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= 0294.0001.p (481 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKE1.1 B3KKE1_9BACI Transcription termination factor Rho 800 0.0 B1DK74.1 B1DK74_9BACL Transcription termination factor Rho 753 0.0 C0Z835.1 C0Z835_BREBN Transcription termination factor 698 0.0 C1PVK6.1 C1PVK6_ALIAC Transcription termination factor Rho 674 0.0 B7DPV3.1 B7DPV3_9BACL Transcription termination factor Rho 674 0.0 >B3KKE1.1 B3KKE1_9BACI Transcription termination factor Rho Length = 442 Score = 800 bits (2066), Expect = 0.0, Method: Compositional matrix adjust. Identities = 391/416 (93%), Positives = 403/416 (96%) Query: 1 MDLQISDLEEMKLTDLYKLAKKYQIPYYGTLKKRELIFAILRAQAEQSGLMFMEGVLEIL 60 MDLQI+DLE MKLTDLYKLAKKYQIPYYG LKK+ELIFAILRAQAEQSGLMFMEGVLEIL Sbjct: 1 MDLQIADLEGMKLTDLYKLAKKYQIPYYGQLKKKELIFAILRAQAEQSGLMFMEGVLEIL 60 Query: 61 PEGYGFLRPINYLPSAEDIYISASQIRKFDLRSGDLVSGKCRTPKENERYFGLLQVNAVN 120 PEGYGFLRPINYLPS EDIYISASQIRKFDLR+GDLVSGKCRTPKENERYFGLLQVNAVN Sbjct: 61 PEGYGFLRPINYLPSTEDIYISASQIRKFDLRTGDLVSGKCRTPKENERYFGLLQVNAVN 120 Query: 121 GENPASAAERLHFPALTPLYPQDKLPLETSPTQLSTRIMDLLAPVGLGQRGLIVAPPKAG 180 GENPA AAERLHFPALTPLYPQ+KL LETSP QLSTRIMDLLAPVGLGQRGLIVAPPKAG Sbjct: 121 GENPAVAAERLHFPALTPLYPQEKLVLETSPNQLSTRIMDLLAPVGLGQRGLIVAPPKAG 180 Query: 181 KTLLLKEIANSISTNNPEIALFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVA 240 KTLLLKEIANSISTNNPEI LFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVA Sbjct: 181 KTLLLKEIANSISTNNPEIELFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVA 240 Query: 241 ELVLQRALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGS 300 ELVL RALRLVEHKKDVVILLDSITRLARAYNLV+PPSGRTLSGGIDPAAFHRPKRFFGS Sbjct: 241 ELVLSRALRLVEHKKDVVILLDSITRLARAYNLVIPPSGRTLSGGIDPAAFHRPKRFFGS 300 Query: 301 ARNVEEGGSLTILATALIDTGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRS 360 ARNVEEGGSLTILATAL++TGSRMDDIIYEEFKGTGNMELHLDR+ AERRIFPAIDIRRS Sbjct: 301 ARNVEEGGSLTILATALVETGSRMDDIIYEEFKGTGNMELHLDRRFAERRIFPAIDIRRS 360 Query: 361 GTRREEVLLSKEELDTIWAIRKNMNESYDFVEGFLKKLRDSKTNAEFLASFDVAGN 416 GTRREEVLL+K+ELDTIWAIRKNMN+S DFVEGFLKK+RDSK NAEFLASFDV N Sbjct: 361 GTRREEVLLNKDELDTIWAIRKNMNDSADFVEGFLKKMRDSKNNAEFLASFDVNAN 416 >B1DK74.1 B1DK74_9BACL Transcription termination factor Rho Length = 449 Score = 753 bits (1945), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/416 (87%), Positives = 395/416 (94%) Query: 2 