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= 002906
         (867 letters)

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

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



>pdb|3ZS7|A Chain A, Crystal Structure Of Pyridoxal Kinase From Trypanosoma
           Brucei
          Length = 300

 Score = 31.2 bits (69), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 11/103 (10%)

Query: 125 CRKETEEIWNRLYPEEPYELDLAKISSEDFSAELSGLEKFTKYDLVSAVKRQSPFFYQVS 184
           C+KE  + +  L P       LA I + ++  E S L   T  DL SA+   + +F+   
Sbjct: 128 CKKEVLDAYRELVP-------LADIVTPNY-FEASLLSGVTVNDLSSAI-LAADWFHNCG 178

Query: 185 RSHFNNDVFLEEAVARYKGFLHLIKKNRERSIKRF--CVPTYD 225
            +H     F E+    +  FL+ +K+  E +++RF   VP ++
Sbjct: 179 VAHVIIKSFREQENPTHLRFLYSVKEGSEAAVRRFSGVVPYHE 221


>pdb|3O9P|A Chain A, The Structure Of The Escherichia Coli Murein Tripeptide
           Binding Protein Mppa
          Length = 519

 Score = 30.8 bits (68), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 5/93 (5%)

Query: 138 PEEPYELDLAKISSEDFSAELSGLEKFTKYDLVSAVKRQSPFF--YQVSRSHFNNDVFLE 195
           P++P +L L   +SE+       +    K +L   VK Q+  +  Y  SR+  N DV   
Sbjct: 357 PQKPLKLTLLYNTSENHQKIAIAVASMWKKNLGVDVKLQNQEWKTYIDSRNTGNFDVIRA 416

Query: 196 EAVARYK---GFLHLIKKNRERSIKRFCVPTYD 225
             V  Y     FL L+      +I RF  P YD
Sbjct: 417 SWVGDYNEPSTFLTLLTSTHSGNISRFNNPAYD 449


>pdb|3MMY|A Chain A, Structural And Functional Analysis Of The Interaction
           Between The Nucleoporin Nup98 And The Mrna Export Factor
           Rae1
 pdb|3MMY|C Chain C, Structural And Functional Analysis Of The Interaction
           Between The Nucleoporin Nup98 And The Mrna Export Factor
           Rae1
 pdb|3MMY|E Chain E, Structural And Functional Analysis Of The Interaction
           Between The Nucleoporin Nup98 And The Mrna Export Factor
           Rae1
 pdb|3MMY|G Chain G, Structural And Functional Analysis Of The Interaction
           Between The Nucleoporin Nup98 And The Mrna Export Factor
           Rae1
          Length = 368

 Score = 30.4 bits (67), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 536 VTESGETITLAEMVETGWSVMDCCWS------LKKKSSKEGHLFELLGNRMINL 583
           V +SG+TI  A+ + TG  V+D CWS            K   +++L  N+ I +
Sbjct: 71  VQDSGQTIPKAQQMHTG-PVLDVCWSDDGSKVFTASCDKTAKMWDLSSNQAIQI 123


  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
   0.316    0.132    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,004,284
Number of Sequences: 62578
Number of extensions: 860100
Number of successful extensions: 1859
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1859
Number of HSP's gapped (non-prelim): 12
length of query: 867
length of database: 14,973,337
effective HSP length: 107
effective length of query: 760
effective length of database: 8,277,491
effective search space: 6290893160
effective search space used: 6290893160
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)