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= 0188.0083.p (177 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKI5.1 B3KKI5_9BACI Transcription antitermination protein nusG 307 2e-82 B1DJZ0.1 B1DJZ0_9BACL Transcription antitermination protein nusG 291 1e-77 A8W1H6.1 A8W1H6_9BACI Transcription antitermination protein nusG 250 4e-65 Q9KGE7.1 NUSG_BACHD Transcription antitermination protein nusG 248 2e-64 Q5WLS6.1 Q5WLS6_BACSK Transcription antitermination protein nusG 247 3e-64 >B3KKI5.1 B3KKI5_9BACI Transcription antitermination protein nusG Length = 177 Score = 307 bits (787), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 153/177 (86%), Positives = 160/177 (90%) Query: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEELVNKDGKKKTVMRKV 60 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEE+VNKDGKKKTVMRKV Sbjct: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEEIVNKDGKKKTVMRKV 60 Query: 61 YPGYVLVEMVQTDDSWYVVRNTPXXXXXXXXXXXXXKPTALLPEEVEQILKHMGMVEPKA 120 YPGYVLVEM+QTDDSWYVVRNTP KPT LLPEEVEQILKHMGM EPK Sbjct: 61 YPGYVLVEMIQTDDSWYVVRNTPGVTGFVGSTGSGSKPTPLLPEEVEQILKHMGMEEPKP 120 Query: 121 KIDFEIKESVRIMVGPFANFVGSVEEILADKSKIKVHVNMFGRETPLELDFTQVEKI 177 KI+F+IKESVRI VGPFANFVGSVEEILA+KSK+KVHVNMFGRETPLELD+TQVEKI Sbjct: 121 KIEFDIKESVRIKVGPFANFVGSVEEILAEKSKLKVHVNMFGRETPLELDYTQVEKI 177 >B1DJZ0.1 B1DJZ0_9BACL Transcription antitermination protein nusG Length = 177 Score = 291 bits (746), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 142/177 (80%), Positives = 157/177 (88%) Query: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEELVNKDGKKKTVMRKV 60 MEKRWYVVHTY+GYENKVKANLE+R+ESMGMEDKIFRVLVPMEEE+V KDGKKKTV RKV Sbjct: 1 MEKRWYVVHTYAGYENKVKANLERRLESMGMEDKIFRVLVPMEEEVVEKDGKKKTVQRKV 60 Query: 61 YPGYVLVEMVQTDDSWYVVRNTPXXXXXXXXXXXXXKPTALLPEEVEQILKHMGMVEPKA 120 YPGYVLVEMVQTDDSWYVVRNTP KP AL+P+EVEQILKHMGM EPK Sbjct: 61 YPGYVLVEMVQTDDSWYVVRNTPGVTGFVGSTGSGSKPIALMPDEVEQILKHMGMEEPKP 120 Query: 121 KIDFEIKESVRIMVGPFANFVGSVEEILADKSKIKVHVNMFGRETPLELDFTQVEKI 177 KI+F++KE+VR+ VGPFA+FVG+VEEIL DKSK+KVHVNMFGRETPLELD+TQVEKI Sbjct: 121 KIEFDLKETVRVKVGPFADFVGTVEEILLDKSKLKVHVNMFGRETPLELDYTQVEKI 177 >A8W1H6.1 A8W1H6_9BACI Transcription antitermination protein nusG Length = 177 Score = 250 bits (638), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 121/177 (68%), Positives = 143/177 (80%) Query: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEELVNKDGKKKTVMRKV 60 MEK WYVVHTYSGYENKVK NLEKRVESM M DKIFR+LVP+EEE K+GK K V +KV Sbjct: 1 MEKNWYVVHTYSGYENKVKTNLEKRVESMEMTDKIFRILVPVEEENEVKNGKSKVVTKKV 60 Query: 61 YPGYVLVEMVQTDDSWYVVRNTPXXXXXXXXXXXXXKPTALLPEEVEQILKHMGMVEPKA 