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= 035938
         (133 letters)

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

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



>pdb|1D7Q|A Chain A, Human Translation Initiation Factor Eif1a
          Length = 143

 Score = 97.4 bits (241), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 52/96 (54%), Positives = 65/96 (67%), Gaps = 9/96 (9%)

Query: 26  QKRELIIKEEGQEYAEVLRMLGNGRL---------RLHWRHQAMHKRVWIAAGDIILVGF 76
           +KREL+ KE+GQEYA+V++MLGNGRL         RL      + K+VWI   DIILVG 
Sbjct: 21  EKRELVFKEDGQEYAQVIKMLGNGRLEAMCFDGVKRLCHIRGKLRKKVWINTSDIILVGL 80

Query: 77  RIYQDDKADVILINTPDEAKRLKNIGELPDGTRLNE 112
           R YQD+KADVIL    DEA+ LK  GELP+  ++NE
Sbjct: 81  RDYQDNKADVILKYNADEARSLKAYGELPEHAKINE 116


>pdb|2OQK|A Chain A, Crystal Structure Of Putative Cryptosporidium Parvum
           Translation Initiation Factor Eif-1a
          Length = 117

 Score = 95.1 bits (235), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 49/95 (51%), Positives = 62/95 (65%), Gaps = 9/95 (9%)

Query: 27  KRELIIKEEGQEYAEVLRMLGNGRL---------RLHWRHQAMHKRVWIAAGDIILVGFR 77
           KREL+ KEEGQEY +V R LGNGRL         RL        K+VW+  GDI+LV  R
Sbjct: 23  KRELVFKEEGQEYGQVQRXLGNGRLDAYCFDGQKRLCHIRGKXRKKVWVNPGDIVLVSLR 82

Query: 78  IYQDDKADVILINTPDEAKRLKNIGELPDGTRLNE 112
            +QD K D+IL  TPDEA+ LK+ GE+P+ T++NE
Sbjct: 83  DFQDSKGDIILKYTPDEARALKSKGEIPETTKINE 117


>pdb|1JT8|A Chain A, Archaeal Initiation Factor-1a, Aif-1a
          Length = 102

 Score = 29.6 bits (65), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 48  NGRLRLHWRHQAMHKRVWIAAGDIILVG-FRIYQDDKADVILINTPDEAKRLKNIGEL 104
           +G+ RL      +  R+W+  GD+++V  + +  D K D+I   T  + + LK  G L
Sbjct: 41  DGKTRLGRIPGRLKNRIWVREGDVVIVKPWEVQGDQKCDIIWRYTKTQVEWLKRKGYL 98


>pdb|3DNF|A Chain A, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
           Reductase, The Terminal Enzyme Of The Non-mevalonate
           Pathway
 pdb|3DNF|B Chain B, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
           Reductase, The Terminal Enzyme Of The Non-mevalonate
           Pathway
          Length = 297

 Score = 27.3 bits (59), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 88  LINTPDEAKRLKNIGELPD-GTRLNEGLLLIL 118
           +I+ P E  RLKN+G  P  G    EG  +I+
Sbjct: 40  IIHNPQEVNRLKNLGVFPSQGEEFKEGDTVII 71


>pdb|4ABY|A Chain A, Crystal Structure Of Deinococcus Radiodurans Recn Head
           Domain
 pdb|4ABY|B Chain B, Crystal Structure Of Deinococcus Radiodurans Recn Head
           Domain
 pdb|4ABY|C Chain C, Crystal Structure Of Deinococcus Radiodurans Recn Head
           Domain
 pdb|4ABY|D Chain D, Crystal Structure Of Deinococcus Radiodurans Recn Head
           Domain
          Length = 415

 Score = 26.2 bits (56), Expect = 6.4,   Method: Composition-based stats.
 Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 7/32 (21%)

Query: 29  ELIIKEEGQEYAEVLRMLGNGRLRLHWRHQAM 60
           E++   E QE+A+       GRL +HW+H A+
Sbjct: 134 EVVSVRELQEWAQ-------GRLTIHWQHSAV 158


>pdb|4AD8|A Chain A, Crystal Structure Of A Deletion Mutant Of Deinococcus
           Radiodurans Recn
          Length = 517

 Score = 25.4 bits (54), Expect = 8.7,   Method: Composition-based stats.
 Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 7/32 (21%)

Query: 29  ELIIKEEGQEYAEVLRMLGNGRLRLHWRHQAM 60
           E++   E QE+A+       GRL +HW+H A+
Sbjct: 134 EVVSVRELQEWAQ-------GRLTIHWQHSAV 158


  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
   0.324    0.143    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,404,300
Number of Sequences: 62578
Number of extensions: 129634
Number of successful extensions: 270
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 265
Number of HSP's gapped (non-prelim): 9
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)