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= 010104
         (518 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 = 1.5,   Method: Compositional matrix adjust.
 Identities = 26/95 (27%), Positives = 45/95 (47%), Gaps = 9/95 (9%)

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 219
            +H     F E+    +  FL+ +K+  E +++RF
Sbjct: 179 VAHVIIKSFREQENPTHLRFLYSVKEGSEAAVRRF 213


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

 Score = 30.8 bits (68), Expect = 1.9,   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|4GNS|B Chain B, Crystal Structure Of The Chs5-Chs6 Exomer Cargo Adaptor
           Complex
          Length = 754

 Score = 29.6 bits (65), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 28/61 (45%), Gaps = 7/61 (11%)

Query: 269 TGFSGTTKQWEETFGSRYPKAGAMYRG--TAPSPLTTIPFSSDIVSKEVVSSKECQKIIN 326
           T  + T K WEETF S   +A          P  L   PF    V K+ +SS  C+KII 
Sbjct: 167 TDLTMTEKMWEETFASSVIRAIITNTNPELKPPGLVECPF---YVGKDTISS--CKKIIE 221

Query: 327 I 327
           +
Sbjct: 222 L 222


  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
   0.319    0.134    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,244,794
Number of Sequences: 62578
Number of extensions: 586471
Number of successful extensions: 1179
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: 1179
Number of HSP's gapped (non-prelim): 8
length of query: 518
length of database: 14,973,337
effective HSP length: 103
effective length of query: 415
effective length of database: 8,527,803
effective search space: 3539038245
effective search space used: 3539038245
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: 54 (25.4 bits)