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= 040047
         (240 letters)

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

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



>pdb|1V5N|A Chain A, Solution Structure Of Dc1 Domain Of Pdi-Like Hypothetical
           Protein From Arabidopsis Thaliana
          Length = 89

 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 5/55 (9%)

Query: 55  RAMQHTSHPMHHLTLVPTTTYSAGNFLCNACGEPGSAFSFCCPLCDFDLHVQCAF 109
           + ++H  H  H L L     Y+     C+ C E G+ +S+ C  CDFDLH +CA 
Sbjct: 28  KKVKHVLHEEHELELTRVQVYT-----CDKCEEEGTIWSYHCDECDFDLHAKCAL 77



 Score = 34.7 bits (78), Expect = 0.047,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)

Query: 140 YVCDICHKQLDQKCFWSYNCFACNFHAHVSCTRNRNNSDSA 180
           Y CD C    ++   WSY+C  C+F  H  C  N +  +S 
Sbjct: 48  YTCDKCE---EEGTIWSYHCDECDFDLHAKCALNEDTKESG 85



 Score = 28.9 bits (63), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 4  KHFSHP-HNLRIYQVQHGNEYSCSACELIISGSAYGCWECKFFLHEQC 50
          KH  H  H L + +VQ    Y+C  CE   +  +Y C EC F LH +C
Sbjct: 31 KHVLHEEHELELTRVQV---YTCDKCEEEGTIWSYHCDECDFDLHAKC 75


>pdb|2VRW|B Chain B, Critical Structural Role For The Ph And C1 Domains Of The
           Vav1 Exchange Factor
          Length = 406

 Score = 27.3 bits (59), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 19/30 (63%), Gaps = 3/30 (10%)

Query: 24  SCSACELIISGS---AYGCWECKFFLHEQC 50
           SC AC++++ G+    Y C+ C+   H++C
Sbjct: 359 SCKACQMLLRGTFYQGYRCYRCRAPAHKEC 388


  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
   0.322    0.131    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,014,466
Number of Sequences: 62578
Number of extensions: 272131
Number of successful extensions: 1196
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1184
Number of HSP's gapped (non-prelim): 28
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)