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= 0412.0018.p (264 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q65MM9.1 Q65MM9_BACLD Transcriptional antiterminator (BglG family) 357 8e-97 A8FJ69.1 A8FJ69_BACP2 BglG family transcriptional antiterminator 356 9e-97 B4AK22.1 B4AK22_BACPU BglG family transcriptional antiterminator 353 6e-96 B9Y6T9.1 B9Y6T9_9FIRM Putative uncharacterized protein 279 2e-73 B1MZ35.1 B1MZ35_LEUCK Transcriptional antiterminator bglG:CAT RN... 273 8e-72 >Q65MM9.1 Q65MM9_BACLD Transcriptional antiterminator (BglG family) Length = 282 Score = 357 bits (915), Expect = 8e-97, Method: Compositional matrix adjust. Identities = 170/254 (66%), Positives = 210/254 (82%) Query: 4 VIKIKKVLNSSVVLVEDEQNKEYILFGKGIGYGQKEGNIVEEHKADQVFVPVENVKVKEY 63 + KIKKVLNSSVVL D+ +E +L G+GIGYG+K GN++EE +ADQVF+PV+N+K KE+ Sbjct: 1 MFKIKKVLNSSVVLAVDQNRQEMVLCGRGIGYGRKPGNMIEEKQADQVFMPVDNMKAKEF 60 Query: 64 LSVLDTTPPVYAELTGRIVAYAERKLQTKLNTGIYFTLMDHLLFAVERYYKKIAITNKVF 123 L +LD+ P + ELT +IV +AE +L+TKLN+G+YFTLMDHL FAVERY K I ITN+V+ Sbjct: 61 LQLLDSIPQEFIELTQQIVQHAEERLKTKLNSGVYFTLMDHLNFAVERYKKNINITNRVY 120 Query: 124 WEIKNYYAEEYEIGLFALKLIKEKLQIEMPKEEAANIAFHLINAQSGEKESKDGMKMAKM 183 WEIKNYY EE+E G +AL+LI E I++PKEEAANIAFHLINA E ESKDGMK AKM Sbjct: 121 WEIKNYYTEEFEAGNYALQLINETFGIQLPKEEAANIAFHLINALGEETESKDGMKNAKM 180 Query: 184 IGSIVNLVRYSMNIDMDTENVHYTRFVTHVKFFVERLYTDKMLEVTDNILFEQIASLYPQ 243 IGSIVNLVRY++N+ +D EN+HY+RF+THVKFFVER Y DK+L +N LFEQIA+LYPQ Sbjct: 181 IGSIVNLVRYTLNMKLDQENIHYSRFITHVKFFVERFYADKLLANQENELFEQIANLYPQ 240 Query: 244 AMDGAFKIKEYINQ 257 AMD AFKIK+YI Q Sbjct: 241 AMDVAFKIKDYIKQ 254 >A8FJ69.1 A8FJ69_BACP2 BglG family transcriptional antiterminator Length = 282 Score = 356 bits (914), Expect = 9e-97, Method: Compositional matrix adjust. Identities = 166/254 (65%), Positives = 209/254 (82%) Query: 4 VIKIKKVLNSSVVLVEDEQNKEYILFGKGIGYGQKEGNIVEEHKADQVFVPVENVKVKEY 63 + KIKKVLNSSVVL ED+ +E +LFG+GIGYGQK G ++EE KADQVF+ V+N++ KE+ Sbjct: 1 MFKIKKVLNSSVVLAEDQNQQEMVLFGRGIGYGQKPGQMIEEKKADQVFMSVDNMRAKEF 60 Query: 64 LSVLDTTPPVYAELTGRIVAYAERKLQTKLNTGIYFTLMDHLLFAVERYYKKIAITNKVF 123 L +LD+ P + +LT RIV YAE++L + LN+G+YFTLMDHL FAVER+ K I ITN+V+ Sbjct: 61 LQLLDSMPQEFIDLTQRIVQYAEKRLNSSLNSGVYFTLMDHLNFAVERHKKNINITNRVY 