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= 0004.0002.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

B3K8Y8.1 B3K8Y8_9BACI Histone family protein DNA-binding protein      155   1e-36
B1DIG5.1 B1DIG5_9BACL Histone family protein DNA-binding protein      150   4e-35
B7DTL8.1 B7DTL8_9BACL Histone family protein DNA-binding protein      122   1e-26
Q67JD8.1 Q67JD8_SYMTH Non-specific DNA-binding protein                119   1e-25
A1HRU5.1 A1HRU5_9FIRM Histone family protein DNA-binding protein      117   2e-25

>B3K8Y8.1 B3K8Y8_9BACI Histone family protein DNA-binding protein
          Length = 90

 Score =  155 bits (392), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 77/89 (86%), Positives = 81/89 (91%)

Query: 1  MNKTDLVNNISEKSGLAKKDVETVLNGVLGEITDALAQGDKVQLIGFGTFETRKRSGRSG 60
          MNKTDL+NNIS KSGL KKDVE VLNG LGEIT+ALA GDKVQLIGFGTFETRKR+GR+G
Sbjct: 1  MNKTDLINNISGKSGLTKKDVENVLNGFLGEITEALANGDKVQLIGFGTFETRKRAGRTG 60

Query: 61 RNPQTGTPIEIPESTVPAFKAGNKLKEAV 89
          RNPQTG  IEIPES VPAFKAGNKLKEAV
Sbjct: 61 RNPQTGNTIEIPESNVPAFKAGNKLKEAV 89


>B1DIG5.1 B1DIG5_9BACL Histone family protein DNA-binding protein
          Length = 90

 Score =  150 bits (379), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 73/89 (82%), Positives = 79/89 (88%)

Query: 1  MNKTDLVNNISEKSGLAKKDVETVLNGVLGEITDALAQGDKVQLIGFGTFETRKRSGRSG 60
          MNKTDL+NNI+ KSGL K+DVE VLNG LGE+TDALA GDKVQLIGFGTFETRKRSGR G
Sbjct: 1  MNKTDLINNIATKSGLTKRDVEAVLNGFLGEVTDALAGGDKVQLIGFGTFETRKRSGRVG 60

Query: 61 RNPQTGTPIEIPESTVPAFKAGNKLKEAV 89
          RNPQTG  I IPES VPAFKAGNKLK+A+
Sbjct: 61 RNPQTGKEISIPESKVPAFKAGNKLKDAI 89


>B7DTL8.1 B7DTL8_9BACL Histone family protein DNA-binding protein
          Length = 90

 Score =  122 bits (306), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/87 (66%), Positives = 69/87 (79%)

Query: 1  MNKTDLVNNISEKSGLAKKDVETVLNGVLGEITDALAQGDKVQLIGFGTFETRKRSGRSG 60
          MNK +L+N ++EK+ L KKD E+ +N V   I +ALA G+KVQ+IGFGTFETR R+ RSG
Sbjct: 1  MNKMELINRVAEKTNLKKKDAESAVNAVFEIIEEALANGEKVQIIGFGTFETRSRAARSG 60

Query: 61 RNPQTGTPIEIPESTVPAFKAGNKLKE 87
          RNPQTG  IEIP STVPAFK GNKLKE
Sbjct: 61 RNPQTGEVIEIPASTVPAFKPGNKLKE 87


>Q67JD8.1 Q67JD8_SYMTH Non-specific DNA-binding protein
          Length = 89

 Score =  119 bits (297), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 56/89 (62%), Positives = 68/89 (76%)

Query: 1  MNKTDLVNNISEKSGLAKKDVETVLNGVLGEITDALAQGDKVQLIGFGTFETRKRSGRSG 60
          MNK DLV +++EKSGL KKD E  LN V+  I +AL +GDKV L+GFGTFE R R+ RSG
Sbjct: 1  MNKQDLVASVAEKSGLTKKDAEKALNAVVESIKEALKKGDKVSLVGFGTFEVRNRAARSG 60

Query: 61 RNPQTGTPIEIPESTVPAFKAGNKLKEAV 89
          RNPQTG PI+IP   VPAF+ G +LKE+V
Sbjct: 61 RNPQTGEPIKIPAGKVPAFRPGKELKESV 89


>A1HRU5.1 A1HRU5_9FIRM Histone family protein DNA-binding protein
          Length = 91

 Score =  117 bits (294), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/90 (61%), Positives = 66/90 (73%)

Query: 1  MNKTDLVNNISEKSGLAKKDVETVLNGVLGEITDALAQGDKVQLIGFGTFETRKRSGRSG 60
          MNKT+L+ +++EK+G+ KKD E  LN V   I +ALAQ DKVQ+IGFGTFE R R  R G
Sbjct: 1  MNKTELIASVAEKAGMTKKDAEKALNAVFASIEEALAQNDKVQIIGFGTFEVRTREARKG 60

Query: 61 RNPQTGTPIEIPESTVPAFKAGNKLKEAVN 90
          RNPQTG  I+IP S  P FKAG  LK+AVN
Sbjct: 61 RNPQTGKEIDIPASKSPVFKAGKGLKDAVN 90


  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
   0.308    0.130    0.351 

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: 542,437,516
Number of extensions: 21059232
Number of successful extensions: 49154
Number of sequences better than 1.0e-05: 3573
Number of HSP's gapped: 49115
Number of HSP's successfully gapped: 3574
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 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 125 (52.8 bits)