DLQISDLEEMKLTDLYKLAKKYQIPYYGTLKKRELIFAILRAQAEQSGLMFMEGVLEILP 61 DLQISDLEEMKLT+LYKLAK+YQIPYYG LKK+ELIFAILRAQAE+SGLMFM+GVLE LP Sbjct: 3 DLQISDLEEMKLTELYKLAKQYQIPYYGQLKKKELIFAILRAQAEKSGLMFMQGVLETLP 62 Query: 62 EGYGFLRPINYLPSAEDIYISASQIRKFDLRSGDLVSGKCRTPKENERYFGLLQVNAVNG 121 EG+GFLRPINYLPS EDIYISASQIRKFDLR+GDLVSGKCR PK++E+YFGLLQVNAVNG Sbjct: 63 EGFGFLRPINYLPSKEDIYISASQIRKFDLRTGDLVSGKCRLPKDSEKYFGLLQVNAVNG 122 Query: 122 ENPASAAERLHFPALTPLYPQDKLPLETSPTQLSTRIMDLLAPVGLGQRGLIVAPPKAGK 181 +PA AAERLHFPALTPLYPQ KL LET+ ++LSTRIMDLLAPVGLGQRGLIVAPPKAGK Sbjct: 123 TDPAQAAERLHFPALTPLYPQKKLVLETASSKLSTRIMDLLAPVGLGQRGLIVAPPKAGK 182 Query: 182 TLLLKEIANSISTNNPEIALFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAE 241 TLLLKEIANSISTN+P+I LFVLLIDERPEEVTDMQRSVKGEV+ASTFDE+PENHIKVAE Sbjct: 183 TLLLKEIANSISTNHPDIELFVLLIDERPEEVTDMQRSVKGEVIASTFDEVPENHIKVAE 242 Query: 242 LVLQRALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGSA 301 LVL+RALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFG+A Sbjct: 243 LVLERALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGAA 302 Query: 302 RNVEEGGSLTILATALIDTGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSG 361 RNVEEGGSLTILATALI+TGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPA+DIRRSG Sbjct: 303 RNVEEGGSLTILATALIETGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPALDIRRSG 362 Query: 362 TRREEVLLSKEELDTIWAIRKNMNESYDFVEGFLKKLRDSKTNAEFLASFDVAGNK 417 TRREE+LLSKEELD +W +R+NM ++ DFV+GFLKKL DSKTN EFL S D + K Sbjct: 363 TRREEMLLSKEELDKLWVVRRNMTDTPDFVDGFLKKLADSKTNEEFLMSLDTSEEK 418 >C0Z835.1 C0Z835_BREBN Transcription termination factor Length = 426 Score = 698 bits (1802), Expect = 0.0, Method: Compositional matrix adjust. Identities = 345/408 (84%), Positives = 382/408 (93%) Query: 5 ISDLEEMKLTDLYKLAKKYQIPYYGTLKKRELIFAILRAQAEQSGLMFMEGVLEILPEGY 64 +S+LEE KLTDLYKLAK+Y IPYY LKK+ELIFAILRA+AE+ GLMFMEGVLEILPEGY Sbjct: 3 LSELEEKKLTDLYKLAKEYHIPYYSQLKKKELIFAILRARAERDGLMFMEGVLEILPEGY 62 Query: 65 GFLRPINYLPSAEDIYISASQIRKFDLRSGDLVSGKCRTPKENERYFGLLQVNAVNGENP 124 GFLRPINYLPS+EDIYIS SQIR+FDLR GD+VSGK R PKENERYFGLLQV AVNGE+P Sbjct: 63 GFLRPINYLPSSEDIYISQSQIRRFDLRMGDVVSGKARPPKENERYFGLLQVEAVNGEDP 122 Query: 125 ASAAERLHFPALTPLYPQDKLPLETSPTQLSTRIMDLLAPVGLGQRGLIVAPPKAGKTLL 184 +AAERLHFPALTPLYPQ KL LET+P ++STR+MDLL+PVGLGQRGLIVAPPKAGKT+L Sbjct: 123 ETAAERLHFPALTPLYPQTKLVLETAPERVSTRLMDLLSPVGLGQRGLIVAPPKAGKTML 182 Query: 185 LKEIANSISTNNPEIALFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAELVL 