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= psy2630
         (472 letters)

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

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



>pdb|3A7Q|A Chain A, Structural Basis For Specific Recognition Of Reelin By Its
           Receptors
          Length = 725

 Score = 32.0 bits (71), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 2/43 (4%)

Query: 317 RTGCLSYLEDPHGYKTMLAHTLTINKTIAWSVLEESIFSFSSD 359
           R GC   + DP     +L ++L  N  ++WS+L+E +FS SS+
Sbjct: 287 RLGCGKGVPDPRSQPVLLQYSL--NGGLSWSLLQEFLFSNSSN 327


>pdb|2E26|A Chain A, Crystal Structure Of Two Repeat Fragment Of Reelin
          Length = 725

 Score = 32.0 bits (71), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 2/43 (4%)

Query: 317 RTGCLSYLEDPHGYKTMLAHTLTINKTIAWSVLEESIFSFSSD 359
           R GC   + DP     +L ++L  N  ++WS+L+E +FS SS+
Sbjct: 287 RLGCGKGVPDPRSQPVLLQYSL--NGGLSWSLLQEFLFSNSSN 327


>pdb|3H0G|E Chain E, Rna Polymerase Ii From Schizosaccharomyces Pombe
 pdb|3H0G|Q Chain Q, Rna Polymerase Ii From Schizosaccharomyces Pombe
          Length = 210

 Score = 30.0 bits (66), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 95  NKHAYNVLINYCNLFTSLSAKSIAELAGKFTIET 128
           + H   +LI Y N  T  +AK IA + G+FTIET
Sbjct: 97  HNHKTGILI-YANSMTPSAAKIIATVTGQFTIET 129


  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
   0.324    0.136    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,340,282
Number of Sequences: 62578
Number of extensions: 445440
Number of successful extensions: 1063
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1062
Number of HSP's gapped (non-prelim): 3
length of query: 472
length of database: 14,973,337
effective HSP length: 102
effective length of query: 370
effective length of database: 8,590,381
effective search space: 3178440970
effective search space used: 3178440970
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)