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= 038603
         (256 letters)

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

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



>pdb|1JK0|B Chain B, Ribonucleotide Reductase Y2y4 Heterodimer
 pdb|1SMS|A Chain A, Structure Of The Ribonucleotide Reductase Rnr4 Homodimer
           From Saccharomyces Cerevisiae
 pdb|1SMS|B Chain B, Structure Of The Ribonucleotide Reductase Rnr4 Homodimer
           From Saccharomyces Cerevisiae
          Length = 345

 Score = 29.3 bits (64), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 3/64 (4%)

Query: 79  FQKPTDLTQYIAKSLFLISIGSNDYINNYLQPSTYASSQIYSGE---GFAVLIINNFSEQ 135
           FQK TD  +    +L  +SI S++ +N YL  +  A  Q   G+   GF +++ N +SE 
Sbjct: 71  FQKLTDDQKTYIGNLLALSISSDNLVNKYLIENFSAQLQNPEGKSFYGFQIMMENIYSEV 130

Query: 136 LSKL 139
            S +
Sbjct: 131 YSMM 134


>pdb|1YZV|A Chain A, Hypothetical Protein From Trypanosoma Cruzi
          Length = 204

 Score = 28.1 bits (61), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 5/50 (10%)

Query: 198 HTEIFQDSASVFLVTNKAC-----CGNVRYGGHLTCLPLQQPWANRNQYI 242
           H  I Q +A++  +  K       CG+   G H T + L Q W+    YI
Sbjct: 121 HVCILQTAAALLDMKKKVVIAVDGCGSQSQGDHCTAIQLMQSWSGDGCYI 170


>pdb|1AOZ|A Chain A, Refined Crystal Structure Of Ascorbate Oxidase At 1.9
           Angstroms Resolution
 pdb|1AOZ|B Chain B, Refined Crystal Structure Of Ascorbate Oxidase At 1.9
           Angstroms Resolution
 pdb|1ASO|A Chain A, X-Ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-Forms
 pdb|1ASO|B Chain B, X-Ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-Forms
 pdb|1ASP|A Chain A, X-ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-forms
 pdb|1ASP|B Chain B, X-ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-forms
 pdb|1ASQ|A Chain A, X-Ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-Forms
 pdb|1ASQ|B Chain B, X-Ray Structures And Mechanistic Implications Of Three
           Functional Derivatives Of Ascorbate Oxidase From
           Zucchini: Reduced-, Peroxide-, And Azide-Forms
          Length = 552

 Score = 28.1 bits (61), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 106 NYLQPSTYASSQIYSGEGFAVLIINNFSEQLSKLYILGVR 145
           NY+QP   +   IYSGE ++VLI  + +   +    +G R
Sbjct: 244 NYVQPFYTSDIDIYSGESYSVLITTDQNPSENYWVSVGTR 283


>pdb|3KHX|A Chain A, Crystal Structure Of Staphylococcus Aureus
           Metallopeptidase (SapepDAPE) IN THE APO-Form
 pdb|3KHX|B Chain B, Crystal Structure Of Staphylococcus Aureus
           Metallopeptidase (SapepDAPE) IN THE APO-Form
 pdb|3KI9|A Chain A, Crystal Structure Of Staphylococcus Aureus
           Metallopeptidase (SapepDAPE) IN THE MN2+ BOUND FORM
          Length = 492

 Score = 27.3 bits (59), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 9/76 (11%)

Query: 2   QQFLAFAHGQASNTSLTPAMFI--FGETMINSENNNSIMTIAREN-------YRHPHGID 52
           Q F+AF++    N+     M +    + M +   N  ++T   EN        R+P G +
Sbjct: 320 QAFVAFSNRYLFNSDFGEKMGMKFHTDVMGDVTTNIGVITYDNENAGLFGINLRYPEGFE 379

Query: 53  FGYPTDRFCNGISAAG 68
           F    DRF N I   G
Sbjct: 380 FEKAMDRFANEIQQYG 395


  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
   0.324    0.137    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,441,352
Number of Sequences: 62578
Number of extensions: 290291
Number of successful extensions: 716
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 713
Number of HSP's gapped (non-prelim): 4
length of query: 256
length of database: 14,973,337
effective HSP length: 97
effective length of query: 159
effective length of database: 8,903,271
effective search space: 1415620089
effective search space used: 1415620089
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)