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= 034035
         (105 letters)

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

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



>pdb|2YQ3|A Chain A, Structure Of Bvdv1 Envelope Glycoprotein E2, Ph5
 pdb|2YQ3|B Chain B, Structure Of Bvdv1 Envelope Glycoprotein E2, Ph5
          Length = 337

 Score = 28.9 bits (63), Expect = 0.68,   Method: Composition-based stats.
 Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 5   LHSRTKVGTGFLFSRMLQGSKTGDTKNINHTYDF 38
           LHSR  + T  +F ++ +G K GDT  ++  ++F
Sbjct: 69  LHSRA-LPTSVVFKKLFEGQKQGDTVEMDDDFEF 101


>pdb|2YQ2|A Chain A, Structure Of Bvdv1 Envelope Glycoprotein E2, Ph8
 pdb|2YQ2|B Chain B, Structure Of Bvdv1 Envelope Glycoprotein E2, Ph8
          Length = 337

 Score = 28.9 bits (63), Expect = 0.68,   Method: Composition-based stats.
 Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 5   LHSRTKVGTGFLFSRMLQGSKTGDTKNINHTYDF 38
           LHSR  + T  +F ++ +G K GDT  ++  ++F
Sbjct: 69  LHSRA-LPTSVVFKKLFEGQKQGDTVEMDDDFEF 101


>pdb|1GXS|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
           Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
           Cyanogenic Enzyme
 pdb|1GXS|C Chain C, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
           Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
           Cyanogenic Enzyme
          Length = 270

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 18/67 (26%), Positives = 25/67 (37%)

Query: 5   LHSRTKVGTGFLFSRMLQGSKTGDTKNINHTYDFLRKGCPNHLLIKYQQVTNAMVCLLIF 64
           L + +  G GF +S        GD K    TY FL K         Y++   A       
Sbjct: 103 LFAESPAGVGFSYSNTSSDLSMGDDKMAQDTYTFLVKWFERFPHYNYREFYIAGESGHFI 162

Query: 65  PQLMLIM 71
           PQL  ++
Sbjct: 163 PQLSQVV 169


>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
           Termination Factor 3
          Length = 298

 Score = 25.0 bits (53), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%)

Query: 26  TGDTKNINHTYDFLRK--GCPNHLLIKYQQVTN 56
           T +   +  T+DF+      P+H+++K+ QV N
Sbjct: 205 TANKMKLTETFDFVHNVMSIPHHIIVKFPQVFN 237


  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
   0.323    0.138    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,178,372
Number of Sequences: 62578
Number of extensions: 102232
Number of successful extensions: 182
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 181
Number of HSP's gapped (non-prelim): 5
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)