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= 018587
         (353 letters)

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

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



>pdb|1WJT|A Chain A, Solution Structure Of The N-Terminal Domain I Of Mouse
           Transcription Elongation Factor S-Ii Protein 3
          Length = 103

 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 46/79 (58%), Gaps = 2/79 (2%)

Query: 116 FDDEQKRILEIKEHLEDPDQSEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSN 175
            ++E  RI +  E +    ++E AL DLL+ L    ++ + L+ T IG  VN +RKH S+
Sbjct: 10  LEEELLRIAKKLEKMVSRKKTEGAL-DLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSD 68

Query: 176 -DVRKLVKHLVRKWKDIVD 193
            +V  L K L++ WK ++D
Sbjct: 69  KEVVSLAKVLIKNWKRLLD 87


>pdb|1PQV|S Chain S, Rna Polymerase Ii-Tfiis Complex
          Length = 309

 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/75 (30%), Positives = 46/75 (61%), Gaps = 1/75 (1%)

Query: 121 KRILEIKEHLEDPDQSEDALIDLLQSL-ADMDITFKALKETDIGRHVNQLRKHSSNDVRK 179
           K +L   ++LE    ++ A++++L  L  +   T K L+ET +G  VN+ +K ++ ++ K
Sbjct: 4   KEVLVHVKNLEKNKSNDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISK 63

Query: 180 LVKHLVRKWKDIVDE 194
           LVK ++  WKD +++
Sbjct: 64  LVKKMISSWKDAINK 78


>pdb|1EO0|A Chain A, Conserved Domain Common To Transcription Factors Tfiis,
           Elongin A, Crsp70
          Length = 77

 Score = 40.8 bits (94), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/76 (30%), Positives = 46/76 (60%), Gaps = 1/76 (1%)

Query: 119 EQKRILEIKEHLEDPDQSEDALIDLLQSL-ADMDITFKALKETDIGRHVNQLRKHSSNDV 177
           + K +L   ++LE    ++ A++++L  L  +   T K L+ET +G  VN+ +K ++ ++
Sbjct: 2   DSKEVLVHVKNLEKNKSNDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEI 61

Query: 178 RKLVKHLVRKWKDIVD 193
            KLVK ++  WKD ++
Sbjct: 62  SKLVKKMISSWKDAIN 77


>pdb|2GAC|B Chain B, T152c Mutant Glycosylasparaginase From Flavobacterium
           Meningosepticum
 pdb|2GAC|D Chain D, T152c Mutant Glycosylasparaginase From Flavobacterium
           Meningosepticum
 pdb|2GL9|B Chain B, Crystal Structure Of Glycosylasparaginase-Substrate
           Complex
 pdb|2GL9|D Chain D, Crystal Structure Of Glycosylasparaginase-Substrate
           Complex
          Length = 144

 Score = 27.7 bits (60), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 163 GRHVNQLRKHSSNDVRKLVKHLVRKWKDIVDEWVKLNQPGELASSAMMDGDSPQQKIPQN 222
           GR   Q  K +   + K+V    +  KDI   ++ LN+ GE  +  + DG +      Q 
Sbjct: 74  GRTPQQACKEAVERIVKIVNRRGKNLKDIQVGFIALNKKGEYGAYCIQDGFNFAVH-DQK 132

Query: 223 GNH-QVPDFA 231
           GN  + P FA
Sbjct: 133 GNRLETPGFA 142


  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
   0.313    0.130    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,972,683
Number of Sequences: 62578
Number of extensions: 380268
Number of successful extensions: 795
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 790
Number of HSP's gapped (non-prelim): 15
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
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: 52 (24.6 bits)