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= 005076
         (715 letters)

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

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



>pdb|1E9L|A Chain A, The Crystal Structure Of Novel Mammalian Lectin Ym1
           Suggests A Saccharide Binding Site
 pdb|1VF8|A Chain A, The Crystal Structure Of Ym1 At 1.31 A Resolution
          Length = 377

 Score = 31.6 bits (70), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 329 IELEIESHLVNEARAVLNNSIEHSVEDDLREKEILYKKKDILTNELQKLLAL 380
           I+  + +HL+     + NN I ++ E DLR+ E L   KD  T EL+ LLA+
Sbjct: 25  IDPCLCTHLIYAFAGMQNNEITYTHEQDLRDYEALNGLKDKNT-ELKTLLAI 75


>pdb|1YVP|A Chain A, Ro Autoantigen Complexed With Rnas
 pdb|1YVP|B Chain B, Ro Autoantigen Complexed With Rnas
 pdb|1YVR|A Chain A, Ro Autoantigen
 pdb|2I91|A Chain A, 60kda Ro Autoantigen In Complex With A Fragment Of
           Misfolded Rna
 pdb|2I91|B Chain B, 60kda Ro Autoantigen In Complex With A Fragment Of
           Misfolded Rna
          Length = 538

 Score = 30.4 bits (67), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 33/98 (33%), Positives = 54/98 (55%), Gaps = 15/98 (15%)

Query: 311 SEEMEKWLASTEALEGRKIELEIESHLVNEARAVLNNSIEHSVEDDLREKEILYKKKDIL 370
           +E++ K+L +TE ++  K ELEI  HL++E R V     EH +   L+ KEI    K +L
Sbjct: 222 TEKVLKYLEATERVKRTKDELEI-IHLIDEYRLVR----EHLLTIHLKSKEIW---KSLL 273

Query: 371 TNELQKLLALVRDKEKEIAEN-----DSNIRAVEERIS 403
            +    L AL+R+  K  A++      S + +V ER++
Sbjct: 274 QD--MPLTALLRNLGKMTADSVLAPASSEVSSVCERLT 309


>pdb|3PR3|A Chain A, Crystal Structure Of Plasmodium Falciparum
           Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
           With Fructose-6-Phosphate
 pdb|3PR3|B Chain B, Crystal Structure Of Plasmodium Falciparum
           Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
           With Fructose-6-Phosphate
 pdb|3QKI|A Chain A, Crystal Structure Of Glucose-6-Phosphate Isomerase
           (Pf14_0341) From Plasmodium Falciparum 3d7
 pdb|3QKI|B Chain B, Crystal Structure Of Glucose-6-Phosphate Isomerase
           (Pf14_0341) From Plasmodium Falciparum 3d7
 pdb|3QKI|C Chain C, Crystal Structure Of Glucose-6-Phosphate Isomerase
           (Pf14_0341) From Plasmodium Falciparum 3d7
          Length = 597

 Score = 29.3 bits (64), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 14/81 (17%)

Query: 419 KYDSLQSIISQLNLESEAMSMKKKEIDKFL-----NDE--------VDRGTKLKELARVS 465
           +YD+L  IIS+    +E M +  + I K+L     +DE        V    KL +   +S
Sbjct: 240 QYDTLVIIISKTFTTAETM-LNARSIKKWLSLKIKDDENLSKHMVAVSTNLKLTDEFGIS 298

Query: 466 ADEAKEYWEVVELRRSLMSSI 486
            D   E+W+ V  R S+ SS+
Sbjct: 299 RDNVFEFWDWVGGRFSVTSSV 319


  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
   0.310    0.125    0.319 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,135,160
Number of Sequences: 62578
Number of extensions: 401377
Number of successful extensions: 1252
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 53
Number of HSP's that attempted gapping in prelim test: 1226
Number of HSP's gapped (non-prelim): 80
length of query: 715
length of database: 14,973,337
effective HSP length: 106
effective length of query: 609
effective length of database: 8,340,069
effective search space: 5079102021
effective search space used: 5079102021
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.8 bits)