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= psy9089
         (200 letters)

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

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



>pdb|4F0A|B Chain B, Crystal Structure Of Xwnt8 In Complex With The
           Cysteine-Rich Domain Of Frizzled 8
          Length = 316

 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 77/169 (45%), Gaps = 33/169 (19%)

Query: 1   MVEKCKCHGMSGSCEIRTCWHSAPSFRTVGEALKKKFSHAIRVDQSNMGNGMPLVLPEYT 60
           M   CKCHG+SGSC I+TCW     FR +G  LK K   A++++                
Sbjct: 155 MKRTCKCHGISGSCSIQTCWLQLAEFRDIGNHLKIKHDQALKLEMDK------------- 201

Query: 61  RRYDNTLRKIRPHRGNNDKNNRMKRGGPRKHLNRMK-TELIYYQKSPNYCERDNDVDFPG 119
                  RK+R   GN+  N    RG      + +  +ELI+ + SP+YC ++  +   G
Sbjct: 202 -------RKMRS--GNSADN----RGAIADAFSSVAGSELIFLEDSPDYCLKNISLGLQG 248

Query: 120 TAGRYCNRT----SAFAVDNCESLC--CGRGYNLRREVKNLKCKCKFKW 162
           T GR C ++    S +   +C+ LC  CG     ++      C CKF W
Sbjct: 249 TEGRECLQSGKNLSQWERRSCKRLCTDCGLRVEEKKTEIISSCNCKFHW 297


>pdb|1YFM|A Chain A, Recombinant Yeast Fumarase
          Length = 488

 Score = 27.7 bits (60), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 10/44 (22%), Positives = 27/44 (61%), Gaps = 4/44 (9%)

Query: 31  EALKKKFSHAIRVDQSNMGNGMPLVLPE----YTRRYDNTLRKI 70
           EA  K+F H +++ ++++ +  PL L +    Y ++ +N ++++
Sbjct: 197 EAKSKEFDHIVKIGRTHLQDATPLTLGQEFSGYVQQVENGIQRV 240


  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    0.136    0.457 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,218,182
Number of Sequences: 62578
Number of extensions: 248358
Number of successful extensions: 349
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 2
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)