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= 008368
         (568 letters)

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

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



>pdb|1ZDL|A Chain A, Crystal Structure Of Mouse Thioredoxin Reductase Type 2
 pdb|1ZKQ|A Chain A, Crystal Structure Of Mouse Thioredoxin Reductase Type 2
          Length = 517

 Score = 30.8 bits (68), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 2/78 (2%)

Query: 205 LRIIGYLRRIGVFSEYEMRLQFLRCREAWLTGILEDLDQKNAYEYLKGMINCHRMHLFDV 264
           L   G+L  IG+ +   MR   LR  +  ++ ++ +  + +  ++LKG +  H   L   
Sbjct: 224 LECAGFLTGIGLDTTVMMRSIPLRGFDQQMSSLVTEHMESHGTQFLKGCVPSHIKKL--P 281

Query: 265 VNQYRAIFADDTSGSEEN 282
            NQ +  + D  SG E+ 
Sbjct: 282 TNQLQVTWEDHASGKEDT 299


>pdb|3DGZ|A Chain A, Crystal Structure Of Mouse Mitochondrial Thioredoxin
           Reductase, C- Terminal 3-Residue Truncation
          Length = 488

 Score = 30.8 bits (68), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 2/78 (2%)

Query: 205 LRIIGYLRRIGVFSEYEMRLQFLRCREAWLTGILEDLDQKNAYEYLKGMINCHRMHLFDV 264
           L   G+L  IG+ +   MR   LR  +  ++ ++ +  + +  ++LKG +  H   L   
Sbjct: 198 LECAGFLTGIGLDTTVMMRSIPLRGFDQQMSSLVTEHMESHGTQFLKGCVPSHIKKL--P 255

Query: 265 VNQYRAIFADDTSGSEEN 282
            NQ +  + D  SG E+ 
Sbjct: 256 TNQLQVTWEDHASGKEDT 273


>pdb|3IQD|B Chain B, Structure Of Octopine-Dehydrogenase In Complex With Nadh
           And Agmatine
          Length = 404

 Score = 30.4 bits (67), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 37/89 (41%), Gaps = 10/89 (11%)

Query: 421 RPCAPLSLKHVLAEELIKGLQAVSDSLLRYSTTRMLRENESGLFLSLCRAFIEV-----A 475
           R    L  K VLA  LIKG     D L   ST +ML   E      L + F+E+     +
Sbjct: 155 RKVEVLGTKSVLAASLIKGTAKTVDPL---STLQMLHGAEP--VFRLAKHFLEMLIMSYS 209

Query: 476 YPHCATCFGRCYPGGAALIMDAKSLYDGL 504
           + H A  FGR        + +A   Y G+
Sbjct: 210 FVHPAILFGRWGSWDGKPVPEAPLFYQGI 238


>pdb|3C7A|A Chain A, A Structural Basis For Substrate And Stereo Selectivity In
           Octopine Dehydrogenase (Odh-Nadh)
 pdb|3C7D|B Chain B, A Structural Basis For Substrate And Stereo Selectivity In
           Octopine Dehydrogenase (Odh-Nadh-Pyruvate)
 pdb|3C7C|B Chain B, A Structural Basis For Substrate And Stereo Selectivity In
           Octopine Dehydrogenase (Odh-Nadh-L-Arginine)
          Length = 404

 Score = 30.4 bits (67), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 37/89 (41%), Gaps = 10/89 (11%)

Query: 421 RPCAPLSLKHVLAEELIKGLQAVSDSLLRYSTTRMLRENESGLFLSLCRAFIEV-----A 475
           R    L  K VLA  LIKG     D L   ST +ML   E      L + F+E+     +
Sbjct: 155 RKVEVLGTKSVLAASLIKGTAKTVDPL---STLQMLHGAEP--VFRLAKHFLEMLIMSYS 209

Query: 476 YPHCATCFGRCYPGGAALIMDAKSLYDGL 504
           + H A  FGR        + +A   Y G+
Sbjct: 210 FVHPAILFGRWGSWDGKPVPEAPLFYQGI 238


>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
           Protein P14 Bound To Region Of Sf3b155
 pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
           Protein P14 Bound To Region Of Sf3b155
          Length = 125

 Score = 29.3 bits (64), Expect = 6.9,   Method: Composition-based stats.
 Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 15/101 (14%)

Query: 196 RSNIQLPECLRIIGYLRRI----------GVFSEY----EMRLQFLRCREAWLTGILEDL 241
           R+NI+LP  +  I Y+R +           +F +Y    ++R+            + ED+
Sbjct: 8   RANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDI 67

Query: 242 -DQKNAYEYLKGMINCHRMHLFDVVNQYRAIFADDTSGSEE 281
            D KNA ++L G   C+R  +    N  RA    DT   EE
Sbjct: 68  FDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEE 108


  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
   0.320    0.136    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,949,954
Number of Sequences: 62578
Number of extensions: 579673
Number of successful extensions: 1150
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1149
Number of HSP's gapped (non-prelim): 8
length of query: 568
length of database: 14,973,337
effective HSP length: 104
effective length of query: 464
effective length of database: 8,465,225
effective search space: 3927864400
effective search space used: 3927864400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)