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= 007438
         (604 letters)

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

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



>pdb|2L7C|A Chain A, Biophysical Studies Of Lipid Interacting Regions Of Dgd2
           In Arabidopsis Thaliana
          Length = 19

 Score = 37.4 bits (85), Expect = 0.025,   Method: Composition-based stats.
 Identities = 13/18 (72%), Positives = 17/18 (94%)

Query: 529 QAFSKGAYFLGKMVWAKG 546
           Q F+KGAY++GKMVW+KG
Sbjct: 1   QPFTKGAYYIGKMVWSKG 18


>pdb|2KT6|A Chain A, Structural Homology Between The C-Terminal Domain Of The
           Papc Usher And Its Plug
          Length = 85

 Score = 32.7 bits (73), Expect = 0.56,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 7/72 (9%)

Query: 300 FGKDDLSDKKRNVAIVTTASLPWMTGTAVNPLFRAAYLAKTEQQNVTLLVPWLCKSDQEL 359
           FG    S+K R + +V    L W++G          +  K + Q   + VP    SDQ+L
Sbjct: 21  FGASVTSEKGRELGMVADEGLAWLSGVTPGETLSVNWDGKIQCQ---VNVPETAISDQQL 77

Query: 360 VYPNVTFCSPEE 371
           + P    C+P++
Sbjct: 78  LLP----CTPQK 85


>pdb|3L48|A Chain A, Crystal Structure Of The C-Terminal Domain Of The Papc
           Usher
 pdb|3L48|B Chain B, Crystal Structure Of The C-Terminal Domain Of The Papc
           Usher
 pdb|3L48|C Chain C, Crystal Structure Of The C-Terminal Domain Of The Papc
           Usher
 pdb|3L48|D Chain D, Crystal Structure Of The C-Terminal Domain Of The Papc
           Usher
 pdb|3L48|E Chain E, Crystal Structure Of The C-Terminal Domain Of The Papc
           Usher
          Length = 94

 Score = 32.7 bits (73), Expect = 0.61,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 7/72 (9%)

Query: 300 FGKDDLSDKKRNVAIVTTASLPWMTGTAVNPLFRAAYLAKTEQQNVTLLVPWLCKSDQEL 359
           FG    S+K R + +V    L W++G          +  K + Q   + VP    SDQ+L
Sbjct: 24  FGASVTSEKGRELGMVADEGLAWLSGVTPGETLSVNWDGKIQCQ---VNVPETAISDQQL 80

Query: 360 VYPNVTFCSPEE 371
           + P    C+P++
Sbjct: 81  LLP----CTPQK 88


  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    0.135    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,685,159
Number of Sequences: 62578
Number of extensions: 820418
Number of successful extensions: 1898
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1897
Number of HSP's gapped (non-prelim): 6
length of query: 604
length of database: 14,973,337
effective HSP length: 104
effective length of query: 500
effective length of database: 8,465,225
effective search space: 4232612500
effective search space used: 4232612500
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: 54 (25.4 bits)