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= 0320.0006.p (278 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC1406 [K] COG3711 Transcriptional antiterminator 377 e-104 BS_licT [K] COG3711 Transcriptional antiterminator 244 8e-65 BH0297 [K] COG3711 Transcriptional antiterminator 239 3e-63 CAC0422 [K] COG3711 Transcriptional antiterminator 208 7e-54 bglG [K] COG3711 Transcriptional antiterminator 204 1e-52 >CAC1406 [K] COG3711 Transcriptional antiterminator Length = 277 Score = 377 bits (968), Expect = e-104, Method: Compositional matrix adjust. Identities = 181/276 (65%), Positives = 227/276 (82%), Gaps = 1/276 (0%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I+KIFNNNAI+A++S + E VVMG GI FKKN+G++V++ LIEK FILK K+ASEKFK Sbjct: 1 MTIKKIFNNNAIIAENSDKHEFVVMGCGIAFKKNIGEKVDERLIEKTFILKGKDASEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 +LLEDVP+EYVS+CYDIIEY KN+L L+D+IYVTLTDH+ N FKM + GI NPL+W Sbjct: 61 MLLEDVPTEYVSVCYDIIEYAKNVLDAKLNDHIYVTLTDHVSNCFKMIESGIIIHNPLIW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 EIKK YPKEF VGLKA++FI+D GK LPEDEA NIALHLINAQ+++S + D A Q + Sbjct: 121 EIKKFYPKEFKVGLKAIDFIKDELGKDLPEDEAANIALHLINAQINNSLNNVEDAAKQAK 180 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMEL-EDDFLLRQVKAKY 239 IQDILNI+KYTYN LDE+SIS+ERF+THLRFFF RI + + ++ E+DFLL+QV+ KY Sbjct: 181 MIQDILNIVKYTYNIVLDEKSISYERFVTHLRFFFHRIDKSETVDTAEEDFLLKQVREKY 240 Query: 240 KKAYSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTER 275 K AY CMLK++KYL LSDEEKLYLT+H+ RV+++ Sbjct: 241 KDAYQCMLKVQKYLGKELSDEEKLYLTVHIQRVSKK 276 >BS_licT [K] COG3711 Transcriptional antiterminator Length = 277 Score = 244 bits (624), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 129/279 (46%), Positives = 181/279 (64%), Gaps = 7/279 (2%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I K+ NNN I + Q +ELVVMGRG+ F+K GD+V++ IEKVF L K+ SEKFK Sbjct: 1 MKIAKVINNNVISVVNEQGKELVVMGRGLAFQKKSGDDVDEARIEKVFTLDNKDVSEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 LL D+P E + + +II Y K LG L+D IYV+LTDHI + + G+ N LLW Sbjct: 61 TLLYDIPIECMEVSEEIIHYAKLQLGKKLNDSIYVSLTDHINFAIQRNQKGLDIKNALLW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 E K++Y EFA+G +AL +++ G LPEDEAG IALH++NA+L N ++ T+ Sbjct: 121 ETKRLYKDEFAIGKEALVMVKNKTGVSLPEDEAGFIALHIVNAEL---NEEMPNIINITK 177 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMELEDDFLLRQVKAKYK 240 +Q+IL+I+KY + +E+S+ + RF+THL+FF QR+ ME +DDFLL VK KY Sbjct: 178 VMQEILSIVKYHFKIEFNEESLHYYRFVTHLKFFAQRLFNGTHMESQDDFLLDTVKEKYH 237 Query: 241 KAYSCMLKIEKYLNT----GLSDEEKLYLTIHVHRVTER 275 +AY C KI+ Y+ L+ +E LYLTIH+ RV ++ Sbjct: 238 RAYECTKKIQTYIEREYEHKLTSDELLYLTIHIERVVKQ 276 >BH0297 [K] COG3711 Transcriptional antiterminator Length = 277 Score = 239 bits (611), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 123/263 (46%), Positives = 177/263 (67%), Gaps = 7/263 (2%) Query: 18 QRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFKLLLEDVPSEYVSLCYDI 77 Q+QEL+V GRGIGF+K GDE+E+E I+KVF LK + SEKFK LL +VP EY+ + +I Sbjct: 18 QKQELIVTGRGIGFQKKRGDELEEEKIDKVFSLKDRAVSEKFKSLLYEVPMEYMEVTEEI 77 Query: 78 IEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLWEIKKIYPKEFAVGLKAL 137 I Y K L L+D IY++LTDHI + +GI + LLWE++++Y +EFA+G++AL Sbjct: 78 ISYAKEKLAKDLNDSIYISLTDHINFALERFQNGITISHGLLWELRRLYKEEFAIGMEAL 137 Query: 138 EFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQKIQDILNIIKYTYNNNL 197 I+D G +LPEDEAG I H+INA+L+ S++ T+ + D+LNI++Y + Sbjct: 138 RIIKDRLGIELPEDEAGFITTHIINAELNEGMPNISNI---TKVVHDLLNIVRYHFKMEY 194 Query: 198 DEQSISFERFITHLRFFFQRIHQKKKMELEDDFLLRQVKAKYKKAYSCMLKIEKYLNTG- 256 DE S++F RF+THL+FF QR+ + +DDFLL+ VK + +AY C LKI ++L Sbjct: 195 DEDSLTFFRFVTHLKFFAQRLLSGTSLNSKDDFLLQIVKENHSEAYDCTLKIGEFLKAQY 254 Query: 257 ---LSDEEKLYLTIHVHRVTERQ 276 L+ EE+LYLTIH+ RV R+ Sbjct: 255 HYELTKEEQLYLTIHIERVVNRK 277 >CAC0422 [K] COG3711 Transcriptional antiterminator Length = 282 Score = 208 bits (530), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 112/278 (40%), Positives = 180/278 (64%), Gaps = 9/278 (3%) Query: 1 MIIQKIFNNNAIVA-KDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKF 59 M+I+KI NN+A+ D+ R E V+MG+GI F+K GD + +E IEK+F ++ + + KF Sbjct: 1 MVIKKILNNSAVTTIDDATRIEKVIMGKGIAFQKKPGDILNEEKIEKIFSIENQNENLKF 60 Query: 60 KLLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLL 119 + L+ ++P E++ + +II Y K L V ++IY++LTDH+ F+ + GI+ N +L Sbjct: 61 QSLISEIPIEHIKVSENIISYAKRKLDVKFDEHIYISLTDHLSFAFRRYSKGIKIKNNML 120 Query: 120 WEIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQT 179 W+IK+IY KE+ +G+ A+E+I+ G K+ EDEAG IALH+I+A L+ S T ++ T Sbjct: 121 WDIKRIYKKEYNIGMWAVEYIKGELGIKMDEDEAGFIALHIIDASLNESMDNTINI---T 177 Query: 180 QKIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQR-IHQKKKMELEDDFLLRQVKAK 238 + I ILNIIKY ++ +E +S++R +THL++F QR + +K ++ E+ L VK Sbjct: 178 EIIDGILNIIKYFFSIEFNEDDMSYDRLLTHLKYFAQRVVSRKNAIDEEEKSFLEIVKTN 237 Query: 239 YKKAYSCMLKIEKYLNTGLSDEEK----LYLTIHVHRV 272 YK+AY C+ KI+ ++ E K +YLT+HV RV Sbjct: 238 YKEAYRCVGKIKSFIEKNYDYEVKGGEIVYLTLHVQRV 275 >bglG [K] COG3711 Transcriptional antiterminator Length = 278 Score = 204 bits (519), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 108/276 (39%), Positives = 166/276 (60%), Gaps = 8/276 (2%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I KI NNN +V D Q++E VVMGRGIGF+K G+ + IEK + L E + + Sbjct: 3 MQITKILNNNVVVVIDDQQREKVVMGRGIGFQKRAGERINSSGIEKEYALSSHELNGRLS 62 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 LL +P E ++ C II + LG L D IY++LTDH K + PNPLLW Sbjct: 63 ELLSHIPLEVMATCDRIISLAQERLG-KLQDSIYISLTDHCQFAIKRFQQNVLLPNPLLW 121 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 +I+++YPKEF +G +AL I+ G +LP+DE G IA+HL++AQ+S + DVAG TQ Sbjct: 122 DIQRLYPKEFQLGEEALTIIDKRLGVQLPKDEVGFIAMHLVSAQMSGN---MEDVAGVTQ 178 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMELEDDFLLRQVKAKYK 240 ++++L +IK+ ++ N E+S+S++R +THL+F RI + + D+ L + VK Y Sbjct: 179 LMREMLQLIKFQFSLNYQEESLSYQRLVTHLKFLSWRILEHASINDSDESLQQAVKQNYP 238 Query: 241 KAYSCMLKIEKYLN----TGLSDEEKLYLTIHVHRV 272 +A+ C +I ++ +S E ++L I++ RV Sbjct: 239 QAWQCAERIAIFIGLQYQRKISPAEIMFLAINIERV 274 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 0.319 0.137 0.382 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: 19,843,798 Number of extensions: 806115 Number of successful extensions: 2373 Number of sequences better than 1.0e-05: 18 Number of HSP's gapped: 2330 Number of HSP's successfully gapped: 18 Length of query: 278 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 173 Effective length of database: 26,268,361 Effective search space: 4544426453 Effective search space used: 4544426453 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 (21.7 bits) S2: 115 (48.9 bits)