120 Query: 124 WEIKNYYAEEYEIGLFALKLIKEKLQIEMPKEEAANIAFHLINAQSGEKESKDGMKMAKM 183 WEIKNYY EE+E+G +AL+L+ + L I++PKEEAANIAFHLINA E +SKD MK AKM Sbjct: 121 WEIKNYYTEEFEVGKYALELVNDTLSIQLPKEEAANIAFHLINALGEESDSKDSMKYAKM 180 Query: 184 IGSIVNLVRYSMNIDMDTENVHYTRFVTHVKFFVERLYTDKMLEVTDNILFEQIASLYPQ 243 IGSIVNLVRY++N+ MD EN+HY+RF+THVKFFVER Y +K+L +N LFEQIA LYPQ Sbjct: 181 IGSIVNLVRYTLNMKMDQENIHYSRFITHVKFFVERFYANKLLSDQENELFEQIAHLYPQ 240 Query: 244 AMDGAFKIKEYINQ 257 AMD AFKIK+YI Q Sbjct: 241 AMDVAFKIKDYIKQ 254 >B4AK22.1 B4AK22_BACPU BglG family transcriptional antiterminator Length = 282 Score = 353 bits (907), Expect = 6e-96, Method: Compositional matrix adjust. Identities = 165/254 (64%), Positives = 209/254 (82%) Query: 4 VIKIKKVLNSSVVLVEDEQNKEYILFGKGIGYGQKEGNIVEEHKADQVFVPVENVKVKEY 63 + KIKKVLNSSVVL ED+ +E +LFG+GIGYGQK G ++EE KADQVF+ V+N++ KE+ Sbjct: 1 MFKIKKVLNSSVVLAEDQNQQEMVLFGRGIGYGQKPGQMIEEKKADQVFMSVDNMRAKEF 60 Query: 64 LSVLDTTPPVYAELTGRIVAYAERKLQTKLNTGIYFTLMDHLLFAVERYYKKIAITNKVF 123 L +LD+ P + +LT RIV YAE++L + LN+G+YFTLMDHL FAVER+ K I ITN+V+ Sbjct: 61 LQLLDSMPQEFIDLTQRIVQYAEKRLNSNLNSGVYFTLMDHLNFAVERHKKNINITNRVY 120 Query: 124 WEIKNYYAEEYEIGLFALKLIKEKLQIEMPKEEAANIAFHLINAQSGEKESKDGMKMAKM 183 WEIKNYY EE+E+G +AL+L+ + L I++PKEEAANIAFHLINA E +SKD MK AKM Sbjct: 121 WEIKNYYTEEFEVGKYALELVNDTLGIQLPKEEAANIAFHLINALGEESDSKDSMKYAKM 180 Query: 184 IGSIVNLVRYSMNIDMDTENVHYTRFVTHVKFFVERLYTDKMLEVTDNILFEQIASLYPQ 243 IGSIVNLVRY++N+ MD +N+HY+RF+THVKFFVER Y +K+L +N LFEQIA LYPQ Sbjct: 181 IGSIVNLVRYTLNMKMDQDNIHYSRFITHVKFFVERFYANKLLSDQENELFEQIAHLYPQ 240 Query: 244 AMDGAFKIKEYINQ 257 AMD AFKIK+YI Q Sbjct: 241 AMDVAFKIKDYIKQ 254 >B9Y6T9.1 B9Y6T9_9FIRM Putative uncharacterized protein Length = 279 Score = 279 bits (713), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 123/251 (49%), Positives = 189/251 (75%) Query: 5 IKIKKVLNSSVVLVEDEQNKEYILFGKGIGYGQKEGNIVEEHKADQVFVPVENVKVKEYL 64 ++IKKVLNSSVVLVED+ ++E IL GKGIGYGQK GN++ + + +QVF+PV+N + ++ + Sbjct: 1 MRIKKVLNSSVVLVEDDAHQESILLGKGIGYGQKPGNVIAQRQENQVFLPVDNARSRQIV 60 Query: 65 SVLDTTPPVYAELTGRIVAYAERKLQTKLNTGIYFTLMDHLLFAVERYYKKIAITNKVFW 124 ++++ P EL IV A+++L+T L + F L DHL FA+ER + ITN+VFW Sbjct: 61 ELVNSLPVAILELAQEIVIDAQQRLKTPLGENLVFVLADHLNFALERIRTGMVITNRVFW 