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= 009098
         (543 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 = 0.27,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 38/78 (48%)

Query: 123 SSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMXXXXXXXXXX 182
           S L+ +   + ++S+ML  + P+  E    E++ +L   CR+ Q++++++          
Sbjct: 13  SELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLELIPQIANEQLT 72

Query: 183 XXXXXXNDILQNLLAKHD 200
                 ND L N+  +H+
Sbjct: 73  EELLIVNDNLNNVFLRHE 90


>pdb|1ELK|A Chain A, Vhs Domain Of Tom1 Protein From H. Sapiens
 pdb|1ELK|B Chain B, Vhs Domain Of Tom1 Protein From H. Sapiens
          Length = 157

 Score = 33.1 bits (74), Expect = 0.43,   Method: Composition-based stats.
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)

Query: 29  PDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFP 73
           P   + DK+L L+ SW +AF             YEDLRR G++FP
Sbjct: 113 PPTIVHDKVLNLIQSWADAFRS-SPDLTGVVTIYEDLRRKGLEFP 156


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

 Score = 32.0 bits (71), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 113 MATEV-ETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDL 158
           M TE+  ++ +   D +RDV  ++ D +  VN  DR  V +EVI+ L
Sbjct: 129 MTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML 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 = 31.6 bits (70), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/27 (51%), Positives = 15/27 (55%)

Query: 67  RYGVQFPKRSPDAAPIFTPPVSHPTLG 93
            YG  FPK   DAA I TP V +P  G
Sbjct: 937 HYGWSFPKNGGDAANILTPSVGNPNTG 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
   0.312    0.128    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,780,982
Number of Sequences: 62578
Number of extensions: 448335
Number of successful extensions: 654
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 651
Number of HSP's gapped (non-prelim): 7
length of query: 543
length of database: 14,973,337
effective HSP length: 104
effective length of query: 439
effective length of database: 8,465,225
effective search space: 3716233775
effective search space used: 3716233775
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)