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= 007021
         (621 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 = 39.7 bits (91), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 37/168 (22%), Positives = 71/168 (42%), Gaps = 18/168 (10%)

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 DL---DVFNQHCH--GKTKQKFEMRS----YHEMVVNQIRQMSEDNQQ 477
           D    ++  ++    G  K   E+        E++V  +RQ+ E+ ++
Sbjct: 115 DYNGNNIIGENLRKTGDLKTIAELTEEEARKQELLVQNLRQLVEEKKK 162


>pdb|2CMG|A Chain A, Crystal Structure Of Spermidine Synthase From Helicobacter
           Pylori
 pdb|2CMG|B Chain B, Crystal Structure Of Spermidine Synthase From Helicobacter
           Pylori
 pdb|2CMH|A Chain A, Crystal Structure Of Spermidine Synthase From Helicobacter
           Pylori
 pdb|2CMH|B Chain B, Crystal Structure Of Spermidine Synthase From Helicobacter
           Pylori
 pdb|2CMH|C Chain C, Crystal Structure Of Spermidine Synthase From Helicobacter
           Pylori
          Length = 262

 Score = 30.8 bits (68), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 15/30 (50%), Positives = 18/30 (60%)

Query: 590 EEVELEKGFDAELTQLMEKYSTHITEVAAD 619
           +EV +  GFD EL   + KY THI  V AD
Sbjct: 74  KEVLIVDGFDLELAHQLFKYDTHIDFVQAD 103


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

 Score = 30.0 bits (66), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 15/92 (16%)

Query: 321 DTEKDHEIVWPPMVIIMNTRLDKDENDKWTGMGNQELLEYFILYAAVRARHSYGPQGHRG 380
           DT+  HE +          ++DK+EN +  G+ + +LLE F   A    RH+Y       
Sbjct: 161 DTKSFHEAI--------RDKIDKNENQQSPGL-HDKLLEIFHTIAQPSLRHTYSDVTWEQ 211

Query: 381 MSVLIFESSAGGYLEAERL------HKHFAEQ 406
           +   +    A G+LE + +       KH  EQ
Sbjct: 212 LEAGVNRKGAAGFLEKKNVGEVLDSEKHLVEQ 243


>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 = 7.3,   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


  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    0.128    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,789,838
Number of Sequences: 62578
Number of extensions: 721519
Number of successful extensions: 1420
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1414
Number of HSP's gapped (non-prelim): 25
length of query: 621
length of database: 14,973,337
effective HSP length: 105
effective length of query: 516
effective length of database: 8,402,647
effective search space: 4335765852
effective search space used: 4335765852
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: 54 (25.4 bits)