244 +KEIANSI+ + P+I LFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAELVL Sbjct: 183 IKEIANSITESRPDIHLFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAELVL 242 Query: 245 QRALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGSARNV 304 +RA RLVEHKKDVVILLDSITRLARAYNLV+PPSGRTLSGGIDPAAFHRPKRFFGSARN+ Sbjct: 243 ERAKRLVEHKKDVVILLDSITRLARAYNLVIPPSGRTLSGGIDPAAFHRPKRFFGSARNI 302 Query: 305 EEGGSLTILATALIDTGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSGTRR 364 EEGGSLTILATAL++TGSRMDD+IYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSGTRR Sbjct: 303 EEGGSLTILATALVETGSRMDDVIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSGTRR 362 Query: 365 EEVLLSKEELDTIWAIRKNMNESYDFVEGFLKKLRDSKTNAEFLASFD 412 EE+LL+KEELD +W IRKNMNE+ +FV+ F+KKL D+KTN EFL + + Sbjct: 363 EELLLTKEELDKLWMIRKNMNETNEFVDSFIKKLADTKTNEEFLQTLE 410 >C1PVK6.1 C1PVK6_ALIAC Transcription termination factor Rho Length = 434 Score = 674 bits (1740), Expect = 0.0, Method: Compositional matrix adjust. Identities = 318/411 (77%), Positives = 371/411 (90%) Query: 3 LQISDLEEMKLTDLYKLAKKYQIPYYGTLKKRELIFAILRAQAEQSGLMFMEGVLEILPE 62 + I +LEE KLT+LYK A+++QIP+YG++KK+ELIFAIL+AQAE+ GLMF EGVLEI+PE Sbjct: 1 MDIRELEEKKLTELYKYAREFQIPHYGSMKKKELIFAILKAQAERDGLMFAEGVLEIMPE 60 Query: 63 GYGFLRPINYLPSAEDIYISASQIRKFDLRSGDLVSGKCRTPKENERYFGLLQVNAVNGE 122 GYGFLRP+ YLPS EDIY++ASQIR+FDLR+GDLVSGK R PKENERYFGLL V AVNG Sbjct: 61 GYGFLRPVGYLPSQEDIYVAASQIRRFDLRTGDLVSGKVRPPKENERYFGLLHVEAVNGY 120 Query: 123 NPASAAERLHFPALTPLYPQDKLPLETSPTQLSTRIMDLLAPVGLGQRGLIVAPPKAGKT 182 +P AAERLHF ALTPL+P ++ LET+P L+TR++DL AP+G GQRG+IVAPPKAGKT Sbjct: 121 SPEVAAERLHFAALTPLFPSKRIVLETTPENLATRLIDLFAPIGFGQRGMIVAPPKAGKT 180 Query: 183 LLLKEIANSISTNNPEIALFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAEL 242 +LLKEIA+SI+TN P++ LFVLLIDERPEEVTDMQRSVKGEV+ASTFDE+PENHIKV+EL Sbjct: 181 VLLKEIAHSIATNYPDVHLFVLLIDERPEEVTDMQRSVKGEVIASTFDEVPENHIKVSEL 240 Query: 243 VLQRALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGSAR 302 VL+RALRLVEHK+DVVILLDS+TRL RAYNLVVPPSGRTLSGGIDPAAFHRPKRFFG+AR Sbjct: 241 VLERALRLVEHKQDVVILLDSLTRLTRAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGAAR 300 Query: 303 NVEEGGSLTILATALIDTGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSGT 362 NVEEGGSLTILATALIDTGSRMDD+IYEEFKGTGNMELHLDR+LAE+R+FP+IDIRRSGT Sbjct: 301 NVEEGGSLTILATALIDTGSRMDDVIYEEFKGTGNMELHLDRRLAEKRVFPSIDIRRSGT 360 Query: 363 RREEVLLSKEELDTIWAIRKNMNESYDFVEGFLKKLRDSKTNAEFLASFDV 