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= 033637
         (114 letters)

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

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



>pdb|3FBI|B Chain B, Structure Of The Mediator Submodule Med7n31
 pdb|3FBI|D Chain D, Structure Of The Mediator Submodule Med7n31
          Length = 130

 Score = 67.8 bits (164), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/91 (40%), Positives = 54/91 (59%), Gaps = 4/91 (4%)

Query: 3  ASKDNEEASDAPSSPKKVYKDPDDGRQRFLLELEFVQCLANPTYIHYL-AQNRYFEDEAF 61
           S  +    +AP++P     D +    RF +ELEF+Q LAN  Y+ YL  Q + ++   F
Sbjct: 1  GSHXSSTNGNAPATPSS---DQNPLPTRFEVELEFIQSLANIQYVTYLLTQQQIWKSPNF 57

Query: 62 IGYLKYLQYWQRPEYIKFIMYPHCLYFLELL 92
            YLKYL+YW  P Y + I+YP+CL+ L+LL
Sbjct: 58 KNYLKYLEYWCNPPYSQCIVYPNCLFILKLL 88


>pdb|3FBN|B Chain B, Structure Of The Mediator Submodule Med7n31
 pdb|3FBN|D Chain D, Structure Of The Mediator Submodule Med7n31
          Length = 130

 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/91 (40%), Positives = 54/91 (59%), Gaps = 4/91 (4%)

Query: 3  ASKDNEEASDAPSSPKKVYKDPDDGRQRFLLELEFVQCLANPTYIHYL-AQNRYFEDEAF 61
           S  +    +AP++P     D +    RF +ELEF+Q LAN  Y+ YL  Q + ++   F
Sbjct: 1  GSHMSSTNGNAPATPSS---DQNPLPTRFEVELEFIQSLANIQYVTYLLTQQQIWKSPNF 57

Query: 62 IGYLKYLQYWQRPEYIKFIMYPHCLYFLELL 92
            YLKYL+YW  P Y + I+YP+CL+ L+LL
Sbjct: 58 KNYLKYLEYWCNPPYSQCIVYPNCLFILKLL 88


>pdb|2PLA|A Chain A, Crystal Structure Of Human Glycerol-3-Phosphate
           Dehydrogenase 1-Like Protein
 pdb|2PLA|B Chain B, Crystal Structure Of Human Glycerol-3-Phosphate
           Dehydrogenase 1-Like Protein
          Length = 349

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/26 (50%), Positives = 15/26 (57%)

Query: 86  LYFLELLQNANFRNAMAHPANKVRLC 111
           L F ELLQ  NFR  +   A+ V LC
Sbjct: 177 LLFKELLQTPNFRITVVDDADTVELC 202


  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
   0.325    0.139    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,661,445
Number of Sequences: 62578
Number of extensions: 141768
Number of successful extensions: 275
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 270
Number of HSP's gapped (non-prelim): 3
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)