RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4210
         (71 letters)



>2jgd_A 2-oxoglutarate dehydrogenase E1 component; flavoprotein,
           oxidoreductase, thiamine diphosphate, thiamine
           pyrophosphate, adenosine monophosphate; HET: AMP; 2.6A
           {Escherichia coli} PDB: 2jgd_B*
          Length = 933

 Score = 51.1 bits (123), Expect = 1e-09
 Identities = 13/38 (34%), Positives = 24/38 (63%)

Query: 1   MTLTLSSNPSHLELVYPVNLGKTKAFQFLTNDNAGDRI 38
           + L L+ NPSHLE+V PV +G  +A     ++ + +++
Sbjct: 312 VHLALAFNPSHLEIVSPVVIGSVRARLDRLDEPSSNKV 349


>2yic_A 2-oxoglutarate decarboxylase; lyase; HET: TPP; 1.96A {Mycobacterium
           smegmatis} PDB: 2xta_A* 2y0p_A* 2xt9_A* 2yid_A*
          Length = 868

 Score = 46.4 bits (111), Expect = 5e-08
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 1   MTLTLSSNPSHLELVYPVNLGKTKAFQFLTNDNAGDRIAHPK 42
           + ++L++NPSHLE V PV  G  +A Q L +           
Sbjct: 236 IEVSLTANPSHLEAVDPVLEGLVRAKQDLLDTGEEGSDNRFS 277


>2xt6_A 2-oxoglutarate decarboxylase; lyase, KDH, KGD; HET: TPP; 2.74A
           {Mycobacterium smegmatis}
          Length = 1113

 Score = 46.0 bits (110), Expect = 7e-08
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 1   MTLTLSSNPSHLELVYPVNLGKTKAFQFLTNDNAGDRIAHPK 42
           + ++L++NPSHLE V PV  G  +A Q L +           
Sbjct: 481 IEVSLTANPSHLEAVDPVLEGLVRAKQDLLDTGEEGSDNRFS 522


>1to4_A Superoxide dismutase; beta-barrel, oxidoreductase; 1.55A
           {Schistosoma mansoni} SCOP: b.1.8.1 PDB: 1to5_A 3mnd_A
          Length = 156

 Score = 25.7 bits (57), Expect = 1.0
 Identities = 7/21 (33%), Positives = 10/21 (47%)

Query: 19  NLGKTKAFQFLTNDNAGDRIA 39
           +LG+          NAG R+A
Sbjct: 127 DLGRGGHELSKVTGNAGGRLA 147


>1do5_A Human copper chaperone for superoxide dismutase domain II;
           beta-barrel; 2.75A {Homo sapiens} SCOP: b.1.8.1
          Length = 154

 Score = 24.5 bits (54), Expect = 3.3
 Identities = 6/21 (28%), Positives = 11/21 (52%)

Query: 19  NLGKTKAFQFLTNDNAGDRIA 39
           +LG+          N+G+R+A
Sbjct: 123 DLGRGGHPLSKITGNSGERLA 143


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.318    0.134    0.376 

Gapped
Lambda     K      H
   0.267   0.0803    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 945,555
Number of extensions: 39702
Number of successful extensions: 52
Number of sequences better than 10.0: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 5
Length of query: 71
Length of database: 6,701,793
Length adjustment: 41
Effective length of query: 30
Effective length of database: 5,557,032
Effective search space: 166710960
Effective search space used: 166710960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.3 bits)