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= 046045
         (119 letters)

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

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



>pdb|3VHL|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex
           With Cdc42 (T17n Mutant)
          Length = 288

 Score = 27.7 bits (60), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 44  KQSFCNDFKLGNAXXXXXXXXXEPLSPKAPFVVKPPEKKHRLPSAYNR-FMKEEIQRIKA 102
           K+ F   F++G           +    K P + K PE  HRL   Y + F  E ++ IK 
Sbjct: 10  KRMFGTYFRVGFYGSRFGDLDEQEFVYKEPAITKLPEISHRLEGFYGQCFGAEFVEVIKD 69

Query: 103 ANP 105
           + P
Sbjct: 70  STP 72


>pdb|4E04|A Chain A, Rpbphp2 Chromophore-binding Domain Crystallized By
           Homologue-directed Mutagenesis.
 pdb|4E04|B Chain B, Rpbphp2 Chromophore-binding Domain Crystallized By
           Homologue-directed Mutagenesis
          Length = 327

 Score = 26.6 bits (57), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 20/28 (71%)

Query: 76  VKPPEKKHRLPSAYNRFMKEEIQRIKAA 103
           ++PP++  R P A+ R ++  I+R++AA
Sbjct: 119 LEPPQRDVRYPQAFFRSVRSAIRRLQAA 146


>pdb|3MTL|A Chain A, Crystal Structure Of The Pctaire1 Kinase In Complex With
           Ind E804
          Length = 324

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 71  KAPFVVKPPEKKHRLPSAYNRFMKEEIQRIKAAN 104
           K PF +   E+ H+LP   + F  +EIQ  K A+
Sbjct: 281 KHPFFLSLGERIHKLPDTTSIFALKEIQLQKEAS 314


  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
   0.318    0.133    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,317,313
Number of Sequences: 62578
Number of extensions: 104404
Number of successful extensions: 191
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 189
Number of HSP's gapped (non-prelim): 4
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)