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= psy10308
         (225 letters)

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

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



>pdb|2WBR|A Chain A, The Rrm Domain In Gw182 Proteins Contributes To Mirna-
           Mediated Gene Silencing
          Length = 89

 Score =  127 bits (319), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 58/86 (67%), Positives = 70/86 (81%)

Query: 53  GWSGTWVLLKNLTPQIDGSTLKTLCVQHGPLQNFHLYLNHSLALAKYSTREEAIKAQGNL 112
            W  +W+LLKNLT QIDG TL+TLC+QHGPL +FH YLN  +AL KY+TREEA KAQ  L
Sbjct: 4   AWGSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQMAL 63

Query: 113 NNCILGNTTIFAEAPSDAEVQSLLAH 138
           NNC+L NTTIFAE+PS+ EVQS++ H
Sbjct: 64  NNCVLANTTIFAESPSENEVQSIMQH 89


>pdb|2QX3|A Chain A, Structure Of Pectate Lyase Ii From Xanthomonas Campestris
           Pv. Campestris Str. Atcc 33913
 pdb|2QX3|B Chain B, Structure Of Pectate Lyase Ii From Xanthomonas Campestris
           Pv. Campestris Str. Atcc 33913
          Length = 330

 Score = 30.8 bits (68), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 4/86 (4%)

Query: 54  WSGTWVLLKNLTPQIDGSTLKTLCVQ-HGPLQNFHLYLNHSLAL--AKYSTREEAIKAQG 110
           +SG+  L+ N T + D  T+K +C Q   P +   +     + +  A  S     I+  G
Sbjct: 33  YSGSGGLVLNYTGKFDFGTIKDVCAQWKLPAKTVQIKNKSDVTIKGANGSAANFGIRVVG 92

Query: 111 NLNNCILGNTTI-FAEAPSDAEVQSL 135
           N +N I+ N TI   +   DA+  SL
Sbjct: 93  NAHNVIIQNMTIGLLQGGEDADSISL 118


>pdb|2QXZ|A Chain A, Pectate Lyase R236f From Xanthomonas Campestris
 pdb|2QXZ|B Chain B, Pectate Lyase R236f From Xanthomonas Campestris
          Length = 330

 Score = 30.8 bits (68), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 4/86 (4%)

Query: 54  WSGTWVLLKNLTPQIDGSTLKTLCVQ-HGPLQNFHLYLNHSLAL--AKYSTREEAIKAQG 110
           +SG+  L+ N T + D  T+K +C Q   P +   +     + +  A  S     I+  G
Sbjct: 33  YSGSGGLVLNYTGKFDFGTIKDVCAQWKLPAKTVQIKNKSDVTIKGANGSAANFGIRVVG 92

Query: 111 NLNNCILGNTTI-FAEAPSDAEVQSL 135
           N +N I+ N TI   +   DA+  SL
Sbjct: 93  NAHNVIIQNMTIGLLQGGEDADSISL 118


>pdb|2QY1|A Chain A, Pectate Lyase A31g/r236f From Xanthomonas Campestris
 pdb|2QY1|B Chain B, Pectate Lyase A31g/r236f From Xanthomonas Campestris
          Length = 330

 Score = 30.8 bits (68), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 4/86 (4%)

Query: 54  WSGTWVLLKNLTPQIDGSTLKTLCVQ-HGPLQNFHLYLNHSLAL--AKYSTREEAIKAQG 110
           +SG+  L+ N T + D  T+K +C Q   P +   +     + +  A  S     I+  G
Sbjct: 33  YSGSGGLVLNYTGKFDFGTIKDVCAQWKLPAKTVQIKNKSDVTIKGANGSAANFGIRVVG 92

Query: 111 NLNNCILGNTTI-FAEAPSDAEVQSL 135
           N +N I+ N TI   +   DA+  SL
Sbjct: 93  NAHNVIIQNMTIGLLQGGEDADSISL 118


  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
   0.311    0.128    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,786,697
Number of Sequences: 62578
Number of extensions: 201291
Number of successful extensions: 282
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 280
Number of HSP's gapped (non-prelim): 5
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)