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= 0004.0007.p (166 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K8Z3.1 B3K8Z3_9BACI RNA binding S1 domain protein 217 3e-55 B1DIF8.1 B1DIF8_9BACL RNA binding S1 domain protein 201 1e-50 Q2B255.1 Q2B255_9BACI Putative uncharacterized protein 161 1e-38 Q65PF8.1 Q65PF8_BACLD YabR 152 1e-35 P37560.1 YABR_BACSU Uncharacterized protein yabR 150 4e-35 >B3K8Z3.1 B3K8Z3_9BACI RNA binding S1 domain protein Length = 162 Score = 217 bits (553), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 120/166 (72%), Positives = 122/166 (73%), Gaps = 4/166 (2%) Query: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKIADVVTVKV 60 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKI DVVTVKV Sbjct: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKINDVVTVKV 60 Query: 61 INVDKDGKIGLSIKQAVDKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 INVDKDGKIGLSIKQAVDK Sbjct: 61 INVDKDGKIGLSIKQAVDK----PASESRPPRAPRPERSGGGGERFGGGGGGGFNRERGG 116 Query: 121 XPFKPAAGKPSFEDKMSRFLKDSEERISSIKKNTEGKRGGRGAKRV 166 PFKPAA KPSFEDKMSRFLKDSEERISS+KKNTEGKRGGRGAKR+ Sbjct: 117 RPFKPAANKPSFEDKMSRFLKDSEERISSLKKNTEGKRGGRGAKRM 162 >B1DIF8.1 B1DIF8_9BACL RNA binding S1 domain protein Length = 162 Score = 201 bits (512), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 114/172 (66%), Positives = 118/172 (68%), Gaps = 16/172 (9%) Query: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKIADVVTVKV 60 MAIEVG KLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDV DHLKI DVV VKV Sbjct: 1 MAIEVGAKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVKDHLKIDDVVKVKV 60 Query: 61 INVDKDGKIGLSIKQAVDKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 INVDKDGKIGLSIKQAVD+ Sbjct: 61 INVDKDGKIGLSIKQAVDR----------PEGQQAAPQREPRAGGGGGFNRGGGGQDRGG 110 Query: 121 XPF------KPAAGKPSFEDKMSRFLKDSEERISSIKKNTEGKRGGRGAKRV 166 PF +P+ KPSFEDKMSRFLKDSEERISS+KKNTEGKRGGRGAKRV Sbjct: 111 RPFNKQSAGRPSYNKPSFEDKMSRFLKDSEERISSLKKNTEGKRGGRGAKRV 162 >Q2B255.1 Q2B255_9BACI Putative uncharacterized protein Length = 156 Score = 161 bits (408), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 87/165 (52%), Positives = 109/165 (66%), Gaps = 10/165 (6%) Query: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKIADVVTVKV 60 M+IEVG+KL+GKVTGIT+FGAFV+L G TGLVHISE+ADNYVKD+NDHLK+ D V VKV Sbjct: 1 MSIEVGSKLQGKVTGITNFGAFVELPEGSTGLVHISEVADNYVKDINDHLKVGDQVEVKV 60 Query: 61 INVDKDGKIGLSIKQAVDKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 INV+KDGKIGLSIK+A+D+ Sbjct: 61 INVEKDGKIGLSIKKAIDRPERPARPERTDRPERRDSRGGYSGSQRPRHGRSNDS----- 115 Query: 121 XPFKPAAGKPSFEDKMSRFLKDSEERISSIKKNTEGKRGGRGAKR 165 +P + +FE KM++FLKDSE+R++S+K+NTE KRGGRGAKR Sbjct: 116 ---RPP--RENFESKMAKFLKDSEDRLASLKRNTESKRGGRGAKR 155 >Q65PF8.1 Q65PF8_BACLD YabR Length = 132 Score = 152 bits (384), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 84/160 (52%), Positives = 103/160 (64%), Gaps = 40/160 (25%) Query: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKIADVVTVKV 60 M+IEVG+KL+GKVTGIT+FGAFV+L GG TGLVHISE+ADNYVKD+NDHLK+ D V VKV Sbjct: 1 MSIEVGSKLQGKVTGITNFGAFVELPGGSTGLVHISEVADNYVKDINDHLKVGDQVEVKV 60 Query: 61 INVDKDGKIGLSIKQAVDKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 INV+KDGKIGLSIK+AVD+ Sbjct: 61 INVEKDGKIGLSIKKAVDR-------------------------------------PQSS 83 Query: 121 XPFKPA---AGKPSFEDKMSRFLKDSEERISSIKKNTEGK 157 P +P K +FE KM++FLKDSE+R+SS+K+NTE K Sbjct: 84 RPARPKNDFRSKETFEQKMNKFLKDSEDRLSSLKRNTESK 123 >P37560.1 YABR_BACSU Uncharacterized protein yabR Length = 128 Score = 150 bits (379), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 83/157 (52%), Positives = 102/157 (64%), Gaps = 38/157 (24%) Query: 1 MAIEVGTKLEGKVTGITHFGAFVDLSGGVTGLVHISEIADNYVKDVNDHLKIADVVTVKV 60 M+IEVG+KL+GK+TGIT+FGAFV+L GG TGLVHISE+ADNYVKD+NDHLK+ D V VKV Sbjct: 1 MSIEVGSKLQGKITGITNFGAFVELPGGSTGLVHISEVADNYVKDINDHLKVGDQVEVKV 60 Query: 61 INVDKDGKIGLSIKQAVDKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 INV+KDGKIGLSIK+A D+ Sbjct: 61 INVEKDGKIGLSIKKAKDRPQARPRND--------------------------------- 87 Query: 121 XPFKPAAGKPSFEDKMSRFLKDSEERISSIKKNTEGK 157 F+P K SFE KM++FLKDSE+R+SS+K+NTE K Sbjct: 88 --FRP---KESFEQKMNKFLKDSEDRLSSLKRNTESK 119 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 0.314 0.135 0.372 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: 716,288,533 Number of extensions: 22977609 Number of successful extensions: 73167 Number of sequences better than 1.0e-05: 4072 Number of HSP's gapped: 72561 Number of HSP's successfully gapped: 5148 Length of query: 166 Length of database: 3,060,696,203 Length adjustment: 125 Effective length of query: 41 Effective length of database: 1,883,069,328 Effective search space: 77205842448 Effective search space used: 77205842448 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: 42 (21.9 bits) S2: 126 (53.1 bits)