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= 035606
         (232 letters)

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

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



>pdb|1OAI|A Chain A, Complex Between Tap Uba Domain And Fxfg Nucleoporin
           Peptide
          Length = 59

 Score = 27.7 bits (60), Expect = 5.1,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 111 LNGFKPKSRGYVDWSQGCVRDKSLNYSRQDGFIKFTAMKLPDATP 155
           L  F  +S   ++WSQ C++D + +Y+R      FT +K     P
Sbjct: 11  LQAFSTQSGMNLEWSQKCLQDNNWDYTRSAQ--AFTHLKAKGEIP 53


>pdb|1GO5|A Chain A, Structure Of The C-Terminal Fg-Binding Domain Of Human Tap
          Length = 69

 Score = 27.7 bits (60), Expect = 5.8,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 111 LNGFKPKSRGYVDWSQGCVRDKSLNYSRQDGFIKFTAMKLPDATP 155
           L  F  +S   ++WSQ C++D + +Y+R      FT +K     P
Sbjct: 21  LQAFSTQSGMNLEWSQKCLQDNNWDYTRSAQ--AFTHLKAKGEIP 63


>pdb|1FFT|A Chain A, The Structure Of Ubiquinol Oxidase From Escherichia Coli
 pdb|1FFT|F Chain F, The Structure Of Ubiquinol Oxidase From Escherichia Coli
          Length = 663

 Score = 26.9 bits (58), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 11/39 (28%), Positives = 20/39 (51%)

Query: 13  PWNGLQFSASPLRPNPIFNFSLVSNEDELCYTFDMRDKA 51
           PW G     +   P P +NF++V +  E    ++M++K 
Sbjct: 533 PWGGRTLEWATSSPPPFYNFAVVPHVHERDAFWEMKEKG 571


>pdb|1J78|A Chain A, Crystallographic Analysis Of The Human Vitamin D Binding
           Protein
 pdb|1J78|B Chain B, Crystallographic Analysis Of The Human Vitamin D Binding
           Protein
 pdb|1J7E|A Chain A, A Structural Basis For The Unique Binding Features Of The
           Human Vitamin D-Binding Protein
 pdb|1J7E|B Chain B, A Structural Basis For The Unique Binding Features Of The
           Human Vitamin D-Binding Protein
 pdb|1LOT|A Chain A, Crystal Structure Of The Complex Of Actin With Vitamin
           D-Binding Protein
          Length = 458

 Score = 26.9 bits (58), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 6/86 (6%)

Query: 82  YLPRDLCDTYALCGACGVCIINDLPVCHCLNG--FKPKSRGYVDWSQGCVRDKSLNY--S 137
           +L + L  T    G C  C + D   C    G   K +   ++D  Q    D S N    
Sbjct: 344 FLSKVLEPTLKSLGEC--CDVEDSTTCFNAKGPLLKKELSSFIDKGQELCADYSENTFTE 401

Query: 138 RQDGFIKFTAMKLPDATPSRVSKSMN 163
            +    +    KLPDATP+ ++K +N
Sbjct: 402 YKKKLAERLKAKLPDATPTELAKLVN 427


  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    0.137    0.452 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,131,966
Number of Sequences: 62578
Number of extensions: 290425
Number of successful extensions: 607
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 603
Number of HSP's gapped (non-prelim): 7
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)