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= 004336
         (760 letters)

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

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



>pdb|2FO1|E Chain E, Crystal Structure Of The Csl-Notch-Mastermind Ternary
           Complex Bound To Dna
          Length = 373

 Score = 30.8 bits (68), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 28/54 (51%)

Query: 275 DRKLASLVASREDAVELMGYAIEENSPVLAVSCLQVFLRELPDCLNDERVVEIF 328
           D K    +A++E  +E++ Y I++ + V AV       R+L    N   +V+IF
Sbjct: 312 DGKTPIXLAAQEGRIEVVXYLIQQGASVEAVDATDHTARQLAQANNHHNIVDIF 365


>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha.
 pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha
          Length = 388

 Score = 30.0 bits (66), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 7/73 (9%)

Query: 347 LYCLLSEVA---MNLDPRSDKTVCFLERLLESAETDRQRLLAFHQLGCVRLLRKEYDEAE 403
           LYC+ S++      L    +   C+L+ +    ET     +A+  LGCV   + E   A 
Sbjct: 134 LYCVRSDLGNLLKALGRLEEAKACYLKAI----ETQPNFAVAWSNLGCVFNAQGEIWLAI 189

Query: 404 HLFEAILTLSPDY 416
           H FE  +TL P++
Sbjct: 190 HHFEKAVTLDPNF 202


>pdb|3H75|A Chain A, Crystal Structure Of A Periplasmic Sugar-Binding Protein
           From The Pseudomonas Fluorescens
          Length = 350

 Score = 28.9 bits (63), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 76  ELCPLQERSSLYLLQFQVFKGLGEAKLMRRSLRKAWQKASTVH-EKLVFGAW 126
           +L P+     + LL F   K    A+L  R LR+A  +   VH  +LV+G W
Sbjct: 136 KLGPVPAGHGIELLAFSGLKVTPAAQLRERGLRRALAEHPQVHLRQLVYGEW 187


  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
   0.321    0.135    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,037,627
Number of Sequences: 62578
Number of extensions: 753059
Number of successful extensions: 1719
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1712
Number of HSP's gapped (non-prelim): 14
length of query: 760
length of database: 14,973,337
effective HSP length: 106
effective length of query: 654
effective length of database: 8,340,069
effective search space: 5454405126
effective search space used: 5454405126
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)