120 Query: 125 EIKNYYAEEYEIGLFALKLIKEKLQIEMPKEEAANIAFHLINAQSGEKESKDGMKMAKMI 184 EIK++Y +E+E GL A++ ++++L +E+P++EAANIAFHL NAQ+G D + AK+I Sbjct: 121 EIKSFYPQEFEAGLHAVEQVRQRLGVELPEQEAANIAFHLANAQAGSDPDYDAARNAKLI 180 Query: 185 GSIVNLVRYSMNIDMDTENVHYTRFVTHVKFFVERLYTDKMLEVTDNILFEQIASLYPQA 244 G ++NLVRYS+N ++D++++H RF+TH+KFFV+R +TDK+L+ D++LFEQI + YP+ Sbjct: 181 GELINLVRYSLNRELDSQSIHTARFITHIKFFVDRFFTDKLLQNDDDLLFEQIKTRYPKE 240 Query: 245 MDGAFKIKEYI 255 + A KIK Y+ Sbjct: 241 LGVALKIKSYL 251 >B1MZ35.1 B1MZ35_LEUCK Transcriptional antiterminator bglG:CAT RNA-binding region Length = 286 Score = 273 bits (699), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 126/249 (50%), Positives = 183/249 (73%) Query: 7 IKKVLNSSVVLVEDEQNKEYILFGKGIGYGQKEGNIVEEHKADQVFVPVENVKVKEYLSV 66 +KK LN++ V+ D Q +E+ILFGKGIGYG+K G+ V+E +Q F+P+ N ++KEY+ + Sbjct: 3 VKKSLNANAVIAVDNQQQEFILFGKGIGYGKKNGDKVDESIVNQTFMPLNNTEIKEYVQL 62 Query: 67 LDTTPPVYAELTGRIVAYAERKLQTKLNTGIYFTLMDHLLFAVERYYKKIAITNKVFWEI 126 L+ P + T RIV+ AE++L TKLN +Y L DHL FA+ER I ITN+ FWE+ Sbjct: 63 LEAIPITILDATRRIVSEAEKRLNTKLNPMLYIMLSDHLNFAIERAMTGINITNRAFWEM 122 Query: 127 KNYYAEEYEIGLFALKLIKEKLQIEMPKEEAANIAFHLINAQSGEKESKDGMKMAKMIGS 186 KNYY EE+++GLFAL++I++++ I +P+EEAANIAFHLINAQ+ E KDG+ A +I S Sbjct: 123 KNYYPEEFDLGLFALQVIEQQMNIVLPEEEAANIAFHLINAQTAEGIKKDGLNYANLISS 182 Query: 187 IVNLVRYSMNIDMDTENVHYTRFVTHVKFFVERLYTDKMLEVTDNILFEQIASLYPQAMD 246 + ++R+SM ++D E+VHY RF+TH+KFF ER + DKML ++ LFE +A+ YP+A + Sbjct: 183 MTTILRHSMGQNIDIESVHYQRFITHLKFFAERFFADKMLIDDNSKLFETVATAYPKATE 242 Query: 247 GAFKIKEYI 255 AF IK+Y+ Sbjct: 243 VAFTIKDYL 251 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 0.319 0.136 0.376 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: 1,441,638,297 Number of extensions: 58206647 Number of successful extensions: 165538 Number of sequences better than 1.0e-05: 692 Number of HSP's gapped: 164715 Number of HSP's successfully gapped: 701 Length of query: 264 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 131 Effective length of database: 1,807,701,208 Effective search space: 236808858248 Effective search space used: 236808858248 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: 130 (54.7 bits)