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= 011697
         (479 letters)

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

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



>pdb|1WRD|A Chain A, Crystal Structure Of Tom1 Gat Domain In Complex With
           Ubiquitin
          Length = 103

 Score = 33.5 bits (75), Expect = 0.28,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 38/78 (48%)

Query: 59  SSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMXXXXXXXXXX 118
           S L+ +   + ++S+ML  + P+  E    E++ +L   CR+ Q++++++          
Sbjct: 13  SELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLELIPQIANEQLT 72

Query: 119 XXXXXXNDILQNLLAKHD 136
                 ND L N+  +H+
Sbjct: 73  EELLIVNDNLNNVFLRHE 90


>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
           Bound To Amppnp
          Length = 997

 Score = 32.7 bits (73), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 48  TMATEV-ETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDL 94
            M TE+  ++ +   D +RDV  ++ D +  VN  DR  V +EVI+ L
Sbjct: 128 IMTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML 175


>pdb|1H0H|A Chain A, Tungsten Containing Formate Dehydrogenase From
           Desulfovibrio Gigas
 pdb|1H0H|K Chain K, Tungsten Containing Formate Dehydrogenase From
           Desulfovibrio Gigas
          Length = 977

 Score = 31.2 bits (69), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 15/28 (53%)

Query: 2   QRYGVQFPKRSPDAAPIFTPPVSHPTLG 29
             YG  FPK   DAA I TP V +P  G
Sbjct: 936 WHYGWSFPKNGGDAANILTPSVGNPNTG 963


  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
   0.310    0.126    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,601,011
Number of Sequences: 62578
Number of extensions: 338181
Number of successful extensions: 483
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 481
Number of HSP's gapped (non-prelim): 6
length of query: 479
length of database: 14,973,337
effective HSP length: 103
effective length of query: 376
effective length of database: 8,527,803
effective search space: 3206453928
effective search space used: 3206453928
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: 53 (25.0 bits)