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= 043816
         (378 letters)

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

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



>pdb|1Z9T|A Chain A, Crystal Structure Of A Putative Laccase (yfih) From
           Escherichia Coli At 1.54 A Resolution
          Length = 255

 Score = 29.6 bits (65), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 267 SCFCDYPEPVDIWIMKESWTKVFSFAGGVFGIFTYAKA---LAYSKSGDKVLVDKF 319
           SCF D PE +  W+      + F   G V   F    A    A+ + GDK L D +
Sbjct: 152 SCFADNPENILAWLGPAIGPRAFEVGGEVREAFXAVDAKASAAFIQHGDKYLADIY 207


>pdb|1ZEE|A Chain A, X-Ray Crystal Structure Of Protein So4414 From Shewanella
           Oneidensis. Northeast Structural Genomics Consortium
           Target Sor52.
 pdb|1ZEE|B Chain B, X-Ray Crystal Structure Of Protein So4414 From Shewanella
           Oneidensis. Northeast Structural Genomics Consortium
           Target Sor52
          Length = 403

 Score = 29.3 bits (64), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 24/95 (25%), Positives = 33/95 (34%)

Query: 235 SEEFFEVPLPHLENRDSGNLMYMGNFSGCLYFSCFCDYPEPVDIWIMKESWTKVFSFAGG 294
           S +   V    L++    N           +F C   Y +P  +  +         FAG 
Sbjct: 183 SHDLLRVTKQALQDVIESNQQLFNRLDTDRFFYCVRPYYKPYRVGSVVYRGANAGDFAGI 242

Query: 295 VFGIFTYAKALAYSKSGDKVLVDKFLYDEDEDEGI 329
                T     A   S  + LVDKFLY   ED+ I
Sbjct: 243 NVIDLTLGLCFANEASYSQXLVDKFLYXXPEDQQI 277


>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
 pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
          Length = 480

 Score = 28.9 bits (63), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 14/51 (27%), Positives = 22/51 (43%)

Query: 134 LPKFWSDFDDYADLVDGFGYDAVSDDYKVVRLIQFGRGKVEYTEIAVYSLK 184
           L K +S+ DDY D+VD         D     ++Q   GK     + + + K
Sbjct: 63  LEKIFSEDDDYIDIVDSLSVSPTDSDVSAGNILQLFHGKSRIQRLNILNAK 113


>pdb|2NWB|A Chain A, Crystal Structure Of A Putative 2,3-Dioxygenase (So4414)
           From Shewanella Oneidensis In Complex With Ferric Heme.
           Northeast Structural Genomics Target Sor52.
 pdb|2NWB|B Chain B, Crystal Structure Of A Putative 2,3-Dioxygenase (So4414)
           From Shewanella Oneidensis In Complex With Ferric Heme.
           Northeast Structural Genomics Target Sor52
          Length = 400

 Score = 28.9 bits (63), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 24/95 (25%), Positives = 34/95 (35%)

Query: 235 SEEFFEVPLPHLENRDSGNLMYMGNFSGCLYFSCFCDYPEPVDIWIMKESWTKVFSFAGG 294
           S +   V    L++    N           +F C   Y +P  +  +         FAG 
Sbjct: 183 SHDLLRVTKQALQDVIESNQQLFNRLDTDRFFYCVRPYYKPYRVGSVVYRGANAGDFAGI 242

Query: 295 VFGIFTYAKALAYSKSGDKVLVDKFLYDEDEDEGI 329
                T     A   S  ++LVDKFLY   ED+ I
Sbjct: 243 NVIDLTLGLCFANEASYSQMLVDKFLYMMPEDQQI 277


  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
   0.322    0.140    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,594,209
Number of Sequences: 62578
Number of extensions: 579932
Number of successful extensions: 1176
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1171
Number of HSP's gapped (non-prelim): 8
length of query: 378
length of database: 14,973,337
effective HSP length: 100
effective length of query: 278
effective length of database: 8,715,537
effective search space: 2422919286
effective search space used: 2422919286
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: 52 (24.6 bits)