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= 038714
         (319 letters)

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

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



>pdb|2PQY|A Chain A, E. Coli Rnase 1 (in Vitro Refolded With Dsba Only)
 pdb|2PQX|A Chain A, E. Coli Rnase 1 (In Vivo Folded)
 pdb|2EA1|A Chain A, Crystal Structure Of Ribonuclease I From Escherichia Coli
           Complexed With Guanylyl-2(Prime),5(Prime)-Guanosine
 pdb|2Z70|A Chain A, E.Coli Rnase 1 In Complex With D(Cgcgatcgcg)
          Length = 245

 Score = 31.2 bits (69), Expect = 0.86,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 174 QQLSDYGPIVPVMSYYDAVVQRQHDVLRNEVDEMWRRMQISSSN 217
           +Q  D+   V  +S+     Q QHD  RNE DE   R+Q  ++N
Sbjct: 6   KQYGDFDRYVLALSWQTGFCQSQHDRNRNERDEC--RLQTETTN 47


>pdb|1N80|A Chain A, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N80|B Chain B, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N80|C Chain C, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N80|D Chain D, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N8B|A Chain A, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N8B|B Chain B, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N8B|C Chain C, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1N8B|D Chain D, Bacteriophage T4 Baseplate Structural Protein Gp8
 pdb|1PDM|A Chain A, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|B Chain B, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|C Chain C, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|D Chain D, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|E Chain E, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|F Chain F, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|G Chain G, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|H Chain H, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|I Chain I, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|J Chain J, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|K Chain K, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1PDM|L Chain L, Fitting Of Gp8 Structure Into The Cryoem Reconstruction Of
           The Bacteriophage T4 Baseplate
 pdb|1TJA|A Chain A, Fitting Of Gp8, Gp9, And Gp11 Into The Cryo-em
           Reconstruction Of The Bacteriophage T4 Contracted Tail
 pdb|1TJA|B Chain B, Fitting Of Gp8, Gp9, And Gp11 Into The Cryo-em
           Reconstruction Of The Bacteriophage T4 Contracted Tail
          Length = 334

 Score = 27.7 bits (60), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 11/20 (55%), Positives = 14/20 (70%)

Query: 232 PDERTIFLTFSKGYPISENE 251
           PD+ TIF+TF +  P S NE
Sbjct: 32  PDKNTIFITFGRSEPWSSNE 51


  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
   0.320    0.134    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,623,258
Number of Sequences: 62578
Number of extensions: 324310
Number of successful extensions: 684
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 682
Number of HSP's gapped (non-prelim): 8
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
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: 51 (24.3 bits)