + V + + NNVV+ + E++I+GKGIGF K I N +IE +F + E Sbjct: 3 SYVVKKALNNNVVIAVKDKY--EFIIVGKGIGFNAKKGSRIPEN--KIENVFIKQSLGE- 57 Query: 80 SQYQILLEDIDPKVMKITDDIIADIAHEFSGKLNDKIYLALPSHIQFTIYRLRGGMDIVX 139 S++ I+L+ ID K++ I ++II +E KLN+ I+ +LP HI F R++ G+ I Sbjct: 58 SKFDIVLKKIDSKIVGICEEIIFLCENELGIKLNEAIHTSLPDHIDFAFTRIKKGIKI-- 115 Query: 140 XXXFLQETKMSFPKEFEIAYRAAEKISAEFNVQIPEDEVGFLTYHVYSAVSNVPVGQLVK 199 FL E +PKE+++A +A + I+ F ++P+DE+GF++ H+ +A+ V V+ Sbjct: 116 ENPFLNEIVALYPKEYKLAEKALDMINKNFTTKLPKDEIGFISMHINAAIERKDVNDTVE 175 Query: 200 ASNIVSELLDMIREERKVTFVYGSMNHIRLMIHLRFSIERILQGSLIDNPFVKHIQKEYK 259 + ++++ I S+ + R + H+ F ++RI I N + I+K+ Sbjct: 176 YMRKIGKVMEFISSALNKDIDKSSLAYERTVTHINFVLDRIKNKKTIKNLLLDSIKKQLY 235 Query: 260 EEYKLAQKLGKVMQNSLGTEVPEEEICFLAMHLRRL 295 EY LA K+ ++N VPE+EI ++AMHL+RL Sbjct: 236 NEYDLAIKVAIKLENLFSVSVPEDEIGYIAMHLKRL 271 Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 27/75 (36%), Positives = 45/75 (60%) Query: 226 HIRLMIHLRFSIERILQGSLIDNPFVKHIQKEYKEEYKLAQKLGKVMQNSLGTEVPEEEI 285 H L H+ F+ RI +G I+NPF+ I Y +EYKLA+K ++ + T++P++EI Sbjct: 95 HTSLPDHIDFAFTRIKKGIKIENPFLNEIVALYPKEYKLAEKALDMINKNFTTKLPKDEI 154 Query: 286 CFLAMHLRRLFQTLD 300 F++MH+ + D Sbjct: 155 GFISMHINAAIERKD 169 >BS_sacY [K] COG3711 Transcriptional antiterminator Length = 280 Score = 144 bits (364), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 81/280 (28%), Positives = 164/280 (58%), Gaps = 10/280 (3%) Query: 22 EVLRVIGNNVVMVQGGRKGKEYVIIGKGIGFAVKDTGFIDANDQRIEKLFRLEDRDEWSQ 81 ++ R++ +N ++V+ + +E +++G GI F K +D + +IEK F +D ++ Q Sbjct: 2 KIKRILNHNAIVVKD--QNEEKILLGAGIAFNKKKNDIVDPS--KIEKTFIRKDTPDYKQ 57 Query: 82 YQILLEDIDPKVMKITDDIIADIAHEFSGKLNDKIYLALPSHIQFTIYRLRGGMDIVXXX 141 ++ +LE + ++I++ II+ E + K+N++I++A H+ F I RL GM V Sbjct: 58 FEEILETLPEDHIQISEQIISHAEKELNIKINERIHVAFSDHLSFAIERLSNGM--VIKN 115 Query: 142 XFLQETKMSFPKEFEIAYRAAEKISAEFNVQIPEDEVGFLTYHVYSAVSNV-PVGQLVKA 200 L E K+ +PKEF+I A I + + IP+DE+G + H+++A +N + Q + Sbjct: 116 PLLNEIKVLYPKEFQIGLWARALIKDKLGIHIPDDEIGNIAMHIHTARNNAGDMTQTLDI 175 Query: 201 SNIVSELLDMIREERKVTFVYGSMNHIRLMIHLRFSIERILQGSLI---DNPFVKHIQKE 257 + ++ +++++I + + V ++++ RL+ HLRF+I+ I G I D + I+++ Sbjct: 176 TTMIRDIIEIIEIQLSINIVEDTISYERLVTHLRFAIQHIKAGESIYELDAEMIDIIKEK 235 Query: 258 YKEEYKLAQKLGKVMQNSLGTEVPEEEICFLAMHLRRLFQ 297 +K+ + A +G ++ G E PE+E+C++AMH++R +Q Sbjct: 236 FKDAFLCALSIGTFVKKEYGFEFPEKELCYIAMHIQRFYQ 275 Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%) Query: 226 HIRLMIHLRFSIERILQGSLIDNPFVKHIQKEYKEEYKLAQKLGKVMQNSLGTEVPEEEI 285 H+ HL F+IER+ G +I NP + I+ Y +E+++ ++++ LG +P++EI Sbjct: 93 HVAFSDHLSFAIERLSNGMVIKNPLLNEIKVLYPKEFQIGLWARALIKDKLGIHIPDDEI 152 Query: 286 CFLAMHLRR-------LFQTLD 300 +AMH+ + QTLD Sbjct: 153 GNIAMHIHTARNNAGDMTQTLD 174 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.323 0.140 0.399 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 20,823,460 Number of extensions: 821954 Number of successful extensions: 1608 Number of sequences better than 1.0e-05: 26 Number of HSP's gapped: 1537 Number of HSP's successfully gapped: 33 Length of query: 307 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 201 Effective length of database: 26,153,027 Effective search space: 5256758427 Effective search space used: 5256758427 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: 115 (48.9 bits)