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= 004828
         (728 letters)

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

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



>pdb|2R55|A Chain A, Human Star-Related Lipid Transfer Protein 5
 pdb|2R55|B Chain B, Human Star-Related Lipid Transfer Protein 5
          Length = 231

 Score = 37.0 bits (84), Expect = 0.041,   Method: Compositional matrix adjust.
 Identities = 35/127 (27%), Positives = 50/127 (39%), Gaps = 3/127 (2%)

Query: 235 WKCVRTLNGVRIFEDVADSKSGRGVLVKAVGVIDASADTVFEVVLNLERHQRYEWDMLTG 294
           WK  R  NGV +      S    G L +  G++  + + V++ V       R +WD    
Sbjct: 45  WKICREGNGVSV--SWRPSVEFPGNLYRGEGIVYGTLEEVWDCVKPAVGGLRVKWDENVT 102

Query: 295 DLELVDSYDGHYDVVYGTYDPKYLTRWQSKRDFVFSRQWFRGQDGTYTILQFPAVHKKRP 354
             E++ S       V  T  P    +  S RDFV      R +DGT +       H   P
Sbjct: 103 GFEIIQSITDTL-CVSRTSTPSAAMKLISPRDFVDLVLVKRYEDGTISSNATHVEHPLCP 161

Query: 355 PKSGYRR 361
           PK G+ R
Sbjct: 162 PKPGFVR 168


>pdb|1M1C|A Chain A, Structure Of The L-A Virus
 pdb|1M1C|B Chain B, Structure Of The L-A Virus
          Length = 680

 Score = 32.0 bits (71), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 626 KPNYSLVLYYASERPVNKNSLLGKFVDGTDMFRDARFKLIPSIAEGY-WMVKRAV 679
           +P  S V+  A  + VN N L  +F     +      K +P+ AEGY W++  A+
Sbjct: 265 RPPSSKVMLSALRKYVNHNRLYNQFYTAAQLLAQIMMKPVPNCAEGYAWLMHDAL 319


  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
   0.321    0.137    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,298,077
Number of Sequences: 62578
Number of extensions: 915509
Number of successful extensions: 1698
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1694
Number of HSP's gapped (non-prelim): 10
length of query: 728
length of database: 14,973,337
effective HSP length: 106
effective length of query: 622
effective length of database: 8,340,069
effective search space: 5187522918
effective search space used: 5187522918
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)