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= psy4941
         (172 letters)

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

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



>pdb|3THF|A Chain A, Crystal Structure Of The Sd2 Domain From Drosophila Shroom
 pdb|3THF|B Chain B, Crystal Structure Of The Sd2 Domain From Drosophila Shroom
          Length = 190

 Score =  122 bits (307), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 68/165 (41%), Positives = 107/165 (64%), Gaps = 3/165 (1%)

Query: 4   LDSKLTLLRSVQVDLNEESRGNDRLGEALATRLASEARPAETAKYKLHVQEVGHITXXXX 63
           L+ K+  L+  Q  ++EE   NDRLG+ L  +LA + RP+E +K++ HV  VG+IT    
Sbjct: 24  LNQKIVSLKREQQTISEECSANDRLGQDLFAKLAEKVRPSEASKFRTHVDAVGNITSLLL 83

Query: 64  XXXXXXXXXENALIGLREDHCDRKSLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRK 123
                    E++L   +++   R +LE KRD L  Q+EEA+ LK +I+RR  ++A LL K
Sbjct: 84  SLSERLAQTESSLETRQQE---RGALESKRDLLYEQMEEAQRLKSDIERRGVSIAGLLAK 140

Query: 124 YLSSEEFADYNHFINMKAKLLVDAREISDKIQLGEEQLAALQETM 168
            LS++  ADY++FINMKAKL+ DAR+++ +I+  EEQL++L + +
Sbjct: 141 NLSADMCADYDYFINMKAKLIADARDLAVRIKGSEEQLSSLSDAL 185


>pdb|3QQY|A Chain A, Crystal Structure Of A Novel Laglidadg Homing
           Endonuclease, I-Onui (From Ophiostoma Novo-Ulmi Subsp.
           Americana)
          Length = 307

 Score = 29.3 bits (64), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 5/45 (11%)

Query: 73  ENALIGLR----EDHCD-RKSLEEKRDKLASQLEEAKELKENIDR 112
           EN LIG++    ED C   K +EEK+    S L+E K++K N+++
Sbjct: 259 ENTLIGVKLEDFEDWCKVAKLIEEKKHLTESGLDEIKKIKLNMNK 303


>pdb|1WGY|A Chain A, Ra Domain Of Guanine Nucleotide Exchange Factor For Rap1
          Length = 104

 Score = 28.1 bits (61), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 4/40 (10%)

Query: 136 FINMKAKLLVDAREI----SDKIQLGEEQLAALQETMEGE 171
           ++++KAK+   A+EI    ++KIQ  EE LA +  T  GE
Sbjct: 21  YVSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGE 60


  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
   0.310    0.127    0.327 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,814,634
Number of Sequences: 62578
Number of extensions: 119811
Number of successful extensions: 293
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 271
Number of HSP's gapped (non-prelim): 26
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)