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= 041440
         (237 letters)

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

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



>pdb|3KIH|A Chain A, The Crystal Structures Of Two Fragments Truncated From
          5-Bla Propeller Lectin, Tachylectin-2 (Lib2-D2-15)
 pdb|3KIH|B Chain B, The Crystal Structures Of Two Fragments Truncated From
          5-Bla Propeller Lectin, Tachylectin-2 (Lib2-D2-15)
 pdb|3KIH|C Chain C, The Crystal Structures Of Two Fragments Truncated From
          5-Bla Propeller Lectin, Tachylectin-2 (Lib2-D2-15)
 pdb|3KIH|D Chain D, The Crystal Structures Of Two Fragments Truncated From
          5-Bla Propeller Lectin, Tachylectin-2 (Lib2-D2-15)
 pdb|3KIH|E Chain E, The Crystal Structures Of Two Fragments Truncated From
          5-Bla Propeller Lectin, Tachylectin-2 (Lib2-D2-15)
          Length = 97

 Score = 31.6 bits (70), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 16/22 (72%)

Query: 17 YDSNTYVVQVPKDQIYRVPPPE 38
          +D N Y+  V KD++Y+ PPP+
Sbjct: 59 FDPNGYLYAVSKDKLYKAPPPQ 80


>pdb|1W5D|A Chain A, Crystal Structure Of Pbp4a From Bacillus Subtilis
 pdb|2J9P|A Chain A, Crystal Structure Of The Bacillus Subtilis Pbp4a, And Its
           Complex With A Peptidoglycan Mimetic Peptide.
 pdb|2J9P|B Chain B, Crystal Structure Of The Bacillus Subtilis Pbp4a, And Its
           Complex With A Peptidoglycan Mimetic Peptide
          Length = 462

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 18/26 (69%)

Query: 5   PVGSLDLTPEEDYDSNTYVVQVPKDQ 30
           P+ +L  +P EDYD+ T +V+V  +Q
Sbjct: 153 PISALTASPNEDYDAGTVIVEVTPNQ 178


>pdb|1TL2|A Chain A, Tachylectin-2 From Tachypleus Tridentatus (Japanese
           Horseshoe Crab)
          Length = 236

 Score = 28.5 bits (62), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 9/22 (40%), Positives = 15/22 (68%)

Query: 17  YDSNTYVVQVPKDQIYRVPPPE 38
           +D N Y+  V KD++Y+  PP+
Sbjct: 95  FDPNGYLYAVSKDKLYKASPPQ 116


>pdb|3IYG|D Chain D, Ca Model Of Bovine TricCCT DERIVED FROM A 4.0 ANGSTROM
           Cryo-Em Map
          Length = 518

 Score = 28.1 bits (61), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 100 VKNQSRPRYEFTMKV--KNPNENV-AISYENDGDAFXXXXXXXXASGKFPQLEQEGGDSR 156
           VK+  R   EF  K     P  +V   + +  G A          SGK  ++       +
Sbjct: 304 VKDIEREDIEFICKTIGTKPVAHVDQFTADMLGSAELAEEVSLNGSGKLIKITGCASPGK 363

Query: 157 NVRITLTGSNTVVPDEVSKSMHD 179
            V I + GSN +V +E  +S+HD
Sbjct: 364 TVTIVVRGSNKLVIEEAERSIHD 386


  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    0.134    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,608,533
Number of Sequences: 62578
Number of extensions: 249998
Number of successful extensions: 399
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 391
Number of HSP's gapped (non-prelim): 10
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)