BLASTP 2.2.26 [Sep-21-2011]


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= 039324
         (462 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1T90|A Chain A, Crystal Structure Of Methylmalonate Semialdehyde
           Dehydrogenase From Bacillus Subtilis
 pdb|1T90|B Chain B, Crystal Structure Of Methylmalonate Semialdehyde
           Dehydrogenase From Bacillus Subtilis
 pdb|1T90|C Chain C, Crystal Structure Of Methylmalonate Semialdehyde
           Dehydrogenase From Bacillus Subtilis
 pdb|1T90|D Chain D, Crystal Structure Of Methylmalonate Semialdehyde
           Dehydrogenase From Bacillus Subtilis
          Length = 486

 Score = 32.0 bits (71), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 231 YIKKNNGQIVQLPQWNRLSPIADHYFRATLDFDGVFTEYAYPKNS--APNQSWFTIQRLP 288
           YI+K   +  +L    R +   D YF     FD V TE    K+   AP  S   ++ L 
Sbjct: 337 YIEKGLEEGARLVCDGRENVSDDGYFVGPTIFDNVTTEMTIWKDEIFAPVLSVIRVKNLK 396

Query: 289 NNICTSISDEFGSGACGFNS 308
             I  +   EF +GAC F S
Sbjct: 397 EAIEIANKSEFANGACLFTS 416


>pdb|2KCX|A Chain A, Solution Nmr Structure Of Kazal-1 Domain Of Human
           Follistatin-Related Protein 3 (Fstl-3). Northeast
           Structural Genomics Target Hr6186a
          Length = 74

 Score = 29.3 bits (64), Expect = 5.0,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 27/67 (40%), Gaps = 11/67 (16%)

Query: 296 SDEFGSGACGFNSYCLLQNGRPFCECPPGYLFVDPTNIFSGCKPNYWQGCGPDHGS-RNA 354
           SD      CG    C +  GRP CEC P     D + +     P   Q CG D  + R+ 
Sbjct: 1   SDSCDGVECGPGKACRMLGGRPRCECAP-----DCSGL-----PARLQVCGSDGATYRDE 50

Query: 355 EELYEIR 361
            EL   R
Sbjct: 51  CELRAAR 57


>pdb|2VJ3|A Chain A, Human Notch-1 Egfs 11-13
          Length = 135

 Score = 28.5 bits (62), Expect = 7.9,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 292 CTSISDEFGSGACGFNSYCLLQNGRPFCECPPGY 325
           C   +DE  S  C  N  CL +     CECP G+
Sbjct: 79  CEVNTDECASSPCLHNGRCLDKINEFQCECPTGF 112


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.320    0.138    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,555,576
Number of Sequences: 62578
Number of extensions: 677526
Number of successful extensions: 1249
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1241
Number of HSP's gapped (non-prelim): 9
length of query: 462
length of database: 14,973,337
effective HSP length: 102
effective length of query: 360
effective length of database: 8,590,381
effective search space: 3092537160
effective search space used: 3092537160
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)