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= psy14229
         (119 letters)

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

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



>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 = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 33/72 (45%)

Query: 15  MKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTER 74
           + CLD    LTPLG++ ++ PL+P L  ML+    F C   +  + A  S  N      +
Sbjct: 501 LACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTK 560

Query: 75  RLSYAQRSNEIF 86
               A  +  IF
Sbjct: 561 DKKRADDAKNIF 572


>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 = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 33/72 (45%)

Query: 15  MKCLDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTER 74
           + CLD    LTPLG++ ++ PL+P L  ML+    F C   +  + A  S  N      +
Sbjct: 501 LACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTK 560

Query: 75  RLSYAQRSNEIF 86
               A  +  IF
Sbjct: 561 DKKRADDAKNIF 572


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

 Score = 35.8 bits (81), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 33/69 (47%)

Query: 18  LDANDELTPLGKILARLPLEPRLGKMLLLGSIFNCGDALNIVAASASGSNEIFVTERRLS 77
           LD    LT LG+ +A  PLEP L KML++     C + +  + +  S  N  +  + + +
Sbjct: 33  LDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSMLSVQNVFYRPKDKQA 92

Query: 78  YAQRSNEIF 86
            A +    F
Sbjct: 93  LADQKKAKF 101


>pdb|3EB2|A Chain A, Crystal Structure Of Dihydrodipicolinate Synthase From
           Rhodopseudomonas Palustris At 2.0a Resolution
 pdb|3EB2|B Chain B, Crystal Structure Of Dihydrodipicolinate Synthase From
           Rhodopseudomonas Palustris At 2.0a Resolution
 pdb|3EB2|C Chain C, Crystal Structure Of Dihydrodipicolinate Synthase From
           Rhodopseudomonas Palustris At 2.0a Resolution
 pdb|3EB2|D Chain D, Crystal Structure Of Dihydrodipicolinate Synthase From
           Rhodopseudomonas Palustris At 2.0a Resolution
          Length = 300

 Score = 28.9 bits (63), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 41/101 (40%), Gaps = 33/101 (32%)

Query: 30  ILARLPLEPRL----------GKMLLLGSIFN-CGDALNIVAASASGSNEIF-------- 70
           ++ARL   PR+          G++L   SI N CGDAL + +ASA     +         
Sbjct: 150 VIARLAEHPRIRYIKDASTNTGRLL---SIINRCGDALQVFSASAHIPAAVMLIGGVGWM 206

Query: 71  -----------VTERRLSYAQRSNEIFVTERRLSYAQRAFA 100
                      V    L  AQR +E  + +R+L     AFA
Sbjct: 207 AGPACIAPRQSVALYELCKAQRWDEALMLQRKLWRVNEAFA 247


  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
   0.323    0.137    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,040,854
Number of Sequences: 62578
Number of extensions: 102156
Number of successful extensions: 153
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 142
Number of HSP's gapped (non-prelim): 12
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)