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= 002761
         (883 letters)

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

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



>pdb|1RL0|A Chain A, Crystal Structure Of A New Ribosome-Inactivating Protein
           (Rip): Dianthin 30
          Length = 255

 Score = 32.0 bits (71), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 226 NALEIAYEMEAAGRMATTFHF-NHLLSCQATCGIPEVAFATFENMEYGEDY 275
           N   +AY       +   ++F N + S + T   PEV  A  + +EYGEDY
Sbjct: 71  NLYVVAYLAMDNANVNRAYYFKNQITSAELTALFPEVVVANQKQLEYGEDY 121


>pdb|1LP8|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent
 pdb|1LPC|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent (Complex With
           Cyclic Amp)
 pdb|1LPD|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent (Complex With
           Adenine)
          Length = 254

 Score = 32.0 bits (71), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 226 NALEIAYEMEAAGRMATTFHF-NHLLSCQATCGIPEVAFATFENMEYGEDY 275
           N   +AY       +   ++F N + S + T   PEV  A  + +EYGEDY
Sbjct: 71  NLYVVAYLAMDNANVNRAYYFKNQITSAELTALFPEVVVANQKQLEYGEDY 121


>pdb|1W55|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
           Jejuni
 pdb|1W57|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
           Jejuni Containing Zn
          Length = 371

 Score = 30.8 bits (68), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 275 YMKPDTETYNCVIQAYTRAESYDRVQDVAELLGMMVEDHKRLQPNVKTYALLVECFTKYC 334
           YMK  T+ Y  +    TRAES  +  ++ +   +MV D  R+  +   +  L+E   K  
Sbjct: 59  YMKKFTKNYEFIEGGDTRAESLKKALELIDSEFVMVSDVARVLVSKNLFDRLIENLDKAD 118

Query: 335 AVTEAIR 341
            +T A++
Sbjct: 119 CITPALK 125


  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
   0.319    0.135    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,179,888
Number of Sequences: 62578
Number of extensions: 895038
Number of successful extensions: 2285
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2279
Number of HSP's gapped (non-prelim): 7
length of query: 883
length of database: 14,973,337
effective HSP length: 107
effective length of query: 776
effective length of database: 8,277,491
effective search space: 6423333016
effective search space used: 6423333016
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)