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= 010679
         (504 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 = 33.1 bits (74), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 34/128 (26%), Positives = 48/128 (37%), Gaps = 24/128 (18%)

Query: 191 YEYEKKFYNDHLESLQVMEKNYIT------MATEVEKL--RAELMNAPNVDRRAADGSYG 242
           +E     + D L   Q +    +T      +A  V+ L  RA  + + NV RR       
Sbjct: 44  HEAALDSFADTLRGWQNLRGCVVTVPYKQALANRVDGLSERAAALGSINVIRR------- 96

Query: 243 GATGNSENETSGRPVGQNAYEDGY-GVPQGHGPPPSATTAGVVGAGPNTSTSAYAATQSG 301
                   E  GR +G N    G+ G    HG  P+   A V+G G   S  AYA  ++G
Sbjct: 97  --------ERDGRLLGDNVDGAGFLGAAHKHGFEPAGKRALVIGCGGVGSAIAYALAEAG 148

Query: 302 TPMRAAYD 309
                  D
Sbjct: 149 IASITLCD 156


>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 = 29.6 bits (65), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 290 TSTSAYAATQSGTPMRAAYDIPRGPGYEASKGPGYDASKAPSYDPTKGPSYDPAKGPG 347
           T    YA  QSG  M A Y +   P Y    G G   ++ P+   T+GP Y+     G
Sbjct: 263 TGVYPYAYEQSGEAMAAKYLVRNKPCYACPIGCG-RVNRLPTVGETEGPEYESVWALG 319


>pdb|3AEI|A Chain A, Crystal Structure Of The Prefoldin Beta2 Subunit From
           Thermo Strain Ks-1
 pdb|3AEI|B Chain B, Crystal Structure Of The Prefoldin Beta2 Subunit From
           Thermo Strain Ks-1
          Length = 99

 Score = 29.3 bits (64), Expect = 5.3,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 6/85 (7%)

Query: 78  TLRQELAAAQHELQILHGQIGGMKSEREL--QMRNLTEKIAKMEAELKTAEPVKLEFQKS 135
           TLRQ L     EL+   G I  +KSER +     +L  +I K EA ++  E  +L +   
Sbjct: 18  TLRQSLELKMKELEYAEGIITSLKSERRIYRAFSDLLVEITKDEA-IEHIERSRLVY--- 73

Query: 136 KTEAQNLVVAREELIAKVHQLTQDL 160
           K E + L    +E++ ++ +L   L
Sbjct: 74  KREIEKLKKREKEIMEELSKLRAPL 98


>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 = 6.3,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 12/71 (16%)

Query: 399 QRGPGY-----ETQRVPG--YDVQRGPVYEAQRAPSYIPQRGPGYDLQRGQGYDMRRAPS 451
           +RGPG      E  R+ G  + V  G VY        +  RG  YDL+  Q YD+ R   
Sbjct: 106 KRGPGLYYVDSEGNRISGATFSVGSGSVYAYG-----VMDRGYSYDLEVEQAYDLARRAI 160

Query: 452 YDPSRGTGFDG 462
           Y  +    + G
Sbjct: 161 YQATYRDAYSG 171


  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
   0.311    0.132    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,386,368
Number of Sequences: 62578
Number of extensions: 841547
Number of successful extensions: 1468
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1448
Number of HSP's gapped (non-prelim): 41
length of query: 504
length of database: 14,973,337
effective HSP length: 103
effective length of query: 401
effective length of database: 8,527,803
effective search space: 3419649003
effective search space used: 3419649003
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)