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= 0421.0002.p
         (288 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3KFA6.1 B3KFA6_9BACI DNA polymerase beta domain protein region       253   1e-65

>B3KFA6.1 B3KFA6_9BACI DNA polymerase beta domain protein region
          Length = 360

 Score =  253 bits (647), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 116/281 (41%), Positives = 182/281 (64%), Gaps = 12/281 (4%)

Query: 17  IWKVPWFLRL------------SIXXXXVLYCAKPEFLERLKGYQQKALDELAKPIGQTS 64
           I+  PW  R+            S+    +LY AK E LE+L  ++QKALD LA+PIG+  
Sbjct: 79  IYCTPWDTRIHAQSILESPNVSSLTELKILYYAKSEDLEKLNDFRQKALDALAEPIGEAC 138

Query: 65  LARAQAYIRMAKQYYAEALLAEETGAVRYAAGNLALELFNAINCLNNTFFQQGIKRYLEE 124
           L RA+ +I +AKQ Y++ +L +  G+VR+A+  +   L NA+  +NNT  ++G+KRYLEE
Sbjct: 139 LNRAKKWIDLAKQAYSDTMLGDHIGSVRHASAGVLYNLVNALVSMNNTCIKRGVKRYLEE 198

Query: 125 LRPLKYLPHHFEQTYLDLVNARSVDELRSMAFRLLKNTTVLYDQMQAELVEPPVPTYDNL 184
           +R  +++P   E  Y+ ++ A +++++R  +F +L + T L+ +M    +  P PT+DNL
Sbjct: 199 IRSYRHVPDDLESLYMSVIEAHTIEDIRIASFNMLNSVTRLHSKMCDNFIVKPAPTFDNL 258

Query: 185 KGTYEELWSNQRNKVIASTQAKDKSYAFLTALSAQDFLDEMLVSRGTAKFDVMKHFSADA 244
           KGTYEELW N RNK++ S +  D SYAFL+A  AQ +LDEM   +GT KFD+M++F A  
Sbjct: 259 KGTYEELWCNYRNKILNSVKTNDASYAFLSAFGAQGYLDEMAAEKGTKKFDLMQYFDASD 318

Query: 245 LEAFQERFMGIMDEYLEEYKKAGREVARYESIDELTKSFMS 285
           L   +E+F+ +MDEY++EY K GREV R+ + ++L   +++
Sbjct: 319 LSVMKEKFLEMMDEYVDEYGKVGREVERFTTFEQLYDHYIN 359


  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
   0.320    0.134    0.381 

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: 1,498,950,823
Number of extensions: 54895207
Number of successful extensions: 160296
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 160296
Number of HSP's successfully gapped: 1
Length of query: 288
Length of database: 3,060,696,203
Length adjustment: 134
Effective length of query: 154
Effective length of database: 1,798,280,193
Effective search space: 276935149722
Effective search space used: 276935149722
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 130 (54.7 bits)