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= 040313
         (123 letters)

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

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



>pdb|3FY4|A Chain A, (6-4) Photolyase Crystal Structure
 pdb|3FY4|B Chain B, (6-4) Photolyase Crystal Structure
 pdb|3FY4|C Chain C, (6-4) Photolyase Crystal Structure
          Length = 537

 Score = 30.0 bits (66), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 9/70 (12%)

Query: 27  IKQLLEDNKQHIKDPPNTETCQLLAKQLFYTRLASIPNRVDAFWKELDGLKQFMKNRELE 86
           ++ + +D K+H   PP +   QLL ++ FYT     PN         D +K     +++ 
Sbjct: 278 LQNIYKDVKKHT-SPPVSLLGQLLWREFFYTTAFGTPN--------FDKMKGNRICKQIP 328

Query: 87  MNLDNAGLAA 96
            N D+A LAA
Sbjct: 329 WNEDHAMLAA 338


>pdb|2F9Y|B Chain B, The Crystal Structure Of The Carboxyltransferase Subunit
          Of Acc From Escherichia Coli
          Length = 304

 Score = 26.2 bits (56), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 3/34 (8%)

Query: 57 TRLASIPNRVDAFWKELDGLKQFMKNRELEMNLD 90
          TR ASIP   +  W + D   Q +   ELE NL+
Sbjct: 14 TRKASIP---EGVWTKCDSCGQVLYRAELERNLE 44


>pdb|2W1Z|A Chain A, Rop2 From Toxoplasma Gondii:  A Virulence Factor With A
           Protein-Kinase Fold And No Enzymatic Activity.
 pdb|2W1Z|B Chain B, Rop2 From Toxoplasma Gondii:  A Virulence Factor With A
           Protein-Kinase Fold And No Enzymatic Activity
          Length = 368

 Score = 25.8 bits (55), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 40  DPPNTETCQLLAKQLFYTRLASIPNRVDAFWKELDGLKQFMKNREL 85
           D PNTE  +L   +  Y R  +IP  V A    L+G  ++ K   L
Sbjct: 294 DLPNTEDAELGGIEWIYRRCKNIPQPVRAL---LEGFLRYSKEDRL 336


  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    0.136    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,660,026
Number of Sequences: 62578
Number of extensions: 135864
Number of successful extensions: 453
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 453
Number of HSP's gapped (non-prelim): 8
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
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: 45 (21.9 bits)