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= 005702
         (682 letters)

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

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



>pdb|3RAU|A Chain A, Crystal Structure Of The Hd-Ptp Bro1 Domain
 pdb|3RAU|B Chain B, Crystal Structure Of The Hd-Ptp Bro1 Domain
          Length = 363

 Score = 30.0 bits (66), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 8/86 (9%)

Query: 259 YSVSVCLPYLVASANWILGELASCLPEDISADVYSSLLKA---LQMLDKGDTSCYPVRAS 315
           YSV +    L  + N +LG+   CL E    D   S L A    Q++D    +C  +   
Sbjct: 167 YSVDMSRQILTLNVNLMLGQAQECLLEKSMLDNRKSFLVARISAQVVDYYKEACRALENP 226

Query: 316 AAGAIVGLLENDYMPPEWYPLLQVIV 341
              +++G ++ D     W  L+Q+ +
Sbjct: 227 DTASLLGRIQKD-----WKKLVQMKI 247


>pdb|1Z3H|A Chain A, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
 pdb|1Z3H|B Chain B, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
          Length = 968

 Score = 29.3 bits (64), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 20/29 (68%)

Query: 103 DKAIFPALVLNEKDISEWEEDADEYIRKN 131
           ++ I P + L E+D+  +E+D  EYIR++
Sbjct: 340 EQIILPNVTLREEDVELFEDDPIEYIRRD 368


>pdb|1WA5|C Chain C, Crystal Structure Of The Exportin Cse1p Complexed With Its
           Cargo (Kap60p) And Rangtp
          Length = 960

 Score = 29.3 bits (64), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 20/29 (68%)

Query: 103 DKAIFPALVLNEKDISEWEEDADEYIRKN 131
           ++ I P + L E+D+  +E+D  EYIR++
Sbjct: 340 EQIILPNVTLREEDVELFEDDPIEYIRRD 368


  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: 18,364,021
Number of Sequences: 62578
Number of extensions: 695648
Number of successful extensions: 1560
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1558
Number of HSP's gapped (non-prelim): 3
length of query: 682
length of database: 14,973,337
effective HSP length: 105
effective length of query: 577
effective length of database: 8,402,647
effective search space: 4848327319
effective search space used: 4848327319
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: 55 (25.8 bits)