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= 0256.0047.p (90 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_692713.1| non-specific DNA-binding protein [Oceanobacillu... 153 9e-37 ref|NP_390160.1| non-specific DNA-binding protein HBsu [Bacillus... 152 2e-36 gb|AAA72912.1| HBsu protein 152 2e-36 ref|NP_831289.1| DNA-binding protein HU [Bacillus cereus ATCC 14... 150 9e-36 ref|NP_655411.1| Bac_DNA_binding, Bacterial DNA-binding protein ... 150 1e-35 >ref|NP_692713.1| non-specific DNA-binding protein [Oceanobacillus iheyensis HTE831] dbj|BAC13748.1| non-specific DNA-binding protein [Oceanobacillus iheyensis HTE831] Length = 90 Score = 153 bits (387), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 72/90 (80%), Positives = 83/90 (92%) Query: 1 MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60 MNK+DL+N V E +EL KKDATKAVDAVFE++ +L+NG+KVQL+GFGNFEVRERSARKG Sbjct: 1 MNKTDLVNAVAEKSELSKKDATKAVDAVFESVMDSLKNGEKVQLIGFGNFEVRERSARKG 60 Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGIK 90 RNPQTGEEIEIP+SKVPAFKPGKALKD +K Sbjct: 61 RNPQTGEEIEIPASKVPAFKPGKALKDSVK 90 >ref|NP_390160.1| non-specific DNA-binding protein HBsu [Bacillus subtilis] sp|P08821|DBH1_BACSU DNA-binding protein HU 1 (DNA-binding protein II) (HB) pir||JC1208 DNA-binding protein HU - Bacillus subtilis emb|CAA36669.1| unnamed protein product [Bacillus subtilis] emb|CAA47064.1| hbsu [Bacillus subtilis] gb|AAA22535.1| hubgl gb|AAA22536.1| hubsub emb|CAB14195.1| non-specific DNA-binding protein HBsu; signal recognition particle-like (SRP) component [Bacillus subtilis subsp. subtilis str. 168] prf||1904151A DNA-binding protein HBsu Length = 92 Score = 152 bits (385), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 72/89 (80%), Positives = 82/89 (92%) Query: 1 MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60 MNK++LIN V EA+EL KKDATKAVD+VF+ I AL+NGDK+QL+GFGNFEVRERSARKG Sbjct: 1 MNKTELINAVAEASELSKKDATKAVDSVFDTILDALKNGDKIQLIGFGNFEVRERSARKG 60 Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGI 89 RNPQTGEEIEIP+SKVPAFKPGKALKD + Sbjct: 61 RNPQTGEEIEIPASKVPAFKPGKALKDAV 89 >gb|AAA72912.1| HBsu protein Length = 98 Score = 152 bits (384), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 72/89 (80%), Positives = 82/89 (92%) Query: 1 MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60 MNK++LIN V EA+EL KKDATKAVD+VF+ I AL+NGDK+QL+GFGNFEVRERSARKG Sbjct: 7 MNKTELINAVAEASELSKKDATKAVDSVFDTILDALKNGDKIQLIGFGNFEVRERSARKG 66 Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGI 89 RNPQTGEEIEIP+SKVPAFKPGKALKD + Sbjct: 67 RNPQTGEEIEIPASKVPAFKPGKALKDAV 95 >ref|NP_831289.1| DNA-binding protein HU [Bacillus cereus ATCC 14579] gb|AAP08490.1| DNA-binding protein HU [Bacillus cereus ATCC 14579] Length = 114 Score = 150 bits (379), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 72/90 (80%), Positives = 81/90 (90%) Query: 1 MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60 MNK+DLIN V EA+ L KKDATKAVDAVF++I AL+ GDKVQL+GFGNFEVRER+ARKG Sbjct: 25 MNKTDLINAVAEASSLSKKDATKAVDAVFDSILEALKQGDKVQLIGFGNFEVRERAARKG 84 Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGIK 90 RNPQTGEEIEI +SKVPAFKPGKALKD +K Sbjct: 85 RNPQTGEEIEIAASKVPAFKPGKALKDAVK 114 >ref|NP_655411.1| Bac_DNA_binding, Bacterial DNA-binding protein [Bacillus anthracis A2012] ref|NP_843982.1| DNA-binding protein HU [Bacillus anthracis str. Ames] ref|NP_977958.1| DNA-binding protein HU [Bacillus cereus ATCC 10987] gb|AAP25468.1| DNA-binding protein HU [Bacillus anthracis str. Ames] gb|AAS40566.1| DNA-binding protein HU [Bacillus cereus ATCC 10987] Length = 90 Score = 150 bits (378), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 72/90 (80%), Positives = 81/90 (90%) Query: 1 MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60 MNK+DLIN V EA+ L KKDATKAVDAVF++I AL+ GDKVQL+GFGNFEVRER+ARKG Sbjct: 1 MNKTDLINAVAEASSLSKKDATKAVDAVFDSILEALKQGDKVQLIGFGNFEVRERAARKG 60 Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGIK 90 RNPQTGEEIEI +SKVPAFKPGKALKD +K Sbjct: 61 RNPQTGEEIEIAASKVPAFKPGKALKDAVK 90 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.310 0.130 0.353 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 127,519,902 Number of extensions: 4430315 Number of successful extensions: 10802 Number of sequences better than 1.0e-05: 905 Number of HSP's gapped: 10810 Number of HSP's successfully gapped: 905 Length of query: 90 Length of database: 757,237,578 Length adjustment: 59 Effective length of query: 31 Effective length of database: 597,046,737 Effective search space: 18508448847 Effective search space used: 18508448847 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.7 bits) S2: 120 (50.8 bits)