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= 028479
         (208 letters)

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

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



>pdb|3A2E|A Chain A, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|B Chain B, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|C Chain C, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|D Chain D, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
          Length = 108

 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 31/54 (57%)

Query: 12  TVYGLYQCRGDLKTTDCSRCIESAVNQISLVCPYTYGASLQLEGCYVRYEHIDF 65
           T YG   C+  +  +DC+ C+ + VN+I  +C    GA +QL  C+++YE   F
Sbjct: 55  TAYGRATCKQSISQSDCTACLSNLVNRIFSICNNAIGARVQLVDCFIQYEQRSF 108



 Score = 37.0 bits (84), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 10/83 (12%)

Query: 88  FFKRRDDVLADLQTAVSF-----KVSSSG-----FVEGFAQCLGDLTPADCTTCLAEAIA 137
           F +    +LADL+   +F     K S +G        G A C   ++ +DCT CL+  + 
Sbjct: 21  FNRNLRAMLADLRQNTAFSGYDYKTSRAGSGGAPTAYGRATCKQSISQSDCTACLSNLVN 80

Query: 138 KLKNLCGSAPAADVFLAQCYARY 160
           ++ ++C +A  A V L  C+ +Y
Sbjct: 81  RIFSICNNAIGARVQLVDCFIQY 103


>pdb|3ZC1|A Chain A, Crystal Structure Of Afc3po
 pdb|3ZC1|B Chain B, Crystal Structure Of Afc3po
 pdb|3ZC1|C Chain C, Crystal Structure Of Afc3po
 pdb|3ZC1|D Chain D, Crystal Structure Of Afc3po
 pdb|3ZC1|E Chain E, Crystal Structure Of Afc3po
 pdb|3ZC1|F Chain F, Crystal Structure Of Afc3po
 pdb|3ZC1|G Chain G, Crystal Structure Of Afc3po
 pdb|3ZC1|H Chain H, Crystal Structure Of Afc3po
          Length = 199

 Score = 27.3 bits (59), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 12/61 (19%), Positives = 29/61 (47%)

Query: 72  SIWYKKCSKSVNNDVEFFKRRDDVLADLQTAVSFKVSSSGFVEGFAQCLGDLTPADCTTC 131
            I++  C+ ++   VE    ++ +  +    +  +V+ + F+ GFA  +G+L     T  
Sbjct: 71  EIYFYLCNDAMQELVEAIAFKNAISGEFTFEIDLEVTPAAFLNGFADAVGELRRYALTKL 130

Query: 132 L 132
           +
Sbjct: 131 I 131


>pdb|3ZC0|A Chain A, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|B Chain B, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|C Chain C, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|D Chain D, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|E Chain E, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|F Chain F, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|G Chain G, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|H Chain H, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|I Chain I, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|J Chain J, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|K Chain K, Structure Of Afc3po - Duplex Rna Complex
 pdb|3ZC0|L Chain L, Structure Of Afc3po - Duplex Rna Complex
          Length = 199

 Score = 27.3 bits (59), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 12/61 (19%), Positives = 29/61 (47%)

Query: 72  SIWYKKCSKSVNNDVEFFKRRDDVLADLQTAVSFKVSSSGFVEGFAQCLGDLTPADCTTC 131
            I++  C+ ++   VE    ++ +  +    +  +V+ + F+ GFA  +G+L     T  
Sbjct: 71  EIYFYLCNDAMQELVEAIAFKNAISGEFTFEIDLEVTPAAFLNGFAAAVGELRRYALTKL 130

Query: 132 L 132
           +
Sbjct: 131 I 131


  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    0.135    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,708,956
Number of Sequences: 62578
Number of extensions: 199686
Number of successful extensions: 382
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 377
Number of HSP's gapped (non-prelim): 7
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
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: 49 (23.5 bits)