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= 001278
         (1109 letters)

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

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



>pdb|2DFK|A Chain A, Crystal Structure Of The Cdc42-Collybistin Ii Complex
 pdb|2DFK|C Chain C, Crystal Structure Of The Cdc42-Collybistin Ii Complex
          Length = 402

 Score = 31.2 bits (69), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 582 IAHLKEVAEGEIQEIKSERDQLEKEKHEVKV-NREKLQEQQLGMRKDI 628
           I HLK++ EG +++ +  RD    E+ +V   N E +   Q+G  +D+
Sbjct: 57  IKHLKDICEGYLKQCRKRRDMFSDEQLKVIFGNIEDIYRFQMGFVRDL 104


>pdb|1QWK|A Chain A, Structural Genomics Of Caenorhabditis Elegans:
           Hypothetical 35.2 Kda Protein (Aldose Reductase Family
           Member)
          Length = 317

 Score = 30.4 bits (67), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 135 ESVIKRERLSLVTEREAHEAAFYKQREDLREWEKKLQI--GDERLSELRRTLN 185
           E V+KRE L + T+   HE A  K    LRE  KKLQ+   D  L+ +    N
Sbjct: 68  EGVVKREELFITTKAWTHELAPGKLEGGLRESLKKLQLEYVDLYLAHMPAAFN 120


  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
   0.308    0.126    0.329 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,709,788
Number of Sequences: 62578
Number of extensions: 990907
Number of successful extensions: 3939
Number of sequences better than 100.0: 142
Number of HSP's better than 100.0 without gapping: 49
Number of HSP's successfully gapped in prelim test: 93
Number of HSP's that attempted gapping in prelim test: 3458
Number of HSP's gapped (non-prelim): 443
length of query: 1109
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1000
effective length of database: 8,152,335
effective search space: 8152335000
effective search space used: 8152335000
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 57 (26.6 bits)