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= psy17351
         (162 letters)

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

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



>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
          Length = 270

 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/120 (31%), Positives = 58/120 (48%), Gaps = 28/120 (23%)

Query: 1   MRKVREVRTQLKEILIQQKMKLVSCGTDWDVIRKCICSALFG------------------ 42
           +R+ +++R Q+  I+ + K+ +VSCG     ++K ICS  F                   
Sbjct: 138 LRRAQDIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQ 197

Query: 43  ----------MGFTPDYVVYHELIMTSKEYMQCVTAVDGQWLAELGPMFFSVKETGKSGS 92
                         P++VVYHEL++T+KEYM+ VT +D +WL E  P FF V E    G 
Sbjct: 198 VVYIHPSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFKVLEVDLQGD 257


>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
 pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
          Length = 767

 Score = 46.2 bits (108), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 42/69 (60%), Gaps = 3/69 (4%)

Query: 43  MGFTPDYVVYHELIMTSKEYMQCVTAVDGQWLAELGPMFFSVKETGKSGSTKRRKALEHL 102
           +G   ++V+Y+E ++TSK Y++ VT+V  +WL E+ P ++ +    K G  K   +LE +
Sbjct: 687 LGHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQK-GDVKL--SLERI 743

Query: 103 HEMEDQMKQ 111
            E  D++ +
Sbjct: 744 KEKVDRLNE 752


>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
           Complex With Adp
 pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
           Complex With Adp
          Length = 773

 Score = 46.2 bits (108), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 42/69 (60%), Gaps = 3/69 (4%)

Query: 43  MGFTPDYVVYHELIMTSKEYMQCVTAVDGQWLAELGPMFFSVKETGKSGSTKRRKALEHL 102
           +G   ++V+Y+E ++TSK Y++ VT+V  +WL E+ P ++ +    K G  K   +LE +
Sbjct: 687 LGHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQK-GDVKL--SLERI 743

Query: 103 HEMEDQMKQ 111
            E  D++ +
Sbjct: 744 KEKVDRLNE 752


  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    0.135    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,494,737
Number of Sequences: 62578
Number of extensions: 146719
Number of successful extensions: 356
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 352
Number of HSP's gapped (non-prelim): 6
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)