120 +PGYV+VEMV TDDSWYVVRNTP KPTALLP+E + IL+ MG+ PKA Sbjct: 61 FPGYVIVEMVMTDDSWYVVRNTPGVTGFVGSTGAGSKPTALLPDEADAILRQMGVEAPKA 120 Query: 121 KIDFEIKESVRIMVGPFANFVGSVEEILADKSKIKVHVNMFGRETPLELDFTQVEKI 177 ++DF++KESV++ GPFANF+GS+E+I A+K K+KVHVNMFGRETP+ELDF QVEKI Sbjct: 121 EVDFDLKESVKVKEGPFANFIGSIEDISAEKRKLKVHVNMFGRETPVELDFHQVEKI 177 >Q9KGE7.1 NUSG_BACHD Transcription antitermination protein nusG Length = 178 Score = 248 bits (632), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 123/178 (69%), Positives = 142/178 (79%), Gaps = 1/178 (0%) Query: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEELVNKDGKKKTVMRKV 60 MEK WYVVHTYSGYENKVK NLEKRVESM M DKIFRV+VP+EEE K+GK K V RKV Sbjct: 1 MEKNWYVVHTYSGYENKVKTNLEKRVESMDMTDKIFRVMVPVEEETEVKNGKSKQVSRKV 60 Query: 61 YPGYVLVEMVQTDDSWYVVRNTPXXXXXXXXXXXXXKPTALLPEEVEQILKHMGMVEPK- 119 +PGYVLVEMV TDDSWYVVRNTP KPT LLPEEV+ IL+ MGM E + Sbjct: 61 FPGYVLVEMVMTDDSWYVVRNTPGVTGFVGSAGAGSKPTPLLPEEVDAILRQMGMQEERQ 120 Query: 120 AKIDFEIKESVRIMVGPFANFVGSVEEILADKSKIKVHVNMFGRETPLELDFTQVEKI 177 +IDF++KESV++ GPFANF+G++EEI DK K+KVHVNMFGRETP+EL+FTQ+EKI Sbjct: 121 VEIDFQLKESVKVKEGPFANFIGTIEEIQLDKRKLKVHVNMFGRETPVELEFTQIEKI 178 >Q5WLS6.1 Q5WLS6_BACSK Transcription antitermination protein nusG Length = 178 Score = 247 bits (630), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 122/177 (68%), Positives = 143/177 (80%) Query: 1 MEKRWYVVHTYSGYENKVKANLEKRVESMGMEDKIFRVLVPMEEELVNKDGKKKTVMRKV 60 MEK W+VVHTYSGYENKVKANLEKRVESM M D IFRVLVP+EEE K+GK K V RKV Sbjct: 1 MEKNWFVVHTYSGYENKVKANLEKRVESMEMTDHIFRVLVPVEEETEIKNGKTKQVSRKV 60 Query: 61 YPGYVLVEMVQTDDSWYVVRNTPXXXXXXXXXXXXXKPTALLPEEVEQILKHMGMVEPKA 120 +PGYVLVEMV TDDSWYVVRNTP KPT L+P+EVE+ILK MG+VE + Sbjct: 61 FPGYVLVEMVMTDDSWYVVRNTPGVTGFVGSAGAGSKPTPLMPDEVERILKQMGVVEAQE 120 Query: 121 KIDFEIKESVRIMVGPFANFVGSVEEILADKSKIKVHVNMFGRETPLELDFTQVEKI 177 ++DFE+KESV++ GPFA+FVG++EEI +K K+KVHVNMFGRETP+EL+F QVEKI Sbjct: 121 EVDFELKESVKVKSGPFADFVGTIEEIQVEKRKLKVHVNMFGRETPVELEFGQVEKI 177 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 0.317 0.135 0.382 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: 942,742,063 Number of extensions: 33257871 Number of successful extensions: 84391 Number of sequences better than 1.0e-05: 1441 Number of HSP's gapped: 82992 Number of HSP's successfully gapped: 1463 Length of query: 177 Length of database: 3,060,696,203 Length adjustment: 127 Effective length of query: 50 Effective length of database: 1,864,227,298 Effective search space: 93211364900 Effective search space used: 93211364900 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 (21.6 bits) S2: 126 (53.1 bits)