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= 003286
         (834 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/87 (34%), Positives = 42/87 (48%)

Query: 127 FCKTLTASDTSTHGGFSVPRRAAEKVFPPLDFSQQPPAQELIARDLHDNEWKFRHIFRGQ 186
           F K +T SD        +P+  AEK FP    +       L   D++   W+FR+ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73

Query: 187 PKRHLLTTGWSVFVSAKRLVAGDSVLF 213
            + ++LT GWS FV  K L AGD V F
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSF 100


>pdb|1YEL|A Chain A, Structure Of The Hypothetical Arabidopsis Thaliana Protein
           At1g16640.1
          Length = 104

 Score = 33.5 bits (75), Expect = 0.45,   Method: Composition-based stats.
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 5/76 (6%)

Query: 144 VPRRAAEKVFPPLDFSQQPPAQELIARDLHD---NEWKFRHIFRGQPKRHLLTTGWSVFV 200
           +  ++++ +  PL F++  PA   I  DL D     W  R   RG+  +  LT GW  FV
Sbjct: 16  ISEKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGE--KVFLTVGWENFV 73

Query: 201 SAKRLVAGDSVLFIWN 216
               L  G  + FI++
Sbjct: 74  KDNNLEDGKYLQFIYD 89


>pdb|2GNN|A Chain A, Crystal Structure Of The Orf Virus Nz2 Variant Of Vegf-E
 pdb|2GNN|B Chain B, Crystal Structure Of The Orf Virus Nz2 Variant Of Vegf-E
 pdb|2GNN|C Chain C, Crystal Structure Of The Orf Virus Nz2 Variant Of Vegf-E
 pdb|2GNN|D Chain D, Crystal Structure Of The Orf Virus Nz2 Variant Of Vegf-E
          Length = 127

 Score = 30.8 bits (68), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 4/81 (4%)

Query: 338 GWDESTAG-ERQPR---VSLWEIEPLTTFPMYSSPFPLRLKRPWPVGLPAFHGIKDEDLG 393
           GW E   G E +PR   V + E  P  T   ++ P    ++        +   +  E++ 
Sbjct: 12  GWSEVLKGSECKPRPIVVPVSETHPELTSQRFNPPCVTLMRCGGCCNDESLECVPTEEVN 71

Query: 394 INSQLMWLRGDGDRGMQSLNF 414
           +  +L+   G G  GMQ L+F
Sbjct: 72  VTMELLGASGSGSNGMQRLSF 92


>pdb|3V6B|A Chain A, Vegfr-2VEGF-E Complex Structure
          Length = 137

 Score = 30.8 bits (68), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 4/81 (4%)

Query: 338 GWDESTAG-ERQPR---VSLWEIEPLTTFPMYSSPFPLRLKRPWPVGLPAFHGIKDEDLG 393
           GW E   G E +PR   V + E  P  T   ++ P    ++        +   +  E++ 
Sbjct: 30  GWSEVLKGSECKPRPIVVPVSETHPELTSQRFNPPCVTLMRCGGCCNDESLECVPTEEVN 89

Query: 394 INSQLMWLRGDGDRGMQSLNF 414
           +  +L+   G G  GMQ L+F
Sbjct: 90  VTMELLGASGSGSNGMQRLSF 110


  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
   0.316    0.132    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,770,068
Number of Sequences: 62578
Number of extensions: 941056
Number of successful extensions: 1845
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1843
Number of HSP's gapped (non-prelim): 10
length of query: 834
length of database: 14,973,337
effective HSP length: 107
effective length of query: 727
effective length of database: 8,277,491
effective search space: 6017735957
effective search space used: 6017735957
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)