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= 026337
         (240 letters)

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

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



>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
 pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
          Length = 859

 Score =  157 bits (396), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 90/243 (37%), Positives = 133/243 (54%), Gaps = 19/243 (7%)

Query: 4   PVRPGFGTVGKKCVVRANHFMVQLAERDIHHYDVSITPEVTSKKINRQIISQLINLYRLT 63
           P RP FGT G+   ++AN F + + + DI+HY++ I PE   +++NR+I+  ++  ++  
Sbjct: 26  PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 85

Query: 64  HLGERMPAYDGMKSIYTAGPLPFESKEFIIKLXXXXXXXXXXXXXXXERQFRVVIRLASK 123
             G+R P +DG K++YTA PLP    +  +++               +R F+V I+  S 
Sbjct: 86  IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEGK--------DRIFKVSIKWVSC 137

Query: 124 PDLYTLQQFLLRRHFEAPYEVIQVLDVVLRAAPSEKHTVVGRSFFSTDLGPVGQLGDGVE 183
             L  L   L  R    P+E IQ LDVV+R  PS ++T VGRSFF+   G    LG G E
Sbjct: 138 VSLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGRE 197

Query: 184 YWRGYFQSLRPTQMGLSLNIDVSARSFYEPILVTEFVQYYCRDLS--------RPLSDQV 235
            W G+ QS+RP+   + LNIDVSA +FY+   V EFV   C  L         +PL+D  
Sbjct: 198 VWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFV---CEVLDFKSIEEQQKPLTDSQ 254

Query: 236 RLK 238
           R+K
Sbjct: 255 RVK 257


>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
          Length = 861

 Score =  157 bits (396), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 90/243 (37%), Positives = 133/243 (54%), Gaps = 19/243 (7%)

Query: 4   PVRPGFGTVGKKCVVRANHFMVQLAERDIHHYDVSITPEVTSKKINRQIISQLINLYRLT 63
           P RP FGT G+   ++AN F + + + DI+HY++ I PE   +++NR+I+  ++  ++  
Sbjct: 28  PPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQ 87

Query: 64  HLGERMPAYDGMKSIYTAGPLPFESKEFIIKLXXXXXXXXXXXXXXXERQFRVVIRLASK 123
             G+R P +DG K++YTA PLP    +  +++               +R F+V I+  S 
Sbjct: 88  IFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEGK--------DRIFKVSIKWVSC 139

Query: 124 PDLYTLQQFLLRRHFEAPYEVIQVLDVVLRAAPSEKHTVVGRSFFSTDLGPVGQLGDGVE 183
             L  L   L  R    P+E IQ LDVV+R  PS ++T VGRSFF+   G    LG G E
Sbjct: 140 VSLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCSNPLGGGRE 199

Query: 184 YWRGYFQSLRPTQMGLSLNIDVSARSFYEPILVTEFVQYYCRDLS--------RPLSDQV 235
            W G+ QS+RP+   + LNIDVSA +FY+   V EFV   C  L         +PL+D  
Sbjct: 200 VWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFV---CEVLDFKSIEEQQKPLTDSQ 256

Query: 236 RLK 238
           R+K
Sbjct: 257 RVK 259


>pdb|1XOC|A Chain A, The Structure Of The Oligopeptide-Binding Protein, Appa,
           From Bacillus Subtilis In Complex With A Nonapeptide
          Length = 520

 Score = 30.4 bits (67), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 3   FPVRPGFGTVGKKCVVRANHFMVQLAERDIHHYDVSITPEVTSKKINR-QIISQL 56
           F  RP   TV  K +  AN    QL   DI+ ++V  T   T++K N  +I++ L
Sbjct: 208 FEGRPYLDTVTYKVIPDANAAEAQLQAGDINFFNVPATDYKTAEKFNNLKIVTDL 262


  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
   0.325    0.141    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,386,224
Number of Sequences: 62578
Number of extensions: 224413
Number of successful extensions: 671
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 4
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)