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= 017590
         (369 letters)

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

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



>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
           Iii Effector Xcv3220 (Xopl)
          Length = 328

 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 69/165 (41%), Gaps = 14/165 (8%)

Query: 9   LRCFPQNIHFISSIK-IDCYKCVNLREFPR------ISG------NVVELNLMCTPIEEV 55
           LR  P +I  ++ ++ +    C  L E P        SG      N+  L L  T I  +
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198

Query: 56  PLSIECLPNLETLEMSFCNSLKRLSTSICKLKSLRSLDLSYCINLESFPXXXXXXXXXXX 115
           P SI  L NL++L++   + L  L  +I  L  L  LDL  C  L ++P           
Sbjct: 199 PASIANLQNLKSLKIR-NSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKR 257

Query: 116 XXXXXASNIKELPSSIENLEGLKQLKLTGCTKLGSLPESLGNLKS 160
                 SN+  LP  I  L  L++L L GC  L  LP  +  L +
Sbjct: 258 LILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302



 Score = 36.6 bits (83), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 74/169 (43%), Gaps = 22/169 (13%)

Query: 28  KCVNLREFP----RISGNVVELNLMCTPIEEVPLSIECLPNLETLEMSFCNSLKRLSTSI 83
           + V L +FP    R+S ++    +    + E+P + +    LETL ++  N L+ L  SI
Sbjct: 89  RSVPLPQFPDQAFRLS-HLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASI 146

Query: 84  CKLKSLRSLDLSYCINLESFPXXXXXXXXXXXXXXXXASNIKELPSSIENLEGLKQLKLT 143
             L  LR L +  C  L   P                +++       + NL+ L+ L+ T
Sbjct: 147 ASLNRLRELSIRACPELTELPEPLA------------STDASGEHQGLVNLQSLR-LEWT 193

Query: 144 GCTKLGSLPESLGNLKSLERLHAGLLAIPQAPSSIVDLNKLETLSLFEC 192
           G   + SLP S+ NL++L+ L      +     +I  L KLE L L  C
Sbjct: 194 G---IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGC 239


>pdb|2GSI|A Chain A, Crystal Structure Of A Murine Fab In Complex With An 11
           Residue Peptide Derived From Staphylococcal Nuclease
 pdb|2GSI|C Chain C, Crystal Structure Of A Murine Fab In Complex With An 11
           Residue Peptide Derived From Staphylococcal Nuclease
 pdb|2GSI|E Chain E, Crystal Structure Of A Murine Fab In Complex With An 11
           Residue Peptide Derived From Staphylococcal Nuclease
 pdb|2GSI|G Chain G, Crystal Structure Of A Murine Fab In Complex With An 11
           Residue Peptide Derived From Staphylococcal Nuclease
          Length = 215

 Score = 32.0 bits (71), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 21/45 (46%)

Query: 3   MAGCESLRCFPQNIHFISSIKIDCYKCVNLREFPRISGNVVELNL 47
            +G  S   F  NIH +       Y C ++RE PR SG   +L +
Sbjct: 66  FSGSGSGTDFTLNIHPVEEEDAATYYCSHIRELPRSSGGGTKLEI 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
   0.322    0.137    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,742,732
Number of Sequences: 62578
Number of extensions: 231072
Number of successful extensions: 634
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 607
Number of HSP's gapped (non-prelim): 29
length of query: 369
length of database: 14,973,337
effective HSP length: 100
effective length of query: 269
effective length of database: 8,715,537
effective search space: 2344479453
effective search space used: 2344479453
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)