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= 025480
         (252 letters)

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

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



>pdb|4DNV|A Chain A, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
           Protein Uvr8
 pdb|4DNV|B Chain B, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
           Protein Uvr8
 pdb|4DNV|C Chain C, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
           Protein Uvr8
 pdb|4DNV|D Chain D, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
           Protein Uvr8
          Length = 370

 Score = 30.8 bits (68), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 6/86 (6%)

Query: 31  DRLVFARLTSGSTLKIGNKNCSLQPLIGCPF-GSLFQVDNGK-----EGPNLSRVIPSTE 84
           DRLV  R+TS    K+    C  +  I   + G+L+     K      G     +IP   
Sbjct: 200 DRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKL 259

Query: 85  DDVQEKEDAQISGEFRDNRAIVDDNK 110
           + +     +QISG FR   A+  D K
Sbjct: 260 EALSNSFISQISGGFRHTMALTSDGK 285


>pdb|4AXG|A Chain A, Structure Of Eif4e-Cup Complex
 pdb|4AXG|B Chain B, Structure Of Eif4e-Cup Complex
          Length = 248

 Score = 28.1 bits (61), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 19/40 (47%)

Query: 67  VDNGKEGPNLSRVIPSTEDDVQEKEDAQISGEFRDNRAIV 106
            + G+  P  S   P+   DV+ KED Q +GE   N A  
Sbjct: 14  TEQGRPEPPTSAAAPAEAKDVKPKEDPQETGEPAGNTATT 53


>pdb|1BXS|A Chain A, Sheep Liver Class 1 Aldehyde Dehydrogenase With Nad Bound
 pdb|1BXS|B Chain B, Sheep Liver Class 1 Aldehyde Dehydrogenase With Nad Bound
 pdb|1BXS|C Chain C, Sheep Liver Class 1 Aldehyde Dehydrogenase With Nad Bound
 pdb|1BXS|D Chain D, Sheep Liver Class 1 Aldehyde Dehydrogenase With Nad Bound
          Length = 501

 Score = 26.9 bits (58), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 6/66 (9%)

Query: 9   DPIRNAQLTWEGCSVLLDINDGDRLVFARLTSGSTLKIGNK--NCSLQPLIGCPFGSLFQ 66
           D I+ A  T+ G S  +  ND D+ +    T  S L+ G    NC       CPFG    
Sbjct: 416 DVIKRANNTFYGLSAGIFTNDIDKAI----TVSSALQSGTVWVNCYSVVSAQCPFGGFKM 471

Query: 67  VDNGKE 72
             NG+E
Sbjct: 472 SGNGRE 477


  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
   0.318    0.136    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,679,465
Number of Sequences: 62578
Number of extensions: 255259
Number of successful extensions: 467
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 4
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)