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= 016220
         (393 letters)

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

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



>pdb|3TUM|A Chain A, 2.15 Angstrom Resolution Crystal Structure Of A Shikimate
           Dehydrogenase Family Protein From Pseudomonas Putida
           Kt2440 In Complex With Nad+
 pdb|3TUM|B Chain B, 2.15 Angstrom Resolution Crystal Structure Of A Shikimate
           Dehydrogenase Family Protein From Pseudomonas Putida
           Kt2440 In Complex With Nad+
          Length = 269

 Score = 32.0 bits (71), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 47/120 (39%), Gaps = 23/120 (19%)

Query: 81  YEYEKKFYNDHLESLQVMEKNYIT------MATEVEKL--RAELMNAPNVDRRADGSYGG 132
           +E     + D L   Q +    +T      +A  V+ L  RA  + + NV RR       
Sbjct: 44  HEAALDSFADTLRGWQNLRGCVVTVPYKQALANRVDGLSERAAALGSINVIRR------- 96

Query: 133 ATGNSENETSGRPVGQNAYEDGY-GVPQGHGPPPSATTAGVVGAGPNTSTSAYAATQSGT 191
                  E  GR +G N    G+ G    HG  P+   A V+G G   S  AYA  ++G 
Sbjct: 97  -------ERDGRLLGDNVDGAGFLGAAHKHGFEPAGKRALVIGCGGVGSAIAYALAEAGI 149


>pdb|1IRU|L Chain L, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
 pdb|1IRU|Z Chain Z, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
          Length = 204

 Score = 28.9 bits (63), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 32/72 (44%), Gaps = 14/72 (19%)

Query: 288 QRGPGY-----ETQRVPG--YDVQRGPVYEAQRAPSY-IPQRGPGYDLQRGQGYDMRRAP 339
           +RGPG      E  R+ G  + V  G VY      +Y +  RG  YDL+  Q YD+ R  
Sbjct: 106 KRGPGLYYVDSEGNRISGATFSVGSGSVY------AYGVMDRGYSYDLEVEQAYDLARRA 159

Query: 340 SYDPSRGTGFDG 351
            Y  +    + G
Sbjct: 160 IYQATYRDAYSG 171


>pdb|1AOR|A Chain A, Structure Of A Hyperthermophilic Tungstopterin Enzyme,
           Aldehyde Ferredoxin Oxidoreductase
 pdb|1AOR|B Chain B, Structure Of A Hyperthermophilic Tungstopterin Enzyme,
           Aldehyde Ferredoxin Oxidoreductase
          Length = 605

 Score = 28.1 bits (61), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 184 YAATQSGTPMRAAYDIPRGPGYEASKGPGYDASKAPSYDPTKGPSYDPAKGPG 236
           YA  QSG  M A Y +   P Y    G G   ++ P+   T+GP Y+     G
Sbjct: 268 YAYEQSGEAMAAKYLVRNKPCYACPIGCG-RVNRLPTVGETEGPEYESVWALG 319


  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
   0.315    0.136    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,437,939
Number of Sequences: 62578
Number of extensions: 786678
Number of successful extensions: 1127
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1118
Number of HSP's gapped (non-prelim): 16
length of query: 393
length of database: 14,973,337
effective HSP length: 101
effective length of query: 292
effective length of database: 8,652,959
effective search space: 2526664028
effective search space used: 2526664028
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)