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= 012025
         (472 letters)

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

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



>pdb|4E8U|A Chain A, Crystal Structure Of Arabidopsis Idn2 Xs Domain Along With
           A Small Segment Of Adjacent Coiled-Coil Region
 pdb|4E8U|C Chain C, Crystal Structure Of Arabidopsis Idn2 Xs Domain Along With
           A Small Segment Of Adjacent Coiled-Coil Region
          Length = 172

 Score = 35.4 bits (80), Expect = 0.062,   Method: Compositional matrix adjust.
 Identities = 29/121 (23%), Positives = 51/121 (42%), Gaps = 9/121 (7%)

Query: 321 DTEKDHEIVWPPMVIIMNTRLDKDENDKWTGMGNQELLEYFIL--YAAVRARHSYGPQGH 378
           D + D ++V+P   I++N    K ++ +  G    +L + +IL  +   R R  +   GH
Sbjct: 2   DCDHDEKLVYPWKGIVVNIPTTKAQDGRSAGESGSKLRDEYILRGFNPTRVRPLWNYLGH 61

Query: 379 RGMSVLIFESSAGGYLEAERLHKHFAEQGTDRDSWNNSNRRVLFHAGGKRQLYGFMALKE 438
            G +++ F     G        K +   G  +  W       L   G K  LYG++A  +
Sbjct: 62  SGTAIVEFNKDWNGLHNGLLFDKAYTVDGHGKKDW-------LKKDGPKLGLYGWIARAD 114

Query: 439 D 439
           D
Sbjct: 115 D 115


>pdb|2CJQ|A Chain A, Bovine Viral Diarrhea Virus Cp7-R12 Rna-Dependent Rna
           Polymerase
          Length = 720

 Score = 30.8 bits (68), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 30/113 (26%), Positives = 48/113 (42%), Gaps = 18/113 (15%)

Query: 303 GTSVIPAGEVFGKWKGLK---DTEKDHEIVWPPMVIIMNTRLDKDENDKWTGMGNQELLE 359
           GT +  AG    K   ++   DT+  HE +          ++DK+EN +  G+ ++ LLE
Sbjct: 140 GTIMTEAGIRLEKLPVVRAQTDTKSFHEAI--------RDKIDKNENQQSPGLHDK-LLE 190

Query: 360 YFILYAAVRARHSYGPQGHRGMSVLIFESSAGGYLEAERL------HKHFAEQ 406
            F   A    RH+Y       +   +    A G+LE + +       KH  EQ
Sbjct: 191 IFHTIAQPSLRHTYSDVTWEQLEAGVNRKGAAGFLEKKNVGEVLDSEKHLVEQ 243


>pdb|1S48|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 1 (Residues 71-679) From Bvdv
 pdb|1S49|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 1 (Residues 71-679) From Bovine Viral Diarrhea
           Virus Complexed With Gtp
          Length = 609

 Score = 29.6 bits (65), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 7/76 (9%)

Query: 337 MNTRLDKDENDKWTGMGNQELLEYFILYAAVRARHSYGPQGHRGMSVLIFESSAGGYLEA 396
           +  ++DK EN +   + N+ LLE F   A    +H+YG      +   +    A G+LE 
Sbjct: 99  IRDKIDKSENRQNPELHNK-LLEIFHTIAQPTLKHTYGEVTWEQLEAGVNRKGAAGFLEK 157

Query: 397 ERL------HKHFAEQ 406
           + +       KH  EQ
Sbjct: 158 KNIGEVLDSEKHLVEQ 173


>pdb|3NAS|A Chain A, The Crystal Structure Of Beta-Phosphoglucomutase From
           Bacillus Subtilis
 pdb|3NAS|B Chain B, The Crystal Structure Of Beta-Phosphoglucomutase From
           Bacillus Subtilis
          Length = 233

 Score = 29.3 bits (64), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 11/54 (20%), Positives = 28/54 (51%)

Query: 319 LKDTEKDHEIVWPPMVIIMNTRLDKDENDKWTGMGNQELLEYFILYAAVRARHS 372
           + DT + H + W  +   ++   D+D N++  G+  +E LE  +++     +++
Sbjct: 13  ITDTAEYHFLAWKHIAEQIDIPFDRDXNERLKGISREESLESILIFGGAETKYT 66


>pdb|1S4F|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 2 From Bovine Viral Diarrhea Virus (Bvdv)
 pdb|1S4F|B Chain B, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 2 From Bovine Viral Diarrhea Virus (Bvdv)
 pdb|1S4F|C Chain C, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 2 From Bovine Viral Diarrhea Virus (Bvdv)
 pdb|1S4F|D Chain D, Crystal Structure Of Rna-Dependent Rna Polymerase
           Construct 2 From Bovine Viral Diarrhea Virus (Bvdv)
          Length = 601

 Score = 29.3 bits (64), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 7/76 (9%)

Query: 337 MNTRLDKDENDKWTGMGNQELLEYFILYAAVRARHSYGPQGHRGMSVLIFESSAGGYLEA 396
           +  ++DK EN +   + N+ LLE F   A    +H+YG      +   +    A G+LE 
Sbjct: 91  IRDKIDKSENRQNPELHNK-LLEIFHTIAQPTLKHTYGEVTWEQLEAGVNRKGAAGFLEK 149

Query: 397 ERL------HKHFAEQ 406
           + +       KH  EQ
Sbjct: 150 KNIGEVLDSEKHLVEQ 165


  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
   0.313    0.130    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,287,603
Number of Sequences: 62578
Number of extensions: 538705
Number of successful extensions: 873
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 872
Number of HSP's gapped (non-prelim): 9
length of query: 472
length of database: 14,973,337
effective HSP length: 102
effective length of query: 370
effective length of database: 8,590,381
effective search space: 3178440970
effective search space used: 3178440970
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)