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= psy11969
         (170 letters)

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

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



>pdb|3UP0|A Chain A, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
          Ceylanicum In Complex With (25s)-Delta7-Dafachronic
          Acid
 pdb|3UP0|B Chain B, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
          Ceylanicum In Complex With (25s)-Delta7-Dafachronic
          Acid
 pdb|3UP3|A Chain A, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
          Ceylanicum In Complex With (25s)-Cholestenoic Acid
          Length = 243

 Score = 26.9 bits (58), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 8/55 (14%)

Query: 39 EKARSTTEFIKRLKSIADLLNTDLSQNLQLLSEKARSTTEFIKRLKSIADLLNDN 93
          E+ R  T F+K  KS AD++N        ++    R   +  KRL +  DL  D 
Sbjct: 28 EQGRQATSFLKNEKSPADIMN--------IMDVTMRRFVKMAKRLPAFNDLSQDG 74


>pdb|2Q27|A Chain A, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli
 pdb|2Q27|B Chain B, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli
 pdb|2Q28|A Chain A, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli In Complex With
           Adenosine-5`-Diphosphate
 pdb|2Q28|B Chain B, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli In Complex With
           Adenosine-5`-Diphosphate
 pdb|2Q29|A Chain A, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli In Complex With Acetyl Coenzyme A
 pdb|2Q29|B Chain B, Crystal Structure Of Oxalyl-Coa Decarboxylase From
           Escherichia Coli In Complex With Acetyl Coenzyme A
          Length = 564

 Score = 26.2 bits (56), Expect = 9.9,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 3/41 (7%)

Query: 56  DLLNTDLSQNLQLLSEKARSTTE---FIKRLKSIADLLNDN 93
           D+LN    QN Q + EK  + T+   +   L ++ D+L +N
Sbjct: 346 DILNIHKQQNAQKMHEKLSTDTQPLNYFNALSAVRDVLREN 386


>pdb|1XR2|A Chain A, Crystal Structure Of Oxidized T. Maritima Cobalamin-
           Independent Methionine Synthase Complexed With
           Methyltetrahydrofolate
 pdb|1XR2|B Chain B, Crystal Structure Of Oxidized T. Maritima Cobalamin-
           Independent Methionine Synthase Complexed With
           Methyltetrahydrofolate
          Length = 766

 Score = 26.2 bits (56), Expect = 9.9,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 2/73 (2%)

Query: 69  LSEKARSTTEFIKRLKSIADLLNDNSIEFESQIVAQCDALIKAIEDRKKQLVDAIRLEKE 128
           L EK     E ++ LK + D L   + +  +         ++A+E  +    D+ R EKE
Sbjct: 360 LKEKLAFAKEKLEELKMLKDFLEGKTFDLPNVSFEDFAVDLQAVERVRNLPEDSFRREKE 419

Query: 129 --SKQRILREQVS 139
              + RI RE+++
Sbjct: 420 YTERDRIQRERLN 432


  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
   0.320    0.131    0.345 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,150,947
Number of Sequences: 62578
Number of extensions: 86342
Number of successful extensions: 369
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 18
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
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: 48 (23.1 bits)