413 RREE L+ KEEL+ +WAIRK+M ++ DF E FL+K R KTN EFL S + Sbjct: 361 RREEALMPKEELEKVWAIRKSMGDNQDFTEMFLRKFRHYKTNKEFLDSLSL 411 >B7DPV3.1 B7DPV3_9BACL Transcription termination factor Rho Length = 434 Score = 674 bits (1739), Expect = 0.0, Method: Compositional matrix adjust. Identities = 318/411 (77%), Positives = 371/411 (90%) Query: 3 LQISDLEEMKLTDLYKLAKKYQIPYYGTLKKRELIFAILRAQAEQSGLMFMEGVLEILPE 62 + I +LEE KLT+LYK A+++QIP+YG++KK+ELIFAIL+AQAE+ GLMF EGVLEI+PE Sbjct: 1 MDIRELEEKKLTELYKYAREFQIPHYGSMKKKELIFAILKAQAERDGLMFAEGVLEIMPE 60 Query: 63 GYGFLRPINYLPSAEDIYISASQIRKFDLRSGDLVSGKCRTPKENERYFGLLQVNAVNGE 122 GYGFLRP+ YLPS EDIY++ASQIR+FDLR+GDLVSGK R PKENERYFGLL V AVNG Sbjct: 61 GYGFLRPVGYLPSQEDIYVAASQIRRFDLRTGDLVSGKVRPPKENERYFGLLHVEAVNGY 120 Query: 123 NPASAAERLHFPALTPLYPQDKLPLETSPTQLSTRIMDLLAPVGLGQRGLIVAPPKAGKT 182 +P AAERLHF ALTPL+P ++ LET+P L+TR++DL AP+G GQRG+IVAPPKAGKT Sbjct: 121 SPEVAAERLHFAALTPLFPSKRIVLETTPENLATRLIDLFAPIGFGQRGMIVAPPKAGKT 180 Query: 183 LLLKEIANSISTNNPEIALFVLLIDERPEEVTDMQRSVKGEVVASTFDELPENHIKVAEL 242 +LLKEIA+SI+TN P++ LFVLLIDERPEEVTDMQRSVKGEV+ASTFDE+PENHIKV+EL Sbjct: 181 VLLKEIAHSIATNYPDVHLFVLLIDERPEEVTDMQRSVKGEVIASTFDEVPENHIKVSEL 240 Query: 243 VLQRALRLVEHKKDVVILLDSITRLARAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGSAR 302 VL+RALRLVEHK+DVVILLDS+TRL RAYNLVVPPSGRTLSGGIDPAAFHRPKRFFG+AR Sbjct: 241 VLERALRLVEHKQDVVILLDSLTRLTRAYNLVVPPSGRTLSGGIDPAAFHRPKRFFGAAR 300 Query: 303 NVEEGGSLTILATALIDTGSRMDDIIYEEFKGTGNMELHLDRKLAERRIFPAIDIRRSGT 362 NVEEGGSLTILATALIDTGSRMDD+IYEEFKGTGNMELHLDR+LAE+R+FP+IDIRRSGT Sbjct: 301 NVEEGGSLTILATALIDTGSRMDDVIYEEFKGTGNMELHLDRRLAEKRVFPSIDIRRSGT 360 Query: 363 RREEVLLSKEELDTIWAIRKNMNESYDFVEGFLKKLRDSKTNAEFLASFDV 413 RREE L+ KEEL+ +WAIRK+M ++ DF E FL+K R KTN EFL S + Sbjct: 361 RREEALMPKEELEKVWAIRKSMGDNQDFTEMFLRKFRHYKTNKEFLDSLSL 411 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 0.137 0.384 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: 2,517,128,159 Number of extensions: 105424348 Number of successful extensions: 322318 Number of sequences better than 1.0e-05: 2703 Number of HSP's gapped: 321480 Number of HSP's successfully gapped: 2713 Length of query: 481 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 341 Effective length of database: 1,741,754,103 Effective search space: 593938149123 Effective search space used: 593938149123 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: 133 (55.8 bits)