BLASTP 2.2.21 [Jun-14-2009]

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= 0035.0042.p         (94 letters)

Database: pfamseq 
           15,929,002 sequences; 5,169,768,107 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

D8IW54.1 D8IW54_HERSS HU histone family DNA-binding protein           178   2e-43
B1XSK3.1 B1XSK3_POLNS Histone family protein DNA-binding protein      138   3e-31
F1VVY9.1 F1VVY9_9BURK DNA-binding protein HU                          137   6e-31
A4T0H3.1 A4T0H3_POLSQ HU family DNA-binding protein                   136   1e-30
Q8XWF3.1 Q8XWF3_RALSO Probable dna-binding protein hu-beta (Ns1)...   130   7e-29

>D8IW54.1 D8IW54_HERSS HU histone family DNA-binding protein
          Length = 115

 Score =  178 bits (452), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 91/94 (96%), Positives = 93/94 (98%)

Query: 1   VNKSELVDAIAADTEISKAAAQRALDSVVENIIKAVTKGDTVQLVGFGSFSTGKRAARTG 60
           VNKSELVD IAADTEISKAAAQRALDSV+ENIIKAVTKGDTVQLVGFGSFSTGKRAARTG
Sbjct: 22  VNKSELVDVIAADTEISKAAAQRALDSVIENIIKAVTKGDTVQLVGFGSFSTGKRAARTG 81

Query: 61  RNPQTGEEIKIAAATTVKFSAGKSFKEAVNKKKK 94
           RNPQTGEEIKIAAATTVKFSAGK+FKEAVNKKKK
Sbjct: 82  RNPQTGEEIKIAAATTVKFSAGKAFKEAVNKKKK 115


>B1XSK3.1 B1XSK3_POLNS Histone family protein DNA-binding protein
          Length = 106

 Score =  138 bits (347), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 67/94 (71%), Positives = 84/94 (89%)

Query: 1   VNKSELVDAIAADTEISKAAAQRALDSVVENIIKAVTKGDTVQLVGFGSFSTGKRAARTG 60
           +NK+EL+ AIA D EISKA A+ AL+S +ENIIKAVTKGD+VQL+GFG+F++ KRAAR G
Sbjct: 13  LNKAELIAAIADDAEISKAKAEFALNSAIENIIKAVTKGDSVQLIGFGTFASSKRAARMG 72

Query: 61  RNPQTGEEIKIAAATTVKFSAGKSFKEAVNKKKK 94
           RNP+TGE +KIAAA TVKFSAGK+FK++VNK+KK
Sbjct: 73  RNPKTGEPLKIAAAKTVKFSAGKAFKDSVNKRKK 106


>F1VVY9.1 F1VVY9_9BURK DNA-binding protein HU
          Length = 91

 Score =  137 bits (345), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 63/91 (69%), Positives = 81/91 (89%)

Query: 1  VNKSELVDAIAADTEISKAAAQRALDSVVENIIKAVTKGDTVQLVGFGSFSTGKRAARTG 60
          +NK+EL+DAIAAD ++ K  AQRAL+S++ N+I+AV  GD+VQL+GFG+F++G RA RTG
Sbjct: 1  MNKTELIDAIAADCDLPKTVAQRALESILSNVIQAVVNGDSVQLIGFGAFASGSRAERTG 60

Query: 61 RNPQTGEEIKIAAATTVKFSAGKSFKEAVNK 91
          RNP+TGEEIKIAAA TVKFSAGK+FK+AVNK
Sbjct: 61 RNPRTGEEIKIAAAKTVKFSAGKAFKDAVNK 91


>A4T0H3.1 A4T0H3_POLSQ HU family DNA-binding protein
          Length = 106

 Score =  136 bits (342), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/94 (70%), Positives = 84/94 (89%)

Query: 1   VNKSELVDAIAADTEISKAAAQRALDSVVENIIKAVTKGDTVQLVGFGSFSTGKRAARTG 60
           +NK+EL+ AIA D EISKA A+ AL+S ++ IIKAVTKGD+VQL+GFG+F++GKRAAR G
Sbjct: 13  LNKAELIAAIADDAEISKAKAEFALNSAIDTIIKAVTKGDSVQLIGFGTFASGKRAARMG 72

Query: 61  RNPQTGEEIKIAAATTVKFSAGKSFKEAVNKKKK 94
           RNP+TGE +KIAAA TVKFSAGK+FK++VNK+KK
Sbjct: 73  RNPKTGEPLKIAAAKTVKFSAGKAFKDSVNKRKK 106


>Q8XWF3.1 Q8XWF3_RALSO Probable dna-binding protein hu-beta (Ns1) (Hu-1)
          Length = 94

 Score =  130 bits (327), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 67/91 (73%), Positives = 76/91 (83%)

Query: 3  KSELVDAIAADTEISKAAAQRALDSVVENIIKAVTKGDTVQLVGFGSFSTGKRAARTGRN 62
          KSELV AIA D E+S AAA+RAL+S +ENI K V KG T+ LVGFGSFS+GKRAARTGRN
Sbjct: 4  KSELVAAIAKDAELSNAAAERALNSALENIKKTVAKGGTITLVGFGSFSSGKRAARTGRN 63

Query: 63 PQTGEEIKIAAATTVKFSAGKSFKEAVNKKK 93
          P+TGE IKI A  TVKF+AGK FK+AVNKKK
Sbjct: 64 PRTGEAIKIPATKTVKFTAGKGFKDAVNKKK 94