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= 036143
         (355 letters)

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

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



>pdb|3F4S|A Chain A, Crystal Structure Of Wolbachia Pipientis Alpha-Dsba1 T172v
          Length = 226

 Score = 30.4 bits (67), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 52/107 (48%), Gaps = 14/107 (13%)

Query: 162 LPKDVQGLIMRDIEDVTSLNDVFSKEQGLVN--AAKFSHLKALWFSYCPNLQKLFSLQLL 219
            P D +GL          L+  + K++   N   A F+ + + W  Y  NL  L  LQ +
Sbjct: 82  FPLDYRGL------KAAMLSHCYEKQEDYFNFNKAVFNSIDS-WNYY--NLSDLTLLQRI 132

Query: 220 AALQNLEFLVVQSCNRNEEIVE--VNDEETQ-KELGISAITITLPRL 263
           AAL NL+      C  +++I++  VND+     +LGI+A+ I   +L
Sbjct: 133 AALSNLKQDAFNQCINDKKIMDKIVNDKSLAINKLGITAVPIFFIKL 179


>pdb|3HJ6|A Chain A, Structure Of Halothermothrix Orenii Fructokinase (Frk)
 pdb|3HJ6|B Chain B, Structure Of Halothermothrix Orenii Fructokinase (Frk)
          Length = 327

 Score = 29.6 bits (65), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 19/41 (46%)

Query: 110 QRSKHFHFQVSTVYNGSAANTRFYSFLRTREANKSVCFYGC 150
           +RSK FH     +    A +T   +F   RE  K VCF  C
Sbjct: 143 KRSKVFHLSTFILSRKPARDTAIKAFNYAREQGKIVCFDPC 183


>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
           Rbc36 In Complex With H-Trisaccharide
          Length = 229

 Score = 29.6 bits (65), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 24  IKEVPEGMEMLENLVHLTIYSKMLIKFPAGILPKLCNL 61
           + E+P G+E L +L HL +    L   P G   +L +L
Sbjct: 124 LTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSL 161


>pdb|3F4R|A Chain A, Crystal Structure Of Wolbachia Pipientis Alpha-Dsba1
          Length = 226

 Score = 29.3 bits (64), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 51/107 (47%), Gaps = 14/107 (13%)

Query: 162 LPKDVQGLIMRDIEDVTSLNDVFSKEQGLVN--AAKFSHLKALWFSYCPNLQKLFSLQLL 219
            P D +GL          L+  + K++   N   A F+ + + W  Y  NL  L  LQ +
Sbjct: 82  FPLDYRGL------KAAMLSHCYEKQEDYFNFNKAVFNSIDS-WNYY--NLSDLTLLQRI 132

Query: 220 AALQNLEFLVVQSCNRNEEIVE--VNDEETQ-KELGISAITITLPRL 263
           AAL NL+      C  +++I++  VND+     +LGI+A  I   +L
Sbjct: 133 AALSNLKQDAFNQCINDKKIMDKIVNDKSLAINKLGITATPIFFIKL 179


>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
 pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
          Length = 272

 Score = 28.1 bits (61), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)

Query: 21  YTAIKEVPEGM-EMLENLVHLTIYSKMLIKFPAGILPKLCNLYSLRL 66
           +  ++ +P+G+ + L NL  L +    L   P G+  KL  L  LRL
Sbjct: 142 HNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188


  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
   0.318    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,345,727
Number of Sequences: 62578
Number of extensions: 342395
Number of successful extensions: 726
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 723
Number of HSP's gapped (non-prelim): 6
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)