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: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3KL99.1 B3KL99_9BACI Histone family protein DNA-binding protein      160   2e-38
Q8EQB2.1 Q8EQB2_OCEIH Non-specific DNA-binding protein                153   4e-36
A6CTI0.1 A6CTI0_9BACI Non-specific DNA-binding protein HBsu; sig...   153   5e-36
A7Z631.1 A7Z631_BACA2 HupA                                            152   8e-36
P08821.2 DBH1_BACSU DNA-binding protein HU 1                          152   8e-36

>B3KL99.1 B3KL99_9BACI Histone family protein DNA-binding protein
          Length = 90

 Score =  160 bits (406), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 79/90 (87%), Positives = 85/90 (94%)

Query: 1  MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60
          MNKSDLI  V E+TEL KKDATKAVDAVF+AI+ ALQ+GDKVQLVGFGNFEVRERSARKG
Sbjct: 1  MNKSDLITQVAESTELSKKDATKAVDAVFDAISEALQSGDKVQLVGFGNFEVRERSARKG 60

Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGIK 90
          RNPQTGEEIEIP+SK+PAFKPGKALKDGIK
Sbjct: 61 RNPQTGEEIEIPASKIPAFKPGKALKDGIK 90


>Q8EQB2.1 Q8EQB2_OCEIH Non-specific DNA-binding protein
          Length = 90

 Score =  153 bits (387), Expect = 4e-36,   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


>A6CTI0.1 A6CTI0_9BACI Non-specific DNA-binding protein HBsu; signal
          recognition particle-like (SRP) component
          Length = 90

 Score =  153 bits (386), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 81/90 (90%)

Query: 1  MNKSDLINVVTEATELPKKDATKAVDAVFEAITGALQNGDKVQLVGFGNFEVRERSARKG 60
          MNK++LIN V EA EL KKDATKAVDAVFE+I  AL NGDKVQL+GFGNFEVRER+ARKG
Sbjct: 1  MNKTELINAVAEAAELSKKDATKAVDAVFESIQDALANGDKVQLIGFGNFEVRERAARKG 60

Query: 61 RNPQTGEEIEIPSSKVPAFKPGKALKDGIK 90
          RNPQTGEEIEI +SKVPAFKPGKALKD +K
Sbjct: 61 RNPQTGEEIEISASKVPAFKPGKALKDAVK 90


>A7Z631.1 A7Z631_BACA2 HupA
          Length = 92

 Score =  152 bits (385), Expect = 8e-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


>P08821.2 DBH1_BACSU DNA-binding protein HU 1
          Length = 92

 Score =  152 bits (385), Expect = 8e-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


  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
   0.310    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: 9421015
Number of Hits to DB: 510,897,261
Number of extensions: 17918029
Number of successful extensions: 45839
Number of sequences better than 1.0e-05: 3631
Number of HSP's gapped: 45773
Number of HSP's successfully gapped: 3632
Length of query: 90
Length of database: 3,060,696,203
Length adjustment: 60
Effective length of query: 30
Effective length of database: 2,495,435,303
Effective search space: 74863059090
Effective search space used: 74863059090
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: 125 (52.8 bits)